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https://openalex.org/W4237426094
|
https://europepmc.org/articles/pmc3954389?pdf=render
|
English
| null |
Explantation of aortic infrarenal stent graft
|
Annals of the Royal College of Surgeons of England
| 2,012
|
cc-by
| 603
|
A technique for optimal manipulation of
rotation of the flexible ureterorenoscope G Ellis, S Pridgeon, S Graham
Whipps Cross University Hospital NHS Trust, UK G Ellis, S Pridgeon, S Graham
Whipps Cross University Hospital NHS Trust, UK CORRESPONDENCE TO
Stuart Graham, E: stuart@stuartgraham.com Figure 1 A Foley catheter is inserted through the stent graft
and placed in the suprarenal aorta, after which the balloon is
inflated. TECHNICAL SECTION TECHNICAL SECTION Figure 2 A second Foley catheter is passed through a limb of
the new graft. TECHNIQUE Pass a drill guide through the jig used for inserting proximal screws. Leave the drill guide in position against the limb. This can now be
used to align the C-arm. Position the C-arm distally and adjust its
position until it is parallel to the drill guide in its orbital and swivel
axis. This will give near perfect alignment to the distal locking holes. Finer adjustments may be needed under image intensifier guidance to
gain the final position. Once satisfactory alignment is achieved, insert
the distal screws as usual. BACKGROUND Three different types of movement are required to perform flexible
ureterorenoscopy: insertion/retraction, rotation and deflection of the
tip. Many trainee urologists struggle to manipulate the rotation of the
scope. We describe a technique for optimally controlling this rotation. end of the stent graft is extracted from the aorta. If another graft is
used, proximal anastomosis is carried out with the balloon inflated. To
complete the anastomosis a second Foley catheter is passed through
a limb of the new graft (Fig 2). While the original catheter is deflated
and removed, the second balloon is inflated in the suprarenal aorta
(Fig 3) and the anastomosis completed. Explantation of aortic infrarenal stent graft J Krysa, PR Taylor
Guy’s and St Thomas’ NHS Foundation Trust, UK J Krysa, PR Taylor
Guy’s and St Thomas’ NHS Foundation Trust, UK This technique has helped us to achieve proximal control during stent
graft explantation. A large Foley catheter is inserted through a discon-
nected limb of stent graft and placed in the suprarenal aorta. Infla-
tion of the balloon provides proximal control (Fig 1). The proximal Figure 3 The original catheter is deflated and removed, and
the second balloon is inflated in the suprarenal aorta. Figure 3 The original catheter is deflated and removed, and
the second balloon is inflated in the suprarenal aorta. Figure 1 A Foley catheter is inserted through the stent graft
and placed in the suprarenal aorta, after which the balloon is
inflated. ACKNOWLEDGEMENT We would like to thank James Clark for his help with the drawings. A technique for optimal manipulation of
rotation of the flexible ureterorenoscope DISCUSSION This simple technique is effective, saves time and reduces radiation
exposure to both the patient and surgeon. This technique is free as it
uses standard equipment that comes with the nail. Figure 2 A second Foley catheter is passed through a limb of
the new graft. Figure 2 A second Foley catheter is passed through a limb of
the new graft. Figure 2 A second Foley catheter is passed through a limb of
the new graft. Figure 3 The original catheter is deflated and removed, and
the second balloon is inflated in the suprarenal aorta. TECHNIQUE When performing ureterorenoscopy, the scope is extended in a straight
line (Fig 1) rather than held in a curved position (Fig 2). By applying When performing ureterorenoscopy, the scope is extended in a straight
line (Fig 1) rather than held in a curved position (Fig 2). By applying 365
Ann R Coll Surg Engl 2012; 94: 359–372 365 Ann R Coll Surg Engl 2012; 94: 359–372
|
https://openalex.org/W4390674781
|
https://www.qeios.com/read/P3DQEZ/pdf
|
English
| null |
Review of: "Synthesis and Antibacterial Screening of Cefradine Schiff Bases and Their Metal Salts"
| null | 2,024
|
cc-by
| 582
|
Review of: "Synthesis and Antibacterial Screening of
Cefradine Schiff Bases and Their Metal Salts" Jed Fisher1 1 University of Notre Dame Potential competing interests: No potential competing interests to declare. Ali et al. report the synthesis of the Schiff base condensation products of substituted benzaldehydes, acetophenone, and
benzophenone. These products are formulated successively as their sodium, potassium, silver, calcium, and barium salts
(with respect to the carboxylic acid of the cephem). The different salts were evaluated qualitatively for their antimicrobial
activity by disk diffusion assay against S. aureus and E. coli. All are less active than the parent. Some are inactive. •One prior Schiff base derivative of cefradine, with a 2-[[(2-hydroxyphenyl)methylene] substitution [CAS 879281-13-7], is
known in the literature. The bibliography cites correctly its first synthesis, but not a second manuscript reporting additional
microbiological data: Anacona, Juan R.; Marquez, Victoria. Latin American Journal of Pharmacy (2013), 32(6), 887-891. This specific structure was not re-synthesized by Ali et al. for use as a positive control. This failure is unfortunate. •The failure of the authors’ Scheme 1 to depict the stereochemistry of cefradine is not acceptable. The stereochemistry of
the imine was not determined for CAS 879281-13-7 from its synthesis by others. The imine stereochemistry of these new
structures also is not addressed. •The compounds of this manuscript are characterized by IR and 1H NMR. The 1H NMR data are interpreted superficially
(for example, the coupling constants of the coupled methine resonances of the beta-lactam are not given). The 1H NMR
spectra are not given for assessment of the compound purity. It is remarkable, given the low electrophilicity of the
benzophenone carbonyl, that imine formation is claimed for benzophenone, using the same reaction conditions (AcOH,
MeOH) as is successful with benzaldehyde (1H NMR data correct for 8?). The successful reaction of acetophenone is
also remarkable (albeit less so). More rigorous characterization of the ketone-derived imine structures would be highly
desirable. •An important aspect of the chemistry which is not discussed is the aqueous solubility of the salts. For example, while
monovalent (Na, K) salts are generally regarded as having aqueous solubility, divalent (Ba, Ca) salts are generally
regarded as insoluble in water. Here, it is a pleasant surprise for one of the more active structures (the 2-[[(4-
methoxyphenyl)methylene] imine) that its Ba and Ca salts (26, 27) are equally active to its sodium salt (23). Qeios, CC-BY 4.0 · Review, January 8, 2024 Qeios ID: P3DQEZ · https://doi.org/10.32388/P3DQEZ Review of: "Synthesis and Antibacterial Screening of
Cefradine Schiff Bases and Their Metal Salts" The claimed
complete inactivity of the potassium salt (24) is, however, inexplicable, especially since the Na and K salts of a different
imine (18, 19) are equally active. Specific comment as to the possibility of aqueous solubility/insolubility as an influencing
factor on the biological activity is desirable. •The terse conclusion statement—that the poorer microbiological activity of these imines reflects the unavailability of the Qeios ID: P3DQEZ · https://doi.org/10.32388/P3DQEZ 1/2 Qeios, CC-BY 4.0 · Review, January 8, 2024 (protonated) amine (presumably, for target recognition)—is unsatisfactory. Are these imines pro-drugs? The formation of
imine derivatives from related compounds, such as cephalexin, is not well explored. However, such structures appear in
the patent literature (for example, CAS 42286-22-6 & 67834-16-6) and are claimed as having antimicrobial activity. Does a
broader examination of Schiff base derivatives, such as these latter two cephalexin-derived structures, support the
assertion that the formation of these derivatives correlates strongly with the diminution of antimicrobial activity? Qeios ID: P3DQEZ · https://doi.org/10.32388/P3DQEZ 2/2
|
https://openalex.org/W4238982298
|
https://ejournal.up45.ac.id/index.php/maksipreneur/article/download/156/151
|
Indonesian
| null |
Motivasi dan Perilaku Konsumen dalam Keputusan Pembelian Produk Kerajinan Kulit di Yogyakarta
|
Jurnal Maksipreneur/Jurnal maksipreneur: manajemen, koperasi, dan entrepreneurship
| 2,014
|
cc-by
| 3,873
|
MOTIVASI DAN PERILAKU KONSUMEN
DALAM KEPUTUSAN PEMBELIAN
PRODUK INDUSTRI KERAJINAN KULIT
DI YOGYAKARTA Fakultas Ekonomi Universitas Proklamasi 45 Yogyakarta Abstract. Success in carrying out business activities can not be separated from
the marketing concept of customer satisfaction or customer priority . Likewise, the
leather industry in Yogyakarta . To achieve business success , must be able to
understand what motivates consumers to buy their products , including also
understand consumer behavior . The decision will purchase a product by the
consumer is influenced by various factors , both internal and external factors . Factors include cultural factors , social factors , Personal factors , psychological
factors which include motvasi , perception , knowledge and beliefs and attitudes
pendirian.Determine the factors that are considered by consumers to buy the
product , then the manufacturer will be able to determine the right strategy in
improving business . Keywords : motivation - behavioral consumer - purchasing decisions Dalam rangka meningkatkan perekonomian masyarakat di wilayah
Daerah Istimewa Yogyakarta dewasa ini telah terjadi perubahan tenaga
kerja dari sektor pertanian ke sektor industri kecil. Industri kecil yang
bertumpu pada tenaga kerja terlatih (train labour) akan mengalihkan
tenaga
kerja
dari
pekerjaan
yang
berupah
tinggi
dan
membantu
memecahkan
masalah-masalah
pengangguran
dan
kekurangan
kesempatan kerja yang serius di sektor pertanian. Daerah Istimewa Yogyakarta merupakan kota budaya yang memiliki
prospek cerah dalam meningkatkan produk non migas yaitu
sektor
industri kerajinan kulit yang merupakan komoditas khas budaya daerah. Adapun jenis kerajinan kulit yang dihasilkan antara lain berupa tas,
sepatu, dompet, ikat pinggang dan sebagainya. Sedangkan industri yang
bergerak di bidang perkulitan sangat beragam diantaranya, perusahaan
barang-barang
kulit,
perusahaan
kulit
sungging
atau
hiasan
dan
perusahaan sepatu. Potensi pasar dari industri kerajinan kulit di Daerah Istimewa
Yogyakarta
cukup
baik. Hal
ini
salah
satunya
disebabkan
oleh
Yogyakarta sebagai kota tujuan wisata, sehingga hasil dari industri
kerajinan kulit ini menjadi alternatif buah tangan wisatawan. Dalam
melakukan pembelian,
konsumen
dipengaruhi berbagai pertimbangan
baik faktor internal maupun faktor eksternal. Faktor tersebut meliputi
desain produk yang dihasilkan oleh pengrajin mengikuti modis
atau
tidak, harga yang ditawarkan
sebanding atau tidak dengan barang yang
dibeli konsumen,
kwalitas produk yang ditawarkan memenuhi kwalitas
yang
diinginkan,
awet
dan
kuat
serta
mudah
pemeliharaan
dan
penggunaannya, dll. Dalam industri kulit , pemasaran merupakan salah
satu kegiatan yang sangat penting , apalagi perusahaan tahu benar
tentang perilaku konsumen yang akan membelanjakan uangnya untuk
kerajinan kulit. Perusahaan harus memperhatikan faktor-faktor yang
mempengaruhi perilaku konsumen, yang meliputi : faktor budaya, faktor
sosial, faktor Pribadi, faktor Psikologis yang meliputi motvasi, persepsi,
pengetahuan dan kepercayaan dan sikap pendirian. Dalam ilmu ekonomi dikenal ada 3 teori motivasi yang dominan yang
ikut mempengaruhi pembentukan perilaku konsumen dalam keputusan
pembelian
suatu
produk. Ketiga
teori
tersebut
dikemukakan
oleh
Abraham Maslow, Sigmud Frued dan Frederick Herzbverg.(Philip Kotler
, 2005 : 196) Abraham Maslow mengemukakan pada dasarnya setiap manusia
dalam bertindak selalu didorong oleh kebutuhan tertentu dalam waktu
yang tertentu pula. Menurut Maslow kebutuhan manusia tersusun dalam
sebuah jenjang (hirarki) dari tingkatan yang paling mendesak hingga
yang kurang mendesak. Tingkatan kebutuhan tersebut adalah kebutuhan
fisiologis, kebutuhan akan rasa aman, kebutuhan sosial, kebutuhan akan
harga diri, kebutuhan pernyataan diri. Setiap orang berusaha untuk memuaskan kebutuhannya yang paling
mendasar, dan bila berhasil memenuhinya, maka hal itu bukan menjadi
pendorong pada waktu itu. Tetapi orang yang bersangkutan akan
didorong untuk memuaskan kebutuhan terpenting selanjutnya. Dari latar belakang tersebut permasalahanya adalah bagaimana
motivasi dan perilaku konsumen ibu rumah tangga dan karyawati dalam
pembelian produk kerajinan kulit di kota Yogyakarta serta adakah
perbedaan motivasi diantara keduanya. Ada perbedaan motivasi antara konsumen ibu rumah tangga dan
karyawati dalam pembelian produk industri kerajinan kulit. Sedangkan
teori
motivasi
Freud
menyatakan
bahwa
kekuatan
psikologis yang sebenarnya membentuk perilaku pembeli yang sebagian
besar berasal dari alam bawah sadar. Freud melihat bahwa seseoranga
menekan berbagai keinginan dan dorongan kebagian bawah sadar dalam
proses
menjadi
dewasa
dan
menerima
aturan
sosial
yang
ada
disekitarnya. Semua keinginan atau dorongan tersebut tidak pernah
terhapuskan atau terkendali secara sempurna. Di
lain
pihak,
Frederick
Herzberg
dalam
teori
motivasinya
mengembangkan apa yang dinamakan dengan ‘teori dua faktor’ yaitu
motivasi yang membedakan antara faktor-faktor yang menyebabkan ketidakpuasan dengan factor-faktor yang menyebabkan kepuasan. Teori
motivasi ini mengandung dua implikasi. Pertama,
para penjual perlu
berusaha untuk mencegah hal-hal yang tidak memuaskan konsumen. Kedua, produk perlu mengenal secara cermat faktor-faktor utama yang
memuaskan atau mendorong konsumen untuk membeli produk dari
produsen. Sedang perilaku konsumen dapat didefinisikan sebagai kegiatan-
kegiatan individu yang secara langsung terlibat dalam mendapatkan dan
mempergunakan barang-barang dan jasa-jasa. Termasuk di dalamnya
proses
penyembangan
keputusan
pada
persiapan
dan
penentuan
kegiatan tersebut ( Basu Swastha DH & T. Hani Handoko, 1993 : 9) Penelitian
ini
diharapkan
akan
memberikan
manfaat
sebagai
informasi kepada para pengrajin industri kulit tentang hal – hal yang
mempengaruhi konsumen dalam membeli kerajinan kulit, sehingga bisa
dijadikan bahan pengrajin untuk menyusun strategi perusahaan. Seluruh
aktifitas
perusahaan
pada
akhirnya
diarahkan
pada
pemikiran-pemikiran bagaimana suatu produk yang dihasilkan dapat
dirasakan sebagai suatu kebutuhan oleh konsumen. Bilamana perusahaan
membutuhkan produk dapat tercapai pada diri konsumen, maka secara
teoritis
dorongan
dan
motivasi
konsumen
akan
tercipta,
sehingga
timbullah tingkah laku yang diarahkan untuk memenuhi kebutuhan-
kebutuhan tersebut. Tujuan akhir dari aktifitas pemasaran tidak lain adalah untuk
memperhitungkan kemungkinan-kemungkinan yang sangat diperlukan
agar konsumen mau membeli hasil produksi perusahaan. Hal-hal yang
perlu
diperhatikan
agar
produk-produk
yang
dihasilkan
mencapai
sasaran adalah: a. Pasar
Perusahaan harus memperhatikan segmen pasar manakah yang akan
dituju, berapa kira-kira jumlah pembeli yang bisa dijangkau. Ini a. Pasar
Perusahaan harus memperhatikan segmen pasar manakah yang akan
dituju, berapa kira-kira jumlah pembeli yang bisa dijangkau. Ini a.
Pasar Perilaku pembeliannya dipengaruhi pula oleh beberapa
faktor
antara
lain
faktor
kebudayaan,
sosial,
pribadi
dan
psikologis.(Philip Kotler,2005 : 178) a.
Pasar Perusahaan harus memperhatikan segmen pasar manakah yang akan
dituju, berapa kira-kira jumlah pembeli yang bisa dijangkau. Ini penting sekali sebab menyangkut persoalan daya beli dan prestise
pembeli. Jangan sampai konsumen merasa mempunyai prestise yang
rendah. Oleh karena itu perlu ditimbulkan rasa bangga terhadap
produk perusahaan. Dengan demikian produk tersebut tidak hanya
merangsang tingkah laku pembeli dari kelas masyarakat tertentu,
tetapi juga dari kelas sosial lainpun akan mencoba memakai produk
tersebut guna mendapatkan prestise tertentu pula. b. Level pembeli yang mana yang akan dijangkau
Dalam
hal
ini
konsumen
perlu
dirinci
kedalam
faktor-faktor
pendidikan, pekerjaan atau jabatan. Dengan merinci target dari
konsumen tersebut maka promosi dari produk yang akan dipasarkan
dapat diarahkan dengan pasti. Dalam hal ini pengaruh psikologis
akan banyak berperan dibandingkan dengan pengaruh-pengaruh
lainnya. Misalkan dengan ditonjolkannya dalam promosi bahwa
produk tersebut digemari oleh masyarakat dari tingkat pendidikan
tinggi,
maka
secara
psikologis
demi
harga
diri
atau
respon
emosionalnya, tidak jarang pula orang yang mempunyai pendidikan
yang
lebih
rendah
akan
mengkonsumsinya
agar
merasa
diklasifikasikan sebagai orang yang berpendidikan tinggi. c. Kompetisi dengan produsen lain yang sejenis
Produsen harus memperhatikan apa yang telah dilakukan oleh
saingannya, misalnya di daerah mana saja pesaing mempunyai
aktifitas promosi yang sangat kuat, di daerah mana pemasaran
mereka dirasa akan melemah, keuntungan-keuntungan apa saja yang
ditonjolkan oleh pesaing dalam memasarkan produknya tersebut d. Kondisi pasar
Produsen perlu mengembangkan dan menyajikan produk-produk
dalam bentuk yang efisien. Perkembangan produk merupakan suatu
hal yang sangat penting, sebab apabila suatu produk tetap dalam
keadaan statis, maka secara psikologis dapat membuat konsumen
menjadi bosan. Bilamana suatu produk dirasa sudah membosankan,
maka kebutuhan konsumen tidak lagi terpenuhi secara sempurna,
sehingga berakibat kekecewaan. Hal ini secara tidak langsung akan
mempengaruhi tingkah laku pembeli, dan konsumen akan berpindah
membeli produk saingan yang sejenis. Dalam kaitannya
dengan keputusan untuk membeli dan memakai
produk
atau
jasa,
maka
pemahaman
akan
perilaku
konsumen
meliputi juga jawaban atas pertanyaan seperti; apa (what) yang dibeli,
dimana (where) membelinya, bagaiman (how) kebiasaannya membeli,
dan dalam keadaan apa barang-barang dan jasa dibeli. Sementara itu di lain pihak, dalam membuat keputusan
konsumen
tidak berada dalam suatu tempat yang terisolir dari lingkungan
sekitarnya. Perilaku pembeliannya dipengaruhi pula oleh beberapa
faktor
antara
lain
faktor
kebudayaan,
sosial,
pribadi
dan
psikologis.(Philip Kotler,2005 : 178) Sementara itu di lain pihak, dalam membuat keputusan
konsumen
tidak berada dalam suatu tempat yang terisolir dari lingkungan
sekitarnya. Titik sentral dari riset tentang motivasi sebagai keputusan pembelian
adalah
pencarian
jawaban
atas
pertanyaan
mengapa
tingkah
laku
manusia atau masyarakat tertentu dalam hal keputusan pembelian suatu
produk. Setiap riset yang berkenaan dengan tingkah laku pembeli
tersebut sangat penting dalam rangka membantu usaha mempengaruhi
pembeli dalam rangka merebut pasaran potensial. Dari uraian tersebut dapat dikatakan bahwa mempelajari pemasaran
pada dasarnya tidak lepas dari tingkah laku konsumennya. Sedangkan
untuk mengetahui latar belakang tingkah laku konsumen tersebut, tidak
lepas begitu saja tanpa mempelajari tentang motivasi. Motivasi itu sendiri
diartikan sebagai suatu dorongan
kebutuhan dan keinginan individu
yang diarahkan pada tujuan untuk memperoleh kepuasan. Motivasi
berhubungan
erat
dengan
kebutuhan. Konsekuensi
dari
hubungan
tersebut adalah bahwa keputusan harus dibangun atau dirangsang
sebelum motif. Sebab bukan tidak mungkin orang mempunyai kebutuhan
yang belum termunculkan dan kebutuhan seperti ini tidak cukup kuat
mengaktifkan perilakunya. Demikian
pula
halnya
dengan
keputusan
pembelian. Proses
pembentukan
keputusan
dalam
membeli
selalu
diawali
dengan
kebutuhan yang dirasakan. Suatu kebutuhan akan membangun motivasi
seseorang dalam bertindak untuk mencapai pemenuhan kebutuhan
tersebut. Perilaku
konsumen
sebagai
suatu
proses
yang
berupa
pengambilan keputusan dan kegiatan yang bersifat fisik, pada akhirnya
akan
melibatkan
individu
dalam
menilai,
ia
mendapatkan
dan
mempergunakan barang-barang dan jasa-jasa ekonomis. Secara garis
besar, terdapat kekuatan besar yang mempengaruhi perilaku konsumen,
yaitu kekuatan ekstern dan intern. Dalam penelitian ini industri kerajinan kulit dikategorikan
sebagai
kebutuhan sekunder dari konsumen, variabel yang
muncul sebagai
motivasi adalah harga,design dan kwalitas produk. Disamping motivasi
tersebut,
terdapat
pula
motivasi
dari
konsumen
yang
muncul
dikarenakan adanya rasa ketertarikan terhadap design yang diciptakan
oleh industri kerajinan kulit dan ketertarikan terhadap kualitas yang baik. Populasi dalam penelitian ini adalah wanita dewasa terdiri dari ibu-
ibu rumah tangga dan karyawati yang menggunakan kerajinan kulit
Yogyakarta yang berasal dari industri kerajinan kulit. Sedangkan metode
pangambilan sampel yang digunakan adalah convenien sampling. Penentuan sampel dengan menggunakan rumus: (Samsubar Saleh,
1998 : 161) Dengan standar eror 17.5%. dan standar deviasi ditentukan sebesar
satu, karena hal ini didasarkan pada tanggapan bahwa bila n menjadi
semakin besar sampai tak terhingga, maka standar deviasi sampel (s)
akan mendekati standar deviasi populasi (a) s=a, maka Data yang digunakan dalam penelitian ini meliputi data primer yaitu
yang diperoleh langsung dari sumbernya, diamati dan dicatat untuk
pertama kalinya.(Marzuki, 2002 : 54) dengan menggunakan interview dan
kuesioner . Sedang data sekunder yang digunakan diperoleh dari pihak
lain yang bukan diusahakan sendiri pengumpulannya oleh peneliti,
misalnya dari majalah-majalah, keterangan-keterangan atau publikasi
lainnya.(Marzuki, 2002 : 56) Analisis data yang digunakan dalam penelitian ini meliputi analisa
kwalitatif dan kwantitatif. Analisis kwantitatif menggunakan 3 macam analisa secara statistik
yaitu : a. Analisis rata-rata hitung atau mean (Sutrisno Hadi 1993 : 126) ,
digunakan untuk menjawab rumusan masalah yang pertama. a. Analisis rata-rata hitung atau mean (Sutrisno Hadi 1993 : 126) ,
digunakan untuk menjawab rumusan masalah yang pertama. Perhitungan
bobot
nilai
digunakan
dengan
skala
dengan
ketentuan sebagai berikut: Data yang diberi bobot nilai tersebut kemudian dikelompokkan
kedalam empat kelas interval,dengan kriteria : b. Analisis chi-kuadrat b. Analisis chi-kuadrat b. Analisis chi-kuadrat Hasil dari daftar pertanyaan responden, maka dapat dicari
perilaku konsumen terhadap produk dengan menggunakan rumus
statistik chi-kuadrat (Djarwanto PS, 1994 : 186) Keterangan: g
nij = frekuensi pengamatan dari baris i dan kolom j g
nij = frekuensi pengamatan dari baris i dan kolom j eij = frekuensi yang diharapkan dari baris i dan kolom j
i
= baris
j
= kolom Untuk mencari frekuensi yang diharapkan dari (eij) dihitung
dengan formula : Keterangan:
ni = jumlah baris i
nij = jumlah baris j
n
= jumlah sampel Kurva chi square distribution bisa digambar sebagai berikut: Langkah didalam menguji hipotesa dalam penelitian ini adalah
sebagai berikut: 1. Menentukan formulasi hipotesis nihil dan hipotesis alternatif: Ho : P1 = P2 = ...................................................... = pk (=P)
H1 : P1 ≠P2 = ...................................................... ≠pk (≠P) Ho = Tidak
ada perbedaan
motivasi konsumen
ibu rumah
tangga dan karyawati dalam pembelian produk kerajinan
kulit. H1 = Ada perbedaan motivasi konsumen ibu rumah tangga dan
karyawati dalam pembelian produk kerajinan kulit. H1 = Ada perbedaan motivasi konsumen ibu rumah tangga dan
karyawati dalam pembelian produk kerajinan kulit. 2. Dipilih level of significance tertentu 2. Dipilih level of significance tertentu 2. Dipilih level of significance tertentu 2. Dipilih level of significance tertentu 3. Kriteria pengujian
Ho diterima apabila : 2 ≤2 [ ;(r-1)(k-1)]
Ho ditolak apabila
: 2 > 2 [ ;(r-1)(k-1)] 3. Kriteria pengujian
Ho diterima apabila : 2 ≤2 [ ;(r-1)(k-1)]
Ho ditolak apabila
: 2 > 2 [ ;(r-1)(k-1)] 3. Kriteria pengujian
Ho diterima apabila : 2 ≤2 [ ;(r-1)(k-1)]
Ho ditolak apabila
: 2 > 2 [ ;(r-1)(k-1)] 4. Dari sampel yang diambil atau dari hasil pengamatan yang
dilakukan, kemudian dihitung nilai 2 dengan rumus : Keterangan:
i
=
1, 2 ………………… r
j
=
1, 2 ………………… k
nij
=
Actual frequency/observed frekuency
eij
=
Expected frekuency/teoritical frekuency nij
=
Actual frequency/observed frekuency j
q
y
y
eij
=
Expected frekuency/teoritical frekuency 5. Kesimpulan : Dengan membandingkan hasil perhitungan dalam langkah 4
dengan
kriteria
pengujian
langkah
3,
diambillah
suatu
kesimpulan, apakah Ho diterima atau ditolak. Dengan membandingkan hasil perhitungan dalam langkah 4
dengan
kriteria
pengujian
langkah
3,
diambillah
suatu
kesimpulan, apakah Ho diterima atau ditolak. Analisa ini digunakan untuk mengetahui ada tidaknya perbedaan
yang nyata dari dua variabel, atau tidak mengetahui hubungan yang
signifikan (meyakinkan) antara dua variabel. Atau
untuk
mengetahui
hubungan
yang
signifikan
(tidak
meyakinkan) antara dua variabel. (Zaenal Mustafa, 1995 : 92) Dengan rumus sebagai berikut : Kemudian
hasil perhitungan dibandingkan dengan
dalam tabel
statistik pada tingkat kebebasan tertentu. Bilamana harga hasil perhitungan penelitian ternyata lebih besar dari
harga
tabel, maka hal tersebut menyatakan bahwa Ho ditolak yang
artinya terdapat perbedaan dalam taraf yang meyakinkan antara variabel
yang satu dengan yang lain. Angket yang disebarkan pada responden semuanya berjumlah 175
eksemplar, dan yang kembali dalam keadaan utuh dan layak untuk
diteliti adalah sebanyak 125 eksemplar. Tabel 1
Kriteria Responden Berdasarkan Usia Tabel 1
Kriteria Responden Berdasarkan Usia Tabel 1
Kriteria Responden Berdasarkan Usia Tabel 1 Dari tabel tersebut menunjukkan bahwa responden berdasarkan usia
sebanyak 36 orang (28,8%) kelompok usia 18 – 23 tahun, sebanyak 28
orang ( 22,4%) kelompok usia 24 – 29 tahun dan 61 orang ( 48,8%) usia 30
tahun ke atas. Tabel 2. Kriteria Responden Berdasarkan Pekerjaan Tabel 2. Kriteria Responden Berdasarkan Pekerjaan Tabel 2. Berdasarkan tabel tersebut terlihat sebanyak 62 orang ( 49,6%)
responden berasal dari karyawati, 63 orang (50,4%) responden berasal
dari ibu rumah tanggaa. a. Yang Memberi Informasi Dalam Pembelian
Dalam analisa ini yang dimaksud yaitu pihak yang memberikan
informasi kepada responden untuk melakukan pembelian. Penulis
mengelompokkan
menjadi 4 (empat) macam
yang memberikan
informasi, yaitu : saudara, teman, iklan dan melihat di toko. Dari 125
responden disusun dalam suatu tabel sebagai berikut : Tabel 3. Pemberi informasi dalam pembelian Tabel 3. Pemberi informasi dalam pembelian Berdasar pada data tabel 3 bahwa 125 responden diketahui yang
memberikan informasi pembelian yang dilakukan oleh responden
karyawati dan ibu rumah tangga banyaknya sama yaitu 24% dari
saudara ada pada urutan kedua, 52% dari teman ada pada urutan
pertama, 16% dari iklan ada pada urutan ketiga, dan 8% dari melihat
di toko ada pada urutan keempat. b.
Yang Mempengaruhi Dalam Pembelian Mengenai siapa yang mempengaruhi respoden dalam melakukan
pembelian
penulis
mengemukakan
4
(empat)
faktor
yang
bisa
memberikan pengaruh pada respoden dalam perilaku pembeliannya. Keempat faktor tersebut adalah : Saudara, teman, iklan dan lain-lain. Data lengkap mengenai hal yang mempengaruhi responden dalam
pembelian ini dapat dilihat pada tabel 4 sebagai berikut : Tabel 4. Yang mempengaruhi dalam Pembelian Tabel 4. Dari data pada tabel 4 bahwa 125 responden yang mempengaruhi
dalam
pembelian
kerajinan
kulit
untuk
responden
karyawati
menunjukkan 56% dari teman ada pada urutan pertama, 19% dari iklan
ada pada urutan kedua, 17% dari saudara ada pada urutan ketiga, 8%
dari lain-lain urutan keempat. Untuk responden ibu rumah tangga 32%
dari saudara ada pada urutan pertama, prosentase sama sebesar 32% dari
teman ada pada urutan kedua, 24% dari iklan urutan ketiga dan 12% lain-
lain. Untuk menganalisa bagaimana motivasi konsumen terhadap produk
industri kerajinan kulit digunakan analisa rata-rata hitung dengan
menggunakan rumus sebagai berikut : Dalam memberikan skor jawaban responden
penulis menggunakan
bobot nilai yang tertera sebagai berikut : Tabel : Skor Jawaban Responden Tabel : Skor Jawaban Responden Berikut ini penilaian terhadap faktor-faktor motivasi responden dalam
pembelian produk industri kerajinan kulit. a.
Motivasi Responden Membeli Kerajinan Kulit Berdasarkan Harga Dari hasil pengumpulan data yang telah dilakukan terhadap 62
orang responden karyawati dan 63 orang responden ibu rumah
tangga yang bermotivasi membeli kerajinan kulit berdasarkan harga
diperoleh data sebagai berikut : Tabel 5. Tabel 5. Tabel 5. Motivasi Responden Membeli Kerajinan Kulit Berdasarkan Harga Motivasi Responden Membeli Kerajinan Kulit Berdasarkan Harga Dari tabel 5 dapat diketahui bahwa responden karyawati dalam
membeli produk kerajinan kulit mencapai nilai rata-rata 3,25 yang
berarti sangat kuat karena berada pada kelas interval 3,25 < M ≤4. Sementara itu untuk responden ibu rumah tangga dalam membeli
produk kerajinan kulit mencapai nilai rata-rata 3,53 yang berarti juga
sangat kuat karena berada pada kelas interval 3,25 < M ≤4. Jadi dapat
diperoleh jumlah responden karyawati dan ibu rumah tangga dalam
membeli produk kerajinan kulit mencapai nilai rata-rata hitung 3,25
yang berarti sangat kuat. Dengan demikian terdapat hubungan yang
sangat kuat antara motivasi dan kepuasan membeli produk kerajinan
kulit, khususnya berdasarkan harga. b. Motivasi Responden Membeli Kerajinan Kulit Berdasarkan Design Dari hasil pengumpulan data yang telah dilakukan terhadap 62
orang responden karyawati dan 63 orang responden ibu rumah
tangga yang bermotivasi membeli kerajinan kulit berdasarkan design
diperoleh data sebagai berikut : Tabel 6. Motivasi Responden Membeli Kerajinan Kulit Berdasarkan Design Dari tabel diatas dapat diketahui bahwa responden karyawati
dalam membeli produk kerajinan kulit mencapai nilai rata-rata hitung
2,84 dan untuk responden ibu rumah tangga dalam membeli produk
kerajinan kulit mencapai rata-rata hitung 3,11. Jadi dapat diperoleh
nilai rata-rata hitung untuk kedua responden 2,97. Keduanya berada
pada kelas “Setuju” atau kuat karena berada pada kelas interval 2,50 <
M ≤3,25. Dengan demikian menunjukkan bahwa ada hubungan yang kuat
antara motivasi dan keputusan membeli produk kerajinan kulit,
khususnya berdasarkan design. c.
Motivasi Responden Membeli Kerajinan Kulit Berdasarkan
Kualitas c. Dari hasil pengumpulan data yang telah dilakukan terhadap 62
orang responden karyawati dan 63 orang responden ibu rumah
tangga yang bermotivasi membeli kerajinan kulit berdasarkan kualitas
diperoleh data sebagai berikut : Tabel 7. Pengujian Hipotesis Motivasi Responden Karyawati dan Ibu
Rumah Tangga Berdasarkan kualitas c. Pengujian Hipotesis Motivasi Responden Karyawati dan Ibu
Rumah Tangga Berdasarkan kualitas Tabel 7. Motivasi Responden Membeli Kerajinan Kulit Berdasarkan Kualitas Motivasi Responden Membeli Kerajinan Kulit Berdasarkan Kualitas Dari tabel diatas dapat diketahui bahwa responden karyawati dalam
membeli produk kerajinan kulit mencapai nilai rata-rata hitung 2,68 dan
untuk responden ibu rumah tangga dalam membeli produk kerajinan
kulit mencapai rata-rata hitung 2,82. Untuk nilai rata-rata hitung secara
keseluruhan yaitu 2,75. Keduanya berada pada kelas interval 2,50 < M ≤
3,25 yang berarti kuat. Dengan demikian terdapat hubungan yang kuat antara motivasi dan
keputusan membeli produk kerajinan kulit, khususnya berdasarkan
kualitas. a. Pengujian Hipotesis Motivasi Responden Karyawati dan Ibu
Rumah Tangga Berdasarkan Harga
Tabel 8. Penilaian Motivasi Responden Karyawati dan Ibu Rumah Tangga
Berdasarkan Harga a. Pengujian Hipotesis Motivasi Responden Karyawati dan Ibu
Rumah Tangga Berdasarkan Harga Tabel 8. Penilaian Motivasi Responden Karyawati dan Ibu Rumah Tangga
Berdasarkan Harga Tabel 8. Tabel 8. Penilaian Motivasi Responden Karyawati dan Ibu Rumah Tangga
Berdasarkan Harga Berdasarkan pada tabel diatas dapat dicari atau diuji hipotesis
perbedaan motivasi responden dalam pembelian produk kerajinan
kulit. Menggunakan level of significance (a) 0,05, maka dapat diperoleh
kai -kwadrat tabel sebesar 7,851, sedang
kai-kwadrat hitung sebesar
1,084 . Karena kai-kuadrat hitung lebih kecil dari kai-kuadrat tabel,
maka Ho diterima. Dengan demikian dapat disimpulkan bahwa tidak
ada perbedaan motivasi dari sisi harga antara karyawati dan ibu
rumah tangga dalam pembelian produk kerajinan kulit. b. Pengujian Hipotesis Motivasi Responden Karyawati dan Ibu
Rumah Tangga Berdasarkan Design Pengujian Hipotesis Motivasi Responden Karyawati dan Ibu
Rumah Tangga Berdasarkan Design
Tabel 9
Penilaian Motivasi Responden Karyawati dan Ibu Rumah Tangga
Berdasarkan Design Tabel 9
Penilaian Motivasi Responden Karyawati dan Ibu Rumah Tangga
Berdasarkan Design Berdasarkan
tabel diatas
diuji hipotesis
perbedaan
motivasi
responden dalam pembelian produk kerajinan kulit. Menggunakan level of significance (a) 0.05, diperoleh kai-kwadrat
tabel sebesar 7.851,
kai-kwadarat hitung sebesar 5,9682. Karena kai-
kwadrat
hitung lebih kecil
dari kai-kwadrat
tabel berarti HO
diterima. Dengan demikian dapat disimpulkan bahwa tidak ada
perbedaan motivasi dari sisi design antara karyawati dan ibu rumah
tangga dalam pembelian produk kerajinan kulit. c. Pengujian Hipotesis Motivasi Responden Karyawati dan Ibu
Rumah Tangga Berdasarkan kualitas
Tabel 10
Motivasi Responden Karyawati dan Ibu Rumah Tangga
Berdasarkan Design
S
b
D t P i
di l h c. Pengujian Hipotesis Motivasi Responden Karyawati dan Ibu
Rumah Tangga Berdasarkan kualitas
Tabel 10
Motivasi Responden Karyawati dan Ibu Rumah Tangga
Berdasarkan Design
Sumber : Data Primer yang diolah c. c.
Pengujian Hipotesis Motivasi Responden Karyawati dan Ibu
Rumah Tangga Berdasarkan kualitas Tabel 10
Motivasi Responden Karyawati dan Ibu Rumah Tangga
Berdasarkan Design
S
b
D
P i
di l h Tabel 10
Motivasi Responden Karyawati dan Ibu Rumah Tangga
Berdasarkan Design Sumber : Data Primer yang diolah Berdasarkan tabel 10 dapat dicari atau diuji hipotesis perbedaan
motivasi responden dalam pembelian produk kerajinan kulit. Menggunakan level of significance (a) 0.05, maka dapat diperoleh
kai -kwadrat
tabel sebesar 7.851, sedang kai-kwadrat hitung 6,519. Karena kai-kuadrat hitung lebih kecil dari kai-kuadrat tabel, maka HO
diterima. Dengan demikian dapat disimpulkan bahwa tidak ada
perbedaan motivasi dari sisi kualitas antara karyawati dan ibu rumah
tangga dalam pembelian produk kerajinan kulit. 1. Dari analisa perilaku konsumen dapat disimpulkan bahwa yang
memberikan
informasi
dalam
pembelian
kerajinan
kulit
Yogyakarta sebanyak 24% dari saudara, 52% dari teman, 16% dari
iklan, dan 18% melihat ditoko. 2. Berdasarkan kelompok responden
karyawati menunjukkan
sebanyak 56% dari teman, 19% dari iklan, 17% dari saudara, dan
8% dari lain-lain. Sedangkan berdasarkan kelompok ibu rumah
tangga menunjukkan 32% dari saudara, prosentase sama sebesar
32% dari teman, 24% dari iklan dan 12% dari lain-lain. 3. Motivasi konsumen
berdasarkan harga ditunjukkan mean 3,53
yang berarti motivasi sangat kuat. 3. Motivasi konsumen
berdasarkan harga ditunjukkan mean 3,53
yang berarti motivasi sangat kuat. 4. Motivasi konsumen
berdasarkan design menunjukkan mean 2,97
yang berarti motivasi kuat. 5. Motivasi konsumen
berdasarkan kualitas menunjukkan Mean
yaitu 2,75 yang berarti kuat. 6. Tidak ada perbedaan motivasi antara karyawati dan ibu rumah
tangga dalam membeli kerajinan kulit dari faktor harga, design
dan kwalitas. 1. Motivasi konsumen dalam
membeli produk kerajinan kulit
Yogyakarta, faktor harga merupakan motivasi yang sangat kuat
sehingga pengrajin perlu memperhatikan besarnya harga jual
yang bisa terjangkau . 2. Motivasi
konsumen
dalam
membeli
produk
kerajinan
kulit
Yogyakarta, berdasarkan design dan kwalitas
merupakan
motivasi yang kuat, hal ini menunjukan
bahwa design produk
dan kwalitas juga harus selalu menjadi perhatian perusahaan
kulit. 3. Motivasi konsumen baik karyawati maupun
ibu rumah tangga
tidak ada perbedaan, berarti produk kerajinan kulit dengan
segmen ini tidak perlu dibedakan baik dari sisi harga, design
maupun kwalitas. Swasta Basu,DH & Handoko Hani,T, 1993, Manajemen Pemasaran, Analisis
Perilaku Konsumen, Liberty, Yogyakarta. Subagiyo Pangestu & P.S.Jarwanto, 1994, Statistik Induktif, edisi ke-2,
BPFE, Yogyakarta. Marzuki, 2002, Metodologi Riset, Bagian Penerbitan Fakultas Ekonomi UII,
Yogyakarta, Edisi II Kotler Philip, 2005, Manajemen Pemasaran¸ 1995, Edisi Pertama, Cetakan
Pertama BPFE UGM, Yogyakarta. Saleh Samsubar, 1996, Statistik Induktif,
Unit Penerbit dan Percetakan
AMP YKPN, Edisi I, Cetakan I. Hadi
Sutrisno,
1993,
Metodologi
Research,
jilid
ke-3
Andi
Offset,
Yogyakarta. Mustafa Zaenal, 1995, Pengantar Statistik Terapan Untuk Ekonomi. Cetakan
II, Bagian Penerbit Fakultas Ekonomi UII, Yogyakarta.
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Research on the Design of the General Hospital Wayfinding and Signage System based on the Universal Design Concept - A Case Study of the Second Affiliated Hospital of Nanchang University
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1
Introduction Universal design is produced on the basis of barrier-free
design and is an extension of the human-oriented concept. It refers to the design of the environment, products and
services that can be used by anyone without special
design or adjustment[1]. It is not designed specifically for
a certain kind of people, and it is not influenced by the
economy, education, status, ability and other factors. It is
a comprehensive design to truly realize the equality of all
people. Children, adults, the elderly and people with
disabilities can all benefit from it. Universal design has
the characteristics of inclusiveness, convenience, comfort
and flexibility. It is applicable to all fields and all people. It covers most groups and integrates individual
differences. It is additive design, which can meet people’s
more accurate and simple use requirements, and make
visual, tactile, auditory and other effects better. Hospital is a place closely related to people. In recent
years, the medical environment and service level in our
country have gradually increased. For a general hospital,
the flow of people is large, the action line is complex,
and there are many medical procedures. In order to get
treatment safely, quickly and effectively, the wayfinding
and signage system must be clear, scientific and
humanized. The earliest research on hospital wayfinding
and signage system in China dates back to 2004 when the
research was mainly about the aspects of humanistic care,
interest and functionality. For example, Fu Tiantian, from Research on the Design of the General Hospital Wayfinding and
Signage System based on the Universal Design Concept - A
Case Study of the Second Affiliated Hospital of Nanchang
University Xinbo Shen1,*, Min Li1 and Lei Yu1
1Art College, Jiangxi University of Finance and Economics, Nanchang City, Jiangxi Province, 330013, China 1Art College, Jiangxi University of Finance and Economics, Nanchang City, Jiangxi Province, 3 Abstract. With the continuous improvement of the medical level in China, the quality of hospital service
and the environment have attracted people’s attention. The hospital is a place with relatively dense
population, and the general hospital consists of a number of departments with complicated procedures and
staggered routes. In order to improve the efficiency of medical treatment, stabilize the mood of patients, and
respond to the call of establishing a human-oriented hospital, it is particularly important to design a
reasonable and comprehensive hospital wayfinding and signage system. In this paper, the universal design
concept and principles which are more suitable for everyone are applied to the hospital wayfinding and
signage system. Through the field investigation of the Second Affiliated Hospital of Nanchang University,
the author analyzes the problems and sums up the design criteria which are suitable for the hospital
wayfinding and signage system. the Qilu University of Technology, put forward the
method, principle and implementation of the design of
hospital wayfinding and signage system based on human
in Research on “Human-oriented” Design in Visual
Wayfinding and Signage System of Hospital. Chen Le,
from Anhui University of Engineering finished the
Research on the Individualized Design of Modern
Medical Environment Wayfinding and Signage System. In this paper, he explores the methods, processes and
principles of hospital individualized design, and makes
case analysis of municipal hospitals, which involves less
universal design theory. Through field and literature
research, together with analysis and induction, the author
mainly analyzes the deficiencies of the wayfinding and
signage system of the general hospital - the Second
Affiliated Hospital of Nanchang University. The
universal design is used to optimize its wayfinding and
signage system, to improve the difficulty of people’s
medical treatment caused by the lack and confusion of
wayfinding and signage, to enable patients to arrive at the
destination clearly, quickly and accurately, to improve
the service quality and image of the hospital, and to
provide reference for the design and application of the
wayfinding and signage system of the general hospital. https://doi.org/10.1051/e3sconf/202017902058 https://doi.org/10.1051/e3sconf/202017902058 E3S Web of Conferences 179, 02058 (2020)
EWRE 2020 © The Authors, published by EDP Sciences. This is an open access article distributed under the terms of the Creative Commons Attribution
License 4.0 (http://creativecommons.org/licenses/by/4.0/). *Corresponding author e-mail: 870664319@qq.com 2.1. Concept of general hospital wayfinding and
signage system more standardized, avoid the waste of resources, and
make the division of labor in the design process clearer. The general hospital has a wide range of targeted patients
which sets up a number of specialized projects composed
of internal and external, traditional Chinese and western
medical departments with its sections focusing on
maternal and child, ear, nose and throat[2]. The
wayfinding and signage system of the hospital is a
wayfinding and signage system that uses the physical
properties of materials and colors, as well as various text
and graphic signs to guide the logistics and people flow
within or around the hospital[3]. A good, standardized
and human-oriented hospital wayfinding and signage
system can guide patients and their families to find their
way quickly and accurately. It can also guide patients to
see a doctor in time with the improving working
efficiency of medical staff, and stabilizing the working
order of the hospital. It is an essential hardware facility of
the hospital as well as a miniature of the image of the
hospital. 2
The wayfinding and signage
system of general hospital and its
classification *Corresponding author e-mail: 870664319@qq.com *Corresponding author e-mail: 870664319@qq.com E3S Web of Conferences 179, 02058 (2020)
EWRE 2020 https://doi.org/10.1051/e3sconf/202017902058 3
Problems in the wayfinding and
signage system of the Second Affiliated
Hospital of Nanchang University 3 The Second Affiliated Hospital of Nanchang University
is a comprehensive 3A hospital in Jiangxi Province,
which integrates medical treatment, scientific research
and rehabilitation. It has more than 2000 beds and 51
departments. It is mainly divided into three main
buildings: outpatient department complex building,
inpatient department and physical examination building,
as well as canteen and office building. Its large scale and
complex distribution highlight the importance of a proper
guide wayfinding and signage system. Based on the field
investigation of the Second Affiliated Hospital, the
author finds out the problems in the practical application
of the wayfinding and signage system, which are
summarized as follows: 3.1. The imperfect wayfinding and signage
system and the lack of planning Accurate information classification is the key to the
establishment of hospital wayfinding and signage system. In the document Code for Architectural Design of
General Hospitals issued by China, it clearly points out
that the hospital wayfinding and signage system is
divided into four levels: (1) the first-level wayfinding and
signage system: it is mainly the wayfinding and signage
outside hospitals or on the building including building
name, entrance and exit, together with general layout,
road diversion, public service, and the overall image and
other signs; (2) the second-level wayfinding and signage
system: it mainly includes channel and floor sign,
including index and plan of each floor, guidance of step
elevator, expert column, visit form, entrance and exit, etc;
(3) the third-level wayfinding and signage system: it
mainly involves the sign of functional areas, including
the sign of medical care, administrative logistics and
other units; (4) the forth-level wayfinding and signage
system: it mainly refers to room window and doorplate,
including each ward, sickbed, department and other
doorplate window plates. The classification of hospital
wayfinding and signage system can make the system A complete, standardized and integrated wayfinding and
signage system plays an important role in the complex
hospital environment. If the system fails to perform the
function, patients and their families are unable to get
information signs and will be left in confusion. There is
no standard wayfinding and signage system inside and
outside the Second Affiliated Hospital, which is mainly
reflected in the disordered and crowded wayfinding sign
and its irregular placement. Some specific hints are not
given. The
signs
of
outpatient
department,
comprehensive building and inpatient department are
blue, while the physical examination area of female
guests in the physical examination building is red, and
the radiotherapy area is green, ‘figure 1’; there is only a
simple planar graph in the entrance of the hospital instead
of index plan of the whole hospital. There is no any floor
guidance in the physical examination building and the
comprehensive building; some signs are placed on the
ground or near stairway in disorder without standard size
or forms, ‘figure 2’. Also, the warning sign is inadequate
and fuzzy, which is not easy to find in walking. Figure 1. The wayfinding and signage system of female physical examination area and radiotherapy area in the physical
examination building of the Second Affiliated Hospital of Nanchang University. 3.4. Lack of human-oriented awareness The aging of our country is gradually increasing with
more and more people suffering from disability and color
blindness. For the special group of people, the hospital
wayfinding
and
signage
system
should
be
human-oriented
and
comprehensive. The
Second
Affiliated Hospital is a large-scale comprehensive
hospital located in the center of the city, consisting of a
large number of people who live in counties, districts and
towns. Each of them has a different education level. However, the hospital does not provide illiterate signs for
people with limited literacy; as a special group, most of
the children are afraid when seeking medical treatment,
but the design of the signs for pediatrics lacks interest
and flexibility, which is not helpful for children to
overcome anxiety in diagnosis and treatment. The tactile
signs for disabled patients and some signs for wheelchair
users are not offered in the hospital, such as the specific 3.1. The imperfect wayfinding and signage
system and the lack of planning nding and signage system of female physical examination area and radiotherapy area in the physical
examination building of the Second Affiliated Hospital of Nanchang University. Figure 1. The wayfinding and signage system of female physical examination area and radiotherapy area
examination building of the Second Affiliated Hospital of Nanchang University. 2 2 E3S Web of Conferences 179, 02058 (2020)
EWRE 2020 https://doi.org/10.1051/e3sconf/202017902058 Figure 2. The ground wayfinding and signage system of the inpatient department and multi-functional building of the
Second Affiliated Hospital of Nanchang University. process of medical treatment is not considered in the
setting of signs Figure 2. The ground wayfinding and signage system of the inpatient department and multi-functional building of the
Second Affiliated Hospital of Nanchang University. process of medical treatment is not considered in the
i
f i Figure 2. The ground wayfinding and signage system of the inpatient department and multi-functional building of the
Second Affiliated Hospital of Nanchang University. process of medical treatment is not considered in the
setting of signs. process of medical treatment is not considered in the
setting of signs. 3.3. Lack of aesthetics and design sense Unnecessary
troubles
can
be
prevented
with
appropriately located signs and clear directions when
people seek medical treatment. The problems of the
Second Affiliated Hospital appear are mainly reflected in
the fact that patients are difficult in finding the
designated area because of unclear signs. For example,
when one go to pediatrics obeying the sign, he will get to
surgery; besides, the location of some signs are too high,
such as department wayfinding and signage, floor
guidance at stairs and the guidance of inpatient
department, whereas some outdoor wayfinding and
signage are so lower to the ground that vehicle can easily
block them, making these signs inconvenient to identify;
in addition, there are no signs in the places where the
flow of people is large and chaos is easy to cause, and the The hospital’s wayfinding and signage system should not
only be intuitive and clear, but also pay attention to the
combination of the three elements of graphics, color and
text so as to show the aesthetic sense and significance of
the wayfinding and signage. The problems of the Second
Affiliated Hospital are mainly reflected on the facts that
some fonts are too small to recognition, especially when
the fonts are all in bold type without distinction; the
wayfinding and signage on the graphics are often arrows,
and the logo patterns are international style without
unique graphic signs or creativity, ‘figure 3’; although
most of the colors are blue, they are in different shades
and some parts are even red and green, which are in
disorder and lack aesthetics. p
p
g
y
Figure 3. The wayfinding and signage system of the outpatient departments of the Second Affiliated Hospital of
Nanchang University. 4. Lack of human-oriented awareness
height and proportion of corridors and elevators, making
people difficult to get accurate information of the
wayfinding and signage. Figure 3. The wayfinding and signage system of the outpatient departments of the Second Affiliated Hospital of
Nanchang University. 4. Lack of human-oriented awareness
height and proportion of corridors and elevators, making
people difficult to get accurate information of the
wayfinding and signage. 4
Universal design of the wayfinding
and signage system of the Second
Affiliated Hospital of Nanchang
University Although the wayfinding and signage system of the
Second Affiliated Hospital has played a guiding role in
reality, there are still many problems to be improved. The
design of wayfinding and signage system in hospital is
complicated. It is not easy to adapt to different groups of
people and to be used by all people. Therefore, it is
necessary to apply the universal design theory to solve
the problem of wayfinding and signage system, and fully
consider the needs and psychology of all kinds of people. Based on the literature review and the analysis of the
problems of the wayfinding and signage of the Second 3 https://doi.org/10.1051/e3sconf/202017902058 E3S Web of Conferences 179, 02058 (2020) E3S Web of Conferences 179, 02058 (2020)
EWRE 2020 Affiliated Hospital, three principles for the design of the
wayfinding and signage system of the hospital are
summarized: Affiliated Hospital, three principles for the design of the
wayfinding and signage system of the hospital are
summarized: Considering the complexity of the hospital population,
corresponding signs should be set up at home and abroad
to meet different needs for old children, defective
patients and family members, medical staff, etc. The
book Design in Design written by Kenya Hara refers to
the theory of “five senses” that integrates vision, touch,
hearing, smell and taste into the design[5], which can
transmit information in various ways, allowing people to
look up information from different aspects, and add voice
and Braille prompts to the literal wayfinding and signage. When using the wayfinding and signage, the adjustment
of people’s actions should be reduced as much as
possible, with more attention to the safety, and the
appearance of sharp and fragile materials shall be
avoided. Also, information in the dangerous area should
be put noticeably and the risk coefficient should be
reduced. Green design has gradually become the
mainstream. Hospital wayfinding and signage can be
made of environmental friendly materials instead of
traditional materials, which are durable, recyclable,
cost-effective, and easy to change. Moreover, they can
transmit emotions through the selection and use of
materials. For example, Meitian hospital, a Japanese
specialized hospital for women and children breaks
through the traditional concept of industrial materials and
uses soft white pure cotton cloth to make signs in shape
of everyday products. In this way, affinity is increased,
fear eliminated, a clean, warm and comfortable image of
the hospital displayed[6]. 5
Conclusion The service quality of the hospital has been a prior
concern in the life of the public. A well-established
hospital wayfinding and signage system helps to save
more time in saving patients’ lives and provide
convenience
for
medical
treatment. The
Second
Affiliated Hospital of Nanchang University is a 3A
comprehensive hospital with many departments, complex
processes and transportation, and it also undertakes
various duties like high-level medical treatment,
scientific research, practical teaching and other tasks. This paper summarizes the existing problems of the
Second Affiliated Hospital’s wayfinding and signage
system, such as lack of planning and unreasonable setting. The paper applies the universal design theory to real
problems and puts forward three principles for
improvements which can promote practical problems
such as humanization and systematization with the
explanation of relevant concepts. The author hopes the
paper serves as a reference for the design of similar
hospitals’ wayfinding and signage systems. 4.1. Integration and rationalization The wayfinding and signage system of the hospital shall
be complete and systematic, conform to the relevant
national standards, and the wayfinding and signage of all
regions and types shall be unified, and be consistent with
the hospital's own culture and style, such as the font size,
font, spacing and typesetting of the characters, and the
color system, material, form, layout, size, location and
graphic design of the signs at all levels shall be unified,
concise and beautiful. Besides, the identification of
special prompt shall be obvious. The setting of
wayfinding and signage should be clearly divided into
four levels, so that patients can be guided to each
functional area according to the indoor and outdoor
wayfinding and signage. On this basis, the scale of signs
at all levels should also be reasonably set, taking into
account the spatial relationship, floor height, visual
comfort of people in different postures and body shapes. For example, Budapest Airport has set up a series of
special reasonable signs beside the normal size signs to
remind wheelchair users and children. 4
Universal design of the wayfinding
and signage system of the Second
Affiliated Hospital of Nanchang
University Such signs are designed from
the perspective of human care. 4.2. Easy to distinguish with accuracy The perfect layout of hospital wayfinding and signage
shall be accurate. According to the flow of people,
medical treatment process and building characteristics,
the appropriate placement position, size and frequency
shall be calculated to avoid the absence of signs and the
occlusion caused by height. The ground, wall, ceiling and
other forms shall be selected at the reasonable position to
enhance the clarity. The medical wayfinding and signage
system should be in consistency and relevance. It is
necessary to set up corresponding bifurcated wayfinding
and signage at the turning of the intersection and special
areas[4], such as elevator stairs, entrances and exits, so as
to prevent the delay of diagnosis and treatment due to
route deviation, ensure the accuracy of orientation and
information, and indicate the destination. Secondly, the
information of logo should be well arranged according to
importance. Also,
when
typesetting,
important
information should be highlighted, omitting unnecessary
details. Chinese and English words should be used
accurately. Graphics should be matched with words. The
size, proportion, color and brightness of light should be
compared. The visual background should be simple and
intuitive, easy to understand and reduce confusion caused
by ambiguous content. References The human-oriented medical service is improved
constantly in which patients are regarded as the center of
the hospital. The hospital wayfinding and signage system
designed for people can optimize the service level and
improve the diagnosis and treatment environment. 1. Zeng, L.X., Jiang, X. (2014) Concept analysis of
universal
design. CAD
/
CAM
and
Manufacturing Informatization, 7: 25-26. 4 E3S Web of Conferences 179, 02058 (2020)
EWRE 2020 https://doi.org/10.1051/e3sconf/202017902058 2. Chu, L.F. (2005) Research on the design of
wayfinding sign recognition system of general
hospital. Jiangnan University, 8-9. g
y
3. Wang, W.Z. (2013) Research and design of Z
Hospital wayfinding and signage system . Hebei
University of Technology, 12-13. y
gy
4. Wang, L. (2007) Research on humanized design
of medical wayfinding and signage system. Hefei
University of Technology, 24-25. y
gy
5. Kenya, H. (2006) Design in Design. Shandong
People's Publishing House, Jinan. 6. Li, G., Li, W.Y. (2015) Analysis of emotional
design in Meitian Hospital’s wayfinding and
signage system. Design, 1: 92-93. 7. Li, M. (2015) Research on the design method of
urban
public
environment
wayfinding
and
signage system - Taking Matsushan City, Japan
as an example. New arts, 5: 120-124. 8. Li, M. (2014) Research on the design of urban
public environment wayfinding and signage
system. New arts, 7: 109-110. 9. Li, M., Hu, Y. (2012) Research on the design
method of urban wayfinding and signage system. New arts, 5: 68-72. 10. Wu, X.X. (2015) Design and research on
passenger flow wayfinding and signage system of
medical institutions. Donghua University, 45-47. 5 5
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Alternative Brain Slice-on-a-Chip for Organotypic Culture and Effective Fluorescence Injection Testing
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Citation: Herreros, P.; Tapia-González,
S.; Sánchez-Olivares, L.; Laguna Heras,
M.F.; Holgado, M. Alternative Brain
Slice-on-a-Chip for Organotypic
Culture and Effective Fluorescence
Injection Testing. Int. J. Mol. Sci. 2022,
23, 2549. https://doi.org/10.3390/
ijms23052549 Academic Editors: Bruce Milthorpe,
Loredana De Bartolo,
Antonella Piscioneri and
Seeram Ramakrishna
Received: 21 December 2021
Accepted: 23 February 2022
Published: 25 February 2022 Keywords: microfluidics; organ-on-a-chip; brain slice; fluorescence imaging; cell labelling Article
Alternative Brain Slice-on-a-Chip for Organotypic Culture and
Effective Fluorescence Injection Testing Pedro Herreros 1,2
, Silvia Tapia-González 3,4,5
, Laura Sánchez-Olivares 1, María Fe Laguna Heras 1,2,6
and Miguel Holgado 1,2,6,* 1,2
, Silvia Tapia-González 3,4,5
, Laura Sánchez-Olivares 1, María Fe Laguna Heras 1,2,6
1 2 6 1
Group of Optics, Photonics and Biophotonics (GOFB), Center for Biomedical Technology,
Universidad Politécnica de Madrid, 28223 Pozuelo de Alarcon, Spain; pedro.herreros@ctb.upm.es (P.H.);
laura.sanchezo@estudiante.uam.es (L.S.-O.); mariafe.laguna@upm.es (M.F.L.H.) 1
Group of Optics, Photonics and Biophotonics (GOFB), Center for Biomedical Technology,
Universidad Politécnica de Madrid, 28223 Pozuelo de Alarcon, Spain; pedro.herreros@ctb.upm.es (P.H.);
laura.sanchezo@estudiante.uam.es (L.S.-O.); mariafe.laguna@upm.es (M.F.L.H.) 2
Group of Organ and Tissue on-a-Chip and In-Vitro Detection, Health Research Institute of the Hospital
Clínico San Carlos, 28040 Madrid, Spain 3
Departamento de Neurobiología Funcional y de Sistemas, Instituto Cajal, CSIC, 28002 Madrid, Spain;
silvia.tapia@ctb.upm.es 3
Departamento de Neurobiología Funcional y de Sistemas, Instituto Cajal, CSIC, 28002 Madrid, Spain;
silvia.tapia@ctb.upm.es 4
Laboratorio Cajal de Circuitos Corticales (CTB), Universidad Politécnica de Madrid, 28223 Madrid, Spain
5
Centro de Investigación Biomédica en Red sobre Enfermedades Neurodegenerativas (CIBERNED), ISCIII, 4
Laboratorio Cajal de Circuitos Corticales (CTB), Universidad Politécnica de Madrid, 28223 Madrid, Spain
5
Centro de Investigación Biomédica en Red sobre Enfermedades Neurodegenerativas (CIBERNED) ISCIII 4
Laboratorio Cajal de Circuitos Corticales (CTB), Universidad Politécnica de Madrid, 28223 Madrid, Spain
5
Centro de Investigación Biomédica en Red sobre Enfermedades Neurodegenerativas (CIBERNED), ISCIII,
28031 Madrid, Spain
6 6
Department of Applied Physics and Materials Engineering, Escuela Técnica Superior de Ingenieros
Industriales, Universidad Politécnica de Madrid, 28006 Madrid, Spain Abstract: Mouse brain slices are one of the most common models to study brain development and
functioning, increasing the number of study models that integrate microfluidic systems for hippocam-
pal slice cultures. This report presents an alternative brain slice-on-a-chip, integrating an injection
system inside the chip to dispense a fluorescent dye for long-term monitoring. Hippocampal slices
have been cultured inside these chips, observing fluorescence signals from living cells, maintaining
the cytoarchitecture of the slices. Having fluorescence images of biological samples inside the chip
demonstrates the effectiveness of the staining process using the injection method avoiding leaks or
biological contamination. The technology developed in this study presents a significant improvement
in the local administration of reagents within a brain slice-on-a-chip system, which could be a suitable
option for organotypic cultures in a microfluidic chip acting as a highly effective bioreactor. International Journal of
Molecular Sciences International Journal of
Molecular Sciences International Journal of
Molecular Sciences International Journal of
Molecular Sciences 1. Introduction problems is interface culturing using porous membranes, where the brain slice is placed
on a membrane insert in a multiwell plate, thus the tissue can simultaneously be exposed
to culture medium and oxygen [12,13]. However, brain slice cultures have been a great
challenge so far, mainly due to the metabolic disintegration that the tissue undergoes due
to the limited supply of culture medium and oxygen, waste accumulation, and poor control
over the culture environment [14]. Because of this, there was a need to develop new culture
methods for brain slice studies. In recent years, microfluidics and microfabrication have become powerful tools for tis-
sue engineering, allowing the recreation of miniaturized cell microenvironments with high
control and precision [15,16]. The combination of both sciences has led to the concept of
organ-on-a-chip, a culture model capable of reproducing tissue equivalents or miniaturized-
scale organs [17]. Organ-on-a-chip systems have advantages over roll tube and interface
culturing systems: the volumes of culture medium required are lower, prevent the ac-
cumulation of depleted media, improve handling culture without risk of contamination,
and enable higher control over cell environment. Apart from that, most organ-on-a-chip
applications are conducted under flow conditions, leading to real-time screening of secreted
molecules [18]. All the benefits of microfluidic systems have been applied to brain slice
cultures. The use of continuous flow for brain slice cultures has made it possible to consider
an alternative method: submerged culturing, in which the tissue is entirely covered by hy-
peroxygenated medium [19,20]. This type of culture has better preservation of morphology,
but oxygen exchange is less efficient than interface culturing [21,22]. Interphase culturing
has been adapted to fluidic systems equally, converging the advantages of the interface
culturing systems and microfluidic approaches [23]. Previous works based on fluidic devices for brain slice culture are focused on con-
trolling brain slice microenvironment. There are two different approaches to accomplish
this: microperfusion systems [24,25] and microfluidic devices, such as bioreactors [23,26]. This ability to regulate the microenvironment makes microfluidic systems handy tools in
the study and development of drugs. Therefore, organ-on-a-chips have been developed
to culture brain slices specifically for this bio-application [27,28]. These alternatives arise
from certain limitations posed by most fluidic platforms. Specific reagents, such as pharma-
cological agents or fluorescent dyes, can be dissolved in the reservoir fluid, either by not
reaching their optimal concentration or by constantly exposing brain slices to these stimula-
tions. 1. Introduction There are brain-on-a-chip devices [29–31] focused on localized drug application for
brain-on-a-chip, but the alternatives for this application in brain slice-on-a-chip cultures
are minimal [28,32]. For this reason, it is necessary to develop alternative methodologies
for local delivery in fluidic chips for brain slice evaluation without depending on a flow. y
p
p
g
This scientific report presents a new alternative of brain slice-on-a-chip for organotypic
culture, integrating an injection system inside the chip to dispense a fluorescent dye. This
indicator is used to analyze the slice’s status by fluorescence imaging. The chip presents
two interconnected chambers by a permeable membrane and an air bubble pre-chamber in
the injection area. This work demonstrates that the injection methodology works correctly
and is reproducible through the fluorescence images obtained from the brain slices cultured
on the chips. 1. Introduction Brain slices preparation under in vitro conditions are a powerful approach that allows
neuroscientists to have accurate control over experimental conditions and study neural
networks, individual cells, processes, and synapses. For neuroscience research, several
experimental 2D and 3D models have been used to study the complexity of brain functions. Although a large number of studies analyze networks of neurons cultured in vitro, 2D
cultures cannot simulate brain complexity due to the isolation and lack of contact with
other cells [1]. An emerging alternative for the recreation of complex interactions is the
culture of human pluripotent stem cells for organoid development. However, high costs
and cellular complexity prevent these 3D cultures from being postulated as viable study
models [2]. Organotypic brain slice cultures have been widely used for their ability to
preserve cytoarchitecture under ex vivo conditions [3], having a very relevant role in studies
that have allowed us to know more in-depth processes, such as neurogenesis [4,5], synaptic
transmission [6,7], protein expression [8], or responses to physical trauma [9]. Publisher’s Note: MDPI stays neutral
with regard to jurisdictional claims in
published maps and institutional affil-
iations. Publisher’s Note: MDPI stays neutral
with regard to jurisdictional claims in
published maps and institutional affil-
iations. Copyright:
© 2022 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article
distributed
under
the
terms
and
conditions of the Creative Commons
Attribution (CC BY) license (https://
creativecommons.org/licenses/by/
4.0/). There are different approaches for organotypic culture of brain slices. A first approach
for mouse hippocampal culture is creating a roll tube culturing system, where the tissue is
periodically exposed to air and culture medium [10,11]. A second approach to avoid these https://www.mdpi.com/journal/ijms Int. J. Mol. Sci. 2022, 23, 2549. https://doi.org/10.3390/ijms23052549 Int. J. Mol. Sci. 2022, 23, 2549 2 of 13 problems is interface culturing using porous membranes, where the brain slice is placed
on a membrane insert in a multiwell plate, thus the tissue can simultaneously be exposed
to culture medium and oxygen [12,13]. However, brain slice cultures have been a great
challenge so far, mainly due to the metabolic disintegration that the tissue undergoes due
to the limited supply of culture medium and oxygen, waste accumulation, and poor control
over the culture environment [14]. Because of this, there was a need to develop new culture
methods for brain slice studies. 2.1. Chip Development and Injection System Implementation (B) Picture of the final
chip version employed for hippocampal slices culture. At the preliminary design stage, it was defined that OGB solution must be injected
through the lower chamber. There were several reasons to make that decision: it allows a
pre-chamber to inject solutions and act as a bubble-trap, maintain the PC membrane’s
integrity, and after injection, OGB solution would be mixed with the perfused culture me-
dium. Due to this, the flow could remove the fluorescence solution overload and decrease
the background signal. I iti l t
t
f
d b di
tl
t
i
th
PDMS bl
k
i
G25
At the preliminary design stage, it was defined that OGB solution must be injected
through the lower chamber. There were several reasons to make that decision: it allows
a pre-chamber to inject solutions and act as a bubble-trap, maintain the PC membrane’s
integrity, and after injection, OGB solution would be mixed with the perfused culture
medium. Due to this, the flow could remove the fluorescence solution overload and
decrease the background signal. Initial tests were performed by directly puncturing the upper PDMS block using G25
gauge needles, observing two events: the microfluidic chamber’s cross-contamination and
leaks through the PDMS layer. It was also noteworthy that the injection of microvolumes
(50 µL) tended to produce bubbles within the fluidic chamber, negatively impacting the
laminar flow and microscope observation. Af
h
i
bl
h fi
l hi
i
l d d
PTFE
l
i
d i
Initial tests were performed by directly puncturing the upper PDMS block using G25
gauge needles, observing two events: the microfluidic chamber’s cross-contamination and
leaks through the PDMS layer. It was also noteworthy that the injection of microvolumes
(50 µL) tended to produce bubbles within the fluidic chamber, negatively impacting the
laminar flow and microscope observation. After these persistent problems, the final chip included a PTFE plug integrated into
the PDMS block and pre-chamber in the lower microfluidic channel (Figure 2). The pre-
chamber acted as a bubble trap for air bubbles both present in the flow and those gener-
ated by injection. The PTFE plug was capable of self-sealing after being perforated by a
needle, preserving the parallel flow inside the microfluidic chamber. During the develop-
ment stage, the chips were punctured up to five perforations through the PTFE plug,
showing no leaks or cross-contamination in any of the chips. 2.1. Chip Development and Injection System Implementation The developed engineered chip had two differentiated microfluidic chambers: a lower
chamber with flow inlet and outlet, a constant renewal of the culture medium, and an
upper chamber that was not subjected to flow (Figure 1). A permeable polycarbonate (PC)
membrane delimits both compartments. This chip was subjected to a flow range between
0.1 and 250 µL/min without presenting leaks, keeping the upper chamber airtight, without
the perfused flow filling the chamber volume. Additionally, the lower layout featured a pre-
chamber to allow reagent injection to avoid bubbles in the chambers. In order to preserve
the tightness of the chip, the injection was performed through a polytetrafluoroethylene Int. J. Mol. Sci. 2022, 23, 2549 3 of 13
order
fl (PTFE) plug, avoiding potential leaks. The reagent administered through the injection
system was a 50 µL of Oregon Green Bapta (OGB) solution (20 µM). injection system was a 50 µL of Oregon Green Bapta (OGB) solution (20 µM). (PTFE) plug, avoiding potential leaks. The reagent administered through the injection
system was a 50 µL of Oregon Green Bapta (OGB) solution (20 µM). injection system was a 50 µL of Oregon Green Bapta (OGB) solution (20 µM). system was a 50 µL of Oregon Green Bapta (OGB) solution (20 µM). Figure 1. (A) 3D exploded view representation of the brain slice-on-a-chip, showing the microfluidic
chamber the four layers that shape the chip: 1—polydimethylsiloxane (PDMS) block with two holes
for inserting the tubing of the fluidic system, and with an integrated PTFE plug to allow needle
puncture of the chip and maintain the chip’s tightness; 2—upper vinyl layer with polycarbonate
membrane adhered to the underside; 3—lower vinyl layer through which the flow is perfused. Two
compartments form this layout: a prechamber where the reagents are injected, acting as an air bub-
ble trap, and the chamber which interacts with the tissue; 4—75 × 25 mm glass substrate. 2 and 3
present four holes in the corners for a correct overlapping between the vinyl sheets. (B) Picture of
the final chip version employed for hippocampal slices culture. Figure 1. 2.1. Chip Development and Injection System Implementation (A) 3D exploded view representation of the brain slice-on-a-chip, showing the microfluidic
chamber the four layers that shape the chip: 1—polydimethylsiloxane (PDMS) block with two holes
for inserting the tubing of the fluidic system, and with an integrated PTFE plug to allow needle
puncture of the chip and maintain the chip’s tightness; 2—upper vinyl layer with polycarbonate
membrane adhered to the underside; 3—lower vinyl layer through which the flow is perfused. Two
compartments form this layout: a prechamber where the reagents are injected, acting as an air bubble
trap, and the chamber which interacts with the tissue; 4—75 × 25 mm glass substrate. 2 and 3 present
four holes in the corners for a correct overlapping between the vinyl sheets. (B) Picture of the final
chip version employed for hippocampal slices culture. Figure 1. (A) 3D exploded view representation of the brain slice-on-a-chip, showing the microfluidic
chamber the four layers that shape the chip: 1—polydimethylsiloxane (PDMS) block with two holes
for inserting the tubing of the fluidic system, and with an integrated PTFE plug to allow needle
puncture of the chip and maintain the chip’s tightness; 2—upper vinyl layer with polycarbonate
membrane adhered to the underside; 3—lower vinyl layer through which the flow is perfused. Two
compartments form this layout: a prechamber where the reagents are injected, acting as an air bub-
ble trap, and the chamber which interacts with the tissue; 4—75 × 25 mm glass substrate. 2 and 3
present four holes in the corners for a correct overlapping between the vinyl sheets. (B) Picture of
the final chip version employed for hippocampal slices culture. Figure 1. (A) 3D exploded view representation of the brain slice-on-a-chip, showing the microfluidic
chamber the four layers that shape the chip: 1—polydimethylsiloxane (PDMS) block with two holes
for inserting the tubing of the fluidic system, and with an integrated PTFE plug to allow needle
puncture of the chip and maintain the chip’s tightness; 2—upper vinyl layer with polycarbonate
membrane adhered to the underside; 3—lower vinyl layer through which the flow is perfused. Two
compartments form this layout: a prechamber where the reagents are injected, acting as an air bubble
trap, and the chamber which interacts with the tissue; 4—75 × 25 mm glass substrate. 2 and 3 present
four holes in the corners for a correct overlapping between the vinyl sheets. 2.2. Labeling of OGB in Hippoca
2.2. Labeling of OGB in Hippocampal Sections g f
pp
p
In order to check the efficiency of the brain slice-on-a-chip device an
method by injection system, four chips were manufactured to host two hippo
per chip. An OGB labeling was performed to analyze possible effects along t
ity and integrity of mouse hippocampal tissue inside the chip
In order to check the efficiency of the brain slice-on-a-chip device and a staining
method by injection system, four chips were manufactured to host two hippocampal slices
per chip. An OGB labeling was performed to analyze possible effects along time in viability
and integrity of mouse hippocampal tissue inside the chip. ity and integrity of mouse hippocampal tissue inside the chip. As shown in Figure 3, OGB fluorescent dye penetrated the tissue, demo
membrane’s permeability and effectiveness of the injection system
g
y
As shown in Figure 3, OGB fluorescent dye penetrated the tissue, demonstrating the
membrane’s permeability and effectiveness of the injection system. membrane s permeability and effectiveness of the injection system. The viability of the hippocampal sections was observed each day for 10
(DIV) in chips and organotypic hippocampal slice culture (OHSC). Since s
visualized using staining techniques are typically found from measuremen
ment, even using sections from the same hippocampi, subtle changes are diff
pret, as previously discussed in several works [33,34]. Thus, the objective of t
to identify differences between large, obvious differences along time. There
tern of fluorescence labeling of OGB was qualitatively analyzed as well as th
the ti
ue i
the hi
a d OHSC a
o t ol (Fi u e 3 5)
The viability of the hippocampal sections was observed each day for 10 days in vitro
(DIV) in chips and organotypic hippocampal slice culture (OHSC). Since small changes vi-
sualized using staining techniques are typically found from measurement to measurement,
even using sections from the same hippocampi, subtle changes are difficult to interpret,
as previously discussed in several works [33,34]. Thus, the objective of this work was to
identify differences between large, obvious differences along time. Therefore, the pattern
of fluorescence labeling of OGB was qualitatively analyzed as well as the integrity of the
tissue in the chip and OHSC as control (Figures 3–5). the tissue in the chip and OHSC as control (Figures 3–5). 2.1. Chip Development and Injection System Implementation After these persistent problems, the final chip included a PTFE plug integrated into
the PDMS block and pre-chamber in the lower microfluidic channel (Figure 2). The pre-
chamber acted as a bubble trap for air bubbles both present in the flow and those generated
by injection. The PTFE plug was capable of self-sealing after being perforated by a needle,
preserving the parallel flow inside the microfluidic chamber. During the development
stage, the chips were punctured up to five perforations through the PTFE plug, showing no
leaks or cross-contamination in any of the chips. Int. J. Mol. Sci. 2022, 23, 2549 4 of 13 Figure 2. (A) Schematic diagram flow of the brain slice-on-a-chip. Hippocampal b
over the PC membrane, whereas the culture medium and the OGB solution are perf
lower compartment. (B) A real injection test replicates Figure 2A. Green fluid is p
lower chamber, and the red fluid is injected through the PTFE plug in the pre-chamb
Figure 2. (A) Schematic diagram flow of the brain slice-on-a-chip. Hippocampal brain-slices rest
over the PC membrane, whereas the culture medium and the OGB solution are perfused across the
lower compartment. (B) A real injection test replicates Figure 2A. Green fluid is perfused in the lower
chamber, and the red fluid is injected through the PTFE plug in the pre-chamber. Figure 2. (A) Schematic diagram flow of the brain slice-on-a-chip. Hippocampal b
over the PC membrane, whereas the culture medium and the OGB solution are perf
lower compartment. (B) A real injection test replicates Figure 2A. Green fluid is p
lower chamber, and the red fluid is injected through the PTFE plug in the pre-chamb
Figure 2. (A) Schematic diagram flow of the brain slice-on-a-chip. Hippocampal brain-slices rest
over the PC membrane, whereas the culture medium and the OGB solution are perfused across the
lower compartment. (B) A real injection test replicates Figure 2A. Green fluid is perfused in the lower
chamber, and the red fluid is injected through the PTFE plug in the pre-chamber. 2.2. Labeling of OGB in Hippoca
2.2. Labeling of OGB in Hippocampal Sections Septal sections of P7 mice hippocampal formation into brain slice-on-a-chi
photographs from slices placed into Chip 1 (A,D,G,J,M), Chip 2 (B,E,H,K,N), and Chi
at 1, 5, and 10 DIV. (A–F,J–L) showed a progressive change in transparency of the tiss
age in section thickness from 1 DIV (A,B,C) to 5 DIV (D,E,F), that was more evident at
(G–I,M–O), low-magnification photomicrographs demonstrated similar distribution
of OGB marker in the hippocampus section at 5 DIV (G–I) and 10 DIV (M–O) in all c
marker showed two types of labeling (see also Figure 4) in chip sections along tim
shaped labeling (early-medium phase) (G,I), and a sharp decrease labeling with part
of OGB labeled cells (late phase) (M–O) in some zones of the hippocampal subfie
sented a better preservation of the hippocampal cytoarchitecture at 5 DIV compared to
that in (N) there was a dramatic reduction of DG size. Solid-arrows display outgrowt
Figure 3. Septal sections of P7 mice hippocampal formation into brain slice-on-a-chip. Low-
power photographs from slices placed into Chip 1 (A,D,G,J,M), Chip 2 (B,E,H,K,N), and Chip
3 (C,F,I,L,O) at 1, 5, and 10 DIV. (A–F,J–L) showed a progressive change in transparency of the tissue
and shrinkage in section thickness from 1 DIV (A–C) to 5 DIV (D–F), that was more evident at
10 DIV (J–L). (G–I,M–O), low-magnification photomicrographs demonstrated similar distribution
and intensity of OGB marker in the hippocampus section at 5 DIV (G–I) and 10 DIV (M–O) in all
chips. The OGB marker showed two types of labeling (see also Figure 4) in chip sections along time:
a dense dot-shaped labeling (early-medium phase) (G,I), and a sharp decrease labeling with partial
or total lack of OGB labeled cells (late phase) (M–O) in some zones of the hippocampal subfields. (D–I) presented a better preservation of the hippocampal cytoarchitecture at 5 DIV compared to Figure 3. Septal sections of P7 mice hippocampal formation into brain slice-on-a-chi
photographs from slices placed into Chip 1 (A,D,G,J,M), Chip 2 (B,E,H,K,N), and Chi
at 1, 5, and 10 DIV. 2.2. Labeling of OGB in Hippoca
2.2. Labeling of OGB in Hippocampal Sections OGB labeled all living cells virtually, which allowed the cytoarchitecton
the different hippocampal subregions: cornu Ammonis subfield (CA); denta
and hilus (h), and the limits between them to be distinguished, according
tions of the atlas of the dorsal mouse hippocampus from Bregma −1.46 to −2
3G I M O
d 4)
OGB labeled all living cells virtually, which allowed the cytoarchitectonic features
of the different hippocampal subregions: cornu Ammonis subfield (CA); dentate gyrus
(DG) and hilus (h), and the limits between them to be distinguished, according to the
indications of the atlas of the dorsal mouse hippocampus from Bregma −1.46 to −2.30 [35]
(Figures 3G–I,M–O and 4). ures 3G–I,M–O and 4). Although no quantitative evaluation of living cells number or intensi
cence labeling was performed, differences were found in the pattern of OGB
pocampi sections between 5 DIV and 10 DIV. In general, OGB marker show
of staining along time: In 1–5 DIV “early-medium phase”, a dense dot-shape
which individual cells were distinguished and scattered through whole hipp
mation was observed. In 5–10 DIV “late phase”, a worse defined labeling, w
total lack of labeled cells in some zones of hippocampal subregions, and an in
slice’s background was shown. As shown in Figures 3G–I,M–O, and 4, the
gressive decrease in the labeling and a change in the distribution pattern
marker mainly in the cornu Ammonis, dentate gyrus, and hilus from 5 DIV, t
Although no quantitative evaluation of living cells number or intensity of fluorescence
labeling was performed, differences were found in the pattern of OGB in chip hippocampi
sections between 5 DIV and 10 DIV. In general, OGB marker showed two types of staining
along time: In 1–5 DIV “early-medium phase”, a dense dot-shaped labeling, in which
individual cells were distinguished and scattered through whole hippocampal formation
was observed. In 5–10 DIV “late phase”, a worse defined labeling, with partial or total lack
of labeled cells in some zones of hippocampal subregions, and an increase of the slice’s
background was shown. As shown in Figures 3G–I,M–O and 4, there was a progressive
decrease in the labeling and a change in the distribution pattern of the OGB marker mainly
in the cornu Ammonis, dentate gyrus, and hilus from 5 DIV, that was more dramatically
pronounced at 10 DIV (Figures 3G–I,M–O and 4). Int. J. Mol. Sci. 2022, 23, 2549
Int. J. Mol. S 5 of 13 Figure 3. 2.2. Labeling of OGB in Hippoca
2.2. Labeling of OGB in Hippocampal Sections Scale bar shown in O indicates 500 µm in (A–F,J–L) and 400 µm in (G–I,M–O). Figure 4. Photomicrographs of hippocampal slices from Chips 1, 2, and 3 illustrating in greater de-
tail the different patterns of OGB marker in CA, DG, and h, at 5 DIV (A–C) and 10 DIV (D–F). Note
the evident changes in the OGB labeling distribution between 5 and 10 DIV. A dense dot-shaped
labeling, corresponding living cells (open arrows) was scattered through whole hippocampal for-
mation, at 5 DIV (medium phase) (A–C). By contrast, at 10 DIV there was a sharp decrease labeling
with partial or total lack of OGB labeled cells (white solid arrows) in some zones of CA, DG, and h
(late phase) (D–F). CA, cornu Ammonis subfield; DG, dentate gyrus; DIV, days in vitro; h, hilus. Scale bar shown in F indicates 270 µm in (A–F). Figure 4. Photomicrographs of hippocampal slices from Chips 1, 2, and 3 illustrating in greater detail
the different patterns of OGB marker in CA, DG, and h, at 5 DIV (A–C) and 10 DIV (D–F). Note the
evident changes in the OGB labeling distribution between 5 and 10 DIV. A dense dot-shaped labeling,
corresponding living cells (open arrows) was scattered through whole hippocampal formation, at
5 DIV (medium phase) (A–C). By contrast, at 10 DIV there was a sharp decrease labeling with partial
or total lack of OGB labeled cells (white solid arrows) in some zones of CA, DG, and h (late phase)
(D–F). CA, cornu Ammonis subfield; DG, dentate gyrus; DIV, days in vitro; h, hilus. Scale bar shown
in F indicates 270 µm in (A–F). Figure 4. Photomicrographs of hippocampal slices from Chips 1, 2, and 3 illustrating in greater de-
tail the different patterns of OGB marker in CA, DG, and h, at 5 DIV (A–C) and 10 DIV (D–F). Note
the evident changes in the OGB labeling distribution between 5 and 10 DIV. A dense dot-shaped
labeling, corresponding living cells (open arrows) was scattered through whole hippocampal for-
mation, at 5 DIV (medium phase) (A–C). By contrast, at 10 DIV there was a sharp decrease labeling
with partial or total lack of OGB labeled cells (white solid arrows) in some zones of CA, DG, and h
(late phase) (D–F). CA, cornu Ammonis subfield; DG, dentate gyrus; DIV, days in vitro; h, hilus. Scale bar shown in F indicates 270 µm in (A–F). 2.2. Labeling of OGB in Hippoca
2.2. Labeling of OGB in Hippocampal Sections Figure 4. Photomicrographs of hippocampal slices from Chips 1, 2, and 3 illustrating in greater detail
the different patterns of OGB marker in CA, DG, and h, at 5 DIV (A–C) and 10 DIV (D–F). Note the
evident changes in the OGB labeling distribution between 5 and 10 DIV. A dense dot-shaped labeling,
corresponding living cells (open arrows) was scattered through whole hippocampal formation, at
5 DIV (medium phase) (A–C). By contrast, at 10 DIV there was a sharp decrease labeling with partial
or total lack of OGB labeled cells (white solid arrows) in some zones of CA, DG, and h (late phase)
(D–F). CA, cornu Ammonis subfield; DG, dentate gyrus; DIV, days in vitro; h, hilus. Scale bar shown
in F indicates 270 µm in (A–F). Besides, a slight and progressive shrinkage, especially section thickness, was detect-
able at 5 DIV (Figure 3D–F) compared to 1 DIV (Figure 3A–C), which was stronger at 10
DIV (Figure 3J–O). Besides, a slight and progressive shrinkage, especially section thickness, was detectable
at 5 DIV (Figure 3D–F) compared to 1 DIV (Figure 3A–C), which was stronger at 10 DIV
(Figure 3J–O). Besides, a slight and progressive shrinkage, especially section thickness, was detect-
able at 5 DIV (Figure 3D–F) compared to 1 DIV (Figure 3A–C), which was stronger at 10
DIV (Figure 3J–O). Besides, a slight and progressive shrinkage, especially section thickness, was detectable
at 5 DIV (Figure 3D–F) compared to 1 DIV (Figure 3A–C), which was stronger at 10 DIV
(Figure 3J–O). Two important criteria for evaluating whether the slices are well-cultured are a
change in transparency and cellular spread [1]. As shown the Figure 3, the slices under-
went a general change in color and transparency from brownish-opaque at 1 DIV to light
brownish-transparent during the first week and outgrowth of cells from the edge chip
Two important criteria for evaluating whether the slices are well-cultured are a change
in transparency and cellular spread [1]. As shown the Figure 3, the slices underwent a
general change in color and transparency from brownish-opaque at 1 DIV to light brownish-
transparent during the first week and outgrowth of cells from the edge chip section. section. No changes in the general pattern of distribution of OGB labeling throughout the
hippocampal subregions up to 10 DIV were observed in the OHSC compared to the chip
(Figure 5). 2.2. Labeling of OGB in Hippoca
2.2. Labeling of OGB in Hippocampal Sections (A–F,J–L) showed a progressive change in transparency of the tissu
age in section thickness from 1 DIV (A,B,C) to 5 DIV (D,E,F), that was more evident at
(G–I,M–O), low-magnification photomicrographs demonstrated similar distribution
of OGB marker in the hippocampus section at 5 DIV (G–I) and 10 DIV (M–O) in all ch
marker showed two types of labeling (see also Figure 4) in chip sections along time
shaped labeling (early-medium phase) (G,I), and a sharp decrease labeling with parti
of OGB labeled cells (late phase) (M–O) in some zones of the hippocampal subfiel
sented a better preservation of the hippocampal cytoarchitecture at 5 DIV compared to
that in (N) there was a dramatic reduction of DG size. Solid-arrows display outgrowt
Figure 3. Septal sections of P7 mice hippocampal formation into brain slice-on-a-chip. Low-
power photographs from slices placed into Chip 1 (A,D,G,J,M), Chip 2 (B,E,H,K,N), and Chip
3 (C,F,I,L,O) at 1, 5, and 10 DIV. (A–F,J–L) showed a progressive change in transparency of the tissue
and shrinkage in section thickness from 1 DIV (A–C) to 5 DIV (D–F), that was more evident at
10 DIV (J–L). (G–I,M–O), low-magnification photomicrographs demonstrated similar distribution
and intensity of OGB marker in the hippocampus section at 5 DIV (G–I) and 10 DIV (M–O) in all
chips. The OGB marker showed two types of labeling (see also Figure 4) in chip sections along time:
a dense dot-shaped labeling (early-medium phase) (G,I), and a sharp decrease labeling with partial
or total lack of OGB labeled cells (late phase) (M–O) in some zones of the hippocampal subfields. (D–I) presented a better preservation of the hippocampal cytoarchitecture at 5 DIV compared to Int. J. Mol. Sci. 2022, 23, 2549
Int. J. Mol. Sci. 2022, 23, x FOR P 6 of 13
of 13 10 DIV. Note, that in (N) there was a dramatic reduction of DG size. Solid-arrows display outgrowth
of cells from the edge chip section (D,G). The area indicated by a rectangle in (G–I,M–O) was shown
at a higher magnification in Figure 3. CA, cornu Ammonis subfield; DG, dentate gyrus; DIV, days
in vitro; h, hilus. Scale bar shown in O indicates 500 µm in (A–F,J–L) and 400 µm in (G–I,M–O). the edge chip section (D,G). The area indicated by a rectangle in (G–I,M–O) was shown at a higher
magnification in Figure 3. CA, cornu Ammonis subfield; DG, dentate gyrus; DIV, days in vitro; h,
hilus. 2.2. Labeling of OGB in Hippoca
2.2. Labeling of OGB in Hippocampal Sections Furthermore, as shown in Figure 5, the progressive shrinkage of section thick-
ness displayed was smaller than the chip slices (Figure 3). The hippocampal sections were
fully attached to the PC membrane at 7 DIV whereas this happens from 14 DIV in the
insert membrane, as previously mentioned by other authors [1,36]. However, a better
preservation of the typical hippocampal cytoarchitecture in the chip was observed com-
No changes in the general pattern of distribution of OGB labeling throughout the
hippocampal subregions up to 10 DIV were observed in the OHSC compared to the chip
(Figure 5). Furthermore, as shown in Figure 5, the progressive shrinkage of section thickness
displayed was smaller than the chip slices (Figure 3). The hippocampal sections were fully
attached to the PC membrane at 7 DIV whereas this happens from 14 DIV in the insert
membrane, as previously mentioned by other authors [1,36]. However, a better preservation
of the typical hippocampal cytoarchitecture in the chip was observed compared to OHSC
at 5 DIV (Figures 3D–I and 5). Int. J. Mol. Sci. 2022, 23, 2549
nt. J. Mol. Sci. 2022, 23, x FOR P 7 of 13
of 13 Figure 5. A representative septal section of P7 mice hippocampal formation in OHSC. Low-power
photographs from a slice placed onto cell culture insert at 1 (A), 5 (B,D), and 10 DIV (C,E). (A–C)
displayed a progressive shrinkage of section thickness (black solid arrows) from 1 DIV (A) to 10 DIV
(C) lower than chip slices (B) (see also Figure 3). (D,E) showed the same general pattern of distribu-
tion of OGB labeling throughout the hippocampal subregions up to 10 DIV observed in the organ-
on-a-chip. Note the changes in the OGB labeling distribution between 5 and 10 DIV. At 5 DIV (me-
dium phase) a dense dot-shaped labeling was observed through whole hippocampal formation
(open arrows) (D). By contrast, at 10 DIV there was a sharp decrease labeling with partial or total
lack of OGB labeled cells (solid arrows) in some zones of hippocampal formation (late phase) (D–
E). CA, cornu Ammonis subfield; DG, dentate gyrus; DIV, days in vitro; h, hilus. Scale bar shown
in E indicates 510 µm in (A–C) and 480 µm in (D,E). 3 Di
i
Figure 5. A representative septal section of P7 mice hippocampal formation in OHSC. 2.2. Labeling of OGB in Hippoca
2.2. Labeling of OGB in Hippocampal Sections Low-power
photographs from a slice placed onto cell culture insert at 1 (A), 5 (B,D), and 10 DIV (C,E). (A–C) dis
played a progressive shrinkage of section thickness (black solid arrows) from 1 DIV (A) to 10 DIV
(C) lower than chip slices (B) (see also Figure 3). (D,E) showed the same general pattern of dis
tribution of OGB labeling throughout the hippocampal subregions up to 10 DIV observed in the
organ-on-a-chip. Note the changes in the OGB labeling distribution between 5 and 10 DIV. At 5 DIV
(medium phase) a dense dot-shaped labeling was observed through whole hippocampal formation
(open arrows) (D). By contrast, at 10 DIV there was a sharp decrease labeling with partial or total
lack of OGB labeled cells (solid arrows) in some zones of hippocampal formation (late phase) (D–E)
CA, cornu Ammonis subfield; DG, dentate gyrus; DIV, days in vitro; h, hilus. Scale bar shown in E
indicates 510 µm in (A–C) and 480 µm in (D,E). igure 5. A representative septal section of P7 mice hippocampal formation in OHSC. Low-power
hotographs from a slice placed onto cell culture insert at 1 (A), 5 (B,D), and 10 DIV (C,E). (A–C)
isplayed a progressive shrinkage of section thickness (black solid arrows) from 1 DIV (A) to 10 DIV
C) lower than chip slices (B) (see also Figure 3). (D,E) showed the same general pattern of distribu-
ion of OGB labeling throughout the hippocampal subregions up to 10 DIV observed in the organ-
n-a-chip. Note the changes in the OGB labeling distribution between 5 and 10 DIV. At 5 DIV (me-
ium phase) a dense dot-shaped labeling was observed through whole hippocampal formation
open arrows) (D). By contrast, at 10 DIV there was a sharp decrease labeling with partial or total
ack of OGB labeled cells (solid arrows) in some zones of hippocampal formation (late phase) (D–
). CA, cornu Ammonis subfield; DG, dentate gyrus; DIV, days in vitro; h, hilus. Scale bar shown
n E indicates 510 µm in (A–C) and 480 µm in (D,E). Figure 5. A representative septal section of P7 mice hippocampal formation in OHSC. Low-power
photographs from a slice placed onto cell culture insert at 1 (A), 5 (B,D), and 10 DIV (C,E). (A–C) dis-
played a progressive shrinkage of section thickness (black solid arrows) from 1 DIV (A) to 10 DIV
(C) lower than chip slices (B) (see also Figure 3). 2.2. Labeling of OGB in Hippoca
2.2. Labeling of OGB in Hippocampal Sections (D,E) showed the same general pattern of dis-
tribution of OGB labeling throughout the hippocampal subregions up to 10 DIV observed in the
organ-on-a-chip. Note the changes in the OGB labeling distribution between 5 and 10 DIV. At 5 DIV
(medium phase) a dense dot-shaped labeling was observed through whole hippocampal formation
(open arrows) (D). By contrast, at 10 DIV there was a sharp decrease labeling with partial or total
lack of OGB labeled cells (solid arrows) in some zones of hippocampal formation (late phase) (D–E). CA, cornu Ammonis subfield; DG, dentate gyrus; DIV, days in vitro; h, hilus. Scale bar shown in E
indicates 510 µm in (A–C) and 480 µm in (D,E). . Discussion
The distinct
3. Discussion In the first instance,
any potential reactive must be loaded into the inlet reservoir at its optimal concentration. Depending on the reservoir volume, the required amount to reach its optimal dose could
significantly increase the study costs. A second drawback would be the exposure time of the
stimuli; the biological sample would be subject to overexposure to any reagent found in the
input reservoir until it is depleted or changed. Such overexposure could interact harmfully
with the culture. Both hindrances are even more critical if the study requires frequent
reagent dispensing and could induce a slowdown in the transition to microfluidic models. A new reagent injection system was implemented in this brain slice-on-a-chip to
overcome the gap between microfluidic and traditional methods, such as roll tube culturing
or membrane inserts methods. This methodology allows the local administration into the
microfluidic chamber of the chip, interacting instantaneously with the culture avoiding
extra microfluidic components to optimize the process. After chip fabrication, it was
necessary to test two conditions. On the one hand, if the chip remains watertight, without
causing biological contamination and alterations in the internal pressure of the chip after
several injections, and on the other hand, if the administered reagent interacts with the
sample on the membrane. The fluorescent marker OGB was dispensed through the injection
system in every chip to verify those statements. The results obtained have demonstrated the methodology’s effectiveness for injecting
reagents and the system’s reproducibility. There were no leaks in any of the chips tested
through the perforated PTFE plug, and all hippocampi slices were efficiently labeled by
fluorescent staining. This second fact confirmed the interaction between the flow of the
lower microfluidic chamber and the brain slices through the PC membrane. Microscope imaging outcomes further highlight better preservation of the typical
hippocampal cytoarchitecture in the chip at 5 DIV observed in the present study. This
is in line with results obtained by Bakmand T. et al. [23] showing that a fluidic system
maintained the characteristic cytoarchitecture seen in hippocampal slices far better than
the tissue slices cultured by standard method of organotypic culture. Moreover, the huge
presence of OGB living cells [37,38] combined with a change in color to light brownish-
transparent of chip sections and outgrowth of cells from the edge chips slices during the
first week [1], represent important criteria that show good viability of hippocampal slices
inside brain slice-on-a-chips. . Discussion
The distinct
3. Discussion The distinctive feature of an organ-on-a-chip system is the generation of a closed con-
tinuous system, where any external reagent must be supplemented through the microflu-
dic set-up. The advantages compared to roll tube culturing and membrane insert cultures
are clear: accurate control over the flow and microenvironment, avoiding cross-contami-
nation, and collecting the culture’s metabolic products. Hippocampal slices are fragile samples susceptible to damage in their cytoarchitec
The distinctive feature of an organ-on-a-chip system is the generation of a closed con-
tinuous system, where any external reagent must be supplemented through the microfluidic
set-up. The advantages compared to roll tube culturing and membrane insert cultures are
clear: accurate control over the flow and microenvironment, avoiding cross-contamination,
and collecting the culture’s metabolic products. Hippocampal slices are fragile samples susceptible to damage in their cytoarchitec-
ure; disturbances in their maintenance conditions must be avoided in order not to cause
mechanical damage to the sample. Due to this, brain slice on-a-chip devices must preserve
heir hermetic and tightness status to achieve an optimal flow and sterility conditions. These requirements present a disadvantage compared to standard cell culture methodol-
ogy; traditional multiwell plates have better accessibility to the sample by removing their
Hippocampal slices are fragile samples susceptible to damage in their cytoarchitecture;
disturbances in their maintenance conditions must be avoided in order not to cause mechan-
ical damage to the sample. Due to this, brain slice on-a-chip devices must preserve their
hermetic and tightness status to achieve an optimal flow and sterility conditions. These
requirements present a disadvantage compared to standard cell culture methodology;
traditional multiwell plates have better accessibility to the sample by removing their lids. It Int. J. Mol. Sci. 2022, 23, 2549 8 of 13 8 of 13 is possible to administrate reagents, the most common one being fresh culture medium, but
there are more attractive alternatives, such as drugs to analyze the behavior of the sample
or fluorescence dyes. is possible to administrate reagents, the most common one being fresh culture medium, but
there are more attractive alternatives, such as drugs to analyze the behavior of the sample
or fluorescence dyes. y
Most current microfluidic systems suitable for mouse hippocampal cultures do not
have such accessibility for local tissue interaction because only a single flow is used to
preserve the tissue. This limitation generates a series of drawbacks. 4 2 B
i
Sli
Chi F b i
ti
4.2. Brain Slice-on-a-Chip Fabrication 4 2 B
i
Sli
Chi F b i
ti
4.2. Brain Slice-on-a-Chip Fabrication 4.2. Brain Slice-on-a-Chip Fabrication
The materials used in this article and their assembly process are based on a previous
work [41], where an organ-on-a-chip composed of glass, vinyl, and PDMS was presented. In this article, these three materials were preserved, and two more components were
added—a polycarbonate membrane and a circular PTFE plug (Merck KGaA, Darmstadt,
Germany). The dimension of the glass substrate remained at 75 mm × 25 mm, and the
vinyl layer was redesigned up to 70 × 25 mm. This area expansion allowed for the intro-
duction of a pre-chamber and a larger main fluidic chamber. Two different vinyl layouts
were used for the upper and lower chambers. The lower one was 600 µm wide, and the
upper one was 750 µm wide. These chambers were delimited by a polycarbonate mem-
brane (0.4 µm pores, 10 µm wide, Merck KGaA, Darmstadt, Germany). PDMS blocks were
made using SYLGARD 184 in a 10:1.5 ratio (elastomer: curing agent) in a mold with the
exact dimensions as the vinyl sheets. During the curing process, the PTFE plug was placed
in the mold, and subsequently, the elastomer/curing agent mixture was poured into the
The materials used in this article and their assembly process are based on a previous
work [41], where an organ-on-a-chip composed of glass, vinyl, and PDMS was presented. In this article, these three materials were preserved, and two more components were
added—a polycarbonate membrane and a circular PTFE plug (Merck KGaA, Darmstadt,
Germany). The dimension of the glass substrate remained at 75 mm × 25 mm, and the vinyl
layer was redesigned up to 70 × 25 mm. This area expansion allowed for the introduction
of a pre-chamber and a larger main fluidic chamber. Two different vinyl layouts were
used for the upper and lower chambers. The lower one was 600 µm wide, and the upper
one was 750 µm wide. These chambers were delimited by a polycarbonate membrane
(0.4 µm pores, 10 µm wide, Merck KGaA, Darmstadt, Germany). PDMS blocks were made
using SYLGARD 184 in a 10:1.5 ratio (elastomer: curing agent) in a mold with the exact
dimensions as the vinyl sheets. During the curing process, the PTFE plug was placed in the
mold, and subsequently, the elastomer/curing agent mixture was poured into the mold. . Discussion
The distinct
3. Discussion p
The OGB marker enables real-time imaging evaluation of culture viability due to
its permeable nature. Nevertheless, additional analysis would provide a more accurate
evaluation of the slices. Permanent fluorescence markers can be applied to effectively
demonstrate live/dead staining at the finalization of the culture period. In addition, chip
material composition allows the extraction of the cultured slices by cutting the PDMS top
block and the PC membrane. This feature permits staining protocols where the slice must
be fixed as immunostaining, a standard practice for brain slice imaging [39,40]. For future
studies, combining OGB real-time analysis and selective labeling of brain cell types by
immunostaining as well as live/dead staining would allow a deeper evaluation of brain
slice status. The results obtained from this study prove the effectiveness of this chip for the main-
tenance of fragile organotypic and allow a local interaction with a fast and straightforward
methodology without needing extra components making this chip easy to use. Int. J. Mol. Sci. 2022, 23, 2549 9 of 13 4.1. Design of the Brain Slice-on-a-Chip Device
The device was a monolithic chip com 4.1. Design of the Brain Slice-on-a-Chip Device
The device was a monolithic chip com The device was a monolithic chip composed of two interconnected microfluidic cham-
bers delimited by a polycarbonate (PC) membrane (Figure 1). The upper chamber did
not present any inlet or outlet connection, and it had a rectangular area exclusively to
host the biological sample. The lower chamber presented two different compartments, a
pre-chamber where the fluorescent dye was injected and acted as an air bubble trap, and
the microfluidic chamber itself, which was in contact with the upper chamber through
the PC membrane. The device included a PTFE plug above the pre-chamber to allow the
injection of OGB dye inside the chip using a syringe and real-time microscopic monitoring
(Figure 6). chambers delimited by a polycarbonate (PC) membrane (Figure 1). The upper chamber
did not present any inlet or outlet connection, and it had a rectangular area exclusively to
host the biological sample. The lower chamber presented two different compartments, a
pre-chamber where the fluorescent dye was injected and acted as an air bubble trap, and
the microfluidic chamber itself, which was in contact with the upper chamber through the
PC membrane. The device included a PTFE plug above the pre-chamber to allow the in-
jection of OGB dye inside the chip using a syringe and real-time microscopic monitoring
(Figure 6). Figure 6. Flowchart showing the main procedures conducted for the brain slice culture and micro-
scope monitoring. Figure 6. Flowchart showing the main procedures conducted for the brain slice culture and micro-
scope monitoring. Figure 6. Flowchart showing the main procedures conducted for the brain slice culture and micro-
scope monitoring. Figure 6. Flowchart showing the main procedures conducted for the brain slice culture and micro-
scope monitoring. 4.6. Organotypic Hippocampal Slice Culture In order to test the effectiveness of the chip, a conventional method of organotypic
hippocampal slice culture (OHSC) was used as control for each chip. Briefly, hippocampal
sections (400 µm) described above were transferred onto cell culture inserts in P24 multiwell
plates and cultivated for 10 days with the same nutrition medium used for the chip and
kept in an incubator (37 ◦C, 5% CO2). The depleted medium was changed every third day
due to the lack of a continuous flow supply. 4 2 B
i
Sli
Chi F b i
ti
4.2. Brain Slice-on-a-Chip Fabrication After the curing process, the plug remained embedded inside the PDMS block, creating a
high adhesion between both polymeric materials. Two holes were drilled in the block with
a 2 mm puncher to accommodate the microfluidic connections. On the top of the chip, a
PDMS block was positioned to seal the device. In order to achieve strong bonding between Int. J. Mol. Sci. 2022, 23, 2549 10 of 13 10 of 13 the PDMS and the upper vinyl layer, the PDMS block had to undergo an oxygen plasma
treatment (80 Watts, 120”). This surface activation treatment made possible an optimum
vinyl-PDMS bonding [42]. 4.3. Hippocampal Slices MICE Male 7 day-old CD1 mice were obtained from our breeding colony (CTB), maintained
under a controlled environment (12-h light/12-h dark cycle; 22 ± 1 ◦C; ad libitum access
to food and water). All the biosafety procedures for handling and sacrificing animals
were approved by the bioethics committee from the Research Ethics Committee at the
Universidad Politécnica de Madrid and followed the European Commission guidelines for
the welfare of experimental animals (2010/63/EU, 86/609/EEC). 4.4. Slice Preparation The hippocampal sections were prepared using a method described by Stoppini et al. [13]
with slight modifications. Briefly, P7-CD1 pups were decapitated. The brain was rapidly
removed and placed in ice-cold DMEM-high glucose medium. Both hippocampi were
dissected under a dissecting microscope and cleaned of the choroid plexus and meninges
and transversally cut into 400-µm-thick slices using a tissue chopper VWR. Intact slices
from septal hippocampi were then transferred onto the pertinent culture substrate; two hip-
pocampal slices were placed per chip PC membrane ( Merck KGaA, Darmstadt, Germany)
and one hippocampal slice per insert membrane of the commercial transwell (Merck KGaA,
Darmstadt, Germany). Darmstadt, Germany). 4.5. Procedure of the Brain Slice-on-a-Chip Set-Up Two hippocampal slices were placed over the membrane in each chip. For a proper
chip sealing, the PDMS block underside was previously exposed to a plasma activation,
and subsequently, it was attached to the upper vinyl layer. Immediately, the lower mi-
crofluidic chamber was filled to have fresh medium using a micropipette to avoid the
slice dehumidification, and in addition, inlet and outlet tubings were fitted into the PDMS
perforations. Next, a 1 mL syringe (B. Braun, Melsungen, Germany) was charged with cell
culture medium DMEM-high glucose, 20% Horse Serum heat-inactivated and 1% antibi-
otic and antimycotic solution (Thermo Fisher Scientific, Madrid, Spain) and connected to
the chip by the inlet tubing. This syringe was positioned into a perfusion pump with a
1 µL/min flow rate being this flow perfused only through the lower microfluidic chamber. A CO2 incubator (37 ◦C, 5% CO2) was employed to preserve the microfluidic platform in
equal temperature, humidity, and CO2 atmosphere conditions for 10 days. 4.7. Dye Injection and Image Acquisition The evaluation of brain slice status has been performed by using the fluorescent
dye Oregon Green Bapta 488 (06807 Thermo Fisher), a highly sensitive intracellular Ca2+
indicator, allowing the acquisition of real-time imaging of living cells. The loading of
calcium indicator dye was performed as follows: stock solutions (5 mM) OGB were made
using a solution of 20% (w/v) Pluronic F-127 in absolute dimethylsulphoxide (DMSO). The final volume employed was 50 µL of OGB solution (20 µM) per chip. After 4 DIV,
it was injected with a 100 µL Hamilton syringe through the PTFE plug reaching the pre-
chamber (Figure 2). An equal volume of OGB was administered for control slices cultured Int. J. Mol. Sci. 2022, 23, 2549 11 of 13 11 of 13 on transwells. Then, sections on the chip, as on the OHSC (control), were incubated for
one hour in the culture incubator. After that, the OHSC transwell was transferred to a new
well to decrease the fluorescence background signal. Moreover, for a proper penetration
of the dye in the chip, a flow of 0.1 µL/min was set for the OGB incubation. In order to
elute the excess of OGB, hippocampal slices were visualized one day after (5 DIV). At
9 DIV, this protocol was repeated to obtain images with an optimal fluorescence signal at
10 DIV. During the imaging process, the chip remained sealed, enabling the analysis of the
slices inside the chips in real-time. Photographs were acquired with a direct fluorescence
microscope Olympus BX51 (Olympus SE & Co. KG, Hamburg, Germany)and inverted
fluorescence microscope Leica DMI3000 B (Leica Microsystems, Wetzlar, Germany). 5. Conclusions A current challenge in culturing mouse brain slices is to preserve the intact cytoarchi-
tecture due to its structural fragility. In this article, a brain slice-on-a-chip device has been
fabricated as an alternative culture method for mouse hippocampal slices to improve the
culture conditions. This chip allows dispensing microvolumes within the chip indepen-
dently from the microfluidic system. This attribute allows working with low complexity
microfluidic platforms, reducing assay costs. The injection system has been successfully
tested, obtaining fluorescence staining in hippocampal slices, proving better preservation
of the cytoarchitecture of the brain slices on the chip versus traditional culture methods. Local delivery feature enables the injection of stimuli on the brain slices cultured inside the
chip and simultaneously allows the analysis of the tissue’s behavior against these reagents
by real-time imaging. The developed methodology opens a new opportunity to apply
this organ-on-a-chip alternative for other organotypic cultures with an easy-to-use and
disposable device. Author Contributions: Conceptualization, S.T.-G. and M.H.; methodology, P.H., S.T.-G., and L.S.-O.;
software, P.H. and S.T.-G.; imaging analysis, S.T.-G.; investigation, P.H., S.T.-G., M.F.L.H., and M.H.;
writing—original draft preparation, P.H.; writing—review and editing: P.H., S.T.-G., and M.F.L.H.;
supervision, M.F.L.H., S.T.-G., and M.H.; funding acquisition, M.H. All authors have read and agreed
to the published version of the manuscript. Funding: The research was funded by the Ministerio de Economía y Competitividad of Spain (grant
TEC2017-84846-R); Comunidad de Madrid, grant (P2018/BAA-4480); Spanish “Ministerio de Ciencia
e Innovación” (grant PGC2018-094307-B-I00); and Cajal Blue Brain Project (the Spanish partner of the
Blue Brain Project initiative from EPFL (Switzerland)). Institutional Review Board Statement: The study was conducted according to the guidelines of the
Declaration of Helsinki and approved by the Institutional Review Board (or Ethics Committee) of
Universidad Politécnica de Madrid (PROEX number 312/16). Informed Consent Statement: Not applicable. Data Availability Statement: The authors have considered to exclude this statement. Data Availability Statement: The authors have considered to exclude this statemen Acknowledgments: We would like to thank Javier DeFelipe for his help during this research and
support in personnel cost. Acknowledgments: We would like to thank Javier DeFelipe for his help during this research and
support in personnel cost. Conflicts of Interest: The authors declare no conflict of interest. 12 of 13 Int. J. Mol. Sci. 2022, 23, 2549 12 of 13 References 1. Humpel, C. Neuroscience Forefront Review Organotypic Brain Slice Cultures: A Review. Neuroscience 2015, 305, 86–98. [CrossRef]
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Mild poikilocapnic hypoxia increases very low frequency haemoglobin oxygenation oscillations in prefrontal cortex
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Biological Research
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Mild Poikilocapnic Hypoxia Increases Very Low
Frequency Haemoglobin Oxygenation Oscillations
in Prefrontal Cortex in Prefrontal Cortex
Agnieszka Gruszecka
Medical University of Gdansk: Gdanski Uniwersytet Medyczny
Monika Waskow
Akademia Pomorska w Slupsku
Marta A. Malkiewicz
Medical University of Gdansk: Gdanski Uniwersytet Medyczny
J. Patrick Neary
University of Regina
Jyotpal Singh
University of Regina
Taylor Teckchandani
University of Regina
Gregory P. Kratzig
University of Regina
Magdalena Wszedybyl-Winklewska
Medical University of Gdansk: Gdanski Uniwersytet Medyczny
Andrzej F. Frydrychowski
NIRTI SA, Wroclaw
Jacek Rumiński
Gdańsk University of Technology: Politechnika Gdanska
Natalia Głowacka
Gdansk University of Technology: Politechnika Gdanska
Piotr Lass
Medical University of Gdansk: Gdanski Uniwersytet Medyczny
Pawel J. Winklewski
Medical University of Gdansk: Gdanski Uniwersytet Medyczny
Marcin Gruszecki ( mgruszecki@gumed.edu.pl )
Medical University of Gdansk Center for Maritime and Tropical Med
Medyczny Centrum Medycyny Morskiej i Tropikalnej https://orcid.o
R
h Research Research Keywords: hypoxia, wavelet transform, blood pressure, subarachnoid space width, near infrared
spectroscopy Posted Date: June 29th, 2021 DOI: https://doi.org/10.21203/rs.3.rs-645557/v1 DOI: https://doi.org/10.21203/rs.3.rs-645557/v1 License: This work is licensed under a Creative Commons Attribution 4.0 International License. Read Full License Version of Record: A version of this preprint was published at Biological Research on December 1st, 2021. See the published version at https://doi.org/10.1186/s40659-021-00362-2. Key Words: hypoxia, wavelet transform, blood pressure, subarachnoid space width, near infrared
spectroscopy Abstract The aim of the study was to investigate the effect of mild cerebral hypoxia on
haemoglobin oxygenation (HbO2), cerebrospinal fluid dynamics and cardiovascular
physiology. To achieve this goal, four signals were recorded simultaneously: blood
pressure, ECG, HbO2 from right hemisphere and changes of SAS width from left
hemisphere. Signals were registered from 30 healthy, young participants (2 females
and 28 males, BMI = 24.5 ± 2.3 kg/m2, age 30.8 ± 13.4 years). We analysed the
recorded signals using wavelet transform (WT). We demonstrated for the first time
that in healthy subjects exposed to mild poikilokapnic hypoxia that there were
increases in very low frequency HbO2 oscillations (< 0.052 Hz) in prefrontal cortex. Additionally, SAS fluctuation diminishes in the whole frequency range which could be
explained by brain oedema. Consequently the study provides insight into
mechanisms governing brain response to a mild hypoxic challenge. Our study
supports the notion that HbO2 and SAS width monitoring might be beneficial for
patients with acute lung disease, including SARS-CoV-2. Mild poikilocapnic hypoxia increases very low frequency
haemoglobin oxygenation oscillations in prefrontal cortex Agnieszka Gruszecka1, Monika Waskow2, Marta A. Malkiewicz3,4, J. Patrick Neary5,
Jyotpal Singh5, Taylor Teckchandani5, Gregory P. Kratzig6, Magdalena Wszedybyl-
Winklewska7, Andrzej F. Frydrychowski8, Jacek Rumiński9, Natalia Głowacka9, Piotr
Lass10, Pawel J. Winklewski7, Marcin Gruszecki*1,9 1Department of Radiology Informatics and Statistics, Faculty of Health Sciences, Medical University of
Gdansk, Gdansk, Poland
2Institute of Health Sciences, Pomeranian University of Slupsk, Slupsk, Poland
3Applied Cognitive Neuroscience Lab, Department of Human Physiology, Medical University of Gdansk,
Gdansk, Poland
4Department of Psychiatry, Medical University of Gdansk, Gdansk, Poland
5Faculty of Kinesiology and Health Studies, University of Regina, Regina, Canada
6Department of Psychology, University of Regina, Regina, SK, Canada
7Department of Human Physiology, Faculty of Health Sciences, Medical University of Gdansk, Gdansk,
Poland
8NIRTI SA, Wroclaw, Poland
9Department of Biomedical Engineering, Faculty of Electronics, Telecommunications and Informatics,
Gdansk University of Technology, Gdansk, Poland
10Department of Nuclear Medicine, Medical University of Gdansk, Gdansk, Poland
*Corresponding author:
Marcin Gruszecki, PhD, DSc
Department of Radiology Informatics and Statistics, Medical University of Gdansk
Tuwima Str. 15, 80-210 Gdansk, Poland
E-mail: mgruszecki@gumed.edu.pl; Tel./Fax: +48 58 349-15-08 6Department of Psychology, University of Regina, Regina, SK, Canada *Corresponding author:
Marcin Gruszecki, PhD, DSc
Department of Radiology Informatics and Statistics, Medical University of Gdansk
Tuwima Str. 15, 80-210 Gdansk, Poland
E-mail: mgruszecki@gumed.edu.pl; Tel./Fax: +48 58 349-15-08 Introduction Hypoxia is frequently observed in a number of clinical situations such as lung disease,
sleep apnoea, as well as cardiac and cerebrovascular dysfunction associated with
aging. Mild hypoxia is also an eminent feature of the respiratory distress syndrome
evoked by the coronavirus (SARS-CoV-2). A number of cognitive and neuropsychiatric
manifestations of SARS-CoV-2 have been observed in a proportion of patients such
as depressed mood, anxiety, post-traumatic stress disorder and cognitive decline. Although these are multifactorial, changes in cerebral oxygen supply and related
pathophysiological consequences may play a role (Alonso-Lana et al. 2020). It is well-known that hypoxia leads to a decline in haemoglobin oxygenation (HbO2) in
cerebral cortex (Hampson et al. 1990). Diminished oxygen supply to the brain results
in several compensatory mechanisms, which in turn trigger substantial changes in various aspects of brain functioning. Augmented cerebral blood flow (Kety and Schmidt
1948) and cerebral blood volume (Dubowitz et al. 2009; DiPasquale et al. 2016)
together with blood-brain barrier impairment (Halder and Milner 2020) lead to discrete
brain oedema and increases in intracranial pressure (Dubowitz et al. 2009; DiPasquale
et al. 2016). Furthermore, brain hypoxia results in a number of metabolic changes
associated with an augmented cerebral metabolic rate of oxygen, lactate and
glutamate concentrations accompanied by a diminished creatinine concentration. Taken together, these metabolic alterations suggest higher neural activity and
increased oxidative metabolism (Vestergaard et al. 2016). The autoregulation dogma is constantly challenged with increasing emphasis on either
local neural or metabolic mechanisms (Saleem et al. 2016; Marina et al. 2020). The
role of intracranial pressure in the feedback loops regulating widely understood
cerebral metabolic homeostasis is continuously highlighted (Winklewski et al. 2019;
Marina et al. 2020). Consequently, in this study we aimed at assessing the effect of
hypoxia on the oscillatory behaviour of blood pressure (BP), oxygenated haemoglobin
(HbO2), electrocardiogram (ECG), and subarachnoid space (SAS) width using
established non-invasive methods (Ferrari and Quaresima 2012, Gruszecki et al. 2018). The relative concentrations of the oxygenated and deoxygenated haemoglobin can be
measured in the prefrontal area with near infrared spectroscopy (NIRS) (Ferrari and
Quaresima 2012). Oscillatory changes in the SAS width, reflecting cerebrospinal fluid
pulsatility (Gruszecki et al. 2018), can be instantly monitored with the method
developed by our team, called near-infrared transillumination-backscattering sounding
(NIR-T/BSS) (Frydrychowski et al. 2002; Frydrychowski et al 2011, Gruszecki et al. 2018). Both methods can be used simultaneously (Gruszecka et al. 2020). Introduction Wavelet
transform analysis of biological signals can elegantly quantify and delineate the
investigated interactions in both frequency and time domains (Stefanovska et al. 1999;
Saleem et al. 2016). We hypothesized that mild hypoxia would increase the prominence of very low-
frequency HbO2 local brain oscillations while maintaining or even decreasing the impact of central oscillatory components generated by the heart and lungs. We also
expected SAS oscillations to diminish in the whole frequency range as a result of
simulated altitude at approximately 2900 - 3000 m. impact of central oscillatory components generated by the heart and lungs. We also
expected SAS oscillations to diminish in the whole frequency range as a result of
simulated altitude at approximately 2900 - 3000 m. Results Four signals were continuously and simultaneously recorded from the volunteers: BP,
ECG, HbO2 RIGHT and SASLEFT while breathing normal room air (19.8% O2), and during
normobaric hypoxia (14.8% O2) in an environmental chamber to simulate altitude at
2900-3000m. The atmospheric pressure for whole time of experiment was kept at the
same level 712 mmHg, while the level of oxygen during normobaric hypoxia was
reduced to 14.8%. A gas mixture of 19.8% O2 was used as the normoxic condition as
this is the native partial pressure of oxygen in Regina, Saskatchewan, Canada (577
meters above sea level) where the testing was performed. According to nonparametric
Wilcoxon rank sum test (see Table 1) there was a statistically significant drop in
amplitude of all measured signals during mild normobaric hypoxia. Gas mixture with
19.8% O2
Gas mixture with
14.8% O2
HR [beats/min]
61.2±3.6
66.6±3.4***
DBP [mmHg]
65.17±9.65
68.16±9.34*
SBP [mmHg]
112.79±14.51
119.67±13.08***
MAP [mmHg]
81.04±10.88
85.32±10.06*
SASLEFT [AU]
0.22±0.01
0.19±0.01*
HbO2 RIGHT [%O2]
0.72±0.28
0.45±0.13***
tHb [µM]
12.03±0.43
15.27±0.51**
SaO2 [%O2]
97.81±0.61
92.67±0.97***
EtCO2 [mmHg]
32.95±3.16
30.61±3.25***
EtO2 [mmHg]
128.74±3.29
93.66±3.67***
Table 1: Subject characteristics during breathing a gas mixture with 19.8% and 14.8% O2. Values shown
are mean ± standard deviation. p-values were estimated between two stages of the experimental
procedure. *p < 0.05; **p < 0.01; ***p < 0.001. Used abbreviation: HR – heart rate, DBP – diastolic
blood pressure, SBP – systolic blood pressure, MAP – mean arterial pressure, SASLEFT – subarachnoid
width, HbO2 RIGHT - relative changes in oxyhaemoglobin, tHb - relative changes in total haemoglobin
SaO2 – oxyhaemoglobin saturation, EtCO2 – end-tidal CO2, EtO2 - end-tidal O2. Table 1: Subject characteristics during breathing a gas mixture with 19.8% and 14.8% O2. Values shown
are mean ± standard deviation. p-values were estimated between two stages of the experimental
procedure. *p < 0.05; **p < 0.01; ***p < 0.001. Used abbreviation: HR – heart rate, DBP – diastolic
blood pressure, SBP – systolic blood pressure, MAP – mean arterial pressure, SASLEFT – subarachnoid
width, HbO2 RIGHT - relative changes in oxyhaemoglobin, tHb - relative changes in total haemoglobin
SaO2 – oxyhaemoglobin saturation, EtCO2 – end-tidal CO2, EtO2 - end-tidal O2. Table 1: Subject characteristics during breathing a gas mixture with 19.8% and 14.8% O2. Values shown
are mean ± standard deviation. p-values were estimated between two stages of the experimental
procedure. *p < 0.05; **p < 0.01; ***p < 0.001. Results Used abbreviation: HR – heart rate, DBP – diastolic
blood pressure, SBP – systolic blood pressure, MAP – mean arterial pressure, SASLEFT – subarachnoid
width, HbO2 RIGHT - relative changes in oxyhaemoglobin, tHb - relative changes in total haemoglobin
SaO2 – oxyhaemoglobin saturation, EtCO2 – end-tidal CO2, EtO2 - end-tidal O2. Figure 1 shows the result of the amplitude of the wavelet transform (WT) for one
representative volunteer. Left and right columns of Fig. 1 corresponds to breathing a
gas mixture with 19.8% and 14.8% O2, respectively. We estimated WT for all four
measured signals: BP (a, e), ECG (b, f), HbO2 RIGHT (c, g) and SASLEFT (d, h). Cardiac
oscillations (~1 Hz) are clearly visible for the whole duration of all signals. Additionally,
collected signals (excluding ECG) manifest over a wide frequency range, but SASLEFT
and HbO2 RIGHT signals have more prominent low frequency components than BP
signal (Gruszecka et al. 2020). To simplify the comparison between two stages of experimental procedure in terms of
their frequency content, we plotted the median of the time-averaged amplitude of
wavelet transforms (Figure 2). In this plot, we added six different frequency intervals
which correspond to different physiological functions described previously by
Stefanovska et al. 1999 and Gruszecki et al. 2018. Additionally, we estimated the p-
value of the differences between the results for breathing a gas mixture with 19.8%
and 14.8% O2 for all measured signals. We observed the highest differences (p<0.001)
for WT amplitude for SASLEFT for all frequency intervals. For HbO2 RIGHT the differences
between amplitude of wavelet transform were associated with respiration (II, 0.145–
0.6 Hz), neurogenic (IV, 0.021–0.052 Hz), endothelial nitric oxide (NO) dependent (V,
0.0095–0.021) and NO independent (VI, 0.005–0.0095 Hz). In turn, WT amplitude of
the BP signal only has differences (p<0.05) in myogenic (III, 0.052–0.145 Hz) and
neurogenic (IV) intervals. We did not observe any statistically significant differences
for the ECG signal. Figure 1: Wavelet transform of recorded signals: BP (a and e), ECG (b and f), HbO2 RIGHT (c and g) and
SASLEFT (d and h) for one of the volunteers. Left (right) columns of plots illustrate results for breathing
a gas mixture with 19.8% (14.8%) O2. Figure 1: Wavelet transform of recorded signals: BP (a and e), ECG (b and f), HbO2 RIGHT (c and g) and
SASLEFT (d and h) for one of the volunteers. Results Left (right) columns of plots illustrate results for breathing
a gas mixture with 19.8% (14.8%) O2. Figure 3 illustrates the wavelet phase coherence (left column) and phase difference
(right column) between pairs of all collected signals. The value of phase coherence
was significant when the value of phase coherence was higher than 95th percentile of
435 (2-permutation of 30 subjects) inter-subject surrogate. When we observed
statistically significant phase coherence at certain frequencies, we assumed the same
for phase differences. For phase coherence we found statistically significant
differences for BP-SASLEFT and BP-ECG only for the cardiac interval. We did not
observe any statistically significant difference for phase difference for all considered
pairs of signals. edian (thick lines) of the time-averaged wavelet transforms of signals recorded in all
BP, (b) ECG, (c) HbO2 RIGHT and (d) SASLEFT obtained from the 30 minutes continuo
haded areas indicate the inter-quartile range (25th, 75th percentiles). Red (blue) lines a
correspond to breathing a gas mixture with 19.8% (14.8%) O2. *p < 0.05; **p < 0.01; ** Figure 2: Median (thick lines) of the time-averaged wavelet transforms of signals recorded in all 30
subjects: (a) BP, (b) ECG, (c) HbO2 RIGHT and (d) SASLEFT obtained from the 30 minutes continuous
recordings. Shaded areas indicate the inter-quartile range (25th, 75th percentiles). Red (blue) lines and
shade areas correspond to breathing a gas mixture with 19.8% (14.8%) O2. *p < 0.05; **p < 0.01; ***p
< 0.001. e 3: Median (thick lines) of wavelet phase coherence (left column) and phase differen
mn) between (a, g) BP vs SASLEFT, (b, h) BP vs HbO2, (c, i) BP vs ECG, (d, j) ECG vs SASLEFT, (e
bO2 and (f, l) SASLEFT vs HbO2. Coloured shading indicates the interquartile range (25
entiles) for 30 subjects. Coherence below the 95th percentile of the surrogates (light grey
ing) is not considered significant. Red (blue) lines and shade areas correspond to breathi
ure with 19.8% (14.8%) O2. *p < 0.05; **p < 0.01; ***p < 0.001. Figure 3: Median (thick lines) of wavelet phase coherence (left column) and phase difference (right
column) between (a, g) BP vs SASLEFT, (b, h) BP vs HbO2, (c, i) BP vs ECG, (d, j) ECG vs SASLEFT, (e, k) ECG
vs HbO2 and (f, l) SASLEFT vs HbO2. Coloured shading indicates the interquartile range (25th, 75th
percentiles) for 30 subjects. Results Coherence below the 95th percentile of the surrogates (light grey line and
shading) is not considered significant. Red (blue) lines and shade areas correspond to breathing a gas
mixture with 19.8% (14.8%) O2. *p < 0.05; **p < 0.01; ***p < 0.001. Discussion The novel findings of our study showed that mild poikilocapnic hypoxia increases the
very low frequency HbO2 oscillations (< 0.052 Hz) in prefrontal cortex while diminishing
SAS oscillations in the whole frequency range. In addition we confirmed that prefrontal
cortex HbO2 and SAS width decline during exposure to lowered oxygen partial
pressure. In recent years there has been an increased interest in cerebrovascular mechanisms
related to normal and pathological physiology. As such, we have witnessed a
substantial paradigm shift in our thinking in regard to brain perfusion control
mechanisms. The increasing accumulation of evidence suggests that astrocytes act
as physiological sensors reacting to changes in the brain parenchymal levels of
metabolic substrates (such as oxygen), cerebral perfusion and intracranial pressure
changes (Angelova et al. 2015, Marina et al. 2018, Turovsky et al. 2020, Marina et al. 2020). In particular, astrocytes might be responsible for local cellular signalling
mechanisms adjusting cerebral perfusion to brain metabolic needs (Marina et al. 2020). Our study strongly supports the view that local brain mechanisms, rather than systemic
control-level mechanisms are responsible for adaptation to mild poikilocapnic
(normoxic) hypoxia. We observed decreases in respiratory contribution to HbO2
prefrontal cortex oscillations, while at the same time observing substantially increased
very low frequency HbO2 oscillations (< 0.052 Hz). Very low frequency periodic
dynamism is believed to reflect neural sympathetic and metabolic activity (Saleem et
al. 2016, Chow et al. 2007), and is most likely linked to increased neural metabolism
(Vestergaard et al. 2016). Prefrontal cortex HbO2 fluctuations at the 0.145 – 0.052 Hz frequency were reported
to be linked to general BP oscillations (van Beek et al. 2012, Vermeij et al. 2014, Yunjie
et al. 2010). In response to normobaric hypoxia, BP fluctuations did not change in the
0.145 – 0.052 frequency. We also did not observe any phase difference in the HbO2
and BP signals. Stabilisation of BP-brain signals oscillations at the 0.145 – 0.052 Hz
frequency are most likely driven by increased sympathetic activity related to hypoxia
and slightly increased intracranial pressure (Talbot et al. 2005, Dubowitz et al. 2009, DiPasquale et al. 2016). We have previously shown that high sympathetic drive
strengthen the links between BP and SAS signal (Winklewski et al. 2019). Slightly increased intracranial pressure and discrete brain swelling previously reported
in hypoxia could have resulted in a decline of SAS oscillations across the whole
frequency range. Discussion Although we cannot confirm discrete brain swelling from our study,
our findings extend previous results collected in our laboratory where healthy subjects
were exposed to 5 minutes of poikilokapnic (normobaric) hypoxia, and we observed a
trend towards a decline in SAS width and diminished BP-SAS amplitude coupling
(Wszedybyl-Winklewska et al. 2017). In the current study, we observed diminished BP-
SAS and ECG-BP phase coherences within the cardiac frequency band. Suppression
of respiratory SAS oscillations were reported previously by our team as an early
indicator of rising intracranial pressure in rabbit (Frydrychowski et al. 2011). A decline
in the modulation of cerebral blood flow by even moderately increased intracranial
pressure was also observed in humans (Haubrich et al. 2007). This study used poikilocapnic (normobaric) hypoxia to challenge whether EtCO2
fluctuations varied in response to reflexive hyperventilation. We preferred this over an
isocapnic hypoxic challenge, defined by hypoxia in the presence of maintained CO2
within the bloodstream, as we believe our chosen methodology better mimicked clinical
conditions. A gas mixture of 19.8% O2 was used as the normoxic condition as this is
the native partial pressure of oxygen in Regina, Saskatchewan, Canada (577 meters
above sea level) where the testing was performed. Our study demonstrates that clinical situations associated with even mild cerebral
hypoxia may result in several pathophysiological adaptations including changes in
brain metabolism and cerebrospinal fluid dynamics. Non-invasive modalities that
enable continuous brain monitoring could provide several benefits to patients suffering
from diseases associated with declined brain oxygenation, stroke or traumatic brain
injury. Experimental design Two tests of breathing a gas mixture with 19.8% and 14.8% O2 were conducted
in a quiet room and environmental chamber. Room and chamber were pre-set to a
temperature of 18–20 °C. After all of the medical research equipment was attached to
the volunteer participant (see Measurements below), they were instructed to lie supine
on a bed with a pillow to support their head during breathing a gas mixture of normal
room air (19.8% O2) and during normobaric hypoxia (14.8% O2). The first 30 minutes
of experiment, subjects were asked to breath room air (19.8% O2), and then they
moved to the environmental chamber with the aid of a research assistant (it took about
3-5 minutes). During the next 30 minutes, volunteer subjects breathed freely in the
hypoxic chamber with reduced levels of oxygen (14.8%). The hypoxic oxygen condition
mimiced the elevation of approximately 2900-3000 meters above sea level. Subjects A group of 30 healthy and not smoking volunteers (28 males and 2 females, age
30.8±13.4 years, BMI = 24.5±2.3 kg/m2) were involved in the experiments, which were
carried out in accordance with the recommendations of Helsinki. The Ethics Committee
of University of Regina (REB#2017-013) approved this study and the experimental
protocol. All subjects were older than 18 years and signed a consent form to participate
in the study. Participants were asked to avoid any alcohol at least 24 hours before the
experiment, and tea, coffee, nicotine, cocoa and any food and beverages containing
methylxanthine for at least 12 hours before the experiment. Intense exercise training
was not allowed at least 6 hours prior to testing, and all subjects were asked to void
their bladder within 30 minutes of testing. All procedures were preceded by 10 minutes
of rest in the sitting position in a comfortable chair located in quiet room. Conclusions In subjects exposed to mild poikilokapnic hypoxia we have demonstrated for the first
time that: 1) very low HbO2 oscillations (< 0.052 Hz) increase in prefrontal cortex, and
2) SAS fluctuation diminishes in the whole frequency range. Consequently the study provides insights into the physiological mechanisms governing brain response to a mild
hypoxic challenge. Our study supports the notion that HbO2 and SAS width monitoring
might be beneficial for patients with acute lung disease, including SARS-CoV-2. Measurements A Finometer (Finapres Medical Systems, Arnhem, The Netherlands) was used
to measure heart rate (HR) and BP. Finger photoplethysmography BP was calibrated against brachial arterial pressure. The signal was collected from the left middle finger
at all times during both normoxia (19.8% O2) and hypoxia (14.8% O2). Oxyhaemoglobin
saturation (SaO2) was measured using a Nellcor PM10N Portable SpO2 Patient
Monitoring System (Medtronic Canada, Vancouver, BC). During the experiment, the
device was placed on the right index finger. Expired respiratory gas samples from the
mouthpiece were constantly analysed using the side-stream technique for end-tidal
CO2 (EtCO2) using AD Instruments ML206 gas analyser (Colorado Springs, USA). SAS signal was collected using an SAS Monitor (NIRTI SA, Wierzbice, Poland). A
detailed description of the SAS Monitor has been provided previously (e.g. Gruszecki
et al. 2018). The NIRS signal was collected by PortaLite system (Artinis Medical, The
Netherlands). The sensor was positioned over pre-frontal cortex of the right
hemisphere during the experiment. NIRS contains transmitters at 30, 35 and 40 mm
from the receiver, which allows a penetration depth of approximately one-third to one-
half of the distance between optodes (Cui et al. 1991). During the experiment, we
collected the following NIRS signals: relative changes in oxy- (HbO2), deoxy- (HHb),
total haemoglobin (tHb = HbO2 + HHb) and haemoglobin difference (Hbdiff = HbO2-
HHb). To avoid admission of background light the NIRS sensor was secured with a
black coloured tensor bandage. We decided to analyse a NIRS signal that penetrate
the deepest regions of head to be sure that we truly analyse signals from brain vessels. Like many others, (Bernjak et al. 2012, Cui et al. 2014, Kim et al. 2020) we focused
our analyses on the oxyhaemoglobin (HbO2) signal. Additionally, to avoid any
interference between NIRS and SAS signals, we recorded only SASLEFT from left
hemisphere. All parameters were recorded and saved simultaneously for further analysis. This was
completed for both segments, with the first 30 minute normoxic condition completed
first, followed by the subsequent 30 minute normobaric hypoxic second. To import and
view collected signals, a PowerLab 8/32 amplifier was coupled with LabChart 7 Pro
(AD Instruments, Colorado Springs, Colorado, USA). All signals before analysis were
down sampled to 10 Hz, detrended using a moving average with a window size of 220
seconds, and normalized by subtraction of their mean and division by their standard
deviation. Measurements Wavelet transform To detect and perform analysis of physiological processes that are responsible
for generating oscillations in the cardiovascular system, we used wavelet analysis. The
wavelet transform is a method that transforms a signal from the time domain to the
time-frequency domain. The definition of the wavelet transform is: 𝑊(𝑠, 𝑡) =
1
√𝑠∫
𝜑(
𝑢−𝑡
𝑠)
+∞
−∞
𝑔(𝑢)𝑑𝑢, where 𝑊(𝑠, 𝑡) is the wavelet coefficient, 𝑔(𝑢) is the time series and 𝜑 is the Morlet
mother wavelet, scaled by factor 𝑠 and translated in time by 𝑡. The Morlet mother
wavelet is defined by the equation: 𝜑(𝑢) =
1
√𝜋
4
exp(−𝑖2𝜋𝑢)exp(−0.5𝑢2), where 𝑖= √−1. The rationale for using the Morlet wavelet is that it affords good
localization of events in time and frequency due to its Gaussian shape (Bernjak et al. 2012). The wavelet coefficients are complex numbers in the time-frequency plane
when the Morlet wavelet is used: where 𝑖= √−1. The rationale for using the Morlet wavelet is that it affords good
localization of events in time and frequency due to its Gaussian shape (Bernjak et al. 2012). The wavelet coefficients are complex numbers in the time-frequency plane
when the Morlet wavelet is used: 𝑋(𝜔𝑘, 𝑡𝑛) = 𝑋𝑘,𝑛= 𝑎𝑘,𝑛+ 𝑖𝑏𝑘,𝑛. They define the instantaneous relative phase, 𝜃𝑘,𝑛= arctan(
𝑏𝑘,𝑛
𝑎𝑘,𝑛), and the absolute amplitude, |𝑋𝑘,𝑛| = √𝑎𝑘,𝑛
2
+ 𝑏𝑘,𝑛
2 , |𝑋𝑘,𝑛| = √𝑎𝑘,𝑛
2
+ 𝑏𝑘,𝑛
2 , for each frequency and time. for each frequency and time. During the measurement, hypoxia may create phase modulations. A mathematical tool
to find the relationship between the phases of two signals is the wavelet phase
coherence (WPCO). WPCO enables us to determine whether the oscillations detected
are significantly correlated over time. To estimate the WPCO we used the following
expression (Lachaux et al. 2002): 𝐶𝜃(𝑓𝑘) =
1
𝑛|∑
exp[𝑖(𝜃2𝑘,𝑛−𝜃1𝑘,𝑛)]
𝑛
𝑡=1
|, where 𝜃𝑘,𝑛= arctan(
𝑏𝑘,𝑛
𝑎𝑘,𝑛) is an instantaneous measure of phases at each time tn and
frequency 𝑓𝑘 for both signals. When two oscillations are unrelated (related), their phase
difference continuously changes (remain constant) with time, thus their 𝐶𝜃(𝑓𝑘)
approaches zero (one). Additionally, we can calculate the phase difference ∆𝜃𝑘, which provides information
about the phase lag of one oscillator compared to the other: ∆𝜃𝑘= 𝑎𝑟𝑐𝑡𝑎𝑛(
1
𝑛∑
𝑠𝑖𝑛(∆𝜃2𝑘,𝑛−∆𝜃1𝑘,𝑛)
𝑛
𝑡=1
1
𝑛∑
𝑐𝑜𝑠(∆𝜃2𝑘,𝑛−∆𝜃1𝑘,𝑛)
𝑛
𝑡=1
), where∆𝜃𝑘∈(−180°, 180°). Statistical analysis To avoid the assumption of normality in the results, nonparametric statistical
tests were used for all comparisons. The Wilcoxon rank sum test was used to compare
whether the median of results for breathing a gas mixture with 19.8% O2 and 14.8%
O2 was significantly different. The results of our calculations are found in Tables 1 and
Figures 2, and 3. To test whether the estimated values of phase coherence are statistically significant,
the surrogate data testing method was used (Lancaster et al. 2018). As we know there
are naturally less cycles of oscillations the lower in frequency that we consider. This
can cause artificially increased wavelet phase coherence at low frequencies, even in
cases where there is none. The surrogate analysis helps us to find a significance level
above which the phase coherence may be regarded as physically meaningful. To
estimate significance level, we used intersubject surrogates (Sun et al. 2012), which
assumes that the signals collected from different subjects must be independent, while
having similar characteristic properties. The actual value of phase coherence obtained
at each frequency can then be compared with the surrogate threshold. When the phase
coherence is located above the threshold it is considered to be statistically significant. Authors’ contributions Conceived and designed the experiments: A.G., M.G., J.P.N., P.J.W. Performed the
experiments: J.S., T.T., M.G. Analysed the data: A.G. M.G. Contributed
reagents/materials/analysis tools: M.A.M., P.N., G.P.K., M.W.W., A.F., J.R., N.G.,
A.G., P.L., M.G. Co-wrote the paper: A.G., M.G., P.J.W. All authors reviewed the
manuscript and agreed to publish the paper. Acknowledgements We would like to thank all of the volunteer participants that contributed their valuable
time to these experiments. Funding Dr Marcin Gruszecki was supported by the NCN-grant number 2018/02/X/NZ4/00464. Competing interests Profs Andrzej F. Frydrychowski and Pawel J. Winklewski are stakeholders in NIRTI
SA. The other authors declare no competing interests. Data Availability Statement The data presented in this study are available on request from the corresponding
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Visusverschlechterung nach intravitrealer Injektion von Dexamethason im vitrektomierten Auge
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Der Ophthalmologe
Bild und Fall
Ophthalmologe 2021 · 118:1051–1053
https://doi.org/10.1007/s00347-021-01328-1
Eingegangen: 22. Dezember 2020
Überarbeitet: 17. Januar 2021
Angenommen: 19. Januar 2021
Online publiziert: 12. März 2021
© Der/die Autor(en) 2021
Victoria Reitmeier1 · Christoph Kern1 · Maria Poimenidou1 · Ines M. Lanzl2
Anamnese
zeigten sich am rechten Auge im Bereich
der Fovea intraretinale Zysten im Bereich
der äußeren plexiformen Schicht im Sinne eines zystoiden Makulaödems bei einer Netzhautdicke von 350 μm (. Abb. 1).
Ein 56-jähriger Patient stellte sich zur
weiteren Behandlung eines postoperativ
persistierenden zystoiden Makulaödems
in unserer Praxis vor. Bei epiretinaler
Gliose durch eine Uveitis unklarer Ursache wurden beide Augen vor 5 Jahren
mit Membranpeeling plus Vitrektomie
ophthalmochirurgisch versorgt. Binnen
der letzten 3 Jahre erfolgte bereits mehrfach die intravitreale Gabe von VEGFInhibitoren durch einen niedergelassenen Kollegen. Hierdurch wurde am
linken Auge ein stabiler, trockener Netzhautbefund mit einer bestkorrigierten
Sehschärfe (BCVA) von 0,7 dezimal erreicht. Bei ausgeprägterem Befund und
schwankender BCVA zwischen 0,3 und
0,5 am rechten Auge fand die letzte
intravitreale Injektion mit Aflibercept
8 Wochen vor Erstvorstellung in unserer Praxis statt. Laut Übernahmebericht
wurde im Behandlungsverlauf unter
Aflibercept das beste therapeutische
Ansprechen erreicht.
1
2
Chiemsee Augen Tagesklinik, Prien am Chiemsee, Deutschland
Klinikum rechts der Isar der Technischen Universität München, München, Deutschland
Visusverschlechterung nach
intravitrealer Injektion von
Dexamethason im
vitrektomierten Auge
Behandlungsverlauf
Aufgrund der uveitischen Genese des
Makulaödems und damit assoziierter
entzündlicher Komponente entschieden
wir uns initial für die probatorische
Gabe von Nepafenac 3 mg/ml Augentropfen 2-mal täglich am rechten Auge
und Verlaufskontrollen im Abstand von
6 Wochen. Dies entspricht nicht den
Leitlinien der DOG zur Behandlung des
Makulaödems bei Uveitis [1], jedoch
wurde vom Patienten zunächst eine
nichtinvasive Therapie gewünscht.
Hierunter verschlechterte sich die
BCVA auf 0,2 mit Zunahme der intraretinalen Flüssigkeit in der OCT. Bei
schwankendem therapeutischem Ansprechen auf die Gabe von VEGF-Inhibitoren in der Vergangenheit entschieden
wir uns deshalb für Dexamethason intravitreal (0,7 mg Dexamethason; Ozurdex,
Pharm Allergan GmbH, Frankfurt/M.,
Deutschland). Die Injektion des Implantats verlief komplikationslos.
Der Patient bemerkte jedoch sofort
bei der Injektion eine plötzliche Visusverschlechterung, teilte dies der behandelnden Ärztin nicht mit, wie wir retrospektiv erfahren haben. Den Infektionsängsten zu Beginn der COVID-19Pandemie geschuldet, erschien er nicht
zur vereinbarten postoperativen IVOMKontrolle in unserer Praxis.
Bei Wiedervorstellung 8 Wochen
später wurde eine BCVA von 1/25 Metervisus erreicht, der Augeninnendruck
lag bei 31 mmHg. Fundoskopisch zeigten
sich im papillomakulären Bereich intraretinale Blutungen und eine gelbliche
scharf umschriebene Läsion parafoveal
(. Abb. 2 und 3).
Klinischer Befund
Bei Erstuntersuchung präsentierte sich
der Patient mit einer BCVA von 0,6 am
rechten und 0,8 am linken Auge. Die
vorderen Augenabschnitte waren reizfrei, der Patient pseudophak. Bis auf Pigmentepithelverschiebungen im Bereich
der Makula und einem zystoiden Makulaödem war der fundoskopische Befund am rechten Auge unauffällig. In der
optischen Kohärenztomographie (OCT)
Abb. 1 8 OCT des rechten Auges bei Erstvorstellung in unserer Praxis. Es zeigt sich intraretinale Flüssigkeit mit Aufhebung der fovealen Kurvatur
Der Ophthalmologe 10 · 2021
1051
Bild und Fall
Abb. 2 8 Fundusfotografie des rechten Auges
mit heller intra- und subretinaler Läsion und umgebenden intra- und subretinalen Blutungsresten im temporal oberen papillomakulären Bündel
Abb. 3 8 OCT des rechten Auges im Bereich der fundoskopischen Läsion mit subretinaler solider Pigmentepithelabhebung
D Wie lautet Ihre Diagnose?
Das persistierende intraretinale zystoide
Makulaödem nach vitreoretinaler Chi-
rurgie konfrontiert behandelnde Ärzte
oft mit ausbleibenden Visusverbesserungen, jedoch begrenzten therapeutischen
Optionen. Bei intraretinalem zystoidem
Ödem nachUveitis istdie Gabe vonOzurdex auch im vitrektomierten Auge eine
therapeutische Option mit gutem Sicherheitsprofil und in der Regel komplikationsarmem Behandlungsverlauf [2, 3].
Bisher unauffällige Anti-VEGF-Injektionen und eine Bulbuslänge von 22,3 mm
haben uns ex ante keinerlei Hinweise für
ein erhöhtes Komplikationsrisiko gegeben. Gemäß den Herstellerangaben wurde der Applikator parallel zum Limbus
eingebracht und für die Injektion senkrecht zum Zentrum des Auges Richtung
hinterer Augenpol ausgerichtet [3].
Dies führte bei unserem Patienten
zu einem traumatischen Netzhautschaden, welcher in der Literatur als eine
äußerst seltene Komplikation sowohl bei
vitrektomierten als auch in nicht ophthalmochirurgisch versorgten Augen
bereits vorbeschrieben wurde [4–7].
Abb. 4 8 Fundusfotografie des rechten Auges
3 Monate nach traumatischem Netzhauschaden
Abb. 5 8 OCT des rechten Auges mit Rückgang der fibrosierten Abhebung bei bestehendem Verlust
der ellipsoiden Zone
Therapieverlauf
Zur Therapie verordneten wir am rechten Auge topisch Nepafenac 3 mg/ml Augentropfen 2-mal täglich und Dorzolamid 20 mg/ml /Timolol 5 mg/ml Augentropfen 2-mal täglich sowie oral 90 mg
Celecoxib 1-mal täglich. Hierunter wurde im weiteren Behandlungsverlauf eine
BCVA von 0,16 unter fundoskopischer
Remission der Blutung und Resorption
der Fibrinmassen erreicht (. Abb. 4).
Bei Rückgang der subretinalen soliden Pigmentepithelabhebung blieb in der
OCT ein Verlust der äußeren Netzhautschichten, vornehmlich der ellipsoiden
Zone zurück (. Abb. 5). Das linke Auge zeigte im gesamten Behandlungszeitraum einen stabilen Befund klinisch und
in der OCT.
Diskussion
1052
Der Ophthalmologe 10 · 2021
Christensen et al. vermuteten in Konsequenz einen verstärkten Einfluss des
veränderten Injektionsmediums nach Vitrektomie durch Fehlen kollagener Fasern, Hyaluronsäure und Opticin und
stellten unterschiedliche Kräfte bei Injektion von Ozurdex in verschiedene Medien fest [4]. Vorausgegangene komplikationslose Injektionen von Ozurdex im
vitrektomierten Auge bei Casati et al.
relativieren diese Vermutung und lassen den traumatischen Netzhautschaden
als eher schwer quantifizierbar einstufen [5]. Meyer et al. vermaßen die Mündungsgeschwindigkeit des Ozurdex-Implantates beim Verlassen des Injektors
mit einer Hochgeschwindigkeitskamera
in Glaskörper und Wasser [8]. Ihre Ergebnisse lassen darauf schließen, dass der
direkte Impakt auf die Netzhaut in beiden Fällen keinen Schaden auslösen sollte. Die Autoren stellen auch klar, dass die
Injektionsgeschwindigkeit des Implantates durch den Druck gesteuert werden
kann, mit dem man auf den Abzugs-
knopf drückt. Deshalb ist es gerade bei
bereits vitrektomierten Augen wichtig,
dass man den Auslöser langsam herunterdrückt. Darüber hinaus ist als Konsequenz aus unserem Fall der Injektionswinkel Richtung hinterer Pol, wie in der
Gebrauchsanweisung beschrieben, im vitrektomierten Auge zu überdenken. Unserer Meinung nach sollte dieser nicht direkt auf den hinteren Pol, sondern leicht
nach nasal ausgerichtet werden, um eine Läsion des papillomakulären Bündels,
wie in unserem Fall, zu vermeiden. Eine Aufklärung über die Möglichkeit der
traumatischen retinalen Läsion sollte immer und v. a. bei vitrektomierten Augen
vor der Injektion erfolgen.
Diagnose: traumatischer
»Netzhautschaden
nach
Injektion eines DexamethasonImplantates
In der OCT zeigte sich die fundoskopische Läsion als umschriebene fibrosierte
Abhebung. Bei zentraler Netzhautdicke
von 240 μm war nun eine Atrophie der
vornehmlich äußeren Netzhautschichten
mit komplettem Verlust der ellipsoiden
Zone zu erkennen. In Zusammenschau
der Befunde diagnostizierten wir deshalb
einen durch das Dexamethason-Implantat hervorgerufenen traumatischen Netzhautschaden mit konsekutiver, vermutlich traumatisch und durch Blutabbauprodukte bedingter Atrophie im oberen
Bereich des hinteren Pols in einem vitrektomierten Auge (. Abb. 5).
Fazit für die Praxis
4 Injektionswinkel von Ozurdex im
Korrespondenzadresse
Ines M. Lanzl
Klinikum rechts der Isar der Technischen
Universität München
München, Deutschland
il@auge.bayern
Funding. Open Access funding enabled and organized by Projekt DEAL.
Einhaltung ethischer Richtlinien
Interessenkonflikt. I.M. Lanzl weist auf folgende
Beziehungen hin: Honoraria für Vorträge von Bayer,
Santen und Thea Pharma. C. Kern weist auf folgende
Beziehungen hin: Honoraria für Vorträge von Bayer.
V. Reitmeier und M. Poimenidou geben an, dass kein
Interessenkonflikt besteht.
Für diesen Beitrag wurden vom Autor keine Studien
an Menschen oder Tieren durchgeführt. Für die aufgeführten Studien gelten die jeweils dort angegebenen
ethischen Richtlinien. Für Bildmaterial oder anderweitige Angaben innerhalb des Manuskripts, über die
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oder ihren gesetzlichen Vertretern eine schriftliche
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vitrektomierten Auge überdenken.
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Altered inflammasome machinery as a key player in the perpetuation of Rett syndrome oxinflammation
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Redox biology
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Altered inflammasome machinery as a key player in the perpetuation of Rett
syndrome oxinflammation Alessandra Pecorellia,l, Valeria Cordonea,b,1, Nicolò Messanoa, Changqing Zhangc,
Stefano Faloned, Fernanda Amicarellid, Joussef Hayeke, Giuseppe Valacchia,b,f,∗ a Plants for Human Health Institute, Dept. of Animal Science, NC Research Campus, NC State University, Kannapolis, 28081, NC, USA
b Dept. of Biomedical and Specialist Surgical Sciences, University of Ferrara, 44121, Ferrara, Italy
c Plants for Human Health Institute, Dept. of Plant and Microbial Biology, NC Research Campus, NC State University, Kannapolis, 28081, NC, USA
d Dept. of Life, Health and Environmental Sciences, University of L'Aquila, 67100, L'Aquila, Italy
e Child Neuropsychiatry Unit, University General Hospital, Azienda Ospedaliera Universitaria Senese, 53100, Siena, Italy
f Dept. of Food and Nutrition, Kyung Hee University, 02447, Seoul, South Korea A B S T R A C T Keywords:
NLRP3
ASC
Inflammatory status
Cytokines
MeCP2 Rett syndrome (RTT) is a progressive neurodevelopmental disorder mainly caused by mutations in the X-linked
MECP2 gene. RTT patients show multisystem disturbances associated with an oxinflammatory status. Inflammasomes are multi-protein complexes, responsible for host immune responses against pathogen infections
and redox-related cellular stress. Assembly of NLRP3/ASC inflammasome triggers pro-caspase-1 activation, thus,
resulting in IL-1β and IL-18 maturation. However, an aberrant activation of inflammasome system has been
implicated in several human diseases. Our aim was to investigate the possible role of inflammasome in the
chronic subclinical inflammatory condition typical of RTT, by analyzing this complex in basal and lipopoly-
saccharide (LPS)+ATP-stimulated primary fibroblasts, as well as in serum from RTT patients and healthy vo-
lunteers. RTT cells showed increased levels of nuclear p65 and ASC proteins, pro-IL-1β mRNA, and NLRP3/ASC
interaction in basal condition, without any further response upon the LPS + ATP stimuli. Moreover, augmented
levels of circulating ASC and IL-18 proteins were found in serum of RTT patients, which are likely able to amplify
the inflammatory response. Taken together, our findings suggest that RTT patients exhibited a challenged in-
flammasome machinery at cellular and systemic level, which may contribute to the subclinical inflammatory
state feedback observed in this pathology. Keywords:
NLRP3
ASC
Inflammatory status
Cytokines
MeCP2 RTT symptoms are still not clear. Redox Biology 28 (2020) 101334 Redox Biology 28 (2020) 101334 https://doi.org/10.1016/j.redox.2019.101334
Received 4 September 2019; Received in revised form 23 September 2019; Accepted 26 September 2019
∗Corresponding author. Dept. of Animal Science, North Carolina State University, Plants for Human Health Institute, NC Research Center, 28081, Kannapolis, NC,
USA.
E-mail address: gvalacc@ncsu.edu (G. Valacchi).
1 Authors contributed equally.
Available online 06 October 2019
2213-2317/ ©
2019 The Authors. Published by Elsevier B.V. This is an open access article under the CC BY license
(http://creativecom
m
ons.org/licenses/BY/4.0/). 1. Introduction In the last decade, a growing body of evidence supported the idea
that an OxInflammation condition, observed in brain and peripheral
compartments of both RTT patients and animal models, could be in-
volved in RTT pathophysiology [6]. This condition in RTT is due to the
concomitant dysregulation of redox and immune homeostasis and
characterized by a subclinical inflammatory status coupled with an
increased production of oxidant species and a perturbed defense re-
sponse [6–9]. Based on recent findings, cytosolic molecular complexes
termed inflammasomes have emerged as central mediators in the
crosstalk between redox imbalance and inflammation associated with a
wide range of diseases [10]. The assembly of inflammasomes occurs
following the recognition of multiple diverse endogenous and exo-
genous signals such as “pathogen-associated” or “danger-associated Rett syndrome (RTT; OMIM identifier #312750), first described by
the physician Andreas Rett [1], is a severe neurodevelopmental dis-
order, predominantly affecting females (approx. 1 per 10,000 live
births) [2]. In 90–95% of patients diagnosed with RTT, the disorder is
due to de novo loss-of-function mutations in the X-linked MECP2 gene,
which encodes methyl-CpG binding protein 2 [3]. After 6-18-months of apparently normal development [4], RTT
leads to both developmental regression, involving loss of hand skills,
motor skills and speech, and a number of co-morbidities, including
breathing disturbances, seizures, gastro-intestinal complications, and
scoliosis [5], allowing to define RTT as a ‘spectrum disorder’. Today,
the complete pathogenic mechanisms linking MECP2 dysfunction to A. Pecorelli, et al. Redox Biology 28 (2020) 101334 approved by the Ethics Committee of Institutional Review Board of
University Hospital, Azienda Ospedaliera Universitaria Senese (AOUS),
Siena, Italy. A written form of the informed consents was signed from
either the parents or the legal tutors of the participants. molecular patterns” (PAMPs or DAMPs) by a cytosolic subset of “pat-
tern recognition receptors” (PRRs), named “nucleotide-binding domain
and leucine-rich repeat-containing (NLR) proteins” [11]. The activation
of these intracellular sensors such as NLRP3, the most widely studied
member among them, triggers the oligomerization and the recruitment
of the adaptor protein ASC, which in turn is able to recruit the effector
protein pro-caspase 1 [12]. The proximity-induced pro-caspase 1 auto-
cleavage leads to the generation of the catalytically active caspase 1
(CASP1), which prompts the downstream responses, consisting of the
conversion of both pro-IL-1β and pro-IL-18 to their biologically active
forms, and/or the proteolytic action of gasdermin D (GSDMD). 2.5. Western immunoblot analysis Fibroblasts were lysed in RIPA buffer (cat. J62524, Alfa Aesar,
Tewksbury, MA, USA), supplemented with 1% (v/v) protease inhibitors
and 1% (v/v) phosphatase inhibitors (cat. 78430 and cat. 1862495,
respectively, Thermo Fisher Scientific, Waltham, MA, USA). After three
freezing-thawing cycles, cell lysates were centrifuged at 17,000×g for
15 min at 4 °C, and supernatants were used for the evaluation of total
protein concentration, by using the Quick Start™Bradford Protein
Assay Kit (cat. 5000201, Bio-rad Laboratories) and bovine serum al-
bumin (BSA) as standard. Samples were denatured and run in triplicates
on 10–15% polyacrylamide gels, as previously reported [26]. Proteins
were transferred from polyacrylamide gels onto polyvinylidene di-
fluoride (PVDF) membranes by electrophoretic transfer. Non-specific
binding sites were blocked at room temperature for 1 h with 5% (w/v)
Blotting-Grade Blocker (cat. 170–6404, Bio-Rad Laboratories), in Tris-
buffer saline containing 0.1% (v/v) Tween-20 (cat. P5927, Sigma–Al-
drich) (TBS-T). Membranes were first incubated overnight with primary
antibodies-containing TBS-T (see the antibodies section), and then with
anti-rabbit or anti-mouse peroxidase-conjugated secondary antibodies
diluted in TBS-T for 2 h at room temperature (see the antibodies sec-
tion). The protein bands were detected by using Clarity™Western ECL
Substrate Kit (cat. 1705060, Bio-Rad Laboratories) and ChemiDoc™MP
Imaging System hardware and software (Bio-Rad Laboratories). Images
of bands were analyzed by the Nonlinear Dynamics TotalLab software
(TotalLab Ltd, Newcastle upon Tyne, UK). Data were normalized
against HDAC1 or GAPDH, depending on nuclear or cytosolic/total
proteins analyzed, and results were given as arbitrary units. 2.1. Antibodies Cell Signaling Technology, Inc. (Danvers, MA, USA) supplied the
following antibodies: anti-nuclear factor κ-light-chain-enhancer of ac-
tivated B cells (NF-κB) p65 subunit antibody (cat. 8242; dil. 1:1,000);
anti-NACHT, LRR and PYD domains-containing protein 3 (NLRP3) an-
tibody (cat. 13158; dil. for WB 1:500 and for IF 1:100); anti-caspase 1
(CASP1) antibody (cat. 2225; dil. 1:1,000), anti-cleaved-IL-1β (cat. 83186; dil. 1:100); anti-glyceraldehyde-3-phosphate dehydrogenase
(GAPDH) (cat. 5174; dil. 1:5,000); anti-histone deacetylase 1 (HDAC1)
antibody (cat. 8242; dil. 1:1,000), and peroxidase-conjugated anti-
rabbit secondary antibody (cat. 7074; dil. 1:10,000). Santa Cruz
Biotechnology, Inc. (Santa Cruz, CA) provided the anti-apoptosis-asso-
ciated speck-like protein containing CARD (ASC) (cat. sc-271054; dil. for WB 1:800 and for IF 1:200) antibody. Both AlexaFluorTM 488 goat
anti-rabbit IgG (H + L) (cat. A-11008; dil. 1:1,000) and AlexaFluorTM
568 goat anti-mouse IgG (H + L) (cat. A-11004; dil. 1:1,000) antibodies
were provided by Thermo Fisher Scientific (Waltham, MA, USA). The
peroxidase-conjugated anti-mouse secondary antibody (cat. 170–6515;
dil. 1:10,000) was supplied by Bio-Rad Laboratories (Hercules, CA,
USA). 2.4. Cell treatment with LPS and ATP Since the inflammasome pathway could contribute to the char-
acteristic OxInflammatory status of RTT, this work was aimed at in-
vestigating the activation state of the inflammasome in fibroblasts and
serum samples from RTT patients. We revealed that a deregulated ac-
tivation of inflammasome pathway occurs in RTT, as proved by the
increased constitutive levels of inflammasome components in patient-
derived serum and fibroblast cell lines and by the inability of RTT cells
to activate properly this pathway after further pro-inflammatory chal-
lenges. CTR and RTT fibroblasts were seeded (5,000 cells/cm2) in complete
medium and after 48 h, cells were starved with 1% FBS-containing
medium for 15 h to minimize cell proliferation. Cells were then in-
cubated with or without 100 μg/ml lipopolysaccharide (LPS, dissolved
in water), for 6 h in 1% FBS-supplemented medium and with 5 mM
adenosine triphosphate (ATP, dissolved in water) for additional 30 min
(cat. L2630 and cat. A6419, respectively, Sigma-Aldrich, St. Louis, MO,
USA). The LPS concentration was calculated based on the evaluation of
NLRP3 gene expression, in response to different concentrations (0, 10,
50, 100 and 200 μg/ml for 6 h), while the ATP treatment was estab-
lished based on literature papers [24,25]. The chosen concentration of
LPS (100 μg/ml) induced an inflammasome-related response and no cell
death was observed (Supplementary Fig. S1). 2.3. Human fibroblasts culture Skin biopsies from healthy donors (CTR; N = 6) were taken during
health checks or by donations, while skin biopsies from RTT patients
(N = 6; age: 20 ± 3.8, expressed as mean ± SD) were obtained
during the periodic clinical checks-up. Human skin fibroblasts were
isolated by 3-mm skin punch biopsy, as previously described [23]. Before the experimental procedure, fibroblasts were stained for Vi-
mentin and checked for mycoplasma contamination. Cells were cul-
tured with DMEM medium, containing 10% (v/v) fetal bovine serum
(cat. 10-014-CV and cat. 35-011-CV, respectively, Corning, New York,
NY, USA), antibiotics (100 IU/ml penicillin, 100 mg/ml streptomycin)
(cat. 30-002-CI; Corning) and incubated in humidified atmosphere (5%
CO2) at 37 °C. All experiments were performed by using fibroblasts
between the third and fifth passage in vitro. 1. Introduction This
latter promotes the release of GSDMD N-terminal fragments that oli-
gomerize into ring-shaped structures in membranes. GSDMD pores
allow cells to release passively their cytoplasmic content in a size-de-
pendent manner (i.e., cytokines like IL-1β) [13] or drive cells towards
pyroptotic death [11]. Besides its involvement in innate immune re-
sponses, NLRP3 inflammasome has been demonstrated to have a role in
a wide range of inflammatory diseases, cancer, metabolic and auto-
immune disorders, and aging [14–19]. The inflammasome pathway is
implicated even in the neuroinflammation observed in neurodegen-
erative disorders, like multiple sclerosis, Alzheimer's and Parkinson's
disease [20,21] and in neurodevelopmental pathologies, like autistic
spectrum disorders (ASDs) [22]. 2. Materials and methods 2.1. Antibodies 2.9. Serum sampling Serum samples were obtained from female patients with clinical
diagnosis of typical RTT and MECP2 mutation (n = 42; median age: 15)
and healthy controls (n = 16; median age: 16). As previously reported
[31], fasting venous blood was collected at 8–10 a.m. following an
overnight fast and all manipulations were carried out within 2 h. Blood
was collected in tubes without anticoagulants and allowed to clot at RT. Following centrifugation at 1,500×g for 10 min, the sera were trans-
ferred into clean tubes. Serum samples were stored at −80 °C for fur-
ther immunoblot (ASC and CASP1) or ELISA (IL-18) analyses. 2.6. Subcellular protein fractionation Thornwood, NY, USA) and Zen 2008 Software (Carl Zeiss Microscopy
GmbH, Jena, Germany). Digital images were analyzed by using an open
source Java-based Fiji-ImageJ image processing package, and the
coloc2 plug-in for colocalization. Results were given as Pearson coef-
ficients [30]. Nuclear and cytoplasmic protein fractions were prepared by using
the Nuclear Extraction Kit (cat. 2900, Merck Millipore, Burlington, MA,
USA). Briefly, cells were washed with PBS and then were lysed with
Cytoplasmic Lysis Buffer, containing 0.5 mM dithiothreitol (DTT) and
0.1% (v/v) protease inhibitor cocktail. After homogenization, the dis-
rupted cell suspension was centrifuged at 8,000×g for 20 min at 4 °C,
and the supernatant, containing the cytosolic portion, was recovered. The remaining pellet was then resuspended in Nuclear Extraction Buffer
supplemented with 0.5 mM DTT and 0.1% (v/v) protease inhibitor
cocktail and homogenized. The resulting nuclear suspension was cen-
trifuged at 16,000×g for 5 min at 4 °C and the supernatant, containing
the nuclear extract, was collected [27]. Total protein concentration was
determined by Bradford analysis (Quick Start™Bradford Protein Assay
Kit, cat. 5000201, Bio-rad Laboratories). 2.12. Statistics Statistical analyses were performed by using GraphPad Prism 6 and
Statsoft Statistica10 softwares. One-way or factorial ANOVA, with post-
hoc Tukey's tests were applied. The null hypothesis was rejected with P
less than 0.05. All data were expressed as means ± standard deviations
(SD). 2.10. ASC oligomerization assay As previously reported [28], total RNA was extracted from fibro-
blasts by using Aurum Total RNA Mini Kit (cat.732–6820, Bio-Rad),
removing genomic contamination by using DNase I, as recommended
by the supplier. RNA (1 μg) was converted into complementary DNA by
using iScript Reverse Transcription kit (cat. 1708841, Bio-Rad). The
obtained cDNA (diluted 1:10) was used for the real time PCR step with
SsoAdvanced Universal SYBR Green Supermix (cat. 172–5271, Bioline,
London, UK) in a LightCycler® 480 Instrument (Roche, Indianapolis, IN,
USA). Primers were synthetized by Sigma-Aldrich (St. Louis, MO, USA):
NLRP3 (forward, 5′-CGGGGCCTCTTTTCAGTTCT-3′; reverse, 5′-CCCC
AACCACAATCTCCGAA-3′) (Primer BLAST, accession number: NM_
004895.4); CASP1 (forward, 5′-CCGTTCCATGGGTGAAGGTA-3′; re-
verse, 5′-TGCCCCTTTCGGAATAACGG-3′) (Primer BLAST, accession
number: NM_033292.4); IL-1β (forward, 5′-CACGATGCACCTGTACGA
TCA-3';
reverse,
5′-GTTGCTCCATATCCTGTCCCT-3′)
[58];
GAPDH
(forward, 5′-TGACGCTGGGGCTGGCATTG-3′; reverse, 5′- GGCTGGTG
GTCCAGGGGTCT-3′) [26]. For the ASC oligomerization assay, five μl of serum were suspended
in 500 μL PBS and cross-linked with 2 mM disuccinimidyl suberate
(DSS) for 30 min a room temperature. Cross-linked samples were cen-
trifuged at 10,000×g for 15 min at 4 °C. The pellets containing ASC
oligomers were boiled with 2x protein loading buffer for 5 min for
Western blot analysis. 2.11. Enzyme-linked immunosorbent assay (ELISA) Serum concentrations of IL-18 were determined by ELISA using a
commercial kit (RayBiotech Life, Peachtree Corners, GA, USA), ac-
cording to the manufacturer's instructions. All samples were analyzed in
duplicate. A calibration curve was performed using IL-18 as a standard. The optical absorbance was measured with a microplate reader at
450 nm, and results are expressed as pg/mL. The lower limit of detec-
tion for IL-18 was 0.5 pg/mL. The PCR protocol was set as follows: polymerase activation and
initial denaturation at 95 °C for 30 s, and 40 cycles of 95 °C for 15 s and
60 °C for 60 s. In order to check the presence of possible co-amplified
undesired targets, melt-curve analysis was performed for all primer
pairs (65 °C–95 °C, 0.5 °C increment, 2 s/step). Quantitative relative
gene expression was calculated by using the 2−ΔΔCt method [29], using
GAPDH as the reference mRNA and one of the controls as the internal
calibrator. Each sample was processed by analyzing three replicates. 2.2. Study approval Female patients with classical RTT and healthy sex- and age-mat-
ched controls were enrolled for the study. All patients were admitted to
the Child Neuropsychiatry Unit of the University Hospital of Siena
(Siena, Italy). Diagnosis and inclusion/exclusion criteria of RTT were
set in agreement with revised RTT nomenclature consensus [4]. The
study was conducted in accordance with the Code of Ethics of the World
Medical Association (Declaration of Helsinki), and the protocol was 2 A. Pecorelli, et al. Redox Biology 28 (2020) 101334 2.8. Immunofluorescence analysis Fibroblasts were seeded (5,000 cells/cm2) and grown on coverslips
in complete medium. CTR and RTT cells were starved and treated with
LPS + ATP, as described in the “Cell treatment with LPS and ATP” sub-
section. As previously reported [23], cells were washed twice with D-
phosphate buffered saline (PBS), then fixed in 10% (w/v) neutral buf-
fered formalin solution for 10 min, and permeabilized in PBS containing
0.25% (v/v) Triton X-100 for 10 min at 4 °C. Non-specific binding sites
were blocked with 3% (w/v) BSA in PBS for 30 min. Cells were then
incubated with primary antibodies that were diluted in PBS containing
0.5% (w/v) BSA at 4 °C overnight (see the “Antibodies” section for in-
formation about dilutions). After three washes with PBS, cells were
incubated with AlexaFluor 488 or AlexaFluor 568 antibodies-con-
taining PBS at 4 °C for 1 h (see the “Antibodies” section for information
about dilutions). After five washes with PBS, cells were incubated with
a solution of 4′,6-diamidino-2-phenylindole (DAPI)-containing PBS for
1 min (dil. 1:20,000) and mounted with ProLong Diamond mounting
medium (cat. D1306 and cat. P36965, respectively, Thermo Fisher
Scientific). Cells were observed and photographed by confocal micro-
scopy (objective 40×) by using a Zeiss LSM 710 microscope (Carl Zeiss, 3.1. Constitutive nuclear translocation of NF-κB p65 and increased levels of
cleaved IL-1β in RTT fibroblasts 3.1. Constitutive nuclear translocation of NF-κB p65 and increased levels of
cleaved IL-1β in RTT fibroblasts 3.1. Constitutive nuclear translocation of NF-κB p65 and increased levels of
cleaved IL-1β in RTT fibroblasts Representative Western blots for NF-κB p65 in nuclear extracts from control and RTT fibroblasts stimulated with LPS 100 μg/ml for 2 and 6 h plus ATP 5 mM
for 30 min. Quantification is showed in bottom panel. Data are given as means ± SD. Panel B. The mRNA levels of pro-IL-1β were analyzed by real-time RT-PCR. Data are expressed as 2−ΔΔCt, using GAPDH as the reference, and one of the controls as the internal calibrator. Data are given as means ± SD. Panel C. Immunofluorescence for cleaved IL-1β in control and RTT fibroblasts stimulated with LPS 100 μg/ml for 6 h and ATP 5 mM for 30 min. Nuclei are stained with DAPI. Bar = 15 μm. CTR, control; RTT, Rett syndrome; LPS, lipopolysaccharide; ATP, adenosine triphosphate. *P < 0.05; **P < 0.01. Results were analyzed by factorial
ANOVA (with 2 × 2 × 3 design for panel A, and 2 × 2 design for panel B), with post-hoc Tukey's multiple comparisons test. Fig. 1. Constitutive nuclear translocation of NF-κB p65 and expression of cleaved IL-1β in RTT fibroblasts. Panel A. Representative Western blots for NF-κB p65 in nuclear extracts from control and RTT fibroblasts stimulated with LPS 100 μg/ml for 2 and 6 h plus ATP 5 mM
for 30 min. Quantification is showed in bottom panel. Data are given as means ± SD. Panel B. The mRNA levels of pro-IL-1β were analyzed by real-time RT-PCR. Data are expressed as 2−ΔΔCt, using GAPDH as the reference, and one of the controls as the internal calibrator. Data are given as means ± SD. Panel C. Immunofluorescence for cleaved IL-1β in control and RTT fibroblasts stimulated with LPS 100 μg/ml for 6 h and ATP 5 mM for 30 min. Nuclei are stained with DAPI. Bar = 15 μm. CTR, control; RTT, Rett syndrome; LPS, lipopolysaccharide; ATP, adenosine triphosphate. *P < 0.05; **P < 0.01. Results were analyzed by factorial
ANOVA (with 2 × 2 × 3 design for panel A, and 2 × 2 design for panel B), with post-hoc Tukey's multiple comparisons test. changes in pro-IL-1β levels were noticed in RTT fibroblasts after the
pro-inflammatory stimulation (Fig. 1B). 3.2. 3.1. Constitutive nuclear translocation of NF-κB p65 and increased levels of
cleaved IL-1β in RTT fibroblasts First critical step in inflammasome activation is the transcriptional
up-regulation of inflammasome components via nuclear factor (NF)-κB
signaling. As shown in Fig. 1A, RTT fibroblasts revealed highly aug-
mented levels of nuclear NF-κB p65 subunit in basal condition
(P < 0.01), as compared to unstimulated CTR. However, while CTR
fibroblasts responded to LPS + ATP treatment by increasing p65 nu-
clear translocation over time (after 2 and 6 h) (P < 0.05), p65 nuclear
levels did not increase any further after LPS + ATP in RTT fibroblasts
(Fig. 1A). NF-κB–activating stimulus induces elevated expression of pro-IL-1β,
a key pro-inflammatory cytokine involved in the inflammasome
pathway [32]. RTT fibroblasts displayed a robust constitutive pro-IL-1β
mRNA expression in basal condition when compared to unstimulated
CTR cells (P < 0.05) (Fig. 1B). As expected, increased transcriptional
levels of pro-IL-1β have been detected in LPS + ATP-stimulated CTR
cells (P < 0.05; as compared to untreated CTR); whereas no further 3 Redox Biology 28 (2020) 101334 A. Pecorelli, et al. n pro-IL-1β levels were noticed in RTT fibroblasts after the
matory stimulation (Fig. 1B). with these results, immunofluorescence analysis for the
3.2. NLRP3 inflammasome components are constitutively expressed at high
levels in RTT fibroblasts
stitutive nuclear translocation of NF-κB p65 and expression of cleaved IL-1β in RTT fibroblasts. epresentative Western blots for NF-κB p65 in nuclear extracts from control and RTT fibroblasts stimulated with LPS 100 μg/ml for 2 and 6 h plus ATP 5 mM
Quantification is showed in bottom panel. Data are given as means ± SD. Panel B. The mRNA levels of pro-IL-1β were analyzed by real-time RT-PCR. xpressed as 2−ΔΔCt, using GAPDH as the reference, and one of the controls as the internal calibrator. Data are given as means ± SD. Panel C. orescence for cleaved IL-1β in control and RTT fibroblasts stimulated with LPS 100 μg/ml for 6 h and ATP 5 mM for 30 min. Nuclei are stained with DAPI. m. CTR, control; RTT, Rett syndrome; LPS, lipopolysaccharide; ATP, adenosine triphosphate. *P < 0.05; **P < 0.01. Results were analyzed by factorial
ith 2 × 2 × 3 design for panel A, and 2 × 2 design for panel B), with post-hoc Tukey's multiple comparisons test. gy Fig. 1. Constitutive nuclear translocation of NF-κB p65 and expression of cleaved IL-1β in RTT fibroblasts. Panel A. 3.1. Constitutive nuclear translocation of NF-κB p65 and increased levels of
cleaved IL-1β in RTT fibroblasts After LPS + ATP stimulation, pro-CASP1 gene expression
showed a trend in increase in CTR cells, while no significant changes
were observed in RTT fibroblasts (Fig. 4B). 3 5 Increased release of inflammasome components in serum of RTT
Fig. 2. Increased levels of NLRP3 and ASC in basal
RTT fibroblasts. Panel A. Representative images and densitometric
analysis of Western blotting for NLRP3 in control
and RTT fibroblasts incubated without or with LPS
100 μg/ml for 6 h plus ATP 5 mM. Panel B. Representative images and densitometric analysis
of Western blots for ASC in control and RTT fi-
broblasts stimulated with LPS 100 μg/ml for 2 and
6
h
plus
ATP
5
mM. Data
are
given
as
means ± SD. CTR, control; RTT, Rett syndrome;
LPS, lipopolysaccharide; ATP, adenosine tripho-
sphate. *P < 0.05; **P < 0.01. Results were
analyzed by Two-way ANOVA, with post-hoc
Tukey's multiple comparisons test. A. Pecorelli, et al. Redox Biology 28 (2020) 101334 Fig. 2. Increased levels of NLRP3 and ASC in basal
RTT fibroblasts. Panel A. Representative images and densitometric
analysis of Western blotting for NLRP3 in control
and RTT fibroblasts incubated without or with LPS
100 μg/ml for 6 h plus ATP 5 mM. Panel B. Representative images and densitometric analysis
of Western blots for ASC in control and RTT fi-
broblasts stimulated with LPS 100 μg/ml for 2 and
6
h
plus
ATP
5
mM. Data
are
given
as
means ± SD. CTR, control; RTT, Rett syndrome;
LPS, lipopolysaccharide; ATP, adenosine tripho-
sphate. *P < 0.05; **P < 0.01. Results were
analyzed by Two-way ANOVA, with post-hoc
Tukey's multiple comparisons test. (Fig. 4A). The basal levels of CASP1 p20 active form were similar be-
tween CTR and RTT cells, while the treatment with LPS + ATP in-
creased its levels in CTR cells (P < 0.05), no change was observed in
RTT fibroblasts after the pro-inflammatory stimulus (Fig. 4A). To verify if regulation of pro-CASP1 protein expression occurs at the
transcription level, we assessed its mRNA expression by real time PCR. As showed in Fig. 4B, in unstimulated conditions, RTT cells displayed a
trend in reduction of pro-CASP1 mRNA levels compared to CTR fibro-
blasts. After LPS + ATP stimulation, pro-CASP1 gene expression
showed a trend in increase in CTR cells, while no significant changes
were observed in RTT fibroblasts (Fig. 4B). 3.4. Altered levels of pro-CASP1 and active CASP1 form in RTT fibroblasts 3.4. Altered levels of pro-CASP1 and active CASP1 form in RTT fibroblasts The key outcome of NLRP3-ASC assembly is the self-cleavage and
activation of pro-CASP1 that, then, leads to the processing and ma-
turation of the pro-inflammatory cytokines IL-1β and IL-18 [12]. Given
the higher levels of cleaved IL-1β and inflammasome assembly in RTT
cells, we next evaluated the protein expression of the pro-form and
active form of CASP1. 3.5. Increased release of inflammasome components in serum of RTT
patients In CTR cells, the LPS + ATP treatment induced an increase of the
NLRP3-related immunofluorescence signal into the cytoplasmic and
perinuclear region (likely, endoplasmic reticulum), as well as an en-
hanced ASC-related signal into the cytosol, as compared to un-
stimulated CTR cells (Fig. 3A). Conversely, in RTT fibroblasts, basal
signals of both NLRP3 and ASC are higher and localized in the cytosolic
compartment, whereas LPS + ATP stimulation did not affect the cy-
tosolic localization (Fig. 3A). A growing body of evidence supports a model whereby the cellular
release of inflammasome proteins through extracellular vesicles such as
exosomes delivers their cargo in vivo to amplify the inflammatory sig-
naling in peripheral tissues [33,34]. Therefore, to further study in-
flammasome activation in RTT, we evaluated the protein expression of
the main inflammasome components in serum from RTT patients and
control subjects. Consistent with the results obtained in fibroblasts, we
found that ASC protein levels were higher in the serum of RTT patients
than in the control group (Fig. 5A). Furthermore, immunoblot analysis
of DSS-crosslinked ASC oligomers further confirmed a significant in-
crease of catalytically active ASC oligomeric species in RTT serum
samples (Fig. 5B). Next, as hallmark of inflammasome activation, we
measured the serum levels of IL-18 by ELISA. As showed in Fig. 5C,
serum IL-18 concentrations were significantly higher in RTT patients
than in control subjects (p < 0.05). After co-localization analysis, we found that a significant NLRP3-
ASC interaction was induced by LPS + ATP only in CTR fibroblasts
(P < 0.05); while, RTT cells showed a significant increase of in-
flammasome assembly already in basal condition (P < 0.05; as com-
pared to untreated CTR), and were unable to respond to further chal-
lenge with LPS + ATP (Fig. 3B). 3.1. Constitutive nuclear translocation of NF-κB p65 and increased levels of
cleaved IL-1β in RTT fibroblasts NLRP3 inflammasome components are constitutively expressed at high
levels in RTT fibroblasts In line with these results, immunofluorescence analysis for the
cleaved IL-1β revealed an increase of green signal in cytoplasmic
compartment of untreated RTT cells as compared to basal CTR fibro-
blasts (Fig. 1C). No change in fluorescence intensity was observed in
RTT fibroblasts upon LPS + ATP stimulation when compared to the
unstimulated condition (Fig. 1C). On the other hand, an increased green
fluorescence for the mature IL-1β was evident in CTR fibroblasts after
LPS + ATP treatment (Fig. 1C). In addition to NF-κB p65, other key players in the inflammasome
system were analyzed, including NLRP3 and ASC. Basal RTT fibroblasts
showed higher NLRP3 protein levels compared to CTR (P < 0.05),
without
any
evident
change
after
pro-inflammatory
stimulation
(Fig. 2A). Instead, NLRP3 levels in CTR fibroblasts were increased
significantly upon LPS + ATP treatment (P < 0.05; as compared to
untreated CTR) (Fig. 2A). Similarly, an increase of ASC levels could be detected in basal RTT Similarly, an increase of ASC levels could be detected in 4 Redox Biology 28 (2020) 101334 A. Pecorelli, et al. fibroblasts as compared to untreated CTR (P < 0.01), but with no
statistically significant variation in response to the pro-inflammatory
stimuli (Fig. 2B). On the other hand, in CTR cells ASC levels were low in
basal conditions, but significantly increased after LPS + ATP stimula-
tion (P < 0.05) (Fig. 2B). 3.3. RTT fibroblasts show an increased colocalization between NLRP3 and
ASC
To determine if high constitutive levels of the inflammasome com-
ponents in RTT cells paralleled with inflammasome assembly, we as-
sessed the NLRP3-ASC interaction by evaluating their cellular locali-
zation by immunofluorescence (Fig 3)
(Fig. 4A). The basal levels of CASP1 p20 active form were similar be-
tween CTR and RTT cells, while the treatment with LPS + ATP in-
creased its levels in CTR cells (P < 0.05), no change was observed in
RTT fibroblasts after the pro-inflammatory stimulus (Fig. 4A). To verify if regulation of pro-CASP1 protein expression occurs at the
transcription level, we assessed its mRNA expression by real time PCR. As showed in Fig. 4B, in unstimulated conditions, RTT cells displayed a
trend in reduction of pro-CASP1 mRNA levels compared to CTR fibro-
blasts. 3.3. RTT fibroblasts show an increased colocalization between NLRP3 and
ASC To determine if high constitutive levels of the inflammasome com-
ponents in RTT cells paralleled with inflammasome assembly, we as-
sessed the NLRP3-ASC interaction by evaluating their cellular locali-
zation by immunofluorescence (Fig. 3). 3.1. Constitutive nuclear translocation of NF-κB p65 and increased levels of
cleaved IL-1β in RTT fibroblasts fibroblasts as compared to untreated CTR (P < 0.01), but with no
statistically significant variation in response to the pro-inflammatory
stimuli (Fig. 2B). On the other hand, in CTR cells ASC levels were low in
basal conditions, but significantly increased after LPS + ATP stimula-
tion (P < 0.05) (Fig. 2B). (Fig. 4A). The basal levels of CASP1 p20 active form were similar be-
tween CTR and RTT cells, while the treatment with LPS + ATP in-
creased its levels in CTR cells (P < 0.05), no change was observed in
RTT fibroblasts after the pro-inflammatory stimulus (Fig. 4A). To verify if regulation of pro-CASP1 protein expression occurs at the
transcription level, we assessed its mRNA expression by real time PCR. As showed in Fig. 4B, in unstimulated conditions, RTT cells displayed a
trend in reduction of pro-CASP1 mRNA levels compared to CTR fibro-
blasts. After LPS + ATP stimulation, pro-CASP1 gene expression
showed a trend in increase in CTR cells, while no significant changes
were observed in RTT fibroblasts (Fig. 4B). 3.3. RTT fibroblasts show an increased colocalization between NLRP3 and
ASC 4. Discussion The aim of our work was to elucidate the possible involvement of
the inflammasome pathway as a key player in RTT subclinical in-
flammation. Inflammasomes, cytoplasmic multi-protein complexes,
provide host immune defense against a diverse range of pathogen in-
fections and cellular stress signals [11]. As previously mentioned, In both basal and LPS + ATP stimulated conditions, RTT fibroblasts
displayed low pro-CASP1 levels respect to the CTR cells (P < 0.05) 5 assembly of NLRP3/ASC inflammasome leads to subsequent recruit-
ment and autocatalytic activation of CASP1 that, finally, promotes the
maturation of IL-1β and IL-18 [11,35]. These key pro-inflammatory
cytokines are able to promote a multitude of finely regulated immune
responses useful for restoring the physiological conditions [11]. How-
ever, it is also well known that an uncontrolled and prolonged in-
flammasome activation with an excessive release of cytokines can
participate in the onset and progression of chronic inflammatory states
associated with a wide variety of human diseases [10,36,37]. Although RTT is primarily a genetic brain disorder with prominent
neurological symptoms, a vast body of evidence supports a key role for
the interplay between redox imbalance and a subclinical inflammatory
status (oxinflammation phenomenon) in different systemic abnormal-
ities observed in RTT patients (i.e., mitochondrial dysfunctions, meta-
bolic alterations, immune dysregulation, gastrointestinal problems,
breathing disturbances and recurrent infections) [6,38]. In this contest,
the dysregulation of NLRP3 inflammasome pathway could be a new
molecular mechanism able to contribute to RTT pathophysiology, in
both brain and periphery. mainly driven by two different signals. Typically, ‘signal 1’ or ‘priming’
molecules (e.g., LPS) induce the expression of NLRP3, pro-IL-1β and
pro-IL-18 via NF-κB activation [32,39]. Moreover, PAMPs or DAMPs
(e.g., ATP, particulate matter, heme, pathogen-associated RNA, etc)
activate the NLRP3 inflammasome assembly (‘signal 2’) [32]. The
particular interest towards NLRP3 inflammasome lies in the broad
range of molecular and cellular signaling events that are induced by its
activators among which there are ionic flux (e.g., K+, Na+, chloride
fluxes and Ca2+ signaling), ROS production, lysosomal destabilization,
mitochondrial dysfunction and post-translational modifications of
NLRP3 [40,41]. Of note, some of these stimuli are present in RTT pa-
tients [42,43] and, therefore, could promote a dysregulated NLRP3
inflammasome function that, in turn, could contribute to the typical
RTT subclinical inflammation [6,38,44]. In the present work, RTT cells showed an increased steady level of
nuclear NF-κB p65 subunit, as compared to CTR cells. 4. Discussion Confocal images showing localization of
NLRP3 (green fluorescence) and ASC (red fluor-
escence) in control and RTT fibroblasts stimulated
with LPS 100 μg/ml for 6 h and ATP 5 mM for
30 min. Overlay of the green and red channel
shows that there is colocalization between NLRP3
and
ASC. Nuclei
are
stained
with
DAPI. Bar = 15 μm. CTR, control; RTT, Rett syndrome;
LPS, lipopolysaccharide; ATP, adenosine tripho-
sphate. *P < 0.05. Panel B. Pearson's correlation
coefficient values for colocalization of NLRP3 and
ASC. Co-localization
data
were
given
as
means ± SD. Results were analyzed by Two-way
ANOVA, with post-hoc Tukey's multiple compar-
isons test. (For interpretation of the references to
colour in this figure legend, the reader is referred
to the Web version of this article.) Panel A. Confocal images showing localization of
NLRP3 (green fluorescence) and ASC (red fluor-
escence) in control and RTT fibroblasts stimulated
with LPS 100 μg/ml for 6 h and ATP 5 mM for
30 min. Overlay of the green and red channel
shows that there is colocalization between NLRP3
and
ASC. Nuclei
are
stained
with
DAPI. Bar = 15 μm. CTR, control; RTT, Rett syndrome;
LPS, lipopolysaccharide; ATP, adenosine tripho-
sphate. *P < 0.05. Panel B. Pearson's correlation
coefficient values for colocalization of NLRP3 and
ASC. Co-localization
data
were
given
as
means ± SD. Results were analyzed by Two-way
ANOVA, with post-hoc Tukey's multiple compar-
isons test. (For interpretation of the references to
colour in this figure legend, the reader is referred
to the Web version of this article.) assembly of NLRP3/ASC inflammasome leads to subsequent recruit-
ment and autocatalytic activation of CASP1 that, finally, promotes the
maturation of IL-1β and IL-18 [11,35]. These key pro-inflammatory
cytokines are able to promote a multitude of finely regulated immune
responses useful for restoring the physiological conditions [11]. How-
ever, it is also well known that an uncontrolled and prolonged in-
flammasome activation with an excessive release of cytokines can
participate in the onset and progression of chronic inflammatory states
associated with a wide variety of human diseases [10,36,37]. assembly of NLRP3/ASC inflammasome leads to subsequent recruit-
ment and autocatalytic activation of CASP1 that, finally, promotes the
maturation of IL-1β and IL-18 [11,35]. These key pro-inflammatory
cytokines are able to promote a multitude of finely regulated immune
responses useful for restoring the physiological conditions [11]. 4. Discussion A significant
increase of NF-κB p65 nuclear translocation was found in CTR cells after
LPS + ATP treatment, whereas RTT fibroblasts did not undergo any
significant change in the transcription factor nuclear levels in response
Fig. 3. Increased formation of NLRP3/ASC in-
flammasome complexes in RTT fibroblasts. Panel A. Confocal images showing localization of
NLRP3 (green fluorescence) and ASC (red fluor-
escence) in control and RTT fibroblasts stimulated
with LPS 100 μg/ml for 6 h and ATP 5 mM for
30 min. Overlay of the green and red channel
shows that there is colocalization between NLRP3
and
ASC. Nuclei
are
stained
with
DAPI. Bar = 15 μm. CTR, control; RTT, Rett syndrome;
LPS, lipopolysaccharide; ATP, adenosine tripho-
sphate. *P < 0.05. Panel B. Pearson's correlation
coefficient values for colocalization of NLRP3 and
ASC. Co-localization
data
were
given
as
means ± SD. Results were analyzed by Two-way
ANOVA, with post-hoc Tukey's multiple compar-
isons test. (For interpretation of the references to
colour in this figure legend, the reader is referred
to the Web version of this article.)
A. Pecorelli, et al. Redox Biology 28 (2020) 101334 Redox Biology 28 (2020) 101334 A. Pecorelli, et al. A. Pecorelli, et al. Fig. 3. Increased formation of NLRP3/ASC in-
flammasome complexes in RTT fibroblasts. Panel A. Confocal images showing localization of
NLRP3 (green fluorescence) and ASC (red fluor-
escence) in control and RTT fibroblasts stimulated
with LPS 100 μg/ml for 6 h and ATP 5 mM for
30 min. Overlay of the green and red channel
shows that there is colocalization between NLRP3
and
ASC. Nuclei
are
stained
with
DAPI. Bar = 15 μm. CTR, control; RTT, Rett syndrome;
LPS, lipopolysaccharide; ATP, adenosine tripho-
sphate. *P < 0.05. Panel B. Pearson's correlation
coefficient values for colocalization of NLRP3 and
ASC. Co-localization
data
were
given
as
means ± SD. Results were analyzed by Two-way
ANOVA, with post-hoc Tukey's multiple compar-
isons test. (For interpretation of the references to
colour in this figure legend, the reader is referred
to the Web version of this article.)
A. Pecorelli, et al. Redox Biology 28 (2020) 101334 F
fl
P
N
e
w
3
s
a
B
L
s
c
A
m
A
i
c
t
A. Pecorelli, et al. Panel A. Fig. 3. Increased formation of NLRP3/ASC in-
flammasome complexes in RTT fibroblasts.
Panel A. Confocal images showing localization of
NLRP3 (green fluorescence) and ASC (red fluor-
escence) in control and RTT fibroblasts stimulated
with LPS 100 μg/ml for 6 h and ATP 5 mM for
30 min. Overlay of the green and red channel
shows that there is colocalization between NLRP3
and
ASC.
Nuclei
are
stained
with
DAPI.
Bar = 15 μm. CTR, control; RTT, Rett syndrome;
LPS, lipopolysaccharide; ATP, adenosine tripho-
sphate. *P < 0.05. Panel B. Pearson's correlation
coefficient values for colocalization of NLRP3 and
ASC.
Co-localization
data
were
given
as
means ± SD. Results were analyzed by Two-way
ANOVA, with post-hoc Tukey's multiple compar-
isons test. (For interpretation of the references to
colour in this figure legend, the reader is referred
to the Web version of this article.) 4. Discussion A study by Kishi and colleagues [52]
on the cortex of Mecp2-null mice demonstrated an abnormal upregu-
lation of NF-κB signaling, which reduction ameliorated the dendritic
complexity of callosal projection neurons and prolonged their normal
lifespan. Similarly, a marked decrease in inflammation markers was
observed in the cerebellar area of Mecp2-knockout mice after treatment
with a specific glycogen synthase kinase-3b (Gsk3b) inhibitor that at-
tenuated the nuclear NF-κB activity [53]. Together, these evidence and
our results suggest the hypothesis that NF-κB pathway dysregulation
could play a significant role in RTT pathophysiology, as already proven
in rheumatoid arthritis, inflammatory bowel disease, multiple sclerosis,
atherosclerosis, systemic lupus erythematosus, type I diabetes, chronic
obstructive pulmonary disease and asthma [54]. In addition to regulate multiple aspects of the immune and in-
flammatory functions, NF-κB also has a role in regulating the activation
of inflammasomes by inducing the transcriptional expression of NLRP3,
pro-IL-1β and pro-IL-18 [32,39]. Therefore, based on the evidence of a
constitutive activation of NF-κB p65 in RTT fibroblasts, we continued
our study by analyzing the main components of NLRP3 signaling
pathway. In order to achieve an effective inflammasome-mediated re-
sponse, the presence of the adaptor protein ASC is crucial, since it can
recruit the pro-caspase-1 through a “caspase activation and recruitment
domain” (CARD), facilitating caspase-1 dimerization and activation,
thus ensuring the formation of a fully functional inflammasome [55]. About ASC, as expected, LPS + ATP increased markedly the levels of
ASC in CTR cells, whereas, although exhibiting significantly higher
basal levels of ASC, as compared to CTR fibroblasts, RTT cells did not
undergo any change upon LPS/ATP treatment. Several papers showed
that ASC gene is under the control of a methylation-sensitive promoter
[56,57]. In addition, Webb and colleagues [58], by using an IRIDESC-
ENT algorithm analysis, revealed that ASC is sensitive to MECP2 ac-
tivity and, moreover, transcriptional silencing of ASC gene, associated
with the complete methylation of its promoter region, was observed in
prostate cancer [59]. Therefore, we hypothesize that the loss of the
transcriptional repression activity by a deficient MECP2 could be a
mechanism able to explain the increase of ASC levels in RTT fibroblasts
[60]. Furthermore, the increased basal levels of ASC in RTT fibroblasts
could also be another hypothetic molecular mechanism able to explain
the constitutive NF-κB p65 hyperactivation. Indeed, there is evidence
that identified ASC as an upstream regulator of NF-κB signaling [61]. 4. Discussion How-
ever, it is also well known that an uncontrolled and prolonged in-
flammasome activation with an excessive release of cytokines can
participate in the onset and progression of chronic inflammatory states
associated with a wide variety of human diseases [10,36,37]. mainly driven by two different signals. Typically, ‘signal 1’ or ‘priming’
molecules (e.g., LPS) induce the expression of NLRP3, pro-IL-1β and
pro-IL-18 via NF-κB activation [32,39]. Moreover, PAMPs or DAMPs
(e.g., ATP, particulate matter, heme, pathogen-associated RNA, etc)
activate the NLRP3 inflammasome assembly (‘signal 2’) [32]. The
particular interest towards NLRP3 inflammasome lies in the broad
range of molecular and cellular signaling events that are induced by its
activators among which there are ionic flux (e.g., K+, Na+, chloride
fluxes and Ca2+ signaling), ROS production, lysosomal destabilization,
mitochondrial dysfunction and post-translational modifications of
NLRP3 [40,41]. Of note, some of these stimuli are present in RTT pa-
tients [42,43] and, therefore, could promote a dysregulated NLRP3
inflammasome function that, in turn, could contribute to the typical
RTT subclinical inflammation [6,38,44]. Although RTT is primarily a genetic brain disorder with prominent
neurological symptoms, a vast body of evidence supports a key role for
the interplay between redox imbalance and a subclinical inflammatory
status (oxinflammation phenomenon) in different systemic abnormal-
ities observed in RTT patients (i.e., mitochondrial dysfunctions, meta-
bolic alterations, immune dysregulation, gastrointestinal problems,
breathing disturbances and recurrent infections) [6,38]. In this contest,
the dysregulation of NLRP3 inflammasome pathway could be a new
molecular mechanism able to contribute to RTT pathophysiology, in
both brain and periphery. In the present work, RTT cells showed an increased steady level of
nuclear NF-κB p65 subunit, as compared to CTR cells. A significant
increase of NF-κB p65 nuclear translocation was found in CTR cells after
LPS + ATP treatment, whereas RTT fibroblasts did not undergo any
significant change in the transcription factor nuclear levels in response
to the inflammatory stimuli. These peculiar results suggest that, in basal
conditions, RTT fibroblasts exhibit a marked NF-κB p65 activation In general, although still under debate [39], it is accepted that the
molecular mechanisms leading to the inflammasome activation are 6 Redox Biology 28 (2020) 101334 A. Pecorelli, et al. Fig. 4. Altered protein and mRNA levels of caspase 1 in RTT fibroblasts. Panel A. 4. Discussion Representative Western blots images for pro-CASP1 and active CA
p20 in control and RTT fibroblasts stimulated with LPS 100 μg/ml for 6 h
ATP 5 mM for 30 min. Quantification is showed in bottom panel. Data w
given as means ± SD. CTR, control; RTT, Rett syndrome; LPS, lipop
saccharide; ATP, adenosine triphosphate. *P < 0.05. Results were analyze
Two-way ANOVA, with post-hoc Tukey's multiple comparisons test. Pane
The mRNA levels of pro-CASP1 were analyzed by real-time RT-PCR. Data
expressed as 2−ΔΔCt, using GAPDH as the reference, and one of the contro
the internal calibrator. Data are given as means ± SD. CTR, control; RTT,
syndrome; LPS, lipopolysaccharide; ATP, adenosine triphosphate. *P < 0
Results were analyzed by Two-way ANOVA, with post-hoc Tukey's mul
comparisons test. morphology of peripheral blood mononuclear cells (PBMCs) [6]. Moreover, we recently demonstrated an increased gene expression of
arachidonate 15-lipoxygenase (ALOX15) in RTT PBMC [44]. This en-
zyme is able to oxidize polyunsaturated fatty acids such as linoleic acid,
producing 13- and 9- hydroxyoctadecadienoic acid (13-HODE and 9-
HODE, respectively); levels of these two compounds were found also
increased in RTT serum [44]. High HODEs levels are able to exert pro-
inflammatory effects such as the induction of cytokines and cell adhe-
sion molecules expression, the modulation of immune cells chemotaxis
and monocyte adhesion to vascular endothelial cells and the activation
of transcription factors including NF-κB [46]. In addition, beyond the
subclinical inflammation, also the redox imbalance, widely observed in
RTT, could be another plausible mechanism able to induce the up-
regulation of redox-sensitive transcriptional factors such as NF-κB [47]. Of note, an aberrant NF-κB signaling has been already reported in RTT
and related to MECP2 deficiency, in both patients and animal models. Alterations of the NF-kB pathway were first revealed in a transcrip-
tional profiling study on the whole blood of RTT patients [48]. Then,
the possible involvement of MECP2 in immune function regulation was
suggested by the enhanced NF-κB signaling coupled with an increased
expression of inflammatory cytokines (i.e., TNFα, IL-6, and IL-3) found
in MECP2-deficient human PBMCs and in the human monocyte line
THP1 [49,50]. In line with these works, microglia and macrophages
from Mecp2-deficient mice displayed a deregulated inflammatory re-
sponse with an abnormal transcriptional expression of inflammatory
genes after TNFα stimulation [51]. 4. Discussion Since NLRP3 protein expression in RTT fibroblasts was found to be Fig. 4. Altered protein and mRNA levels of caspase 1 in RTT fibroblasts. g
p
p
Panel A. Representative Western blots images for pro-CASP1 and active CASP1
p20 in control and RTT fibroblasts stimulated with LPS 100 μg/ml for 6 h and
ATP 5 mM for 30 min. Quantification is showed in bottom panel. Data were
given as means ± SD. CTR, control; RTT, Rett syndrome; LPS, lipopoly-
saccharide; ATP, adenosine triphosphate. *P < 0.05. Results were analyzed by
Two-way ANOVA, with post-hoc Tukey's multiple comparisons test. Panel B. The mRNA levels of pro-CASP1 were analyzed by real-time RT-PCR. Data are
expressed as 2−ΔΔCt, using GAPDH as the reference, and one of the controls as
the internal calibrator. Data are given as means ± SD. CTR, control; RTT, Rett
syndrome; LPS, lipopolysaccharide; ATP, adenosine triphosphate. *P < 0.05. Results were analyzed by Two-way ANOVA, with post-hoc Tukey's multiple
comparisons test. Panel A. Representative Western blots images for pro-CASP1 and active CASP1
p20 in control and RTT fibroblasts stimulated with LPS 100 μg/ml for 6 h and
ATP 5 mM for 30 min. Quantification is showed in bottom panel. Data were
given as means ± SD. CTR, control; RTT, Rett syndrome; LPS, lipopoly-
saccharide; ATP, adenosine triphosphate. *P < 0.05. Results were analyzed by
Two-way ANOVA, with post-hoc Tukey's multiple comparisons test. Panel B. The mRNA levels of pro-CASP1 were analyzed by real-time RT-PCR. Data are
expressed as 2−ΔΔCt, using GAPDH as the reference, and one of the controls as
the internal calibrator. Data are given as means ± SD. CTR, control; RTT, Rett
syndrome; LPS, lipopolysaccharide; ATP, adenosine triphosphate. *P < 0.05. Results were analyzed by Two-way ANOVA, with post-hoc Tukey's multiple
comparisons test. which amplitude cannot be achieved by control cells even upon pro-
inflammatory stimulation. This indicates the occurrence of an already
activated inflammatory response in RTT fibroblasts that, on the other
hand, seem unable to respond to further pro-inflammatory challenges. Our results on the constitutively activated status of NF-κB p65 sig-
naling with the subsequent increased levels of IL-1β; production of
which is induced only in response to inflammatory stimuli [45], may be
likely related to the oxinflammation condition typical of RTT [6,38]. 4. Discussion Interestingly, recent
findings also revealed a role for HODEs, that we found increased in RTT
serum [44], as positive modulators of NLRP3 inflammasome assembly
and caspase-1 activation [65]. Based on the evidence of the extracellular release of inflammasome
components and a recent report that showed increased concentrations
of caspase-1, IL-1β and IL-18 in serum samples from ASD patients [22]
(clinically similar to RTT), we decided to confirm our in vitro results on
RTT fibroblasts also in the serum from RTT patients. The increased
serum levels of ASC oligomers and IL-18 corroborated our cellular
findings on the occurrence of a deregulated inflammasome pathway in
RTT. Indeed, there is evidence that ASC oligomers remain catalytically
active in circulation and, after phagocytosis by adjacent cells, can
propagate inflammasome activation, thereby augmenting the pro-in-
flammatory cascade [67]. In addition, the LPS + ATP treatment enhanced the levels of the
cleaved form of caspase-1 (p20) in CTR cells, in coherence with the
increased co-localization of the sensor NLRP3 and the adaptor ASC
proteins within the cytoplasm, thus confirming that the LPS + ATP
promoted the functional assembly of inflammasome in fibroblasts from
healthy individuals. In basal condition, RTT cells were found to have
unchanged levels of CASP1 p20. However, the basal activation state of
the CASP1 seemed to be higher in RTT fibroblasts than in CTR cells, as
shown by the markedly lower pro-CASP1 protein levels found in fi-
broblasts from RTT patients. This idea was confirmed by the fact that
RTT cells did not undergo any statistically significant change of CASP1
p20 protein level upon pro-inflammatory stimulus. In addition, since
images on cleaved IL-1β showed an increased green signal in un-treated
RTT fibroblasts, similar to the fluorescence intensity of LPS plus ATP
stimulated CTR fibroblasts, we can suppose that CASP1 is able to
properly work in the cleavage and maturation of IL-1β. While this Therefore, taken together our data suggest that de-regulated in-
flammasome activation may have a role in the occurrence of a sub-
clinical inflammatory status in RTT. Several findings demonstrated that
a low-grade inflammatory response, avoiding a negative feedback reg-
ulation, together with the presence of ROS during the inflammatory
processes play a key role in several pathologies: genetic diseases
[11,69], diabetes [70], cardiovascular disease [71], cancer [72], and
neurodegenerative disorders, such as Alzheimer's and Parkinson's dis-
ease [73]. 4. Discussion CTR, control; RTT, Rett syndrome; *P < 0.05. Results were analyzed by t-test for independent groups (CTR N = 17; RTT N = 41). Fig. 5. Increased release of inflammasome components in serum of RTT patients. Panel A. Representative Western blots images for ASC in serum samples from control subjects and RTT patients. Quantification is showed in right panel. Panel B. Representative images and densitometric analysis of Western blotting for ASC oligomers in serum samples from control subjects and RTT patients. Quantification is
showed in bottom panel. Panel C. Serum levels of IL-18 in control subjects and RTT patients were quantified by ELISA. For all the panels, the results are presented as
means ± SD. CTR, control; RTT, Rett syndrome; *P < 0.05. Results were analyzed by t-test for independent groups (CTR N = 17; RTT N = 41). finding requires further investigations, a plausible explanation for the
levels of CASP1 (pro-form and mature form) observed in RTT could be
found in an enhanced extracellular release trough extracellular vesicles
like exosomes [33,34]. Indeed, in addition to NLRP3 and ASC specks
[66,67], also caspase-1 is found in extracellular vesicles. Moreover,
recent papers revealed that pro-caspase-1 could be also activated in
extracellular compartments, leading to the subsequent cleavage of its
substrates in exocytotic secretory pathways, such as exosomes, to dis-
seminate the inflammatory signals to adjacent cells and tissues [68]. substantially unchanged after LPS + ATP treatment, we performed a
multiple immunofluorescence-based analysis of NLRP3 and ASC, in
order to estimate the interaction between these proteins to determine
the inflammasome assembly process [20]. Our results provided evi-
dence of an increased interaction between NLRP3 and ASC in un-
stimulated RTT cells. Furthermore, as expected, control fibroblasts
showed increased NLRP3/ASC co-distribution, following the pro-in-
flammatory challenge, whereas RTT cells were unable to display a si-
milar behavior. Such results are consistent with the data related to NF-
κB p65 signaling and cytosolic ASC levels discussed above. The pre-
activated status of NLRP3/ASC inflammasome could be also linked to
the redox imbalance and the mitochondrial dysfunction, aspects re-
peatedly described in RTT [42]. Indeed, mitochondrial events have
been associated with NLRP3 activation in several different pathological
conditions [62]. By acting upstream of the NLRP3 activation, mi-
tochondria can provide ROS to induce NLRP3 oligomerization and be a
platform for inflammasome assembly [63,64]. 4. Discussion Indeed, multiple elements support the implication of a chronic, low-
grade inflammation in RTT, including high levels of inflammatory
markers and deregulation of acute phase response (APR) proteins, an
unbalanced plasma cytokines profile coupled with an abnormal which amplitude cannot be achieved by control cells even upon pro-
inflammatory stimulation. This indicates the occurrence of an already
activated inflammatory response in RTT fibroblasts that, on the other
hand, seem unable to respond to further pro-inflammatory challenges. Our results on the constitutively activated status of NF-κB p65 sig-
naling with the subsequent increased levels of IL-1β; production of
which is induced only in response to inflammatory stimuli [45], may be
likely related to the oxinflammation condition typical of RTT [6,38]. Indeed, multiple elements support the implication of a chronic, low-
grade inflammation in RTT, including high levels of inflammatory
markers and deregulation of acute phase response (APR) proteins, an
unbalanced plasma cytokines profile coupled with an abnormal 7 Redox Biology 28 (2020) 101334 A. Pecorelli, et al. Fig. 5. Increased release of inflammasome components in serum of RTT patients. Panel A. Representative Western blots images for ASC in serum samples from control subjects and RTT patients. Quantification is showed in right panel. Panel B. Representative images and densitometric analysis of Western blotting for ASC oligomers in serum samples from control subjects and RTT patients. Quantification is
showed in bottom panel. Panel C. Serum levels of IL-18 in control subjects and RTT patients were quantified by ELISA. For all the panels, the results are presented as
means ± SD. CTR, control; RTT, Rett syndrome; *P < 0.05. Results were analyzed by t-test for independent groups (CTR N = 17; RTT N = 41). A. Pecorelli, et al. Redox Biology 28 (2020) 101334 Fig. 5. Increased release of inflammasome components in serum of RTT patients. Fig. 5. Increased release of inflammasome components in serum of RTT patients. Panel A. Representative Western blots images for ASC in serum samples from control subjects and RTT patients. Quantification is showed in right panel. Panel B. Representative images and densitometric analysis of Western blotting for ASC oligomers in serum samples from control subjects and RTT patients. Quantification is
showed in bottom panel. Panel C. Serum levels of IL-18 in control subjects and RTT patients were quantified by ELISA. For all the panels, the results are presented as
means ± SD. 4. Discussion Some of these pathologies have been associated to in-
flammasome de-regulated activation [21,32]. In addition, several authors demonstrated that ROS production, via
the NAD(P)H-oxidase (NOX) activity, induces the formation and acti-
vation of NLRP3 inflammasome in different in vitro and in vivo models
[74,75]. Cervellati and co-workers [7] demonstrated that RTT fibro-
blasts exhibited high NOX enzymatic activity, together with increased
levels of superoxide anion and hydrogen peroxide. Hence, the reported 8 Redox Biology 28 (2020) 101334 A. Pecorelli, et al. A. Pecorelli, et al. Scheme 1. Proposed mechanisms of inflamma-
some involvement in RTT OxInflammation. The scheme summarizes the basal and LPS + ATP-
stimulated status of the inflammasome pathway by
comparing the responses of CTR and RTT fibro-
blasts. As showed in the right panels, RTT fibro-
blasts were unable to further activate an in-
flammasome-dependent
response
to
the
pro-
inflammatory stimulus with LPS and ATP (bottom
panel). Indeed, already in basal conditions (upper
panel), they exhibited a pre-activated state of the
inflammasome machinery, consisting in increased
NLRP3/ASC interaction, CASP1 activation and
cleaved IL-1β expression, coupled with an en-
hanced nuclear translocation of NF-κB p65 sub-
unit. In addition, the deregulation of inflamma-
some pathway was associated with increased
levels of inflammasome components in patient-
derived serum. In conclusion, a state of con-
stitutive inflammasome activation could play a key
role in RTT oxinflammation by fueling and per-
petuating the subclinical inflammatory condition
observed in this syndrome. A. Pecorelli, et al. Redox Biology 28 (2020) 101334 S
s
T
s
c
b
b
fl
i
p
p
i
N
c
h
u
s
l
d
s
r
p
o
A. Pecorelli, et al. Scheme 1. Proposed mechanisms of inflamma-
some involvement in RTT OxInflammation. Scheme 1. Proposed mechanisms of inflamma-
some involvement in RTT OxInflammation. The scheme summarizes the basal and LPS + ATP-
stimulated status of the inflammasome pathway by
comparing the responses of CTR and RTT fibro-
blasts. As showed in the right panels, RTT fibro-
blasts were unable to further activate an in-
flammasome-dependent
response
to
the
pro-
inflammatory stimulus with LPS and ATP (bottom
panel). Indeed, already in basal conditions (upper
panel), they exhibited a pre-activated state of the
inflammasome machinery, consisting in increased
NLRP3/ASC interaction, CASP1 activation and
cleaved IL-1β expression, coupled with an en-
hanced nuclear translocation of NF-κB p65 sub-
unit. Declaration of competing interest The authors declare no conflict of interests. The authors declare no conflict of interests. 4. Discussion In addition, the deregulation of inflamma-
some pathway was associated with increased
levels of inflammasome components in patient-
derived serum. In conclusion, a state of con-
stitutive inflammasome activation could play a key
role in RTT oxinflammation by fueling and per-
petuating the subclinical inflammatory condition
observed in this syndrome. perpetuate the subclinical inflammatory condition observed in this
disease. inflammasome activation in RTT may be likely due also to a NOX-de-
pendent response. Our experiments show that RTT fibroblasts were unable to activate
an inflammasome-dependent response to pro-inflammatory stimuli,
since they exhibited an already altered machinery, thus suggesting a
role of inflammasome in the subclinical inflammatory status, char-
acterizing the pathology (Scheme 1) [6,38]. It is known that stimulation
of the immune system in response to sterile insults can lead to chronic
debilitating conditions. Hence, for insulted cells it is crucial to co-
ordinate the recognition, initiation, and elaboration of signals inducing
inflammasome response, in order to promote the resolution. Whereas a
dysregulation of this system can result in disease [14]. Appendix A. Supplementary data Supplementary data to this article can be found online at https://
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Affinity-Based Methods for the Separation of Parasite Proteins
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Affinity-Based Methods for the
Separation of Parasite Proteins
C.R. Alves, F.S. Silva, F.O. Oliveira Jr, B.A.S. Pereira,
F.A. Pires and M.C.S. Pereira
Instituto Oswaldo Cruz – Fundação Oswaldo Cruz,
Rio de Janeiro, RJ,
Brasil ves, F.S. Silva, F.O. Oliveira Jr, B.A.S. Pereira,
F.A. Pires and M.C.S. Pereira
Instituto Oswaldo Cruz – Fundação Oswaldo Cruz,
Rio de Janeiro, RJ,
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7,200 16 www.intechopen.com 1. Introduction Certain glycoconjugates are important for
the parasite life cycle, and lectin affinity chromatography can help to reveal their roles
(Guha-Niyogi et al., 2001). specifically to certain oligosaccharide structures on glycoconjugates isolated from parasites. Parasite proteins are processed through a multi-lectin affinity column, and they bind to the
immobilized lectins through their sugar chains. Certain glycoconjugates are important for
the parasite life cycle, and lectin affinity chromatography can help to reveal their roles
(Guha-Niyogi et al., 2001). The use of protease inhibitors in affinity chromatography is another important approach for
assessing parasite proteins. Proteases hydrolyze peptide bonds and can therefore degrade
proteins and peptides that influence a broad range of biological functions, including the
process of parasite infection (Mackeron et al., 2006). The specificity of the protease inhibitor
used is an important aspect of this methodology; L- trans-epoxy-succinylleucylamido-(4-
guanidino) butane (specific to cysteine-protease), pepstatin A (to aspartyl-protease) and
aprotinin (to serine-protease) are frequently immobilized on a solid matrix for this
technique. Glycosaminoglycan (GAG) affinity is the only affinity chromatography method that is based
on the sugar chains of lectin-like proteins. Some of these molecules (such as heparin sulfate,
heparan sulfate, dermatan sulfate, keratan sulfate and chondroitin sulfate) contain complex
oligosaccharide structures, which may be displayed on cell surfaces, incorporated into the
extracellular matrix or attached to secreted glycoproteins, suggesting that they play
structural roles (Dreyfuss et al., 2010). GAGs have been reported as potential candidates for
therapeutic intervention against parasitic infections, such as leishmaniasis and Chagas
diseases (Azevedo-Pereira et al., 2007; Oliveira-Jr et al., 2008). According to the general principle of affinity chromatography (Fig. 1), a protein of interest is
recovered based on its capacity to bind a specific functional group (ligand) that is
immobilized on a bead material (matrix) that has been packed into a solid support (column). Although many ligands (enzymatic substrates, inhibitors of an enzyme, lectin, sugar
residues, vitamins, enzyme cofactors, monoclonal antibodies) have been used to isolate
proteins based on affinity, only lectin, an enzyme inhibitor and glycosaminoglycans have
been used to obtain parasite proteins. The most commonly used matrix materials for the
attachment of the ligand are polysaccharide derivatives (cellulose, dextran and agarose) and
polyacrylamide. Fig. 1. The principle of affinity chromatography. The ligand is covalently bound to a matrix
(A). The functionalized matrix is then able to bind to a target protein aided by a binding
buffer (B). 1. Introduction Affinity chromatography-based techniques have been developed to purify parasite proteins
and improve our understanding of the parasite life cycle. These advances can be translated
into concrete proposals for new drugs, diagnostic methods and vaccines for parasite
diseases and help to reduce social inequality. Affinity chromatography has been demonstrated to be a powerful tool for the isolation and
purification of parasite proteins and has potential applications for diagnosis and therapy. Many studies have focused on parasite proteins that modulate host cell defense, as gp63, a
glycoprotein from Leishmania spp., that is involved in the cleavage of the complement factor
C3b to iC3b, which promotes adhesion of promastigotes to macrophages via complement
receptor 3 (Brittgham et al., 1995). This route of internalization does not lead to production
of oxygen radicals or NO and favors parasite subsistence within the host cell. Another
example is the cysteine protease B (CPB), an important virulence factor of the Leishmania (L.)
mexicana complex, that inhibits lymphocytes Th1 and/or promotes the Th2 response either
through proteolytic activity or through epitopes derived from its COOH-terminal extension
(Pereira et al., 2011). Due to the important role of these molecules, many researchers seek to develop specific and
potent inhibitors for therapeutic strategies. Aspartic protease, a potential target for
antiparasitic therapies, has been isolated from Trypanosoma cruzi by affinity chromatography
using a specific inhibitor of this enzyme (Pinho et al., 2009); this enzyme is target for
treatment of infections caused by HIV (Wlodawer & Vondrasek, 1998) and Candida (Hoegl
et al., 1999). This enzyme has also been reported in Plasmodium spp. and Schistosoma mansoni,
where it plays an important role in host hemoglobin degradation (Klemba & Goldberg,
2002). Additionally, specific inhibitors of plasmepsins and renin are viable drugs for the
treatment of patients with malaria and high blood pressure. These parasite proteins, along with others, have been tested as new targets for chemo- and
immunotherapies for parasite diseases. They have been assessed by lectins or protease
inhibitor affinity chromatography. The separation of sugars based on lectin affinity is one of
main procedure that has been used. This technique is based on the ability of lectins to bind www.intechopen.com 334 Affinity Chromatography specifically to certain oligosaccharide structures on glycoconjugates isolated from parasites. Parasite proteins are processed through a multi-lectin affinity column, and they bind to the
immobilized lectins through their sugar chains. 1. Introduction Afterwards, the bound proteins are eluted with a different buffer (C). Fig. 1. The principle of affinity chromatography. The ligand is covalently bound to a matrix
(A). The functionalized matrix is then able to bind to a target protein aided by a binding
buffer (B). Afterwards, the bound proteins are eluted with a different buffer (C). www.intechopen.com 335 Affinity-Based Methods for the Separation of Parasite Proteins In these procedures, the soluble proteins are prepared from crude parasite lysates (or sub-
cellular fractions) and loaded onto a column under chemical (buffer) and physical
(temperature and pressure) conditions that promote the specific binding of the protein to the
immobilized ligand (affinity) in what is known as the binding phase. Proteins that do not
bind to the immobilized ligand under these conditions are removed from the solid phase by
application of a constant liquid phase, which is referred to as the wash phase. Then, the
bound protein can be recovered by changing the buffer conditions to favor desorption
during the elution phase. In this chapter, we describe the use of affinity chromatography to assess parasite proteins
and the importance of these methods for public health. Several affinity chromatography
protocols are considered. Additionally, we discuss our experience using affinity
chromatography to obtain parasite proteins, and we include some unpublished results
related to Dermatobia hominis third (L3) instar larvae proteases. 2. The use of affinity chromatography in parasite protein studies
2.1 Lectin affinity-based separation of parasite proteins There are relatively few studies available in the current literature describing the use of
lectins to affinity-purify glycosylated proteins from parasites. However, the reports on this
subject demonstrate that this technique is useful for the retrieval of putative virulence
factors or potential protective immunogens from a large array of parasites, including
apicomplexan, trypanosomatids and nematodes (e.g., Fauquenoy et al., 2008, Gardiner et al.,
1996, Smith et al., 2000). In addition to its utility in the isolation of parasite factors, lectin-
based affinity chromatography is also a valuable resource for characterization of the
structure of carbohydrates bound to proteins from these organisms due to the distinct
specificities of the lectins that are available for this type of analysis. Lectins are proteins that specifically bind to sugars, and they have been used for many types
of studies, ranging from blood typing to immune regulation analysis (Rüdiger & Gabius,
2001). These proteins are generally isolated from plants (mostly legume seeds), where they
can be found in abundance. Their usage is determined by the particular sugar structures
that they are able to bind (Rüdiger & Gabius, 2001). The surveyed literature the use of six
plant lectins [concanavalin A (Con A), ricin, jacalin, peanut agglutinin (PNA), wheat germ
agglutinin (WGA) and Wisteria floribunda agglutinin (WFA)] in studies of parasites
glycoproteins. Furthermore, one report described the use of Biomphalaria alexandrina lectin
(BaSII), which in contrast to the others is a lectin obtained from an animal. Con A is a lectin that can be extracted from jack beans of the species Canavalia ensiformis
(family Fabaceae). It binds to mannose or glucose residues and is thus characterized as a
mannose-binding lectin. This lectin presents a high affinity for the oligosaccharide
GlcNAcǃ2Manǂ6(GlcNAcǃ2Manǂ3)-Manǃ4GlcNAc. It is also known to be a potent mitogen
(Beckert & Sharkey, 1970; Rüdiger & Gabius, 2001). Ricin, along with jacalin and PNA, is a lectin that binds to galactose. Specifically, it binds
with high affinity to the motif Galǃ4GlcNAcǃ2Manǂ6 (Galǃ4-GlcNAcǃ2Manǂ3)
Manǃ4GlcNAc. Ricin is highly toxic because it can impair ribosome activity through
cleavage of the nucleobases of ribosomal RNA, and it has potential to be used as a biological www.intechopen.com 336 Affinity Chromatography weapon. This lectin is extracted from Ricinus communis (Family Euphorbiaceae) (Rüdiger &
Gabius, 2001; Lord et al., 2003). weapon. This lectin is extracted from Ricinus communis (Family Euphorbiaceae) (Rüdiger &
Gabius, 2001; Lord et al., 2003). 2. The use of affinity chromatography in parasite protein studies
2.1 Lectin affinity-based separation of parasite proteins Jacalin binds to galactose and N-acetylgalactosamine, and presents a high affinity for the
motif Galǃ3GalNAcǂ. It is obtained from Artocarpus integrifolia (Family Moraceae). It is
commonly used to isolate IgA from human plasma (Kabir, 1998, André et al., 2007). Like Con A, PNA is a legume lectin and is isolated from plants that belong to the family
Fabaceae. It is extracted from Arachis hypogea and binds specifically to the monosaccharide
galactose and to the motif Galǃ3GalNAcǂ, similarly to the binding motif of jacalin. PNA is
used as a marker of T-cell subpopulations and to differentiate between the stages of the
Leishmania parasites life cycle (Dumont & Nardelli, 1979, Wilson & Pearson, 1984, Rüdiger
& Gabius, 2001). WGA is obtained from the species Triticum vulgare. It presents a low affinity for N-
acetylgalactosamine, but it binds to the sialic acid N-acetylneuraminic and to the motif
GlcNAcǃ4GlcNAcǃ4GlcNAcǃ4-GlcNAcǃ4GlcNAc. This lectin has been shown to bind more
avidly to activated human T lymphocytes (Hellström et al., 1976, Rüdiger & Gabius, 2001). WFA is isolated from Wisteria floribunda, a woody liana of the family Fabaceae. Although
some uncertainty regarding its binding specificity remains, it seems that this agglutinin
binds preferentially to the monosaccharide N-acetylgalactosamine and to the motif
GalNAcǂ6GalNAc. WFA is used to fractionate lymphocyte populations, and although it is
not mitogenic like Con A, it can induce lymphokine production in murine splenocytes
(Jacobs & Poretz, 1980; Rüdiger & Gabius, 2001). BaSII is a lectin that can be isolated from the snail B. alexandrina, an intermediate host of the
trematoda parasite Schistosoma mansoni, the causative agent of schistosomiasis. It specifically
binds to the motif Fucǂ1,2Galǃ1,4Glc (Mansour, 1996). 2.1.1 General procedures for the isolation of parasite proteins by lectin affinity The rational for lectin-based affinity chromatography is the same as for other types of
affinity-based fractionation: a sample is exposed to a solid phase that has been coupled to an
affinity separation molecule (a lectin, in this case) under conditions that are adequate for
binding (Fig. 2A). The unbound material from the sample is washed away (generally using
the same buffer applied to equilibrate the solid-phase), and in the final step, the affinity-
bound fraction is recovered by altering the equilibrium conditions of the solid phase (by
changing the system pH or salt concentration) or by adding a molecules that competes for
the binding site of the ligand. To provide several practical examples, a collection of lectin affinity-based methodologies used
to isolate and/or characterize glycoproteins from distinct parasites is listed in the Table 1. It is important to note that some techniques, such as metabolic radioactive labeling (by [3H]-
myristic acid or [3H]-glucosamine, for example) and cell disruption (by Triton X-100,
dioxane or hypotonic solution), must be applied prior to lectin chromatography to allow for
the identification of molecules eluted from the column or the preparation of suitable
samples for the chromatography column, respectively. www.intechopen.com Affinity-Based Methods for the Separation of Parasite Proteins 337 ble 1. Lectin affinity-based www.intechopen.com 338 Affinity Chromatography ble 1. (continued) 339 Affinity-Based Methods for the Separation of Parasite Proteins During the affinity chromatography procedure, other methods, such as isoelectric focusing,
may be used instead of the application of competing carbohydrates to elude the column-
bound material. Furthermore, distinct affinity columns can be used in sequence to purify
fractions with specific characteristics from a single sample. As for the handling of the material that is eluted from an affinity column, many options for
further purification are available, depending on the analysis method chosen for the study. Some of these options include: anion exchange chromatography, size exclusion
chromatography and dialysis. The combination of these accessible approaches allows for a vast array of study possibilities. Several examples of the results obtained by applying lectin-affinity chromatography in
association with other techniques are described in the following paragraphs. www.intechopen.com 2.1.2 Parasite proteins isolated by lectin affinity chromatography Additionally, ISG100 is encoded by a single gene, whereas the trypanosomal plasma
membrane proteins are commonly encoded by tandemly repeated genes that are part of a
multigene family. Nolan et al., (1997) identified a new invariant surface glycoprotein that is heavily N-
glycosylated in the bloodstream forms of Trypanosoma brucei and designated it as ISG100. This glycoprotein presents a large internal domain composed of a serine-rich repetitive
motif, which was previously undescribed, and N-glycosylation sites on the N-terminal
domain. Additionally, ISG100 is encoded by a single gene, whereas the trypanosomal plasma
membrane proteins are commonly encoded by tandemly repeated genes that are part of a
multigene family. Potentially protective glycoprotein fractions from Haemonchus contortus, a parasitic
nematode in ruminants, were also obtained by lectin chromatography (Smith et al., 2000). The findings from that study confirmed the potential of the H. contortus PNA-binding
glycoprotein fraction as an efficacious antigen against this parasite infection in sheep. Furthermore, this study identified another highly protective fraction that binds to jacalin. This second protective fraction presents sialyted versions of the same oligosaccharides that
bound to the PNA column. Another study on the protective properties of the glycoproteins of H. contortus was
performed by the same group (Smith et al., 2003). The results showed that the four purified
glycosylated zinc metalloproteinases from this parasite were such an efficacious antigen
that, to an extent, they could account for most of the protection conferred by the urea-
dissociated whole glycoproteins fraction. However, the role for the glycan moieties of these
enzymes in the protection process was not clear. The capacity of glycoproteins from Caenorhabditis elegans, a free living nematode, to induce
protection from a challenge with H. contortus in sheep was assayed by Redmond et al. (2004). The lectin affinity methodology was able to identify glycoproteins with molecular
masses between 25 and 200 kDa in extracts prepared from C. elegans, but the fractionated
glycoproteins were not able to confer protection against an H. contortus challenge. These
findings suggest that the conserved glycan moieties between these two species of worm are
not solely responsible for the protections levels observed when native H. contortus antigens
are used. Trypanosoma brucei glycoproteins were shown to present distinctive structural features, such
as the presence of giant poly-N-acetyllactosamine carbohydrate chains (Atrih et al., 2005). The recovered affinity-bound molecules were predominantly, but not exclusively, from the
flagellar pocket. 2.1.2 Parasite proteins isolated by lectin affinity chromatography The structure of an N-linked oligosaccharide from a surface glycoprotein of Trypanosoma
cruzi, an important human parasite that causes Chagas disease, was defined in a study using
lectin chromatography (Couto et al., 1990). It was determined that the structure of this
oligosaccharide is comprised of complex carbohydrate chains that possess a terminal sialic
acid, ǂ-L-fucose and a galactosyl(ǂ1,3)galactose unit. The cellular localization of glycoproteins of Trypanosoma brucei rodhesiense, a subspecies of
the parasite responsible for the African sleeping sickness, was analyzed using ricin-based
chromatrography (Brickman & Balber, 1993). It was observed that the ricin-binding proteins
were primarily located in the vesicles of the lysosomal /endosomal system. Gardiner et al., (1996) characterized small glycoproteins isolated from the surface of
Trypanosoma vivax, which causes bovine trypanosomiasis. That study was the first to detail
the characteristics of a T. vivax Variable Surface Glycoprotein (VSG). The isolated protein,
designated ILDat 2.1 VSG, presented a molecular mass of 40 kDa and contained mannose
(or a derivative sugar) in small quantities, and it was poorly retained by the lectin affinity
column. It is possible that carbohydrates comprise only the C-terminal anchoring structure
of this protein. The characteristics of a fucosyllactose determinant of a S. mansoni glycoprotein were
identified using affinity chromatography based on a lectin that was isolated from a host of
this parasite, B. alexandrina. This determinant is expressed in the outer chain of a single unit
of complex type N-linked oligosaccharides (Mansour, 1996). Additionally, the VSG glycosyl-phosphatidylinositol membrane anchors of Trypanosoma
congolense, another trypanosomatide species that causes bovine trypanosomiasis, were
studied by lectin affinity (Gerold et al., 1996) using a modification of the technique in which
the bound proteins are electrophoretically desorbed (Reinwald et al., 1981). This analysis
allowed for description of the VSG GPI-anchor in this parasite: it contains a ǃ1,6-linked
galactose as the terminal hexose of the branch and an N-acetyl-glucosamine residue. Also, it
was observed that T. congolense synthesizes two potential GPI-anchor precursors, one of
which is insensitive to phospholipase C activity. www.intechopen.com 340 Affinity Chromatography Nolan et al., (1997) identified a new invariant surface glycoprotein that is heavily N-
glycosylated in the bloodstream forms of Trypanosoma brucei and designated it as ISG100. This glycoprotein presents a large internal domain composed of a serine-rich repetitive
motif, which was previously undescribed, and N-glycosylation sites on the N-terminal
domain. 2.1.3 Remarks on the isolation of proteins by lectin affinity chromatography These reports provide examples of the uses of lectin affinity chromatography to identify
potentially antigenic fractions of parasites that could be used for vaccine development. Also,
they point to the potential of this method to characterize glyconjugates, such as the
glycoproteins that are present on the parasite surface or secreted by these organisms. However, apart from these purely structural or clinically oriented applications, this method
may also be relevant in other investigations, including studies of host-parasite interactions. This hypothesis is reinforced by reports indicating that lectin-glycan binding is important
for the infection and virulence processes of some parasites, e.g. Acanthamoeba castellanii
(Garate et al., 2006), H. contortus (Turner et al., 2008), L. (V.) braziliensis (Rebello et al., 2009)
and T. gondii (Fauquenoy et al., 2008) Fig. 2. Illustration of the affinity chromatography methodologies. The target molecules are
bound to their ligands immobilized on a solid phase matrix. (A) Lectin affinity
chromatography, (B) Protease inhibitor affinity chromatography and (C)
Glycosaminoglycan affinity chromatography. Proteins = blue circle; carbohydrates = red
pentagon and hexagon; protease inhibitors = green drop-like form; ions =yellow circles; and
solid phase matrix beads = gray circle. Fig. 2. Illustration of the affinity chromatography methodologies. The target molecules are
bound to their ligands immobilized on a solid phase matrix. (A) Lectin affinity
chromatography, (B) Protease inhibitor affinity chromatography and (C) Fig. 2. Illustration of the affinity chromatography methodologies. The target molecules are
bound to their ligands immobilized on a solid phase matrix. (A) Lectin affinity
chromatography, (B) Protease inhibitor affinity chromatography and (C)
Glycosaminoglycan affinity chromatography. Proteins = blue circle; carbohydrates = red
pentagon and hexagon; protease inhibitors = green drop-like form; ions =yellow circles; and
solid phase matrix beads = gray circle. g
p y, ( )
y
g
p y
( )
Glycosaminoglycan affinity chromatography. Proteins = blue circle; carbohydrates = red
pentagon and hexagon; protease inhibitors = green drop-like form; ions =yellow circles; and
solid phase matrix beads = gray circle. 2.1.2 Parasite proteins isolated by lectin affinity chromatography These glycoproteins carry massive glycans, representing the largest poly-
LacNAc structures reported to that date, and they may produce a gel-like matrix in the
lumen of the flagellar pocket and/or the endosomal/lysosomal system. Despite their
remarkable size, these glycans present a very simple neutral structure, containing only
mannose, galactose and N-acetylglycosamine. Important glycoproteins from the apicomplexan parasite Toxoplasma gondii have also been
analyzed by lectin affinity methods. It was shown that these components are pivotal factors
for host invasion and intracellular development of parasites (Fauquenoy et al., 2008). Cysteine proteinases from promastigostes of Leishmania (Viannia) braziliensis were shown to
be anchored to the membrane by glysoylphosphatidylinositol structures in an analysis of the
hydrophobic fraction of promastigote forms. These enzymes are suggested to play a role in
the process of parasite survival inside its hosts (Rebello et al., 2009). www.intechopen.com 341 Affinity-Based Methods for the Separation of Parasite Proteins www.intechopen.com www.intechopen.com 2.2 Protease inhibitors affinity-based separation of parasite proteins Methodologies for the purification of parasite proteases have been applied in studies
investigating the biological roles of these enzymes in parasite, including their participation in
the infection process and in the survival of the parasites inside their hosts (McKerrow et al,
2006). Inhibitor affinity chromatography consists of the fractionation of parasite samples based
on the reversible interactions between proteases and their specific inhibitors while the latter
are covalently attached to a matrix (Fig. 2B). This technique can also be performed using
irreversible inhibitors under particular conditions that will be described further in this section. It is also interesting to note that, based on the specificity of the inhibitor used in the affinity
chromatography, it is possible to suggest the enzyme class of the isolated protein. However,
complementary analyses, such as characterization of the proteolytic activity, are often
necessary to confirm these findings. Nevertheless, this purification strategy presents an
initial advantage when compared to other methodologies. In this section, fractionation approaches for serine-, aspartic acid- and cysteine proteases in
specific parasites will be described. These approaches must take the class of the studied
enzyme into consideration, as well as the inhibitor to be used and the characteristics of the
mobile phase used for chromatography. www.intechopen.com 342 Affinity Chromatography le 2. Protease Inhibitors affinity-based Table 2. Protease Inhibitors affinity-based www.intechopen.com Affinity-Based Methods for the Separation of Parasite Proteins 343 able 2. (continued) www.intechopen.com 344 Affinity Chromatography Aprotinin and pepstatin A are examples of inhibitors that are frequently used in the
isolation of serine- and aspartic acid proteases, respectively, from many parasite species
(Bond & Beynon). Other inhibitors that have been previously described in the isolation of
serine proteases include soybean trypsin inhibitor (SBTI) and chloromethylketone (CMK). As for the purification of cysteine proteases, the use of three other inhibitors has been
reported: L-transepoxysuccinyl-leucylamido-[4-guanidino]butane (E-64), bacitracin and
glycyl-phenylalanyl-glycyl-semicarbazone (Table 2). It must be emphasized that these
inhibitors cannot be used to isolate all of the proteases classes from parasites, as they present
distinct affinities for members of different groups and families within these enzyme classes. Therefore, investigation of the possible variations present in the active site of these enzymes
may prove useful. The features of the buffer (temperature, pH and ionic strength) to be used may vary according
to the ligand’s physicochemical characteristics, the chemical environment of the parasite
enzyme and the analyzed species of parasite. 2.2 Protease inhibitors affinity-based separation of parasite proteins For example, distinct buffers were used for the
purification of serine proteases from S. mansoni and Trichinella spiralis using benzamidine. It is
also noteworthy that for each organism, a different matrix was used to immobilize the
inhibitor, sepharose for S. mansoni and celite for T. spiralis. The use of distinct buffers in studies
that are based on the same inhibitor is also noted in reports of SBTI, E-64, bacitracin and
glycyl-phenyalanyl-glycyl-semicarbazone, all of which are cysteine protease inhibitors. Affinity chromatography with an irreversible inhibitor has also been described previously;
the cysteine-protease inhibitor is an example of this strong binding. In the interaction
between E-64 and cysteine-protease, a covalent bond is established (Matsumoto, 1989). Therefore, a reaction between the epoxy groups of the inhibitor and the thiopropyl group of
the sepharose matrix is necessary to bind E-64 to a solid support. This reaction prevents the
reaction of E-64 with the cysteine residue at the protease catalytic center. However, this does
not affect the bond between the inhibitor and cysteine-protease; instead, it only results in
inhibition of the proteolytic activity (Govrin, 1999). 2.2.1 Parasite proteins isolated by cysteine-protease inhibitors affinity
chromatography There is only one published example of the use of E-64 affinity chromatography to assess
cysteine-protease isolated from a parasite, and this study was conducted with the T. cruzi
epimastigote. In this study, chromatography was useful for assessing the effects of ǃ-
Lapachone naphthoquinones on a 60 kDa cysteine-protease activity present in T. cruzi. The
results demonstrated the potential of this protease inhibitor as a new antichagasic compound
(Bourguignon et al., 2011). Another example of a cysteine-protease isolated by inhibitor affinity
chromatography in parasites was described for Plasmodium falciparum. In this case, a glycyl-
phenyalanyl-glycyl-semicarbazone-based column was used to isolate a protease with a
molecular weight of 27 kDa, as determined by SDS-PAGE (Shenai et al, 2000). 2.2.2 Parasite proteins isolated by serine-protease inhibitors affinity chromatography Aprotinin affinity-based chromatography was useful for the isolation of a serine-protease of
115 kDa (Silva-Lopez et al., 2005), a 68 kDa (Morgado- Diaz et al., 2004; Silva-Lopez et al.,
2004) and a 56kDa (Silva-Lopez et al., 2004) from L.(L.) amazonensis compared to other www.intechopen.com 345 Affinity-Based Methods for the Separation of Parasite Proteins purification procedures that were used to isolate parasite serine peptidase enzymes (Kong et
al., 2000; Ribeiro de Andrade et al., 1998). In Leishmania (V) braziliensis promastigotes, 60 kDa
and 45 kDa enzymes were purified using the aprotinin affinity-based and activity esterase
assessed against N-alpha-benzoyl-L-arginine ethyl ester hydrochloride and Nalpha-p-tosyl-
L-arginine methyl ester hydrochloride (Guedes et al., 2007). Furthermore, three protein
profiles were isolated from Leishmania chagasi promastigotes, including LCSI (58 and 60
kDa), LCSII (60, 66, 105 and kDa) and LCSIII (68 and 76 kDa), which were characterized as
serine-protease enzymes based on their activity toward ǂ-N-ρ-tosyl-L-arginine methyl ester
substrate (Silva-Lopez et al., 2010). Furthermore, serine proteases with molecular weights of
75 kDa (Silva-Lopez et al., 2008) and 115 kDa (Choudhury et al., 2009) were identified as
excretory products of T. cruzi and components of the sub-cellular environment in Leishmania
donovani, respectively, although the chromatography step was not able to produce a
homogeneous fraction. Furthermore, a intracellular serine protease of 58 kDa was were
purified from Leishmania donovani (Choudhury et al., 2010). In addition, the aprotinin affinity-based chromatography was useful for the isolation of
serine-proteases of 35 kDa and 26 kDa from Anisakis simpZex (Morris et al, 1994), 43 kDa
from Candida albicans (Morrison et al, 1993), 15 kDa from Schistosoma mansoni (Salter et al,
2000), 42 kDa from Rhipicephalus (B.) microplus (Cruz et al, 2010), 60 kDa and 30 kDa from
Trichomonas vaginalis (Sommer et al; 2005) and 35 to 52 from Caenorhabditis elegans (Geier et
al; 1999). Benzamidine-celite was applied in the isolation of serine proteases among the excreted or
secreted proteins of T. spirali. The recovered proteases were not purified to homogeneity,
and they showed molecular masses of 18 kDa, 40 kDa and 50 kDa (Todorova & Stoyanov). A
similar finding was reported for the serine-proteases of Chrysomya bezziana larvae by using
an SBTI-based column to purify four proteins with molecular masses of 13 kDa, 16 kDa, 26
kDa and 28 kDa (Muharsini et al., 2000). www.intechopen.com 2.2.2 Parasite proteins isolated by serine-protease inhibitors affinity chromatography Because it is possible to isolate heterogeneous products using inhibitors for affinity-based
chromatography, we assessed a serine-protease from the third (L3) instar larvae of D. hominis. This ectoparasite causes dermatobiose in vertebrates, including humans, and it is
particularly relevant in cattle, where it can cause a drop in production of meat and milk,
leather as well depreciation (Maia & Guimarães, 1985). Due to the association of DEAE-Sephacel with aprotinin agarose, it was possible to assess a
serine protease from L3 larvae (Fig. 3). The fractions obtained by ion change
chromatography containing estearasic activity were pooled and then fractionated on an
aprotinin-agarose column. This fraction showed a profile with multiple bands by SDS-PAGE
and silver staining, and only one band of enzyme activity (50 kDa) was detected by gelatin-
SDS-PAGE at pH 7.5 (Fig. 3). Interestingly, this band of 50 kDa was not initially detected in
the extracts from L3 by gelatin-SDS-PAGE. The expression of this enzyme is likely low in
these larvae, and it can only be detected after concentration by chromatographic methods. The proposed strategy to isolate a serine protease allowed for the detection of a band of 50
kDa in extracts of L3 larvae, and this band had not been previously detected in the direct
analysis of the total extract by gelatin-SDS-PAGE. Additionally, this fraction was found to
have esterase activity (data not shown). www.intechopen.com 346 Affinity Chromatography Fig. 3. Electrophoresis of proteins from L3 instar larvae of Dermatobia hominis eluted from a
column of aprotinin-agarose. A total of 20 μg of protein from each fraction was resolved by
SDS-PAGE (A) and gelatin-SDS-PAGE (B) and the bands were detected by silver staining
and negative coloration, respectively. The arrow indicates a serine protease of 50 kDa. The
molecular mass markers are indicated (kDa). These results are representative of two
independent assays Fig. 3. Electrophoresis of proteins from L3 instar larvae of Dermatobia hominis eluted from a
column of aprotinin-agarose. A total of 20 μg of protein from each fraction was resolved by
SDS-PAGE (A) and gelatin-SDS-PAGE (B) and the bands were detected by silver staining
and negative coloration, respectively. The arrow indicates a serine protease of 50 kDa. The
molecular mass markers are indicated (kDa). These results are representative of two
independent assays 2.2.3 Parasite proteins isolated by aspartyl-protease inhibitors affinity
chromatography Affinity-based chromatography based on pepstatine A was used to isolate a 52 kDa aspartyl
protease from Neospora caninum tachyzoites (Naguleswaran et al., 2005) and a 45 kDa enzyme
from S.mansoni (Valdivieso et al., 2003). In Trypanosoma cruzi epimastigotes, two aspartyl
proteases were isolated (cruzipsin-I and cruzipsin-II). The molecular mass was estimated to be
120kDa by high performance liquid chromatography gel filtration, and the activities of these
enzymes were detected in a doublet of bands (56 kDa and 48 kDa). These findings
demonstrate that both proteases are novel T. cruzi acidic proteases. The physiological function
of these enzymes in T. cruzi is not completely defined (Pinho et al., 2009). www.intechopen.com 347 Affinity-Based Methods for the Separation of Parasite Proteins An aspartyl protease with molecular mass of 37 kDa (plasmepsin) was isolated from the
surface of Plasmodium ookinete, and its sequence was determined by mass spectrometry (Li et
al., 2010). This protease was purified by using a benzamidine affinity-based column, which
is typically used for the isolation of serine proteases. Structural similarity between the active
site residues of the serine- and aspartyl proteases is possible, as some hydrogen-bonded
residues can are arranged without any strain, such as in the formation of an oxyanion hole,
in a manner that resembles the active site of a serine protease (Andreeva et al., 2004) 2.2.4 Remarks on the isolation of proteins by protease inhibitors affinity
chromatography Although the studies that have been conducted to isolate parasite proteases are of great
medical interest, no parasiticide drug has been proposed thus far. In general, the
chromatography methods involving inhibitor-based affinity-capture have been useful only
to describe these enzymes in parasites and to establish their biochemical properties, their
functions and their application in drugs tests. Furthermore, the heterogeneous material obtained from affinity-based chromatography may
require additional procedures for purification of the enzyme. Thus, other techniques must
be applied to obtain proteases with greater purity, including molecular exclusion and ion
exchange chromatography. 2.3 Glycosaminoglycans affinity-based separation of parasite proteins Microbes have developed different strategies to gain access into mammalian cells
(Bermúdez et al., 2010; Caradonna & Burleigh 2011; Soong et al., 2011). The first step
involves the recognition of molecules at the surface of the target cell, which triggers the
activation of signaling pathways that are implicated in the parasite internalization (Abban &
Meneses 2010; Epting et al., 2011). Host cell surface sulfated proteoglycans have been
implicated as key molecules at the host cell-parasite interface, mediating the adhesion and
invasion of numerous parasitic microorganisms (Jacquet et al., 2001; Kobayashi et al., 2010;
O'Donnell & Shukla 2010). 2.3.2 Role of heparin-binding proteins in pathogen-host cell Many pathogens express surface proteins that interact with GAGs in different stages of their
life cycle. Although some parasites can bind to multiple GAGs (Coppi et al., 2007; Fallgren
et al., 2001), heparan sulfate proteoglycan (HSPG) has been implicated in the recognition
and/or invasion process of a wide range of pathogens, including viruses, bacteria and
protozoan parasites (Bambino-Medeiros et al., 2011; Dalrymple & Mackow 2011; Yan et al.,
2006;). Despite the role of heparin-binding proteins in many physiological and pathological
processes, the basis of the heparin-protein interaction at the molecular level is still unclear. Thus, efforts have been concentrated to enhance methods for the isolation and
characterization of heparin-binding proteins, and, in parallel, to determine the role of this
GAG in pathogen-host cell interaction. Currently, heparin affinity chromatography has been
applied to the purification of GAG-binding proteins from different pathogens (Table 3). In
these chromatography assays, the heparin is covalently coupled to agarose or sepharose
beads and its sulfates and carboxylates chains are able to bind many proteins by basic amino
acids (Fig. 2C). This technique has been used to isolate heparin-binding proteins without loss of their
biological activity, leading to a better understanding of the mechanism involved in the
parasite invasion process. For example, chlamydial outer membrane complex (OmcB), a 60
kDa cysteine-rich protein, displays a protein motif (50-70OmcB peptide) that acts as an
acceptor molecule to bind heparan sulfate (HS) and promote Chlamydia invasion in
eukaryotic cells (Stephens et al., 2001). Attachment of Helicobacter pylori to gastric epithelial
cells also involves HS recognition. Two major proteins, one with a molecular mass of 71.5
kDa and pI 5.0 (HSBP50) and the other with a molecular mass of 66.2 kDa and pI 5.4
(HSBP54), have been identified on the surface of bacterial cells that are able to bind HS. The
amino acid sequences of these proteins (HSBP50 – VPERAVRAHT; HSBP54 -
VHLPADKTNV) are not homologous with bacterial adhesins or other HS-binding proteins
(Ruzi-Bustos et al., 2001). Other proteins with the ability to bind heparin (66 and 60 kDa)
have been identified in Staphylococcus aureus. The partial characterization of the amino acid
sequences, which consist of DWTGWLAAA for the 66 kDa protein and MLVT for the 60
kDa protein, revealed no identity with HBPs from Chlamydia or Helicobacter pylori. HBPs
from S. 2.3.1 Structure of glycosaminoglycans Proteoglycans (PGs) are composed of core proteins that are covalently linked to
glycosaminoglycan (GAG) chains. As components of the extracellular matrix, the structural
diversity of PGs depends on the identity of the core protein and the GAG composition. GAGs are linear polysaccharides comprised of disaccharide repeats containing uronic acid
and hexosamine. GAGs vary in the type of hexosamine, hexose or hexuronic acid unit. The
sulfated GAGs are classified as heparin [2-O-sulfo-ǃ-D-glucuronic acid (GlcUA-2S) or 2-O-
sulfo-ǂ-L-iduronic
acid
(IdoUA-2S)
and
N-acetylglucosamine
(GlcNAc)
or
N-
sulfoglucosamine (GlcNS)], heparan sulfate [GlcUA, IdoUA or IdoUA-2S and GlcNAc or
GlcNS], chondroitin sulfate [GlcUA and N-acetylgalactosamine (GalNAc)], dermatan sulfate
[GlcUA or IdoUA and GalNAc] and keratan sulfate [galactose (Gal) and GlcNAc]. In fact,
the structural diversity of PGs may provide sites of affinity for different ligands and,
therefore, function as co-receptors or receptors for GAG-binding proteins (Dreyfuss et al.,
2009; Ly et al., 2010). Although heparin is not found on the cell surface, this GAG has being www.intechopen.com 348 Affinity Chromatography commonly used as tool for pathogen-host cell interaction assays. Heparins are negativally
charged structures and native heparin presents molecular weights in the range of 5 to 30
KDa, whereas commercial heparin preparations are in the range of 12 kDa to 15 kDa. 2.3.2 Role of heparin-binding proteins in pathogen-host cell aureus have been demonstrated to be sensitive to heat and proteases, such as
pronase E, proteinase K, pepsin and chymotrypsin (Liang et al., 1992). Interestingly, a 17-
kDa heparin-binding protein with pI 4.6 has also been isolated from S. epidermis and S. haemolyticus, but the amino acid sequence similarity is low between these two organisms
(MXTAHSYTXKYNGYTAN and MATQTKGYYYSYNGYV, respectively) and other bacterial
HBPs (Fallgren et al., 2001). Trypanosomatidaes also exploit HS for successful parasite attachment to and/or invasion of
the mammalian and vector hosts. The adhesion of Leishmania amastigotes to macrophages
is mediated by HS, but not other sulfated polysaccharides (Love et al., 1993). Two heparin- www.intechopen.com 349 Affinity-Based Methods for the Separation of Parasite Proteins binding proteins, (65 and 54.5 kDa) from L. (V.) braziliensis promastigotes (HBP-Lb)
recognize several molecules in the gut of Lutzomyia intermedia and Lutzomyia whitmani
(Azevedo-Pereira et al., 2007). The biochemical characterization of these proteins revealed
that only the 65-kDa HBP-Lb has metallo-proteinase activity, and this protein is primarily
localized at the flagellar domain of the promastigotes. Surface plasmon resonance (spr) also
demonstrated high-affinity binding at the flagellar domain, which forms a stable binding
complex (Côrtes et al., 2011). In T. cruzi, HBPs also mediate parasite adhesion by recognition
of PGHS on the surface of the target cells (Bambino-Medeiros et al., 2011; Calvet et al., 2003;
Oliveira-Jr et al., 2008; Ortega-Barria & Pereira, 1991). Currently, three HBPs have been
described in this parasite: a 60-kDa protein named penetrin (Ortega-Barria & Pereira, 1991)
and two other proteins of 65.8 and 59 kDa that bind heparin, HS and chondroitin sulfate
(CS). These proteins have been identified in both trypomastigotes and amastigotes (Oliveira-
Jr et al., 2008). Interestingly, the HBP-HS binding is related to a specific region of the HS
chain, the N-acetylated/N-sulfated HS domain, which promotes parasite attachment and
invasion (Oliveira-Jr et al., 2008). Although only HS binding triggers T. cruzi invasion of
mammalian cells (Ortega-Barria & Pereira, 1991; Calvet et al., 2003; Oliveira-Jr et al., 2008;
Bambino-Medeiros et al., 2003), the multiple GAG recognition may provide an efficient
association with other GAGs within the parasite life cycle. Recently, it has been
demonstrated that sulfated proteoglycans are involved in the adhesion of epimastigotes to
the luminal midgut epithelial cells of Rhodnius prolixus (Gonzalez et al., 2011). www.intechopen.com 2.3.3 Remarks on the isolation of proteins by glycosaminoglycans affinity
chromatography While the application of affinity chromatography has provided advances in our
understanding of heparin-binding proteins, a large number of studies have focused on the
parasite-host cell interface to improve our comprehension of the mechanisms that are
activated by the receptor-ligand interaction (reviewed by Chen et al., 2008). The binding of
Dengue virus to HS, for example, seems to result in the accumulation of virions at the
surface of the human hepatoma cell line HuH-7 and elicit clathrin-dependent endocytosis
(Hilgard & Stockert 2000). In addition to promote attachment and parasite invasion, HSPG
also seems to be involved in the tropism of pathogen to specific tissues. The degree of HSPG
sulfation guides the migration of Plasmodium sporozoites and the invasion of hepatocytes. Highly sulfated heparan sulfate at the surface of hepatocytes seems to regulate the
proteolytic activity of the calcium-dependent protein kinase-6 on the CSP, which triggers the
invasion of the parasite (Coppi et al., 2007). Another interesting phenomenon is the release of syndecan-1, a transmembrane PGHS, as a
mechanism of host defense inhibition. Pseudomonas aeruginosa induces syndecan-1 shedding
through the enzymatic activity of LasA, leading to an enhancement of bacterial virulence
(Park et al., 2001). A similar mechanism has been described for Staphylococcus aureus in
which ǃ-toxin, a secreted virulence factor, also induces syndecan-1 shedding by activating a
metallo-proteinase involved in the host cell shedding mechanism, leading to enhancement
of bacterial virulence due to the recruitment of inflammatory cells (Hayashida et al., 2009). Because heparan sulfate has been shown to be a receptor for a variety of pathogens, HS-
binding polypeptides have been the subject of intense research and provide possibilities for
drug intervention. www.intechopen.com 350 Affinity Chromatography Table 3. Heparin affinity-based www.intechopen.com 351 Affinity-Based Methods for the Separation of Parasite Proteins 3. Conclusion The chromatographic procedures described here maintain the minimal amount of native
folding necessary for proteins to retain their biological and biochemical activities. Thus, the
materials used as supports for packed affinity columns, including agarose, sepharose and
celite (from diatomaceous earth), to immobilize ligands, such as lectins, protease inhibitors
and glycosaminoglycans, do not interfere with the functional properties of these proteins. Furthermore, proteins obtained by affinity-based procedure have been useful in
understanding the biological processes related to the life cycles of parasites and in the
interaction with hosts. These studies are essential to developing strategies, such as the use of
vaccines and drugs, to control the parasite diseases. 4. Acknowledgements We acknowledge the financial support Brazilian funding agencies, including CAPES, CNPq,
FAPERJ and PAPES (CNPq/Fiocruz). Dr. Carlos Roberto Alves and Dr. Mirian Claudia de
Souza Pereira are research fellows of CNPq We acknowledge the financial support Brazilian funding agencies, including CAPES, CNPq,
FAPERJ and PAPES (CNPq/Fiocruz). Dr. Carlos Roberto Alves and Dr. Mirian Claudia de
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HL 42 cells varies between strains. Microbes Infect. 8:866-872 www.intechopen.com www.intechopen.com Affinity Chromatography
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Edited by Dr. Sameh Magdeldin Affinity Chromatography
Edited by Dr. Sameh Magdeldin Affinity Chromatography ISBN 978-953-51-0325-7
Hard cover, 368 pages
Publisher InTech
Published online 21, March, 2012
Published in print edition March, 2012 Most will agree that one major achievement in the bio-separation techniques is affinity chromatography. This
coined terminology covers a myriad of separation approaches that relies mainly on reversible adsorption of
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simplified fundamentals of affinity chromatography together with exemplarily applications of this versatile
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https://openalex.org/W3002665901
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https://scindeks-clanci.ceon.rs/data/pdf/1821-4487/2018/1821-44871804184S.pdf
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English
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The influence of moisture content on popping traits in popcorn
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Journal on processing and energy in agriculture
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cc-by
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Biblid: 1821-4487 (2018) 22; 4; p 184-187
UDK: 633.15 Biblid: 1821-4487 (2018) 22; 4; p 184-187
UDK: 633.15 Biblid: 1821-4487 (2018) 22; 4; p 184-187
5 Original Scientific Paper
Originalni naučni rad Original Scientific Paper
Originalni naučni rad Jelena SRDIĆ*, Vesna PERIĆ*, Ljubiša KOLARIĆ**,Natalija KRAVIĆ*,Vojka BABIĆ*, Milena SIMIĆ*
*Maize Research Institute „Zemun Polje“, Slobodana Bajića 1, Zemun
**Faculty of Agriculture, University of Belgrade, Nemanjina 6, Zemun
e-mail: jsrdic@mrizp.rs Jelena SRDIĆ*, Vesna PERIĆ*, Ljubiša KOLARIĆ**,Natalija KRAVIĆ*,Vojka BABIĆ*, Mile
*Maize Research Institute „Zemun Polje“, Slobodana Bajića 1, Zemun
**Faculty of Agriculture, University of Belgrade, Nemanjina 6, Zemun
e-mail: jsrdic@mrizp.rs ABSTRACT The influence of grain moisture content at harvest and at the moment of popping on popping volume and percentage of unpopped
kernels was analysed. Four popcorn hybrids were studied. Hybrids were harvested when grain moisture content was: above 25%,
between 20 – 25%, and below 18%. Each sample was popped at 20%, 18%, 16%, 14%, 12%, and 10% of grain moisture. All
examined factors and their interactions significantly influenced both popping volume and percentage of unpopped kernels. The
highest popping volume and the lowest percentage of unpopped kernels were observed at 14% grain moisture content. Hybrid ZP
608k had the highest popping volume and the lowest percentage of unpopped kernels at all treatments and overall. The lowest
popping volume and the highest percentage of unpopped kernels were noticed for ZP 501k. The lowest percentage of unpopped
kernels was observed in the last harvest term when grain moisture content was below 18%. g
Key words: popcorn, grain moisture content, popping volume, percentage of unpopped kernels. REZIME If the moisture content is lower, there is not
enough pressure to produce expansion of the grain. On the other
hand if the moisture content is higher it softens the pericarp,
which also reduces popping volume (Hosney et al., 1983). Popping volume is also significantly influenced by genotype
(Srdić et al., 2015; Srdić et al., 2017), popping method
(Gökmen, 2004), and kernel size (Pajić and Babić, 1991; Song
and Eckhoff, 1994). Differences among genotypes are significant
and important, because mostly higher yielding hybrids produce
lower popping volumes (Srdić and Pajić, 2011; Pajić et al.,
2012, Cabaral et al., 2016). The way to overcome this problem when moisture content is below 20%. Hosney et al. (1983) also
stated that the best results of popping volume could be reached
when grain moisture at harvest is between 15 – 18%. Biotic and
abiotic stress factor during production, harvest and processing
could lead to the decrease of the popping volume and also
increase the percentage of unpopped kernels. Among those
drought, frost, pests, diseases, mechanical kernel damaging are
the most significant. Nevertheless, the most important factor
influencing popping volume is the moisture content at the
moment of popping. Researchers agree that the maximum of
popping volume is produced at grain moisture ranging from
11.0% - 15.5% (Allerd-Coyle et al., 2000; Shimoni et al., 2002;
Pajić et al., 2006). Moreover, grain moisture content of 14% is
optimal, and produces highest popping volumes (Gökmen, 2004;
Srdić et al., 2015). If the moisture content is lower, there is not
enough pressure to produce expansion of the grain. On the other
hand if the moisture content is higher it softens the pericarp,
which also reduces popping volume (Hosney et al., 1983). Popping volume is also significantly influenced by genotype
(Srdić et al., 2015; Srdić et al., 2017), popping method
(Gökmen, 2004), and kernel size (Pajić and Babić, 1991; Song
and Eckhoff, 1994). Differences among genotypes are significant
and important, because mostly higher yielding hybrids produce
lower popping volumes (Srdić and Pajić, 2011; Pajić et al.,
2012, Cabaral et al., 2016). The way to overcome this problem REZIME Zapremina kokičavosti je pored potencijala rodnosti najvažnija osobina hibrida kokičara. Više faktora utiče na nju: genotip,
uslovi proizvodnje, dorade i čuvanja zrna, kao i metode kokanja. Maksimalan potencijal zapremine kokičavosti postiže se samo ako je
hibrid dostigao punu zrelost. Ipak, najvažniji je uticaj sadržaja vlage u trenutku kokanja. Sadržaj vlage od oko 14% je optimalan i pri
njemu se ostvaruju najviše zapremine kokičavosti. U radu je ispitivan uticaj sadržaja vlage u zrnu prilikom berbe i u trenutku kokanja
na osobine kokičavosti: zapremina kokičavosti i procenat neiskokanog zrna. Ove osobine proučavane su na na četiri hibrida
kukuruza kokičara. Hibridi su brani u tri termina pri sadržaju vlage: preko 25%, između 20 – 25%, i nižoj od 18%. Zatim je svaki od
uzoraka kokan pri sadržaju vlage od 20%, 18%, 16%, 14%, 12%, i 10%. Analiza varijanse ukazala je na značajan uticaj genotipa,
sadržaja vlage prilikom berbe, kao i interakcija na zapreminu kokičavosti i procenat neiskokanog zrna. Najviša zapremina
kokičavosti ostvarena je pri sadržaju vlage od 14%, a takođe pri ovom sadržaju vlage najmanji je bio i procenat neiskokanog zrna. Hibrid ZP 608k je imao najvišu zapreminu kokičavosti i najmanji procenat neiskokanog zrna, kako u proseku svih tretmana, tako i po
proučavanim tretmanima, dok je najamnju zapreminu kokičavosti i najveći procenat neiskokanog zrna imao hibrid ZP 501k. Najmanji procenat neiskokanog zrna utvrđen je u zadnjem terminu berbe, kada je sadržaj vlage u zrnu bio ispod 18%. Ključne reči: kukuruz kokičar, sadržaj vlage u zrnu, zapremina kokičavosti, procenat neiskokanog zrna. when moisture content is below 20%. Hosney et al. (1983) also
stated that the best results of popping volume could be reached
when grain moisture at harvest is between 15 – 18%. Biotic and
abiotic stress factor during production, harvest and processing
could lead to the decrease of the popping volume and also
increase the percentage of unpopped kernels. Among those
drought, frost, pests, diseases, mechanical kernel damaging are
the most significant. Nevertheless, the most important factor
influencing popping volume is the moisture content at the
moment of popping. Researchers agree that the maximum of
popping volume is produced at grain moisture ranging from
11.0% - 15.5% (Allerd-Coyle et al., 2000; Shimoni et al., 2002;
Pajić et al., 2006). Moreover, grain moisture content of 14% is
optimal, and produces highest popping volumes (Gökmen, 2004;
Srdić et al., 2015). MATERIAL AND METHOD Table 2. ANOVA and mean squares for popping volume, and
% of unpopped kernels of four ZP maize hybrids
Sources of
variance
Degrees of
freedom
Mean Square
Popping
volume
percentage of
unpopped
kernels
Replication
2
5.16
2.44
Genotype (A)
3
429.27**
1060.16**
Moisture content
at harvest (B)
2
298.74**
727.65**
A x B
6
89.42**
53.81**
Moisture content
at popping (C)
5
3370.24**
2661.60**
A x C
15
31.46**
164.43**
B x C
10
45.534**
319.58**
A x B x C
30
25.60**
72.79**
Error
142
5.10
4.70
** significant at the 0.01 probability level Table 2. ANOVA and mean squares for popping volume, and
% of unpopped kernels of four ZP maize hybrids For this study four popcorn hybrids developed at Maize
Research Institute Zemun Polje were selected: ZP 611k, ZP
616k, ZP 501k, and ZP 608k. Three hybrids are single cross
hybrids, and only ZP 501k is a three way cross hybrid. Trial was
set at the nursery field in Zemun Polje in 2015. Sowing was
performed on 27th of April, and emergence was noticed on 6th of
May. Each hybrid was sown in plots of 75 m2, i.e. 20 rows with
inter row distance of 0.75 m, with 20 plant per row, with the
final stand of 57,142 plants/ha. Two rows were border rows. Standard cropping practices were applied during growing
season. Inner rows were harvested manually in three terms, six
rows for each. The first term was when grain moisture was
above 25%, the second when moisture content was 25 – 20%,
and the last when the moisture dropped below 18%. Moisture
content was measured with small samples by Dickey-john GAK
II moisture meter. Meteorological conditions in 2015 had
significant impact on grain maturation, so all harvest terms were
performed until the fourth week of September (Table 1). Shelling of samples was performed manually in order to avoid
damaging the pericarp, which could increase the percentage of
unpopped kernels and lower the popping volume. Hybrid with the highest average popping volume was ZP
608k (22.32 cm3/g), while the lowest popping volume produced
hybrid ZP 501k (15.67 cm3/g). Among each of the tested hybrids
significant differences were found (Table 3). Hybrid ZP 608k
had very high popping volume in all treatments. At the optimal
grain moisture of 14% its popping volume was up to 41.33
cm3/g. MATERIAL AND METHOD Even at less favourable grain moistures this hybrid mostly
had higher popping volumes than other three. On the other hand
ZP 501k had lowest popping volumes at all grain moistures. Even at 14% moisture content its popping volume was below
28.00 cm3/g which is also considered very low and
unsatisfactory popping volume. Average popping volume
according to the grain moisture at harvest ranged from 17.65
cm3/g when grain moisture was 20 – 25%, up to 21.48 cm3/g
when harvest was performed with the grain moisture below 18%. Previous studies also found significant differences among
genotypes concerning popping volume (Srdić et al., 2015), and
dependence of popping volume on the percentage of grain
moisture (Srdić et al., 2017; Gökmen, 2004). In the study of
Shimoni et al. (2002), it was found that popping volume ranged
from 15.8 ml/g up to 47.9 ml/g depending on the moisture
content at popping time, which ranged from 6.69 to 16.52%. Table 1. Meteorological conditions in 2015 and ten year
average 2005 - 2014 Table 1. Meteorological conditions in 2015 and ten year
average 2005 - 2014
Month
2015
2005-2014
Temperature
(0C)
Precipitation
(mm)
Temperature
(0C)
Precipitation
(mm)
April
12.9
19.7
14.2
39.4
May
19.1
97.8
18.3
69.1
June
22.1
31.1
21.9
83.4
July
26.4
7.2
23.6
55.6
August
25.7
56.0
23.6
54.6
September
20.2
73.6
18.9
44.6 Each sample of the four hybrids, from three harvests was
tested at six moisture contents (10%, 12%, 14%, 16%, 18%, and
20%). Initial moisture content was between 16.5 – 28%,
depending on the harvest term. Samples that had moisture
content above desired were dried by natural convection at room
temperature, until the correct moisture content was obtained. Samples with lower moisture content than wanted were rewetted
with distilled water using sprayer. They were kept in the
refrigerator at 5 0C in closed fabric bags, inverted and shaken
daily in order to distribute moisture evenly throughout the
sample. The moisture was checked daily. All four hybrids significantly differed concerning the trait
percentage of unpopped kernels. Significant differences among
another set of hybrids was also found in previous study (Srdić et
al., 2017). Hybrid ZP 608k also showed best performances, i.e. 3.30% of unpopped kernels on average. INTRODUCTION Production and consumption of popcorn is constantly
increasing due to the fact that popcorn is profitable crop both
concerning producers and merchants (Silva et al., 2011;
Moterele et al., 2012). Its nutritive properties on the other hand
are very attractive to consumers, which makes it very popular
and nutritious snack food with excellent functional properties. Popcorn grain is a good source of fibre, calcium, iron,
phosphorus, niacin, and it is low in calories when popped
without oil (Park et al., 2000; Paraginski et al., 2016). g
Popping volume is beside the yielding potential the most
important trait of popcorn hybrids. Beside popping volume, the
number of unpopped kernels is the most studied quality
parameter of popcorn (Ziegler, 2001). High popping volume is
correlated with desirable consumer attributes (Ceylan and
Karabab, 2002), while unpopped kernels are an undesirable
nuisance to consumers and unrealized profit to producers
(Sweley et al., 2012). Several factors influence popping volume
and the percentage of unpopped kernels, such as: moisture
content, genotype, production and harvesting conditions, as well
as the condition of processing and grain storage, and popping
methods (Gökmen, 2004; Allerd-Coyle et al., 2000; Karabab,
2006; Song et al., 1991). Maximum of the popping volume
could be achieved when the hybrid is harvested at full maturity, Journal on Processing and Energy in Agriculture 22 (2018) 4 184 urnal on Processing and Energy in Agriculture 22 (2018 Srdić, Jelena et al./ The Influence of Moisture Content on Popping Traits in Popcorn in breeding high yielding and hybrids that produce high popping
volume is found in the research of Amaral et al., (2016), where
they introduced trait – expanded popcorn volume per ha PV, that
could provide simultaneous gains in both traits. Regarding
kernel size it is found that larger kernels produce lower popping
volume because they contain a higher percentage of soft
endosperm, which is not favourable for expansion (Pajić and
Babić, 1991). The aim of this study was to observe the influence
of grain moisture at harvest and grain moisture at the moment of
popping in order to analyse their influences on popping volume
and on the percentage of unpopped kernels. The study will also
show weather there are differences among selected genotypes. Interaction of observed factors will also provide interesting
information about how the grain moisture at harvest and at
popping time influences popping volume and percentage of
unpopped kernels. INTRODUCTION Tester, Creators which performs popping of kernels with oil. Popping volume is presented by the volume of popped kernel
(cm3) per weight of the unpopped - fresh kernel (g). A standard
sample was 250g and it was popped in three replications to
obtain results of popping volume. Unpopped kernel weight was
measured and it was turned into percentage of unpopped kernels. Data were analysed by three-way analysis of variance
(ANOVA) and the treatment means were compared using
Fisher’s least significant test – LSD (p<0.05). RESULTS AND DISCUSSION Popping volume and percentage of unpopped kernels were
significantly influenced by the genotype, what was also found by
others (Soylu and Tekkanat, 2007; Srdić et al., 2017). Other two
factors (moisture content at harvest and moisture content at
popping), as well as all interactions had also significant
influence on these two traits (Table 2). Journal on Processing and Energy in Agriculture 22 (2018) 4 MATERIAL AND METHOD 1 Average estimates of popping volume and
percentage of unpopped kernels depending
on the moisture content at popping time
8,57
11,01
19,25
33,56
27,36
15,28
21,79
15,07
5,91
0,62
1,13
3,17
0,00
5,00
10,00
15,00
20,00
25,00
30,00
35,00
40,00
20
18
16
14
12
10
PV
% of unpopped 5.92% of unpopped kernels. Table 4. Average estimates and LSD for % of unpopped
kernels of four ZP maize hybrids (%)
percentage of
moisture at
harvest
percentage of
moisture at
popping
ZP
611k
ZP
616k
ZP
501k
ZP
608k
> 25%
20
31.15 20.11 40.76 17.09
18
19.95 39.10 21.87 6.72
16
11.60 4.27
15.93 2.69
14
0.73
0.28
0.81
1.03
12
0.96
0.24
3.28
0.47
10
2.92
0.93
10.21 0.42
average
11.22 10.82 15.48 4.74 10.56 a
20-25%
20
35.00 26.47 48.60 11.27
18
8.35 14.20 23.37 6.18
16
6.44
3.65
9.94
2.58
14
0.33
0.16
1.21
0.29
12
0.63
0.20
3.07
0.27
10
0.65
0.24
9.30
0.58
average
8.57
7.49
15.91 3.53 8.87 b
< 18%
20
14.74 0.69
11.46 4.17
18
13.49 0.42
25.53 1.70
16
2.84
0.32
8.16
2.53
14
0.58
0.14
1.34
0.51
12
0.58
0.22
3.20
0.45
10
1.41
0.87
10.15 0.36
average
5.61
0.44
9.97
1.62 4.41 c
average
8.46 b 6.25 c 13.79 a 3.30 d
Means followed by the same letter are not significantly
different according to LSD0.05
Fig. 1 Average estimates of popping volume and
percentage of unpopped kernels depending
on the moisture content at popping time
8,57
11,01
19,25
33,56
27,36
15,28
21,79
15,07
5,91
0,62
1,13
3,17
0,00
5,00
10,00
15,00
20,00
25,00
30,00
35,00
40,00
20
18
16
14
12
10
PV
% of unpopped Table 4. MATERIAL AND METHOD Average estimates and LSD for % of unpopped
kernels of four ZP maize hybrids (%)
percentage of
moisture at
harvest
percentage of
moisture at
popping
ZP
611k
ZP
616k
ZP
501k
ZP
608k
> 25%
20
31.15 20.11 40.76 17.09
18
19.95 39.10 21.87 6.72
16
11.60 4.27
15.93 2.69
14
0.73
0.28
0.81
1.03
12
0.96
0.24
3.28
0.47
10
2.92
0.93
10.21 0.42
average
11.22 10.82 15.48 4.74 10.56 a
20-25%
20
35.00 26.47 48.60 11.27
18
8.35 14.20 23.37 6.18
16
6.44
3.65
9.94
2.58
14
0.33
0.16
1.21
0.29
12
0.63
0.20
3.07
0.27
10
0.65
0.24
9.30
0.58
average
8.57
7.49
15.91 3.53 8.87 b
< 18%
20
14.74 0.69
11.46 4.17
18
13.49 0.42
25.53 1.70
16
2.84
0.32
8.16
2.53
14
0.58
0.14
1.34
0.51
12
0.58
0.22
3.20
0.45
10
1.41
0.87
10.15 0.36
average
5.61
0.44
9.97
1.62 4.41 c
average
8.46 b 6.25 c 13.79 a 3.30 d
M
f ll
d b
h
l
i
ifi
l Table 4. Average estimates and LSD for % of unpopped
kernels of four ZP maize hybrids (%) Hybrid ZP 501k likewise in the popping volume had poorest
results. Its percentage of unpopped kernels was the highest of all
hybrids in this research (13.79% on average). This hybrid is
therefore indicated as the least favourable concerning quality
parameters. Mostly all hybrids had lowest percentage of
unpopped kernels at 14% moisture content at popping, while
some exceptions to this is found in hybrid ZP 608k which had
even lower percentage at lower moisture contents at popping
(12% and 10%). In the study of Sweley et al., (2012), percentage
of unpopped kernels ranged from 10.1 – 12.5% depending on the
genotype, which they indicated as consumers acceptable (Quinn
et al., 2005). Our research is also in accordance with Gökmen,
2004, who investigate percentage of unpoped kernel (PUK) in
dependence of moisture content at popping time, ranging from 8
-20%. Lowest PUK in their research was also found at 14%
moisture content and highest at 20%. MATERIAL AND METHOD Percentage of unpopped
kernels for this hybrid dropped with the lowering of moisture Popping volume (PV) was analysed by the standard
procedure (MWVT- Metric Weight Volume Test), using the
apparatus Cretors 2300w – Official Metric Wight Volume Journal on Processing and Energy in Agriculture 22 (2018) 4 185 Srdić, Jelena et al./ The Influence of Moisture Content on Popping Traits in Popcorn lowest percentage of unpopped kernels was, only 0.62%. This
percentage slowly increased with the decrease of moisture
content to 12 and 10% (1.13 and 3.17%, respectively), while this
was more pronounced when the moisture content increased to
16, 18 and 20% (5.91, 15.07 and 21.79, respectively). This leads
to the conclusion that higher moisture content at popping is less
favourable for the quality of popcorn, than to the same extent
less moisture content of kernels at popping. When popped at
12% moisture content average popping volume was 27.36 cm3/g,
with only 0.62% of unpopped kernels, while at 16% moisture
content average popping volume dropped to 19.25 cm3/g, with
5.92% of unpopped kernels. content at harvest. It was the highest at first harvest term
(4.74%), while at the last harvest term it was only 1.62%. Beside
this hybrid, ZP 616k at harvest moisture content below 18% had
even lower percentage of unpopped kernels of 0.44% (Table 4). Table 3. Average estimates and LSD for popping volume of
four ZP maize hybrids (cm3/g)
percentage of
moisture at
harvest
percentage of
moisture at
popping
ZP
611k ZP 616k ZP
501k
ZP
608k
> 25%
20
5.83
4.50
6.00
7.17
18
10.83
4.17
6.67 13.33
16
18.3
19.00 12.83 22.83
14
35.17
35.67 27.33 41.33
12
28.00
30.67 22.33 31.17
10
13.17
14.33 12.67 17.67
average
18.55
18.06 14.64 22.25 18.38 b
20-25%
20
13.83
4.17
5.50
5.67
18
11.33
7.33
9.67 11.00
16
13.33
15.67 15.17 18.67
14
29.67
29.33 27.83 38.33
12
26.33
26.67 22.00 30.33
10
15.33
16.17 11.67 18.67
average
18.30
16.56 15.31 20.44 17.65 b
< 18%
20
6.00
18.33 13.83 12.00
18
8.00
24.83
8.33 16.67
16
21.67
30.00 19.33 24.17
14
34.17
37.83 26.00 40.00
12
26.33
28.83 21.83 33.83
10
15.00
16.67 13.00 19.00
average
18.53
26.08 17.05 24.28 21.48 a
average
18.46c 20.23b 15.67d 22.32
Means followed by the same letter are not significantly
different according to LSD0.05 Table 3. MATERIAL AND METHOD Average estimates and LSD for popping volume of
four ZP maize hybrids (cm3/g) Table 3. Average estimates and LSD for popping volume of
four ZP maize hybrids (cm3/g)
percentage of
moisture at
harvest
percentage of
moisture at
popping
ZP
611k ZP 616k ZP
501k
ZP
608k
> 25%
20
5.83
4.50
6.00
7.17
18
10.83
4.17
6.67 13.33
16
18.3
19.00 12.83 22.83
14
35.17
35.67 27.33 41.33
12
28.00
30.67 22.33 31.17
10
13.17
14.33 12.67 17.67
average
18.55
18.06 14.64 22.25 18.38 b
20-25%
20
13.83
4.17
5.50
5.67
18
11.33
7.33
9.67 11.00
16
13.33
15.67 15.17 18.67
14
29.67
29.33 27.83 38.33
12
26.33
26.67 22.00 30.33
10
15.33
16.17 11.67 18.67
average
18.30
16.56 15.31 20.44 17.65 b
< 18%
20
6.00
18.33 13.83 12.00
18
8.00
24.83
8.33 16.67
16
21.67
30.00 19.33 24.17
14
34.17
37.83 26.00 40.00
12
26.33
28.83 21.83 33.83
10
15.00
16.67 13.00 19.00
average
18.53
26.08 17.05 24.28 21.48 a
average
18.46c 20.23b 15.67d 22.32
Means followed by the same letter are not significantly
different according to LSD0.05 J
l
P
i
d E
i A
i
lt
22 (2018) 4
5.92% of unpopped kernels. Table 4. Average estimates and LSD for % of unpopped
kernels of four ZP maize hybrids (%)
percentage of
moisture at
harvest
percentage of
moisture at
popping
ZP
611k
ZP
616k
ZP
501k
ZP
608k
> 25%
20
31.15 20.11 40.76 17.09
18
19.95 39.10 21.87 6.72
16
11.60 4.27
15.93 2.69
14
0.73
0.28
0.81
1.03
12
0.96
0.24
3.28
0.47
10
2.92
0.93
10.21 0.42
average
11.22 10.82 15.48 4.74 10.56 a
20-25%
20
35.00 26.47 48.60 11.27
18
8.35 14.20 23.37 6.18
16
6.44
3.65
9.94
2.58
14
0.33
0.16
1.21
0.29
12
0.63
0.20
3.07
0.27
10
0.65
0.24
9.30
0.58
average
8.57
7.49
15.91 3.53 8.87 b
< 18%
20
14.74 0.69
11.46 4.17
18
13.49 0.42
25.53 1.70
16
2.84
0.32
8.16
2.53
14
0.58
0.14
1.34
0.51
12
0.58
0.22
3.20
0.45
10
1.41
0.87
10.15 0.36
average
5.61
0.44
9.97
1.62 4.41 c
average
8.46 b 6.25 c 13.79 a 3.30 d
Means followed by the same letter are not significantly
different according to LSD0.05
Fig. CONCLUSION ACKNOWLEDGMENT: This paper is a result of the research
within the project TR31037, supported by the Ministry of
Education, Science and Technological Development, Republic
of Serbia. Silva, V.Q.R., A.T. Amaral Junior, L.S.A. Gonçalves, S.P. Freitas
Junior,
R.M. Ribeiro
(2011). Heterotic
parameterizations of crosses between tropical and temperate
lines of popcorn. Acta Scientarium Agronomy, 33:243-249. Song, A., S.R. Eckhoff, M. Paulsen, J.B. Litchfield (1991). Effects of kernel size and genotype on popcorn popping
volume and number of unpoppedn kernels. Cereal Chemistry,
68, 464-467. MATERIAL AND METHOD Means followed by the same letter are not significantly
different according to LSD0.05 Means followed by the same letter are not significantly
different according to LSD0.05
Fi
1 A
i
f
i
l
d
8,57
11,01
19,25
33,56
27,36
15,28
21,79
15,07
5,91
0,62
1,13
3,17
0,00
5,00
10,00
15,00
20,00
25,00
30,00
35,00
40,00
20
18
16
14
12
10
PV
% of unpopped As shown on the Figure 1. the best popping performances are
produced at 14 % moisture content at popping. Average popping
volume was highest at that moment (33.56 cm3/g), while it
dropped with the increase or decrease of the moisture content at
popping. The lowest average popping volume of all four hybrids
was at 20 % moisture content (8.57 cm3/g). Nevertheless all
other average popping volumes with the exception at 14 %
moisture content are considered unsatisfactory from the
commercial point of view, because popcorn is also sold by the
popping volume (Shimoni et al., 2002). The other analysed trait the % of unpopped kernels is in
reverse proportion to the popping volume (Figure 1). The more
kernels succeed to develop into flake, the more commercial
value of the final product is. So this is very important parameter
of popcorn hybrids. At optimal moisture content of 14%, the Fig. 1 Average estimates of popping volume and
percentage of unpopped kernels depending
on the moisture content at popping time Journal on Processing and Energy in Agriculture 22 (2018) 4 186 Srdić, Jelena et al./ The Influence of Moisture Content on Popping Traits in Popcorn Quinn, Sr P.V., Hong, D.C., Both, J.A. (2005). Increasing the
size of a piece of popcorn. Physica A 353, 637-648. Journal on Processing and Energy in Agriculture 22 (2018) 4 CONCLUSION Popping volume and percentage of unpopped kernels are
very important traits which determine the quality of popcorn. Commercial value of popcorn increases with the higher popping
volume, and the lower percentage of unpopped kernels. Therefore it is confirmed in this research that moisture content of
14% at popping is the best moment for popping. At this moisture
content all hybrids produced highest popping volumes and
lowest percentage of unpopped kernels, which on average were
33.56 cm3/g and 0.62% of unpopped kernels. With the increase
or decrease of moisture content popping volume dropped and
percentage of unpopped kernels increased. Among analysed
hybrids significant differences were found both concerning
popping volume and percentage of unpopped kernels. Best
performances were noticed for ZP 608k, while the poorest
results presented ZP 501k. Concerning the moment of harvest
i.e. moisture content at harvest, best results were obtained at last
harvest term when moisture content was below 18%. Average
popping volume was highest at that point (21.48 cm3/g), and
average percentage of unpopped kernels was lowest (4.41%). Therefore, for the best quality results of popcorn final product –
the flake, its harvest should be performed when the moisture
content drops below 18%. Pajić, Z., Babić, M. (1991). Interrelation of popping volume and
some agronomic characteristics in popcorn hybrids. Genetika,
23, 137-144. Pajić, Z., Srdić J., Filipović, M. (2006). Odnos rodnosti i
zapremine kokičavosti hibrida kukuruza kokičara (Zea mays L. everta).Selekcija i semenarstvo, 12, 81-83. Pajić, Z., Srdić, J., Todorović, G., Babić, M., Radosavljević, M. (2012). Odnosprinosazrna i drugihvažnih osobina kukuruza
kokičara (Zea mazs L. everta). Selekcija i semenarstvo, 18, 27-
32. Paraginski, R.T., Ziegler, V., Ferreira, D.C., Coussi, R., Gutoski,
L.C., da Rosa Zavareze, E., Elias, M.C. (2016). Properties of
popcorn starch expanded in microwave, with and without the
presence of vegetable oil. Journal of Food Processing and
Preservation, doi:10.1111/jfpp.13142, in press. Park, D., Allen, K.G.D., Stermitz, F.R., Maga, J.A., (2000). Chemical
composition
and
physical
characteristics
of
unpopped popcorn hybrids. J. Food Compos. Anal., 13, 921-
934. Shimoni, E., E.M. Dirks, T.P. Labuza (2002). The relationship
between final popped volume of popcorn and thermal-physical
parameters.Lebensmittel-Wissenschaft und Technolgie, 35,93-
98. ACKNOWLEDGMENT: This paper is a result of the research
within the project TR31037, supported by the Ministry of
Education, Science and Technological Development, Republic
of Serbia. Received: 15. 08. 2018.
Accepted: 30. 10. 2018. Received: 15. 08. 2018. REFERENCES Allerd-Coyle,T.A., Toma, R.B., Reiboldt, W., Thaku, M. (2000). Effects of moisture content, hybrid variety, kernel size and
microwave wattage on the expansion volume of microwave
popcorn. International Journal of Food Sciences and Nutrition,
51, 389-394. Song, A., S.R. Eckhoff (1994). Optimum popping moisture
content for popcorn kernels of different sizes. Cereal
Chemistry, 71, 458-460. Soylu, S. and Tekkanat, A. (2007). Interaction amongst kernel
properties and expansion volume in various popcorn
genotypes. Journal of Food Engineering, 8, 336-341. Amaral, A.T., dos Santos, A., Gerhardt, I.F.S., Kurosawa,
R.N.F., Moreira, N.F., Pereira, M.G., Gravina G. de A., de L. Silva F.H. (2016). Proposal of super trait for the optimum
selection of popcorn progenies based on path analysis. Genetics and Molecular Research, 15 (4), gmr15049309, 1-9,
DOI http://dx.doi.org/10.4238/gmr15049309. Srdić, J., Pajić, Z. (2011). Variability of yield and kernel quality
parameters of pocorn hybrids (Zea mays L. everta). Journal on
Processing and Energy in Agriculture 15, 84-86. g
gy
g
Srdić, J., Z. Pajić, M. Filipović, M. Sečanski (2015). The
influence of moisture content of grain on popping volume of
popcorn hybrids. Journal on Processing and Energy in
Agriculture, 19 (1): 24-26. Cabaral, P.D.S., Amaral Junior, A.T., Freitas, I.L.J, Ribeiro,
R.M. (2016). Cause and effect of quantitative characteristics
on grain expansion capacity in popcorn.Rev. Ciênc. Agron., 47
(1), 108-117. http://dx.doi.org/10.5935/1806-6690.20160013. Srdić, J., M. Milašinović-Šeremešić, M. Radosavljević, N. Kravić, V. Babić (2017). Evaluation of agronomic and sensory
characteristics of popcorn kernel. Journal on Processing and
Energy in Agriculture, 21 (4): 185-187. Ceylan, M., Karabab E. (2002). Comparison of sensory
properties of popcorn from various types and sizes of kernel. Journal of the Science of Food and Agriculture, 82,127-133. Gökmen, S. (2004). Effects of moisture content and popping
method on popping characteristics of popcorn. Journal of Food
Engineering, 65, 357-362. Sweley, J.C., Rose, D.J., Jackson, D.S., (2012). Hybrid and
environment effect on popcorn kernel physiochemical
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performance. J. Cereal
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188-194. Hosney, R.C., Zeleznak, K., Abdelrahman, A. (1983). Mechanism of popcorn popping. J. Cereal Sci. 1, 43-52. http://dx.doi.org/10.1016/j.jcs.2011.11.006 Karabab, E. (2006). Physical properties of popcorn kernels. Journal of Food Engineering, 72, 100-107. Ziegler, K.E., 2001. Popcorn. In: Hallauer, A. (Ed.), Specialty
Corn. CRC Press, Boca Raton, FL, pp. 199-234. Moterele, L.M., A.L. Braccini, C.A. Scapim, R.J.B. Pinto,
L.S.A. Gonçalves, R. Rodrigues (2012): Combining ability of
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185: 337-347. Accepted: 30. 10. 2018. REFERENCES Accepted: 30. 10. 2018. Received: 15. 08. 2018. 187 Journal on Processing and Energy in Agriculture 22 (2018) 4
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https://openalex.org/W2424445977
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https://www.frontiersin.org/articles/10.3389/fmicb.2016.00919/pdf
|
English
| null |
The Dark Side of the Mushroom Spring Microbial Mat: Life in the Shadow of Chlorophototrophs. I. Microbial Diversity Based on 16S rRNA Gene Amplicons and Metagenomic Sequencing
|
Frontiers in microbiology
| 2,016
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cc-by
| 21,246
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ORIGINAL RESEARCH
published: 17 June 2016
doi: 10.3389/fmicb.2016.00919 ORIGINAL RESEARCH Vera Thiel 1*†, Jason M. Wood 2, Millie T. Olsen 2, Marcus Tank 1 †, Christian G. Klatt 2, 3,
David M. Ward 2 and Donald A. Bryant 1, 4* Vera Thiel 1*†, Jason M. Wood 2, Millie T. Olsen 2, Marcus Tank 1 †, Christian G. Klatt 2, 3,
David M. Ward 2 and Donald A. Bryant 1, 4* Vera Thiel 1*†, Jason M. Wood 2, Millie T. Olsen 2, Marcus Tank 1 †, Christian G. Klatt 2, 3,
David M. Ward 2 and Donald A. Bryant 1, 4* Keywords: hot spring, microbial community, microbial diversity, extreme environments, phototrophic bacteria Edited by:
Anna-Louise Reysenbach,
Portland State University, USA †Present Address:
Vera Thiel and Marcus Tank,
Department of Biological Sciences,
Tokyo Metropolitan University,
Hachioji, Japan †Present Address:
Vera Thiel and Marcus Tank,
Department of Biological Sciences,
Tokyo Metropolitan University,
Hachioji, Japan Specialty section:
This article was submitted to
Extreme Microbiology,
a section of the journal
Frontiers in Microbiology Specialty section:
This article was submitted to
Extreme Microbiology,
a section of the journal
Frontiers in Microbiology Received: 07 March 2016
Accepted: 27 May 2016
Published: 17 June 2016 Edited by:
Anna-Louise Reysenbach,
Portland State University, USA 1 Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, PA, USA,
2 Department of Land Resources and Environmental Sciences, Montana State University, Bozeman, MT, USA, 3 Agricultural
Research Service, United States Department of Agriculture, University of Minnesota, Saint Paul, MN, USA, 4 Department of
Chemistry and Biochemistry, Montana State University, Bozeman, MT, USA Reviewed by:
Charles K. Lee,
University of Waikato, New Zealand
Anirban Chakraborty,
University of Calgary, Canada
Wesley Douglas Swingley,
Northern Illinois University, USA Microbial-mat communities in the effluent channels of Octopus and Mushroom Springs
within the Lower Geyser Basin at Yellowstone National Park have been studied for
nearly 50 years. The emphasis has mostly focused on the chlorophototrophic bacterial
organisms of the phyla Cyanobacteria and Chloroflexi. In contrast, the diversity and
metabolic functions of the heterotrophic community in the microoxic/anoxic region
of the mat are not well understood. In this study we analyzed the orange-colored
undermat of the microbial community of Mushroom Spring using metagenomic and
rRNA-amplicon (iTag) analyses. Our analyses disclosed a highly diverse community
exhibiting a high degree of unevenness, strongly dominated by a single taxon, the
filamentous anoxygenic phototroph, Roseiflexus spp. The second most abundant
organisms belonged to the Thermotogae, which have been hypothesized to be a
major source of H2 from fermentation that could enable photomixotrophic metabolism
by Chloroflexus and Roseiflexus spp. Other abundant organisms include two
members of the Armatimonadetes (OP10); Thermocrinis sp.; and phototrophic and
heterotrophic members of the Chloroflexi. Further, an Atribacteria (OP9/JS1) member;
a sulfate-reducing Thermodesulfovibrio sp.; a Planctomycetes member; a member
of the EM3 group tentatively affiliated with the Thermotogae, as well as a putative
member of the Arminicenantes (OP8) represented ≥1% of the reads. Archaea were
not abundant in the iTag analysis, and no metagenomic bin representing an archaeon
was identified. A high microdiversity of 16S rRNA gene sequences was identified for
the dominant taxon, Roseiflexus spp. Previous studies demonstrated that highly similar
Synechococcus variants in the upper layer of the mats represent ecological species
populations with specific ecological adaptations. This study suggests that similar putative
ecotypes specifically adapted to different niches occur within the undermat community,
particularly for Roseiflexus spp. Edited by:
Anna-Louise Reysenbach,
Portland State University, USA Edited by:
Anna-Louise Reysenbach,
Portland State University, USA INTRODUCTION have been suggested to perform inorganic
carbon fixation (van der Meer et al., 2003, 2005, 2007, 2010;
Klatt et al., 2007, 2013b). Synechococcus spp. fix CO2 and
synthesize and excrete metabolites that are then consumed by
(photo)heterotrophic members of the community, including
several members of the Chloroflexi, and presumably Roseiflexus
spp. (Anderson et al., 1987; Bateson and Ward, 1988; Kim
et al., 2015). Collectively, cyanobacteria and Roseiflexus spp. account for the majority of the biomass of the upper 0–2 mm
portion of the mat community. Two additional members of
the phylum Chloroflexi, Chloroflexus sp. and an apparently
phototrophic, “Anaerolineae-like” organism (“Ca. Roseilinea
gracile”; Tank et al., in press), as well as two recently discovered
aerobic/microaerophilic, anoxygenic photoheterotrophs, Cab. thermophilum (Bryant et al., 2007; Garcia Costas et al., 2012a,b;
Tank and Bryant, 2015a,b) and “Ca. Tcb. aerophilum” (Liu et al.,
2012), also occur in the upper photic layer of the mat. Early studies on the processes and organisms involved in
aerobic and anaerobic decomposition of the mat have been
discussed in a review by Ward et al. (1992; and earlier
papers cited therein). Since the discovery of the aerobic
heterotroph Thermus aquaticus (Brock and Freeze, 1969) many
aerobic (e.g., Thermomicrobium roseum; Jackson et al., 1973)
and anaerobic fermentative and sulfate-reducing bacteria were
cultivated from these mats (e.g., Bacillus stearothermophilis,
Thermoanaerobium brockii, Thermoanaerobacter ethanolicus,
Thermodesulfotobacterium commune; see Ward et al., 1992
for primary references). Many of the latter were sought
with the hope that thermophiles would be useful for biofuel
production. However, critical review indicated that most of
these isolates had not been cultivated from highly diluted mat
samples, and thus their importance to the community remained
unknown (see Ward et al., 1998). Indeed, with one exception,
Thermomicrobium roseum (Wu et al., 2009), the genomes of
these organisms did not recruit reads with high identity values
from metagenomic analysis of the upper mat layer (Klatt et al.,
2011). Only two low-abundance, unidentified heterotrophic
bacteria lacking the genes needed to synthesize chlorophyll (Chl)
were detected in the upper mat community represented by
metagenomic bins (Klatt et al., 2011). Nevertheless, heterotrophs,
together with the photoheterotrophic and photomixotrophic
community members, can be considered potential consumers
of metabolites produced by cyanobacteria and possibly other
mat inhabitants. In more recent years, the activity and diversity
of sulfate-reducing bacteria of the microbial mats have been
more intensively studied. Dillon et al. INTRODUCTION FIGURE 1 | Sampling site at Mushroom Spring, Yellowstone National
Park, and microbial mat core (adapted from Kim et al., 2015). Microbial mat communities inhabiting the effluent channels of
Octopus and Mushroom Springs within the Lower Geyser Basin
at Yellowstone National Park (YNP) have been studied for nearly
50 years (Brock, 1967; Ward et al., 2012). In these studies,
the chlorophototrophic bacterial populations, i.e., chlorophyll-
based phototrophs including members of the Cyanobacteria,
Chloroflexi and the newly discovered Chloracidobacterium (Cab.)
thermophilum and “Candidatus Thermochlorobacter (Tcb.)
aerophilum,” have generally been the main focus (Bauld and
Brock, 1973; Nold and Ward, 1996; Bryant et al., 2007; van
der Meer et al., 2007; Steunou et al., 2008; Becraft et al., 2011;
Klatt et al., 2011, 2013b; Liu et al., 2011, 2012; Tank and Bryant,
2015a,b). In contrast, the diversity and metabolic functions of the
heterotrophic community in the microoxic/anoxic region of the
mat are not well understood. FIGURE 1 | Sampling site at Mushroom Spring, Yellowstone National
Park, and microbial mat core (adapted from Kim et al., 2015). Using cultivation-based methods, early studies focused on the
dominant Cyanobacteria and phototrophic Chloroflexi (Bauld
and Brock, 1973; Bateson and Ward, 1988). Over time, these
studies were extended by a variety of molecular methods
with increasing molecular resolution. A pioneering molecular
study targeting 16S rRNA gene sequences directly indicated
a greater diversity of uncultivated bacteria in the mat than
previously realized (Ward et al., 1990). However, only recently
have metagenomic (Klatt et al., 2011), metatranscriptomic (Liu
et al., 2011, 2012; Klatt et al., 2013b) and metametabolomic
(Kim et al., 2015) analyses led to a holistic overview, in terms
of the organisms present and their functional potentials, of
the major taxa inhabiting the upper 2 mm of the 60–65◦C
regions of the Mushroom Spring microbial mats (Figure 1). The microbial community of the upper green mat layer
contains eight dominant bacterial populations, of which six are
chlorophototrophs (Klatt et al., 2011). Oxygenic cyanobacteria
from the genus Synechococcus have been shown to be the
predominant primary producers in these communities by in situ
studies of bicarbonate fixation and nitrogen fixation (Steunou
et al., 2008) using stable and radioactive isotopes (Bateson
and Ward, 1988; Nübel et al., 2002; van der Meer et al.,
2007). In addition, anoxygenic photoheterotrophic members of
the Roseiflexus spp. Citation: Thiel V, Wood JM, Olsen MT, Tank M,
Klatt CG, Ward DM and Bryant DA
(2016) The Dark Side of the
Mushroom Spring Microbial Mat: Life
in the Shadow of Chlorophototrophs. I. Microbial Diversity Based on 16S
rRNA Gene Amplicons and
Metagenomic Sequencing. Front. Microbiol. 7:919. doi: 10.3389/fmicb.2016.00919 June 2016 | Volume 7 | Article 919 Frontiers in Microbiology | www.frontiersin.org 1 Composition of the Mushroom Spring Undermat Community Thiel et al. Frontiers in Microbiology | www.frontiersin.org MATERIALS AND METHODS The samples were collected on August 10th, 2011 from a
chlorophototrophic microbial mat in an effluent channel of the
siliceous and slightly alkaline Mushroom Spring in YNP, WY
(USA). The samples were collected using a #4 cork borer at a
site where the water above the mat was 60◦C (Figure 1). The
microbial mat is made up of an upper green layer (1–2 mm thick),
which mainly consists of different chlorophototrophic bacteria,
and an orange-colored undermat layer (Figure 1). Genomic
DNA was extracted from the orange-colored undermat layer
(∼3–5 mm depth; DNA from below this level was too degraded
to analyze). The metagenome as well as 16S rRNA gene PCR
amplicons were sequenced at the DOE Joint Genome Institute
(JGI) using HiSeq and MiSeq Illumina technologies. The iTtag
sequences were analyzed at two different identity levels. All
reads were clustered into operational taxonomic units (OTUs)
with 97% sequence identity cutoffby using USEARCH, but
they were also analyzed after dereplication (i.e., clustered by
100% nt identity, see Supplementary Materials). RDP Classifier
(Wang et al., 2007; Cole et al., 2009), BLAST searches (Altschul
et al., 1990) and phylogenetic analyses (Ludwig et al., 2004)
were used to identify sequences. Microdiversity was assessed
using the number of highly abundant dereplicated sequences,
and the “oligotyping pipeline” (http://merenlab.org/projects/
oligotyping/). HiSeq metagenomic reads were assembled and
then clustered into bins by oligonucleotide frequency pattern
analyses using ESOM (Dick et al., 2009). Metagenomic bins
were treated as partial genomes of single taxa and were
taxonomically affiliated using Amphoranet (http://pitgroup.org/
amphoranet/, Kerepesi et al., 2014) to assess the phylogenetic
marker genes present in each bin. Detailed descriptions
of the methods for DNA extraction, library construction,
sequencing, and data analyses are found in the Supplementary
Materials. “Red-layer” communities, which may often be “orange” in
color as is the case for the mats of Mushroom Spring, have
been shown to contain novel chlorophototrophs (Boomer et al.,
2000, 2002), whose pigments exhibit unusual in vivo absorption
spectra (Boomer et al., 2000), but these communities have
not yet been studied in detail. As part of a comparative
study of YNP hot spring microbial mat communities, a
45-Mbp metagenome based on Sanger sequencing revealed
some initial insights into the composition of the undermat
microbial community of Mushroom Spring (Klatt et al., 2013a). INTRODUCTION (2007) showed that
an active sulfur cycle occurs in the mat community despite
very low sulfate concentrations. The highest rates of sulfate
respiration were reportedly associated with Thermodesulfovibrio-
like organisms and were measured close to the surface of the
mat late in the day when photosynthetic oxygen production had
ceased. Additionally, methane production has been detected in
numerous alkaline siliceous hot spring microbial mats in YNP June 2016 | Volume 7 | Article 919 June 2016 | Volume 7 | Article 919 Frontiers in Microbiology | www.frontiersin.org 2 Composition of the Mushroom Spring Undermat Community Thiel et al. to facilitate an active integration of these mostly heterotrophic
members into models of the mat community. This paper
describes the composition and diversity of the Mushroom Spring
undermat community based on rRNA-amplicon (iTag) and deep
metagenomic sequencing analyses, with an initial focus on the
identity and taxonomic diversity of the community members. A
description of the metabolic potential and putative interactions,
including a metabolic description of the entire microbial mat
community, will be published separately. (Ward, 1978; Sandbeck and Ward, 1981, 1982). Methanogenic
archaea (∼107 to 108 ml−1) have been enumerated in small cores
of Octopus Spring mats, which in combination with the detection
of low levels of archaeal lipids, suggests that methanogenesis
occurred in situ in those mats (Ward, 1978; Sandbeck and Ward,
1981; Ward et al., 1985). The relative rarity of these organisms
compared to Synechococcus (on the order of 1% or less) suggests
that these terminal anaerobes receive little of the energy recycled
during decomposition of the mat (Ward et al., 1989). g
p
The first revolution of molecular microbial ecology enabled
the study of uncultured bacterial diversity through amplification,
sequencing and phylogenetic analysis of ribosomal RNA genes
(Olsen et al., 1986; Ward et al., 1990; Amann et al., 1995;
Hugenholtz and Pace, 1996; Hugenholtz et al., 1998a; Pace, 2009). Through such studies, our perspective on microbial diversity
has increased enormously over the past three decades, and the
impact of culture-independent studies on the emerging view
of bacterial diversity cannot be overstated (Hugenholtz et al.,
1998a). Ward and coworkers reported the presence of a number
of uncultured bacterial lineages in their first molecular microbial
diversity study of the mat community of Octopus Spring (Ward
et al., 1990). INTRODUCTION Over the course of the past 25 years, several of
those initially unidentified ribosomal RNA sequences have been
associated with chlorophototrophic mat members (OS-A and
B with Synechococcus spp., OS-C with Roseiflexus sp., OS-D
with Cab. thermophilum, and OS-E with “Ca. Tcb. aerophilum”),
whereas many others (OS-F, OS-G, OS-H, OS-K, OS-L, OS-M,
OS-N, OS-R) still have not been identified and were not detected
in the metagenome of the upper green layer (Klatt et al., 2011). Frontiers in Microbiology | www.frontiersin.org MATERIALS AND METHODS Compared to the upper green layer, fewer Synechococcus spp.,
a greater number of Roseiflexus spp., and several presumed
anaerobic or fermentative organisms within the Bacteroidetes
and Thermodesulfobacteria were identified. The undermat
community contained a Thermotoga-like population as well as
several low G+C organisms that could not be characterized (Klatt
et al., 2013a). Low coverage and a small number of long scaffolds
above the threshold used in most clustering analyses (>10 kb)
limited the application of metagenomic binning approaches
(Klatt et al., 2013a) and indicated that additional studies with
much deeper sequencing would be needed to define the undermat
community. RESULTS We used deep sequencing of rRNA gene amplicons (iTags) and
total environmental DNA to study the subsurface community
of the chlorophototrophic microbial mat at Mushroom Spring. We describe the diversity and community composition on
both
levels,
based
on
“OTUs”
(Figures 2A,
3A,
Table 1
and Table S1) and based on “dereplicated iTag” sequences
(Figures 2B, 3B, Table 2) in Section “16S rRNA Gene Amplicons
(iTags),” as well as on metagenomic bins obtained based on The overall goal of this research is to investigate the complete
microbial mat community at Mushroom Spring and to develop
a comprehensive understanding of the microbial ecology of
the microbial mats of this hot spring. The specific objectives
of this study were to analyze the orange-colored undermat
community, to identify those organisms that are present, and June 2016 | Volume 7 | Article 919 3 Composition of the Mushroom Spring Undermat Community Thiel et al. FIGURE 2 | Relative abundance of (A) the 15 most abundant 97% OTUs, and (B) the 17 most abundant dereplicated iTag sequences in the Mushroom
Spring undermat 16S rRNA gene amplicon (iTag) analysis. All less abundant OTUs (<1,000 reads each) are shown combined as “Others.” FIGURE 2 | Relative abundance of (A) the 15 most abundant 97% OTUs, and (B) the 17 most abundant dereplicated iTag sequences in the Mushroom
Spring undermat 16S rRNA gene amplicon (iTag) analysis. All less abundant OTUs (<1,000 reads each) are shown combined as “Others.” undermat community in both read abundance and diversity
(Tables 1, 2, and Table S1, Figures 2A,B). Thirteen out of
seventeen members of the microbial mat detected in previous
16S rRNA gene sequence cloning and DGGE studies (OS types,
Table 4; Ward et al., 1990, 1992; Weller et al., 1992; Ferris et al.,
1996b, 1997; Ferris and Ward, 1997), as well as relatives of
ribosomal sequence types derived from a previous undermat
study (Klatt et al., 2013a, Figure 5 and Figure S1) were detected
in this study and thus confirmed as members of a compositionally
and temporally stable microbial community. oligonucleotide frequency patterns in Section “Metagenome
Sequencing” (Figure 4, Table 3). Frontiers in Microbiology | www.frontiersin.org Diversity Based on OTUs The 16S rRNA gene amplicon reads clustered into 317 OTUs of
≥97% nt identity, with abundances between 1 and 68,369 reads
per OTU (Table S1). The community was characterized by a
low degree of evenness (Figure 3A). The majority of the OTUs
were present in low abundance; only 15 OTUs (5% of the taxa)
were represented by 1,000 or more reads (Figure 3B). Due to
the high number of singleton sequences, the estimated richness
based on Chao1 (Schao1 = Sobs+ (no. of singletons2)/(2∗no. of
doubletons) (Chao, 1984) was rather high, Chao1 = 369.74; a
lower value of Chao1 = 220.9 was obtained in a previous study
(Klatt et al., 2013a). In contrast, the Simpson’s Reciprocal Index
(D =
P n(n−1)
N(N−1) ) obtained in this study is considerably lower
than in previous studies (3.85 in this study vs. 37.5; Klatt et al.,
2013a), reflecting the low evenness and strong dominance of only
a few OTUs in the amplicon study. While an identity cut-offof
97% for rRNA gene sequences is often used to demarcate species
(Stackebrandt and Goebel, 1994; Schloss and Handelsman, 2005;
Koeppel and Wu, 2013), this is an arbitrary value that does 16S rRNA Gene Amplicons (iTags) 16S rRNA Gene Amplicons (iTags) 16S rRNA Gene Amplicons (iTags)
Sequencing of partial 16S rRNA genes resulted in 139,326 total
and 30,861 dereplicated (i.e., unique) reads after quality control. Abundance values of dereplicated reads varied between 1 and
30,285, with an average of 5.4 reads per sequence. Most Abundant Taxa Based on OTUs Most Abundant Taxa Based on OTUs
When considering OTU sequences based on 97% nt sequence
identity, 15 OTUs were identified with >1,000 reads each, varying
in abundance between 1,008 and 68,369 reads (Table 1). These
are considered to represent highly abundant taxa and thus
are likely to represent key members of the Mushroom Spring
undermat community. However, the threshold of 1,000 reads
was arbitrarily chosen and does not necessarily correlate with
activity or ecological importance. We will focus the discussion
on the “very abundant” taxa listed in Table 1, but will also
include selected “abundant” and “less abundant” OTUs with read
abundances of ≥100 and less, respectively (Table S1). p
y
The 16S rRNA gene amplicons of the microbial undermat
community
were
dominated
by
sequences
derived
from
Roseiflexus spp. (Figure 2A, OTU-1, 49%) with the second
most abundant sequences belonging to a Pseudothermotoga sp. (OTU-2, 10%). An unidentified Armatimonadetes (formerly
known as OP10) bacterium (OTU-3), a member of the Aquificae
(OTU-4), as well as the sequences derived from member of
the Cyanobacteria each represented ∼4% of the sequences
(Table 1). On the basis of psaA sequences the cyanobacterial
sequences can be classified as belonging to ecotype populations
of Synechococcus detected in the upper green layer of the
mat and are considered likely to arise from buried surface
populations that are not expected to represent metabolically
active constituents of the undermat community. The sixth most
abundant OTU was identified as a phototrophic member of the
phylum Chloroflexi, which had previously been detected in the
upper green layer using metagenome analysis and identified
as the first phototrophic “Anaerolineae-like” Chloroflexi; it
has provisionally been named “Ca. Roseilinea gracile” (Klatt
et al., 2011, 2013b; Tank et al., in press). Additional abundant
OTUs were affiliated with the Atribacteria (OP9) Nitrospirae,
Planctomycetes and several phototrophic and non-phototrophic
members of the phylum Chloroflexi (Table 1). Three of the
fifteen most abundant OTU sequences from the undermat
amplicon study represented sequences obtained from the mats
of Octopus Spring in previous 16S rRNA gene surveys (OS-B:
Synechococcus sp. Type B; OS-C: Roseiflexus sp. RS-1; and OS-L:
Armatimonadetes member OTU-3) (Table 4, Ward et al., 1990,
1992; Ferris et al., 1996a; van der Meer et al., 2010). Frontiers in Microbiology | www.frontiersin.org Most Abundant Taxa Based on OTUs FIGURE 3 | Rank abundance curve of the 15 very abundant OTUs
(>1,000 reads) obtained from the undermat 16S rRNA gene amplicon
study (relative read counts) (A), and Log abundance plot of the all 317
OTUs obtained from the undermat 16S rRNA gene amplicon study (B). 15 OTUs (=5%) were detected more than 1,000 times. FIGURE 3 | Rank abundance curve of the 15 very abundant OTUs
(>1,000 reads) obtained from the undermat 16S rRNA gene amplicon
study (relative read counts) (A), and Log abundance plot of the all 317
OTUs obtained from the undermat 16S rRNA gene amplicon study (B). 15 OTUs (=5%) were detected more than 1,000 times. RESULTS An overview of the most
important taxa detected in each phylum will be presented in
Section “Overview of Phyla and Taxa Detected in the Mushroom
Spring Undermat.” Each iTag OTU was found to represent
a variable number of dereplicated iTtag sequences, which is
interpreted as representing different degrees of microdiversity
within a taxon (Figure 2B, Table 1). Members of 20 different
phyla were identified (Figure 5 and Figure S1, Table S1). Organisms of the phylum Chloroflexi dominated the microbial June 2016 | Volume 7 | Article 919 Frontiers in Microbiology | www.frontiersin.org 4 Composition of the Mushroom Spring Undermat Community Thiel et al. Thiel et al. FIGURE 3 | Rank abundance curve of the 15 very abundant OTUs
(>1,000 reads) obtained from the undermat 16S rRNA gene amplicon
study (relative read counts) (A), and Log abundance plot of the all 317
OTUs obtained from the undermat 16S rRNA gene amplicon study (B). 15 OTUs (=5%) were detected more than 1,000 times. not necessarily correlate with any species definition. Here, we
refer to OTUs as “taxa,” use the term “populations” mainly for
dereplicated iTag sequences, and discuss our understanding of
the bacterial species concept in Section “Discussion.” Most Abundant Populations Based on Dereplicated
iTag Sequences Seventeen dereplicated iTag sequences, representing members of
the nine most abundant OTUs, were each detected more than
1,000 times, and in total represent more than half of all iTag reads
recovered in this study (Table 2, Figure 2B). These sequences
probably correspond to the most abundant “populations” (in
contrast to “taxa” for OTUs). Five of these very abundant
dereplicated iTag sequences belong to a single OTU representing
the most abundant taxon, Roseiflexus spp. (Figure 2B, Table 2 June 2016 | Volume 7 | Article 919 Frontiers in Microbiology | www.frontiersin.org 5 Composition of the Mushroom Spring Undermat Community Thiel et al. TABLE 1 | Most abundant OTUs (97% nt identity), number of reads and relative abundance, microdiversity in terms of represented dereplicated iTag
sequences, corresponding metagenome sequences and next relatives determined by BLAST search. OTU-name
Reads
Rel. abundance
(%)
No. of derep. iTags
Metagenome 16S rRNA
Relevant Blast hits
Acc. No. Ident (%)
Total
>100
Scaffold ID
Avg. coverage
Length (bp)
OTU-01
68,369
49
6,193
24
101,6681
2,842
1,357
Roseiflexus sp. RS-1
NR_074197
100
OTU-02
14,480
10
1,664
3
1,000,336
458
1,426
Thermotoga hypogea NBRC
106472 (T)
AP014508
98
OTU-03
6,203
4
2,082
9
1,062,246
951
710
Unc. bacterium clone SM2D03
AF445720
100
Eubacterium sp. (OS type L)
L04707
98
OTU-04
6,160
4
899
3
1,002,657
262
1,434
clone YNP_SBC_BP2A_B2
HM448202
99
Thermocrinis ruber strain DSM
23557(T)
CP007028
97
OTU-05
5,046
4
1,289
7
1,008,881
105
1,002
Synechococcus sp. JA-2-3B’a(2-13)
CP000240
100
OTU-06
3,580
3
675
1
1,001,696
423
1,364
clone YNP_SBC_BP4_B2
HM448255
98
Thermanaerothrix daxensis
GNS-1 (T)
HM596746
87
OTU-07
3,350
2
564
1
1,014,288
189
1,444
OP9 bacterium clone TP29
EF205555
98
Ammonifex thiophilus strain
SR(T)
EF554597
83
OTU-08
3,283
2
705
2
1,000,748
135
1,413
clone SMD-B01
AB477993
99
Thermodesulfovibrio yellowstonii
DSM11347(T)
NR_074345
96
OTU-09
1,981
1
449
2
1,000,273
129
1,389
clone NY-30
KC290430
94
Thermanaerothrix daxensis
GNS-1 (T)
HM596746
91
OTU-10
1,715
1
510
6
1,001,962
67
1,406
EM3 clone OPB88
AF027006
99
Rhodothermus marinus
SG0.5JP17-172 (T)
CP003029
82
OTU-11
1,594
1
521
3
1,030,146
83
1,309
Chloroflexus sp. Most Abundant Populations Based on Dereplicated
iTag Sequences MS-G
KR230107
99
Chloroflexus aurantiacus J-10-fl
(T)
CP000909
95
OTU-12
1,569
1
477
3
1,003,586
802
1,415
OP10 clone OPB80
AF027089
94
Fimbriimonas ginsengisoli Gsoil
348 (T)
CP007139
81
OTU-13
1,392
1
306
2
1,015,572
36
1,497
clone bac67
HM184963
95
Thermoanaerobaculum
aquaticum MP-01 (T)
NR_109681
88
OTU-14
1,260
1
322
3
1,003,293
60
1,420
clone TP5
EF205581
99
Thermogutta terrifontis R1 (T)
KC867694
90
OTU-15
1,008
1
391
3
1,021,867
132
1,299
clone OB17
EF429491
98
Chloroflexus aurantiacus
J-10-fl(T)
CP000909
90 OTU-1, MSunder_iTags-1, 2, 4, 9, and 15). The third most
abundant sequence (MSunder_iTag-3), as well as two additional
abundant, dereplicated sequences (MSunder_iTags-12 and 14),
were representatives of Pseudothermotoga spp. (OTU-2), the
second most abundant taxon. The Armatimonadetes (OTU-3)
and a member of the phylum Aquificae (OTU-4) contained two
slightly different, highly abundant dereplicated iTag sequences
each, whereas the other OTUs (OTUs 5–9) had only one
very abundant dereplicated iTag sequence. With regard to the
single dereplicated iTag sequences, cyanobacteria derived from
the green upper layer of the mat community are represented by the eleventh most abundant iTag sequence, and thus the
ten most abundant dereplicated iTag sequences (representing
eight OTUs) are considered to represent the most abundant
populations in the undermat community (MSunder_iTag-1
through MSunder_iTag-10; Table 2). Frontiers in Microbiology | www.frontiersin.org Microdiversity We used different methods to assess the degree of sequence
heterogeneity and microdiversity within the microbial undermat
community. Based on the number of different dereplicated iTag
sequences within one 97% OTU, a high degree of diversity was Frontiers in Microbiology | www.frontiersin.org June 2016 | Volume 7 | Article 919 6 Composition of the Mushroom Spring Undermat Community Thiel et al. TABLE 2 | Most abundant dereplicated iTag sequences (100% nucleotide identity) detected in the Mushroom Spring undermat. MSunder_iTag (dereplicated iTag)
Reads
Relative abundance (%)
Phylum
Genus
OTU
MSunder_iTag-1
30,285
21.70
Chloroflexi
Roseiflexus
1
MSunder_iTag-2
11,586
8.30
Chloroflexi
Roseiflexus
1
MSunder_iTag-3
8,257
5.90
Thermotogae
Pseudothermotoga
2
MSunder_iTag-4
4,712
3.40
Chloroflexi
Roseiflexus
1
MSunder_iTag-5
3,760
2.70
Aquificae
Thermocrinis
4
MSunder_iTag-6
2,551
1.80
Chloroflexi
Ca. Roseilinea
6
MSunder_iTag-7
2,436
1.70
Atribacteria
7
MSunder_iTag-8
2,229
1.60
Armatimonadetes
3
MSunder_iTag-9
1,881
1.40
Chloroflexi
Roseiflexus
1
MSunder_iTag-10
1,721
1.20
Nitrospirae
Thermodesulfovibrio
8
MSunder_iTag-11
1,716
1.20
Cyanobacteria
Synechococcus
5
MSunder_iTag-12
1,695
1.20
Thermotogae
Pseudothermotoga
2
MSunder_iTag-13
1,542
1.10
Armatimonadetes
3
MSunder_iTag-14
1,370
1.00
Thermotogae
Pseudothermotoga
2
MSunder_iTag-15
1,220
0.90
Chloroflexi
Roseiflexus
1
MSunder_iTag-16
1,161
0.80
Chloroflexi
9
MSunder_iTag-17
1,027
0.70
Aquificae
Thermocrinis
4
Read numbers, relative abundance, taxonomic affiliation and OTU affiliation are provided. TABLE 2 | Most abundant dereplicated iTag sequences (100% nucleotide identity) detected in the Mushroom Spring undermat. ost abundant dereplicated iTag sequences (100% nucleotide identity) detected in the Mushroom Spring undermat. otide identity) detected in the Mushroom Spring undermat. OTU FIGURE 4 | ESOM binning of Mushroom Spring assembled undermat metagenome sequences >5 kb. In order to show complete bins, the map is shown in
tiled mode, displaying four connected partial copies of the grid with some redundancy of data points. Repeating colors imply repeating bins. Complete bins are
labeled with numbers (number code and details of the bins is found in Table 3). Additional partial copies of the bins due to the tiled display are not labeled. The color
gradient code on the right visualizes relative height values; the largest height normalized to 1. FIGURE 4 | ESOM binning of Mushroom Spring assembled undermat metagenome sequences >5 kb. In order to show complete bins, the map is shown in
tiled mode, displaying four connected partial copies of the grid with some redundancy of data points. Repeating colors imply repeating bins. Complete bins are
labeled with numbers (number code and details of the bins is found in Table 3). Microdiversity Additional partial copies of the bins due to the tiled display are not labeled. The color
gradient code on the right visualizes relative height values; the largest height normalized to 1. of ∼39,000 upper green layer reads and 75,000 undermat
reads). The total “purity scores” of 0.95 and 0.86 for >100
and >10 reads, respectively, indicates a good separation for
the highly abundant oligotypes, but also implies further low
abundance oligotypes in the samples. Differences in diversity and
abundance of oligotypes between the upper green layer and the
undermat were detected, e.g., for the most abundant Roseiflexus-
oligotypes (Table S2, Figure S2). In general the undermat is more
diverse. The upper green layer for example contains a lower
number of highly abundant oligotypes (six oligotypes >1% of indicated, especially for the most abundant OTU, Roseiflexus
spp. We detected 6,193 total dereplicated iTag sequences, 24 of
which had >100 reads (Table 1). A similar microdiversity was
identified by the oligotyping approach, and was also suggested by
a high number of very similar but non-identical clone sequences
obtained in a previous study (Klatt et al., 2013a; Figure 5A,
and Figure S2, Table S2). Based on ten distinct nucleotide
positions, 246 different oligotypes were identified, of which 55
were represented by >10 reads, 23 by >100 reads and nine
by > 1,000 reads in the combined dataset (which consisted June 2016 | Volume 7 | Article 919 Frontiers in Microbiology | www.frontiersin.org 7 Composition of the Mushroom Spring Undermat Community Thiel et al. Thiel et al. TABLE 3 | Metagenome bins recovered based on tetranucleotide frequencies. Bin*
OTU
Identity
16S rRNA
Contigs
Size [Mb]
Marker genes
1
OTU-01
Roseiflexus sp. No
18
0.20
None
2
OTU-02
Thermotoga sp. Yes, scaffold00336
142
1.85
30
3$
OTU-03
Armatimonadetes (OP10)
Yes
81
2.9
32
4
OTU-04
Aquificae / Thermocrinis sp. Yes, scaffold02657
44
0.22
5
5
OTU-05
Synechococcus sp. B’
No
68
0.43
13
6
OTU-06
“Ca. Roseilinea gracile”
No
188
1.71
25
7
OTU-07
Atribacteria (OP9)
No
136
1.45
26
8
OTU-08
Thermodesulfovibrio sp. Yes, scaffold00748
119
1.59
17
9
OTU-09
Chloroflexi, Anerolineae
Yes, scaffold00273
220
2.62
26
10
OTU-10
Thermotogae-EM3/OPS-2
Yes, scaffold01962
157
1.38
18
11
OTU-11
Chloroflexus sp. MS-G
No
336
3.1
21
12
OTU-12
Armatimonadetes_Gp6 (OP10)
Yes, scaffold03586
200
1.72
24
13
OTU-13
Aminicenantes (OP8)
No
94
2.54
30
14
OTU-14
Planctomycetes
Yes, scaffold03293
258
1.90
19
15
OTU-15
“Ca. Frontiers in Microbiology | www.frontiersin.org Microdiversity Chloranaerofilum corporosum”
No
299
2.26
19
16
OTU-17
Chloracidobacterium thermophilum
No
220
2.07
21
17
OTU-18
Armatimonadetes_Gp 2
Yes, scaffold00584
207
2.64
31
18
OTU-21
Meiothermus sp. No
155
1.31
8
19
OTU-24
Chlorobi-lineage 5: OPB56
Yes, scaffold02638
137
1.17
18
20
OTU-36
Acidobacterium, OPB3
Yes, scaffold01343
253
2.60
6
21
OTU-38
“Ca. Thermochlorobacter aerophilum”
No
198
2.09
27
22
OTU-46
Elioraea sp. No
229
2.02
26
23
Planctomycetes
No
385
3.8
29
24
Ignavibacteriaceae
No
75
2.50
31
25
OTU-31
Chloroflexi, Bellilinea sp. No
237
2.46
24
26
Unidentified
No
130
1.78
28
27
Unidentified
No
96
0.85
2
28
Unidentified
No
110
0.84
3
29
Unidentified
No
98
0.66
5
30
Unidentified
No
22
0.27
None
31
Unidentified
No
38
0.26
2
32
OTU-26
Thermodesulfobacteria
No
27
0.18
12
33
Unidentified
No
23
0.17
none
34
Unidentified
No
23
0.17
none
35
Unidentified
No
17
0.11
8
36
Unidentified
No
12
0.09
none
37
Chloroflexi, Dehalocoocoides-like
No
8
0.06
none
*Numbers refer to ESOM bins shown in Figure 4. $ Bin 3 was obtained from an enrichment culture, not from the undermat metagenome. TABLE 3 | Metagenome bins recovered based on tetranucleotide frequencies. *Numbers refer to ESOM bins shown in Figure 4. $ Bin 3 was obtained from an enrichment culture, not from the undermat metagenom upper layer, namely “CCCCGCGTGC” (2.13% in undermat,
0.19% in upper layer) and “CCCCGCGGGC” (1.02 vs. 0.21%)
(Table S2). upper layer, namely “CCCCGCGTGC” (2.13% in undermat,
0.19% in upper layer) and “CCCCGCGGGC” (1.02 vs. 0.21%)
(Table S2). all Roseiflexus sequences), whereas the undermat is more diverse
with nine oligotypes >1% (Table S2, Figure S2). Notably, the
most abundant oligotypes are present in both samples in similar
abundances. One oligotype dominates both datasets (48% in the
upper layer vs. 54% in the undermat). The second most abundant
oligotype “CTCTACGGGC” is more abundant in the upper layer
(32 vs. 20% of the reads), whereas the third is more abundant
in the undermat (9 vs. 6%, Table S2). In general the undermat
is more diverse and some oligotypes show distinct differences. For example, the difference in the entropy figures from upper
green layer and undermat after separate analyses (considerably
lower entropy at pos. 104 and 109 in upper layer; Figures S2B,C)
are indicative of a lower abundance of two oligotypes in the all Roseiflexus sequences), whereas the undermat is more diverse
with nine oligotypes >1% (Table S2, Figure S2). Notably, the
most abundant oligotypes are present in both samples in similar
abundances. One oligotype dominates both datasets (48% in the
upper layer vs. 54% in the undermat). The second most abundant
oligotype “CTCTACGGGC” is more abundant in the upper layer
(32 vs. 20% of the reads), whereas the third is more abundant
in the undermat (9 vs. 6%, Table S2). In general the undermat
is more diverse and some oligotypes show distinct differences. For example, the difference in the entropy figures from upper
green layer and undermat after separate analyses (considerably
lower entropy at pos. 104 and 109 in upper layer; Figures S2B,C)
are indicative of a lower abundance of two oligotypes in the A high degree of microdiversity was also indicated for other
OTUs obtained in this study, e.g., OTU-3 (Armatimonadetes
member, OS type L) and OTU-5 (Synechococcus spp.) Overall, the
twelve most abundant OTUs also exhibited the highest number
of unique amplicon sequences, indicating a correlation between
microdiversity and sequencing depth (Table 1). However, the
number of abundant dereplicated sequences, i.e., putative
ecotypes did not show the self-correlation with sequencing depth,
but correlated with the metagenome assembly quality; a high
microdiversity was suggested to be interfering with the sequence June 2016 | Volume 7 | Article 919 Frontiers in Microbiology | www.frontiersin.org 8 Composition of the Mushroom Spring Undermat Community Thiel et al. Metagenome Bins Binning of the metagenome contigs based on tetranucleotide
frequency patterns resulted in 36 clusters (Table 3, Figure 4). An additional bin, representing OTU-3 from the iTag study of
the undermat, was obtained from an cyanobacterial enrichment
culture metagenome (Olsen et al., 2015). Thus, 37 partial
genomes, 26 of which contained ≥1 Mb of sequence information,
were found by this method (Table 3). Twenty-six of the
bins were identified taxonomically, and 22 could be affiliated
with abundant OTUs. A specific cut-offwith regard to
taxonomic levels or sequence threshold cannot be given for the
represented populations. However, previous studies, as well as
joint binning of the sequences from the presented study with
reference genomes, suggest that genomes derived from bacterial
populations with 16S rRNA gene sequences identities of ≥96% do upper layer, namely “CCCCGCGTGC” (2.13% in undermat,
0.19% in upper layer) and “CCCCGCGGGC” (1.02 vs. 0.21%)
(Table S2). The occurrence of several metagenomic bins
affiliated with the Chloroflexi as well as the separate clustering of
the included Chloroflexi reference genomes, provides an estimate
of the ability of this approach to discriminate and resolve
among different members of the same phylum. Based on these
observations, as well as 16S rRNA OTU similarities found in this
study displaying values of either <95% or >96.8% nt identity,
we expect genomes of populations sharing <95% 16S rRNA
sequence identity to be represented by distinct metagenomic
bins, whereas OTUs of >96.8% similarity would probably be
represented by a single partial genome (i.e., metagenomic bin). upper layer, namely “CCCCGCGTGC” (2.13% in undermat,
0.19% in upper layer) and “CCCCGCGGGC” (1.02 vs. 0.21%)
(Table S2). TABLE 4 | OS-type sequences from previous studies (Ward et al., 1990, 1992; Weller et al., 1992; Ferris et al., 1996b, 1997; Ferris and Ward, 1997) and the
corresponding sequences obtained in this study. OS type
Acc. Nos. Phylum
Identity
OTU
Metagenome sequences [JGI24185J35167_]
A
X52544
Cyanobacteria
Synechococcus sp. A
OTU-22
10825551 (280 bp)
10154254 (272 bp)
10858251 (546 bp)
B
M62776 X52545
Cyanobacteria
Synechococcus sp. B’
OTU-5
12370211 (272 bp)
C
X52546 U42421 U90433
Chloroflexi
Roseiflexus sp. RS-1
OTU-1
10166812 (1357 bp)
D
X52547
Acidobacteria
Chloracidobacterium thermophilum
OTU-17
10032584 (1383 bp)
E
X52548 U42419 U42420
Chlorobi
Ca. Thermochlorobacter aerophilum
OTU-38
10007615 (1379 bp)
F
X52549
Chlorobi
OPB56-like Chlorobi
OTU-262
No scaffold
G
X52550
Betaproteobacteria
Hydrogenophilus sp. OTU-101
No scaffold
H
X52551
Sprichoaetes
Spirochaeta sp. OTU-41
No scaffold
I
L04709
Cyanobacteria
Leptolyngbya sp. no OTU
No scaffold
J
L04710
Cyanobacteria
Synechococcus sp. no OTU
1045912 (920 bp)
K
L04711
Acidobacteria
Thermoanaerobaculum sp. OTU-61
10096124 (954 bp)
10037885 (587 bp)
L
L04707
Armatimonadetes
Uncultured Armatimonadetes (OP10)
OTU-3
11621781 (295 bp)
10622461 (710 bp)
12054061 (298 bp)
M
L04708
Chlorobi
Unidentified Ignavibacteriaceae
OTU-34
1068906 (652 bp)
1010292 (1038 bp)
N
L05931 L05930
Betaproteobacteria
Tepidimonas sp. No OTU
No scaffold
O
L04706
Alphaproteobacteria
Elioraea sp. OTU-46
10309321 (1157 bp)
10459122 (309 bp)
Q
U42422
Chloroflexi
Candidatus Chlorothrix halophila
No OTU
No scaffold
R
U46750
Betaproteobacteria
Uncultured Beta-Proteobacterium
OTU-172
No scaffold TABLE 4 | OS-type sequences from previous studies (Ward et al., 1990, 1992; Weller et al., 1992; Ferris et al., 1996b, 1997; Ferris and Ward, 1997) and the
corresponding sequences obtained in this study. assembly. Very few contigs with >5 kb length were assembled for
the OTUs with the highest microdiversity (OTU-1 and OTU-3). not separate into distinct bins (data not shown; Klatt et al., 2011). In this study, the cyanobacterial genomes of Synechococcus Types
A and B’ (97% 16S rRNA nt identity), and within the Chloroflexi,
Roseiflexus castenholzii and Roseiflexus sp. RS-1 (95.6% 16S
rRNA nt identity) as well as Chloroflexus aurantiacus J-10-fland
Chloroflexus sp. MS-G (95.7% 16S rRNA nt identity) genomes
clustered in single bins containing sequences of both genomes,
respectively. All other included Chloroflexi reference genomes
(<94% 16S rRNA nt identity) clustered in separate but sometimes
adjacent bins. Frontiers in Microbiology | www.frontiersin.org Metagenome Sequencing One full lane of Illumina HiSeq sequencing led to 176,741,874
quality-passed reads. 169,595,919 (96%) of these reads were
assembled into a 232-Mb metagenome comprising 315,154 total
contigs with a maximum scaffold length of 158 kb and a N/L50
value of 32,529/1.24 kb, which defines the number of fragments at
or above the Length50 cutoff. There were 13,766 contigs >2.5 kb,
5,362 contigs >5 kb, and 1,665 >10 kb. Contigs >50 kb (n = 38)
accounted for 1.14% of all assembled sequence data. Overview of phyla and Taxa Detected in the
Mushroom Spring Undermat In the following paragraphs we will describe selected taxa from
each phylum detected in the undermat community based on
combined information of iTag and metagenomic sequence data. The phyla and members thereof are presented in the order of
abundance, starting with the most abundant phylum and the Frontiers in Microbiology | www.frontiersin.org June 2016 | Volume 7 | Article 919 9 Composition of the Mushroom Spring Undermat Community Thiel et al. Thiel et al. FIGURE 5 | Continued FIGURE 5 | Continued FIGURE 5 | Continued June 2016 | Volume 7 | Article 919 Frontiers in Microbiology | www.frontiersin.org 10 Composition of the Mushroom Spring Undermat Community Thiel et al. Thiel et al. FIGURE 5 | Phylogenetic tree based on 16S rRNA gene sequences showing the phylogenetic relationship between members of the phylum Chloroflexi
(A) and Bacteroidetes-Chlorobi (B) phyla and sequences obtained from the Mushroom Spring microbial undermat community. The tree was generated
based on the Maximum Likelihood method using the phyML software included in the ARB package. Percentage numbers on nodes refer to 100 bootstrap
pseudoreplicates conducted. Only values >50% are shown. Bold sequences were obtained from Mushroom or Octopus Spring in this or previous studies. Red bold
labels indicate sequences obtained in this study. Blue bold labels indicate “OS type” sequences from previous studies. OTU numbers shown refer to the most
abundant OTU represented by the sequence. Only sequences with length >1,000 bp were used for phylogenetic calculations. Sequence length <1,000 bp are given FIGURE 5 | Phylogenetic tree based on 16S rRNA gene sequences showing the phylogenetic relationship between members of the phylum Chloroflexi
(A) and Bacteroidetes-Chlorobi (B) phyla and sequences obtained from the Mushroom Spring microbial undermat community. The tree was generated
based on the Maximum Likelihood method using the phyML software included in the ARB package. Percentage numbers on nodes refer to 100 bootstrap
pseudoreplicates conducted. Only values >50% are shown. Bold sequences were obtained from Mushroom or Octopus Spring in this or previous studies. Red bold
labels indicate sequences obtained in this study. Blue bold labels indicate “OS type” sequences from previous studies. OTU numbers shown refer to the most
abundant OTU represented by the sequence. Only sequences with length >1,000 bp were used for phylogenetic calculations. Overview of phyla and Taxa Detected in the
Mushroom Spring Undermat Sequence length <1,000 bp are given
in (gray) in the labels and corresponding sequences were added using the Parsimony method without changing tree topology | Phylogenetic tree based on 16S rRNA gene sequences showing the phylogenetic relationship between members of th
acteroidetes-Chlorobi (B) phyla and sequences obtained from the Mushroom Spring microbial undermat community. Th ed on 16S rRNA gene sequences showing the phylogenetic relationship between members of the phylum Chloroflexi
) phyla and sequences obtained from the Mushroom Spring microbial undermat community. The tree was generated ( )
( ) p y
q
p
g
y
g
based on the Maximum Likelihood method using the phyML software included in the ARB package. Percentage numbers on nodes refer to 100 bootstrap
pseudoreplicates conducted. Only values >50% are shown. Bold sequences were obtained from Mushroom or Octopus Spring in this or previous studies. Red bold
labels indicate sequences obtained in this study. Blue bold labels indicate “OS type” sequences from previous studies. OTU numbers shown refer to the most
abundant OTU represented by the sequence. Only sequences with length >1,000 bp were used for phylogenetic calculations. Sequence length <1,000 bp are given
in (gray) in the labels and corresponding sequences were added using the Parsimony method without changing tree topology. June 2016 | Volume 7 | Article 919 Frontiers in Microbiology | www.frontiersin.org 11 Composition of the Mushroom Spring Undermat Community Thiel et al. A 1,364-bp partial 16S rRNA sequence identified OTU-
6 as a member of the Chloroflexi, which is most closely
related to uncultured members in streamer biofilm-producing
communities in YNP hot springs (Table 3; Meyer-Dombard
et al., 2011). It represents an uncultured chlorophototrophic
Anaerolineae-like organism, which was also identified in the
upper green layer of the Mushroom Spring microbial mat in a
previous metagenomic analysis (Klatt et al., 2011). Despite the
absence of a 16S rRNA gene, Bin-6 was identified to represent
OTU-6 based on 93 ± 5.6% average nt identity to Cluster 6
from the upper layer metagenome (Klatt et al., 2011), which did
contain a ribosomal RNA sequence with 98% identity to OTU-
6, as well as 99% sequence identity to a 16S rRNA sequence
detected in the metagenome of this study. When first reported
by Klatt et al. (2011), this uncultured organism was identified as
“Anaerolineae-like,” with Anaerolinea thermophila strain UNI-1
being its closest cultivated and described relative (85% nt identity,
Sekiguchi et al., 2003). Chloroflexi
b
f h Members of the phylum Chloroflexi were the most diverse group
of organisms present in the microbial undermat community. Overall, 41 OTUs were affiliated with the phylum Chloroflexi
(Table S1), and twelve Chloroflexi sequences were identified
phylogenetically (Figure 5A). Five of the fifteen most abundant
OTUs (>1,000 reads), as well as four abundant OTUs with
≥100 reads, were identified as members of the Chloroflexi
(Table S1, Figure 5A). Based on the metagenomic information
for these taxa, four out of five very abundant Chloroflexi
are chlorophototrophic members of this phylum (OTUs-1,
6, 11, and 15; see Figure 5A), while one is a putative
chemoheterotroph (OTU-9). Three additional abundant OTUs
also are associated with putatively chemoheterotrophic members
of this phylum (OTUs 23, 31, and 39). Thirty-two less
abundant OTUs were also affiliated with the phylum Chloroflexi
(Table S1, Figure 5A). Binning of the assembled metagenomic data yielded only
a very small partial genome for Roseiflexus spp., the most
abundant and most diverse OTU in the undermat (Bin-
1; Figures 2, 3, 5, Tables 1–3 and Table S1). Bin-1 did not
contain any phylogenetic marker genes but was identified
by high nucleotide sequence identities (92 ± 5%; range 79–
100%) to the Roseiflexus sp. RS-1 genome (CP000686, 5.8
Mb, van der Meer et al., 2010). The Roseiflexus sp. RS-
1 genome recruited 23,534 contigs from the metagenome
(≥85% nt identity and ≥75 coverage), of which 13,329
contigs showed sequence identity of ≥95%. Only 12 of those
contigs were >5 kb in length, sharing a minimum of 94.52%
nt identity with the Roseiflexus sp. RS-1 genome sequence. Roseiflexus sp. RS-1 is a filamentous anoxygenic phototroph
that synthesizes bacteriochlorophyll (BChl) a but not BChl
c. It was previously isolated from Mushroom Spring and
was affiliated with OS Type C sequences obtained in early
molecular studies (Ward et al., 1990; Ferris et al., 1996b,
1997; Ferris and Ward, 1997). In addition to BChl a-
containing photosynthetic reaction centers, the genome of this
organism encodes xanthorhodopsin, which was also detected in
the undermat metagenome (RoseRS_2966, GenBank Acc. no. ABQ91330.1; JGI24185J3567_10248071), and indicates a possible
additional use of light energy (Choi et al., 2014). The small
number of long contigs affiliated with this OTU, in combination
with the broad coverage range from 31× to 1,557×, reflects a high
microdiversity as well as the high abundance of the core genome
sequences. Overview of phyla and Taxa Detected in the
Mushroom Spring Undermat At the time of this writing [February
2016], a BLAST search identified Thermanaerothrix daxensis
strain GNS-1T (Grégoire et al., 2011) and Thermomarinilinea
lacunofontalis strain SW7 (Nunoura et al., 2013) as the closest
isolated relatives with a 16S rRNA sequence identity value of
87% (Table 1). Phylogenetic analysis based on the full-length
16S rRNA sequences supports a phylogenetic affiliation to the
Anaerolineales as well as a more distant relationship to known
chlorophototrophic Chloroflexi (Figure 5A). Genes annotated
within this metagenomic bin suggest that, like Roseiflexus spp.,
this anoxygenic chlorophototroph has the potential to produce
BChl a but probably doesn’t contain BChl c or chlorosomes,
although it does possess a putative xanthorhodopsin-like gene
(Klatt et al., 2011). Thin short filaments possibly representing this
Anaerolineae-like phototrophic Chloroflexi, tentatively named
“Ca. Roseilinea gracile” (Tank et al., in press), have been observed
in fresh mat samples and enrichment cultures. They exhibit BChl
a but not BChl c autofluorescence. most abundant member, respectively. Taxonomic identification
was always based on the longest 16S rRNA sequence available,
in conjunction with phylogenetic marker genes. Information
on additional taxa and phyla can be found in the phylogenetic
trees and the Supplemental Materials (Figure 5, and Figure S1,
Table S1). Phylogenetic analyses based on 16S rRNA sequences
extracted from metagenomic data identified >50 members of 20
different phyla (Figure 5 and Figure S1), most of which could
also be affiliated with iTag sequences obtained in the amplicon
study. most abundant member, respectively. Taxonomic identification
was always based on the longest 16S rRNA sequence available,
in conjunction with phylogenetic marker genes. Information
on additional taxa and phyla can be found in the phylogenetic
trees and the Supplemental Materials (Figure 5, and Figure S1,
Table S1). Phylogenetic analyses based on 16S rRNA sequences
extracted from metagenomic data identified >50 members of 20
different phyla (Figure 5 and Figure S1), most of which could
also be affiliated with iTag sequences obtained in the amplicon
study. Frontiers in Microbiology | www.frontiersin.org Armatimonadetes (OP10) Uncultivated members of the Candidate phylum OP10, now
named Armatimonadetes (Tamaki et al., 2011; Lee et al., 2013),
were first detected in Obsidian Pool in YNP (Hugenholtz et al.,
1998b). The undermat community at Mushroom Spring also
contains a considerable diversity of members of this phylum. Two of the most highly abundant OTUs, OTUs 3, and 12,
were identified as members of the Armatimonadetes. In addition,
two abundant (OTUs 18 and 33) and nine less abundant iTag
OTUs were identified as members of this phylum (Table S1). Partial genomes were identified for OTUs-3, 12, and 18 (Table 3,
Figure S1). Thermomicrobium roseum, phylum Chloroflexi, which had
previously been isolated from the mats (Jackson et al., 1973), was
detected in the metagenome in this study and a previous 16S
rRNA cloning study (Klatt et al., 2013a), but T. roseum was only
present in low numbers based on the analysis of iTag amplicons
(OTU-74, 44 reads, Table S1, Figure 5A). Despite the high abundance of Armatimonadetes member
OTU-3 sequences in the amplicon study and the presence
of a partial 16S rRNA sequence with high coverage (951×;
JGI24185J35167_1062246), no corresponding bin was obtained
in the undermat metagenome. Serendipitously, a highly similar
organism (99% 16S rRNA sequence identity) was identified
as a chemoheterotrophic contaminant in a cyanobacterial
enrichment culture obtained from these mats in the Ward
laboratory at Montana State University (unpublished data). A
partial genome of this enrichment contaminant was obtained by
binning the assembled contigs of the corresponding enrichment
culture metagenome (Bin-3, Table 3). This enrichment partial
genome recruited 17,252 sequences (a total of 11 Mb of sequence
data) from the undermat metagenome displaying 90.5 ± 7.5%
nt id (covering min. 80% of the metagenome scaffold). OTU-3
amplicon sequences were also detected in the upper green layer
in lower numbers (4.5 vs. 0.8% relative abundance; Table S1)
and a partial genome of this organism was also detected
as an unidentified heterotroph Cluster 7 in the upper layer
metagenome (Klatt et al., 2011). The partial genome of the
upper layer displayed similar identity values of 90.3 ± 7.5% to
the enrichment culture metagenome bin and 94.6 ± 5.3% to
sequences in the undermat metagenome, and formed a single
ESOM bin with the partial genome obtained from the enrichment
culture (data not shown). Chloroflexi
b
f h OTU-09 is represented by Bin-9 and was also identified
as being derived from a member of a cluster of uncultured
Chloroflexi within the Anaerolineae (Figure 5A). However,
based on the absence of photosynthesis-related genes in the
corresponding metagenomic bin and the absence of unassigned
photosynthesis-related genes in the remaining unbinned contigs,
the organisms corresponding to OTU-09 are not predicted to be
chlorophototrophs. A
close
relative
of
Chloroflexus
sp. strain
MS-G,
a
chlorophototrophic
member
of
the
Chloroflexi
that
was
previously isolated from this mat (Thiel et al., 2014b), is
represented by OTU-11 and Bin-11 in this study. Like strain
MS-G, OTU-11 is predicted to be an anoxygenic phototroph
containing
type-2
(quinone-type)
photosynthetic
reaction
centers, light-harvesting complex 1 and chlorosomes based on
a metagenomic bin of 3.1 Mb, with an average read coverage
of 30× (Bin-11, Table 3). The bin contained 21 phylogenetic
marker genes, all of which share amino acid sequence identity
values of 98.7 to 100% with sequences from Chloroflexus sp. MS-G (Table 3). The organism representing OTU-11/Bin-11
and strain MS-G share 98.3% 16S rRNA and 94 ± 6% overall
genomic nucleotide sequence identity, respectively. June 2016 | Volume 7 | Article 919 Frontiers in Microbiology | www.frontiersin.org 12 Composition of the Mushroom Spring Undermat Community Thiel et al. A third anoxygenic phototrophic Chloroflexi is represented by
OTU-15 and Bin-15. Phylogenetic analysis and BLAST search
results indicate this organism to be only distantly related to other
chlorophototrophic Chloroflexus spp., displaying 90–91% 16S
rRNA sequence identity to Oscillochloris trichoides, Chloroflexus
aurantiacus J-10-fland “Candidatus Chloroploca asiatica.” The
organism associated with these sequences presumably represents
a novel genus of chlorophototrophic Chloroflexi within the family
Chloroflexaceae (Figure 5A). Based on the conserved signature
indels that are specific for different groups within the Chloroflexi
as described by Gupta et al. (2013), this filamentous anoxygenic
phototroph is affiliated with the proposed order of “green
nonsulfur bacteria,” Chloroflexales, suborder Chloroflexineae, but
is distinct from all known members of the genera Chloroflexus
and Oscillochloris. The functional gene content of the associated
metagenome bin (Bin-15) indicates that this organism has the
capacity to synthesize BChls a and c. A filamentous BChl
a- and BChl c-producing isolate similar to Oscillochloris sp. has been obtained in enrichment cultures, and tentatively
named “Candidatus Chloranaerofilum corporosum” (Tank et al.,
in press). Chloroflexi
b
f h of the phylogenetic marker genes were uncertain with most of
the sequences only being assigned to the kingdom (“bacteria”)
and phylum level (“Bacteroidetes,” “Chlorobi,” “Deinococcus-
Thermus,”
“Chloroflexi,”
or
“Thermotogae,”
respectively),
which indicates a high degree of novelty for this uncultured
organism. Sequences similar to the ones in this metagenomic
bin have previously been detected in the oxic upper green
layer of the mat community (Klatt et al., 2011). The sequences
formed unidentified Cluster 8 in the previous study, which
were associated with an uncultivated, putatively heterotrophic
bacterium. Bin-10 and Cluster 8 sequences formed a single bin
when included in the analysis. A BLASTn comparison revealed
an average nucleotide identity of 97 ± 3% between sequences of
the previous cluster and the sequences in the bin from this study. Armatimonadetes (OP10) OTU-3 was phylogenetically identified
as belonging to the “OS-L clade” within the uncharacterized
group 7 of the phylum Armatimonadetes (Lee et al., 2013)
(Figure S1). Clade OS-L is named after the first sequence of this
clade, OS Type L, obtained from a DGGE study of enrichment
cultures from microbial mats in Octopus Spring (Ward et al., Thermotogae Only two OTUs, OTU-2, and OTU-107, were identified as
members of the phylum Thermotogae by the RDP classifier
(Table S1). OTU-2 represents the second most abundant
species-level iTag sequence and the corresponding metagenomic
16S rRNA sequence is 99% identical to that of Pseudothermotoga
hypogea, formerly known as Thermotoga hypogea (Fardeau
et al., 1997; Bhandari and Gupta, 2014). Bin-2 sequences,
which represent this Pseudothermotoga sp. OTU-2 mat member
(Table 3),
show
high
similarities
(98–100%
aa
sequence
identities) to sequences obtained from a previous metagenomic
study by Klatt et al. (2013a; IMG/M OID 2015219002), and form
a single cluster with the genome sequence of Pseudothermotoga
hypogea DSM 11164 in the metagenome binning analysis, which
indicates the high similarity of these two genomes. OTU-107
shares 99% nt sequence identity to Fervidobacterium pennivorans
strain DSM 9078 as well as to Fervidobacterium sp. isolated from
YNP (Sullivan et al., unpublished, AY151268) but is represented
by only 20 reads (Table S1, Figure S1). In addition, several
sequences were affiliated with group EM3, which has tentatively
been placed in the Thermotogae (Reysenbach et al., 2000)
(Table S1, Figure S1). OTU-10 was misidentified as a member
of the Chlorobi by RDP classifier, but actually represents the
most abundant EM3 population and shares highest similarities
with hot spring clones OPB88 (AF027006, Hugenholtz et al.,
1998b) and OPS2 (AF018187, Graber et al., unpublished) from
YNP with 99 and 98% 16S rRNA nt identity, respectively. Bin-10
representing this OTU was identified based on the presence of
a matching 16S rRNA gene (Table 3). Phylogenetic affiliations June 2016 | Volume 7 | Article 919 Frontiers in Microbiology | www.frontiersin.org 13 Composition of the Mushroom Spring Undermat Community Thiel et al. of the total iTag sequences) were assigned to cyanobacteria
(Table S1). At the temperature sampled in this study (60◦C),
members of Synechococcus sp. Type B’ (OS Type B’, Table 4)
are the predominant organisms (Klatt et al., 2011; Liu et al.,
2011) and were also detected in this study (OTU-5, Bin-5,
Table 3). Synechococcus sp. A (OS Type A, Table 4) sequences
were detected in lower abundance (OTU-22, Table S1). The small
size of Bin-5 (Table 3) reflects a low number of long and well-
assembled contigs (68 contigs, 5,005–12,792 bp; 18× to 96×
coverage) in comparison to a total of 3,353 contigs identified
as having their origins in members of the Cyanobacteria in
the metagenome (440 to 12,792 bp). Nitrospirae iTag analysis identified seven Nitrospirae OTUs in the undermat
community, of which only one, OTU-8, was abundant (Table S1). Bin-8 was assigned to this Thermodesulfovibrio sp.-like mat
member based on presence of the corresponding 16S rRNA
sequence (Figure 4, Table 3). OTU-8 represented ∼2.0% (3,283
reads) of all iTag sequences (Table 1), and the full 16S rRNA
sequence was most closely related to a clone sequence obtained
from geothermal groundwater (99%, clone: SMD-B01, NCBI acc. no. AB477993, Kimura et al., 2010) and to Thermodesulfovibrio
yellowstonii strain DSM 11347, as the closest isolated relative
(96%, NCBI acc. no. CP001147, Henry et al., 1994; Bhatnagar Atribacteria (OP-9/JS1) (
)
The phylum Atribacteria, formerly known as Candidate phylum
OP-9/JS1, exhibited low diversity. Of two OTUs identified as
belonging to members of this phylum, only OTU-7 was detected
in significant numbers in the iTag analysis (Table S1, Figure S1). OTU-7 represented 2.4% of all iTag reads and was represented
by only a single abundant dereplicated iTag sequence (Table 1). Bin-7 contained a partial genome of this uncultured bacterium,
as identified by the full-length 16S rRNA sequence which
shared 99% and 98% sequence identity to Atribacteria clones
OPB72 and TP29 obtained from hot springs in YNP and Tibet,
respectively (Hugenholtz et al., 1998b; Lau et al., 2009). The
affiliated metagenomic bin indicates an anaerobic, fermentative
lifestyle for this member of the Atribacteria (data not shown),
which is similar to properties deduced from single-cell genome
sequences previously obtained from members of the Atribacteria
(Dodsworth et al., 2013; Nobu et al., 2016). Aquificae
f f Of four OTUs identified as belonging to members of the Aquificae
(Table S1), only OTU-4 was detected in significant numbers
(Table S1). The corresponding 1,434-bp rRNA metagenomic
sequence is 99% nt identical to clone sequences previously
obtained from YNP hot spring habitats (Thermocrinis sp. clone YNP_SBC_BP2A_B2, HM448202, Meyer-Dombard et al.,
2011), as well as to the YNP isolate Thermocrinis sp. P2L2B
(AJ320219, Eder and Huber, 2002). The closest described
relative is Thermocrinis ruber DSM 23557, which was isolated
from Octopus Spring and which has a 16S rRNA sequence
that shares 97% nt identity to the one found in this study
(Huber et al., 1998) (Figure S1). Correlating to the high
microdiversity detected for this OTU (Table 1), only a small
partial genome was identified in the binning analysis of the
metagenome (Bin-4, Table 3). The presence of at least two
closely related populations in the undermat community is
indicated by two highly similar (96% amino acid identity),
Thermocrinis-like soxB genes; these genes are located on three
individual scaffolds in the metagenome, each [gene-1, ∼270×
coverage: JGI24185J35167_10446912, JGI24185J35167_104385
21, JGI24185J35167_10819822; gene-2, ∼70× coverage: JGI24
185J35167_10446972, JGI24185J35167_10438611, JGI24185J35
167_10820392], which also suggests problems with sequence
assembly that could be related to microdiversity. Thermotogae Local BLASTn analysis
and reference guided assembly using the genome sequence
of Synechococcus sp. Type B’ as query (applying a 95% nt
identity threshold) identified 4,898 contigs as belonging to
these organisms. The low assembly quality is indicative of high
microdiversity as indicated by the presence of seven abundant
iTag sequences (Table 1). Recent studies have found that a high
number of ecotype populations occur within this cyanobacterial
population, displaying variations in gene content and sequence
as well as differences in gene arrangement (Becraft et al., 2011;
Olsen et al., 2015). Genome sequences of several ecotypes isolated
from the dominant cyanobacteria from Mushroom Spring are
now available, and these provide comprehensive insights into
the physiological and metabolic capacities of the oxygenic
chlorophototrophs in the mat (Bhaya et al., 2007; Nowack et al.,
2015; Olsen et al., 2015). 1992), with which the 16S rRNA genes in both Bin-3 from the
enrichment culture and the undermat metagenome share 98%
nt identity (L04707). So far, no isolated representative has been
reported for this phylogenetic group. The presence of all 31
bacterial phylogenetic marker genes in the bin suggests that it
contains a nearly complete genome (Table 3). Genes encoded
in the partial genome, in combination with its occurrence in
an enrichment with oxygenic cyanobacteria, indicates that this
organism probably exhibits an aerobic or microaerobic lifestyle,
similar to the other isolated members of the Armatimonadetes
(Lee et al., 2011; Tamaki et al., 2011; Im et al., 2012). A
considerable microdiversity was suggested by the presence of
nine abundant iTag sequences (Table 1) as well as the diversity of
partial, flagellum-associated genes affiliated with this organism,
which were present on short contigs in the metagenome. Additionally, thirteen closely related 16S rRNA sequences were
derived from a previous undermat 16S rRNA cloning study (Klatt
et al., 2013a). These sequences show high identity values (>97%)
to the OTU-3 sequence as well as to each other (assembly based
on 97% nt sequence identity, Figure S1A) and also reflect a high
microdiversity of these organisms. Similar to the situation found
for Roseiflexus spp. (see above), the high microdiversity suggested
for this taxon probably caused assembly difficulties, which may
explain why no metagenomic bin was recovered directly from the
undermat metagenome. Acidobacteria
h Thirteen OTUs representing four different members of the
Acidobacteria were identified in the Mushroom Spring undermat
community, and two of them were abundant with >100
reads (Table S1). OTU-17 was a member of group 4 of the
Acidobacteria and was identified as Cab. aerophilum (Tank and
Bryant, 2015a,b). Bin-16 (Table 3) contained a partial genome
for this unique microaerophilic, chlorophototrophic member
of the phylum Acidobacteria, which was first identified in
the phototrophic mats of Mushroom and Octopus Spring and
corresponds to the OS Type D sequences from earlier studies
(Ward et al., 1990, 1992; Bryant et al., 2007; Tank and Bryant,
2015a,b). Planctomycetes Five abundant iTag OTUs were identified as belonging to
members of the phylum Planctomycetes (Table S1), the very
abundant OTU-14 (1,260 reads), as well as four less abundant
OTUs (OTUs-16, 19, 49, and 51, Table S1). Twelve additional
Planctomycetes sequences were found in very low abundance
(Table S1). The
fourth
member
of
the
phylum
Acidobacteria
corresponded to a less abundant OTU (OTU-61, 70 reads =
0.1%) and was represented by two partial 16S rRNA sequences
in the metagenome. These sequences and the represented
uncultured organisms were affiliated with OS Type K sequences
from previous studies (Table 4, Ward et al., 1992; Weller et al.,
1992). Bin-14 contained a partial genome for Planctomycetes
member OTU-14 and was identified based on the corresponding
full-length 16S rRNA sequence as well as nineteen phylogenetic
marker genes (Table 3, Figure S1). An uncultured hot spring-
associated bacterium from a neutral 61◦C geothermal hot-
spring mat in Tibet, clone TP5, was identified as closest
relative (EF205581, 99%, Lau et al., 2009). The microaerophilic,
facultatively anaerobic, thermophilic Planctomycetes strain,
Thermogutta terrifontis strain R1T (KC867694, Slobodkina et al.,
2014), with 90% sequence identity, is the most closely related
isolated relative (Table 1). Based on the number of phylogenetic Cyanobacteria The two major photoautotrophic primary producers of the upper
green layer, Synechococcus spp. Type A and Type B’, were also
abundant members of the undermat by iTag analysis (OTUs
5 and 22, Table 1, Table S1). Seventeen additional but less
abundant iTag OTUs (each ≤25 reads, representing <0.05% June 2016 | Volume 7 | Article 919 Frontiers in Microbiology | www.frontiersin.org 14 Composition of the Mushroom Spring Undermat Community Thiel et al. et al., 2015). Bin-8 contained scaffolds with coverage values
ranging from 29 to 135, which possibly reflects two different
populations with different abundances. This was also suggested
by the different read numbers of two abundant, dereplicated
iTag sequences (OTU-8, iTag-10, 1,721 reads; and iTag-28, 602
reads; Table S1). The partial genome suggests sulfate-reducing
metabolism for this organism, similar to T. yellowstoneii, which
was isolated from thermal vent water in Yellowstone Lake,
Wyoming, USA (Henry et al., 1994; Bhatnagar et al., 2015). The dsrAB gene sequences associated with dissimilatory sulfate-
reduction of this uncultured organism have previously been
detected in the Mushroom Spring microbial mat, and the
corresponding Thermodesulfovibrio-like organism was associated
with the sulfate reduction activity measured in the mat (Dillon
et al., 2007). OTU-8 has been detected in both the upper and
lower parts of the mat (Table 5, Table S1), possibly indicating
that these organisms are not restricted to the undermat; this
is further supported by the finding of Thermodesulfovibrio-like
sequences also in the green upper layer metagenome in a previous
study (Klatt et al., 2011). marker genes present in the metagenome bin, and because of the
large sizes of available Planctomycetes genomes (3.8–9.7 Mb for
those in JGI/IMG as of December 2015), we expect the 1.87-Mb
bin to represent no more than 60% of the genome. The presence
of the iTag sequences for this OTU almost exclusively in the
undermat sample (a single read was found in iTag analysis of
upper green layer; Table 5, Table S1) suggests that this organism
lives exclusively in the orange-colored undermat and possibly in
its deeper regions below 3 mm, where mainly anoxic conditions
occur and persist (Nübel et al., 2002; Jensen et al., 2011). Bin-23 was also identified as derived from a member of the
Planctomycetes, but could not be directly affiliated with any iTag
sequence(s) due to absence of an rRNA sequence in the bin
(Table 3). Aminicenantes (OP8) The Aminicenantes (Candidate phylum OP8) was represented by
only a single taxon, OTU-13, and its corresponding metagenomic
Bin-13, which contains a 1,497-bp 16S rRNA gene sequence
(Table 1, Table S1). Notably, OTU-13 amplicon sequences were
found exclusively in the undermat community (Table S1). Although the iTag sequence shared 99% nt identity to the
uncultured Aminicenantes bacterium clone OPB95 obtained
from a Yellowstone hot spring (AF027060, Hugenholtz et al.,
1998b), the full-length sequence showed only 95% nt identity to
that sequence. No isolated bacterium shares more than 88% nt
identity with this uncultured organism. 16S rRNA gene sequence
surveys indicated that members of the Aminicenantes are
ubiquitously present in many different habitats and across many
environmental parameters (temperature, salinity, and oxygen
tension) (Farag et al., 2014). They usually represent only a small
fraction (<1%) of microbial communities, but have been found
to be more abundant in anoxic environments (Farag et al., 2014). OTU-36, as well as the less abundant OTU-72, were members
of Acidobacteria group 3 and were identified as Solibacter-like
organisms. Bin-20 was associated with OTU-36 by the presence
of a 16S rRNA-containing scaffold as well as by the presence
of six phylogenetic marker genes (Table 3). All six phylogenetic
marker genes indicated an affiliation with the Acidobacteria
and four of them specifically with the candidate species, “Ca. Solibacter usitatus” (Challacombe et al., 2011). Phylogenetic
analysis supported the affiliation and placed the sequence in
subgroup 3 of the Acidobacteria, closely related to Yellowstone
clone OPB3 (98%, AF027004, Hugenholtz et al., 1998b) and
“Ca. Solibacter usitatus” Ellin6076 as the closest named relative
(Table 1, Figure S1). The low number of phylogenetic marker
genes indicates that this member of the Acidobacteria has a large
genome, only a part of which is included in the metagenomic
bin. This correlates well with the fact that “Ca. Solibacter
usitatus” Ellin6076 has an exceptionally large, 9.97-Mb genome
(Challacombe et al., 2011). Frontiers in Microbiology | www.frontiersin.org Proteobacteria Sequences for 16S
rRNAs of two Alpha-, two Beta- and one Delta-Proteobacteria
were found in the metagenome (Figure S1C). The abundant
deltaproteobacterial sequence (OTU-44) was closely affiliated to a
sequence obtained in a previous metagenome study (Figure S1C,
Klatt et al., 2013a). Although the Deltaproteobacteria are
commonly known to include members with sulfate-reducing
metabolism, and sulfate-reduction has been shown in the
microbial mat at Mushroom Spring (Dillon et al., 2007),
deltaproteobacterial dsrAB genes were not identified in this nor
any previous study. No metagenomic bin was affiliated with a
Deltaproteobacterium. Brevinema-like member of the Spriochaeta (OTU-35), two
of which were Deltaproteobacteria (OTUs-40 and 44), and one
of which was an Alphaproteobacterium (OTU-46). Twenty-
nine additional, low-abundance OTUs were affiliated with
Proteobacteria by RDP classifier (Table S1). Sequences for 16S
rRNAs of two Alpha-, two Beta- and one Delta-Proteobacteria
were found in the metagenome (Figure S1C). The abundant
deltaproteobacterial sequence (OTU-44) was closely affiliated to a
sequence obtained in a previous metagenome study (Figure S1C,
Klatt et al., 2013a). Although the Deltaproteobacteria are
commonly known to include members with sulfate-reducing
metabolism, and sulfate-reduction has been shown in the
microbial mat at Mushroom Spring (Dillon et al., 2007),
deltaproteobacterial dsrAB genes were not identified in this nor
any previous study. No metagenomic bin was affiliated with a
Deltaproteobacterium. The abundant Alphaproteobacterium (OTU-46) was identified
as an Elioraea sp. within the Rhodospirilliales, which corresponds
to OS Type O obtained in previous studies (Figure S1C,
Table 4, Ward et al., 1992). The corresponding partial genome
(Bin-22, Figure 4, Table 3) as well as the genome for the
closest relative, Elioraea tepidiphila DSM 17972 (NCBI acc. no. NZ_KB899965.1), contain genes for anoxygenic photosynthesis. Although chlorophototrophy has not been described for Elioraea
tepidiphila (Albuquerque et al., 2008), the ability to synthesize
BChl a is predicted for the OTU-46 population in the undermat
community. A BChl a containing strain, “Candidatus Elioraea
thermophilum,” was isolated from the mat, which shares 99.8%
and 99.2% sequence identity with the 16S rRNA sequences from
the metagenome and amplicon study, respectively (Figure S1C,
Tank et al., in press). A low abundance Alphaproteobacterium
sequence (OTU-121, 16 reads) was identified as belonging to
a Roseomonas/Rhodovarius-like organism, for which an isolate
has been obtained from Mushroom Spring and which has
tentatively been named “Candidatus Roseovibrio tepidum”
(Figure S1C, Tank et al., in press). Proteobacteria The isolate exhibits BChl
a autofluorescence suggesting a phototrophic lifestyle, which
is further strengthened by the presence of low coverage,
unidentified alphaproteobacterial pufLM
sequences in the
metagenome
(scaffold
JGI24185J35167_1024732,
genes
2
and 3, 20× coverage). Only a single described Roseomonas
sp., R. aestuarii, has been reported to produce BChl a, but
no pufLM sequences are available for that isolate (Venkata
Ramana et al., 2010). Furthermore, two low-abundance OTUs
(OTUs-101 and 154) showed the same phylogenetic affiliation
(Hydrogenophilius sp., Betaproteobacteria) as OS type G from
previous studies (Ward et al., 1990, 1992). The OS Type R
sequence (NCBI acc. no. U46750, unpublished) represented
an
unidentified
Betaproteobacterium
and
a
similar,
low-
abundance iTag sequence (OTU-172) was detected in this study
(Table 4, Figure S1C). Bin-24 (Table 3) does not contain a 16S rRNA sequence,
but was affiliated with a putative member of the Bacteroidetes-
Chlorobi group based on phylogenetic marker genes. It is most
closely related to heterotrophic members of the Chlorobi, in
the family Ignavibacteriaceae (Liu et al., 2012; Kadnikov et al.,
2013) and is presumably affiliated with OTUs-34 or 45 in the
Chlorobi Lineage 5/group SM1H02 (Figure 5B). All genes needed
for dissimilatory sulfate reduction are present in the partial
genome and indicate that this organism is putatively the first
sulfate-reducing member of the Bacteroidetes-Chlorobi group. These results will be described in detail elsewhere (Thiel et al.,
in preparation). The OS Type M sequences obtained in previous
studies (Ward et al., 1992) are affiliated with OTU-34 as well
as with two partial 16S rRNA sequences from the metagenome
(Table 4) within the SM1H02 (Chlorobi Lineage 2) group. Only
low
abundance
OTUs
were
affiliated
with
the
Bacteroidetes (Table S1). Many of them were closely related
to clone sequences obtained in a previous undermat study,
and some also represented partial 16S rRNA sequences from
the metagenome (Figure 5B, Klatt et al., 2013a). Schleiferia
thermophila, a strain of which has been isolated from Octopus
Spring microbial mats (Thiel et al., 2014a), was not detected in
this study. Proteobacteria Four
abundant
OTUs
were
affiliated
with
the
phylum
Proteobacteria by the RDP classifier, one of which was
misidentified
as
Proteobacteria
and
rather
represents
a June 2016 | Volume 7 | Article 919 Frontiers in Microbiology | www.frontiersin.org 15 Composition of the Mushroom Spring Undermat Community Thiel et al. Chlorobi were abundant with read numbers >100, and one
was very abundant with >1,000 reads (Table S1). However,
the
most
abundant
“Chlorobi”
sequence
(OTU-10)
was
mis-classified and represents an Thermotogae/EM3 group
member (see above, Table 1, Figure 5B). The other abundant
Chlorobi sequences were affiliated with the proposed family
Thermochlorobacteriaceae (OTU-38) (Liu et al., 2012), “Chlorobi
lineage 5” = “OPB56 group” (OTUs 24, 27, and 29) (Iino et al.,
2010; Hiras et al., 2015) and “Chlorobi lineage 2” = “SM1H02
group” (OTUs 34 and 45) (Iino et al., 2010; http://www.arb-silva. de/browser/ssu-121/AY555793, named after clone SM1H02,
Genbank acc. no. AF445702). Bin-19 (Table 3) was identified as a
partial genome representing OTU-24, a representative of OPB56,
a subgroup of the Chlorobi with predicted chemoheterotrophic
lifestyle that was first detected in YNP (Hugenholtz et al., 1998b;
Hiras et al., 2015, Table 3). A low abundance OTU in the OPB56,
OTU-262, was identified as a probable representative of the
OS Type F sequences from previous studies (Table 4, Ward
et al., 1990, 1992). The first aerobic, phototrophic member
of the Chlorobi, “Ca. Tcb. aerophilum,” which belongs to the
proposed family Thermochlorobacteriaceae and was identified
in the upper green layer of the microbial mat by previous
metagenomic analyses (Liu et al., 2012), is represented by
OTU-38 (Table 1), and was identified as OS Type E in previous
studies (Ward et al., 1990, 1992; Ferris et al., 1996b). Bin-21 is
derived from this novel phototroph (Table 3) and supports its
characterization as a chlorophototroph that synthesizes type-1
reaction centers and chlorosomes, similar to cultivated relatives
among the green sulfur bacteria, but which is otherwise very
different physiologically. “Ca. Tcb. aerophilum” is proposed
to be an aerobic photoheterotroph that cannot oxidize sulfur
compounds, cannot fix N2, and does not fix CO2 (Liu et al.,
2012). Brevinema-like member of the Spriochaeta (OTU-35), two
of which were Deltaproteobacteria (OTUs-40 and 44), and one
of which was an Alphaproteobacterium (OTU-46). Twenty-
nine additional, low-abundance OTUs were affiliated with
Proteobacteria by RDP classifier (Table S1). Archaea
l h
h Although methanogenesis has been demonstrated in several mats
of alkaline siliceous hot springs, including Mushroom Spring
(Ward, 1978; Sandbeck and Ward, 1982), and methane has
been shown to accumulate in the water above the Mushroom
Spring mat in darkness (Kim et al., 2015), iTag sequencing only
identified a few partial 16S rRNA sequences as potentially derived
from methanogenic Archaea (OTUs-143, 151, 162, 192, and 244;
≤11 reads = ≤0.01%, Table S1). Phylogenetic analysis confirmed
affiliation to the Euryarchaeota for four of them (OTUs-143,
151, 162, and 192, Figure S1A) and three of the sequences
were detected in a cloning experiment from a previous study
(Klatt et al., 2013a); thus, methanogenic archaea seem to be
present in the mat over time, although in very low abundance. One OTU, OTU-151 with 10 reads but no representative
sequence in the metagenome, shows high similarity (99%
nt id) with the 16S rRNA sequence of the methanogenic
archaeon Methanothermobacter thermoautotrophicus, strains of
which have been isolated from these mats previously (former
Methanobacter thermoautotrophicum; Sandbeck and Ward,
1982). Further, a single, low coverage mcrA gene encoding
a methyl-coenzyme M reductase alpha subunit was present
in the metagenome (JGI24185J35167_11200021, 7× coverage)
possibly indicating methanogenic metabolism in at least one
of the archaeal mat members. Two slightly more abundant
16S rRNA sequences affiliated with ammonia-oxidizing Archaea
were detected (Table S1). One (OTU-60, 72 reads) was related
to “Candidatus Nitrosocaldus yellowstonii,” which was also
identified in an enrichment culture from Octopus Spring
mat in previous studies (De La Torre et al., 2008). The
other, OTU-67 represents a member of a putatively novel
archaeal phylum/division, related to “Candidatus Caldiarchaeum
subterranum” (Nunoura et al., 2011). Another less abundant Firmicutes Although
Anoxybacillus
spp. are
common
members
of
cyanobacterial enrichment cultures from these environments
(e.g., Nowack, 2014; Olsen et al., 2015; Tank and Bryant, 2015b),
no evidence for this organism was found in the metagenome nor
the iTag analysis. Twenty-four OTUs were classified as belonging
to members of the Firmicutes, of which two (OTUs-251 and 255)
were predicted to be Bacillus sp.; however, they shared highest
sequence similarity to the type strains of Syntrophothermus
lipocalidus and Acetomicrobium faecale (both clostridia). None
of the 16S rRNA genes retrieved from the metagenome could
be affiliated with the Firmicutes. In addition, none of the
metagenomic scaffolds were affiliated with Anoxybacillus spp. No
sequence from an Anoxybacillus sp. was identified by BLASTn
analysis of the metagenome using the partial genome sequence
obtained from the Anoxybacillus sp. MT isolated from an
enrichment culture from Octopus Spring (Thiel et al. in prep),
nor the “phylogenetic distribution of genes by BLAST percent
identities” tool implemented in the JGI/IMG website. Deinococcus-Thermus/Thermi Deinococcus-Thermus/Thermi
Of two different members of the phylum Thermi identified in
this study, only Meiothermus sp. was abundant in the undermat
community (OTU-21, 656 reads), whereas sequences of Thermus
spp. were only present in low numbers in the iTag study
(Table S1, Figure S1C). Members of both genera have been
isolated from these mat communities (Brock and Freeze, 1969;
Ward et al., 1997; Thiel et al., 2015). OTU-21 was identified as a
relative of Meiothermus ruber, a member of which, strain A, has
previously been isolated from an enrichment culture originally
obtained from the microbial mats at Octopus Spring and whose
genome has been sequenced (Thiel et al., 2015). Tetranucleotide
frequency-based binning of contigs >10 kb led to a 1.3-Mb partial
genome (Bin-18, Table 3) for this moderately thermophilic,
aerobic, and heterotrophic bacterium. The Meiothermus sp. 16S
rRNA sequences obtained from the metagenome share 96.7%
nt sequence identity with M. ruber strains A and DSM1279T. Sequences of Bin-18 shared 84.5% (±4.5%) with the M. ruber
strain A genome and 84.2% (±4.5%) with M. ruber DSM1279T. Although the (partial) genome sequences of the isolate and the
metagenome bin clusters overlap, some separation was visible
when the sequences of both organisms were included in the
binning analyses (data not shown). Bacteroidetes-Chlorobi The RDP classifier identified twenty and eight different OTU
sequences belonging to members of the phyla Chlorobi and
Bacteroidetes, respectively. Seven OTUs affiliated with the June 2016 | Volume 7 | Article 919 Frontiers in Microbiology | www.frontiersin.org 16 Composition of the Mushroom Spring Undermat Community Thiel et al. iTag sequence, similar to that of an archaeal 16S rRNA sequence
recovered from the undermat metagenome previously (Klatt
et al., 2013a), was also detected in the iTag analysis (OTU-125,
15 reads), but not in the metagenome of this study (Figure S1A). None of the metagenomic bins could be identified as belonging
to Archaea, and only a few contigs with low coverage values,
showed high identities to known archaeal sequences. Thus, our
metagenomic and 16S rRNA gene amplicon studies indicate a
very low abundance of Archaea, of which sequences related to
ammonia-oxidizing Archaea seem to be more abundant than
possible methanogenic Archaea. The low abundance of archaeal
sequences is consistent with the low relative abundance of
archaeal lipids in previous studies, which had been discussed to
be related to the energy flows through the trophic structure of the
community (Ward et al., 1989). Frontiers in Microbiology | www.frontiersin.org DISCUSSION In this study we analyzed the orange undermat of the microbial
mat community at 60◦C in Mushroom Spring YNP by 16S
rRNA gene amplicon and metagenomic sequencing. Only eight
major organismal populations were identified in the upper green
layer by genomic, metagenomic and metatranscriptomic analysis
(Klatt et al., 2011; Liu et al., 2011). A higher diversity had
been speculated to occur in the undermat community (Klatt
et al., 2013a). In this study the undermat was found to be a
highly diverse but uneven bacterial community, which could be
related to the trophic structure associated with mat-decomposing
organisms, as hypothesized to explain the variable abundances of
lipid biomarkers (Ward et al., 1989) and 16S rRNA sequences
(Ward et al., 1998). Out of 317 OTUs, the 15 most abundant
ones represent 87% of all iTag sequences, and the single most
abundant OTU comprises nearly half of all iTag reads. More than
44 abundant taxa, as defined by read numbers of >100 in the
iTag analysis, were detected in the orange-colored undermat at
Mushroom Spring. The phylum Chloroflexi displayed the highest
diversity with nine abundant and 41 total taxon-specific 16S June 2016 | Volume 7 | Article 919 Frontiers in Microbiology | www.frontiersin.org 17 Composition of the Mushroom Spring Undermat Community Thiel et al. by the relative number of 16S rRNA gene amplicon reads
between the upper layer and undermat samples. For example,
Pseudothermotoga spp. OTU-2, Armatimonadetes member OTU-
3, Thermocrinis spp. OTU-4, Chloroflexi members OTU-6, 9, and
15, as well as the Atribacteria member OTU-7, the Aminicenantes
member OTU-13, and Planctomycetes member OTU-14, are
found in much higher relative abundance in the undermat
(Table 5, Table S1). Future transcriptomic studies will assess
which of the detected populations correspond to the highest
transcriptional activities based on gene expression. The presence
of aerobic, microaerobic and anaerobic organisms detected in
this study indicate a possible layered distribution along the steep
and fluctuating oxygen gradient and shows that some oxygen is
available during the day below a depth of 2 mm in the microbial
mat, as previously suggested by microelectrode measurements
(Revsbech and Ward, 1984; Nübel et al., 2002; Jensen et al., 2011). Whereas aerobic bacteria and facultative anaerobes are expected
to live in the transition zone adjacent to the upper green layer,
abundant anaerobic members of the undermat community, e.g.,
Pseudothermotoga sp. DISCUSSION Studies with more rapidly evolving
protein-encoding loci led to the prediction of numerous ecotypes
with identical or nearly identical 16S rRNA sequences (Ferris
et al., 2003; Becraft et al., 2011, 2015; Melendrez et al., 2011). The existence of temperature- and light-adapted Synechococcus
ecotypes has been demonstrated by obtaining representative
strains and studying their temperature and light preferences as
well as their genomes, (Allewalt et al., 2006; Nowack et al., 2015;
Olsen et al., 2015). A similar microdiversity and existence of
putative ecotypes is suggested by this study for members of the
undermat community, and in particular for Roseiflexus spp., the
most dominant member in the undermat. The presence of unique
16S rRNA genotypes in the undermat (this study) and at different
temperatures (Ferris and Ward, 1997), supports this inference. In addition to the high diversity of OTUs within the phylum
Chloroflexi, a high microdiversity was found for Roseiflexus spp. by the presence of 24 abundant and a total of 6,193 dereplicated
Roseiflexus sp. iTag sequences, which is further supported by a
preliminary analysis of pufLM amplicon sequence data (J. Wood
and D. Ward, unpublished data). The microbial mat as a living and active biological system has
been shown to be constantly growing (Doemel and Brock, 1977). In this study we observed phototrophic taxa known from the
upper layer in the undermat. Analyses of psaA sequences sampled
in this metagenomic study suggest that the Synechococcus
populations observed match species found in the upper mat
and thus likely occur in the undermat as a consequence of
burial. In contrast, similar analyses of pufLM sequences as well as
oligotyping suggest that Roseiflexus populations in the undermat
are a mixture of those found in the upper green mat layers
and those uniquely found in the undermat (Table 5, Figure S2,
Wood et al., unpublished). The detection of identical dereplicated
iTag and oligotype sequences in both layers might indicate
burial. However, the detection of oligotypes and dereplicated
iTag sequences with higher relative abundance in the undermat
strongly suggests the existence of putative ecotypes specifically
adapted to niches in the undermat. Further it is important to
note that specifically adapted ecotypes can be so closely related
that they have the identical 16S rRNA gene sequence, and can
only be detected using more rapidly evolving genes (Becraft et al.,
2011, 2015). DISCUSSION OTU-2 and Atribacteria member OTU-7
can be expected to be active members mainly in the community
below a depth of 3 mm, where anoxic conditions are expected
to persist throughout the day (Nübel et al., 2002; Becraft et al.,
2011; Jensen et al., 2011). Despite the anaerobic lifestyle of
sulfate reduction, Thermodesulfovibrio sp. OTU-8 was detected
in higher abundance in the upper layer, which might indicate
some degree of oxygen tolerance and diel activity patterns, i.e.,
primary sulfate-reducing activity under anoxic conditions in
the afternoon or at night as measured by Dillon et al. (2007). An Aminicenantes (OP8) member (OTU-13), a Planctomycetes
member (OTU-14) and an Oscillochloris-like chlorophototrophic
member of the Chloroflexi, “Ca. Chloranaerofilum corporosum”
(OTU-15) (Tank et al., in press) were exclusively detected in
the undermat by iTag analysis, which suggests that they have
an anaerobic lifestyle in the deeper layers of the undermat. However, “Ca. Chloranaerofilum corporosum” is expected to be
a phototroph, and only a limited amount of light reaches deep
into the undermat. Thus, a layered structure of the microbial
community, as has been demonstrated in the upper green
layer (Ramsing et al., 2000; Becraft et al., 2011), can only be
hypothesized for the undermat at this time. Further studies are
needed to determine the distribution of the members of the
undermat community. rRNA sequences (OTUs) found. All of the taxa found in the upper
mat by Klatt et al. (2011) were also identified in the undermat. rRNA sequences (OTUs) found. All of the taxa found in the upper
mat by Klatt et al. (2011) were also identified in the undermat. y
(
)
In this study we analyzed the composition and diversity of
the microbial community based on 16S rRNA gene sequences,
which cannot easily be translated into species populations. However, relatively high 16S rRNA sequence diversity was found
in this study, not only on the OTU level but particularly within
the dereplicated iTags, which suggests that this microbial mat
community is not simple. Previous observations that closely
related cyanobacterial 16S rRNA sequences were differently
distributed along environmental gradients (Ferris and Ward,
1997; Ramsing et al., 2000) prompted consideration of the
Stable Ecotype Model of species and speciation (Cohan and
Perry, 2007), which postulates that some microorganisms exist
as ecological species occupying distinct niches (Ward, 1998;
Ward and Cohan, 2005). Frontiers in Microbiology | www.frontiersin.org DISCUSSION For other organisms, a greater relative abundance,
or exclusive presence in the lower part of the mat, is indicated y
All seven chlorophototrophs identified in previous genomic
and metagenomic studies of the upper green layer were also
present in the undermat metagenome (Table 5; Klatt et al., 2011;
Liu et al., 2011). Roseiflexus spp. and “Candidatus Roseilinea
gracile” showed higher relative abundance in the undermat,
whereas the other phototrophs are present in lower relative
abundance in comparison to the upper green layer of the mat
(Table 5, Table S1). Three additional phototrophic bacteria were
detected in the microbial mat for the first time in this study
(“Candiatus Chloranaerofilum corporosum” OTU-15, as well
as two phototrophic Alphaproteobacteria, “Candidatus Elioraea
thermophila” OTU-46, and “Candidatus Roseovibrio tepidum”
OTU-121; Tank et al., in press). A total of sixteen phototrophic
bacterial taxa representing six different phyla have now been June 2016 | Volume 7 | Article 919 18 Composition of the Mushroom Spring Undermat Community Thiel et al. TABLE 5 | Overview of community composition detected by the different methods used in this study (iTag, metagenome 16S rRNA, metagenome binni
and relative abundances in undermat and upper layer iTag sequencing study. iTag OTU
Identity
Undermat
metagenome 16S rRNA
Undermat
metagenomic bin
iTag MS
undermat (%)
iTag MS upper
green layer (%)
Upper green la
metagenomic b
OTU-01
Chloroflexi, Roseiflexus sp., OS
Type C
Yes, scaffold 166812
Yes, bin-1 [very small]
49.1
33.9
Yes
OTU-02
Thermotogae,
Pseudothermotoga sp. Yes, scaffold 336
Yes, bin-2
10.4
1.5
No
OTU-03
OP10/Armatimonadetes_Gp7,
OS Type L
Yes, scaffold 622461
No [enrichment bin-3]
4.5
0.8
Yes
OTU-04
Aquificae, Thermocrinis sp. Yes, scaffold 2657
Yes, bin-4
4.4
0.3
No
OTU-05
Cyanobacteria, Synechococcus
sp. B’, OS Type B
Yes, scaffold 8881
Yes, bin-5
3.6
37.4
Yes
OTU-06
Chloroflexi, Anaerolineae-like’
phototroph
Yes, scaffold 1696
Yes, bin-6
2.6
1.2
Yes
OTU-07
OP9/Atribacteria
Yes, scaffold 14288
Yes, bin-7
2.4
0.7
No
OTU-08
Nitrospirae,
Thermodesulfovibrio sp. Yes, scaffold 00748
Yes, bin-8
2.4
2.7
(Yesb)
OTU-09
Chloroflexi, Anerolineae
Yes, scaffold 273
Yes, bin-9
1.4
0.7
No
OTU-10
Thermotogae, EM3/OPS-2
Yes, scaffold 1962
Yes, bin-10
1.2
3.1
Yes
OTU-11
Chloroflexus sp. DISCUSSION MS-G
Yes, scaffold 301461
Yes, bin-11
1.1
1.2
Yes
OTU-12
OP10/Armatimonadetes_Gp6
Yes, scaffold 3586
Yes, bin-12
1.1
0.5
No
OTU-13
OP-8/Aminicenantes
Yes, scaffold 32931
Yes, bin-13
1.0
0.0
No
OTU-14
Planctomycetes
Yes, scaffold 3293
Yes, bin-14
0.9
0.0
No
OTU-15
Chloroflexi
Yes, scaffold 218671
Yes, bin-15
0.7
0.0
No
OTU-16
Planctomycetes, Gemmata
Yes, scaffold 261011
Maybe, bin-23
0.7
0.2
No
OTU-17
Chloracidobacterium
thermophilum
Yes, scaffold 32584
Yes, bin-16
0.7
5.2
No
OTU-18
Armatimonadetes_Gp 2
Yes, scaffold 584
Yes, bin-17
0.6
0.0
No
OTU-19
Planctomycetes, uncultured
Yes, scaffold 11289
No
0.6
0.0
No
OTU-20
Elusimicrobia, uncultured
Yes, scaffold 20130
No
0.5
0.1
Maybe
OTU-21
Deinococcus-Thermus,
Meiothermus sp. Yes, scaffolds 8341 and
25957
Yes, bin-18
0.5
0.4
No
OTU-22
Cyanobacteria, Synechococcus
sp. A, OS Type A
Yes, scaffold 85825
No
0.5
0.5
No
OTU-23
Chloroflexi, Anaerolineae,
OPB12
Yes, scaffold 18877
No
0.5
0.0
No
OTU-24
Chlorobi, Lineage 5: OPB56
Yes, scaffold 2638
Yes, bin-19
0.5
2.0
No
OTU-25
Spirochaetae, Leptospiraceae
Yes, scaffold 4665
No
0.4
0.1
No
OTU-26
Thermodesulfobacteria,
Caldimicrobium
Yes, scaffold 193547
Yes, bin-32
0.4
0.4
No
OTU-27
Chlorobi, Lineage 5: OPB56
Yes, scaffold 104947
No
0.4
1.0
No
OTU-28
Thermotogae, EM3
Yes, scaffold 49539
No
0.4
0.0
No
OTU-29
Chlorobi, Lineage 5: OPB56
Yes, scaffold 6663
No
0.4
0.3
No
OTU-30
Thermotogae, EM3
Yes, scaffold 26263
No
0.4
0.0
No
OTU-31
Chloroflexi, Bellilinea
Yes, scafffold 10483
Yes, bin-25
0.3
0.1
No
OTU-32
Spirochaetae, Exilispira
Yes, scaffolds 5322 and
20220
No
0.2
1.1
No
OTU-33
OP10/Armatimonadetes_Gp7,
OS Type L
Yes, scaffold 62246
No
0.2
0.0
No
OTU-34
Chlorobi, Ignavibacteriaceae
Yes, scaffolds 10292 and
68906
Maybe, bin-24
0.2
0.2
No
OTU-35
Spirochaetae, Brevinema
No
No
0.2
0.3
No
OTU-36
Acidobacterium, OPB3
Yes, scaffolds 1343 and
2292
Yes, bin-20
0.2
0.0
No
(Continu position detected by the different methods used in this study (iTag, metagenome 16S rRNA, metagenome binning)
nd upper layer iTag sequencing study. TABLE 5 | Overview of community composition detected by the different methods used in this study (iTag, metagenome 16S rRNA, metagenome binning)
and relative abundances in undermat and upper layer iTag sequencing study. June 2016 | Volume 7 | Article 919 Frontiers in Microbiology | www.frontiersin.org 19 Composition of the Mushroom Spring Undermat Community Thiel et al. CONCLUSIONS 16S rRNA gene sequences of iTag OTUs as well as assembled
clone sequences have been deposited in GenBank (Acc. nos. KU860141–KU860455 [iTag OTUs]; KX213895–KX214032
[clone OTUs]). Complete metagenome data are available in
the Integrated Microbial Genomes with Microbiome Samples
(IMG/M, https://img.jgi.doe.gov/) database, taxon object IDs
3300002493, 3300005452 and 2015219002. In this study we analyzed the community composition and
diversity of the orange-colored undermat of Mushroom Spring,
an alkaline hot spring in YNP (WY, USA) by 16S rRNA
gene amplicon and metagenomic analyses. Despite a long
history of research on the microbial mats at Mushroom
and Octopus Springs (Brock, 1967; Ward et al., 1998, 2012;
Kim et al., 2015), these mats still harbor the potential for
many novel discoveries. Members of the genus Roseiflexus
dominated a fairly diverse but uneven microbial community,
and metagenomic analysis identified several novel organisms
with unusual traits. Many unidentified 16S rRNA sequences
recovered from these environments in previous studies were
detected and phylogenetically identified. Other organisms, which
have been cultured from either Mushroom or Octopus Spring, DISCUSSION The second unidentified heterotroph previously detected
in the upper layer metagenome, Cluster 7 (Klatt et al., 2011),
was identified as an Armatimonadetes member OTU-3. Due to a
high microdiversity of this organism in the microbial mat sample,
identification was only possible by a serendipitous finding of a
closely related organism in an enrichment culture. detected in the Mushroom Spring microbial mat (Tank et al.,
in press). Additionally, the discovery of multiple organisms with
genes encoding xanthorhodopsin raises new questions about the
role of retinal-based phototrophy (retinalophototrophy; Bryant
and Frigaard, 2006) or signaling in the undermat. This will be
addressed in more detail elsewhere (Thiel et al., in preparation). The unidentified Cluster 8 previously detected in the upper layer
metagenome was identified again here as OTU-10, an organism
affiliated with the group EM3, which has tentatively been placed
in the phylum Thermotogae (Reysenbach et al., 1994; Klatt et al.,
2013a). The second unidentified heterotroph previously detected
in the upper layer metagenome, Cluster 7 (Klatt et al., 2011),
was identified as an Armatimonadetes member OTU-3. Due to a
high microdiversity of this organism in the microbial mat sample,
identification was only possible by a serendipitous finding of a
closely related organism in an enrichment culture. Frontiers in Microbiology | www.frontiersin.org DISCUSSION TABLE 5 | Continued
iTag OTU
Identity
Undermat
metagenome 16S rRNA
Undermat
metagenomic bin
iTag MS
undermat (%)
iTag MS upper
green layer (%)
Upper green layer
metagenomic bina
OTU-37
Verrucomicrobia, uncultured
Yes, scaffold 25955
No
0.2
0.0
No
OTU-38
Chlorobi, “Ca. Thermochlorobacter
aerophilum”
Yes, scaffold 761
Yes, bin-21
0.2
2.2
No
OTU-39
Chloroflexi, Anaerolineae
Yes, scaffold 145123
No
0.2
0.1
No
OTU-40
Deltaproteobacteria,
Desulfarculales, uncultured
Yes, scaffold 112567
No
0.2
0.0
No
OTU-41
Spirochaetae, Spirochaeta
Yes, scaffold 19076
No
0.2
0.1
No
OTU-42
Acetothermia, uncultured
(Yes, scaffold 169700)*
No
0.1
0.0
No
OTU-43
Spirochaetae, Leptospiraceae,
uncultured
(Yes, scaffold 205406)*
No
0.1
0.0
No
OTU-44
Deltaproteobacteria,
Synthroporhabdus-like
Yes, scaffolds 233149 and
241554
No
0.1
0.0
No
OTU-45
Chlorobi, Ignavibacteriaceae
Yes, scaffolds 104127 and
141772
Maybe, bin-24
0.1
0.0
No
OTU-46
Elioraea sp. Yes, scaffold 23894
Yes, bin-22
0.1
0.0
No
*based on phylogenetic analysis, no overlap of sequences. aKlatt et al. (2011). bno metagenomic bin, but related sequences recruited by reference genomes. were not detected, once again illustrating the inherent bias of
untargeted cultivation experiments. A more detailed analysis of
the metagenome, focusing on the metabolic potential of the
mat members and their putative interactions, will be published
elsewhere (Thiel et al., in preparation). Studies of microbial
ecology, diversity, species evolution and interspecies interactions
are still subjects of ongoing research with many open questions
to be addressed. Comparisons of species in both upper and lower
mat and a diel-transcriptomic analysis that will hopefully reveal
gene expression activity within the undermat community that
will allow us to distinguish between active and inactive members
of the community defined in this study, and should provide
information on the temporal pattern of gene expression in the
undermat. Depth-dependent distributions of OTU populations
that may represent putative ecotypes will also be addressed in
future studies. detected in the Mushroom Spring microbial mat (Tank et al.,
in press). Additionally, the discovery of multiple organisms with
genes encoding xanthorhodopsin raises new questions about the
role of retinal-based phototrophy (retinalophototrophy; Bryant
and Frigaard, 2006) or signaling in the undermat. This will be
addressed in more detail elsewhere (Thiel et al., in preparation). The unidentified Cluster 8 previously detected in the upper layer
metagenome was identified again here as OTU-10, an organism
affiliated with the group EM3, which has tentatively been placed
in the phylum Thermotogae (Reysenbach et al., 1994; Klatt et al.,
2013a). AUTHOR CONTRIBUTIONS VT conducted sequence analysis after assembly for both
amplicon and metagenome sequences, including phylogenetic
analysis and phylogenetic marker genes analysis of metagenome
bins. JW conducted initial tetranucleotide binning analyses, June 2016 | Volume 7 | Article 919 Frontiers in Microbiology | www.frontiersin.org 20 Composition of the Mushroom Spring Undermat Community Thiel et al. reference targeted mapping studies and contributed to discussion
and manuscript. Sampling and DNA extraction from the hot-
spring microbial mat and enrichment cultures was conducted by
MO, who also wrote corresponding sections in the manuscript
and contributed to the discussion of results. MT isolated and
identified all cultures mentioned in the manuscript, contributed
to writing the manuscript and discussing the results. CK
conducted 16S rRNA cloning and sequencing from undermat
samples from a previous time point, analyzed those sequences
and contributed to manuscript and discussion. Sequencing,
quality check, assembly and dereplication of amplicon and the
metagenome was conducted by JGI staff. DW and DB planned
the experiments, acquired funding, organized and led field
excursions and provided scientific infrastructure. VT, DW, and
DB wrote the manuscript. used in this study were collected under permit #YELL-SCI-0129
held by DW and administered under the authority of Yellowstone
National Park. The authors especially thank Christie Hendrix and
Stacey Gunther for their advice and assistance. FUNDING The trees were generated based on the Maximum Likelihood method using the
phyML software included in the ARB package. Percentage numbers on nodes
refer to 100 bootstrap pseudoreplicates conducted. Only values >50% are
shown. Bold sequences were obtained from Mushroom or Octopus Spring in this
or previous studies. Red bold labels indicate sequences obtained in this study. Blue bold labels indicate “OS type” sequences from previous studies. OTU
numbers shown refer to the most abundant OTU represented by the sequence. Only sequences with length >1,000 bp were used for phylogenetic calculations. Sequence length <1,000 bp are given in (gray) in the labels and corresponding
sequences were added using the Parsimony method without changing tree
topology. This study was partly funded by the Division of Chemical
Sciences, Geosciences, and Biosciences, Office of Basic Energy
Sciences of the Department of Energy through Grant DE-FG02-
94ER20137. DB and DW additionally acknowledge support from
the NASA Exobiology program (NX09AM87G). This work was
also partly supported by the U. S. Department of Energy (DOE),
Office of Biological and Environmental Research (BER), as part
of BER’s Genomic Science Program 395 (GSP). This contribution
originates from the GSP Foundational Scientific Focus Area
(FSFA) at the Pacific Northwest National Laboratory (PNNL)
under a subcontract to DB. The nucleotide sequencing was
performed as part of a Community Sequencing Program (Project
CSP-411) and was performed by the U.S. Department of Energy
Joint Genome Institute, which is supported by the Office of
Science of the U.S. Department of Energy under Contract No. DE-AC02-05CH11231. Figure S2 | Entropy distribution in Roseiflexus-like 16S rRNA gene
amplicon sequences in the combined dataset (A), and the undermat (B),
and upper layer (C). The difference in the entropy figures from upper layer (C)
and undermat (B) analyzed separately, specifically the considerably lower entropy
at pos. 104 and 109 in upper layer, are indicative of a lower abundance of two
oligotypes in the upper layer, namely “CCCCGCGTGC” (2.13% in undermat,
0.19% in upper layer) and “CCCCGCGGGC” (1.02 vs. 0.21%) (Table S2). Table S1 | OTUs obtained from 16S rRNA V4 iTag sequencing. Read
numbers, relative abundance and number of total and abundant dereplicated iTag
sequences are stated. Classification are based on RDP classifier. ACKNOWLEDGMENTS Table S2 | Read counts and relative abundance of the 23 most abundant
Roseiflexus-like oligotypes in undermat and upper layer as determined in
the combined amplicon dataset (>100 reads total). The authors would like to thank all of the JGI staffmembers
who contributed to obtaining the sequence data. The materials SUPPLEMENTARY MATERIAL The Supplementary Material for this article can be found
online
at:
http://journal.frontiersin.org/article/10.3389/fmicb. 2016.00919 Figure S1 | Phylogenetic tree based on 16S rRNA gene sequences
showing the phylogenetic relationship between sequences obtained from
the Mushroom Spring microbial undermat community and cultivated and
uncultivated relatives in the phyla Armatimonadetes OP10, Aminicenantes
OP8, Nitrospirae, Thermodesulfobacteria, Microgenomates OP11,
Aquificae, SM2F11 and Archaea (A), Planctomycetes, Verrucomicrobia,
Spirochaeta, Acidobacteria, Atribacteria OP9/JS1, Elusimicrobia and
Cyanobacteria (B), and Proteobacteria, Thermotogae/EM3 and Thermi (C). The trees were generated based on the Maximum Likelihood method using the
phyML software included in the ARB package. Percentage numbers on nodes
refer to 100 bootstrap pseudoreplicates conducted. Only values >50% are
shown. Bold sequences were obtained from Mushroom or Octopus Spring in this
or previous studies. Red bold labels indicate sequences obtained in this study. Blue bold labels indicate “OS type” sequences from previous studies. OTU
numbers shown refer to the most abundant OTU represented by the sequence. Only sequences with length >1,000 bp were used for phylogenetic calculations. Sequence length <1,000 bp are given in (gray) in the labels and corresponding
sequences were added using the Parsimony method without changing tree
topology. Figure S1 | Phylogenetic tree based on 16S rRNA gene sequences
showing the phylogenetic relationship between sequences obtained from
the Mushroom Spring microbial undermat community and cultivated and
uncultivated relatives in the phyla Armatimonadetes OP10, Aminicenantes
OP8, Nitrospirae, Thermodesulfobacteria, Microgenomates OP11,
Aquificae, SM2F11 and Archaea (A), Planctomycetes, Verrucomicrobia,
Spirochaeta, Acidobacteria, Atribacteria OP9/JS1, Elusimicrobia and
Cyanobacteria (B), and Proteobacteria, Thermotogae/EM3 and Thermi (C). REFERENCES Anderson, K. L., Tayne, T. A., and Ward, D. M. (1987). Formation and fate
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of microbial biodiversity within hot spring cyanobacterial mat communities. Microbiol. Mol. Biol. Rev. 62, 1353–1370. spirochete-like inhabitants of a hot spring microbial mat. Appl. Environ. Microbiol. 58, 3964–3969. spirochete-like inhabitants of a hot spring microbial mat. Appl. Environ. Microbiol. 58, 3964–3969. Wu, D., Raymond, J., Wu, M., Chatterji, S., Ren, Q., Graham, J. E.,
et al. (2009). Frontiers in Microbiology | www.frontiersin.org June 2016 | Volume 7 | Article 919 REFERENCES Complete genome sequence of the aerobic CO-oxidizing
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26164 Conflict of Interest Statement: The authors declare that the research was
conducted in the absence of any commercial or financial relationships that could
be construed as a potential conflict of interest. Ward, D. M. J., Shiea, J., Zeng, Y. B., Dobson, G., Brassell, S., and Eglinton, G. (1989). “Lipid biochemical markers and the composition of microbial mats,”
in Microbial Mats: Physiological Ecology of Benthic Microbial Communities,
eds Y. Cohen and E. Rosenburg (Washington, DC: American Society For
Microbiology), 439–454. Copyright © 2016 Thiel, Wood, Olsen, Tank, Klatt, Ward and Bryant. This is an
open-access article distributed under the terms of the Creative Commons Attribution
License (CC BY). The use, distribution or reproduction in other forums is permitted,
provided the original author(s) or licensor are credited and that the original
publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these
terms. Ward, D. M., Weller, R., and Bateson, M. M. (1990). 16S rRNA sequences reveal
numerous uncultured microorganisms in a natural community. Nature 346,
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D. M. (1992). Uncultivated cyanobacteria, Chloroflexus-like inhabitants, and June 2016 | Volume 7 | Article 919 Frontiers in Microbiology | www.frontiersin.org 25
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Utilization of Mineral Wools as Alkali-Activated Material Precursor
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Materials
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Received: 15 March 2016; Accepted: 20 April 2016; Published: 26 April 2016 Received: 15 March 2016; Accepted: 20 April 2016; Published: 26 April 2016 Abstract: Mineral wools are the most common insulation materials in buildings worldwide. However,
mineral wool waste is often considered unrecyclable because of its fibrous nature and low density. In this paper, rock wool (RW) and glass wool (GW) were studied as alkali-activated material
precursors without any additional co-binders. Both mineral wools were pulverized by a vibratory
disc mill in order to remove the fibrous nature of the material. The pulverized mineral wools were
then alkali-activated with a sodium aluminate solution. Compressive strengths of up to 30.0 MPa and
48.7 MPa were measured for RW and GW, respectively, with high flexural strengths measured for both
(20.1 MPa for RW and 13.2 MPa for GW). The resulting alkali-activated matrix was a composite-type
in which partly-dissolved fibers were dispersed. In addition to the amorphous material, sodium
aluminate silicate hydroxide hydrate and magnesium aluminum hydroxide carbonate phases were
identified in the alkali-activated RW samples. The only crystalline phase in the GW samples was
sodium aluminum silicate. The results of this study show that mineral wool is a very promising raw
material for alkali activation. Keywords: geopolymer; alkali activation; mineral wool; rock wool; glass wool; mmmf: man-made
mineral fibre materials materials materials Materials 2016, 9, 312; doi:10.3390/ma9050312 Utilization of Mineral Wools as Alkali-Activated
Material Precursor Juho Yliniemi *, Paivo Kinnunen, Pasi Karinkanta and Mirja Illikainen
Fiber and Particle Engineering Research Unit, University of Oulu, Oulu 90014, Finland;
paivo.kinnunen@oulu.fi(P.K.); pasi.karinkanta@oulu.fi(P.K.); mirja.illikainen@oulu.fi(M.I.)
* Correspondence: juho.yliniemi@oulu.fi; Tel.: +358-443120686 Academic Editor: Claudio Ferone 1. Introduction Alkali-activated materials (AAM), also called geopolymers or inorganic polymers, have received
a lot of attention lately because they have the potential to partly replace ordinary Portland cement
(OPC) as a construction material. Studies have shown that AAMs have mechanical properties as good
as, or even better than, OPC concrete [1]. In addition, other beneficial properties, such as fire resistance
and their typically light weight, make it possible to use them for such purposes as constructing panels
or making ceramics [2,3]. The increased interest in AAMs lies in the fact that they can be produced
from waste materials, such as fly ash, mine tailings, and slags. In 2012, OPC production was estimated
to account for 8% of global CO2 emissions [4], and government policies worldwide strongly encourage
reducing OPC use. This explains the recent interest in finding alternative construction materials
and binders. Proper thermal insulation is needed throughout the world, because it is the most effective way
to save energy used for heating and cooling buildings. Mineral wools—a general term for rock wool
and glass wool—are the most common insulation materials in the world. They are produced at high
temperatures by melting quartz sand, basalt, dolomite, and glass [5]. The molten mixture is fiberized
by a high-speed spinning process. A small quantity of organic resin, typically phenol-formaldehyde,
is used as an additive to bind the fibers together. As old buildings are torn down or renovated, a large
amount of construction and demolition waste is generated, including the waste from mineral wools. Globally, 2.3 million tons of mineral wool waste was generated in 2010, and the amount is expected Materials 2016, 9, 312; doi:10.3390/ma9050312 www.mdpi.com/journal/materials Materials 2016, 9, 312 2 of 12 to rise to 2.5 million tons by the year 2020 [6]. Unfortunately, mineral wool is often unrecyclable [6]. The problems in recycling arise from the fibrous nature and low density of the material. Despite many
attempts [7–17], the utilization of mineral wool waste in post-consumer production remains very low. Both glass wool and rock wool have high contents of Si and X-ray amorphous mineralogy and,
thus, have potential as AAM precursors. However, there has been to date only one preliminary study
of utilizing rock wool as raw material for alkali activation [18]. Alkali activation of glass wool has not
been previously studied. 1. Introduction Mineral wools also have very consistent chemical and physical compositions,
which make them even more attractive as raw materials for alkali activation. This study experimented with the utilization of rock wool and glass wool as alkali-activation
precursors. Both mineral wools were pulverized and activated with sodium aluminate. The effects
of heat curing and organic resin removal on the physical and mineralogical properties of the mineral
wools were analyzed. Note: n.d represents “not detectable”. Note: n.d represents “not detectable”. 2. Materials and Methods Two types of virgin mineral wool were purchased from a hardware store for this study: rock
wool (RW, Paroc, Paroc eXtra) and glass wool (GW, Saint Gobain, Isover KL37-100). The chemical
composition of both mineral wools was determined with 4 kV X-ray fluorescence (XRF, PANalytical
Omnian Axiosmax). For the XRF analyses, it was necessary to prepare melt-fused tablets from both
mineral wool samples. The melt-fused tablets were produced from 1.5 g of sample melted at 1150 ˝C
with 7.5 g of X-ray Flux Type 66:34 (66% Li2B4O7 and 34% LiBO2). The concentration of trace elements
was determined by microwave-assisted wet digestion using a 3:1 mixture of HNO3 and HCl for 0.5 g
of mineral wool and measured using an inductively coupled, plasma-optical emission spectrometer
(ICP-OES, Thermo Electron IRIS Intrepid II XDL Duo, Thermo Scientific). The moisture content and
loss-on-ignition at 350 and 525 ˝C were determined using thermo-gravimetric analysis equipment
(PrepAsh, Precisa). The RW consisted mainly of silicon, aluminum, calcium, magnesium, and iron. The GW contained
62.4 wt % of SiO2, but only 1.8 wt % of Al2O3 (Table 1). However, the Na2O content in the GW was
high (16.8 wt %) in contrast to that of the RW (1.4 wt %). Table 2 shows the chemical compositions
of the RW and GW determined using the ICP-OES method. The composition is in line with the XRF
results (Table 1). However, the content of boron in the GW was significant, and it is possible that this
was the result of the use of waste glass as a raw material in the GW manufacturing process. Table 1. The chemical composition, dry matter content, and loss-on-ignition of rock wool (RW) and
glass wool (GW), determined by XRF and TGA. Chemical Component
Rock Wool (RW)
Glass Wool (GW)
CaO
17.4
7.1
SiO2
40.4
62.4
Al2O3
15.8
1.8
Fe2O3
9.2
0.6
Na2O
1.4
16.8
K2O
0.4
0.9
MgO
12.6
2.2
P2O5
0.1
n.d
TiO2
0.8
n.d
SO3
n.d
0.9
Cl
n.d
0.1
Dry matter content (%)
100.0
100.0
Loss-on-ignition 350 ˝C (%)
1.8
5.0
Loss-on-ignition 525 ˝C (%)
2.4
5.1
Note: n.d represents “not detectable”. Table 1. The chemical composition, dry matter content, and loss-on-ignition of rock wool (RW) and
glass wool (GW), determined by XRF and TGA. 3 of 12 Materials 2016, 9, 312 Table 2. The chemical composition of rock wool (RW) and glass wool (GW), determined by ICP-OES. 2. Materials and Methods In total, there were 140 g of RW and 150 g
of GW in each sample. The mixture was vibrated in order to remove air bubbles and was then cast
into molds, which were then sealed into a plastic bag until testing (28 days). Three batches were
prepared from each type of mineral wool. Table 3 shows the molar ratios of the alkali-activated samples. The molar ratios were set as close
to 1:1:4:11 (Na2O:Al2O3:SiO2:H2O) [19] as possible. In order to obtain these ratios, both mineral wools
had to be alkali-activated with sodium aluminate solution because of their lack of aluminum
aluminate solution and mixing it in a mixer (ARE-250, Thinky Corporation) at 2000 rpm for 60 s. The
mineral wools were added in 15–40 g portions to 63 g of sodium aluminate solution and mixed after
each addition until the desired consistency was reached. In total, there were 140 g of RW and 150 g
of GW in each sample. The mixture was vibrated in order to remove air bubbles and was then cast
into molds, which were then sealed into a plastic bag until testing (28 days). Three batches were
prepared from each type of mineral wool. Table 3 shows the molar ratios of the alkali-activated samples. The molar ratios were set as close
to 1:1:4:11 (Na2O:Al2O3:SiO2:H2O) [19] as possible. In order to obtain these ratios, both mineral wools
The alkali-activated samples were prepared by adding the pulverized RW or GW to the sodium
aluminate solution and mixing it in a mixer (ARE-250, Thinky Corporation) at 2000 rpm for 60 s. The mineral wools were added in 15–40 g portions to 63 g of sodium aluminate solution and mixed
after each addition until the desired consistency was reached. In total, there were 140 g of RW and
150 g of GW in each sample. The mixture was vibrated in order to remove air bubbles and was then
cast into molds, which were then sealed into a plastic bag until testing (28 days). Three batches were
prepared from each type of mineral wool. had to be alkali activated with sodium aluminate solution because of their lack of aluminum. However, sodium aluminate is not stable in liquid form at certain sodium-aluminum ratios [20],
so optimal ratios were not achieved. In the GW samples in particular, the low quantity of aluminum
yielded seemingly high Na2O, SiO2, and H2O ratios. 2. Materials and Methods Chemical Component
Rock Wool (RW)
Glass Wool (GW)
Ca, ICP (g/kg)
125
20.1
Si, ICP partial solution (g/kg)
0.4
0.4
Al, ICP (g/kg)
85.6
0.3
Fe, ICP (g/kg)
61.3
0.9
Na, ICP (g/kg)
10.4
68.2
K, ICP (g/kg)
3.7
3.7
Mg, ICP (g/kg)
75.8
3.9
P, ICP (g/kg)
0.3
<0.020
Ti, ICP (g/kg)
3.5
<0.050
S, ICP (g/kg)
0.1
3.8
Ba, ICP (g/kg)
0.2
1.3
Mn, ICP (g/kg)
1
0.5
As, ICP (mg/kg)
<3
<3
Cd, ICP (mg/kg)
<0.3
<0.3
Cr, ICP (mg/kg)
280
2.3
Cu, ICP (mg/kg)
34
8.8
Hg, CVAAS (mg/kg)
<0.04
<0.04
Ni, ICP (mg/kg)
49
1.8
Pb, ICP (mg/kg)
<3
3.7
Zn, ICP (mg/kg)
47
430
B, ICP (mg/kg)
8.9
6260
Be, ICP (mg/kg)
<1
<1
Co, ICP (mg/kg)
21
2
Mo, ICP (mg/kg)
<1
<1
Sb, ICP (mg/kg)
<3
<3
Se, ICP (mg/kg)
<3
<3
Sn, ICP (mg/kg)
<3
<3
V, ICP (mg/kg)
170
<2
Note: CVAAS represents “cold-vapor atomic absorption spectrometry”. Table 2. The chemical composition of rock wool (RW) and glass wool (GW), determined by ICP-OES. The GW and RW samples were pulverized with RS200 vibratory disc mill (Retsch). Pulverizing
was accomplished by milling mineral wool in 10 g patches for 30 s at a milling speed of 1500 min´1. This procedure was repeated several times to obtain a sufficient amount of pulverized mineral wool
for further experiments and analyses. The particle size distributions of the pulverized mineral wools were measured with a LS
13320 (Beckman Coulter), using the universal liquid module and applying the Fraunhofer model
in calculations. Prior to the particle size measurements, the pulverized mineral wool was diluted
with distilled water by using sodium pyrophosphate as a dispersing agent. The diluted sample was
held in an ultrasonic bath for three minutes to ensure comprehensive dispersion before measurements
were taken. The appearances of the RW and GW before and after grinding are shown in Figure 1. Figure 2
presents the differential particle size distribution of the RW and GW after pulverization. The grinding
was a very efficient means of pulverization, as the median size of both pulverized wools was
approximately 7 microns, and 90% particles by volume (d90) was less than 34 microns in both cases
(Figure 2). Although the pulverized wools had similar median particle sizes, there were slight
differences between the differential particle size distributions (Figure 2). 4 of 12 Materials 2016, 9, 312 Figure 1. 2. Materials and Methods Photograph and FESEM images of (a) rock wool (RW); and (b) glass wool (GW) before and
after grinding. Figure 1. Photograph and FESEM images of (a) rock wool (RW); and (b) glass wool (GW) before and
after grinding. Materials 2016, 9, 312
4 of 12
Figure 1. Photograph and FESEM images of (a) rock wool (RW); and (b) glass wool (GW) before and
after grinding. Figure 1. Photograph and FESEM images of (a) rock wool (RW); and (b) glass wool (GW) before and
after grinding. Figure 1. Photograph and FESEM images of (a) rock wool (RW); and (b) glass wool (GW) before and
after grinding. Figure 1. Photograph and FESEM images of (a) rock wool (RW); and (b) glass wool (GW) before and
after grinding. Figure 2. Particle size distributions of pulverized rock wool (RW) and glass wool (GW). The sodium aluminate solution was prepared by mixing sodium aluminate (Sigma-Ald
Figure 2. Particle size distributions of pulverized rock wool (RW) and glass wool (GW). Figure 2. Particle size distributions of pulverized rock wool (RW) and glass wool (GW). g
p
(
)
g
(
)
The sodium aluminate solution was prepared by mixing sodium aluminate (Sigma-Ald
Figure 2. Particle size distributions of pulverized rock wool (RW) and glass wool (GW). Figure 2. Particle size distributions of pulverized rock wool (RW) and glass wool (GW). 13404), sodium hydroxide (VWR Merck, 1.06498.1000) and deionized water, using weight ratios of
14.3 wt %, 22.2 wt %, and 63.5 wt %, respectively. The alkali-activated samples were prepared by adding the pulverized RW or GW to the sodium
aluminate solution and mixing it in a mixer (ARE-250, Thinky Corporation) at 2000 rpm for 60 s. The
The sodium aluminate solution was prepared by mixing sodium aluminate (Sigma-Aldrich,
13404), sodium hydroxide (VWR Merck, 1.06498.1000) and deionized water, using weight ratios of
14.3 wt %, 22.2 wt %, and 63.5 wt %, respectively. The alkali-activated samples were prepared by adding the pulverized RW or GW to the sodium
The sodium aluminate solution was prepared by mixing sodium aluminate (Sigma-Aldrich,
13404), sodium hydroxide (VWR Merck, 1.06498.1000) and deionized water, using weight ratios of
14.3 wt %, 22.2 wt %, and 63.5 wt %, respectively. g
(
y
p
)
p
mineral wools were added in 15–40 g portions to 63 g of sodium aluminate solution and mixed after
each addition until the desired consistency was reached. 2. Materials and Methods Another thing to keep in mind is that a sodium
aluminate solution can contain both 4-coordinated and 6-coordinated aluminum species depending
on the [OH]/[Al] ratio [21], which can have an effect on the formation of aluminosilicate phases. In the molar ratio calculations, it was assumed that all elements dissolve from the mineral wools in
the same proportions. Table 3 shows the molar ratios of CaO and MgO, because it is known that
calcium and magnesium can participate in alkali activation [22–24]. (
)
p
had to be alkali-activated with sodium aluminate solution because of their lack of aluminum. However, sodium aluminate is not stable in liquid form at certain sodium-aluminum ratios [20],
so optimal ratios were not achieved. In the GW samples in particular, the low quantity of aluminum
yielded seemingly high Na2O, SiO2, and H2O ratios. Another thing to keep in mind is that a sodium
aluminate solution can contain both 4-coordinated and 6-coordinated aluminum species depending
on the [OH]/[Al] ratio [21], which can have an effect on the formation of aluminosilicate phases. In the molar ratio calculations, it was assumed that all elements dissolve from the mineral wools in
the same proportions. Table 3 shows the molar ratios of CaO and MgO, because it is known that
calcium and magnesium can participate in alkali activation [22–24]. Table 3 shows the molar ratios of the alkali-activated samples. The molar ratios were set as close
to 1:1:4:11 (Na2O:Al2O3:SiO2:H2O) [19] as possible. In order to obtain these ratios, both mineral wools
had to be alkali-activated with sodium aluminate solution because of their lack of aluminum. However,
sodium aluminate is not stable in liquid form at certain sodium-aluminum ratios [20], so optimal ratios
were not achieved. In the GW samples in particular, the low quantity of aluminum yielded seemingly
high Na2O, SiO2, and H2O ratios. Another thing to keep in mind is that a sodium aluminate solution
can contain both 4-coordinated and 6-coordinated aluminum species depending on the [OH]/[Al]
ratio [21], which can have an effect on the formation of aluminosilicate phases. In the molar ratio
calculations, it was assumed that all elements dissolve from the mineral wools in the same proportions. Table 3 shows the molar ratios of CaO and MgO, because it is known that calcium and magnesium can
participate in alkali activation [22–24]. 5 of 12 Materials 2016, 9, 312 Table 3. 2. Materials and Methods The sample name, binder molar ratio composition, and curing temperature and time. Sample Name
RW1
GW1
RW2
GW2
RW3
GW3
Mineral wool type
Pulverized
rock wool
Pulverized
glass wool
Pulverized
rock wool
Pulverized
glass wool
Pulverized and
resin removed
rock wool
Pulverized and
resin removed
glass wool
Na2O (mol)
0.7
7.6
0.7
7.6
0.7
7.5
Al2O3 (mol)
1.0
1.0
1.0
1.0
1.0
1.0
SiO2 (mol)
3.6
20.5
3.6
21.2
3.6
21.1
H2O (mol)
8.4
29.5
8.4
30.3
8.5
30.4
CaO (mol)
1.7
2.5
1.7
2.6
1.7
2.6
MgO (mol)
1.7
1.1
1.7
1.1
1.7
1.1
Curing (temp. and time)
28 days in
22 ˝C
28 days in
22 ˝C
4 days in 50 ˝C
and then
24 days in 22 ˝C
4 days in 50 ˝C
and then
24 days in 22 ˝C
4 days in 50 ˝C
and then
24 days in 22 ˝C
4 days in 50 ˝C
and then
24 days in 22 ˝C Table 3. The sample name, binder molar ratio composition, and curing temperature and time. After a total 28 days of curing, the Z100 testing machine (Zwick Roell) and TestXpert II software
(Zwick Roell) were used to determine the unconfined compressive strength. Compressive force was
increased at 2.4 kN/s until failure, and the maximum force was used to calculate the compressive
strength. Flexural strength was measured with the Instron 5544 (Instron) (2 kN max force). A Siemens 5000 X-ray diffractometer (Siemens) with CuKaα radiation (40 mA and 40 kV) and a
graphite monochromator were used to identify the main crystalline phases of the pulverized mineral
wools and prepared samples. The step interval, integration time, and angle interval used were
0.04˝/step, 2.5 s/step, and 10˝–60˝ 2θ, respectively. The International Center for Diffraction Data
(ICDD) database was used for the identification of crystalline phases [25]. A Zeiss Ultra Plus field emission scanning electron microscope (FESEM, Zeiss) was used
to analyze the original and pulverized mineral wools and the fracture surface of the prepared
samples. The samples were attached to a sample holder on a carbon tape and coated with carbon. The acceleration voltage was 5 kV. 3.1. Physical Properties of the Alkali-Activated Mineral Wools The bars show the average
of at least three samples measured and the error represent the confidence interval for means at 95% Figure 3. The compressive and flexural strength of each prepared sample. The bars show the average
of at least three samples measured and the error represent the confidence interval for means at 95%
confidence level. Figure 3. The compressive and flexural strength of each prepared sample. The bars show the average
of at least three samples measured and the error represent the confidence interval for means at 95%
confidence level. Figure 3. The compressive and flexural strength of each prepared sample. The bars show the average
of at least three samples measured and the error represent the confidence interval for means at 95% whereas the GW samples stayed in more or less one piece and were merely compressed (Figure 4). Especially peculiar behavior was observed for GW3, which was compressed by a mechanism called
strain hardening (see Appendix Figure A1). In strain hardening, the material requires an ever-
increasing amount of stress to continue straining [26]. The GW1 sample cured at room temperature
was a bit moist even after 28 days, but all other GW and RW samples were dry. There was no sign of
the formation of salts (i.e., efflorescence) on the surface of the samples during the first four months of
hardening. It was observed that the RW samples broke into several pieces in the compressive strength
tests, whereas the GW samples stayed in more or less one piece and were merely compressed
(Figure 4). Especially peculiar behavior was observed for GW3, which was compressed by a mechanism
called strain hardening (see Appendix Figure A1). In strain hardening, the material requires an
ever-increasing amount of stress to continue straining [26]. The GW1 sample cured at room temperature
was a bit moist even after 28 days, but all other GW and RW samples were dry. There was no sign of
the formation of salts (i.e., efflorescence) on the surface of the samples during the first four months
of hardening. confidence level. It was observed that the RW samples broke into several pieces in the compressive strength tests,
whereas the GW samples stayed in more or less one piece and were merely compressed (Figure 4). Especially peculiar behavior was observed for GW3, which was compressed by a mechanism called
strain hardening (see Appendix Figure A1). 3.1. Physical Properties of the Alkali-Activated Mineral Wools The alkali-activated RW samples had an apparent density of approximately 2000 kg/m3,
regardless of the curing conditions or resin removal (Table 4). The apparent density of samples
GW1 and GW2 was roughly 1800 kg/m3, but the sample with organic resin removed had a density of
2037 kg/m3. Table 4. The apparent density of each prepared sample. Table 4. The apparent density of each prepared sample. Sample Code
Density (kg/m3)
RW1
2093
GW1
1779
RW2
2003
GW2
1802
RW3
1956
GW3
2037 The compressive and flexural strengths of the alkali-activated samples are presented in Figure 3. The stressing curves of each measurement are presented in the Appendix (Figure A1). The RW samples
gained high compressive strength (~28 MPa), regardless of the curing temperature or presence of
the resin. All samples, except GW1, had a very high flexural strength. The highest flexural strength
(20.1 MPa) was in the heat-treated sample in which resin remained (RW2). The compressive and The compressive and flexural strengths of the alkali-activated samples are presented in Figure 3. The stressing curves of each measurement are presented in the Appendix (Figure A1). The RW samples
gained high compressive strength (~28 MPa), regardless of the curing temperature or presence of
the resin. All samples, except GW1, had a very high flexural strength. The highest flexural strength
(20.1 MPa) was in the heat-treated sample in which resin remained (RW2). The compressive and 6 of 12 Materials 2016, 9, 312 flexural strengths of the GW samples were low without the heat treatment (GW1). GW2 gained the
highest compressive strength (48.7 MPa) of all of the prepared samples. Materials 2016, 9, 312
6 of 12 flexural strengths of the GW samples were low without the heat treatment (GW1). GW2 gained the
highest compressive strength (48.7 MPa) of all of the prepared samples. Materials 2016, 9, 312
6 of 12 Figure 3. The compressive and flexural strength of each prepared sample. The bars show the average
of at least three samples measured and the error represent the confidence interval for means at 95%
confidence level. Figure 3. The compressive and flexural strength of each prepared sample. The bars show the average
of at least three samples measured and the error represent the confidence interval for means at 95%
confidence level. Materials 2016, 9, 312
6 of 12
Figure 3. The compressive and flexural strength of each prepared sample. 3.1. Physical Properties of the Alkali-Activated Mineral Wools In strain hardening, the material requires an ever-
increasing amount of stress to continue straining [26]. The GW1 sample cured at room temperature
was a bit moist even after 28 days, but all other GW and RW samples were dry. There was no sign of
the formation of salts (i.e., efflorescence) on the surface of the samples during the first four months of
hardening. Figure 4. The deformation type of the alkali activated rock wool (RW) and glass wool (GW) samples. 3.2. FESEM Analysis
Figure 5 presents the typical look of the fracture surfaces of the alkali-activated rock wool (RW)
Figure 4. The deformation type of the alkali activated rock wool (RW) and glass wool (GW) samples. Figure 4. The deformation type of the alkali activated rock wool (RW) and glass wool (GW) samples. 3. . ESEM Analysis
Figure 5 presents the typical look of the fracture surfaces of the alkali-activated rock wool (RW)
Figure 4. The deformation type of the alkali activated rock wool (RW) and glass wool (GW) samples. Figure 4. The deformation type of the alkali activated rock wool (RW) and glass wool (GW) samples. 3.3. XRD Analysis
3.3. XRD Analysis
the right sid Both mineral wools were completely X-ray amorphous (Figure 6). The amorphous hump was
observed between 20° and 38° 2θ for RW, whereas it was wider for GW, starting from 14° and ending
around 40° 2θ. The shift of the amorphous hump is considered to be an indicator of newly-formed
nanocrystalline zeolites [27]. It can be observed that the shift of the amorphous hump is more notable
for GW. This is mainly because the center of the hump in GW is around 25° 2θ before the alkali
activation and 30° 2θ after the activation. For RW, the center of the hump is around 30° 2θ before
alkali activation; thus, the shift is not as clearly observable. Both mineral wools were completely X-ray amorphous (Figure 6). The amorphous hump was
observed between 20˝ and 38˝ 2θ for RW, whereas it was wider for GW, starting from 14˝ and ending
around 40˝ 2θ. The shift of the amorphous hump is considered to be an indicator of newly-formed
nanocrystalline zeolites [27]. It can be observed that the shift of the amorphous hump is more notable
for GW. This is mainly because the center of the hump in GW is around 25˝ 2θ before the alkali
activation and 30˝ 2θ after the activation. For RW, the center of the hump is around 30˝ 2θ before alkali
activation; thus, the shift is not as clearly observable. 3.3. XRD Analysis
Both mineral wools were completely X-ray amorphous (Figure 6). The amorphous hump was
observed between 20° and 38° 2θ for RW, whereas it was wider for GW, starting from 14° and ending
around 40° 2θ. The shift of the amorphous hump is considered to be an indicator of newly-formed
nanocrystalline zeolites [27]. It can be observed that the shift of the amorphous hump is more notable
for GW. This is mainly because the center of the hump in GW is around 25° 2θ before the alkali
activation and 30° 2θ after the activation. For RW, the center of the hump is around 30° 2θ before
alkali activation; thus, the shift is not as clearly observable. Figure 6. X-ray diffractograms of the (a) rock wool (RW); (b) glass wool (GW), and the alkali-activated
Figure 6. X-ray diffractograms of the (a) rock wool (RW); (b) glass wool (GW), and the alkali-activated
samples. Figure 6. and glass wool (GW
fibers is shown. Th
3.2. FESEM Analys
Figure 5 prese
3.2. FESEM Analysis than the heat-cured samples. The pieces of pulverized mineral wools can be observed to be bound
together by the matrix. g
p
yp
(
)
and glass wool (GW) samples. On the right side of the images, a magnification of the partly-dissolved
fibers is shown. The samples cured at room temperature had a significantly more porous structure
than the heat-cured samples. The pieces of pulverized mineral wools can be observed to be bound
together by the matrix. Figure 5 presents the typical look of the fracture surfaces of the alkali-activated rock wool (RW)
and glass wool (GW) samples. On the right side of the images, a magnification of the partly-dissolved
fibers is shown. The samples cured at room temperature had a significantly more porous structure
than the heat-cured samples. The pieces of pulverized mineral wools can be observed to be bound
together by the matrix. 7 of 12 7 of 12 Materials 2016, 9, 312 Figure 5. Secondary electron image of the fracture surface of (a) the rock wool (RW); and (b) glass
wool (GW) geopolymer samples. On the left side of the images is a general look of the surface and on
the right side of the images is a more detailed image showing the composite-type structure. Figure 5. Secondary electron image of the fracture surface of (a) the rock wool (RW); and (b) glass wool
(GW) geopolymer samples. On the left side of the images is a general look of the surface and on the
right side of the images is a more detailed image showing the composite-type structure. Materials 2016, 9, 312
7 of 12
Figure 5. Secondary electron image of the fracture surface of (a) the rock wool (RW); and (b) glass
wool (GW) geopolymer samples. On the left side of the images is a general look of the surface and on
the right side of the images is a more detailed image showing the composite type structure Materials 2016, 9, 312 Materials 20 Figure 5. Secondary electron image of the fracture surface of (a) the rock wool (RW); and (b) glass
wool (GW) geopolymer samples. On the left side of the images is a general look of the surface and on
the right side of the images is a more detailed image showing the composite-type structure. Figure 5. and glass wool (GW
fibers is shown. Th
3.2. FESEM Analys
Figure 5 prese
3.2. FESEM Analysis Secondary electron image of the fracture surface of (a) the rock wool (RW); and (b) glass wool
(GW) geopolymer samples. On the left side of the images is a general look of the surface and on the
right side of the images is a more detailed image showing the composite-type structure. Figure 5. Secondary electron image of the fracture surface of (a) the rock wool (RW); and (b) glass
wool (GW) geopolymer samples. On the left side of the images is a general look of the surface and on
h
h
d
f h
d
l d
h
h 4. Discussion The relationship between the molar ratios and physical properties of AAMs is often discussed. According to a study by Duxson et al. [19], the molar ratio of Si/Al should be around two and that of
Na/Al should be one in order to complete the charge balancing of the negatively-charged tetrahedral
aluminum centers. The amount of water should be as low as possible, because water is not usually
considered to be part of the structure but acts merely as a medium in which the reactions occur and
serves to maintain workability. However, recent studies [29–31] have shown that C-(N)-A-S-H gels can
have bound water in the structure. Regardless of the far-from-optimum molar ratios for GW, GW2 gained the highest compressive
strength of all of the samples. Theoretically, Si-O-Si are stronger bonds than Si-O-Al or Al-O-Al
bonds [32], and the very high Si/Al ratio of GW2 could explain its high compressive strength. However,
boron, which was present in GW, has also been noticed to increase the strength of the AAMs [33,34]. One possibility is that silicon and aluminum do not dissolve at the same proportions, as they are
present in the mineral wools and, thus, the calculated molar ratios would not represent the real
molar ratios of the binder system. This note is supported by the aforementioned fact that Si-O-Si are
stronger bonds than Si-O-Al or Al-O-Al bonds, which would result in aluminum dissolving in higher
proportions than silicon. One other difficulty in explaining the compressive strength differences using molar ratios arises
from the XRD analysis, because this analysis shows only the crystalline phases, which may not be the
main strength-increasing aluminosilicate structure. Instead, the newest phases are X-ray amorphous,
and, thus, the chemical composition of the new nanocrystalline phases remains undetermined. The main difference between the RW and GW, in addition to the aluminum content, was the high
content of Ca and Mg in the RW. Both have been shown to be reactive in alkali activation [22–24],
but only the formation of a new Mg phase was identified in the RW samples. The formation of a
hydrotalcite-type magnesium phase shows that Mg from RW reacts with CO2, thus acting as a CO2
sorbent in the formation of these binders. A similar hydrotalcite-type phase has been observed in the
alkali activation of blast furnace slag (BFS) [23]. 3.3. XRD Analysis
3.3. XRD Analysis
the right sid X-ray diffractograms of the (a) rock wool (RW); (b) glass wool (GW), and the
alkali-activated samples. Fi
X
diff
f h ( )
k
l (RW) (b)
l
l (GW)
d h
lk li
i
d
Figure 6. X-ray diffractograms of the (a) rock wool (RW); (b) glass wool (GW), and the alkali-activated
samples. Figure 6. X-ray diffractograms of the (a) rock wool (RW); (b) glass wool (GW), and the
alkali-activated samples. Materials 2016, 9, 312 8 of 12 In alkali-activated RW samples (RW1-3), sodium aluminate silicate hydroxide hydrate
(00-041-0009) and magnesium aluminum hydroxide carbonate (01-070-2151) phases were found,
in addition to the amorphous phase. A similar sodium aluminum silicate hydrate (NASH) phase was
found in a previous study of RW alkali activation by sodium aluminate solution [18]. Additionally,
Van Riessen et al. [28] found a NASH phase when coal fly ash was activated with a sodium aluminate
solution. A sodium aluminate silicate (00-042-0217) phase was identified in GW1-3. A remark about
the identification of these phases should be made. The identification was not absolute, because there
were other similar aluminosilicate phases that had signals at the same 2θ positions. Also, the relatively
wide signals indicate the presence of other similar type of phases than identified. However, the phase
signals that fitted the best to the X-ray diffractograms were chosen and are presented here. 4. Discussion In CaO-rich systems, the strongly alkaline activating
solution can favor the pozzolanic reaction between CaO and SiO2, producing calcium silicate hydrate
(CSH). If present, this phase can give broad peaks at about 30˝ and 50˝ 2θ. The former is clearly visible
in the XRD traces (Figure 6) of the RW1, RW2, and RW3 samples and barely visible in those of the
GW2 and GW3 samples (the CaO content of GW is lower than that of RW, but not negligible). It has been shown that in low-Ca binder systems, heat treatment accelerates the hardening and
increases early mechanical strength [35–37]. However, for high-Ca systems, heat curing has been
observed to negatively affect the mechanical strength [38,39]. The severe drying shrinkage of the
specimens with high-Ca type gels may be one reason for the lower strength. The phenomenon has been
also explained by the fast calcium reactions, which are then accelerated by the elevated temperature,
thus inhibiting further reactions (formation of secondary phases). However, for low-Ca binder systems,
the binding of water into NASH gel is slow and/or weak; thus, heat curing speeds up the reaction (but
only if the samples are sealed, as this prevents the evaporation of water). This could partly explain the Materials 2016, 9, 312 9 of 12 high increase in compressive strength of the heat-cured GW samples and the negligible increase in
strength with heat-cured RW samples. The studies that have considered binder structure with a high or low calcium content have mostly
used a (sodium) hydroxide or (sodium) silicate activator [22,40], and there are only a few studies in
which sodium aluminate is the activator of choice [21,28,41,42]. Additionally, the high-Ca studies
have been mostly conducted with BFS as a precursor, so the observations found in the literature may
not be directly applicable with our binder system. However, both the BFS and mineral wools are
manufactured in high temperatures and from similar precursors, so it might be appropriate to consider
them as similar types of AAM precursors. yp
p
The presence of organic resin in the mineral wools had a positive effect on the strengths; thus,
it is not necessary to remove it prior to the alkali activation. The reason for this is either that the
organic resin physically strengthens the aluminosilicate matrix or that it reacts chemically with the
other binder components. 4. Discussion During the preparation of the samples, it was observed that the samples
in which the organic resin was present had a very strong smell, but samples RW3 and GW3 were
odorless. This indicated the success of organic resin removal in samples RW3 and GW3, but also
signaled possible reactions with Na-Alu and organic resin in samples RW1, RW2, GW1, and GW2. The effect of the organic resin on these binder systems will be studied further The high flexural strength of the samples can be explained by their composite-type matrix,
as shown in Figure 5. However, as the fibers are dissolved and chemically bound to the matrix,
the long-term mechanical performance must be carefully determined, because if the mineral wool
fibers will eventually dissolve fully, the matrix will consist only of aluminosilicate gel. The dissolution
of mineral wool fibers could yield a better or worse mechanical strength depending on whether the
formatting aluminosilicate structure is stronger or weaker than the fibers. Conflicts of Interest: The authors declare no conflict of interest. 5. Conclusions Each of the graphs show results of three or four different samples, which are indicated
by different color. Figure A1. Stressing curves of studied mineral wool-based geopolymers under bending and
compression. Each of the graphs show results of three or four different samples, which are indicated by
different color Figure A1. Stressing curves of studied mineral wool-based geopolymers under bending and
compression. Each of the graphs show results of three or four different samples, which are indicated
by different color. Figure A1. Stressing curves of studied mineral wool-based geopolymers under bending and
compression. Each of the graphs show results of three or four different samples, which are indicated by
different color. 5. Conclusions This study shows that mineral wools have great potential as precursors to alkali activation,
because they have suitable chemical and mineralogical compositions. Heat curing and the presence
of organic resin increased the mechanical properties. Maximum compressive strengths of 48.7 and
30.0 MPa were measured for GW and RW, respectively. The binder matrix consisted of aluminosilicate
gel with partly-dissolved mineral wool fibers. The maximum flexural strength was 13.2 MPa for GW
and 20.1 MPa for RW. The sodium aluminate silicate phase was the only crystalline phase in the GW
samples. In RW samples, sodium aluminate silicate hydroxide hydrate and magnesium aluminum
hydroxide carbonate were identified, in addition to the X-ray amorphous material. The apparent
density of all the samples varied between 1750 and 2100 kg/m3. The results of this study show that
high-strength AAMs can be obtained without any additional co-binders by alkali activating them with
sodium aluminate solution. Acknowledgments: The authors would like to thank the Ekokem Environmental Stipend Fund for its financial
support. Kalle Hyypiö, is acknowledged for his completion of a part of the experimental work as a part of his
bachelor’s thesis. Jarno Karvonen, Elisa Wirkkala and Jani Österlund are acknowledged for their contributions to
the laboratory analyses. The personnel of the Center of Microscopy and Nanotechnology are acknowledged for
their contributions to the FESEM and XRD analyses. Special thanks to Arie van Riessen for the valuable advice for
the experiments. Author Contributions: Juho Yliniemi, Paivo Kinnunen, Pasi Karinkanta and Mirja Illikainen conceived and
designed the experiments; Juho Yliniemi and Pasi Karinkanta performed the experiments; Juho Yliniemi,
Paivo Kinnunen and Pasi Karinkanta analyzed the data; Juho Yliniemi, Paivo Kinnunen, Pasi Karinkanta and
Mirja Illikainen wrote the paper. Conflicts of Interest: The authors declare no conflict of interest. 10 of 12 Materials 2016, 9, 312 Appendix
Materials 2016, 9, 312
10 of 12
Appendix Appendix
Materials Appendix Appendix
Figure A1. Stressing curves of studied mineral wool-based geopolymers under bending and
compression. Each of the graphs show results of three or four different samples, which are indicated
by different color. Figure A1. Stressing curves of studied mineral wool-based geopolymers under bending and
compression. Each of the graphs show results of three or four different samples, which are indicated by
different color. Figure A1. Stressing curves of studied mineral wool-based geopolymers under bending and
compression. cement based concrete binders. In Handbook of Alkali Activated Cement, Mortars and Concretes; Woodhead
Publishing Series in Civil and Structural Engineering: Cambridge, UK, 2015; Volume 2015, pp. 423–461.
3.
Pacheco-Torgal, F.; Labrincha, J.A.; Leonelli, C.; Chindaprasirt, P. The fire resistance of alkali-activated
cement-based concrete binders. In Handbook of Alkali-Activated Cement, Mortars and Concretes; Woodhead
Publishing Series in Civil and Structural Engineering: Cambridge, UK, 2015; Volume 2015, pp. 423–461. development of “green concrete”. Cem. Concr. Res. 2007, 37, 1590–1597.
2.
Bell, J.L.; Driemeyer, P.E.; Kriven, W.M. Formation of Ceramics from Metakaolin-Based Geopolymers. Part
II: K-Based Geopolymer. J. Am. Ceram. Soc. 2009, 92, 607–615.
3.
Pacheco-Torgal, F.; Labrincha, J.A.; Leonelli, C.; Chindaprasirt, P. The fire resistance of alkali-activated
b
d
bi d
I
H
db
k f Alk li A i
d C
M
d C
W
dh
d
1.
Duxson, P.; Provis, J.L.; Lukey, G.C.; van Deventer, J.S.J. The role of inorganic polymer technology in the
development of “green concrete”. Cem. Concr. Res. 2007, 37, 1590–1597. [CrossRef]
2.
Bell, J.L.; Driemeyer, P.E.; Kriven, W.M. Formation of Ceramics from Metakaolin-Based Geopolymers. Part II:
K-Based Geopolymer. J. Am. Ceram. Soc. 2009, 92, 607–615. [CrossRef] II: K-Based Geopolymer. J. Am. Ceram. Soc. 2009, 92, 607–615.
3.
Pacheco-Torgal, F.; Labrincha, J.A.; Leonelli, C.; Chindaprasirt, P. The fire resistance of alkali-activat
cement-based concrete binders In Handbook of Alkali-Activated Cement Mortars and Concretes; Woodhe
p
g
2.
Bell, J.L.; Driemeyer, P.E.; Kriven, W.M. Formation of Ceramics from Metakaolin-Based Geopolymers
K-Based Geopolymer. J. Am. Ceram. Soc. 2009, 92, 607–615. [CrossRef] ,
;
, J
;
y,
;
, J
J
g
p
y
gy
development of “green concrete”. Cem. Concr. Res. 2007, 37, 1590–1597.
2.
Bell, J.L.; Driemeyer, P.E.; Kriven, W.M. Formation of Ceramics from Metakaolin-Based Geopolymers. Part
II: K-Based Geopolymer. J. Am. Ceram. Soc. 2009, 92, 607–615.
3.
Pacheco-Torgal, F.; Labrincha, J.A.; Leonelli, C.; Chindaprasirt, P. The fire resistance of alkali-activated
cement-based concrete binders. In Handbook of Alkali-Activated Cement, Mortars and Concretes; Woodhead
Publishing Series in Civil and Structural Engineering: Cambridge, UK, 2015; Volume 2015, pp. 423–461.
1.
Duxson, P.; Provis, J.L.; Lukey, G.C.; van Deventer, J.S.J. The role of inorganic polymer technology in the
development of “green concrete”. Cem. Concr. Res. 2007, 37, 1590–1597. [CrossRef]
2.
Bell, J.L.; Driemeyer, P.E.; Kriven, W.M. Formation of Ceramics from Metakaolin-Based Geopolymers. Part II:
K-Based Geopolymer. J. Am. Ceram. Soc. 2009, 92, 607–615. [CrossRef]
3.
Pacheco-Torgal, F.; Labrincha, J.A.; Leonelli, C.; Chindaprasirt, P. The fire resistance of alkali-activated
cement-based concrete binders. In Handbook of Alkali-Activated Cement, Mortars and Concretes; Woodhead
Publishing Series in Civil and Structural Engineering: Cambridge, UK, 2015; Volume 2015, pp. 423–461. development of “green concrete”. Cem. Concr. Res. 2007, 37, 1590–1597.
2.
Bell, J.L.; Driemeyer, P.E.; Kriven, W.M. Formation of Ceramics from Metakaolin-Based Geopolymers. P
II K B
d G
l
J A
C
S
2009 92 607 615
1.
Duxson, P.; Provis, J.L.; Lukey, G.C.; van Deventer, J.S.J. The role of inorganic polymer technolog
development of “green concrete”. Cem. Concr. Res. 2007, 37, 1590–1597. [CrossRef] 1.
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of Cement in Cement-Based Composites. Adv. Sci. Lett. 2012, 8, 489–494. [CrossRef] 14. Long, W. Mineral Fiber-Containing Paper for the Production of Gypsum Wallboard and Wallboard Product
Prepared Therewith. Patent CA1192709A1, 3 September 1984. 15. Pranckeviˇcien˙e, J. Impact of Mineral Wool Production Waste on Properties of Sintered Ceramics. Ph.D. Thesis,
Vilnius Gediminas Technical University, Vilna, Lithuania, 11 November 2011. 16. Talling, B.L.O.; Sarudis, M. Raw Material Briquette for Mineral Wool Production and Process for Its
Preparation and Its Use. Patent US5472917, 5 December 1995. 17. Wei-Ting Lin, A.C. Rock wool wastes as a supplementary cementitious material replacement in cement-based
composites. Comput. Concr. 2013, 11. [CrossRef] 18. Kinnunen, P.; Yliniemi, J.; Talling, B.L.O.; Illikainen, M. Rockwool waste in fly ash geopolymer composites. Mater. Cycles Waste Manag. 2015. under review. 19. Duxson, P.; Provis, J.L.; Lukey, G.C.; Mallicoat, S.W.; Kriven, W.M.; van Deventer, J.S.J. Understanding the
relationship between geopolymer composition, microstructure and mechanical properties. Colloids Surf. Physicochem. Eng. Asp. 2005, 269, 47–58. [CrossRef] 20. Nugteren, H.W. Secondary Industrial Minerals from Coal Fly Ash and Aluminum Anodising Waste Solutions. Ph.D. Thesis, Technical University of Delft, Delft, The Netherlands, 10 January 2010. 21. Phair, J.W.; van Deventer, J.S.J. Characterization of Fly-Ash-Based Geopolymeric Binders Activated with
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article distributed under the terms and conditions of the Creative Commons Attribution
(CC-BY) license (http://creativecommons.org/licenses/by/4.0/).
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Like ships passing in the night? Nonstandard work schedules and spousal satisfaction in Finland, the Netherlands and the United Kingdom
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Journal of family research
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Year: 2020 Rights url: https://creativecommons.org/licenses/by/4.0/ This is a self-archived version of an original article. This version
may differ from the original in pagination and typographic details. Author(s): Malinen, Kaisa; Rönkä, Anna; Sevón, Eija Author(s): Malinen, Kaisa; Rönkä, Anna; Sevón, Eija Title: Like ships passing in the night? Nonstandard work schedules and spousal satisfaction in
Finland, the Netherlands and the United Kingdom Title: Like ships passing in the night? Nonstandard work schedules and spousal satisfaction in
Finland, the Netherlands and the United Kingdom This is a self-archived version of an original article. This version
may differ from the original in pagination and typographic details. Please cite the original version: Malinen, K., Rönkä, A., & Sevón, E. (2020). Like ships passing in the night? Nonstandard work
schedules and spousal satisfaction in Finland, the Netherlands and the United Kingdom. Journal
of Family Research, 32(2), 192-213. https://doi.org/10.20377/jfr-359 Like ships passing in the night? Nonstandard
work schedules and spousal satisfaction in
Finland, the Netherlands and the United
Kingdom Kaisa Malinen1, Anna Rönkä2, and Eija Sevón2 1 JAMK University of Applied Scienes, Jyväskylä. 2 University of Jyväskylä, Jyväskylä 1 JAMK University of Applied Scienes, Jyväskylä. 2 University of Jyväskylä, Jyväskylä Address correspondence to: Kaisa Malinen, School of Health and Social Studies, JAMK
University of Applied Sciences, Piippukatu 2, FI-40100 Jyväskylä (Finland). Email: kai-
sa.malinen@jamk.fi JFR – Journal of Family Research, 2020, Early View, 1–22
doi: 10.20377/jfr-359 1.
Introduction Working spouses spend a considerable proportion of their time at work. One of the as-
pects of work affecting the lives of spouses is the scheduling of work, that is, when the
work is done. This frames family timetables, rhythms and experiences (see e.g., Presser
2003; Wright, Raley & Bianchi 2008). When working outside so-called office hours, em-
ployees may find themselves in a situation where their schedules are often out of sync
with the timetables of their partners, children and society. In contrast to the standard 8 am
to 4 pm (or 9 am to 5 pm) Monday to Friday working day, nonstandard work schedules re-
fer to work times that fall outside these hours (e.g., Presser 2003). ( g ,
)
This study examined whether working nonstandard work schedules is associated with
spousal satisfaction. The study extends the existing research literature, which has mainly
been conducted in the US, by investigating these phenomena in three European coun-
tries: Finland, the Netherlands and the United Kingdom. The study used a dataset that
oversamples the proportion of nonstandard workers and thus enables comparisons be-
tween different types of nonstandard work schedules, as suggested by Presser (2003, 2004;
see also Maume & Sebastian 2012). The study also took into account the multidimension-
al nature of working time and examined the roles of other work time-related factors,
namely, changes in and influence over one’s work times and one’s partner’s work sched-
ules. In addition to quantitatively examining whether connections exist between different
aspects of working time and spousal satisfaction, this study addressed the qualitative ques-
tion of how. Namely, the study examined what meanings parents attribute to their working
times from the viewpoint of their spousal relationships. The study focused on workers
with children, whose spousal relationship is mingled with parental duties. Abstract This study examined the associations of work schedules and spousal satisfaction among
Finnish (n = 347), Dutch (n = 304) and British (n = 337) parents. In addition to comparing
parents with nonstandard schedule with parents in regular day work, the study examined
separately the roles played in spousal satisfaction of morning, evening, night and weekend
work and other working time-related variables (working hours, changes in and influence
over one’s work schedules and spouse’s work schedule). The three-country data were ana-
lyzed using structural equation modeling with a multigroup procedure in Mplus. Little ev-
idence for negative associations of work schedules and related factors with spousal satis-
faction was found among the present European employees. No between-country differ-
ences were found in the examined associations. The quantitative analyses were supple-
mented with content analysis of parents’ descriptions of the experienced effects of their
working times on their spousal relationship. Parents described their working times mostly
as having a negative influence on their possibilities of being together, organization of daily
life, psychological and physiological reactions and spousal communication. Some, howev-
er, also mentioned benefits and finding solutions to problems related to their working
times. Key words: content analysis, cross-cultural, nonstandard working times, spousal satisfac-
tion, structural equation modeling, work schedules JFR – Journal of Family Research, 2020, Early View, 1–22
doi: 10.20377/jfr-359 2 1.1 Earlier research on the associations between work schedules and spousal
relationship well-being Research on how nonstandard work schedules affect family life has mainly been atheoret-
ical. Grzywacz (2016), however, identifies four distinct, albeit interrelated, frameworks for
considering the possible impacts of nonstandard work schedules on the balance of work
and family life. Although originally created to understand the mechanisms relating to
work-family reconciliation, these frameworks may also increase understanding on the ef-
fects of working time on spousal well-being. According to Grzywacz (2016), the effects of nonstandard work schedules on family
life may be related to disturbed circadian rhythm and its physiological consequences (e.g.,
impaired sleep; biobehavioral framework) and/or specific psychological costs of working
nonstandard times (e.g., irritability, distractedness and social detachment; social-cognitive
framework). Nonstandard working times may also affect family life through the physical
absence from home (social disruption framework) and an individual’s beliefs that s/he can-
not be a good spouse or parent because of her/his working times (socialization framework). These beliefs may act as a self-fulfilling prophecy, leading to social withdrawal or other
harmful behavior. Such consequences may cause individuals to feel inadequate and una- 3 ble to meet their family responsibilities. These frameworks all share the assumption that
the consequences of work at nonstandard times are mainly negative in nature. ble to meet their family responsibilities. These frameworks all share the assumption that
the consequences of work at nonstandard times are mainly negative in nature. q
y
g
Earlier empirical research findings on the associations of nonstandard working times
and family life accord with the above-mentioned theoretical frameworks, especially the bi-
obehavioral, social-cognitive and social disruptive frameworks. Nonstandard work times
are known to have negative consequences for employees’ mental and physical health and
to disturb the quantity and quality of sleep (Peruzzi et al. 2007; Totterdell 2005; Vogel et al. 2012). Nonstandard work times also affect parents’ time use. Parents working nonstand-
ard times are known to protect their time with children at the cost of spousal and personal
time (Wight et al. 2008; see also Gracia & Kalmijn 2016). It is thus unsurprising that pre-
vious studies have found engagement in this type of a work to be linked to an increased
probability of relationship break-down (e.g., Presser 2000; Täht 2011; White & Keith 1990)
and diminished relationship quality (e.g., White & Keith 1990). The longitudinal study by
Jekielek (2003) further confirmed that nonstandard work schedules are a cause of deterio-
ration in relationship quality over time. 1.1 Earlier research on the associations between work schedules and spousal
relationship well-being However, other studies suggests that working
nonstandard work schedules is associated with a diminished gender gap in the division of
housework and parenting (Barnett & Gareis 2007; Presser 2003), a finding which could
positively affect the spousal relationship. This overall picture of the effects of nonstandard work becomes more complex when
account is taken of the type of nonstandard work performed. Research suggests that work-
ing evenings and nights and, especially for women, rotating or varying shifts seem to be
most harmful types of nonstandard work for spousal relationship quality or stability (Da-
vis et al. 2008; Kalil, Ziol-Guest & Epstein 2010; Maume & Sebastian 2012; Mills & Täht
2010; Perry-Jenkins et al. 2007). Perry-Jenkins and colleagues (2007) propose that rotating
shifts may be harmful for family life because they make it difficult to establish regular
routines. In addition to negative associations between night work and rotating or varying
shifts, Täht (2011; see also Mills & Täht 2010) found weekend work to be a risk for the
quality and stability of spousal relationships among Dutch couples. q
y
y
p
p
g
p
The diversity of research findings on the effects of different types of nonstandard
work led Presser (2003, 2004) to emphasize the need to compare schedule types rather
than examining nonstandard work as a unified phenomenon. Earlier studies have pre-
dominantly treated nonstandard work as a set of exclusion categories (e.g., evening work,
rotating shifts, and regular day work) and defined a person’s type of work schedule as the
schedule most frequently worked by that person. In practice, however, the boundaries be-
tween standard day work and nonstandard work are blurred (see also, Grzywacz 2016). Dunifon, Kalil, Crosby, Sy and DeLeire (2013) found that half of the participating mothers
worked only either nonstandard or standard schedules, whereas other half reported that
they worked both standard and nonstandard working hours. Moreover, Eurostat (2014) sta-
tistics show that a notable proportion of European employees occasionally work evenings,
nights and weekends. Consequently, a study procedure that obliges a participant to de-
scribe her or his work situation by selecting only one type of work schedule may not re-
flect reality. y
Several other factors also introduce variability into parents’ work schedules. For ex-
ample, working long hours may complicate spousal and family life (see Hostetler et al. 2012). 1.1 Earlier research on the associations between work schedules and spousal
relationship well-being On the other hand, the negative influences of nonstandard work may not be pre- 4 sent when the employee has control over her or his nonstandard work times (Jekielek
2003; see also Pedersen & Jeppesen 2012). Experiencing changes in work schedules is a
central feature of varying and rotating work times, which, as already stated, is linked with
challenges in spousal relationships. Also, as Craig and Brown (2017) state, “time is both
an individual and a family resource” (p. 225). This means that in dual-earner families, the
partner’s type of work schedule may also influence spousal experiences. Davis and col-
leagues (2008) found that individuals reported greater marital instability when one or oth-
er partner worked nights. In contrast, both Mills and Täht (2010) and Perry-Jenkins and
colleagues (2007) found that partnership quality was linked only with the individual’s own
and not her or his partner’s work schedules. p
If, as the current literature suggests, the impacts of nonstandard work may be highly
individual and vary along many dimensions of work characteristics, a more qualitative ap-
proach is called for. Such an approach could reveal, for example, whether and, if so, how
individuals with similar working time arrangements perceive their situation differently,
for example, as either a problem or a benefit. 1.2 Work and family in Finland, the Netherlands and the United Kingdom 1.2 Work and family in Finland, the Netherlands and the United Kingdom Nonstandard working times are widely prevalent in Europe, including in Finland, the
Netherlands and the United Kingdom (Eurostat 2014). For example, evening work is done
at least sometimes by more than half of Finnish and Dutch men, whereas more than half
of Dutch men work on Saturdays. Despite the high prevalence of nonstandard work
schedules in Europe, most of what is known about the impact of work schedules in family
life is based on studies conducted in the US context. This study focuses on parents in
three European countries with different working time practices, care policies and welfare
regimes. Finland represents a social democratic, the Netherlands a corporatist and the UK
a liberal welfare regime (Esping-Andersen 1990). g
(
p
g
)
Finland has high rates of maternal employment and full-time work, although the
number of weekly working hours is below the European mean (OECD 2014). With respect
to nonstandard working times, shift work is more common among mothers in Finland
than elsewhere in Europe (Eurostat 2014). However, the life of Finnish families with non-
standard work schedules is facilitated by a broad range of social security measures
(Forsberg 2005; Pfau-Effinger 2004). The accessibility of high-quality municipal early
childhood education and care is guaranteed by law, and flexibly scheduled early childhood
education and care for children whose parents work nonstandard schedules is widely
available (Kröger 2011; Rönkä et al. 2019). Many mothers of young children also work in the Netherlands (OECD 2014), where
part-time work is largely supported by the state as a way of reconciling work and
parenthood (Pfau-Effinger 2004), and thus Dutch mothers, especially, and fathers work
part-time more often than their European counterparts (OECD 2014). Public childcare is
widely available in the Netherlands, some centers having extended opening hours, and is
largely subsidized by a state childcare allowance (De Schipper et al. 2003; Statistics Neth-
erlands 2014). Given the part-time working culture and the value placed on home-based
care for children, child care in the Netherlands is commonly part-time only (Kröger 2011) 5 with “tag-team parenting” and parental working time desynchronization as alternative
strategies for Dutch families (Mills & Täht 2010). with “tag-team parenting” and parental working time desynchronization as alternative
strategies for Dutch families (Mills & Täht 2010). In the United Kingdom, the maternal employment rate is slightly below the EU aver-
age and clearly lower than in the two other countries studied here (OECD 2014). 1.2 Work and family in Finland, the Netherlands and the United Kingdom The UK,
with its liberal regime, favors unregulated markets and individual responsibility for work-
family reconciliation (Abendroth & Den Dulk 2011). The costs of childcare services for
families in the UK are high, and the average number of hours children attend public
childcare services are very low (Kröger 2011). Although these cross-country differences do not provide precise information on the
impact of work schedules on spousal satisfaction in these three countries, they illustrate
the considerable diversity in the spousal life of parents with nonstandard schedules. For
example, in Finland, where families working nonstandard schedules are supported by the
availability of public, flexibly scheduled early childhood education and care, the full-time
dual-earner model may put pressure on the spousal relationship. In the Netherlands, pa-
rental part-time work and flexible work arrangements encourage parents to take turns in
parenting; however, this may also diminish couple time. In the UK, while the home-
mother culture may ease work-family reconciliation, parents may feel they lack institu-
tional support for their family life. 1.3 This study This study contributes to the literature on the associations of work schedules and spousal
satisfaction by examining parents in three European countries, utilizing both multifaceted
measures of work schedules and parents’ descriptions on experienced effects of their
working times. The following questions were addressed: Research question 1: How are parents’ work schedules associated with their evaluations
of spousal satisfaction? In addition to investigating the associations of work schedules and
spousal satisfaction by comparing those who work nonstandard schedules and those in
regular day work, the study examined in more detail whether different amounts of work
performed during early mornings, evenings, nights and weekends is associated with
spousal satisfaction. p
Hypothesis 1: In all three countries, we expected working nonstandard schedules, es-
pecially working nights, to be connected with lower spousal satisfaction than working a
regular day-work schedule. Due to the conflicting and weak links found in previous re-
search, we expected to find only weak associations. Research question 2: How are other work time-related factors associated with spousal
satisfaction? Hypothesis 2: We hypothesized that, in all three countries, working more hours, hav-
ing less influence on and experiencing more changes in one’s work schedules and having
a partner with a nonstandard work schedule would be associated with low spousal satisfac-
tion. Research question 3: How do parents describe the experienced effects of their working
times on spousal satisfaction? Hypothesis 3: We expected parents’ descriptions to overlap but also go beyond
Grzywacz’s (2016) frameworks on the impact of nonstandard working time on family life. 6 In addition to parents attaching negative meanings to nonstandard schedules we expected
to find parents attaching positive meanings to working non-standard hours, as findings
on, for example, tag-team parenting (see Mills & Täht 2010) suggests that nonstandard
work schedules may be well suited to the needs of some families. The hypothesis was also
based on the conflicting findings earlier reported on the link between work schedules and
spousal life. p
Research question 4: Do the associations between work schedules and other work time-
related factors and spousal satisfaction differ between the Finnish, Dutch and British par-
ents? In the absence of previous research comparing European countries and owing to the
complexity of the various country-specific aspects that could influence the associations be-
tween work schedules and spousal satisfaction, we set no specific hypotheses on cross-
country differences in these associations. 2.
Method 2.1 Data collection 2.1 Data collection The data of the present study were drawn from data collected for the Families 24/7 re-
search project investigating nonstandard work schedules from the perspectives of parents,
children and day care personnel in Finland, the Netherlands and the UK. The project fo-
cused on families with children under age 13. In addition to parents working so-called
nonstandard schedules, web-questionnaire data were also collected from parents working
in regular day work to enable comparison between the two groups. In all three countries,
participants were recruited through work organizations, childcare centers, trade unions
and word of mouth. In contrast to the Netherlands and the UK, almost all the child care
centers in Finland involved in the study had extended hours or operated 24/7 (i.e., flexibly
scheduled early childhood education and care centers), and almost all the parents of the
families using these day care centers worked a nonstandard schedule. Consequently, the
recruitment process reached more workers with a nonstandard schedule in Finland than
in the other two countries. To be selected for the subsample used in this study, partici-
pants were required to have a heterosexual (cohabiting or marital) spousal relationship
and to be employed. Applying these selection criteria resulted in a data set of 988 partici-
pants. Participant background information is presented in Table 1. As described later, the
analyses were controlled for these between-country differences. Owing to the recruitment procedures used, evaluation of the survey response rate was
not possible. For example, day care centers do not supply information about their client
families, and the exact number of employees who have children aged 0–12 years is not re-
ported by work organizations or trade unions. Thus, evaluation of the number of parents
who received information about the survey but declined to participate could not be per-
formed. 2.1 Data collection 7 Table 1: Background information on the Finnish, Dutch and British participants
Finns
(n = 347)
Dutch
(n = 304)
British
(n = 337)
Difference test
M (SD) or %
M (SD) or %
M (SD) or %
Background variables
% of females
74.64
86.18
81.60
χ2(2) = 14.14, p = .001
Age in years
35.72 (5.67)
35.54 (5.29)
37.97 (5.75)
F(2,972) = 19.11, p < .001,
UK > FIN, NL
% of tertiary education
41.91
71.29
79.34
χ2(2) = 113.92, p < .001
% of married
72.91
72.70
78.04
ns
Length of spousal rela-
tionship in years
11.25 (5.78)
11.69 (5.10)
12.59 (5.60)
F(2, 977) = 5.14, p = .006,
UK > FIN
Number of children at
home
1.98 (0.92)
1.85 (0.88)
1.76 (0.72)
F(2, 986) = 5.89, p = .003,
FIN > UK
Age of youngest child
in years
3.94 (2.50)
2.48 (2.55)
3.87 (2.91)
F(2, 980) = 30.30, p < .001,
FIN, UK > NL
Financial situation (0 =
worst, 10 = best)
5.61 (2.15)
6.39 (1.86)
5.34 (2.13)
F(2,980) = 21.77, p > .001,
NL > FIN, UK
Work schedule
% with nonstandard
work schedule
71.01
30.00
24.10
χ2(2) = 177.82, p < .001
Morning work
χ2(4) = 75.69, p < .001
0 times / month
54.39
81.61
74.24
1–2 times / month
12.28
8.36
12.42
>2 times / month
33.33
10.03
13.33
Evening work
χ2(4) = 66.21, p < .001
0 times / month
16.91
32.11
27.68
1–2 times / month
17.20
33.44
26.79
>2 times / month
65.89
34.45
45.54
Night work
χ2 (4) = 18.65, p = .001
0 times / month
63.85
76.43
70.21
1–2 times / month
11.95
11.45
13.98
>2 times / month
24.20
12.12
15.81
Number of weekend
shifts / month
3.00 (2.25)
1.20 (1.79)
1.46 ( 2.06)
F(2, 967) = 73.76, p < .001,
FIN > NL, UK Table 1: Background information on the Finnish, Dutch and British participants 8 Table 1: Background information on the Finnish, Dutch and British participants
(continued) g
p
p
(continued)
Other work time variables
Working hours per
week
37.10 (8.35)
30.39 (8.79)
36.21 (10.87)
F(2, 965) = 47.11, p < .001,
FIN, UK > NL
% having influence on
schedules
44.71
68.60
75.60
χ2(2) = 74.97, p < .001
% experiencing chan-
ges in schedules
37.50
12.12
34.94
χ2(2) = 58.37, p < .001
Spouse’s work schedule
(only for those with an em-
ployed spouse)
% of spouses with
nonstandard schedule
52.67
22.13
28.67
χ2(2) = 59.59, p < .001
Note: Effects were tested with ANOVAs and Tukey’s post-hoc tests (continuous variables) and crosstabulations,
χ2-tests and adjusted standardized residuals (categorical variables) Note: Effects were tested with ANOVAs and Tukey’s post-hoc tests (continuous variables) and crosstabulations
χ2-tests and adjusted standardized residuals (categorical variables) 2.2 Measures The questionnaire was prepared in English. In the Finnish and Dutch questionnaires,
questions for which official translations did not already exist were back-translated. In the
back translations, the English version was first translated into Finnish/Dutch by the re-
search team and then back into English by an independent official translator. Relationship satisfaction. Spousal relationship quality was assessed from the perspec-
tive of spousal satisfaction and measured using a four-item version of the Couple Satisfac-
tion Index (CSI) developed by Funk and Rogge (2007). For each item (“Please indicate the
degree of happiness, all things considered, of your relationship”) a 7-point scale from 0
(extremely unhappy) to 6 (perfect) was used, whereas with the three other items (“I have a
warm and comfortable relationship with my partner”; “How rewarding is your relation-
ship with your partner?”; “In general, how satisfied are you with your relationship?”) a 6-
point scale (0 = not at all/ not at all true, 5 = completely / completely true) was used. In Gra-
ham and Diebels’s (2011) reliability-generalization meta-analysis, the CSI proved to be a
promising measure, showing a mean α of .94. In the present study, αs for the composite
score were .95 (FIN), .88 (NL), and .95 (UK). Work schedules. Work schedules were measured in two ways. First, participants’ self-
identified work schedule was measured with the question “What is your working time pat-
tern?” The original seven response alternatives were dichotomized into regular day work
schedule (= 0) and nonstandard schedule (= 1; including evening/night/morning work, ir-
regular work, shift work and other work schedules). Second, participants were asked how
often they worked during specific hours of the day or on specific days per month. The
questions measuring evening and night work were drawn from the European Working
Conditions Survey 2010 (EWCS; Eurofound 2010). For evening work, the question was 9 “How many times a month do you work (including overtime work) in the evening, for at
least 2 hours (between 18.00 and 22.00)?” Working nights was similarly measured with
the time frame 22.00 to 05.00 and morning work with the time frame 05.00 to 07.00). The
response options were never (= 1), once (= 2), twice (= 3) and more than twice (= 4). In the
present analyses, the categories once and twice were combined. 2.2 Measures As morning, evening and
night work were each measured with three ordinal categories (0 times/month, 1–2
times/month, more than 2 times/month), two dichotomous variables were created for each of
these types of nonstandard work time. The reference category was 0 times/month. To
measure weekend work, the answers to the questions on Saturday and Sunday work (“How
many times on average a month do you work on Saturdays (Sundays)?” (EWCS; Euro-
found 2010) were summed. Other work time-related variables. The question on working hours was “How many hours
do you normally work a week in your main job, including any paid or unpaid overtime
(regardless of your contracted hours)?”. Influence over one’s work schedules was measured
with a structured question: “How are your working time arrangements set?”. For the pur-
poses of this article, the response option They are set by the company /organization with no
possibility for changes was coded as 0 and the other options (I can choose between several fixed
work schedules determined by the company /organization, I can adapt my working hours within
certain limits [e.g. flexitime] and My working hours are entirely determined by myself) as 1. In
addition, to evaluate changes in work schedules, participants were asked “Do changes to your
work schedule occur regularly?” (1= yes, 0= no). The variable measuring spouse’s work schedule included those whose spouse was
employed, that are, dual-earners. The question and response categories were similar to
those on the participant’s own work schedule. The analyses did not include participants
with unemployed or self-employed spouses as the number of these participants was rela-
tively low (spouse unemployed: FIN n = 38, NL n = 5, UK n = 23; spouse self-employed:
FIN n = 39, NL n = 42, UK n = 30). Background variables. Information about several background factors was gathered with
questionnaires: gender (1 = woman, 0 = man), participant’s age in years, highest education
(1 = tertiary, 0 = lower than tertiary), marital status (1 = married, 0 = not married), length of
the spousal relationship in years, number of children living at home, and age of the
youngest child in years. Self-rated financial situation of the family was elicited with the
question “How would you rate your family’s financial situation these days?” Answers were
given on an 11-point scale from the worst possible financial situation (= 0) to the best possible
financial situation (= 10). 2.3 Statistical Analyses Multigroup procedure in structural equation modeling (SEM) was used to analyze the data
from all three countries. The analyses were conducted with the Mplus statistical package
(version 7.11.; Muthén & Muthén 2004). The estimation method used was MLR, which
produces maximum likelihood parameter estimates with standard errors and a chi-square
test statistic that are robust to the nonnormality and nonindependence of observations
(Muthén & Muthén). Model fit was assessed using chi-square, Tucker-Lewis index (TLI),
root mean square error of approximation (RMSEA), and standardized root mean square
residual (SRMR). Nonsignificant chi-square p-values, RMSEA with values ≤.06, SRMR
with values ≤.08 and TLI with values ≥.95 indicated good model fit (Hu & Bentler 1999). The significance of the differences in chi-square values between the nested models was
evaluated using a scaled chi-square difference test (Satorra & Bentler 1994). g
q
(
)
The analysis was started by testing the invariance of the latent variable. When compar-
ing different sociocultural groups (e.g., countries) in psychological constructs, similarity
in the measurement level of the latent constructs in each group is a prerequisite for mean-
ingful comparisons (Little 1997; Milfont & Fischer 2010). For this purpose, the measure-
ment models for couple satisfaction were first estimated separately for each of the three
countries to examine whether the proposed factor structure fits the empirical data for each
group. Next, to test metric invariance, a freely estimated (i.e., no requirements for invari-
ant loadings) multi-group model was compared with the model in which the item load-
ings were constrained to be equal between the groups using the Satorra-Bentler chi-square
difference test. To answer RQ1 and RQ2, exogenous variables were added to the model in a stepwise
procedure. In step 1 the background variables, in step 2 the dichotomous, self-identified
work schedule variable, in step 3 the other work schedule variables, and in step 4 the other
work time-related variables were added to the model. At each step, exogenous variables
with nonsignificant (using p < .10 as a limit here) path coefficients in all three countries
were omitted from the analysis before proceeding to the next step. To answer RQ 4, invar-
iance of the path coefficients between the countries was tested with the Satorra-Bentler
test. Finally, variables with nonsignificant path coefficients (using p < . 05 as a limit here)
in all three countries were omitted from the final model. 2.3 Statistical Analyses The analysis on the associations of spouse’s work schedule with spousal satisfaction
(RQ2) was only performed for parents with an employed spouse, that is, participants with
a spouse who did not work or was self-employed were excluded from this analysis. The di-
chotomous variable of spouse’s work schedule was included in the above-mentioned un-
constrained model in step 5. Country differences in this association (RQ4) were tested
with a procedure similar to that described above. 2.2 Measures Qualitative open-ended question on the experienced effects of working times on the spousal
relationship. All participants irrespective of their work schedules were asked the open-
ended question “How do the working hours of you or your spouse affect your spousal rela-
tionship?” The answers given by the Dutch participants were translated into English by a
professional translator. Invalid answers were removed from the analysis (no answer or
dash n = 277; unclear answer n = 11, answer clearly not related to working times n = 17),
yielding a total of 683 valid descriptions. Of these, 64 (9.37%) directly stated that working
times had no effect on the spousal relationship and hence were excluded from the anal-
yses. 10 2.4 Analysis of the qualitative data Content analysis was applied to the open-ended questionnaire data, utilizing Grzywacz’s
(2016) frameworks where applicable. Data were reviewed to identify two aspects, content
and appraisal. First, two researchers independently reviewed the data to identify relevant 11 contents of each description and to group these contents into overarching themes. Second,
the data were also reviewed to identify how parents evaluated the impact of working time,
that is, to identify appraisals. For example, the content of the description “My spouse
works long hours, participates little in domestics” (id 562, a British mother) would be “or-
ganization of daily life” and the appraisal “negative”. The researchers then met to discuss and compare their tentative versions of the con-
tent themes and appraisals and settled on the final versions presented in the Results sec-
tion. The data were then quantified by coding the descriptions by both their identified con-
tents and appraisals. Both content and appraisal were treated as non-exclusive, that is, sev-
eral contents and several appraisals could be coded for each description. Data were coded
by two researchers and in cases of disagreement the researchers reached consensus
through discussion. Cross-tabulations were used to compare parents with different work schedule situa-
tions in the family (i.e., both spouses in regular day work vs. at least one partner with non-
standard work schedule; this analysis included dual-earners only) and parents from differ-
ent countries in the prevalence of specific contents and appraisals. 3.
Results 3.1 Preliminary analyses: Structure of the CSI in the three countries Among the Finnish, British and Dutch samples, all the items loaded significantly on the
latent factor (standardized factor loadings in freely estimated model .56–.95). All loadings
except for the item “How rewarding is your relationship with your partner?” among the
Dutch participants could be set equal between the countries based on the Satorra-Bentler
significance test (constrained model: χ² (11) = 27.49, p = .004, TLI = 0.99, RMSEA = .07,
SRMR = .04). Consequently, the requirement of metric invariance between the countries
was fulfilled. 3.2 Associations of participants’ work schedules and other work time-related
factors with spousal satisfaction in the three countries In step 1, age, marital status, number of children and financial situation were associated
(p < .10) with the latent variable of spousal satisfaction in at least one of the countries. Other background variables showed no statistically significant paths with the latent varia-
ble in any of the countries and were thus removed from the model. In step 2, self-
identified work schedule was not associated with the latent variable. In step 3, the only
work schedule variable connected with the latent variable was the dichotomous variable
for occasional (1–2 times/month) night work, and hence both dichotomous variables for
night work were retained in the model. In step 4, changes in and influence over work
schedules were connected with the latent variable, and hence these variables were retained
in the model. 12 The Satorra-Bentler test showed that all path coefficients could be set equal between
the countries. After so doing, number of children, influence over work schedules and
changes in work schedules were no longer associated (p > .10) with the latent variable and
were thus removed from the model (constrained model: χ² (66) = 99.14, p = .005, TLI =
0.99, RMSEA = .04, SRMR = .04; see Figure 1). High spousal satisfaction was associated
with being younger, being married and a better self-reported financial situation. In addi-
tion, occasional night work (1–2 times/month) showed a negative association with the la-
tent variable. The difference between occasional and more frequent night work was not
statistically significant as the 95 % confidence intervals of the path coefficients of occa-
sional, 95 % CI [-.46, -.07], and more frequent night work, 95 % CI [-.24, .08], were over-
lapping. g
The analyses on spouse’s work schedule were performed for only the subsample of
the participants who had an employed spouse. When the variable of spouse’s schedule
was added to the unconstrained model described above in step 5, this variable was associ-
ated with the CSI in the Dutch sample (spouse’s nonstandard schedule was associated
with lower satisfaction), and thus the variable was retained in the model. After constrain-
ing all the path coefficients to be equal between the countries, as indicated by the Satorra-
Bentler test, spouse’s work schedule was not associated (p > .05) with the latent variable
and was thus removed from the model. 3.3 Parents’ descriptions of the meaning of working time in spousal relationship 3.3 Parents’ descriptions of the meaning of working time in spousal relationship 3.3 Parents’ descriptions of the meaning of working time in spousal relationship Content. Table 2 presents the five content themes identified in the data. Many descriptions
contained several themes, and these were often presented as a chain of events (e.g.,
“Tiredness from work sometimes causes tension”; id 1116, a Dutch mother). The theme
most often mentioned in the parents’ descriptions, absence/presence, focused on the
amount of time and/or (lack of) possibilities for being present. The theme organization of
daily life included descriptions of how working times affected the activities of daily family
life, such as the division of labor, housework, parenting and hobbies. Working times were
also seen to affect the spousal relationship through different kind of psychological reactions,
such as irritability, promoting an understanding attitude, habituation and appreciation. Parents reported that their working times also caused physical reactions; that is, they men-
tioned the physical consequences of their working times, most commonly tiredness. Ef-
fects related to spousal interaction and the intimate spousal relationship, such as disputes,
discussions and closeness were classified as spousal communication and intimacy. The cat-
egory Other included descriptions in which the content was either not mentioned or not
included in any of the other themes. When families with diverse working schedules and parents from different countries
were compared, cross-tabulations showed some differences in the prevalence of content
themes (see Table 2). Absence/presence was more often mentioned by parents in families
where one or both parents worked nonstandard schedules whereas physical reactions and
the organization of daily life were more often described in families where both parents
worked a regular day schedule. Physical and psychological reactions were more often de-
scribed by the British than Finnish and, in case of physical reactions, Dutch parents. The
Finnish parents more often described absence/presence than the British parents, and the
Dutch parents more often referred to the organization of daily family life than the Finnish
parents. p
Appraisal. The vast majority of the parents’ descriptions (n = 497, 80.3%) portrayed
working times as a problem for their spousal relationship (e.g., “I work Monday-Friday days,
and he works shifts of 6 days on and 4 days off of various patterns. We can sometimes be
passing ships in the night! 3.2 Associations of participants’ work schedules and other work time-related
factors with spousal satisfaction in the three countries Figure 1: Multigroup SEM model explaining spousal satisfaction, unstandardized coeffi-
cients (standardized coefficients for Finland/the Netherlands/and the United
Kingdom in parentheses)
∗p < .05; ∗∗p < .01; ∗∗∗p < .001 Figure 1: Multigroup SEM model explaining spousal satisfaction, unstandardized coeffi-
cients (standardized coefficients for Finland/the Netherlands/and the United
Kingdom in parentheses) Figure 1: Multigroup SEM model explaining spousal satisfaction, unstandardized coeffi-
cients (standardized coefficients for Finland/the Netherlands/and the United
Kingdom in parentheses) ∗p < .05; ∗∗p < .01; ∗∗∗p < .001 13 3.3 Parents’ descriptions of the meaning of working time in spousal relationship This means we have few evenings to do social activities and
sometimes feel like single parents.”; id 841, a British mother). Nevertheless, a notable
proportion of parents (n = 108, 17.4 %) also described their working times as benefiting their
spousal relationship (e.g., “Positively. The father can also have a moment alone with the
children without the mother being present”; id 57, a Finnish mother). In addition, rather
than just focusing on either positive or negative effects, many parents mentioned solutions
and coping strategies used to tackle the negative effects of parental working times (n = 52,
8.4%; e.g., “We don’t get much family time and even less time for just being together as a
couple. When sensibly organized, everyday life, however, runs smoothly enough and it
doesn’t seem to have a specially adverse effect on our relationship as a couple.”; id 474, a
Finnish mother). Appraisals were unclear in 4.0 per cent (n = 25) of cases. 14 Table 2: Content themes
Note: NS = parents in families where either or both parents work nonstandard schedules; DW = parents in fami-
lies where both parents work in regular daywork
Content
theme
Example
Prevalence
Differences
between family
work schedule
situations
Differences
between
countries
n
%
Absence/
presence
“Allows us to spend more day time
together as a couple. 4.
Discussion This study examined whether and, if so, how parents’ working schedules are associated
with their satisfaction with their spousal relationship. Utilizing quantitative and qualita-
tive data from three European countries - Finland, the Netherlands and the United King-
dom - various aspects of work schedules were analyzed with the aim of broadening under-
standing of the associations of work schedules and spousal relationship quality. Based on
earlier research, it was hypothesized that working nonstandard schedules, working more
hours and having less influence on and experiencing more changes in one’s work sched-
ules would be negatively associated with spousal satisfaction. We also expected that par-
ents would not only describe the experienced effects of work schedules on their spousal
relationship in line with Grzywacz’s (2016) framework but they would also describe effects
not observed by earlier studies. No specific hypotheses on cross-country differences were
set. With respect to hypotheses 1 and 2, the results showed weak support for the quantita-
tive connections between different aspects of work schedules and spousal satisfaction
among parents in three European countries. When parents in regular day work were
compared with those working nonstandard times, no associations were found between
work times and spousal satisfaction, except for night work. Specifically, working nights
occasionally was associated with diminished spousal satisfaction. Night work has also earlier been shown to pose unique challenges for the social life
and well-being of parents (Su & Dunifon 2017) by, for example, causing physiological
stress and disturbance of the sleep-wake rhythm (Totterdell 2005; Vogel et al. 2012; see al-
so Grzywacz 2016). The present study extends the research literature by taking into ac-
count the amount of work done outside office hours. When night work is done only occa-
sionally, families may not have established well-functioning practices for ensuring that a
parent has sufficient sleep after a night at work. Another explanation relates to the nature
of the jobs that involve occasional night work. It is possible that these jobs have important
features which our control variables did not reflect but which – rather than occasional
night work per se – relate to low spousal satisfaction. In this study, in comparison to the findings of earlier research, which has mainly been
conducted in the US, relatively few quantitative associations were observed between work
schedules and spousal satisfaction. 3.3 Parents’ descriptions of the meaning of working time in spousal relationship Sometimes it
means we can't attend evening
functions as a couple”; id 1417, a
British mother
367
59.3
ꭓ2 (1) = 15.534,
p < .001;
adj.res:
NS 3.9,
DW -3.9
ꭓ2(2) = 12.32,
p = .002;
adj.res:
FIN 3.3,
UK -2.9
Organization
of daily life
“When a busy wife has to take care
of driving children to their hobbies,
preparing food, cleaning…”; id 597, a
Finnish father
199
32.1
ꭓ2 (1) = 6.583,
p = .010;
adj.res:
NS -2.6,
DW 2.6
ꭓ2 (2) = 23.33,
p < .001;
adj.res:
FIN -4.6,
NL 3.2
Psychological
reactions
“Sometimes a lot of alternating
shifts mean we appreciate it all the
more when we are together.”; id
1584, a British mother
133
21.5
ns
ꭓ2 (2) = 19.49,
p < .001;
adj.res:
FIN -3.7,
UK 4.2
Physical
reactions
“If my partner regularly has work via
the temping agency, he is often tired
in the evening, and the weekends I
have to work are quite a challenge
for him.”; id 285, a Dutch mother
94
15.2
ꭓ2 (1) = 3.971,
p = .046;
adj.res:
NS -2.0,
DW 2.0
ꭓ2 (2) = 34.76,
p < .001;
adj.res:
FIN -3.1,
NL -3.2,
UK 5.9
Spousal
communica-
tion and
intimacy
“Often a source of conflict due to
competing demands”; id 260, a
British father
81
13.1
ns
ns
Other
“Badly”; id 1984, a British father
52
8.4
ns
ns 15 The results of the cross-tabulations showed no difference in how families with diverse
working time arrangements evaluated the effects of working time. However, Dutch par-
ents (adjusted residual = 8.6) described their working times as a benefit more often than
their Finnish (-2.9) and British counterparts (-4.7), ꭓ2 (2) = 75.22, p < .001. They also re-
ported working time-related problems less often (adjusted residual = -7.2) than the British
parents (4.8), ꭓ2 (2) = 54.69, p < .001. 4.
Discussion Together with Täht’s (2011) findings, this study sug-
gests that in the three European countries studied, nonstandard work schedules may not
be as strongly associated with spousal satisfaction as appears to be the case in the US. To
our knowledge, the only study comparing European and US employees on the associa- 16 tions between nonstandard schedules and family life Täht (2011) showed that nonstand-
ard work schedules were less strongly associated with relationship dissolution among the
Dutch than US participants. For example, in the areas of employment protection and ma-
ternal and paternal leaves, the parents in the three European countries represented in this
study are in a stronger position than their US counterparts (OECD 2014; Täht 2011), a
factor which may ease the spousal life of parents working nonstandard schedules. y
p
p
g
Our qualitative findings showed a clear overlap with Grzywacz’s (2016) frameworks as
proposed by our hypothesis 3. According to the parents, working times affected their
spousal relationship via their physical and psychological well-being, organization of daily
life and possibilities to be present in daily family life. Broadening Grzywacz’s frameworks,
we also found that the effects of working times, as reported by parents, were on spousal
communication and intimacy. Working times were described as a source of conflict, but
also of agreement and discussion. Most parents appraised the impact their working times on their spousal relationship
as detrimental. A notable proportion, however, mentioned that their working times also
had benefits for their spousal relationship, thereby illustrating the diversity in parents’ ex-
periences. Also in line with our quantitative results was the finding that whether parents
described their working times as problematic or beneficial or as something they were able
to accommodate to was not found to be conditional on their work schedules. The results of our content analysis may reveal a further possible explanation for the
scarcity of quantitative associations found between work schedules and spousal relation-
ship quality. Many parents, rather than just listing the pros or cons of their working times,
reported having found effective solutions and coping strategies to counter the negative ef-
fects. For example, adopting an accepting attitude towards one’s own life situation or uti-
lizing flexible childcare may act as a protective factor against the risk presented by non-
standard working times. 4.
Discussion It is important to note that the parents in the study had relatively
long relationship histories and thus it is possible that during their relationship they had
learned to cope with the possible challenges caused by their working times. Those suffer-
ing most from the negative effects of their working times may have separated earlier in
their relationship history and thus are not represented in this study. y
y
Interestingly, with respect to research question 4, although the structural equation
modelling revealed no quantitative differences between the three countries, the content
analysis showed some differences between the countries in how parents evaluated the ef-
fects of working time on their spousal relationship. Namely, the Dutch parents described
these effects as beneficial more often than either the Finnish or British parents. Previous
studies utilizing the present data set also suggest that nonstandard working times are
more positively experienced by Dutch parents than their British and Finnish counterparts
(Rönkä, Malinen, Sevón, Metsäpelto & May 2017; Tammelin, Malinen, Verhoef, & Rönkä
2017). )
In reviewing the results of this study, it should be remembered that the study utilized
cross-sectional data and thus research using a longitudinal design would be needed to
complement the present findings. Another limitation of this study is the relatively limited
sample size. To verify that the lack of significant findings in the SEM analyses was not ex-
plained by the relatively limited sample size, simpler analyses were also run. For each type
of nonstandard work time (i.e., morning, evening, night and weekend work) a separate 17 analysis in which only the nonstandard work variables in question were used as exoge-
nous variables (i.e., omitting background or other work-related variables) was run. These
analyses showed no significant findings in addition to that related to occasional night
work, a result that strengthens the reliability of the present findings. It should also be noted that the samples of Finnish, Dutch and British parents were
not randomly selected and therefore not representative, which makes cross-national com-
parisons and generalization of the results difficult. Due to these data-related constraints, it
is not possible to reliably evaluate whether the results of the study relate to the characteris-
tics of our data set or reflect the more general situation in these countries, a problem
commonly encountered in cross-national studies (see Yu, 2015). 4.
Discussion The country samples dif-
fered from each other in some background factors such as financial and work situation. Although all the differences detected were controlled for in the analyses, it is nevertheless
possible that all meaningful differences between the samples were not captured. p
g
p
p
Rather than indicating that the timing of partners’ work only plays a small role in
spousal well-being, the results of this study suggest that working early mornings, eve-
nings, nights and weekends have both advantages and disadvantages for the spousal rela-
tionship. Families also appear to be active in finding solutions to their problems of work-
family reconciliation. Thus, research in this field could benefit from focusing more on the
possible moderating and mediating factors as well as examining whether and how the
timing of spouses’ work affects the organization of family life. For example, although it is
often assumed that working nonstandard times reduces spousal time, in a situation where
both parents of school-aged children work evenings and have free time during school-
hours, extensive possibilities exist for one-on-one spousal time. Since nonstandard work
schedules take several different forms, a simple categorization of individuals’ work times
is not adequate for addressing questions of this kind. In future studies, more emphasis,
both quantitative and qualitative, should be put on understanding the complex nature of
work schedules. Further research is also needed on the solutions and good practices fami-
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working mothers. Journal of Marriage and Family, 79, 3, 597–613. https://doi.org/10.1111/jomf.12358 https://doi.org/10.1111/jomf.12358 Tammelin, M., Malinen, K., Verhoef, M. & Rönkä, A. (2017). Work-family conflict and
nonstandard working time in Finland, the Netherlands and the United Kingdom. Journal of Family Issues, 38, 1, 3–24. https://doi org/10 1177/0192513X15585810 Totterdell, P. (2005). Work schedules. In: Barling, J.B., Kelloway, E.K. & Frone, M.R. (Eds). Handbook of work stress. California: Sage, 35–62. Täht, K. (2011). Out of sync? The determinants and consequences of non-standard schedules for
family cohesion: The Netherlands within a comparative perspective (Doctoral Dissertation). http://dare.ubvu.vu.nl/handle/1871/24038 [retrieved July 5, 2019] Vogel, M., Braungardt, T., Meyer, W. & Schneider, W. (2012). The effects of shift work on
physical and mental health. Journal of Neural Transmission, 119, 10, 1121–1132. https://doi.org/10.1007/s00702-012-0800-4 White, L. & Keith, B. (1990). The effect of shift work on the quality and stability of marital
relations. Journal of Marriage and the Family, 52, 2, 453–462. https://doi.org/10.2307/353039 Wright, V.R., Raley, S.B. & Bianchi, S.M. (2008). Time for children, one's spouse and one-
self among non-standard workers. Social Forces, 87, 1, 243–271. https://doi.org/10.1353/sof.0.0092 Yu, W.H. (2015). Placing families in context: Challenges for cross-national family re-
search. Journal of Marriage and Family, 77, 1, 23–39. https://10.1111/jomf.12152 21 Deutscher Titel Deutscher Titel Eine Nacht – zwei Schiffe? Unregelmäßige Arbeitszeiten und Zufriedenheit in der Ehe in
Finnland, den Niederlanden und dem Vereinigten Königreich Schlagwörter: Inhaltsanalyse, interkulturell, unregelmäßige Arbeitszeiten, eheliche Zu-
friedenheit, Strukturgleichungsmodell, Arbeitspläne Zusammenfassung Diese Studie untersucht den Zusammenhang von Arbeitszeiten und Zufriedenheit in der
Ehe unter finnischen (n = 347), niederländischen (n = 304) und britischen (n = 337) El-
tern. Neben dem Vergleich von Eltern mit außergewöhnlichen Arbeitszeiten und Eltern
mit regulären Tagesarbeitszeiten, wurde gesondert untersucht, welche Rolle Morgen-,
Abend-, Nacht- und Wochenendarbeit und andere arbeitszeitbezogenen Variablen (Ar-
beitsstunden, Änderungen der eigenen Arbeitszeiten und der des Ehepartners und deren
Einfluss auf die eigenen Arbeitszeiten bzw. die des Ehepartners) spielen. Die Daten aus
drei Ländern wurden mithilfe des Strukturgleichungsmodells durch einen Mehrgruppen-
vergleich in Mplus analysiert. Unter den anwesenden europäischen Arbeitnehmern wur-
den nur wenige Hinweise für eine Korrelation zwischen negativen Assoziationen zu Ar-
beitszeiten (damit zusammenhängenden Faktoren) und der Zufriedenheit in der Ehe
festgestellt. Bei den untersuchten Assoziationen wurden keine Unterschiede zwischen
den Ländern gefunden. Die quantitativen Analysen wurden durch Inhaltsanalysen der El-
tern ergänzt, in denne sie beschreiben, wie sie die Auswirkungen der Arbeitszeiten auf
ihre eheliche Beziehung erleben. Die Eltern beschrieben ihre Arbeitszeiten meist so, dass
diese einen negativen Einfluss auf die Möglichkeiten zur gemeinsamen Zeitnutzung, auf
die Organisation des Alltags sowie auf die psychologischen und physiologischen Reaktio-
nen und die eheliche Kommunikation haben. Einige gaben jedoch auch Vorteile und
Problemlösungen an, die in Verbindung zu ihren Arbeitszeiten stehen. Schlagwörter: Inhaltsanalyse, interkulturell, unregelmäßige Arbeitszeiten, eheliche Zu-
friedenheit, Strukturgleichungsmodell, Arbeitspläne 22 JFR – Journal of Family Research, 2020, Early View, pp. 1–22. doi: 10.20377/jfr-359
Submitted: April 30, 2019
Accepted: January 16, 2020
Published online: March 02, 2020
This work is licensed under a Creative Commons Attribution 4.0 International License. doi: 10.20377/jfr-359
Submitted: April 30, 2019
Accepted: January 16, 2020
Published online: March 02, 2020 This work is licensed under a Creative Commons Attribution 4.0 International License.
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OmbriaNet—Supervised Flood Mapping via Convolutional Neural Networks Using Multitemporal Sentinel-1 and Sentinel-2 Data Fusion
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I. INTRODUCTION Abstract—Regions
around
the
world
experience
adverse
climate-change-induced conditions that pose severe risks to the
normal and sustainable operations of modern societies. Extreme
weather events, such as floods, rising sea levels, and storms, stand as
characteristic examples that impair the core services of the global
ecosystem. Especially floods have a severe impact on human
activities, hence, early and accurate delineation of the disaster
is of top priority since it provides environmental, economic,
and societal benefits and eases relief efforts. In this article, we
introduce OmbriaNet, a deep neural network architecture, based
on convolutional neural networks, that detects changes between
permanent and flooded water areas by exploiting the temporal
differences among flood events extracted by different sensors. To
demonstrate the potential of the proposed approach, we generated
OMBRIA, a bitemporal and multimodal satellite imagery dataset
for image segmentation through supervised binary classification. It consists of a total number of 3.376 images, synthetic aperture
radar imagery from Sentinel-1, and multispectral imagery
from Sentinel-2, accompanied with ground-truth binary images
produced from data derived by experts and provided from the
Emergency Management Service of the European Space Agency
Copernicus Program. The dataset covers 23 flood events around
the globe, from 2017 to 2021. We collected, co-registrated and
preprocessed the data in Google Earth Engine. To validate the
performance of our method, we performed different benchmarking
experiments on the OMBRIA dataset and we compared with
several competitive state-of-the-art techniques. The experimental
analysis demonstrated that the proposed formulation is able to
producehigh-qualityfloodmaps,achievingasuperiorperformance
over the state-of-the-art. We provide OMBRIA dataset, as well as
OmbriaNet code at: https://github.com/geodrak/OMBRIA. F F
LOODS are natural disasters that have a great impact on
human societies, affecting economic activity at both local
and regional scales. Their main driver on such extreme events
is meteorological phenomena with an increase in frequency
and magnitude observed during the last decades due to climate
change [1]. Communities are pushed to poverty as agriculture
production output is reduced and infrastructure is damaged. Studies from insurance companies show that between 1980 and
2019, hydrological disasters caused overall losses of approxi-
mately 1 billion U.S. dollars [2]. Detecting flooded areas is a tedious task that requires hu-
man expertise and many work hours. Remote sensing data
are used to delimit flood extents and integrated with GIS to
produce maps [3]. 2341 2341 IEEE JOURNAL OF SELECTED TOPICS IN APPLIED EARTH OBSERVATIONS AND REMOTE SENSING, VOL. 15, 2022 OmbriaNet—Supervised Flood Mapping via
Convolutional Neural Networks Using Multitemporal
Sentinel-1 and Sentinel-2 Data Fusion Georgios I. Drakonakis
, Grigorios Tsagkatakis
, Konstantina Fotiadou
,
and Panagiotis Tsakalides
, Member, IEEE Manuscript received May 30, 2021; revised October 13, 2021 and January
11, 2022; accepted February 12, 2022. Date of publication March 1, 2022; date
of current version March 23, 2022. This work was supported by the Marie
Skłodowska-Curie project CALCHAS project under Grant 842560 within the
H2020 Framework Program of the European Commission. (Corresponding
author: Georgios I. Drakonakis.) This work is licensed under a Creative Commons Attribution 4.0 License. For more information, see https://creativecommons.org/licenses/by/4.0/ This work is licensed under a Creative Commons Attribution 4.0 License. For more information, see https://creativecomm A. Computer Vision and Image segmentation There are many applications in remote sensing that require
assigning a label to every pixel in an image. This classification
task is addressed with semantic segmentation algorithms. Com-
puter vision is contributing significantly in remote sensing tasks
such as cloud detection [26], urban planning [27], and land cover
classification [28]. During the last years, semantic segmentation
algorithms with three channels or multispectral imagery have
been developed employing machine learning and especially
deep learning [29]. Pretrained networks like VGG-16 [30] and
ResNet [31] have been used not for segmentation per se, but for
scene understanding in a coarse scale classification [32]. The
DeepLab network [33] improves segmentation performance and
produces sharp boundaries by substituting convolution layers
with atrous convolutions. Atrous filters have zeros between
sample points resulting in increased filter sizes with a constant
number of parameters. Synthetic aperture radar (SAR) is proven to provide more
reliable information on flood extent [46]. Precipitation events
have as a result long-lasting cloud coverage periods and SAR
sensors’ ability to penetrate clouds both day and night make
them more suitable for the task. Lidar technologies can give
precise digital elevation models that can be combined with SAR
toestimatefloodextendalongwithprecisedepth[47].Sentinel-2
multispectral imagery and CNN’s have been used in supervised
classification producing good results but in limited spatial scale
(national) and water segmentation for labeling was produced by
visual interpretation with results relative to a human analyst and
not in absolute ground truth [48]. Deep learning frameworks for classifying multispectral im-
ages have been explored thoroughly in the community. How-
ever the scarcity of annotated data has limited most work to
unsupervised methods [34], [35]. Lack of supervised data has
an impact on model generalization between different datasets. Stacked autoencoders are unsupervised neural networks that
encode efficiently the training data and learn high feature repre-
sentations [36], [37]. In [38], a hybrid autoencoder—multilayer
perceptron is introduced to map floods in two study areas in Iran
and India. The autoencoder was used to reduce the feature count,
enhance the training process, and increase the performance
compared to the traditional MLP. IEEE JOURNAL OF SELECTED TOPICS IN APPLIED EARTH OBSERVATIONS AND REMOTE SENSING, VOL. 15, 2022 2342 Experiments on the International Society of Photogrammetry
and Remote Sensing (ISPRS) Vahingen benchmark test set
showed that the overall accuracy is among the top performers ac-
cording to [39]. Transfer learning was used in [40] fusing a U-net
baseddeep,1 calledTL-DenseUNet,withanencodersubnetwork
transferring pretrained DenseNet to fuse multiscale informa-
tion, performing multiobject semantic segmentation with an
imbalanced class distribution. Experimental results showed that
transfer learning is effective and achieves a better performance
than other models. In this article, we address two challenges. The first is to
compensate for the lack of ground-truth data and flooded area
annotations and to provide to the scientific community a new
dataset for supervised classification. Second, we propose a novel
deep learning architecture for supervised segmentation that is
able to detect changes in water presence using a bitemporal set
of high-resolution 3-D imagery. The main novelties of this article include the following. The main novelties of this article include the following. 1) OMBRIA: The generation of a new dataset for addressing
the problem of flood mapping. the problem of flood mapping. 2) OmbriaNet: A novel multimodal and bitemporal CNN
designed for supervised image segmentation and change
detection. B. Remote Sensing and Flood Detection Remote sensing technologies have evolved rapidly during the
recent years and their advantages in analyzing the Earth surface
by its spectral properties have been utilized in environmental
monitoring and emergency and disaster relief [41]. Automated
methods for waterbodies segmentation with satellite imagery
can be divided in two categories, namely rule-based systems and
machine learning models. Thresholding a water index such as
themodifiednormalizeddifferencewaterindex(MNDWI)orthe
multiband water index (MBWI) [8], [42] is a simple rule-based
approach. Less commonly used by remote sensing community
techniques that include expert systems, with visual analysis
combining human cognitive abilities and evidential reasoning
to deal with problems related to both uncertainties and quality
issues in the dataset are used in [43]. While these methods pro-
duce accurate results, this comes under specific conditions and it
lacks generalization ability and transferability. Machine learning
methods can learn flood characteristics given a set of labeled
samples [44]. CNNs are able to learn features from images and
segment water from land, outperforming hand-crafted features,
and report higher accuracy and generalization ability [45]. The rest of this article is organized as follows. In Section II,
we present the state-of-the-art on image segmentation with deep
learning and flood detection in remote sensing. In Section III,
the OMBRIA dataset creation is discussed. In Section IV, we
present some theoretical background of deep learning and the
proposed OmbriaNet network is presented. Furthermore, in
Section V, the experimental results are shown. In Section VI,
discussionovertheanalysisresultsanddirectionsforfuturesteps
is made. Finally, Section VII concludes this article. 1Convolutional neural network (CNN). I. INTRODUCTION Satellite systems constitute the most widely
used platform for large area mapping and emergency manage-
ment [4], with Coperincus Emergency Management Service
being a prime example. Earth observation satellites are equipped
with instruments operating in wavelengths extending from the
visible to microwave range. Traditional approaches exploit the
capacity of water to absorb light at certain wavelengths [5],
[6]. Early and current works use indicators, such as the normal-
ized difference water index (NDWI) [7] and its improved ver-
sion [8], which are suitable for enhancing and extracting water
information. Recently, the combination of the satellite imagery infras-
tructure with artificial intelligence technologies has provided
a new path toward successfully addressing the problem of flood
detection and mapping. Traditional machine learning techniques
have been employed in Earth observation (EO) data analysis,
including support vector machines (SVMs) [9] and random
forests [10]. convolutional neural networks (CNNs), as partic-
ular types of deep learning architectures, represent the most
promising and prolific machine learning models, and have be-
come a predominate tool due to their efficiency in learning data
representations [11]. Advances in the fields of deep learning and
computer vision have taken remote sensing to a new level [12]
and are proven to be more accurate in tasks such as land cover
classification [13]–[16] and object detection [17]–[19], outper-
formingthetraditionalmethods[20]–[22].Althoughmostworks
focus on land applications, there is an increasing interest in water
applications, such as water detection [23]–[25]. Index Terms—Convolutional neural network (CNN), deep
learning, flood mapping, remote sensing, Sentinel-1, Sentinel-2. Georgios I. Drakonakis, Konstantina Fotiadou, and Panagiotis Tsakalides are
with the Department of Computer Science, University of Crete, 700 13 Herak-
lion, Greece, and also with the Institute of Computer Science and Foundation of
Research and Technology Hellas, University of Crete, 70013 Heraklion, Greece
(e-mail: drakonakis@ics.forth.gr; kfot@ics.forth.gr; tsakalid@ics.forth.gr). Grigorios Tsagkatakis is with the Institute of Computer Science and Founda-
tion of Research and Technology Hellas, University of Crete, 70013 Heraklion,
Greece (e-mail: greg@ics.forth.gr). g g
g
Digital Object Identifier 10.1109/JSTARS.2022.3155559 This work is licensed under a Creative Commons Attribution 4.0 License. For more information, see https://creativec III. OMBRIA DATASET Imagery from Sentinel-1 was acquired at Level-1 Ground
Range Detected (GRD), with VV polarization (single copolar-
ization, vertical transmit/vertical receive). Level-1, GRD prod-
ucts consist of focused SAR data, that has been detected, multi-
looked and projected to ground range using the Earth ellipsoid
model WGS ‘84. The ellipsoid projection of the GRD products
is corrected using the terrain height from the SRTM Digital
Elevation Model [59]. Ground range coordinates correspond
to the slant range coordinates projected onto the ellipsoid of
the Earth. Additionally, pixel values represent the detected am-
plitude, while phase information is lost. To reduce the speckle
effect, morphological filtering was applied with a 30 × 30 me-
ters median value kernel. As a result, the resulting patches have
dimensions of 256 × 256 × 1. The Copernicus program [52] provides data with global cov-
erage, high temporal frequency, and high spatial resolution. The
European Space Agency (ESA) launched the Sentinel-2 mission
in July 2015, putting into orbit two twin satellites with a better
resolution and a more frequent acquisition, compared to previ-
ous missions, e.g., NASA’s LANDSAT 8. The ESA satellites
provide Copernicus Emergency Management Service (EMS)
with data necessary for mapping products to support emergency
activities immediately following a disaster [53]. In addition,
LANDSAT 8 constellation, the longest record of global scale
EO providing data since 1972 [54], is widely used in delineating
flood extents with change detection approaches [55]. Active EO
sensors can also be utilized for flood mapping. SAR instruments
have been used in several studies to create inundation maps
[56]–[58]. The Sentinel-2 MSI instrument bands that were exploited are:
Band 3—Green (0.560 μm), Band 8—Near Infrared (0.842 μm),
and Band 11—SWIR (1.610 μm). Bands 3 and 8 have a spatial
resolution of 10 m, while band 11 has a spatial resolution of 20
m. Additionally, the bottom-of-atmosphere reflectance in carto-
graphic geometry product (i.e., Level 2 A) was selected, since it
is atmospherically corrected and orthorectified with the SRTM. The resulting patches have dimensions of 256 × 256 × 3. The Emergency Management Service of the Copernicus Pro-
gramme provides data packages of delineation and grading
products for emergency situations and natural disasters. These
products have been produced by field experts in semiautomated
procedures. For the creation of the dataset, 20 flood event acti-
vations around the globe were picked between 2017 and 2020. C. Flood Mapping With Deep Learning Machine learning models have not been utilized extensively
in flood mapping problems because there is a lack of available
datasets. Sen1Floods11 is the first dataset for flood detection. It was introduced to assist efforts to operationalize deep learn-
ing algorithms for flood mapping in global scale. It contains
Sentinel-1 imagery and is trained with a fully CNN to perform
multiple classifications and compare performance with common
remote sensing algorithms like backscatter thresholding [49]. Fusion of high-resolution imagery with digital surface models
in a fully convolutional network has achieved state-of-the-art
performance on a multimodal semantic segmentation scheme. DRAKONAKIS et al.: OMBRIANET—SUPERVISED FLOOD MAPPING VIA CONVOLUTIONAL NEURAL NETWORKS 2343 TABLE I TABLE I
TABLE WITH FLOOD EVENTS USED IN OMBRIA DATASET AS EMERGENCY
MANAGEMENT SERVICE RAPID MAPPING ACTIVATIONS Fig. 1. Map of emergency management service activations for flood events. TABLE I
TABLE WITH FLOOD EVENTS USED IN OMBRIA DATASET AS EMERGENCY
MANAGEMENT SERVICE RAPID MAPPING ACTIVATIONS Fig. 1. Map of emergency management service activations for flood events. Deep learning architectures tailored for water segmentation
are also numbered. H20-Net is the first to our knowledge to
address the problem. The network learns SWIR signal synthesis
in low resolution data as a domain adaptation mechanism for
accurate flood segmentation. It uses as input red, green, blue,
and near infrared channels in a self-supervised classification
and achieves high accuracy [50]. Besides EO, unmanned aerial
vehicles (UAVs) constitute another source of data that makes
observation easy and more frequent. High-resolution UAV im-
agery has been used for postnatural disaster damage assessment
using state-of-the-art deep learning algorithms [51]. data collection. More details regarding the data collection and
preproccessing is given in Section V-A. III. OMBRIA DATASET Vector files were converted into raster images and used as ground
truth. In Fig. 1, we present a world map with all flood events
used in this article. In Table I, the flood events are categorized
in a chronological order from the oldest to the most recent. The
table includes the EMS Activation ID, the name of the country,
the corresponding geographic zone, and the two dates used for Imagery from every flood event were divided into nonover-
lapping tiles of size 256 × 256. This division led to 844 tiles
for each timestamp (preevent and postevent) and each modality
(Sentinel-1 and Sentinel-2) creating 1.688 optical and 1688 SAR
images adding up to of 3.376 input image patches. Given that the
ground sample distance is 10 m the total cover area is 553 km2. IEEE JOURNAL OF SELECTED TOPICS IN APPLIED EARTH OBSERVATIONS AND REMOTE SENSING, VOL. 15, 2022 2344 Fig. 2. OMBRIA Dataset samples. From left to right: Sentinel-1 preevent, Sentinel-1 postevent, Sentinel-2 preevent, Sentinel-2 postevent, and ground truth
(white pixels is flood). Fig. 2. OMBRIA Dataset samples. From left to right: Sentinel-1 preevent, Sentinel-1 postevent, Sentinel-2 preevent, Sentinel-2 postevent, and ground truth
(white pixels is flood). Fig. 2. OMBRIA Dataset samples. From left to right: Sentinel-1 preevent, Sentinel-1 postevent, Sentinel-2 preevent, S
(white pixels is flood). The equations for reprojecting latitude and longitude to the
cartesian coordinates as presented in [61] are formulated as In Fig. 2, selected samples are presented. During or after a flood
event, there is a high probability of cloud presence. We took that
into consideration during data collection and included cloudy
samples (Sentinel-2 only as SAR has the ability to penetrate
clouds) to simulate realistic data capture scenarios. x = k0N
A + (1 −T + C)A3
6
+(5 −18T + T 2 + 72C −58e
′2)A5
120
x = k0N
A + (1 −T + C)A3
6
+(5 −18T + T 2 + 72C −58e
′2)A5
120
y = k0
M −M0 + N tan φ
A2
2
+(5 −T + 9C + 4C2)A4
24
+ (61 −148T + 16T 2)A6
720
(1) The coordinate reference system of the imagery is the World
Geodetic System 1984 [60], the so-called WGS ‘84, which
stands as a gold standard in geodesy, satellite navigation, and
cartography. B. Deep Learning Architectures 1) Baseline Architecture: U-Net: The majority of visual clas-
sification tasks target to assign a label to a provided image. Nevertheless, in remote sensing applications, a key objective
also concerns the localization of the labels, i.e., the correspond-
ing class that is assigned to each pixel. In this article, we use
U-Net, a state-of-the-art image segmentation neural network,
as the baseline and we further develop novel multimodal and
multitemporal DL architectures designed specifically for the
problem of flood mapping change detection. L =
0,
if not flooded
1,
if flooded. L =
0,
if not flooded
1,
if flooded. Classic machine learning approach to this problem is by
means of SVMs. SVMs build a discriminating function that
simulates the optimal discriminating surface between classes,
using training data [9]. When linear separation is impossible,
kernel techniques are used so that the hyperplane defining the
SVMs corresponds to a nonlinear decision boundary in the
input space that is mapped to a linearized higher dimensional
space [63]. U-Net [65] is a fully connected CNN architecture particularly
applied on biomedical segmentation problems. It consists of
a contracting path to imprint context and an expanding path,
which is symmetric and enables precise localization. The U-Net
architecture has also been exploited in various remote sensing
tasks. Over the last years, deep learning (DL) has revolutionized
several remote sensing analysis tasks, including the challenging
problem of change detection, among others. Due to its fully
data-driven structure, DL-based approaches learn automatically
higher level features providing more faithful and representative
approximations of input feature space. DL architectures with
several intermediate hidden layers efficiently encode the internal
representations of the raw data, and thus, they exhibit a superior
performancecomparedtothetraditional,shallowmachinelearn-
ing (ML)-based techniques. Additionally, DL techniques are
quite robust and effective in remote sensing image segmentation
tasks. In our analysis, we perform adjustments on the basic U-Net
architecture to perform flood mapping, and we further use it
in our experimental setup as a baseline evaluation. The new
proposed contracting path consists of a repeated pattern of two
3 × 3 convolutions activated via a Leaky ReLU function [66],
instead of the ReLU activation that is used in the
original
implementation of U-Net. Additionally, a 2 × 2 max pooling
operation with stride 2 is used for down sampling. III. OMBRIA DATASET It consists of an ellipsoid that is an oblate spheroid,
a geodetic datum (horizontal and vertical), and the geographical
coordinates, which are the angles measured in terms of latitude
(φ), north or south of the equatorial plane, and longitude (λ), east
or west of the prime meridian. The coordinate reference system
utilizedbytheEMSistheUniversalTransverseMercator(UTM)
that divides the Earth into 60 longitudinal and 20 latitudinal
segments. For the coregistration task of the flooded areas, it is
necessary to reproject the Sentinel-2 imagery. A map projection
is defined as a systematic transformation of ellipsoidal coordi-
nates to a plane coordinate system (x, y) = (f1(φ, λ), f2(φ, λ)).
(1) where e
′2 =
e2
1 −e2 , N =
α
(1 −e2 sin2 φ)1/2, T = tan2 φ
C = eι2cos2φ, A = (λ −λ0) cos φ DRAKONAKIS et al.: OMBRIANET—SUPERVISED FLOOD MAPPING VIA CONVOLUTIONAL NEURAL NETWORKS 2345 M = α
1 −e2
4 −3e4
64 −5e6
256
φ
−
3e2
8 + 3e4
32 + 45e6
1024
sin2 φ+
15e4
256 + 44e6
1024
sin4 φ
. (2)
the inp
Y
where M = α
1 −e2
4 −3e4
64 −5e6
256
φ
−
3e2
8 + 3e4
32 + 45e6
1024
sin2 φ+
15e4
256 + 44e6
1024
sin4 φ
. (2)
the input depth or channel, and it is expressed as
Y (l) = I(k) ∗K(l,k)
=
m
n
k
I(m, n, k)K(i −m, j −n, l, k)
(3)
where K(l,k) ∈Rm,n is the convolution kernel of size m × n the input depth or channel, and it is expressed as Y (l) = I(k) ∗K(l,k)
=
m
n
k
I(m, n, k)K(i −m, j −n, l, k)
(3) (3)
(2) where K(l,k) ∈Rm,n is the convolution kernel of size m × n,
associated with input channel k and output channel l. Latitude and longitude are expressed in radians, M is the true
distance from the Equator to φ along the central meridian, and
M0 is computed with respect to the latitude φ0 that crosses
the central meridian at the origin of the (x, y) coordinates. For
these equations, k0 is specified for a 6◦longitude window at
0.9996 [61]. Features generated from convolving the inputs are passed
through a nonlinear function, the activation function. IV. PROPOSED METHOD: OMBRIANET where α is a hyperparameter to be tuned. Leaky ReLU can assist
to overcome the vanishing gradient problem and avoid network
saturation. III. OMBRIA DATASET We use
the leaky rectified linear unit (ReLU) [64], expressed as yi =
x,
ifx ≥0
x
α,
ifx < 0
(4) (4) A. Problem Formulation and Theoretical Background The goal in semantic segmentation has several variations
from scene prediction to dense, fine-grained predictions and
instance separation [62]. In this article, we focused on dense
prediction, i.e., per-pixel class segmentation. To that end, we
formulate the pixel labeling problem as assigning a class from
a label space L = {ℓ1, ℓ2, . . ., ℓk} to each pixel of a set of
2-D or high-dimensional images X = {x1, x2, . . ., xN}. For the
problem addressed in this article, there is one class for “water”
and another for “not water.” Therefore, To determine the optimal values for the weights during train-
ing, it is necessary to select the proper loss function. The loss
function is defined as L = E(ˆy −y), where ˆy is the predicted
value and y the ground truth. One common loss function that is
widely used is the binary cross-entropy loss function L(y, ˆy) = −(y log(ˆy) + (1 −y) log(1 −ˆy)). (5) (5) B. Deep Learning Architectures p
g p
p
p
p
2) Bitemporal OmbriaNet: Creating meaningful feature
maps from multitemporal images improves the change detection
accuracy because the network detects modifications based on
the temporal information from the feature maps generated from
temporal images. Bitemporal OmbriaNet takes as input two
images of a region in two different timestamps. The first is
before the event and the second is right after the event. Three
blocks of double 3 × 3 Convolutions, with a 2 × 2 max pooling
factor and Leaky ReLU activations, encode the input data into
the deepest point of the network. The resulting feature maps are
concatenated, and then, a dropout layer with a 0.3 probability
value is applied for regularization. Additionally, three blocks of
double 3 × 3 convolutions and a 2 × 2 up-sampling factor are
combined with skip connections and are activated via a sigmoid
activation layer for obtaining the final predictions. Regarding
the loss function, we utilize the binary cross entropy, as it was
also used in the original U-Net implementation. Additionally,
the exploited optimizer is the Adam. Finally, the Bitemporal
OmbriaNet architecture has a total of 10796485 parameters. In
Fig. 3, we depict the detailed Bitemporal OmbriaNet scheme. To compensate the inability of U-Net in detecting accurately
flooded areas, we introduce the novel OmbriaNet architecture. The intuition behind our approach is that there are three sources
of water: main water bodies such as sea oceans and rivers,
temporal streams only in winter seasons, and flood water. Tem-
poral streams and flood water present a periodicity. This event
periodicity may be captured if the proposed DL architecture is
fed with the same area of interest in two different chronological
moments that represent characteristic timestamps before and
after the event. Intense precipitation is related to dense cloud coverage. These
clouds cause severe obstructions and heavy shadowing effects to
satellite optical sensors resulting in significant data information
loss. We leverage this discrepancy by introducing multimodal
input in the proposed DL architecture. For this purpose, we
exploit SAR data, since it is not limited by illumination or
cloud coverage conditions. Additionally, SAR technology is
proved to be a valuable source of information due to its higher
probability of capturing imagery right after the flood event. In
our proposed OmbriaNet architecture, two different approaches
were designed: the Bitemporal OmbriaNet and the Multimodal
OmbriaNet. B. Deep Learning Architectures In the ex-
pansive path, the feature maps are up-sampled, followed by
a 2 × 2 convolution that halves the number of feature maps. Then, a concatenation with the corresponding cropped feature
maps from the contracting path is implemented, followed by
two 3 × 3 convolutions activated with the Leaky ReLU func-
tion. Moreover, a final 1 × 1 convolution layer is exploited that
maps each feature vector to the desired class. Regarding the
loss function, the binary cross-entropy was selected, since we An efficient DL approach is based on CNNs. CNNs are
composed of convolutional layers that alternate with nonlinear
activation and possibly subsampling (pooling) layers, resulting
in a hierarchy of increasingly abstract features. CNNs involve
the mathematical operation of convolution. For the case of 2-D
imagery, the convolution is applied on input features I(i, j, k),
where (i, j) represent the input image height and width and k is IEEE JOURNAL OF SELECTED TOPICS IN APPLIED EARTH OBSERVATIONS AND REMOTE SENSING, VOL. 15, 2022 2346 Fig. 3. Bitemporal OmbriaNet architecture. Two input images of the same region in different timestamps are imported into our proposed two-branch architecture
attempting to take advantage of the bitemporality in detecting the change that is present. Fig. 3. Bitemporal OmbriaNet architecture. Two input images of the same region in different timestamps are imported into our proposed two-branch architecture
attempting to take advantage of the bitemporality in detecting the change that is present. address a binary classification task. Concerning the optimization
algorithm, the Adam optimizer [67] was selected. Finally, the
total number of parameters is 31032837. different sensor and different timestamp. In the first instance,
the network is referred as Multitemporal OmbriaNet and in the
second is referred as Multimodal OmbriaNet. The following
paragraphs provide their complete description. Despite U-Net’s superior performance in several remote sens-
ing tasks and its promise for the proposed flood detection task,
a major drawback still remains that the traditional U-Net con-
siders single input imagery. This limitation makes the network
incapable of distinguishing permanent from flooded water ter-
ritories. Consequently, the basic U-Net formulation results in
misclassification of water bodies (i.e., lakes, rivers, oceans, etc.)
as flooded water areas resulting in the deterioration of the overall
system detection accuracy. B. Deep Learning Architectures OmbriaNet’s intuition is based the U-Net frame-
work but designed to receive multiple input. Different input
is categorized as same sensor and different timestamp or both 3) Multimodal OmbriaNet: To fully exploit multimodal data
fusion, we constructed the so-called Multimodal OmbriaNet ar-
chitecture, as an improved version of the Bitemporal OmbriaNet
that considers four input images, corresponding to one pre- and
one postevent image acquired by Sentinel-1, and one pair of
pre- and postevent images acquired by Sentinel-2, depicting
the same spatial territory. Similar to the Bitemporal OmbriaNet
architecture, three convolutional 3 × 3 blocks followed by 2 × 2
max-pooling layers were exploited and activated via the Leaky
ReLU function. The resulting feature maps are concatenated,
while the dropout regularization term is also set to 0.3. Re-
garding the inverse process, three 3 × 3 convolutional blocks DRAKONAKIS et al.: OMBRIANET—SUPERVISED FLOOD MAPPING VIA CONVOLUTIONAL NEURAL NETWORKS 2347 Fig. 4. Multimodal OmbriaNet architecture. In our final proposed method, four input images of different modalities and different timestamps are exploited
in a multibranch architecture and utilized to segment the flood. Fig. 4. Multimodal OmbriaNet architecture. In our final proposed method, four input images of different modalities
in a multibranch architecture and utilized to segment the flood. Fig. 4. Multimodal OmbriaNet architecture. In our final proposed method, four input images of different modalities and different timestamps are exploited
in a multibranch architecture and utilized to segment the flood. B. Evaluation Metrics followed by 2 × 2 up-sampling layers are combined with two
more skip connections, for completeness purposes. The final
layer is a fully connected activated using the sigmoid function
and is responsible for the segmentation task. The Multimodal
OmbriaNet architecture resolves a total of 18 108 101 trainable
parameters. In Fig. 4, we present the proposed Multimodal
OmbriaNet architecture. Evaluation using standard and well-known metrics is of
critical importance, since it enables fair comparisons with the
state-of-the-art. Additionally, the context of the application de-
termines the importance of the metrics. We also provide exe-
cution time as an evaluation parameter, bearing in mind that
computation times depend on the available hardware resources. Insemanticsegmentation,themostpopularperformancemetrics
are pixel accuracy and intersection over union (IoU). In our case,
we have a total of two classes (ℓ0 and ℓ1). Let pij be the number
ofpixelsoftheclassiinferredtobelongtotheclassj.Then,pii is
the number of correctly classified or true positives, while pij and
pji represent the false positives and true negatives, respectively. 1) Pixel accuracy (PA): PA is defined as the ratio of the 3) Frequency weighted intersection over union (FWIoU):
FWIoU is an improved version of the IoU metric that
takes into consideration class appearance frequencies and A. Analysis Ready Dataset (7) (7) 3) Frequency weighted intersection over union (FWIoU):
FWIoU is an improved version of the IoU metric that
takes into consideration class appearance frequencies and 3) Frequency weighted intersection over union (FWIoU):
FWIoU is an improved version of the IoU metric that
takes into consideration class appearance frequencies and IEEE JOURNAL OF SELECTED TOPICS IN APPLIED EARTH OBSERVATIONS AND REMOTE SENSING, VOL. 15, 2022 2348 Fig. 5. Data preproccessing flowchart. All preproccessing was performed in Google Earth Engine API. Fig. 5. Data preproccessing flowchart. All preproccessing was performed in Google Earth Engine API. TABLE II TABLE II
U-NET BASELINE SCHEME: QUANTITATIVE PERFORMANCE OF TRAINING AND VALIDATION PHASES weighs their importance weighs their importance the best case scenario is achieved using 50 epochs, a batch size
of 8 for Sentinel-2, and a batch size of 12 for Sentinel-1. FWIoU =
1
1
i=0
1
j=0 pij
×
1
i=0
1
j=0 piipij
1
j=0 pij+1
j=0 pji−pii
. (8) Table II presents the quantitative performance regarding the
trainingandvalidationphases of theU-Net baselinearchitecture. We observe, that using Sentinel-2 input data, the highest training
accuracy is achieved with a batch size of 6, and it is 82.05%,
while the highest validation accuracy is 84.93%, using a batch
size of 8. Additionally, using Sentinel-1 input data, the highest
training accuracy is 76.31% using a batch size of 8, while the
best validation accuracy of 85.58% is achieved using a batch
size 6. We also observe that the validation score is higher than
the training score, especially in Sentinel-1, probably due to the
sampling batch during the training process. (8) A. Analysis Ready Dataset Data preprocessing was conducted on the widely utilized
Google Earth Engine [68] platform for geo-spatial science data
and analysis. Data collections from Sentinel-1 and Sentinel-2
were accessed via this platform. In order to implement our
proposed bitemporal approach, we selected two time stamps as
follows. The Date 1 ranges from the 1st to the 31st of May of the
year before the flood event. In this window, available pixels with
cloud coverage below a threshold between 10% and 30% were
averaged to yield the final input intensities. The Date 2 ranges
from the date that the event has occurred until 15 days after
it. The same cloud coverage threshold was applied and instead
of pixel averaging, the first available pixels were selected. All
pixels were reprojected to the corresponding UTM zone, de-
pending on the region that is illustrated in Table I. We consider
a significant preprocessing step by adopting a generalized data
augmentation approach. We apply in each patch of the input
EO imagery the following set of transformations:left-right flip,
horizontal and vertical shift, shearing, and random rotations. Via
thisapproach,ourdatasetsizeincreasedbyafactorof2,covering
the dominant possible scenarios regarding data transformation. The dataset was then shuffled and further divided into training
(80%), validation (10%), and testing (10%). All preproccessing
steps are visualized as a flow chart in Fig. 5. pji
p
p
g
p
y
1) Pixel accuracy (PA): PA is defined as the ratio of the
amount of correctly classified pixels to their total number: PA =
1
i=0 pii
1
i=0
1
j=0 pij
. (6) (6) 2) Intersection over union (IoU): IoU is the most frequently
used metric for image segmentation. It stands as the ratio
between the intersection and the union of two sets. In our
formulation, it represents the prediction and the ground
truth. It is formulated as the number of true positives
over the sum of true positives, false negatives, and false
positives. It is computed in a per-class basis and averaged. For the binary problem, it is written as IoU = 1
2
1
i=0
pii
1
j=0 pij + 1
j=0 pji −pii
. C. Evaluation InthisSection,weprovidethecompleteexperimentalanalysis
that has been benchmarked on the developed OMBRIA dataset. Specifically, we provide a detailed experimental setup corre-
sponding to various training parameters, including different
batch sizes and number of epochs. Additionally, we evaluate
the proposed DL methods in terms of the training, validation,
and testing accuracy. Moreover, we provide quantitative and
qualitative results of our proposed Bitemporal and Multimodal
architectures and we compare with competitive state-of-the-art
ML and DL algorithmic formulations. In Table III, we report the scores of the trained models on the
testing set. We observe that the highest overall score is achieved
with Sentinel-2 for a batch size of 8, and it is 84.67% in PA,
43.46% in IoU, and 75.51% in FW IoU. The results indicate
that Sentinel-2 slightly outperforms Sentinel-1 when examined
in terms of accuracy. In Fig. 6, a sample from the test set is illustrated that highlights
the advantage of using SAR over optical imagery. Due to a large
concentration of clouds, Sentinel-2 was not able to capture any
flooded water areas, which is demonstrated by the relatively low
value for the classification accuracy. 1) Baseline: U-Net: The initial experiments were conducted
using the U-Net architecture on both Sentinel-1 and Sentinel-2
data, separately. Since U-Net allows single input data, only post-
flood event imagery was utilized. For the specific architecture, 1) Baseline: U-Net: The initial experiments were conducted
using the U-Net architecture on both Sentinel-1 and Sentinel-2
data, separately. Since U-Net allows single input data, only post-
flood event imagery was utilized. For the specific architecture, DRAKONAKIS et al.: OMBRIANET—SUPERVISED FLOOD MAPPING VIA CONVOLUTIONAL NEURAL NETWORKS DRAKONAKIS et al.: OMBRIANET—SUPERVISED FLOOD MAPPING VIA CONVOLUTIONAL NEURAL NETWORKS 2349 TABLE III
QUANTITATIVE PERFORMANCE COMPARISON OF U-NET WITH SENTINEL-1 AND SENTINEL-2 IN TERMS OF PIXEL ACCURACY, IOU, FW IOU,
AND TRAINING TIME FOR 50 EPOCHS
Fig. 6. U-Net baseline scheme: Qualitative comparison of selected samples, in terms of both visual perception and the corresponding IoU metric. (a) Sentinel-1
Input. (b) Sentinel-2 Input. (c) Ground Truth (White pixelsis flood). (d) Sentinel-1 Output (58.19%). (e) Sentinel-2 Output (9.24%). TABLE III
QUANTITATIVE PERFORMANCE COMPARISON OF U-NET WITH SENTINEL-1 AND SENTINEL-2 IN TERMS OF PIXEL ACCURACY, IOU, FW IOU,
AND TRAINING TIME FOR 50 EPOCHS
Fig. 6. U-Net baseline scheme: Qualitative comparison of selected samples, in terms of both visual perception and the corresponding IoU metric. (a) Sentinel-1
Input. (b) Sentinel-2 Input. (c) Ground Truth (White pixelsis flood). (d) Sentinel-1 Output (58.19%). (e) Sentinel-2 Output (9.24%). TABLE III
QUANTITATIVE PERFORMANCE COMPARISON OF U-NET WITH SENTINEL-1 AND SENTINEL-2 IN TERMS OF PIXEL ACCURACY, IOU, FW IOU,
AND TRAINING TIME FOR 50 EPOCHS Fig. 6. U-Net baseline scheme: Qualitative comparison of selected samples, in terms of both visual perception and the corresponding IoU metric. (a) Sentinel-1
Input. (b) Sentinel-2 Input. (c) Ground Truth (White pixelsis flood). (d) Sentinel-1 Output (58.19%). (e) Sentinel-2 Output (9.24%). Fig. 6. U-Net baseline scheme: Qualitative comparison of selected samples, in terms of both visual perception and the corresponding IoU metric. (a) Sentinel-1
Input. (b) Sentinel-2 Input. (c) Ground Truth (White pixelsis flood). (d) Sentinel-1 Output (58.19%). (e) Sentinel-2 Output (9.24%). TABLE IV
QUANTITATIVE PERFORMANCE OF TRAINING AND VALIDATION FOR BITEMPORAL OMBRIANET TABLE IV TABLE IV
QUANTITATIVE PERFORMANCE OF TRAINING AND VALIDATION FOR BITEMPORAL OMBRIANET IEEE JOURNAL OF SELECTED TOPICS IN APPLIED EARTH OBSERVATIONS AND REMOTE SENSING, VOL. 15, 2022 IEEE JOURNAL OF SELECTED TOPICS IN APPLIED EARTH OBSERVATIONS AND REMOTE SENSING, VOL. 15, 2022 2350 IEEE JOURNAL OF SELECTED TOPICS IN APPLIED EARTH OBSERVATIONS AND REMOTE SENSING, VOL. 15, 2022
TABLE VI
NTITATIVE PERFORMANCE COMPARISON ON TESTING SET FOR BITEMPORAL AND MULTIMODAL OMBRIANET IN TERMS OF PIXEL ACCURACY, IOU,
FW, AND IOU (100 EPOCHS)
TABLE VII
OMBRIANET PERFORMANCE COMPARISON ON OMBRIA DATASET ON 90%/10% TRAINING/TESTING SPLIT
ualitative comparison of selected samples with Bitemporal OmbriaNet and their corresponding IoU metric. (a) Sentinel-1 (Pre-event). (b) Sentinel-2
. (c) Ground Truth (White pixels is flood). (d) Sentinel-1 (Post-event). (e) Sentinel-2 (Post-event). (f) Bitemporal Output (94.64%). a significant improvement in the IoU metric (about 5%). nedindividually, therangeof IoUvalues for thedifferent
es is far larger for the U-Net (i.e., approximately 10%)
ared to the OmbriaNet (i.e., approximately 4%). This
on indicates a higher model robustness. Additionally,
hibi
ll i
i
l
2 3%
toward its performance, when increasing the number of epochs. Specifically increasing the training epochs yields into a limited
gain (i.e., approximately 1%), while the training time is almost
doubled when doubling the training iterations. In this scenario,
the best evaluation metrics values are achieved using a batch size
f 8
di
i
l
d FW I U Th
l i TABLE VI
UANTITATIVE PERFORMANCE COMPARISON ON TESTING SET FOR BITEMPORAL AND MULTIMODAL OMBRIANET IN TERMS OF PIXEL ACCURACY, IOU,
FW, AND IOU (100 EPOCHS) TABLE VII
OMBRIANET PERFORMANCE COMPARISON ON OMBRIA DATASET ON 90%/10% TRAINING/TESTING SPLIT TABLE VII TABLE VII
OMBRIANET PERFORMANCE COMPARISON ON OMBRIA DATASET ON 90%/10% TRAINING/TESTING SPLIT Fig. 7. Qualitative comparison of selected samples with Bitemporal OmbriaNet and their corresponding IoU metric. (a) Sentinel-1 (Pre-event). (b) Sentinel-2
(Pre-event). (c) Ground Truth (White pixels is flood). (d) Sentinel-1 (Post-event). (e) Sentinel-2 (Post-event). (f) Bitemporal Output (94.64%). Fig. 7. Qualitative comparison of selected samples with Bitemporal OmbriaNet and their corresponding IoU metric. (a) Sentinel-1 (Pre-event). (b) Sentinel-2
(Pre-event). (c) Ground Truth (White pixels is flood). (d) Sentinel-1 (Post-event). (e) Sentinel-2 (Post-event). (f) Bitemporal Output (94.64%). toward its performance, when increasing the number of epochs. Specifically increasing the training epochs yields into a limited
gain (i.e., approximately 1%), while the training time is almost
doubled when doubling the training iterations. TABLE IV
QUANTITATIVE PERFORMANCE OF TRAINING AND VALIDATION FOR BITEMPORAL OMBRIANET QUANTITATIVE PERFORMANCE OF TRAINING AND VALI TABLE V
QUANTITATIVE PERFORMANCE OF TRAINING, VALIDATION ACCURACY, AND COMPUTATIONAL TIME FOR MULTIMODAL OMBRIANET TABLE V
CE OF TRAINING, VALIDATION ACCURACY, AND COMPUTATIONAL TIME FOR MULTIMODAL OMBRIANET TABLE V TABLE V
QUANTITATIVE PERFORMANCE OF TRAINING, VALIDATION ACCURACY, AND COMPUTATIONAL TIME FOR MULTIMODAL OM In Table IV,
the quantitative performance comparison of
training and validation metrics for the Bitemporal OmbriaNet
architecture is demonstrated. In this scenario, for a fixed batch
value of 4, the best validation accuracy that is achieved is
84.92% for 50 epochs and 85.66% for 100 epochs. Multimodal
OmbriaNet quantitive performance comparison is shown in Ta-
ble V. Fora batch size of 12 the validation accuracy is 86.59%
and 85.96% for 50 and 100 epochs respectively. 2) OmbriaNet—Bitemporal: In this subsection, we report on
experiments meant to evaluate the improvement in our overall
systemaccuracywhenintroducingbitemporalimagery.Thegoal
is to demonstrate that the proposed OmbriaNet architecture
described in Section IV, which takes as input preevent and
postevent images, is capable of “learning” the change between
the absence of water in normal conditions and the presence
of water when the region is flooded. In our experiments, we
experimented with different batch sizes, as with the traditional
U-Net case. 2) OmbriaNet—Bitemporal: In this subsection, we report on
experiments meant to evaluate the improvement in our overall
systemaccuracywhenintroducingbitemporalimagery.Thegoal
is to demonstrate that the proposed OmbriaNet architecture
described in Section IV, which takes as input preevent and
postevent images, is capable of “learning” the change between
the absence of water in normal conditions and the presence
of water when the region is flooded. In our experiments, we
experimented with different batch sizes, as with the traditional
U-Net case. In Table VI, we illustrate the quantitative performance com-
parison on the testing set with the OmbriaNet architecture. We IEEE JOURNAL OF SELECTED TOPICS IN APPLIED EARTH OBSERVATIONS AND REMOTE SENSING, VOL. 15, 2022 A significant improvement
in overall accuracy is observed, especially in the IoU score,
in which Multimodal OmbriaNet outperforms the Bitemporal
OmbriaNet by about 10%. The highest score is achieved for
batch size of 12, and that is the model used in Table VII. In Fig. 8, a sample comparison between different experi-
ments is presented. The Multimodal OmbriaNet improves the
prediction performance about 21% compared to Multitemporal
OmbriaNet achieving an IoU score 81.90% over 60.96%. A
remarkable note is that although in the Sentinel-2 postevent
instance, there is extensive cloud coverage over the flooded
areas, our multimodal network manages a very good delineation
of the event. Table VI gives the quantitative results over the
test set for Multimodal OmbriaNet. A significant improvement
in overall accuracy is observed, especially in the IoU score,
in which Multimodal OmbriaNet outperforms the Bitemporal
OmbriaNet by about 10%. The highest score is achieved for
batch size of 12, and that is the model used in Table VII. Regarding all DL architectures, the batch sizes and number of
epochs were chosen for best performance, resulting in a batch
size of 12 for the U-Net with Sentinel-1, a batch size of 8 for
the U-Net with Sentinel-2, and 50 epochs for both schemes. Concerning the Bitemporal OmbriaNet, both with Sentinel-1
and Sentinel-2, the batch size number was set to 8, while the
number of epochs is fixed to 100. Finally, for the Multimodal
OmbriaNet, the batch size was fixed to 12 and the number
of epochs to 100. The corresponding results are presented in
Table IX. 4) Overall Comparison: In this paragraph, we illustrate the
final comparisons among the proposed architectures and the
related state-of-the-art approaches. In order to obtain a fair
comparison, we retrained all models (i.e., the baseline U-Net,
proposed Multimodal, and proposed Bitemporal) with 90% of
the OMBRIA dataset, and we tested on the resulting 10%
test set. Regarding the state-of-the-art approaches, we com-
pared against Otsu’s method for completeness in benchmarking Performance scores show that networks trained with Sentinel-
2 imagery perform better than Sentinel-1 in both U-Net and
Bitemporal OmbriaNet. Sentinel-2 data utilize three reflectance
channels (Band 3, Band 8, and Band 11). These channels were
selected due to their high response on water, according to lit-
erature. IR (Band8) and SWIR (Band11) are infrared channels
and water absorbs infrared radiation. IEEE JOURNAL OF SELECTED TOPICS IN APPLIED EARTH OBSERVATIONS AND REMOTE SENSING, VOL. 15, 2022 In this scenario,
the best evaluation metrics values are achieved using a batch size
of 8, regarding pixel accuracy and FW IoU.The resulting pre-
dictions in Table VII were implemented from the corresponding
models that were trained with a batch size of 8. observe a significant improvement in the IoU metric (about 5%). If examinedindividually, therangeof IoUvalues for thedifferent
batch sizes is far larger for the U-Net (i.e., approximately 10%)
as compared to the OmbriaNet (i.e., approximately 4%). This
observation indicates a higher model robustness. Additionally,
pixel accuracy exhibits a small increase, approximately 2–3%
when comparing the different architectures, and demonstrates
similar variations when examined for different batch sizes (i.e.,
about 10% for U-Net and only 2% for OmbriaNet). Experiments
showed that the model behavior presents minimum change observe a significant improvement in the IoU metric (about 5%). If examinedindividually, therangeof IoUvalues for thedifferent
batch sizes is far larger for the U-Net (i.e., approximately 10%)
as compared to the OmbriaNet (i.e., approximately 4%). This
observation indicates a higher model robustness. Additionally,
pixel accuracy exhibits a small increase, approximately 2–3%
when comparing the different architectures, and demonstrates
similar variations when examined for different batch sizes (i.e.,
about 10% for U-Net and only 2% for OmbriaNet). Experiments
showed that the model behavior presents minimum change In Fig. 7, a sample of inundated areas with rivers is illustrated
to demonstrate the model ability to segregate permanent water DRAKONAKIS et al.: OMBRIANET—SUPERVISED FLOOD MAPPING VIA CONVOLUTIONAL NEURAL NETWORKS 2351 Fig. 8. Qualitative comparison of selected sample with Multimodal OmbriaNet and their corresponding IoU metric. (a) Sentinel-1 (Pre-event). (b) Sentinel-1
(Post-event). (c) Sentinel-2 (Pre-event). (d) Sentinel-2 (Post-event). (e) Sentinel-1 U-Net (22.19%). (f) Sentinel-2 U-Net (59:13%). (g) Bitemporal OmbriaNet
(60:96%). (h) Multimodal OmbriaNet (81:90%). (i) Ground Truth (White pixels is flood). Fig. 8. Qualitative comparison of selected sample with Multimodal OmbriaNet and their corresponding IoU metric. (a) Sentinel-1 (Pre-event). (b) Sentinel-1
(Post-event). (c) Sentinel-2 (Pre-event). (d) Sentinel-2 (Post-event). (e) Sentinel-1 U-Net (22.19%). (f) Sentinel-2 U-Net (59:13%). (g) Bitemporal OmbriaNet
(60:96%). (h) Multimodal OmbriaNet (81:90%). (i) Ground Truth (White pixels is flood). evaluation. Since Otsu’s algorithm input is based on a single
value pixel intensity, we derive the modified normalized differ-
ence water index (MNDWI) [69] from the Sentinel-2 imagery,
provided by from flooded territories. IEEE JOURNAL OF SELECTED TOPICS IN APPLIED EARTH OBSERVATIONS AND REMOTE SENSING, VOL. 15, 2022 As we may observe, the Bitemporal
OmbriaNet depicts a high classification IoU score of 96.64%,
validating its better robustness compared to the traditional U-Net
scheme. 3) OmbriaNet—Multimodal: Bitemporal OmbriaNet show-
ed a significant improvement over the baseline of U-Net mo-
tivating the fusion of Sentinel-1 and Sentinel-2 preevent and
postevent imagery via our proposed multimodal OmbriaNet,
which indeed gave the best results. Specifically, running the
experiments with the same hyperparameters as in Section V-C2,
Multimodal OmbriaNet outperforms the baseline of U-Net by
over 10% and Bitemporal OmbriaNet by 7% in IoU score
achieving a value of 70.93%. Increasing the number of epochs
did not show a significant increase in accuracy. MNDWI = BGREEN −BSWIR
BGREEN + BSWIR MNDWI = BGREEN −BSWIR
BGREEN + BSWIR where BGREEN and BSWIR are reflectance values of the corre-
sponding channels. Additionally, for the ML-based SVM algo-
rithm, we choose a linear kernel over the RBF as it results in
a smaller time complexity and converges much faster on large
datasets (i.e., about 45 million pixels). The Hinge loss function
was selected, L2 norm for penalization, while the parameter C
is set to 10. Feature selection was performed on raw pixel values
and no complex features were constructed, but different sets of
features were tested depending on sensor and timestamp. The
multimodal combination was selected for the SVM. where BGREEN and BSWIR are reflectance values of the corre-
sponding channels. Additionally, for the ML-based SVM algo-
rithm, we choose a linear kernel over the RBF as it results in
a smaller time complexity and converges much faster on large
datasets (i.e., about 45 million pixels). The Hinge loss function
was selected, L2 norm for penalization, while the parameter C
is set to 10. Feature selection was performed on raw pixel values
and no complex features were constructed, but different sets of
features were tested depending on sensor and timestamp. The
multimodal combination was selected for the SVM. g
y
In Fig. 8, a sample comparison between different experi-
ments is presented. The Multimodal OmbriaNet improves the
prediction performance about 21% compared to Multitemporal
OmbriaNet achieving an IoU score 81.90% over 60.96%. A
remarkable note is that although in the Sentinel-2 postevent
instance, there is extensive cloud coverage over the flooded
areas, our multimodal network manages a very good delineation
of the event. Table VI gives the quantitative results over the
test set for Multimodal OmbriaNet. IEEE JOURNAL OF SELECTED TOPICS IN APPLIED EARTH OBSERVATIONS AND REMOTE SENSING, VOL. 15, 2022 Sentinel-1 one channel
(VV polarization) has a similar response as the emitting signal 4) Overall Comparison: In this paragraph, we illustrate the
final comparisons among the proposed architectures and the
related state-of-the-art approaches. In order to obtain a fair
comparison, we retrained all models (i.e., the baseline U-Net,
proposed Multimodal, and proposed Bitemporal) with 90% of
the OMBRIA dataset, and we tested on the resulting 10%
test set. Regarding the state-of-the-art approaches, we com-
pared against Otsu’s method for completeness in benchmarking IEEE JOURNAL OF SELECTED TOPICS IN APPLIED EARTH OBSERVATIONS AND REMOTE SENSING, VOL. 15, 2022 2352 TABLE VIII
QUANTITATIVE PERFORMANCE OF TRAINING/VALIDATION AND TESTING OF OMBRIANET WITH MISSING INPUT
TABLE IX
OMBRIANET PERFORMANCE COMPARISON ON NEW FLOOD EVENTS TABLE VIII
QUANTITATIVE PERFORMANCE OF TRAINING/VALIDATION AND TESTING OF OMBRIANET WITH MISSING INPUT Fig. 9. Comparison of selected sample from ID492 flood in France (IoU metric score). (a) Sentinel-1 (Pre-event). (b) Sentinel-1 (Post-event). (c) Sentinel-2
(Pre-event). (d) Sentinel-2 (Post-event). (e) Sentinel-1 U-Net (66:98%). (f) Sentinel-2 U-Net (63:19%). (g) Multimodal OmbriaNet (90:03%). (h) Ground Truth
(White pixels is flood). Fig. 9. Comparison of selected sample from ID492 flood in France (IoU metric score). (a) Sentinel-1 (Pre-event). (b) Sentinel-1 (Post-event). (c) Sentinel-2
(Pre-event). (d) Sentinel-2 (Post-event). (e) Sentinel-1 U-Net (66:98%). (f) Sentinel-2 U-Net (63:19%). (g) Multimodal OmbriaNet (90:03%). (h) Ground Truth
(White pixels is flood). 5) Case of Missing Input: As it is discussed
in previous
sections, OMBRIA dataset was constructed taking into account
realistic conditions as the purpose is for the network to be used
in real data. Clouds and drained parts of land are present in
the dataset. For completeness reasons, we performed several
experiments replacing successively each modality postevent in
Multimodal OmbriaNet with black imagery to simulate missing
input. We conducted experiments for two different batch sizes,
8 and 12, and we trained the networks for 50 epochs. The results 5) Case of Missing Input: As it is discussed
in previous
sections, OMBRIA dataset was constructed taking into account
realistic conditions as the purpose is for the network to be used
in real data. Clouds and drained parts of land are present in
the dataset. For completeness reasons, we performed several
experiments replacing successively each modality postevent in
Multimodal OmbriaNet with black imagery to simulate missing
input. We conducted experiments for two different batch sizes,
8 and 12, and we trained the networks for 50 epochs. The results reflects away on the water’s smooth surface. The higher channel
number in Sentinel-2 leads to information surplus, thus increas-
ing performance. Experimental results for Bitemporal OmbriaNet are lower
thantheU-NetwhenusingSentinel-1data.Thiscanbeexplained
by the speckle effect that is present in a number of preevent im-
agery. This effect creates problems in predictions in Bitemporal
OmbriaNet. Although this is not a setback for the Multimodal
OmbriaNet. DRAKONAKIS et al.: OMBRIANET—SUPERVISED FLOOD MAPPING VIA CONVOLUTIONAL NEURAL NETWORKS 2353 Fig. 10. Comparison of selected sample from ID501 flood in Albania (IoU metric score). (a) Sentinel-1 (Pre-event). (b) Sentinel-1 (Post-event). (c) Sentinel-2
(Pre-event). IEEE JOURNAL OF SELECTED TOPICS IN APPLIED EARTH OBSERVATIONS AND REMOTE SENSING, VOL. 15, 2022 (d) Sentinel-2 (Post-event). (e) Sentinel-1 U-Net (63.82%). (f) Sentinel-2 U-Net (78:30%). (g) Multimodal OmbriaNet (89:14%). (h) Ground Truth
(White pixels is flood). Fig. 10. Comparison of selected sample from ID501 flood in Albania (IoU metric score). (a) Sentinel-1 (Pre-event). (b) Sentinel-1 (Post-event). (c) Sentinel-2
(Pre-event). (d) Sentinel-2 (Post-event). (e) Sentinel-1 U-Net (63.82%). (f) Sentinel-2 U-Net (78:30%). (g) Multimodal OmbriaNet (89:14%). (h) Ground Truth
(White pixels is flood). Fig. 11. Comparison of selected sample from ID507 flood in Timor (IoU metric score). (a) Sentinel-1 (Pre-event). (b) Sentinel-1 (Post-event). (c) Sentinel-2
(Pre-event). (d) Sentinel-2 (Post-event). (e) Sentinel-1 U-Net (69:50%). (f) Sentinel-2 U-Net (79:08%). (g) Multimodal OmbriaNet (79:44%). (h) Ground Truth
(White pixels is flood). Fig. 11. Comparison of selected sample from ID507 flood in Timor (IoU metric score). (a) Sentinel-1 (Pre-event). (b) Sentinel-1 (Post-event). (c) Sentinel-2
(Pre-event). (d) Sentinel-2 (Post-event). (e) Sentinel-1 U-Net (69:50%). (f) Sentinel-2 U-Net (79:08%). (g) Multimodal OmbriaNet (79:44%). (h) Ground Truth
(White pixels is flood). experiments on new flood events that are not included in the
training process. These events are the EMS ID 492 (France)
501 (Albania), 507 (Timor), and 514 (Guyana). Event ID 492
took place in France in 2021 and includes regions that have
flooded in 2019 and mapped in event ID 416. The rest are
completely new events. For each flood, we used the pretrained
models of the U-Net with Sentinel-1, U-Net with Sentinel-2,
and Multimodal OmbriaNet that were used in Section V-C4. The results are presented in Table IX. Multimodal OmbriaNet
again surpassed U-Net both with Sentinel-1, by about 20%–30%
in IoU score, and with Sentinel-2, by about 15%–25%. This are shown on Table VIII. For the case of missing Sentinel-1
postevent data, the network scores 86.07% in PA, 63.25% in
IoU, and 77.74% in FW IoU. For the case of missing Sentinel-2
postevent data, the scores are 75.69% in PA, 53.15% in IoU, and
65.69% in FW IoU. Both cases achieve almost equal scores with
Bitemporal OmbriaNet. 6) Testing OmbriaNet Performance in New Floods: Samples
in OMBRIA dataset have spatial-temporal relationships as they
were produced from same regions. This relationship can result
two neighboring regions to share similar semantic segmen-
tation information and leading to overfitting. We performed 6) Testing OmbriaNet Performance in New Floods: Samples
in OMBRIA dataset have spatial-temporal relationships as they
were produced from same regions. VII. CONCLUSION In this article, we presented a novel approach to address the
problem of flood delineation, allowing detection of floods with
satellite imagery. We introduced the OmbriaNet network that
employs multimodal and multitemporal satellite imagery for
semantic segmentation using supervised learning under realistic
conditions. Our hope is that this article will contribute to the
efforts of flood disaster management. Our approach showed that
new platforms such as Google Earth Engine can be employed to
construct a supervised dataset for remote sensing applications. IEEE JOURNAL OF SELECTED TOPICS IN APPLIED EARTH OBSERVATIONS AND REMOTE SENSING, VOL. 15, 2022 This relationship can result
two neighboring regions to share similar semantic segmen-
tation information and leading to overfitting. We performed IEEE JOURNAL OF SELECTED TOPICS IN APPLIED EARTH OBSERVATIONS AND REMOTE SENSING, VOL. 15, 2022 2354 Fig. 12. Comparison of selected sample from ID514 flood in Guyana (IoU metric score). (a) Sentinel-1 (Pre-event). (b) Sentinel-1 (Post-event). (c) Sentinel-2
(Pre-event). (d) Sentinel-2 (Post-event). (e) Sentinel-1 U-Net (58.19%). (f) Sentinel-2 U-Net (53:72%). (g) Multimodal OmbriaNet (79:97%). (h) Ground Truth
(White pixels is flood). Fig. 12. Comparison of selected sample from ID514 flood in Guyana (IoU metric score). (a) Sentinel-1 (Pre-event). (b) Sentinel-1 (Post-event). (c) Sentinel-2
(Pre-event). (d) Sentinel-2 (Post-event). (e) Sentinel-1 U-Net (58.19%). (f) Sentinel-2 U-Net (53:72%). (g) Multimodal OmbriaNet (79:97%). (h) Ground Truth
(White pixels is flood). The closest work that includes fused data from Sentinel-1 and
Sentinel-2 is [49], which we outperform by more than 30% in
IoU. We also outperform [50] by 3% in PA and by 6% in FW
IoU, which are, to our knowledge, the highest scores in flood
delineation with remote sensing data. proves the network’s superiority on change detection for flood
events. U-Net with Sentinel-2 outperformed the U-Net with
Sentinel-1 in all cases. The scores indicate that our proposed
model is robust and effective on new and “unseen” flood events
as the performance is at least equal or better than Table VII. Figs. 9–12 show the qualitative results on selected samples with
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deep learning methods outperform the traditional thresholding
algorithms by at least 25% in IoU. SVMs perform decently if
both optical and SAR data are given. One remarkable note is
that bitemporality in our SAR data does not necessarily improve
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that is inevitably present. The best model is Multimodal Om-
briaNet that outperforms the SVM by 10% in IoU, Bitemporal
OmbriaNet with Sentinel-2 by 8%, Bitemporal OmbriaNet with
Sentinel-1 by 20%, and U-Net by more than 20%. Results
also suggest that OmbriaNet is robust and effective in flood
mapping under realistic conditions where input data are not
ideal, cloudy, or even missing. OMBRIA dataset includes ref-
erence imagery that has already masked out permanent water
bodies resulting our proposed architectures to learn how to
automatically distinguish flooded from permanent water. This
ability eliminates the necessity for manual permanent water
body annotation and drastically reduces the workload. OMBRIA
is an analysis ready dataset, which is introduced in this article. It is the first fused dataset comprising both optical and Radar
imagery with different timestamps, and conducts a complete
comparison with other state-of-the art methods not subjective. Ground-truth annotations provided by ESA can be of crucial
importance for tackling the flood mapping problem, as hand
labeling such types of data requires expertise in remote sensing
photointerpretation and is time consuming. Computer vision
contributessignificantlytoremotesensingproblemssuchasland
cover classification and cloud detection. There are few datasets
available for training flood detection algorithms using publicly
available satellite imagery. In this article, we focused on flooded
water detection in an effort to operationalize monitoring for
crisis situations. We formed and provided the OMBRIA dataset
to the research community in order to train deep learning algo-
rithms for flood detection without the overhead of generating
training and validation datasets. Future plans include the expansion of the dataset with more
samples so that it generalizes better. Furthermore, we will inves-
tigate the expansion of the architecture to include more spectral
bands in order to exploit the full potential of the Sentinel satellite IEEE JOURNAL OF SELECTED TOPICS IN APPLIED EARTH OBSERVATIONS AND REMOTE SENSING, VOL. 15, 2022 Since 2012, she has been a Research Assistant with
the Signal Processing Laboratory, Institute of Com-
puter Science, Foundation for Research and Technol-
ogy Hellas, Heraklion, Greece. From the past four
years, she has been working in the industry domain in
the fields of machine learning and big data analytics. Her main research interests
include machine learning, image processing, and computational photography
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A Flow-Based Generative Network for Photo-Realistic Virtual Try-on
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IEEE access
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cc-by
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Received March 28, 2022, accepted April 10, 2022, date of publication April 14, 2022, date of current version April 21, 2022. Digital Object Identifier 10.1109/ACCESS.2022.3167509 Digital Object Identifier 10.1109/ACCESS.2022.3167509 TAO WANG, XIAOLING GU
, (Member, IEEE), AND JUNKAI ZHU
Key Laboratory of Complex Systems Modeling and Simulation, School of Computer Science and Technology, Hangzhou Dianzi University, Hangzhou 310005,
China Corresponding author: Xiaoling Gu (guxl@hdu.edu.cn) Corresponding author: Xiaoling Gu (guxl@hdu.edu.cn) This work was supported in part by the Zhejiang Provincial Natural Science Foundation of China under Grant LY21F020019, a
by the National Science Foundation of China under Grant 61802100. ABSTRACT Image-based virtual try-on systems aim at transferring the try-on clothes onto a target person. Despite making considerable progress recently, such systems are still highly challenging for real-world
applications because of occlusion and drastic spatial deformation. To address the issues, we propose a novel
Flow-based Virtual Try-on Network (FVTN). It consists of three modules. Firstly, the Parsing Alignment
Module (PAM) aligns the source clothing to the target person at the semantic level by predicting a semantic
parsing map. Secondly, the Flow Estimation Module (FEM) learns a robust clothing deformation model
by estimating multi-scale dense flow fields in an unsupervised fashion. Thirdly, the Fusion and Rendering
Module (FRM) synthesizes the final try-on image by effectively integrating the warped clothing features
and human body features. Extensive experiments on a public fashion dataset demonstrate that our FVTN
qualitatively and quantitatively outperforms the state-of-the-art approaches. The source code and trained
models are available at https://github.com/gxl-groups/FVNT. INDEX TERMS Image-based virtual try-on, image synthesis, appearance flow. INDEX TERMS Image-based virtual try-on, image synthesis, appearance flow. is work is licensed under a Creative Commons Attribution 4.0 License. For more information, see https://creativecommons.org/licenses/by/4.0/ The associate editor coordinating the review of this manuscript and
approving it for publication was Inês Domingues
.
1https://viubox.com/
2https://www.trimirror.com/ II. RELATED WORK
A. VIRTUAL TRY-ON or TPS transformation for warping the source clothing [6],
[14], [36], [43] fail to generate precise appearance details
because such methods cannot deal with the transformations
of non-rigid objects such as clothes. Recently, flow-based
methods [13], [30], [46] show advantages in learning complex
non-rigid geometric deformation in comparison to the affine
transformation approaches. Inspired by it, we propose a novel
flow-based spatial alignment scheme for precisely capturing
the clothing deformation. The second one is how to render the
final try-on image by effectively fusing the contents of body
parts and warped clothes? The quality of try-on look highly
depends on the appearances of garments (e.g. texture, logo
and color) as well as the characteristics of the target person
(e.g. hair, face and arms). Previous approaches [14], [36]
using a composition mask to integrate clothing and human
body bring obvious boundary artifacts in the intersection
regions. These approaches overlook the occluded regions and
fail to synthesize the body parts flexibly. Conventional approaches for virtual try-on works are based
on graphics models. For instance, Sekine et al. [32] intro-
duced a virtual fitting system that adjusts 2D clothing images
to users by estimating their 3D body shape models from
single-shot depth images. Yang et al. [41] computed a 3D
model of a human body and outfits from a single-view
image. Pons-Moll et al. [28] used a multi-cloth 3D model
of the body and clothing for capturing a clothed person in
motion and retargeting the clothing to new body shapes. Patel et al. [27] proposed TailorNet for estimating clothing
deformation in 3D as a function of three factors: body shape,
body pose and garment style. Mir [26] proposed Pix2Surf to
digitally map the texture of clothing images to the 3D surface
of virtual garment items, which enables 3D virtual try-on in
real-time. 3D methods can generate good results for virtual
try-on, but usually, they require additional 3D measurements. y
y p
y
In this paper, we propose a novel Flow-based Virtual
Try-on Network (FVTN), which consists of three modules. The first one is the Parsing Alignment Module (PAM),
aligning the source clothing to the posture of the target
person at the semantic level. This module provides accurate
spatial information for subsequent modules. The second one
is the Flow Estimation Module (FEM), which learns clothing
deformation by estimating multi-scale dense flow fields in
an unsupervised fashion. I. INTRODUCTION try-on methods using generative models provide a more
economical solution, the goal of which is to naturally warp
the try-on clothes on a target person without leveraging
any 3D information. Although image-based virtual try-on
makes considerable progress recently, generating perceptu-
ally convincing virtual try-on images is highly challenging
for the real-world scenario. The main challenges lie in:
(1) Occlusion occurs in the target person. For example, the
target person’s arms may cross over the chest and occlude
the clothing region. (2) Varying deformation exists among
different human poses and shapes of the target person (e.g.,
limbs from non-overlapping to overlapping), which makes it
extremely hard to deform the garments and well fit the posture
and body shape of the target person. (3) Due to the drastic
spatial deformation from source clothing to the target person,
generating the try-on image that maintains the detailed visual
features of the original garment such as texture and color is a
non-trivial task. As online shopping has continued to grow in popularity,
virtually trying on clothes in an online fitting room has
achieved much attention in recent years. A photo-realistic
virtual try-on system will not only enhance the user shopping
experience by fitting different clothes without changing
them physically but also improve sales for retailers. This
motivates many companies to develop various virtual fitting
technologies, such as SenseMi,1 triMirror,2 etc. Classical virtual try-on methods primarily rely on com-
puter graphics to synthesize the try-on looks for users
based on their 3D body shapes, desired poses and target
clothing items [2], [28], [44], which can well control clothing
deformation and material performance. However, the huge
labor costs for 3D data annotation and upfront costs for
scanning equipment inhibit their large-scale deployment [14]. Motivated by the rapid development of image synthesis
methods [10]–[12], [19], [21], the image-based virtual The aforementioned challenges can be ultimately summed
up as two key problems for tackling image-based virtual
try-on. The first one is how to design a robust geometric
deformation scheme to warp the source clothing for fitting
the target person? Existing approaches relying on the affine The associate editor coordinating the review of this manuscript and The associate editor coordinating the review of this manuscript and
approving it for publication was Inês Domingues
. 1https://viubox.com/
2https://www.trimirror.com/ 40899 40899 T. Wang et al.: Flow-Based Generative Network for Photo-Realistic Virtual Try-On II. RELATED WORK
A. VIRTUAL TRY-ON II. RELATED WORK
A. VIRTUAL TRY-ON The predicted multi-scale flows
are used to establish visual correspondence between the
source clothing and the target try-on clothing in the feature
domain. The learned flow fields do not directly warp the
source clothing at the pixel level but the feature level. This
is because warping clothing at the pixel level would result
in the model having difficulty extracting large motions and
generating new contents [30]. The final part is the Fusion and
Rendering Module (FRM), aligning the source clothing to
the target person at the pixel level. By effectively integrating
the warped source clothing features and the body features, the
proposed FRM can generate accurate clothing appearances
and fine details of the human body. Experiments on the
VITON dataset [14] demonstrate that the proposed FVTN
can produce photo-realistic and perceptually convincing
try-on images. y
y
y
q
Compared to graphics models, image-based generative
models are more computationally efficient and broadly appli-
cable. For example, VITON [14] first proposed image-based
virtual try-on method, which generates warped clothes using
Thin Plate Spline (TPS) transformation and maps the texture
to the refined result with a composition mask. CP-VTON [36]
improves VITON by using neural networks to directly
learn the parameters of TPS for clothing warping, and thus
achieves more accurate alignment results. CP-VTON+ [25]
outperforms CP-VTON by improving the clothing warping
stage and blending stage. VTNFP [43] achieves better try-on
results than CP-VTON and VITON by concatenating the
high-level features extracted from the body parts and the
bottom garment, since CP-VTON and VITON only focus on
the upper garment. ACGPN [40] synthesizes try-on images
preserving both the characteristics of clothes and details of
the human identity by using three modules. Xintong et al. proposed ClothFlow [13] for handling pose-guided synthesis
and image-based virtual try-on. Similarly, ClothFlow and our
proposed FVTN both learn clothing deformation by using
flow-based methods. However, different from ClothFlow,
we leverage an unsupervised flow training scheme relying
on the photometric loss [42]. Furthermore, our FVTN uses
the learned flow to warp the garments at the feature level
instead of at the pixel level for extracting the large motions
and generate new contents. The main contributions of our work can be summarized as
follows: • We propose a new flow-based generative network with
three tailored modules for image-based virtual try-on. B. OPTICAL FLOW • We design a novel spatial alignment scheme in the
flow estimation module to precisely capture clothing
deformation by estimating multi-scale dense flow fields
in an unsupervised fashion. Optical flow [16], [17] is the task of estimating dense pixel-
to-pixel correspondence between two input images, which is
widely used in many applications such as action recognition,
motion tracking, video segmentation and 3D reconstruc-
tion. Optical flow has traditionally been approached as a
hand-crafted optimization problem, the objective of which is
defined as a trade-off between a data term and a regularization
term [1]. Recently, deep learning has been shown as a
promising alternative to traditional methods. FlowNet [7]
is the first trainable CNN for optical flow estimation. • We propose a novel image synthesis network to
synthesize the final try-on images by integrating the
warped clothing features and the body features. • Experimental results on VITON [14] verify that our
method qualitatively and quantitatively outperforms the
state-of-the-art methods. VOLUME 10, 2022 40900 VOLUME 10, 2022 T. Wang et al.: Flow-Based Generative Network for Photo-Realistic Virtual Try-On FIGURE 1. The overall network architecture of the proposed FVTN, which consists of three modules. Given the source clothing image Is and
the target person image It , Parsing Alignment Module (PAM) first aligns the source clothing to the posture of the target person at the
semantic level by predicting the target semantic parsing map Mt . With the predicted parsing map Mt , we obtain the semantic mask of target
clothing Mc
t . Based on Mcs (the semantic mask of source clothing) and Mc
t , Flow Estimation Module (FEM) learns clothing deformation by
estimating multi-scale flow fields {F1, F2, . . . , FN } in an unsupervised fashion. Relying on the estimated multi-scale flow fields, Fusion and
Rendering Module (FRM) renders the final try-on image I′
t by effectively integrating the features of warped clothes and features of the
human body. FIGURE 1. The overall network architecture of the proposed FVTN, which consists of three modules. Given the source clothing image Is and
the target person image It , Parsing Alignment Module (PAM) first aligns the source clothing to the posture of the target person at the
semantic level by predicting the target semantic parsing map Mt . With the predicted parsing map Mt , we obtain the semantic mask of target
clothing Mc
t . A. PARSING ALIGNMENT MODULE (PAM) To disentangle the generation of shape and appearance, PAM
aligns the source clothing Is to the target person It at the
semantic level. It takes the semantic mask of source clothing
Mc
s , the segmented source clothing Ic
s , the pose of the target
person Pt and the binary mask of the target person’s head
Mh
t as input to predict the target semantic parsing map Mt. The predicted parsing map is required to retain the body
parts and the pose of the target person as well as accurately
show the shapes and categories of the transformed source
clothing. To avoid annotating labels, Meister et al. [24] proposed
an end-to-end unsupervised learning approach by designing
a bidirectional flow-based loss function. Wang et al. [38]
further proposed an unsupervised learning framework that
models occlusion and large motions. Liu et al. [23] pro-
posed SelFlow that distills reliable flow estimations from
non-occluded pixels using self-supervised training. Unsuper-
vised optical flow estimation is closer to our setting. However,
different from these works, we focus on learning a flow for
establishing correspondence between the source clothing and
target try-on clothing. We use a human parser [9] to compute the parsing map
with 20 semantic labels for Is and It. Each parsing map is
represented as a one-hot tensor with 20 channels. On the other
hand, we use a state-of-the-art pose estimator [3] to estimate
the pose of the target person. Following [36], Pt is represented
as 18-channels heat maps that each one encodes one joint of
a human body. B. OPTICAL FLOW Based on Mcs (the semantic mask of source clothing) and Mc
t , Flow Estimation Module (FEM) learns clothing deformation by
estimating multi-scale flow fields {F1, F2, . . . , FN } in an unsupervised fashion. Relying on the estimated multi-scale flow fields, Fusion and
Rendering Module (FRM) renders the final try-on image I′
t by effectively integrating the features of warped clothes and features of the
human body. FlowNet2 [18] improves the flow accuracy of FlowNet by
cascading several variants of it. Subsequently, Ranjan and
Black introduced SpyNet [29], a compact spatial image
pyramid network, which warps images at multiple scales to
cope with large displacements. Recent notable contributions
to end-to-end trainable optical flow include PWC-Net [34]
and LiteFlowNet [18]. They proposed to use the feature
warping and cost volume at multiple pyramid levels in
a coarse-to-fine estimation, yielding more compact and
effective networks. We draw inspiration from those coarse-
to-fine flow estimation methods. fuses the warped features of source clothing and the features
of the human body for rendering the final try-on image. Fig. 2
illustrates details of these three modules. Ideally, we need an image triplet ⟨Is, It, Ir⟩to train the
FVTN, where Is is the source clothing image, It is the target
person image, and Ir stands for the ground-truth image. However, such a dataset is hard to obtain. Therefore, Ir is
replaced with It to train the FVTN in our implementation. III. PROPOSED METHOD As shown in Fig. 1, our FVTN is composed of three
modules. The first one is the Parsing Alignment Module
(PAM), which transfers the source clothing onto the target
person at the semantic level. The proposed PAM provides
accurate spatial and semantic information for subsequent
modules. The second one is the Flow Estimation Module
(FEM), which learns diverse spatial deformation between the
source clothing and the target try-on clothing by estimating
multi-scale dense flow fields in an unsupervised way. The
final part is the Fusion and Rendering Module (FRM), which In this module, we simply adopt a conditional generative
adversarial network [37], in which a U-Net structure is used
as the generator while a discriminator is utilized to distinguish
generated parsing map from the ground-truth parsing map. The overall objective function for PAM is formulated as: (1) LPAM = λadvLadv + λsegLseg 40901 VOLUME 10, 2022 T. Wang et al.: Flow-Based Generative Network for Photo-Realistic Virtual Try-On FIGURE 2. (a) Parsing Alignment Module (PAM). (b) Flow Estimation Module (FEM). (c) Fusion and Rendering Module (FRM). 2. (a) Parsing Alignment Module (PAM). (b) Flow Estimation Module (FEM). (c) Fusion and Rendering Module (FRM). where Ladv is the adversarial loss [37] and Lseg is the
pixel-wise cross-entropy loss. λadv and λseg are the trade-off
parameters for these two loss terms, which are set to 0.2 and 1,
respectively, in our experiments. the flow fields in an iterative manner, where the flow is
first estimated at low resolution followed by upsampled and
refined at high resolution. Specially, we deploy a two-stream weight-sharing Feature
Pyramid Network (FPN) to extract two feature pyramids
from Mc
s
and Mc
t , that is, {fs(1), fs(2),..., fs(N)} and
{ft(1), ft(2),..., ft(N)}, respectively, where N corresponds
to the lowest spatial resolution (in our case N = 5) and
1 corresponds to the highest spatial resolution. The extracted
multi-scale features will be used to estimate the flow from
the source clothing to the target one in an unsupervised
way. Beginning with the lowest spatial resolution, after
concatenating fs(N) and ft(N), a flow estimation layer
initially infers a coarse flow FN. III. PROPOSED METHOD Formally, The
pixel-wise
cross-entropy
loss
Lseg
constrains
pixel-level accuracy during semantic parsing map generation,
which is defined as: Lseg(Mt, ˜Mt) = −1
HW
HW
X
m=1
C
X
c=1
˜Mt log(Mt)
(2) (2) where H, W and C are height, width and the number of
channels of the parsing map, respectively. Mt is the generated
parsing map and ˜Mt is the ground-truth. FN = Def
fs(N), ft(N)
(3) (3) B. FLOW ESTIMATION MODULE (FEM) As we’ve discussed, building a robust clothing deformation
model is crucial for image-based virtual try-on. Early
methods of image-based virtual try-on [14], [25], [36], [43]
warp clothes by computing a Thin Plane Spline (TPS) trans-
formation. However, because of its low degree of freedom,
TPS transformation can only model limited geometric trans-
formations and is inflexible to achieve complex and non-rigid
deformation [46]. Considering that flow-based methods
can capture complex non-rigid geometric deformation [13],
[30], [46], we design an unsupervised flow-based clothing
deformation scheme without using explicit correspondence
annotation. where Def denotes the deformable convolution [4] layer. l
h
d d
l i
i h h
d f
bl where Def denotes the deformable convolution [4] layer. We replace the standard convolution with the deformable
convolution in the flow estimation layer for improving the
network’s ability to handle drastic spatial deformation, since
the standard convolution is limited by the lack of ability to
spatially transform the inputs [4]. At a higher spatial resolution, the flow estimation layer gets
a refined flow FN−1 by computing a residue flow RN−1 and
adding the upscaled flow field F↑2
N , as illustrate in Fig. 2(b). RN−1 is computed based on the upscaled flow field F↑2
N ,
fs(N −1) and ft(N −1). Formally, FN−1 = RN−1 + 2F↑2
N
(4)
RN−1 = Def
W
fs(N −1), 2F↑2
N
, ft(N −1)
(5) With the predicted parsing map Mt, we first obtain
the semantic mask of target clothing Mc
t . FEM takes Mc
s
and Mc
t as input to predict multi-scale dense flow fields
for establishing visual correspondence between the source
clothing and the target try-on clothing in the feature domain. To deal with the drastic spatial deformation existing between
the source clothing and the target try-on clothing, we estimate (4) (5) where W is warping operation with bilinear interpolation
when the flow field falls into a sub-pixel coordinate. This allows end-to-end training via stochastic gradient 40902 VOLUME 10, 2022 T. Wang et al.: Flow-Based Generative Network for Photo-Realistic Virtual Try-On hyper-parameter that controls the contributions of different
layers and is set by following [14]. descent [47]. Note that the resolution of FN is upsampled
with bilinear interpolation and its value is doubled. Such
process will be repeated until inferring the finest flow F1
from the two pyramial features with the highest spatial
resolution fs(1) and ft(1). C. FUSION AND RENDERING MODULE (FRM) Going beyond the clothing deformation model, it is another
great challenge to render the final try-on image by fusing the
contents of the human body and warped clothes. FRM accepts
the segmented source clothing Ic
s , the body parts of the target
person Ib
t , the head region of the target person Ih
t , the parsing
map of the target person Mt and the pose of the target person
Pt as input to synthesize the photo-realistic try-on image I′
t . Since we do not have the ground-truth flow, we leverage an
unsupervised flow training scheme relying on the photomet-
ric loss [42] with the clothing images. The overall objective
function for FEM is formulated as: Specifically, FRM adopts three encoders of the same
architecture, i.e., ENCc, ENCb and ENCh, to encode the
features for the source clothing, the body of the target person,
the head of the target person, respectively. Note that the three
encoders do not share weights during training. ENCc extracts
source clothing features from Ic
s through N downsampling
layers. Formally, LFEM = λphotLphot + λTV LTV + +λperc1Lperc1
(6) (6) where Lphot is a multi-scale photometric loss, LTV is a flow
regularization loss and Lperc1 is the perceptual loss [20]. λphot, λTV and λperc1 are the trade-off parameters for these
three loss terms, which are set to 5, 2 and 1, respectively,
in our experiments. ENCc(Ic
s ) = {fc(1), fc(2), . . . , fc(N)}
(10) (10) where fc(n), n = 1, . . . , N denotes the extracted clothing
features after n downsampling layers. The multi-scale photometric loss Lphot sums the photomet-
ric loss between the source clothing regions and the target one
at multiple scales for fast convergence [46], which is defined
as: ENCh extracts the head features of the target person
separately from the body parts to enhance the siginals of facial
features and hair features. Formally, Lphot(Ic
t , Ic
s , F) =
N
X
i=0
||ρ(Ic
t (i) −W(Ic
s (i), Fi))||1
(7) ENCh(Ih
t ) = {fh(1), fh(2), . . . , fh(N)}
(11) (11) where fh(n), n
=
1, . . . , N denotes the extracted head
features after n downsampling layers. where fh(n), n
=
1, . . . , N denotes the extracted head
features after n downsampling layers. C. FUSION AND RENDERING MODULE (FRM) where ρ(x) = (x2 + ϵ2)α is a penalty function for mitigating
the effects of outliers [42]. Ic
t and Ic
s is the segment image
with the clothing regions of the target clothing and the source
clothing, respectively. And i represents the spatial resolution
of images and flows. Note that Ic
t (i), Ic
s (i) and Fi have the
same spatial resolution. Likewise, ENCb extracts the body features of the target
person conditioned on Ib
t , Mt and Pt, ENCb(Ib
t , Mt, Pt) = {fb(1), fb(2), . . . , fb(N)}
(12) (12) where fb(n), n
=
1, . . . , N denotes the extracted body
features after n downsampling layers. With the removed
clothing and head regions, the arms and legs are represented
as body parts. where fb(n), n
=
1, . . . , N denotes the extracted body
features after n downsampling layers. With the removed
clothing and head regions, the arms and legs are represented
as body parts. The flow regularization loss LTV is a total variation-
based (TV) smoothness penalty term to regularize the flow
prediction, which is defined as: Next, the final try-on result I′
t is generated through N
decoding blocks, where each decoding block accepts the
concatenated warped clothing features, body features and
head features. Formally, LTV (FN, R) = ||1FN||1 +
N−1
X
i=1
||1Ri||1
(8) (8) Unlike previous methods [13], [46] that regularize the multi-
scale flows, we apply smoothness loss on the coarse flow FN
and the multi-scale residue flows. f (1)
dec = DEC
fb(N), W(fc(N), FN), fh(N)
f (2)
dec = DEC
f (1)
dec, W(fc(N −1), FN−1), fh(N −1)
In order to preserve realistic details and textures of source
clothing, we add the perceptual loss between Ic
t and the
warped source clothing segment image (i.e., W(Ic
s )
=
W(Ic
s , F0)). Specifically, the perceptual loss Lperc1 models
the distance between Ic
t and W(Ic
s ) in a feature space, which
is defined as: f (N)
dec = DEC
f (N−1)
dec
, W(fc(1), F1), fh(1)
(13) (13) where the clothing feature fc(n) is warped via the predicted
flow Fn from previous module. Note that fc(n) and Fn is
ensured to have the same spatial resolution. Tanh function
is applied after f (N)
dec to generate the normalized image, i.e. B. FLOW ESTIMATION MODULE (FEM) Finally, F1 is upsampled and its
value is doubled to F0
=
2F↑2
1 . Inspired by [35], the
flow estimation layers share weights between iterations for
speeding up model training and reducing the amount of model
parameters. C. FUSION AND RENDERING MODULE (FRM) I′
t = tanh(f (N)
dec ). Lperc1(Ic
t , W(Ic
s )) =
Nl
X
i=0
βi||φi(Ic
t ) −φi(W(Ic
s ))||1
(9) (9) Besides, to enhance the robustness of the mapping in FRM,
we introduce a body mask Mb
t for Ib
t to randomly remove
some regions of the human body, where Nl is the number of chosen layers. And φi(Ic
t )
denotes the feature map of image Ic
t at the i-th layer in a
VGG-19 [33] network pre-trained on ImageNet [5]. βi is the Ib
t = (1 −Mb
t ) ∗Ib
t
(14)
40903 Ib
t = (1 −Mb
t ) ∗Ib
t
(14) (14) 40903 VOLUME 10, 2022 VOLUME 10, 2022 The reconstruction loss is the L1 loss between the
synthesized image I′
t and the ground-truth image Ir, which
is defined as: LL1(I′
t , Ir) = ||I′
t −Ir||1
(16) (16) The perceptual loss Lperc2 models the distance between
the synthesized image I′
t and the ground-truth image Ir in a The perceptual loss Lperc2 models the distance between
the synthesized image I′
t and the ground-truth image Ir in a
feature space, i.e., Lperc2(I′
t , Ir) =
Nl
P
i=0
βi||φi(I′
t ) −φi(Ir)||1. feature space, i.e., Lperc2(I′
t , Ir) =
Nl
P
i=0
βi||φi(I′
t ) −φi(Ir)||1. 1) QUANTITATIVE RESULTS Table 1 reports the quantitative comparison between our
approach and the baselines. Except for SSIM and IS, our
method significantly outperforms all baselines on FID and
LPIPS. The IS metric provides a proxy to evaluate the
performance but it is not a good measurement of how well
the model is performing our task. Although our method
gets the second-highest SSIM score, the FID and LPIPS A. IMPLEMENTATION DETAILS We conduct the experiments on the VITON dataset [14]
to evaluate the proposed FVTN on virtual try-on task. We follow [36] to split 16,253 image pairs into a training set
and a validation set with 14,221 and 2,032 pairs, respectively. Each image pair includes a front-view woman image and a
top clothing image. Resolution for all images in VITON is
256 × 192. Note that the images of the validation set are
rearranged into unmatched pairs as the test set. B. EVALUATIONS We mainly perform visual comparison of our method with
recent proposed virtual try-on networks [13], [25], [36], [40]. VOLUME 10, 2022 T. Wang et al.: Flow-Based Generative Network for Photo-Realistic Virtual Try-On TABLE 1. Quantitative comparison results of our proposed method and
the baselines on the virtual try-on task. A higher score of SSIM/IS is
better. A lower score of FID/LPIPS is better. TABLE 1. Quantitative comparison results of our proposed method and
the baselines on the virtual try-on task. A higher score of SSIM/IS is
better. A lower score of FID/LPIPS is better. where Mb
t is sampled from the Irregular Mask Dataset [22]. Without Mb
t , FRM tends to learn an identity mapping for
the body parts (i.e., arms and legs). For example, when
transferring a long-sleeve garment to the target person in
a short-sleeve one, the arm parts should be rendered with
clothing textures instead of retaining the original arms. In the opposite case, when transferring a short-sleeve garment
to the target person in a long-sleeve one, the arm parts
should be synthesized instead of retaining the original
clothing textures. By introducing Mb
t , FRM can adaptively
determine the generation or preservation of the body
parts. The overall objective function for FRM is formulated as: LFRM = λL1LL1 + λperc2Lperc2 + λstyLstyle
(15) (15) and a learning rate of 0.0001 for 15 epochs. FEM is trained
with a minibatch of size 8 and a learning rate of 0.00005 for
20 epochs. In FEM, the FPN consists of five encoding layers
where each layer is a convolution layer with kernel 3 and
stride 2 followed by one residual block. Besides, we use a
deformable convolution with kernel 3 and stride 1 as the
flow estimation layer. FRM is trained with a minibatch of
size 8 and a learning rate of 0.0001 for 20 epochs. In FRM,
three encoders share the same architecture, consisting of
five downsampling layers where each layer contains two
convolution layers with kernel 3 and stride 2 and with kernel 3
and stride 1, respectively. where LL1 is the reconstruction loss, Lperc2 is the perceptual
loss [20] and Lstyle is the style loss [8]. λL1, λperc2 and λsty
are the trade-off parameters for these three loss terms, which
are set to 1, 1 and 400, respectively, in our experiments. 3) EVALUATION METRICS i=0
Lstyle is the style loss that matches style information
between the synthesized image and the ground-truth image,
which is defined as: We adopt four widely used evaluation metrics to evaluate the
quality of the synthesized images. Inception Score (IS) [31]
is used to measure the quality and diversity of the generated
images. Structural Similarity (SSIM) [39] is used to measure
the similarity between the generated images and ground-
truth images. Fréchet Inception Distance (FID) [15] is
used to measure the realism of the generated images by
computing the Wasserstein-2 distance between distributions
of the generated images and ground-truth images. Learned
Perceptual Image Patch Similarity (LPIPS) [45] is used
to measure how similar are two images by computing the
distance between the generated images and generated images
at the perceptual domain. Lstyle(I′
t , Ir) =
Nl
X
i=1
γi||ψi(I′
t ) −ψi(Ir)||1
(17) (17) where ψi(I′
t ) denotes the Gram matrix [8] of image I′
t at
the i-th layer in a VGG-19 [33] network pre-trained on
ImageNet [5]. γi is the hyper-parameter that controls the
contributions of different layers and is set by following [13]. 2) TRAINING DETAILS We train three modules of the proposed FVTN separately. We use the Adam optimizer with β1 = 0.9 and β2 = 0.999 in
all experiments. PAM is trained with a minibatch of size 16 VOLUME 10, 2022 40904 T. Wang et al.: Flow-Based Generative Network for Photo-Realistic Virtual Try-On FIGURE 3. Comparison visual results of different approaches on the virtual try-on task. FIGURE 3. Comparison visual results of different approaches on the virtual try-on task. more accurately reflect the similarity between the synthesized
images and the ground-truth images. more accurately reflect the similarity between the synthesized
images and the ground-truth images. the second column is the target person image and the
other columns are the synthesized virtual try-on images
with different approaches. We observe that CP-VTON
produces the worst visual effects, which fails to handle
clothing deformation and generate the fine details of the
human body. This observation verifies the inefficiency of 2) QUALITATIVE RESULTS
Figure 3 presents a visual comparison of the evaluated
methods, where the first column is the garment image,
VOLUME 10, 2022 2) QUALITATIVE RESULTS Figure 3 presents a visual comparison of the evaluated
methods, where the first column is the garment image, 40905 T. Wang et al.: Flow-Based Generative Network for Photo-Realistic Virtual Try-On FIGURE 4. More visual try-on results of the proposed FVTN. FIGURE 4. More visual try-on results of the proposed FVTN. outperforms these three methods because of its proposed
second-order spatial transformation constraint and inpainting
module. However, we notice visible high-frequency artifacts
in the collar regions of try-on images generated by ACGPN. By contrast, our proposed FVTN generates more perceptually
convincing synthetic results which warp the garments more
naturally and align them with the human body more
accurately. TPS for modeling the highly non-rigid transformation like
clothing. What’s more, the composition mask of CP-VTON
cannot flexibly synthesize the body parts. By improv-
ing the clothing warping stage and the blending stage,
CP-VTON+ gets better visual results than CP-VTON,
especially in the case of body occlusion. Compared with
CP-VTON and CP-VTON+, ClothFlow achieves much
better try-on results, especially in the clothing regions. Such
comparison demonstrates the advantages of the flow-based
methods during learning clothing deformation. However,
ClothFlow gets unsatisfactory human body parts because
of its simple try-on image rendering model. ACGPN Figure 4 displays more synthetic examples of our FVTN in
which different target persons under arbitrary poses virtually
try on various garments. Notably, our method preserves the
fine-grained appearance details of the garments (such as the 40906 VOLUME 10, 2022 VOLUME 10, 2022 T. Wang et al.: Flow-Based Generative Network for Photo-Realistic Virtual Try-On
FIGURE 5. Ablation study: synthesis quality evaluation on the virtual try-on task. T. Wang et al.: Flow-Based Generative Network for Photo-Realistic Virtual Try-On FIGURE 5. Ablation study: synthesis quality evaluation on the virtual try-on task. Several variants of the FVTN are trained: (1) w.o/iter, the
model using a direct flow estimation scheme instead of an
iterative flow estimation scheme in FEM. (2) w.o/deconv, the
model using the standard convolution instead of deformable
convolution in the flow estimation layer. (3) w.o/multi,
the model using conventional single-scale photometric loss
in FEM. (4) w.o/fwarp, the model accepting the warped
clothing as input instead of the warped feature in FRM. (5) w.o/mask, the model accepting the body parts of the
target person Ib
t
without the body mask Mb
t
as input in
FRM. logos and clothing textures) along with the body parts under
complex posture changes and occlusion. 2) QUALITATIVE RESULTS Our FVTN can
handle different types of body shapes because PAM provides
accurate spatial information by aligning the source clothing
to the posture of the target person at the semantic level. To sum up, these quantitative and qualitative results verify
the effectiveness of our FVTN. 4) USER STUDY We further evaluate the image quality of our synthesized
images via a human subjective study involving 20 partic-
ipants. Following [40], given two generated images, each
participant is asked to choose a better and more realistic
image meeting three criteria: (1) how well the target clothing
characteristics of the source clothing image are preserved;
(2) how photo-realistic the whole image is; (3) how good
the whole person seems. Our FVTN achieves significantly
better human evaluation scores on the image-based virtual
try-on, as shown in Table 2. The results of the user study
are consistent with those of qualitative and quantitative
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the proportion of images that human subjects regard our method are
better and more realistic than the compared method. FIGURE 6. Failure cases of our method on the virtual try-on task. TABLE 2. User study results on the VITON dataset. The results indicate
the proportion of images that human subjects regard our method are
better and more realistic than the compared method. TABLE 2. User study results on the VITON dataset. The results indicate
the proportion of images that human subjects regard our method are
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virtual try-on task. The example of the top row is caused by
the rarely-seen human poses while another example is due to
the viewpoint transformation from the front view to the back [15] M. Heusel, H. Ramsauer, T. Unterthiner, B. Nessler, and S. Hochreiter,
‘‘GANs trained by a two time-scale update rule converge to a local Nash
equilibrium,’’ in Proc. NIPS, 2017, pp. 6626–6637. 40908 VOLUME 10, 2022 T. Wang et al.: Flow-Based Generative Network for Photo-Realistic Virtual Try-On [16] B. K. P. Horn and B. G. Schunck, ‘‘Determining optical flow,’’ Artif. Intell.,
vol. 17, nos. 1–3, pp. 185–203, Aug. 1980. [40] H. Yang, R. Zhang, X. Guo, W. Liu, W. Zuo, and P. Luo, ‘‘Towards
photo-realistic virtual try-on by adaptively generating↔preserving image
content,’’ in Proc. IEEE/CVF Conf. Comput. Vis. Pattern Recognit. (CVPR), Jun. 2020, pp. 7847–7856. [17] P. Hu, G. Wang, and Y.-P. Tan, ‘‘Recurrent spatial pyramid CNN for optical
flow estimation,’’ IEEE Trans. Multimedia, vol. 20, no. 10, pp. 2814–2823,
Oct. 2018. [41] S. Yang, T. Amert, Z. Pan, K. Wang, L. Yu, T. L. Berg, and
M. C. Lin, ‘‘Detailed garment recovery from a single-view image,’’ CoRR,
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‘‘FlowNet 2.0: Evolution of optical flow estimation with deep networks,’’
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style transfer and super-resolution,’’ in Proc. JUNKAI ZHU is currently pursuing the master’s
degree with Hangzhou Dianzi University. His
research interests include computer vision and
deep learning. TAO WANG is currently pursuing the master’s
degree with Hangzhou Dianzi University. His
research interests include computer vision and
deep learning. 5) FAILURE CASES AND LIMITATIONS [39] Z. Wang, A. C. Bovik, H. R. Sheikh, and E. P. Simoncelli, ‘‘Image quality
assessment: From error visibility to structural similarity,’’ IEEE Trans. Image Process., vol. 13, no. 4, pp. 600–612, Apr. 2004. 40909 VOLUME 10, 2022 VOLUME 10, 2022 VOLUME 10, 2022
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Interventions, outcomes and outcome measurement instruments in stillbirth care research: A systematic review to inform the development of a core outcome set
|
BJOG
| 2,023
|
cc-by
| 14,768
|
Danya Bakhbakhi1 | Dimitrios Siassakos2 | Anna Davies3
| Abi Merriel1
|
Katie Barnard4
| Emma Stead5 | Clare Shakespeare1 | James M. N. Duffy6 |
Lisa Hinton7 | Karolina McDowell4 | Anna Lyons8 | Abigail Fraser1 |
Christy Burden1 | iCHOOSE Collaborative Group Danya Bakhbakhi1 | Dimitrios Siassakos2 | Anna Davies3
| Abi Merriel1
|
Katie Barnard4
| Emma Stead5 | Clare Shakespeare1 | James M. N. Duffy6 |
Lisa Hinton7 | Karolina McDowell4 | Anna Lyons8 | Abigail Fraser1 |
Christy Burden1 | iCHOOSE Collaborative Group 1University of Bristol, Bristol, UK
2Institute for Women's Health, University
College London, London, UK
3Centre for Academic Child Health,
University of Bristol, Bristol, UK
4North Bristol NHS Trust, Bristol, UK
5Liverpool University Hospitals Foundation
Trust, Liverpool, UK
6North Middlesex University Hospital NHS
Trust, London, UK
7THIS Institute, University of Cambridge,
Cambridge, UK
8Northern General Hospital, Sheffield, UK 1University of Bristol, Bristol, UK
2Institute for Women's Health, University
College London, London, UK
3Centre for Academic Child Health,
University of Bristol, Bristol, UK
4North Bristol NHS Trust, Bristol, UK
5Liverpool University Hospitals Foundation
Trust, Liverpool, UK
6North Middlesex University Hospital NHS
Trust, London, UK
7THIS Institute, University of Cambridge,
Cambridge, UK
8Northern General Hospital, Sheffield, UK Background: A core outcome set could address inconsistent outcome reporting and
improve evidence for stillbirth care research, which have been identified as an im-
portant research priority. p
p
y
Objectives: To identify outcomes and outcome measurement instruments reported
by studies evaluating interventions after the diagnosis of a stillbirth. Search strategy: Amed, BNI, CINAHL, ClinicalTrials.gov, Cochrane Central
Register of Controlled Trials, Cochrane Database of Systematic Reviews, Embase,
MEDLINE, PsycINFO, and WHO ICTRP from 1998 to August 2021. y
g
Selection criteria: Randomised and non-randomised comparative or non-
comparative studies reporting a stillbirth care intervention. g
Data collection and analysis: Interventions, outcomes reported, definitions and
outcome measurement tools were extracted. Correspondence
Danya Bakhbakhi, Department of
Translational Health Sciences, Bristol Medical
School, University of Bristol, Faculty of Health
Sciences, Bristol, UK. Email: danya.bakhbakhi@bristol.ac.uk
Funding information
Research Trainees Coordinating Centre,
Grant/Award Number: NIHR
DRF-2017-10-130 Main results: Forty randomised and 200 non-randomised studies were included. Fifty-eight different interventions were reported, labour and birth care (52 studies),
hospital bereavement care (28 studies), clinical investigations (116 studies), care in a
multiple pregnancy (2 studies), psychosocial support (28 studies) and care in a sub-
sequent pregnancy (14 studies). A total of 391 unique outcomes were reported and
organised into 14 outcome domains: labour and birth; postpartum; delivery of care;
investigations; multiple pregnancy; mental health; emotional functioning; grief and
bereavement; social functioning; relationship; whole person; subsequent pregnancy;
subsequent children and siblings and economic. S Y S T E M A T I C R E V I E W S Y S T E M A T I C R E V I E W Accepted: 26 October 2022
DOI: 10.1111/1471-0528.17390 Accepted: 26 October 2022
DOI: 10.1111/1471-0528.17390 | 1
wileyonlinelibrary.com/journal/bjo This is an open access article under the terms of the Creative Commons Attribution License, which permits use, distribution and reproduction in any medium, provided the
original work is properly cited.
© 2023 The Authors. BJOG: An International Journal of Obstetrics and Gynaecology published by John Wiley & Sons Ltd.
Abigail Fraser and Christy Burden: Joint Last Authors.
See Appendix 1 for iCHOOSE Collaborative Group members. Danya Bakhbakhi1 | Dimitrios Siassakos2 | Anna Davies3
| Abi Merriel1
|
Katie Barnard4
| Emma Stead5 | Clare Shakespeare1 | James M. N. Duffy6 |
Lisa Hinton7 | Karolina McDowell4 | Anna Lyons8 | Abigail Fraser1 |
Christy Burden1 | iCHOOSE Collaborative Group A total of 242 outcome measure-
ment instruments were used, with 0–22 tools per outcome. Conclusions: Heterogeneity in outcome reporting, outcome definition and meas-
urement tools in care after stillbirth exists. Considerable research gaps on specific
intervention types in stillbirth care were identified. A core outcome set is needed to
standardise outcome collection and reporting for stillbirth care research. BJOG. 2023;00:1–17. Abigail Fraser and Christy Burden: Joint Last Authors. 2.1 As very few randomised trials of care after stillbirth exist,
we felt it was necessary to include observational studies in
our methods. This approach was designed to facilitate the
development of a comprehensive long-list of potential out-
comes for inclusion in a core outcome set for stillbirth care
research. With assistance from a clinical librarian (KB), elec-
tronic searches of Amed, BNI, CINAHL, ClinicalTrials.gov,
Cochrane Central Register of Controlled Trials, Cochrane
Database of Systematic Reviews, Embase, MEDLINE,
PsycINFO and WHO ICTRP databases were conducted
with a date limit of 1998 to 2019, updated in August 2021. For pragmatic reasons, the research team decided to limit
the search to a generation's worth of research data (approxi-
mately 20 years) to ensure results included seminal stillbirth
care research and relevant contemporary outcomes. Free
text and subject heading terms were searched, such as still-
birth, fetal death, perinatal mortality and fetal mortality, and
methodological filters were applied. A detailed search strat-
egy is included in Appendix S1. Reference lists of extracted
articles and relevant systematic reviews were searched. There is a range of potential interventions that tackle dif-
ferent aspects of care after a stillbirth across the life course,
from the initial diagnosis of the death of a baby, bereavement
care and interventions to understand why a baby has died,
to long-term psychosocial support and care in a subsequent
pregnancy. Cochrane reviews exploring these aspects of care
have unanimously found few randomised controlled trials
to guide clinical practice and improve care after a stillbirth
has been diagnosed.8–10 The lack of evidence is further com-
pounded by heterogeneity in outcome reporting, leading to
a difficulty in synthesising and appraising the results of pre-
viously conducted studies. Perhaps it is unsurprising that heterogeneity exists, given
the array of interventions available at different timepoints,
addressing different aspects of the stillbirth. Nonetheless, it
is important to identify and measure outcomes consistently
when investigating mental, physical and social healthcare
and impacts associated with the experience of stillbirth
care.2 This is particularly important in order to build a
comprehensive evidence base on the interventions that are
most likely to be effective. 2.3 The identified publications were uploaded to Covidence
systematic review software and duplicates removed.15 Prior
to abstract and full-text screening, all review authors had
training on the study's objectives, eligibility criteria and
outcome extraction. All titles and abstracts were screened
independently by at least two members of the review team
(two of DB, AM, AD, CS, KB) with previous experience of
systematic review methodology. Full text articles identified
from the screening process were then assessed for eligibility
by two reviewers. Due to the large number of studies, a team
of reviewers were involved in the full text review and data
extraction process (DB, AM, AD, CS, KD, KB, ES, AL, CB). An international survey in 2019 nominated the devel-
opment of a core outcome set for stillbirth research as an
important and urgent, top-five priority to inform clini-
cal practice in a pregnancy subsequent to stillbirth.12 The
iCHOOSE study is addressing and expanding these pri-
orities by developing a core outcome set for stillbirth care
research.13 Here we report on a systematic review that aims
to identify what interventions and outcomes have been
reported as an initial step in core outcome set development. 2.2 | Study eligibility 2.2 See Table 1 for inclusion and exclusion criteria for systematic
review. 1 | INTRODUCTION In 2019, an estimated 2 million babies were stillborn.1
Previous research has documented the devastating negative
medical, social and psychological impact of stillbirth on
families.2,3 Studies have found that the care parents receive
after the diagnosis stillbirth is inconsistent and often subop-
timal.4,5 There is a consensus among the stillbirth research
community and bereaved parents that there needs to be
more evidence-based care available to improve care follow-
ing stillbirth for families worldwide.4,6,7 2.1 By developing a core outcome
set, a minimum set of outcomes that should be collected
and reported in a given study, the same outcomes could be
measured using the same measurement tools, minimising
outcome reporting bias.11 Similar outcomes can therefore
can be compared and combined, thus strengthening the ev-
idence base and statistical power to inform best practice and
improve care.11 K E Y W O R D S core outcome set, patient and public involvement, stillbirth, stillbirth care, systematic review This is an open access article under the terms of the Creative Commons Attribution License, which permits use, distribution and reproduction in any medium, provided the
original work is properly cited. © 2023 The Authors. BJOG: An International Journal of Obstetrics and Gynaecology published by John Wiley & Sons Ltd. Abigail Fraser and Christy Burden: Joint Last Authors. See Appendix 1 for iCHOOSE Collaborative Group members. 2 |
1 | INTRODUCTION BAKHBAKHI et al. checklist).14 The full protocol for the development of the core
outcome set for stillbirth care research has been published
elsewhere.13 2.5 Data were extracted into a standardised data extraction
sheet using Google FORMS, which was directly input into
a Microsoft EXCEL spreadsheet. The data extraction form
was developed and piloted with members of the review team
prior to its use. Extracted data were: basic publication details
(author and date of publication); study setting; study popula-
tion; details of intervention; study methodology; outcomes
measured; their definition (if stated); their relevant outcome
measurement tool (if applicable); and patient and public in-
volvement in the research design. Outcomes were extracted 2.6 | Quality assessment The systematic review was prospectively registered on
PROSPERO International prospective register of systematic
reviews (CRD42018087748) and adheres to the Preferred
Reporting Items for Systematic Reviews and Meta-Analyses
(PRISMA) guidelines (see Appendix S2 for the PRISMA Risk of bias assessment was initially included in the protocol;
however, quality assessment was not relevant in the context
of identifying reported outcomes, as the aim of this study
was to create a long-list of outcomes and identify outcome SYSTEMATIC REVIEW OF STILLBIRTH CARE OUTCOMES 1
Inclusion and exclusion criteria for systematic review of interventions, outcomes and measurement instruments. • Systematic reviews, case reports, editorials,
review articles, abstracts, protocols and grey
literature • Systematic reviews, case reports, editorials,
review articles, abstracts, protocols and grey
literature • Randomised controlled trials
• Non-randomised comparative and non-comparative studies (e.g. cohort, case–control, cross-sectional studies)
• English-language studies • Qualitative studies • Non-English language studies • Miscarriage, neonatal death, termination of
pregnancy • Note: an inclusive approach was adopted –
studies were still included if they also included
stillbirth and another type of pregnancy loss in
their population of interest, e.g. perinatal death
(stillbirth and neonatal death). Only stillbirth-
relevant outcomes were extracted. • No restriction by country worldwide (including high-, middle-,
lower-income countries according to World Bank Lending Group
definition271) • Pregnancy loss <20 weeks' gestation • Studies including healthcare professionals
only as research and outcome measurement
population • Any study evaluating an intervention (or type of care) following the
identification of stillbirth • Interventions prior to stillbirth being identified • Interventions for prevention of stillbirth (with
the exception of interventions to prevent
recurrence of stillbirth in a subsequent
pregnancy after stillbirth) • Immediate hospital interventions, e.g. induction of birth, mode of
birth, standard hospital/bereavement care • Interventions for understanding the causes of stillbirth, e.g. clinical
investigations, postmortem, parental engagement in the perinatal
mortality review process • Detailed histopathological or mechanistic
molecular studies e.g. investigations of specific
lesions in placentas, specific genetic abnormality
or where main aim was not to identify cause of
death • Interventions in the follow up period in the community, e.g. bereavement support, social support • Psychosocial interventions, e.g. counselling, psychotherapy, social
support • Interventions in the inter-pregnancy interval to improve health
optimization • Interventions in the subsequent pregnancy after stillbirth, e.g. medical. Quality assessment psychosocial, support • Clinical/medical, care experience, psychological, social, economic,
resource outcomes • Labour & birth, postpartum (within the first 6 weeks), within the
first year, within the first 5 years (medium term), 5 years or more
(longer-term outcomes) g
• Subsequent pregnancy after stillbirth outcomes, e.g. clinical
or psychological outcomes specifically related to a subsequent
pregnancy measurement tools for stillbirth care research, not to syn-
thesise any measured effect. Therefore, we do not report on
risk of bias. verbatim from the published abstract, methods or results
including tables. Data extraction from all publications was
conducted by the primary author (DB) and team members
conducted independent data extraction on 50% of these to
ensure reliability of extraction. All disagreements were re-
solved through a third senior reviewer (CB). • Studies that do not report an outcome following
an intervention after stillbirth 3 | RESULTS Our initial searches identified 21 893 records (Appendix S1). After excluding 6398 duplicate records, 15 495 titles and ab-
stracts were screened. An additional 217 articles were identi-
fied from searching the reference lists of identified articles
and relevant systematic reviews. A total of 1492 studies
were included for full text review. Of these, 240 studies met
the inclusion criteria, representing approximately 298 762
participants.17–256 Similar interventions were grouped into the following
categories: labour and birth care, postpartum bereavement
care, investigations into causes of stillbirth, psychosocial
support, multiple pregnancy and interventions in a subse-
quent pregnancy. Heterogeneity in outcome reporting was
assessed in randomised controlled trials according to in-
tervention category. We calculated the number of different
definitions and outcome measurement tools described for an
individual outcome. The frequency of outcomes assessed at
specific time intervals post-stillbirth is reported. An info-
graphic was produced to illustrate the types and timings of
interventions after stillbirth (Figure 1). See Table S1 for detailed characteristics of included stud-
ies and Appendix S3 for PRISMA flow diagram. Studies from 64 different countries were included. A total
of 183 studies conducted research in high-income, 24 from
upper/middle income, 28 from lower-middle and five from
low-income countries. The majority of studies were con-
ducted in Europe (111 studies), followed by North America
(52 studies) and Asia (42 studies). Only 23 studies included
fathers in their interventions. Lastly, of 240 studies, only 10
involved patients and members of the public in the study 2.7 | 2.6 Following data extraction, true duplicate outcomes were re-
moved. Subsequently, to ensure methodological transparency,
a further process was conducted whereby two reviewers (a cli-
nician, DB and an experienced researcher, AD) organised and
classified the outcomes into outcome domains independently
using the Cochrane reviews and COMET core outcome set
database taxonomy.16 This organisation process allowed for BAKHBAKHI et al. the results and review of the manuscript. The parent in-
volvement panel included 11 bereaved parents and had
global representation (including Africa, Australasia,
Europe, North America) through the iCHOOSE collabora-
tive group. outcomes described using the same terminology to be iden-
tified and grouped together to enable identification of truly
unique outcomes. The Cochrane reviews and COMET taxon-
omy had more clinical domains than required and therefore
the outcomes were further grouped into an adapted stillbirth
care research outcome taxonomy (Table S2).16 The adapted
taxonomy was created to better reflect the needs of stillbirth
care research and was developed from ongoing qualitative re-
search and bereaved parent input. 2.7 Parents who experienced a stillbirth were involved in the
design of the research question through to the analysis of F IG U R E 1
Types and timing of interventions for stillbirth care research. *Number illustrates number of studies. Infographic by Anni King, Senior
Research Associate in Medical Imaging, Bristol, UK. F IG U R E 1
Types and timing of interventions for stillbirth care research. *Number illustrates number of studies. Infographic by Anni King, Senior
Research Associate in Medical Imaging, Bristol, UK. SYSTEMATIC REVIEW OF STILLBIRTH CARE OUTCOMES TA B L E 2
Study characteristics for included studies in the systematic
review. Types of intervention
Number
of studies
(n = 240)
Labour and birth care
Induction of labour
46 (19.2%)
General labour and birth
2 (0.8%)
Mode of birth
3 (1.3%)
Neural axial analgesia
1 (0.4%)
General hospital/bereavement care
Multi-component bereavement carea
15 (6.3%)
Seeing, holding and making memories with baby
12 (5%)
Bereavement photography
1 (0.4%)
Investigations to understand cause of stillbirth
Multi-component postmortem investigationsb
41 (17.1%)
Postmortem
28 (11.7%)
Postmortem & additional imaging
9 (3.8%)
Genetic testing
7 (2.9%)
Placental examination
7 (2.9%)
Verbal autopsy
6 (2.5%)
Postmortem imaging
4 (1.7%)
Minimally invasive autopsy and biopsy
3 (1.3%)
Testing for thrombophilia
3 (1.3%)
Antinuclear antibody test
1 (0.4%)
Educational programme for professionals and
multi-component investigations
1 (0.4%)
Genetic counselling
1 (0.4%)
Kleihauer–Betke testing
1 (0.4%)
Parental engagement in the perinatal mortality
review
1 (0.4%)
Perinatal death clinical investigation tool
1 (0.4%)
Perinatal Death Surveillance and Response
(PDSR) system
1 (0.4%)
Perinatal mortality review
1 (0.4%)
Stillbirth in a multiple pregnancy
Bereavement care for stillbirth in a multiple
pregnancy
1 (0.4%)
Intrauterine rescue transfusion
1 (0.4%)
Psychosocial support
Bereavement support intervention
5 (2.1%)
Cognitive behavioural therapy
4 (1.7%)
Counselling
4 (1.7%)
Online yoga
3 (1.3%)
Social supportd
3 (1.3%)
Internet peer support group
2 (0.8%)
Support groups
2 (0.8%)
Intergenerational bereavement programme
1 (0.4%)
Interpersonal psychotherapy
1 (0.4%)
Massage
1 (0.4%)
Mindfulness
1 (0.4%)
Occupation-based retreat
1 (0.4%)
Care in a subsequent pregnancy
Thromboprophylaxis in a subsequent pregnancy
6 (2.5%)
General care in a subsequent pregnancy
3 (1.3%)
Intravenous immunoglobulin in a subsequent
pregnancy
1 (0.4%)
(Continues) TA B L E 2
Study characteristics for included studies in the systematic
review. design and selection of their outcomes and/or outcome
measurement tools. A summary of included study details is
shown in Table 2. 2.7 Fifty-eight different types of interventions
were identified (Figure 1 and Table 2). A total of 817 outcomes were reported; after de-
duplication and classification of outcomes, 391 unique out-
comes remained. The 391 unique outcomes were organised
into 14 outcome domains (Table 3). See Table S3 for a comprehensive list of outcomes reported
across all studies, by outcome domain and study design. No
outcome was reported in all studies of a specific intervention
type. A further analysis of outcome reporting in randomised
controlled trials (RCTs) only (Table S4) indicated variability
in outcomes reported and no outcome was reported by every
RCT of a specific type. 3.1 | Labour and birth care: Interventions
and outcomes Interventions included in this category were induction of
labour (46 studies), mode of birth (3 studies) and neural
axial analgesia (1 study). The five most commonly reported
outcomes in studies reporting on labour and birth inter-
ventions were induction to birth interval, reported by 65%
of studies (34 of 52 studies), complications or side effects
of treatment, reported by 39% of studies (20 of 52 studies),
successful induction, reported by 31% of studies (16 of 52
studies), use of analgesia during labour and birth, reported
by 25% of studies (13 of 52 studies) and dose of misopros-
tol required, reported by 15% (8 of 52 studies). Only one
study reported maternal death as an outcome of interest,
and only two studies (4% of labour and birth interventions)
reported satisfaction with intervention or care. No studies
reported psychological (e.g. grief, anxiety) outcomes. 3.3 | Investigations to understand cause of
stillbirth: Interventions and outcomes Interventions included 41 studies evaluating multiple
component investigation protocols (e.g. at least two of re-
view of the medical history, postmortem pathological ex-
amination, placental examination, postmortem imaging,
laboratory blood testing for mother or baby). Outcomes
were most frequently reported in the investigation do-
main (127 outcomes). The six most frequently reported
outcomes were identification of cause of death, reported
in 41% (47 of 116 studies), proportion consenting to post-
mortem, reported by 16% (18 of 116 studies), uptake of
postmortem, reported by 12% (14 of 116 studies), identi-
fication of fetal congenital abnormality, reported by 10%
(11 of 116 studies), identification of a placental cause of
death and identification of acquired or inherited throm-
bophilia, reported by 6% (7 of 116 studies). Only one
study measured parents' experience of an intervention to
understand why a baby died and only one study reported
on parents' perceived understanding of the cause of their
baby's death. 3.4 | Psychosocial support: Interventions
and outcomes Psychosocial support interventions evaluated included
bereavement support interventions (5 studies), cognitive
behavioural therapy (4 studies), counselling (4 studies)
and yoga (3 studies). Outcomes were most frequently re-
ported in the mental health domain (10 outcomes). The
most commonly reported outcomes were experience of
intervention/care, reported by 43% (12 of 28 studies), de-
pression, reported by 29% studies (8 of 28 studies), grief,
reported by 29% studies (8 of 28), PTSD, reported in 25%
of studies (7 of 28 studies), and anxiety, reported in 14%
(4 of 28 studies). Only two studies within this category re-
ported on relationship outcomes and no studies assessed
the effect of a psychosocial intervention on existing chil-
dren or family. aMulti-component bereavement care – including at least two of the following
intervention or care variables: sensitive care during labour and delivery, mode of birth,
time spent with baby, seeing and holding baby, hand/footprints, photos and mementos,
including children or family members in care, care or support from healthcare
professionals and services, e.g. doctor, bereavement midwife, chaplain, anaesthetist
interactions, postmortem investigations, grief support, care after birth, having a
funeral, post-natal appointments, hospital-based counselling, family support. bMulti-component postmortem investigations – including at least two of the
following investigations or care variables. Review of the medical and obstetrics
history, postmortem pathological examination, placental examination, postmortem
radiographs, postmortem MRI, laboratory blood testing for mother or baby (e.g. congenital infections, diabetes, auto-antibody testing, thrombophilia testing,
biochemistry), microbiological testing, virology, genetic testing, counselling,
perinatal mortality review. aMulti-component bereavement care – including at least two of the following
intervention or care variables: sensitive care during labour and delivery, mode of birth,
time spent with baby, seeing and holding baby, hand/footprints, photos and mementos,
including children or family members in care, care or support from healthcare
professionals and services, e.g. doctor, bereavement midwife, chaplain, anaesthetist
interactions, postmortem investigations, grief support, care after birth, having a
funeral, post-natal appointments, hospital-based counselling, family support. bMulti-component postmortem investigations – including at least two of the
following investigations or care variables. Review of the medical and obstetrics
history, postmortem pathological examination, placental examination, postmortem
radiographs, postmortem MRI, laboratory blood testing for mother or baby (e.g. congenital infections, diabetes, auto-antibody testing, thrombophilia testing,
biochemistry), microbiological testing, virology, genetic testing, counselling,
perinatal mortality review. 3.2 | Bereavement care: Interventions
and outcomes Fifteen studies were identified evaluating multiple compo-
nents of bereavement care (e.g. at least two seeing and hold-
ing baby, making hand or footprints, photos and mementos,
including children or family members in care, care or sup-
port from healthcare professionals). The greatest number
of outcomes was reported within the delivery of care out-
come domain (15 outcomes), followed by the emotional
functioning domain (15 outcomes). The most frequently
reported outcomes included experience of intervention or
care reported by 32% (9 of 28 studies), depression reported
by 29% (8 of 28 studies), anxiety reported by 21% (6 of 28
studies), post-traumatic stress disorder reported by 17%
(post-traumatic stress disorder [PTSD], 5 of 28 studies) and
grief reported by 18% (5 of 28 studies). No studies measured
the impact of postnatal hospital care on parents, role, e.g. returning to work or parenting, or impact of care on existing
older children. BAKHBAKHI et al. 6 |
Types of intervention
Number
of studies
(n = 240)
Maternity waiting homec
1 (0.4%)
Muscle relaxation exercises
1 (0.4%)
Psychoeducation
1 (0.4%)
Support intervention in a subsequent pregnancy
1 (0.4%)
Total number of participants
~298 762
Study characteristic
Number
of studies
(n = 240)
Number of randomised control trials
40 (16.7%)
Number of observational studies
200 (83.3%)
Number of unique countries
64 (26.7%)
Studies by region
Europe
111 (46.3%)
North America
52 (21.7%)
Asia
42 (17.5%)
Oceania
16 (6.7%)
Africa
13 (5.4%)
International
5 (2.1%)
South America
1 (0.4%)
World Bank Lending Groupe
High-income
183 (76.3%)
Lower-middle-income
28 (11.7%)
Upper/middle-income
24 (10%)
Low-income
5 (2.1%)
Number of fathers
23 (9.6%)
Number of patient & public involvement
10 (4.2%)
Year published
1998–2001
27 (11.3%)
2002–2005
35 (14.7%)
2006–2009
41 (16%)
2010–2013
48 (20.2%)
2014–2017
53 (21.8%)
2018–2021
38 (16%)
TA B L E 2
(Continued) 3.5 | Multiple pregnancy: Interventions
and outcomes Only two interventions and two studies were included in
this category. One study assessed the impact of intrauter-
ine rescue transfusion and the other on bereavement care
for a stillbirth in a multiple pregnancy. The study related to
intrauterine rescue transfusion reported solely on medical
outcomes related to the surviving twin, e.g. abnormalities
on cranial ultrasound, fetal acidaemia or neurodevelopment
outcome of the surviving twin. No psychosocial, experien-
tial or grief outcomes were reported. cMaternity waiting home – A maternity waiting home is a residential facility located
near a medical facility, where ‘high risk’ women can await their delivery to ‘bridge the
geographical gap’ in obstetric care between rural areas with poor access to services.15
dSocial support – including at least two of the following support from hospital,
doctor, partner, family, friends, work, parent support groups. 271 cMaternity waiting home – A maternity waiting home is a residential facility located
near a medical facility, where ‘high risk’ women can await their delivery to ‘bridge the
geographical gap’ in obstetric care between rural areas with poor access to services.15 dSocial support – including at least two of the following support from hospital,
doctor, partner, family, friends, work, parent support groups. eRegion – World Bank Lending Group.271 | 7
SYSTEMATIC REVIEW OF STILLBIRTH CARE OUTCOMES
TA B L E 3
Summary table of outcomes and domains from systematic review. Domain
Definition
No. of
outcomes
No. 3.5 | Multiple pregnancy: Interventions
and outcomes of
studies
Labour & Birth
Medical outcomes related labour and birth, for example, time from
induction to birth, adverse events or complications during birth,
mode of birth, use of analgesia
52
55
Postpartum
Medical outcomes immediately following birth and up to 6 weeks
afterwards, postpartum complications, for example, postpartum
haemorrhage, retained placenta
38
32
Delivery of care
Care related outcomes, for example, experience of satisfaction with care
or healthcare professionals, support from healthcare professionals,
adherence to intervention, hospital use outcomes, length of hospital
stay following diagnosis of stillbirth
29
45
Investigations
Outcomes related to the investigation of stillbirth, for example,
identification of cause of death or medical diagnosis following
investigation, proportion consenting to postmortem or
investigations
127
120
Multiple pregnancy outcomes
Outcomes specifically related to cases where a stillbirth occurs in a
multiple pregnancy, for example, clinical outcomes of surviving
twin, attachment to survivor
8
2
Mental health
Outcomes related to mental health, for example, depression, anxiety,
post-traumatic stress disorder
18
35
Emotional functioning
Outcomes related to emotional health, for example, emotional
regulation, feelings, self-compassion
27
20
Grief and bereavement outcomes
Outcomes related to grief and bereavement, for example, grief,
complicated grief, coping with grief
9
22
Social functioning
Outcomes related to social functioning, for example, social support,
support from family, friends, social role impairment
6
6
Relationship outcomes
Outcomes related to relationships with partner, friends, family, for
example, relationship difficulties, quality
6
6
Whole person outcomes
Outcomes related to physical functioning, for example, poor physical
health, physical mobility, health-related quality of life, outcomes
affecting the whole body and not attributed to a particular system,
self-reported health, sleep
7
7
Subsequent pregnancy
Outcomes related to a subsequent pregnancy after stillbirth, for
example, live birth, complications in pregnancy, preterm birth,
pregnancy anxiety
47
12
Subsequent children and siblings
Outcomes related to subsequent children and siblings after stillbirth, for
example, attachment to infant, parental concerns
2
2
Economic
Outcomes related to the financial cost of stillbirth intervention or care,
for example, costs of hospital care and treatment
15
5 SYSTEMATIC REVIEW OF STILLBIRTH CARE OUTCOMES TA B L E 3
Summary table of outcomes and domains from systematic review. 3.6 | Care in subsequent pregnancy:
Interventions and outcomes attachment in a subsequent pregnancy. No studies reported
on the frequency of post-traumatic stress disorder (PTSD) or
grief in a subsequent pregnancy. Interventions in this category primarily focused on the
medical treatment of women in a subsequent pregnancy, in-
cluding six studies on thromboprophylaxis in a subsequent
pregnancy. Only three studies evaluated care and one study
reported on psychological support interventions in a subse-
quent pregnancy. The most frequently reported outcomes
were live birth in a subsequent pregnancy, reported in 29% of
studies (4 of 14 studies), complications during a subsequent
pregnancy, reported in 21% (3 of 14 studies), birthweight in a
subsequent pregnancy, reported in 21% (3 of 14 studies), and
anxiety, reported in 21% (3 of 14 studies). Only two stud-
ies reported on experience of care and one study on prenatal Interpretation This systematic review highlights the wide variation in re-
search studies relating to stillbirth care, by identifying the
heterogeneity of interventions and outcomes measured and
reported. The lack of standardisation and the frequent fail-
ure to report on important outcomes such as maternal mor-
tality and psychosocial outcomes, and to assess long-term
effects, in many studies hampers progress towards provid-
ing optimal care after stillbirth. The problems for stillbirth
care evidence are not unique; previous systematic reviews
conducted in obstetrics and gynaecology and other special-
ties, have found similar heterogeneity in outcome reporting,
definitions and outcome measurement tools.260–268 The out-
comes identified in this systematic review have contributed
to the development of an outcome long-list and are being
used in an international Delphi consensus process to define
a minimal core outcome set for stillbirth care research.13 3.7 | Outcome measurement Table S5 lists all outcomes, their definitions and measure-
ment instruments used (if applicable). There was variation in
the definition of reported outcomes (range of definitions 0–
35). For example, for postpartum complications there were
five different definitions. No definition was provided for 247
outcomes. In all, 242 outcome measurement tools were iden-
tified. There was variation in the type of outcome measure-
ment tools used to measure the same outcomes, with a range BAKHBAKHI et al. 8 limited the number studies identified from low- and
middle-income countries. We found that very few stud-
ies have been conducted in low-income countries (which
have the highest burden of stillbirth). Therefore, the out-
come list generated from this review may omit outcomes
most relevant to these settings. Engaging low- and middle-
income countries in future core outcome set development
will be vital to ensure a globally representative core out-
come set is created. of 0–22 tools used for a single outcome. Outcomes were
measured at different timepoints relative to the stillbirth and
were dependent on the type of intervention (Appendix S4). A total of 190 outcomes were measured during labour and
birth, 76 outcomes in the postpartum period (up to 6 weeks
postpartum), 246 outcomes following investigations, 66 out-
comes within the first year, 101 outcomes in the first 5 years
and 24 at 5 years or more. Only studies published over the last 24 years were in-
cluded. Older publications may describe different inter-
ventions or outcomes; however, they might not have been
as relevant for informing a contemporary outcome inven-
tory, as stillbirth bereavement care has advanced in recent
times.258 Case studies, conference abstracts, protocols and
dissertations were excluded. This could have led to the
omission of newer interventions and novel outcomes eval-
uated in research yet to be published in full manuscript
form. Furthermore, this review found that only 23 studies
included fathers or non-birthing partners in the assessment
of their outcomes, even though the impact of stillbirth has
a dyadic (couple) context for many.259 We identified only
10 studies that included parents or members of the public
in their study design. This underlines the need for a future
core outcome set to incorporate the viewpoints of patients
and members of the public in the selection of the most im-
portant outcomes. 4 | DISCUSSION AND CONCLUSION
| The objective of this systematic review was to generate a
comprehensive long-list of outcomes to inform the develop-
ment of a core outcome set for stillbirth care research; in all,
we identified 391 unique outcomes. We demonstrated the
wide variation of interventions implemented and assessed,
and outcomes reported. Where studies reported the same
outcome, there was considerable variation in the report-
ing of the outcome definition and measurement tool used. Outcomes were measured at different timepoints relative
to the stillbirth, with few studies measuring long-term out-
comes, i.e. within the first year or beyond 5 years. We identified a diverse range of interventions after still-
birth. However, there is a paucity of evidence on a number
of specific types of intervention, for example, counselling,
specific psychological therapy or targeted interventions in a
subsequent pregnancy. Interventions after stillbirth address
different aspects of care, including medical, psychological,
social and long-term health. We found that the majority of
studies did not measure the effect of interventions or care
on parents, perceived experience, grief or psychosocial
outcomes. 4.2 A strength of this study is its comprehensive inclusion of both
non-randomised, non-comparative and RCTs, allowing for a
wide range of interventions and outcomes to be identified. Previous systematic reviews on stillbirth care have only fo-
cused on RCTs or interventions targeting physical or mental
health of parents, rather than broader outcomes, e.g. social,
economic or experiential outcomes.8–10,257 Robust methods A strength of this study is its comprehensive inclusion of both
non-randomised, non-comparative and RCTs, allowing for a
wide range of interventions and outcomes to be identified. Previous systematic reviews on stillbirth care have only fo-
cused on RCTs or interventions targeting physical or mental
health of parents, rather than broader outcomes, e.g. social,
economic or experiential outcomes.8–10,257 Robust methods
have been utilised in the review, including independent du-
plicate screening, double extraction and extensive reference
searching. An inclusive approach was adopted and high-,
middle- and low-income countries have been included in
the systematic review, increasing the global relevance of the
review. An international steering group, including parents
with lived experience of stillbirth, have informed the scope,
study design and development of the outcome domains and
long-list. have been utilised in the review, including independent du-
plicate screening, double extraction and extensive reference
searching. An inclusive approach was adopted and high-,
middle- and low-income countries have been included in
the systematic review, increasing the global relevance of the
review. An international steering group, including parents
with lived experience of stillbirth, have informed the scope,
study design and development of the outcome domains and
long-list. More studies with robust methodology are needed to
improve the clinical evidence for care after stillbirth. For
example, there were no RCTs identified for interventions to
improve hospital or follow-up bereavement care. This could
be due in part to the ethical challenges of performing trials
in this field, such as the perceived fear of causing harm to
bereaved parents and the appropriateness of RCT method-
ology to evaluate psychosocial support interventions after
stillbirth.12 Studies have found bereaved parents are positive
about participating in research and good recruitment rates A limitation is that for resource reasons, non-English
language articles were excluded, which in turn may have SYSTEMATIC REVIEW OF STILLBIRTH CARE OUTCOMES have been demonstrated when the approach has been guided
by patient and public involvement.225,248,269 have been demonstrated when the approach has been guided
by patient and public involvement.225,248,269 for Health Research (NIHR DRF-2017-10-130). ACKNOWLEDGEMENTS We would like to thank all members of the iCHOOSE parent
and public involvement group with their assistance in the
research. 5. Siassakos D, Jackson S, Gleeson K, Chebsey C, Ellis A, Storey C,
et al. All bereaved parents are entitled to good care after still-
birth: a mixed-methods multicentre study (INSIGHT). BJOG. 2018;125(2):160–70. 6. Peters MDJ, Lisy K, Riitano D, Jordan Z, Aromataris E. Providing
meaningful care for families experiencing stillbirth: a meta-
synthesis of qualitative evidence. J Perinatol. 2016;36(1):3–9. 6. Peters MDJ, Lisy K, Riitano D, Jordan Z, Aromataris E. Providing
meaningful care for families experiencing stillbirth: a meta-
synthesis of qualitative evidence. J Perinatol. 2016;36(1):3–9. R EFER ENCES Study concept: DB, CB, AF, AD, DS, LH, JMND. Study
design: DB, CB, AF, AD, DS, LH, JMND, AM, KB &
iCHOOSE Collaborative Group. Drafting of the article: DB. Development of search strategy and electronic searches of
the medical literature databases: DB & KB. Screening of
titles, abstracts and full texts: DB, AM, AD, CS, KB. Data
extraction: DB, AM, AD, CS, KD, KB, ES, AL, CB. Data
analysis: DB, AD, CB & AF. Critical revision of the article for
important intellectual content and approval of final paper:
DB, CB, AF, AD, DS, LH, JMND, AM, KB, ES, CS, KD, AL
& iCHOOSE collaborative group. Study supervision: CB, AF,
DS, LH & AD. 1. Hug L, You D, Blencowe H, Mishra A, Wang Z, Fix MJ, et al. Global,
regional, and national estimates and trends in stillbirths from 2000
to 2019: a systematic assessment. Lancet. 2021;398(10302):772–85. 2. Burden C, Bradley S, Storey C, Ellis A, Heazell AEP, Downe S, et al. From grief, guilt pain and stigma to hope and pride – a systematic
review and meta-analysis of mixed-method research of the psycho-
social impact of stillbirth. BMC Pregnancy Childbirth. 2016;16(1):9. https://doi.org/10.1186/s12884-016-0800-8 p
g
3. Heazell AEP, Siassakos D, Blencowe H, Burden C, Bhutta ZA,
Cacciatore J, et al. Stillbirths: economic and psychosocial conse-
quences. Lancet. 2016;387(10018):604. 4. Ellis A, Chebsey C, Storey C, Bradley S, Jackson S, Flenady V, et al. Systematic review to understand and improve care after stillbirth: a
review of parents, and healthcare professionals, experiences. BMC
Pregnancy Childbirth. 2016;16(1):16. https://doi.org/10.1186/s1288
4-016-0806-2 CONFLICT OF INTEREST STATEMENT Dr Aleena Wojcieszek has received consulting fees from the
Stillbirth Centre for Research Excellence. Dr Lisa Hinton
is based in The Healthcare Improvement Studies Institute
(THIS Institute), University of Cambridge. THIS Institute is
supported by the Health Foundation, an independent charity
committed to bringing about better health and healthcare for
people in the UK. Dr Lisa Hinton is funded by the National
Institute for Heatlh Research (NIHR) Programme Grant for
applied research (RP-PG-1209-10051) MRC/ESRC/Wellcome
Trust/DFID Health Systems Research Initiative, NIHR
Health Technology Assessment and NIHR Health Services
Research and Delivery. Dr Abigail Fraser is funded by the
British Heart Foundation, Wellcome Trust, Medical Research
Council and Templeton Foundation. Dr Christy Burden is
funded by NIHR Research for Patient Benefit, Health Data
Research UK and Tommy's charity. There are no other com-
peting interests to declare. Completed disclosure of interest
forms are available to view online as supporting information. 4.2 The views ex-
pressed in this publication are those of the authors and not
necessarily those of the National Health Service, the National
Institute for Health Research or the Department of Health. There appears to be several significant evidence-practice
gaps into specific interventions after stillbirth. Surprisingly,
no interventions were identified on lactation care (e.g. breast
milk suppression or milk donation) and personalisation of
care at any stage. Several interventions related to subsequent
pregnancy have not been studied, including continuity of
care, pre-pregnancy counselling, targeted antenatal inter-
ventions for women with modifiable risk factors (e.g. dia-
betes or smoking) and additional antepartum ultrasound
surveillance.12 Moreover, no interventions were identified to
support parents from minority ethnic and socio-economic
backgrounds following stillbirth, which could be intensi-
fying health inequalities.270 Interestingly, we identified no
studies on interventions to support the LBTQ+ (lesbian,
gay, bisexual, transgender, queer/questioning, asexual and
others) community. Future research should focus on an ex-
ploration of potential interventions in these contexts and
populations. ORCID Anna Davies
https://orcid.org/0000-0003-0743-6547
Abi Merriel
https://orcid.org/0000-0003-0352-2106 g
Katie Barnard
https://orcid.org/0000-0001-7084-4055 Katie Barnard
https://orcid.org/0000-0001-7084-4055 ETHICS APPROVAL
None required. None required. 5 This systematic review has highlighted the large variation
in outcomes assessed, and outcome definitions and out-
come measurement instruments used. These inconsisten-
cies limit the utility of primary research and of evidence
synthesis, and impact adversely on quality of decision
making in the field of stillbirth aftercare. Considerable re-
search gaps on specific intervention types in stillbirth care
were also identified. The findings of this systematic review
strongly support the need to develop a core outcome set for
stillbirth care research. DATA AVAILABILITY STATEMENT
Data sharing not applicable as no new data generated. ETHICS APPROVAL
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tion. J Med Ethics. 2011;37(6):364–7. SUPPORTING INFORMATION Additional supporting information can be found online in
the Supporting Information section at the end of this article. How to cite this article: Bakhbakhi D, Siassakos D,
Davies A, Merriel A, Barnard K, Stead E, et al. Interventions, outcomes and outcome measurement
instruments in stillbirth care research: A systematic
review to inform the development of a core outcome
set. BJOG. 2023;00:1–17. https://doi.org/10.1111/1471-
0528.17390 How to cite this article: Bakhbakhi D, Siassakos D,
Davies A, Merriel A, Barnard K, Stead E, et al. Interventions, outcomes and outcome measurement
instruments in stillbirth care research: A systematic
review to inform the development of a core outcome
set. BJOG. 2023;00:1–17. https://doi.org/10.1111/1471-
0528.17390 How to cite this article: Bakhbakhi D, Siassakos D,
Davies A, Merriel A, Barnard K, Stead E, et al. Interventions, outcomes and outcome measurement
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set. BJOG. 2023;00:1–17. https://doi.org/10.1111/1471-
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Well-Posedness of Triequilibrium-Like Problems
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∗Corresponding author: noormaslam@gmail.com Abstract. This work emphasizes in presenting new class of equilibrium-like problems, termed as equilibrium-
like problems with trifunction. We establish some metric characterizations for the well-posed triequilibrium-
like problems. We give some conditions under which the equilibrium-like problems are strongly well-
posed. Our results, which give essential and adequate conditions to the well-posedness of triequilibrium-
like problems, are acquired by utilizing the assumption of pseudomonotonicity. Technique and ideas of
this paper inspire further research in this dynamic field. Department of Mathematics, COMSATS University Islamabad, Islamabad, Pakistan Department of Mathematics, COMSATS University Islamabad, Islamabad, Pakistan Key
words
and
phrases. variational-like
inequalities;
preinvex
functions;
equilibrium
problems;
well-posed;
pseudomonotonicity. https://doi.org/10.28924/2291-8639-20-2022-3
ISSN: 2291-8639 2010 Mathematics Subject Classification. 49J40, 90C33. 2010 Mathematics Subject Classification. 49J40, 90C33. Received: Sep. 08, 2021. Int. J. Anal. Appl. (2022), 20:3 Int. J. Anal. Appl. (2022), 20:3 Received: Sep. 08, 2021. Received: Sep. 08, 2021. Received: Sep. 08, 2021. Received: Sep. 08, 2021. Received: Sep. 08, 2021.
2010 Mathematics Subject Classification. 49J40, 90C33.
Key
words
and
phrases. variational-like
inequalities;
preinvex
functions;
equilibrium
problems;
well-posed;
pseudomonotonicity. 1. Introduction The theory of equilibrium problems is an engrossing and significant offshoot of variational inequali-
ties in practice with a broad variety of industrial, physical, geographical and social applications. Across
various areas of pure, applied and engineering sciences, equilibrium problem theory has shown incred-
ible potential and great impact. In nearly all disciplines, of mathematics and engineering, this theory
has registered its exceptional ever-expanding mark. A new and incisive treatment of a broad list of
problems, that occur in ecology, finance, economics, elasticity, network, image reconstruction, opti-
mization and transport, are exhaustively approached by the equilibrium problem theory. In 1994, Blum
and Oettli [3] and Noor and Oettli [23] rendered equilibrium problems their existing form. The classi-
cal equilibrium problems theory revolves around the assumption of convexity of the set and objective
function. Equilibrium problems cover a diverse set of applications including hemivariational inequali-
ties, variational inequalities, game theory, Nash equilibrium, variational-like inequalities and fixed point https://doi.org/10.28924/2291-8639-20-2022-3
ISSN: 2291-8639 © 2022 the author(s). Int. J. Anal. Appl. (2022), 20:3 2 point theory, see [1–7,12–19,21,22,24–29]. Recently, the notion of convexity has started expanding to numerous fields showing the capacity
for various useful applications. Hanson [8] derived invex functions as a special extension of convex
functions. Different results were presented to make this fact noticeable that what holds for convex
functions in mathematical programming also holds for a generalized class of functions known as invex
functions. Ben-Israel and Mond [1] and Weir and Jeyakumar [31] works led to preinvex functions as
another generalized class of convex functions. Weir and Mond [30] has shown in their work the inter-
changeability of preinvex functions with convex functions in optimization problems. In [15], it is made
evident that the minimum of preinvex on the invex set can be disciplined into variational inequalities,
widely known as variational-like inequalities. Variational-like inequalities and equilibrium-like problems,
owing to their specialized nature, cannot allow traditional resolvent method, projection method and
their prevalent variant forms to propound any iterative methods. To bridge this gap, we resort to a
technique named as auxiliary principle, proposed by Glowinski et al. [4]. To solve numerous variational
inequalities and equilibrium problems, Noor [15, 19, 20] and Noor et al. [22, 24, 25, 27] employed the
technique of auxiliary principle to propose various iterative methods. Research of our paper is devoted to present a new class of equilibrium problems, termed as
equilibrium-like problems with trifunction. 1. Introduction The notion of well-posedness of variational ineaqualities
and equilibrium problems was introduced by Lucchetti and Patrone [9,10]. We expand the notion of
well-posedness to contemplate and establish the well-posedness of triequilibrium-like problems. Several
interesting and important cases are discussed as applications of the obtained results. 2. Basic concepts and formulations Let ˜H be a real Hilbert space. The inner product and norm on ˜H are denoted by ⟨., .⟩and ∥. ∥
respectively. Let Kℏbe a nonempty invex set in ˜H. Let ℑ: Kℏ→ℜand ℏ(., .) : ˜H × ˜H →˜H are
continuous functions. First we recall the following well-known results and concepts, before discussing our main results. Definition 2.1. ( [1]). A nonempty set Kℏin ˜H is said to be an invex set, if there exists a bifunction
ℏ(., .), such that Definition 2.1. ( [1]). A nonempty set Kℏin ˜H is said to be an invex set, if there exists a bifunction
ℏ(., .), such that ℏ(., .), such that ξ + τℏ(ζ, ξ) ∈Kℏ, ∀ξ, ζ ∈Kℏ, τ ∈[0, 1]. f the set Kℏis invex at each ξ ∈Kℏ, then Kℏis also called ℏ−connected set. Definition 2.2. ( [1]). A function ℑ: Kℏ→ℜis said to be a preinvex function, if there exists a
bifunction ℏ(., .), such that ℑ(ξ + τℏ(ζ, ξ)) ≤(1 −τ)ℑ(ξ) + τℑ(ζ), ∀ξ, ζ ∈Kℏ, τ ∈[0, 1]. 3 The function ℑ: Kℏ→ℜis said to be preconcave if and only if −ℑis preinvex. Kℏ→ℜis said to be preconcave if and only if −ℑis preinvex. Definition 2.3. ( [8]). A differentiable function ℑ: Kℏ→ℜis said to be an invex function, if there
exists a bifunction ℏ(., .), such that Definition 2.3. ( [8]). A differentiable function ℑ: Kℏ→ℜis said to be an invex function, if there
exists a bifunction ℏ(., .), such that ℑ(ζ) −ℑ(ξ) ≥⟨ℑ′(ξ) , ℏ(ζ, ξ)⟩, ∀ξ, ζ ∈Kℏ, τ ∈[0, 1], where ℑ′(ξ) is the differential of ℑat ξ. From above definitions, it is clear that the differentiable
preinvex functions are the invex functions but the converse is not true, see [21]. We note that, if
ℏ(ζ, ξ) = ζ −ξ, the invex set Kℏreduces to the convex set K and preinvex functions reduce to convex
functions. There are some functions which are preinvex but not convex. where ℑ′(ξ) is the differential of ℑat ξ. 1. Introduction From above definitions, it is clear that the differentiable
preinvex functions are the invex functions but the converse is not true, see [21]. We note that, if
ℏ(ζ, ξ) = ζ −ξ, the invex set Kℏreduces to the convex set K and preinvex functions reduce to convex
functions. There are some functions which are preinvex but not convex. Definition 2.4. . The bifunction ℏ(., .) : ˜H × ˜H →ℜsatisfies the following condition
ℏ(ξ + τ1(ζ −ξ), ξ + τ2(ζ −ξ)) = (τ1 −τ2)ℏ(ζ, ξ) ,
∀ξ ζ ∈˜H Definition 2.4. . The bifunction ℏ(., .) : ˜H × ˜H →ℜsatisfies the following condition
ℏ(ξ + τ (ζ
ξ) ξ + τ (ζ
ξ))
(τ
τ )ℏ(ζ ξ) finition 2.4. . The bifunction ℏ(., .) : ˜H × ˜H →ℜsatisfies the following condition ℏ(ξ + τ1(ζ −ξ), ξ + τ2(ζ −ξ)) = (τ1 −τ2)ℏ(ζ, ξ) , ∀ξ, ζ ∈˜H. For τ1 = 0, 1 and τ2 = τ, we get Condition C of Mohan and Neogy [11], For τ1 = 0, 1 and τ2 = τ, we get Condition C of Mohan and Neogy [11], (i) ℏ(ξ, ξ + τ(ζ −ξ)) = −τℏ(ζ, ξ) ,
(ii) ℏ(ζ, ξ + τ(ζ −ξ)) = (1 −τ)ℏ(ζ, ξ) , ∀ξ, ζ ∈˜H. (i) ℏ(ξ, ξ + τ(ζ −ξ)) = −τℏ(ζ, ξ) ,
(ii) ℏ(ζ, ξ + τ(ζ −ξ)) = (1 −τ)ℏ(ζ, ξ) , Mohan and Neogy [11] used definition 2.4 to show that an invex function on an invex set Kℏ, is
also a preinvex function and the converse also hold. Given an operator Υ : ˜H →ℜand a continuous trifunction Ψ(., ., .) : ˜H × ˜H × ˜H →ℜ, consider the
problem of finding ξ ∈Kℏ, such that Mohan and Neogy [11] used definition 2.4 to show that an invex function on an invex set Kℏ, is
also a preinvex function and the converse also hold. Given an operator Υ : ˜H →ℜand a continuous trifunction Ψ(., ., .) : ˜H × ˜H × ˜H →ℜ, consider the
problem of finding ξ ∈Kℏ, such that Ψ(ξ, Υ(ξ), ℏ(ζ, ξ)) ≥0 , ∀ζ ∈Kℏ. (2.1) (2.1) The problem (2.1) is called an equilibrium-like problem with trifunction. For Ψ(ξ, Υ(ξ), ℏ(ζ, ξ)) = ⟨ξ, Υ(ξ), ℏ(ζ, ξ)⟩, problem (2.1) is called variational-like inequality with
trifunction of finding ξ ∈Kℏ, such that m (2.1) is called an equilibrium-like problem with trifunction. 1. Introduction (ii) partially relaxed jointly strong ℏ−monotone, if there exists a constant α > 0 such that (ii) partially relaxed jointly strong ℏ−monotone, if there exists a constant α > 0 such that
Ψ(ξ, Υ(ξ), ℏ(ζ, z)) + Ψ(ζ, Υ(ζ), ℏ(z, ζ)) ≤α ∥ℏ(z, ξ) ∥2 , rtially relaxed jointly strong ℏ−monotone, if there exists a constant α > 0 such that Ψ(ξ, Υ(ξ), ℏ(ζ, z)) + Ψ(ζ, Υ(ζ), ℏ(z, ζ)) ≤α ∥ℏ(z, ξ) ∥2 , ∀ξ, ζ, z ∈Kℏ. ∀ξ, ζ, z ∈Kℏ. (iii) jointly ℏ−monotone, if Ψ(ξ, Υ(ξ), ℏ(ζ, ξ)) + Ψ(ζ, Υ(ζ), ℏ(ξ, ζ)) ≤0 , ∀ξ, ζ ∈Kℏ. Ψ(ξ, Υ(ξ), ℏ(ζ, ξ)) + Ψ(ζ, Υ(ζ), ℏ(ξ, ζ)) ≤0 , ∀ξ, ζ ∈Kℏ. (iv) jointly ℏ−hemicontinuous, if the mapping 1. Introduction For Ψ(ξ, Υ(ξ), ℏ(ζ, ξ)) = ⟨ξ, Υ(ξ), ℏ(ζ, ξ)⟩, problem (2.1) is called variational-like inequality with
trifunction of finding ξ ∈Kℏ, such that ⟨ξ, Υ(ξ), ℏ(ζ, ξ)⟩≥0 , ∀ζ ∈Kℏ. (2.2) (2.2) For ⟨ξ, Υ(ξ), ℏ(ζ, ξ)⟩= ⟨Υ(ξ), ℏ(ζ, ξ)⟩, problem (2.2) is called variational-like inequality of finding
ξ ∈˜H such that For ⟨ξ, Υ(ξ), ℏ(ζ, ξ)⟩= ⟨Υ(ξ), ℏ(ζ, ξ)⟩, problem (2.2) is called variational-like inequality of finding
ξ ∈˜H such that ⟨Υ(ξ), ℏ(ζ, ξ)⟩≥0 , ∀ζ ∈Kℏ
(2.3) (2.3) If ℏ(ζ, ξ) = ζ −ξ, then an invex set reduces to a convex set and problem (2.1) is equivalent to finding
ξ ∈K, such that Ψ(ξ, Υ(ξ), ζ −ξ) ≥0 , ∀ζ ∈K,
(2.4) (2.4) Int. J. Anal. Appl. (2022), 20:3 4 which is called an equilibrium problem with trifunction and gives offan impression of being new. Variational-like inequality with trifunction (2.2) reduces to variational inequality with trifunction of
finding ξ ∈K, such that which is called an equilibrium problem with trifunction and gives offan impression of being new. Variational-like inequality with trifunction (2.2) reduces to variational inequality with trifunction of
finding ξ ∈K, such that ⟨ξ, Υ(ξ), ζ −ξ⟩≥0 , ∀ζ ∈K. (2.5) ⟨ξ, Υ(ξ), ζ −ξ⟩≥0 , ∀ζ ∈K. (2.5) Also variational-like inequality (2.3) is equivalent to finding ξ ∈K, such that ⟨Υ(ξ), ζ −ξ⟩≥0 , ∀ζ ∈Kℏ,
(2.6) (2.6) ⟨Υ(ξ), ζ −ξ⟩≥0 , ∀ζ ∈Kℏ, which is known as variational inequality, proposed and cosidered by Stampacchia [20]. In brief, for
suitable and appropriate choice of the functions Ψ(., ., .), ℏ(., .) and the spaces, one can obtain a
number of new and known problems as special cases of the problem (2.1). This shows that problem
(2.1) is quite general and unifying. Definition 2.5. The operator Υ : ˜H →ℜand the function Ψ(., ., .) are said to be:
(i) jointly ℏ−pseudomonotone, if Ψ(ξ, Υ(ξ), ℏ(ζ, ξ)) ≥0, Ψ(ξ, Υ(ξ), ℏ(ζ, ξ)) ≥0, =⇒Ψ(ζ, Υ(ζ), ℏ(ξ, ζ)) ≤0 , ∀ξ, ζ ∈Kℏ. =⇒Ψ(ζ, Υ(ζ), ℏ(ξ, ζ)) ≤0 , ∀ξ, ζ ∈Kℏ. (iv) jointly ℏ−hemicontinuous, if the mapping Ψ(ξ + τℏ(ζ, ξ), Υ(ξ + τℏ(ζ, ξ)), ℏ(ζ, ξ)) ∀ξ, ζ ∈Kℏ, τ ∈[0, 1], is continuous. We note that, for z = ξ, partially relaxed jointly strong ℏ−monotonicity reverts to
jointly ℏ−monotonicity. Lemma 2.1. Let the trifunction Ψ(., ., .) and operator Υ be jointly ℏ−pseudomonotone and jointly
ℏ−hemicontinuous. If Assumption (2.4) holds, then problem (2.1) is equivalent to finding ξ ∈Kℏ,
such that Lemma 2.1. Let the trifunction Ψ(., ., .) and operator Υ be jointly ℏ−pseudomonotone and jointly
ℏ−hemicontinuous. If Assumption (2.4) holds, then problem (2.1) is equivalent to finding ξ ∈Kℏ,
such that Ψ(ζ, Υ(ζ), ℏ(ξ, ζ)) ≤0 , ∀ξ, ζ ∈Kℏ. Ψ(ζ, Υ(ζ), ℏ(ξ, ζ)) ≤0 , ∀ξ, ζ ∈Kℏ. 5 Int. J. Anal. Appl. (2022), 20:3 Proof: Let ξ ∈Kℏbe a solution of equilibrium-like problem (2.1), then Ψ(ξ, Υ(ξ), ℏ(ζ, ξ)) ≥0, Ψ(ξ, Υ(ξ), ℏ(ζ, ξ)) ≥0, implies Ψ(ζ, Υ(ζ), ℏ(ξ, ζ)) ≤0 , ∀ξ, ζ ∈Kℏ,
(2.7) (2.7) since Ψ(., ., .) and Υ are jointly ℏ−pseudomonotone. since Ψ(., ., .) and Υ are jointly ℏ−pseudomonotone. Conversely, let ∀ξ, ζ ∈Kℏ, we define ζτ = ξ + τℏ(ζ, ξ) ∈˜H. Replacing ζ by ζτ in (2.7), we have
Ψ(ζτ, Υ(ζτ), ℏ(ξ, ζτ)) ≤0 , ∀ξ, ζ ∈Kℏ. )
et ∀ξ, ζ ∈Kℏ, we define ζτ = ξ + τℏ(ζ, ξ) ∈˜H. Replacing ζ by ζτ in (2.7), we have
Ψ(ζτ, Υ(ζτ), ℏ(ξ, ζτ)) ≤0 , ∀ξ, ζ ∈Kℏ. Now by using Assumption (2.4) , we have Now by using Assumption (2.4) , we have −τΨ(ζτ, Υ(ζτ), ℏ(ζ, ξ)) ≤0. (2.8) −τΨ(ζτ, Υ(ζτ), ℏ(ζ, ξ)) ≤0. (2.8) (2.8) Now dividing (2.8) by τ and letting τ −→0 and using jointly ℏ−hemicontinuity of Ψ(., ., .) and Υ,
we get Now dividing (2.8) by τ and letting τ −→0 and using jointly ℏ−hemicontinuity of Ψ(., ., .) and Υ,
we get Ψ(ξ, Υ(ξ), ℏ(ζ, ξ)) ≥0, which shows that ξ ∈Kℏis a solution of problem (2.1), the required result. □ □ which shows that ξ ∈Kℏis a solution of problem (2.1), the required result. □ Lemma (2.1) can be considered as the generalized form of Minty’s Lemma for triequilibrium-like
problems. Result obtained in above Lemma is termed as the dual triequilibrium -like problem. 3. Well-Posedness 3. Well-Posedness We generalize the notion of well-posedness to triequilibrium-like problems. By using the assumption
of pseudomonotonicity we obtain some results for well-posed equilibrium-like problems with trifunction. since Ψ(., ., .) and Υ are jointly ℏ−pseudomonotone. Thus M(ε) ⊂N(ε). (3.4) M(ε) ⊂N(ε). (3.4) M(ε) ⊂N(ε). (3.4) M(ε) ⊂N(ε). M(ε) ⊂N(ε). (3.4) rsely, for any ξ ∈Kℏ, (3.3) holds. Conversely, for any ξ ∈Kℏ, (3.3) holds. Conversely, for any ξ ∈Kℏ, (3.3) holds. Now, let ∀ξ, ζ ∈Kℏwe define ζτ = ξ + τℏ(ζ, ξ) ∈Kℏ. Replacing ζ by ζτ in (3.3), we have
Ψ(ζτ, Υ(ζτ), ℏ(ξ, ζτ)) ≤ε ∥ℏ(ζτ, ξ) ∥, ∀ξ, ζ ∈Kℏ. y
y ξ
ℏ(
)
Now, let ∀ξ, ζ ∈Kℏwe define ζτ = ξ + τℏ(ζ, ξ) ∈Kℏ. Replacing ζ by ζτ in (3.3), we have
Ψ(ζτ, Υ(ζτ), ℏ(ξ, ζτ)) ≤ε ∥ℏ(ζτ, ξ) ∥, ∀ξ, ζ ∈Kℏ. Now, let ∀ξ, ζ ∈Kℏwe define ζτ = ξ + τℏ(ζ, ξ) ∈Kℏ. Replacing ζ by ζτ in (3.3), w Now by using Assumption (2.4), we have Now by using Assumption (2.4), we have −τΨ(ζτ, Υ(ζτ), ℏ(ζ, ξ)) ≤τε ∥ℏ(ζ, ξ) ∥. (3.5) (3.5) Now dividing (3.5) by τ and letting τ −→0 and using jointly ℏ−hemicontinuity of Ψ(., ., .) and T,
we get Ψ(ξ, Υ(ξ), ℏ(ζ, ξ)) ≥−ε ∥ℏ(ζ, ξ) ∥, which implies that which implies that N(ε) ⊂M(ε). (3.6) N(ε) ⊂M(ε). (iv) jointly ℏ−hemicontinuous, if the mapping Our obtained results could be considered, an extension of the results which were obtained and studied
in [6,8,9,16–18] onsider two sets Given ε > 0, consider two sets M(ε) = {ξ ∈˜
H : Ψ(ξ , Υ(ξ) , ℏ(ζ, ξ)) ≥−ε ∥ℏ(ζ, ξ) ∥, ∀ζ ∈Kℏ},
(3.1) (3.1) and and N(ε) = {ξ ∈˜
H : Ψ(ζ , Υ(ζ) , ℏ(ξ, ζ)) ≤ε ∥ℏ(ζ, ξ) ∥, ∀ζ ∈Kℏ. (3.2)
For a non-empty set S ⊂˜H, define the diameter of S, denoted by D(S), as: N(ε) = {ξ ∈˜
H : Ψ(ζ , Υ(ζ) , ℏ(ξ, ζ)) ≤ε ∥ℏ(ζ, ξ) ∥, ∀ζ ∈Kℏ. (3.2) (3.2) For a non-empty set S ⊂˜H, define the diameter of S, denoted by D(S), as: For a non-empty set S ⊂˜H, define the diameter of S, denoted by D(S), as: D(S) = sup[∥ζ −ξ ∥; ∀ξ, ζ ∈S]. D(S) = sup[∥ζ −ξ ∥; ∀ξ, ζ ∈S]. Definition 3.1. [18]. The triequilibrium-like problem (2.1) is well-posed, if
(i) For any ε > 0, M(ε) ̸= ∅,
(ii) D(M(ε)) −→0 as ε −→0. (ii) D(M(ε)) −→0 as ε −→0. Int. J. Anal. Appl. (2022), 20:3 6 Theorem 3.1. Let the trifunction Ψ(., ., .) and operator Υ be jointly ℏ−pseudomonotone and jointly
ℏ−hemicontinuous. If Assumption (2.4) holds, then M(ε) = N(ε). Proof: Let ξ ∈Kℏbe such that implies Ψ(ζ , Υ(ζ) , ℏ(ξ, ζ)) ≤ε ∥ℏ(ζ, ξ) ∥, ∀ζ ∈Kℏ,
(3.3) Ψ(ζ , Υ(ζ) , ℏ(ξ, ζ)) ≤ε ∥ℏ(ζ, ξ) ∥, ∀ζ ∈Kℏ,
(3.3) Ψ(ζ , Υ(ζ) , ℏ(ξ, ζ)) ≤ε ∥ℏ(ζ, ξ) ∥, ∀ζ ∈Kℏ, (3.3) since Ψ(., ., .) and Υ are jointly ℏ−pseudomonotone. Thus since Ψ(., ., .) and Υ are jointly ℏ−pseudomonotone. Thus since Ψ(., ., .) and Υ are jointly ℏ−pseudomonotone. Thus N(ε) ⊂M(ε). (3.6) By combining (3.4) and (3.6), we get our required result By combining (3.4) and (3.6), we get our required result N(ε) = M(ε). N(ε) = M(ε). Theorem 3.2. Let the trifunction Ψ(., ., .) and operator Υ be jointly ℏ−pseudomonotone and jointly
ℏ−hemicontinuous. Then for all ε > 0, N(ε) is closed in ˜H. Theorem 3.2. Let the trifunction Ψ(., ., .) and operator Υ be jointly ℏ−pseudomonotone and jointly
ℏ−hemicontinuous. Then for all ε > 0, N(ε) is closed in ˜H. Proof: Let {ξn : n ∈N} ⊂N(ε) be a sequence, such that ξn −→ξ in Kℏas n −→∞. Then
ξn ∈Kℏand Proof: Let {ξn : n ∈N} ⊂N(ε) be a sequence, such that ξn −→ξ in Kℏas n −→∞. Then
ξn ∈Kℏand Ψ(ζ , Υ(ζ) , ℏ(ξn, ζ)) ≤ε ∥ℏ(ζ, ξn) ∥, ∀ζ ∈Kℏ. (3.7) (3.7) By taking limit n −→∞in (3.7), we get ∞in (3.7), we get By taking limit n −→∞in (3.7), we get Ψ(ζ , Υ(ζ) , ℏ(ξ, ζ)) ≤ε ∥ℏ(ζ, ξ) ∥, ∀ζ ∈Kℏ. Ψ(ζ , Υ(ζ) , ℏ(ξ, ζ)) ≤ε ∥ℏ(ζ, ξ) ∥, ∀ζ ∈Kℏ. Ψ(ζ , Υ(ζ) , ℏ(ξ, ζ)) ≤ε ∥ℏ(ζ, ξ) ∥, ∀ζ ∈Kℏ. 7 □ Theorem 3.3. Let the trifunction Ψ(., ., .) and operator Υ be jointly ℏ−pseudomonotone and jointly
ℏ−hemicontinuous. If triequilibrium-like problem (2.1) is well-posed and Assumption (2.4) holds, then
there exists a unique solution of problem (2.1). Proof: Let the sequence {ξn : n ∈N}, defined by ξn ∈M( 1
n). Let ε > 0 be very small and let
p, q ∈N, such that p ≥q ≥1
ε. Then M(1
p) ⊂M(1
q ) ⊂M(ε). So ∥ξp −ξq ∥≤D(M(1
p)). ∥ξp −ξq ∥≤D(M(1
p)). Thus, the sequence {ξn} is a Cauchy sequence and ξn −→ξ in Kℏ. By using results of Theorem
(3.1) and Theorem (3.2), we get M(ε) is a closed set. Thus ξ ∈
\
ε>0
M(ε), ξ ∈
\
ε>0
M(ε), so, ξ is solution of problem (2.1). Uniqueness of solution ξ follows from second condition of well-
posedness. □ so, ξ is solution of problem (2.1). Uniqueness of solution ξ follows from second condition of well-
posedness. □ Theorem 3.4. Let the trifunction Ψ(., ., .) and operator Υ be jointly ℏ−pseudomonotone and jointly
ℏ−hemicontinuous. N(ε) ⊂M(ε). If M(ε) ̸= 0, for all ε > 0 and M(ε) is bounded for some ε0, then there exists at
least one solution of problem (2.1). Proof: Let ξk ∈M( 1
k ), then for large enough k, we have Proof: Let ξk ∈M( 1
k ), then for large enough k, we have Proof: Let ξk ∈M( 1
k ), then for large enough k, we have Proof: Let ξk ∈M( 1
k ), then for large enough k, we have M(1
k ) ⊂M(ε). Thus for some subsequence ξk −→ξ ∈Kℏ, we get Thus for some subsequence ξk −→ξ ∈Kℏ, we get
Ψ(ζ , Υ(ζ) , ℏ(ξk, ζ))
≤
1
k ∥ℏ(ζ, ξk) ∥
≤
1
k {∥ζ ∥+c} ∀∈˜H. Now by taking limit k −→∞, we get Now by taking limit k −→∞, we get Now by taking limit k −→∞, we get Now by taking limit k −→∞, we get Now by taking limit k −→∞, we get Ψ(ζ , Υ(ζ) , ℏ(ξ, ζ)) ≤0, Ψ(ζ , Υ(ζ) , ℏ(ξ, ζ)) ≤0, 4. Perspective In this section, we discuss some research perspective of the equilibrium-like problem with trifunction. We show that the results derived in this paper can also be extended for a class of nonconvex equilibrium
problem with trifunction. For the given operators Υ, g : ˜H →ℜand a nonlinear continuous trifunction Ψ(., ., .) : ˜H× ˜H× ˜H →ℜ,
consider the problem of finding ξ ∈Kℏ, such that For the given operators Υ, g : ˜H →ℜand a nonlinear continuous trifunction Ψ(., ., .) : ˜H× ˜H× ˜H →ℜ,
consider the problem of finding ξ ∈Kℏ, such that Ψ(g(ξ), Υ(g(ξ)), (g(ζ)) ≥0 , ∀ζ ∈Kℏ,
(4.1) (4.1) Ψ(g(ξ), Υ(g(ξ)), (g(ζ)) ≥0 , ∀ζ ∈Kℏ,
(4 which is called nonconvex triequilibrium problem. For the formulation and applications of problem
(4.1) see, [12,15,18] and references therein. For g ≡I, where I is the identity operator, then the g-
convex set becomes becomes the convex set and the problem (4.1) is called the triequilibrium problem
of finding ξ ∈Kℏ, such that which is called nonconvex triequilibrium problem. For the formulation and applications of problem
(4.1) see, [12,15,18] and references therein. For g ≡I, where I is the identity operator, then the g-
convex set becomes becomes the convex set and the problem (4.1) is called the triequilibrium problem
of finding ξ ∈Kℏ, such that Ψ(ξ, Υ(ξ), ζ) ≥0 , ∀ζ ∈Kℏ,
(4.2) (4.2) which was introduced and investigated by Noor and Oettli [14]. For ℏ(ζ, ξ) = ζ −ξ, the invex set
reduces to convex set. Thus from (4.1) and (4.2), we obtain that the triequilibrium-like problem is
equivalent to the nonconvex equilibrium problem with trifunction (4.1). Hence all the above discussed
results continue to hold for nonconvex triequilibrium problem (4.1). 5. Conclusion 5. Conclusion 5. Conclusion In our work we focused on introducing another class of equilibrium-like problems terming it as
triequilibrium-like problems. We studied and established the well-posedness of triequilibrium-like prob-
lems by using the assumption of pseudomonotonicity. The demonstrated results in this endeavour can
rightly be considered as an enhancement and sophistication of already existing work. Ψ(ζ , Υ(ζ) , ℏ(ξ, ζ)) ≤0, which implies that ξ ∈N(0). By Theorem (3.1), we get ξ ∈N(0) = M(0), which implies ξ ∈M(0). which implies that ξ ∈N(0). By Theorem (3.1), we get ξ ∈N(0) = M(0), which implies ξ ∈M(0). Hence triequilibrium-like problem (2.1) has at least one solution. □ Hence triequilibrium-like problem (2.1) has at least one solution. □ Int. J. Anal. Appl. (2022), 20:3 8 Remark 3.1. (i) If triequilibrium-like problem has a unique solution, then M(ε) ̸= 0, ∀ε > 0 and
T
ε>0 = {ξ0}. Remark 3.1. (i) If triequilibrium-like problem has a unique solution, then M(ε) ̸= 0, ∀ε > 0 and
T
ε>0 = {ξ0}. Remark 3.1. (i) If triequilibrium-like problem has a unique solution, then M(ε) ̸= 0, ∀ε > 0 and
T
ε>0 = {ξ0}. ε>0
(ii) It is well-known, that if there is a unique solution to variational inequality (2.6), then it is not
well-posed,see [9]. (ii) It is well-known, that if there is a unique solution to variational inequality (2.6), then it is not
well-posed,see [9]. (iii) Theorem (3.3) concludes that, the unique solution of problem (2.1) could be calc (iii) Theorem (3.3) concludes that, the unique solution of problem (2.1) could be calculated by utilizing
ε−equilibrium-like problem with trifunction, that is, find ξε ∈˜H, such that (iii) Theorem (3.3) concludes that, the unique solution of problem (2.1) could be calculated by utilizing
ε−equilibrium-like problem with trifunction, that is, find ξε ∈˜H, such that ε−equilibrium-like problem with trifunction, that is, find ξε ∈˜H, such that Ψ(ξε , Υ(ξε) , ℏ(ζ, ξε)) ≥−ε ∥ℏ(ζ, ξε) ∥, ∀ζ ∈Kℏ. 4. Perspective T
ε>0 = {ξ0}. Acknowledgements We wish to express our deepest gratitude to our colleagues, collaborators and friends, who have
direct or indirect contributions in the process of this paper. We are also grateful to Rector, COMSATS
University Islamabad, Pakistan for the research facilities and support in our research endeavors. Int. J. Anal. Appl. (2022), 20:3 9 Conflicts of Interest: The author(s) declare that there are no conflicts of interest regarding the
publication of this paper. References [1] A. Ben-Israel and B. Mond, What is invexity?, J. Austral. Math. Soc. Ser. B. 28 (1986), 1-9. https://doi.org/
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and well-posedness, Acta Math. Vietnam. (2021). https://doi.org/10.1007/s40306-021-00435-0. and well-posedness, Acta Math. Vietnam. (2021). https://doi.org/10.1007/s40306-021-00435-0. [13] B. B. Mohsen, M. A. Noor, K. I. Noor and M. Postolache, Strongly convex functions of higher order involving
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10.1007/BF02935729. 19] M. A. Noor, Fundamentals of mixed quasi variational inequalities. Int. J. Pure. Appl. Math. 15 (2 [19] M. A. Noor, Fundamentals of mixed quasi variational inequalities. Int. J. Pure. Appl. Math. 15 (2004), 137-250. [20] M. A. Noor, Fundamentals of equilibrium problems. Math. Inequal. Appl. 9 (2006), 529-566. https://doi.org/
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N-SLEEVE GASTRECTOMY: AN OPTION FOR OBESITY AND GERD
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HEADINGS - Sleeve gastrectomy. GERD.
Obesity. Bariatric surgery. HEADINGS - Sleeve gastrectomy. GERD. Obesity. Bariatric surgery. HEADINGS - Sleeve gastrectomy. GERD. Obesity. Bariatric surgery. RESUMO - Racional: A obesidade representa ameaça crescente à saúde da população em todo
o mundo. A gastrectomia por laparoscopia induz alteração do ângulo esofagogástrico devido
à própria técnica, hipotonia do esfíncter esofágico inferior após secção de fibras musculares
da junção, diminuição do volume gástrico e, consequentemente, aumento da pressão
intragástrica; é por isso que alguns pacientes têm refluxo após a gastrectomia vertical. Objetivo:
Descrever uma técnica e resultados preliminares da gastrectomia vertical com fundoplicatura
a Nissen, a fim de diminuir o refluxo após ela. Método: No artigo atual, descrevemos a técnica
passo a passo, principalmente focada na criação da válvula e seu cuidado. Resultados: Este
procedimento foi aplicado em um caso de mulher com IMC 45 de 53 anos com DRGE. Foi
realizada endoscopia demonstrando hérnia hiatal e cinco pólipos benignos. A gastrectomia
vertical com Nissen foi realizada devido à DRGE, à hérnia hiatal e aos múltiplos pólipos no
estômago. Ela tolerou bem o procedimento e recebeu alta sem intercorrências 48 h depois. Conclusão: A N-gastrectomia vertical (N-sleeve) é alternativa viável e segura em pacientes
obesos com refluxo e hérnia hiatal quando não é indicado o desvio gástrico em Y-de-Roux. Received for publication: 12/08/2019
Accepted for publication: 01/10/2019 Received for publication: 12/08/2019
Accepted for publication: 01/10/2019 DESCRITORES - Gastrectomia
vertical. Doença do refluxo gastroesofágico. Cirurgia
bariátrica INTRODUCTION O
besity represents a growing threat to population health all over the world. According to data from the National Health and Nutrition Examination
Survey, in 2015/2016, the prevalence of obesity was 39.8% in adults and
18.5% in youth in United States1,2. Obesity, one of the main factors, is reported to increase
the intra-gastric pressure with impaired gastric emptying, the frequency of transient
lower esophageal sphincter (LES) relaxation episode and the gastroesophageal pressure
gradient, potentially leading to GERD3,4,5,17,18,19. Laparoscopic sleeve gastrectomy induces
alteration of the esophagogastric angle due to surgery itself, hypotony of the LES after
division of muscular sling fibers, decrease of the gastric volume and, consequently,
increase of intragastric pressure, that’s why some patients have reflux after sleeve. O
A The objective of this paper was to describe a technique of sleeve gastrectomy
with a Nissen fundoplication (described by Prof. Nocca), in order to decrease reflux
after sleeve1,2,6,7,8,10,23,24. Original Article – Technique Original Article – Technique Original Article – Technique ABCD Arq Bras Cir Dig
2019;32(4):e1482
DOI: /10.1590/0102-672020190001e1482 ABCD Arq Bras Cir Dig
2019;32(4):e1482 N-gastrectomia vertical: uma opção para obesidade associada à doença do refluxo gastroesofágico Mariano PALERMO1, Edgardo SERRA1, Guillermo DUZA1 How to cite this article: Palermo M, Serra E, Duza G. N-sleeve gastrectomy: an option for obesity and GERD. ABCD Arq Bras Cir Dig. 2019;32(4):e1482. DOI: /10.1590/0102-672020190001e1482 From the 1Division of Bariatric Surgery,
Centro CIEN - DIAGNOMED, Affiliated to
the University of Buenos Aires, Buenos
Aires, Argentina. ABSTRACT - Background: Obesity represents a growing threat to population health all over the
world. Laparoscopic sleeve gastrectomy induces alteration of the esophagogastric angle due
to surgery itself, hypotony of the lower esophageal sphincter after division of muscular sling
fibers, decrease of the gastric volume and, consequently, increase of intragastric pressure;
that’s why some patients have reflux after sleeve. Aim: To describe a technique and preliminary
results of sleeve gastrectomy with a Nissen fundoplication, in order to decrease reflux after
sleeve. Method: In the current article we describe the technique step by step mostly focused
on the creation of the wrap and it care. Results: This procedure was applied in a case of
45 BMI female of 53 years old, with GERD. An endoscopy was done demonstrating a hiatal
hernia, and five benign polyps. A Nissen sleeve was performed due to its GERD, hiatal hernia
and multiple polyps on the stomach. She tolerated well the procedure and was discharged
home uneventfully 48 h after. Conclusion: N-sleeve is a feasible and safe alternative in obese
patients with reflux and hiatal hernia when Roux-en-Y gastric bypass it is not indicated. HEADINGS - Sleeve gastrectomy. GERD. Obesity. Bariatric surgery. Surgical technique
l
i By laparoscopic approach with the surgeon standing between the patient’s legs,
five trocars are placed (Figure 1). Pneumoperitoneum is insuflated up to to 15 mmHg. The trocar placement is the same as in standard laparoscopic sleeve gastrectomy (LSG)
or Roux-en-Y gastric bypass (RYGBP). 1/4 1/4 ABCD Arq Bras Cir Dig 2019;32(4):e1482 Original Article – Technique The first step of the N-sleeve is the dissection and
reduction of a hiatal hernia. An extension of at least 5 to 6 cm
of abdominal esophagus is mobilized and all the anterior and
posterior esophageal hiatal space is dissected (Figure 2A). The
greater curvature of the stomach is then dissected from the
short gastric vessels and gastrocolic ligament, starting 5 cm
from the pylorus. Two non-absorbable sutures are used to close
the hiatal hernia and a 36 Fr calibration boggie is inserted as
a regular LSG (Figures 2B and C). After that step a short 360º
valve of 3 cm is created using silk. The wrap valve is fixed to
the anterior part of the esophagus (Figure 3A and B). Then the
rest of the greater curvature is dissected. A laparoscopic 60
mm linear stapler is used to perform the first division of the
antrum. Then the rest of the sleeve gastrectomy is performed
as usual with special care in the last fire in order not to cut the
“4” layers (Figures 4A and B). All the staple lines are reinforced
as we do in the regular LSG (Figure 5). Blue test is performed. We routinely place a JP drain. The postoperative care is the
same than the regular LSG. FIGURE 5 - Staple line reinforcement with absorbable sutures FIGURE 5 - Staple line reinforcement with absorbable sutures FIGURE 1 - Placement of the trocars
FIGURE 2 – A) Hiatal hernia; B) closure of the hiatal hernia with
silk; C) final aspect of the hernia closure calibrating
it with a 36 Fr tube Contrary to standard LSG, for the N–sleeve some
technical details are very important: 1) avoid ischemia of
the gastric wall during short gastric vessels dissection; 2)
delicate handling of the gastric fundus during fundoplication;
3) avoid double stapling of the gastric fundus10,32,36,37. RESULTS This procedure was applied in a female of 53 years;
she was admitted to our multidisciplinary group for obesity
treatment. She had a BMI of 45. All the preoperative exams
were done (laboratory, endoscopy, gastrointestinal series,
functional lung test, HPB ultrasound). In the endoscopy a
hiatal hernia was demonstrated, and five benign polyps
were resected by endoscopy. The patient had GERD. We
performed a N-sleeve due to its GERD, hiatal hernia and
multiple polyps on the stomach. She tolerated well the
procedure, was discharged home uneventfully 48 h after
the procedure and in the medium term follow up she did
well, with adequate weight loss and non recurrence of
her GERD symptoms. We will still follow up her in order
to have more long-term data. FIGURE 1 - Placement of the trocars FIGURE 2 – A) Hiatal hernia; B) closure of the hiatal hernia with
silk; C) final aspect of the hernia closure calibrating
it with a 36 Fr tube A CT scan was performed for another reason not
related with the surgery and we could see the wrap with
no complications and an adequate sleeve (Figure 6). FIGURE 2 – A) Hiatal hernia; B) closure of the hiatal hernia with
silk; C) final aspect of the hernia closure calibrating
it with a 36 Fr tube FIGURE 2 – A) Hiatal hernia; B) closure of the hiatal hernia with
silk; C) final aspect of the hernia closure calibrating
it with a 36 Fr tube FIGURE 6 – CT demonstrating and adequate Nissen wrap with
no complications and a normal sleeve size. FIGURE 3 - A and B) The wrap is being performed
FIGURE 4 – A and B) The last stapling and the final aspect of
the N-sleeve
FIGURE 6 – CT demonstrating and adequate Nissen wrap with
no complications and a normal sleeve size. FIGURE 6 – CT demonstrating and adequate Nissen wrap with
no complications and a normal sleeve size. REFERENCES Effect of sleeve gastrectomy on gastroesophageal
reflux disease: a systematic review. SurgObesRelat Dis. 20117:510-15. 6. Craig M. Hales, Margaret D. Carroll, Cheryl D. Fryar, Cynthia L. Ogden,
Prevalence of Obesity Among Adults and Youth: United States, 2015–2016. NCHS Data Brief. 2017 Oct;(288):1-8.) 6. Craig M. Hales, Margaret D. Carroll, Cheryl D. Fryar, Cynthia L. Ogden,
Prevalence of Obesity Among Adults and Youth: United States, 2015–2016. NCHS Data Brief. 2017 Oct;(288):1-8.) However, reflux control (by medical treatment or anti-reflux
surgery) is associated with regression of Barrett’s mucosa10,12,25,27,28,
an important reason to combine an anti-reflux mechanism to
a bariatric procedure. 7. David MB, Abu-Gazala S, Sadot E, Wasserberg N, Kashtan H, Keidar
A. Laparoscopic conversion of failed vertical banded gastroplasty to
Roux-en-Y gastric bypass or biliopancreatic diversion. SurgObesRelat
Dis. 2015 Sep-Oct;11(5):1085-91. 8. Disse E, A. Pasquer, P. Espalieu, G. Poncet, C. Gouillat, M. Robert. Greater
weight loss with the omega loop bypass compared to the Roux-en-Y
gastric bypass: a comparative study ObesSurg, 2014 Jun;24(6):841-6 LSG has evolved into a primary surgical procedure for
morbid obesity. It has gained popularity worldwide as a primary
bariatric procedure, now established as the most frequent
bariatric procedure worldwide12,23,34,37. This growth can be
explained by several advantages that LSG carries over more
complex bariatric procedures, such as RYGBP or duodenal switch,
including the absence of most side effects of bypass procedures
like dumping syndrome, marginal ulcers, malabsorption, small
bowel obstruction and internal hernia, and a better quality of
life over gastric banding17,23,24,32. 9. El-Serag HB, Sweet S, Winchester CC, Dent J. Update on the epidemiology
of gastro-oesophageal reflux disease: a systematic review. Gut. jun
2014;63(6):871-80. 10. Fezzi M, Kolotkin RL, Nedelcu M et al. Improvement in quality of life after
laparoscopic sleeve gastrectomy. Obes Surg. 2011 Aug;21(8):1161-7. f 11. Gagner M, Hutchinson C, Rosenthal R. Fifth International Consensus
Conference: current status of sleeve gastrectomy. SurgObesRelat Dis
Off J Am SocBariatr Surg. mai 2016;12(4):750‑6. 12. Gagner M, Ramos A, Palermo M, Noel P, Nocca D. The perfect Sleeve
gastrectomy. SPRINGER. In Press. Besides prior described alterations, LSG decreases
ghrelin, hence dismotility10,24,25,27. All these factors contribute to
expose the patient to the risk of increasing GERD and proton
pump inhibitors dependency or developing new GERD onset. On the other hand, weight loss after surgery together with
accelerated gastric emptying, decreases acid production and
restores esophagogastric angle over time supposing to improve
reflux symptoms. Mariano Palermo: 0000-0001-7366-3321
Edgardo Serra: 0000-0001-8346-3702 Mariano Palermo: 0000-0001-7366-3321
Edgardo Serra: 0000-0001-8346-3702 REFERENCES However, the presence of preoperative GERD
should be considered a relative contraindication to LSG12,24,31. 13. Genco A, Soricelli E, Casella G, Maselli R, Castagneto-Gissey L, Di Lorenzo
N, Basso N. Gastroesophageal reflux disease and Barrett’s esophagus
after laparoscopic sleeve gastrectomy: a possible, underestimated
long-term complication. SurgObesRelat Dis. 2017 Apr;13(4):568-574. 14. Hales CM, Fryar CD, Carroll MD, Freedman DS, Ogden CL. Trends in
Obesity and Severe Obesity Prevalence in US Youth and Adults by Sex and
Age, 2007-2008 to 2015-2016. JAMA. 2018 Apr 24;319(16):1723-1725. 15. Higa K, Ho T, Tercero F, Yunus T, Boone KB. Laparoscopic Roux-en-Y
gastricbypass: 10-year follow-up. SurgObesRelat Dis. 2011 Jul-Aug;7(4):516-25. 16. Himpens J, Dapri G, Cadière GB. A prospective randomized study between
laparoscopic gastric banding and laparoscopic isolated sleeve gastrectomy:
results after 1 and 3 years. Obes Surg. nov 2006;16(11):1450-6. Here we introduced the concept of N-sleeve as an option to
prevent GERD. Although the laparoscopic RYGB was considered
the gold standard procedure for obese patients with reflux
disease, more than one third of patients who underwent this
operation had at least one complication within the 10-year
follow-up period33. Himpens et al. reported new gastro-
esophageal reflux complaints in 21% of patients. Considering
all these findings and encouraged by the good results of LSG
and concomitant hiatal hernia repair10,12,21,34, David Nocca and
his team have developed a modification to the usual surgical
technique by adding a Nissen fundoplication in order to
minimize both leaks and GERD32,37. 17. Kirkil C, Aygen E, Korkmaz MF, Bozan MB. Quality of life after laparoscopic
sleeve gastrectomy usi̇ng baros system. Arq Bras Cir Dig. 2018 Aug
16;31(3):e1385. doi: 10.1590/0102-672020180001e1385 18. Lasnibat JP, Braghetto I, Gutierrez L, Sanchez F. Sleeve gastrectomy
and fundoplication as a single procedure in patients with obesity and
gastroesophageal reflux. Arq Bras Cir Dig. 2017 Jul-Sep;30(3):216-221. doi: 10.1590/0102-6720201700030012. 19. Lazzati A, Guy-Lachuer R, Delaunay V, Szwarcensztein K, Azoulay D
Bariatric surgery trends in France: 2005-2011.Surg ObesRelat Dis. 2014
Mar-Apr;10(2):328-34 20. Lundell L, Dent J, Bennett J, Blum A, Armstrong D, Galmiche J, et
al. Endoscopic assessment of oesophagitis: clinical and functional
correlates and further validation of the Los Angeles classification. Gut. août 1999;45(2):172‑80. The aim of this article was to describe our N-sleeve
technique performed in Buenos Aires as an option for patients
who have hiatal hernia with reflux and are not candidates to
perform a RYGBP. 21. RESULTS FIGURE 3 - A and B) The wrap is being performed FIGURE 3 - A and B) The wrap is being performed FIGURE 3 - A and B) The wrap is being performed FIGURE 4 – A and B) The last stapling and the final aspect of
the N-sleeve FIGURE 4 – A and B) The last stapling and the final aspect of
the N-sleeve FIGURE 6 – CT demonstrating and adequate Nissen wrap with
no complications and a normal sleeve size. FIGURE 6 – CT demonstrating and adequate Nissen wrap with
no complications and a normal sleeve size. FIGURE 4 – A and B) The last stapling and the final aspect of
the N-sleeve ABCD Arq Bras Cir Dig 2019;32(4):e1482 ABCD Arq Bras Cir Dig 2019;32(4):e1482 2/4 N-SLEEVE GASTRECTOMY: AN OPTION FOR OBESITY AND GERD CONCLUSION N-sleeve is a feasible and safe alternative in obese patients
with reflux and hiatal hernia when RYGBP it is not indicated. Nocca et al.23 by 2016 published the first 25 patients all
with esophageal syndromes. Ninety-two had typical symptoms
of GERD and two asymptomatic but with esophageal injury. Three months after N-sleeve, 76% of the patients remained
asymptomatic without proton pump inhibitor use. At six months
and one year, three (12%) patients were still experiencing reflux. Excess weight loss at one year was 58±23%, total weight loss
was 27±10%, and body mass index change was -11±4 kg/m². They concluded that N-sleeve seems to be a safe procedure that
provides an adequate reflux control with no clear interference
on the expected bariatric results of a standard LSG10,12,24.i REFERENCES Regarding GERD, the Montreal conference defines it as
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Score). Ann Surg. 22 févr 2017 GERD is complex, especially in the era of bariatric surgery35. A chronic inflammation can induce more serious lesions, since up
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Variables associated with an increased risk of progression
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candidiasis14,15,16,17.ll 5. Chiu S, Birch DW, Shi X, et al. Effect of sleeve gastrectomy on gastroesophageal
reflux disease: a systematic review. SurgObesRelat Dis. 20117:510-15. 5. Chiu S, Birch DW, Shi X, et al. REFERENCES Melissas J, Daskalakis M, Koukouraki S, Askoxylakis I, Metaxari M,
Dimitriadis E, et al. Sleeve gastrectomy-a « food limiting » operation. Obes Surg. oct 2008;18(10):1251-6. 22. Mognol P, Chosidow D, Marmuse JP Roux-en-Y gastric bypass after
failed vertical banded gastroplasty. Obes Surg. 2007 Nov;17(11):1431-4. 22. Mognol P, Chosidow D, Marmuse JP Roux-en-Y gastric bypass after
failed vertical banded gastroplasty. Obes Surg. 2007 Nov;17(11):1431-4. 3/4 ABCD Arq Bras Cir Dig 2019;32(4):e1482 Original Article – Technique 23. Nocca D, Skalli EM, Boulay E, Nedelcu M, Michel Fabre J, Loureiro
M. Nissen Sleeve (N-Sleeve) operation: preliminary results of a pilot
study. Surg Obes Relat Dis. 2016 Dec;12(10):1832-1837. doi: 10.1016/j. soard.2016.02.010. Epub 2016 Feb 22. 31. Sebastianelli L, Benois M, Vanbiervliet G, Bailly L, Robert M, Turrin N,
Gizard E, Foletto M, Bisello M, Albanese A, Santonicola A, Iovino P, Piche
T, Angrisani L, Turchi L, Schiavo L, Iannelli A. Systematic Endoscopy 5 Years
After Sleeve Gastrectomy Results in a High Rate of Barrett’s Esophagus:
Results of a Multicenter Study. Obes Surg. 2019 Jan 21. doi: 10.1007/
s11695-019-03704. p
24. Oh DS, Demeester SR. Pathophysiology and treatment of Barrett’s
esophagus. World J Gastroenterol. 14 août 2010;16(30):3762‑72. p
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25. Ponce J, DeMaria EJ, Nguyen NT, Hutter M, Sudan R, Morton JM. American Society for Metabolic and Bariatric Surgery estimation of
bariatric surgery procedures in 2015 and surgeon workforce in the
United States. SurgObesRelat Dis. 2016 Aug. 26 32. Sohn S, Fischer J, Booth M.Adenocarcinoma of the gastro-oesophageal
junction aftersleeve gastrectomy: a case report.ANZ J Surg. 2017
Oct;87(10):E163-E164. 33. Soricelli E, Iossa A, Casella G, Abbatini F, Calì B, Basso N. Sleeve gastrectomy
and crural repair in obese patients with gastroesophageal reflux disease
and/or hiatal hernia. SurgObesRelat Dis Off J Am SocBariatr Surg. juin
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26. Porcelli ICS, Corsi NM, Fracasso MLC, Pascotto RC, Cardelli AAM, Poli-
Frederico RC, Nasser D, Maciel SM. Oral health promotion in patients with
morbid obesity after gastroplasty: a randomized clinical trial. Arq Bras Cir
Dig. 2019 Aug 26;32(2):e1437. doi: 10.1590/0102-672020190001e1437. 34. Tolonen P, Victorzon M, Niemi R, Mäkelä J. Does gastric banding for
morbid obesity reduce or increase gastroesophageal reflux? Obes Surg. 2006 Nov;16(11):1469-74. g
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27. Rosenthal RJ, International Sleeve Gastrectomy Expert Panel, Diaz AA,
Arvidsson D, Baker RS, Basso N, et al. International Sleeve Gastrectomy
Expert Panel Consensus Statement: best practice guidelines based on
experience of >12,000 cases. SurgObesRelat Dis Off J Am SocBariatr
Surg. REFERENCES févr 2012;8(1):819. 35. Wada AM, Hashiba K, Otoch JP, Brasil H, Marson FP, Cassab J, Abdalla
R, Artifon ELA. Full-thickness endoscopic gastric resection using a
stapler and gastrostomy: a feasibility study. Arq Bras Cir Dig. 2018 Aug
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28. Saarinen T, Räsänen J, Salo J, Loimaala A, Pitkonen M, Leivonen M, Juuti
A. Bile Reflux Scintigraphy After Mini-Gastric Bypass. ObesSurg. 2017
Aug;27(8):2083-2089 36. Weiss AC, Parina R, Horgan S, Talamini M, Chang DC, Sandler B. Quality and
safety in obesity surgery-15 years of Roux-en-Y gastric bypass outcomes
from a longitudinal database. SurgObesRelat Dis. 2016 Jan;12(1):33-40 g
29. Samakar K, McKenzie TJ, Tavakkoli A, Vernon AH, Robinson MK, Shikora
SA. The Effect of Laparoscopic Sleeve Gastrectomy with Concomitant
Hiatal Hernia Repair on Gastroesophageal Reflux Disease in the Morbidly
Obese. Obes Surg. janv 2016;26(1):61‑6. g
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37. Woodman G, Cywes R, Billy H, Montgomery K, Cornell C, Okerson T;
Effect of adjustable gastric banding on changes in gastroesophageal
reflux disease (GERD) and quality of life. APEX Study Group. Curr Med
Res Opin. 2012 Apr;28(4):581-9. g j
30. Sanchez-Pernaute, M.A. Rubio, M. Conde, E. Arrue, E. Perez-Aguirre,
A. Torres Single-anastomosis duodenoileal bypass as a second step
after sleeve gastrectomy. SurgObesRelat Dis 2015 Mar-Apr;11(2):351-5 4/4 ABCD Arq Bras Cir Dig 2019;32(4):e1482 4/4
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Recent advances on chitosan-based films for sustainable food packaging applications
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Food packaging and shelf life
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| ERROR: type should be string, got "https://doi.org/10.1016/j.fpsl.2020.100551 \nReceived 23 March 2020; Received in revised form 26 July 2020; Accepted 31 July 2020 \n2214-2894/ ©\n 2020 Published by Elsevier Ltd. Hossein Haghighia, Fabio Licciardelloa,b,*, Patrizia Favaa,b, Heinz Wilhelm Sieslerc, \nAndrea Pulvirentia,b Hossein Haghighia, Fabio Licciardelloa,b,*, Patrizia Favaa,b, Heinz Wilhelm Sieslerc, \nAndrea Pulvirentia,b a Department of Life Sciences, University of Modena and Reggio Emilia, Reggio Emilia, Italy \nb Interdepartmental Research Centre BIOGEST-SITEIA, University of Modena and Reggio Emilia, Reggio Emilia, Italy \nc Department of Physical Chemistry, University of Duisburg-Essen, Essen, Germany ⁎ Corresponding author. \nE-mail address: fabio.licciardello@unimore.it (F. Licciardello). A B S T R A C T Keywords: \nBiopolymer \nBlend \nFilm \nFood packaging \nMechanical properties \nPermeability The recent sharp increase of sensitivity towards environmental issues arising from plastic packaging has boosted \ninterest towards alternative sustainable packaging materials. This new trend promotes the industrial exploitation \nof knowledge on chitosan-based films. Chitosan has been extensively investigated and used due to its unique \nbiological and functional properties. However, inherent drawbacks including low mechanical properties and \nhigh sensitivity to humidity represent major limitations to its industrial applications, including food packaging. In the present study, the scientific literature of the last five years has been extensively reviewed (source: Web of \nScience) addressing chitosan-based films for their potential application in the food packaging industry. The \ncontribution summarizes the various strategies adopted to overcome inherent drawbacks and improve the \nproperties of chitosan-based films, with special regards for blending with natural and synthetic biopolymers. biodegradable materials are produced from renewable resources \n(Rujnić-Sokele & Pilipović, 2017). A schematic classification of biode\ngradable polymers according to their source is presented in Fig. 1. Food Packaging and Shelf Life 26 (2020) 100551 Food Packaging and Shelf Life 26 (2020) 100551 1. Introduction Fig. 1. Schematic classification of biodegradable polymers. Fig. 1. Schematic classification of biodegradable polymers. Bioplastics, whether biobased, biodegradable, or both, have unique \nadvantages over conventional plastics to reduce reliance on fossil re\nsources and to mitigate carbon footprint and greenhouse gas emissions. Besides, they promote resource efficiency and offer extra waste man\nagement options such as organic recovery (Arikan & Ozsoy, 2015; \nKumar & Thakur, 2017). interrogation of the Web of Science database was performed searching \n“chitosan, film, blend, food packaging” within title, abstract and key\nwords in the timeframe 2015–2020. Nevertheless, among the very large \nnumber of papers available dealing with a wide range of characteristics \nand functionalities, only the most significant studies and achievements \nwill be analyzed and discussed. ,\n)\nRecently, biodegradable polymers derived from renewable re\nsources have been proposed as the future generation of packaging \nmaterials (Lei et al., 2014). The basic material employed to form bio\nbased films are polysaccharides, proteins, lipids, and their derivatives \n(De Leo et al., 2018; Ramos, Valdés, Beltrán, & Garrigós, 2016). Pro\nteins and polysaccharides have acceptable mechanical and gas barrier \nproperties, but they show high moisture sensitivity (Rhim & Ng, 2007). On the contrary, lipid films exhibit acceptable water vapor barrier \nproperty and high oxygen permeability, but they have poor mechanical \nproperties (Vodnar, Pop, Dulf, & Socaciu, 2015). Among poly\nsaccharides, chitosan has received considerable attention from aca\ndemics and industry for food packaging applications due to its parti\ncular \nphysicochemical \nfeatures, \nbiodegradability, \nnon-toxicity, \nbiocompatibility, good film-forming properties, chemical stability, high \nreactivity (Dutta, Tripathi, & Dutta, 2012; Lago et al., 2014; Mujtaba \net al., 2019). General values for the parameters of interest for food \npackaging applications are reported in Table 1. The reader should \nconsider these values as merely representative since they could dar\namatically change upon addition of additives such as plasticizers or \ncrosslinker. Chitoasan has also intrinsic antioxidant and antimicrobial \nactivities against fungi, molds, yeasts, and bacteria (Aider, 2010; \nLeceta, Guerrero, & de la Caba, 2013). However, inherent drawbacks of \nchitosan including low mechanical and thermal stability and high \nsensitivity to humidity are causing a major restriction for its industrial \napplications (Elsabee & Abdou, 2013). One strategy to overcome these \ndrawbacks is blending chitosan with other biopolymers to combine \ntheir advantages as well as minimize their disadvantages. 1. Introduction Annually, more than 350 million tons of plastics are produced in the \nworld (Ritchie & Roser, 2018). It is expected that plastics will account \nfor 20 % of total oil consumption by 2050 (Newell, Qian, & Raimi, \n2016; Cui, Borgemenke, Qin, Liu, & Li, 2019). Packaging, particularly \nfood packaging, is one of the largest application fields for plastics (Cui, \nSurendhiran, Li, & Lin, 2020). Food packaging is represented as a co\nordinated system for processing, transporting, distributing, retailing, \nprotecting and preserving food to satisfy the industry demands and \nconsumer desires, to retain food safety and to protect food from ex\nternal contamination with optimal cost (Marsh & Bugusu, 2007; Shin & \nSelke, 2014; Yam & Lee, 2012). However, accumulation of huge \namounts of plastic waste in the environment, and also rapid depletion \nof fossil reserves and increases in the cost of petroleum, are pushing the \nfood packaging industry toward the development and application of \neco-friendly materials, such as bioplastics (Arikan & Ozsoy, 2015; Philp, \nBartsev, Ritchie, Baucher, & Guy, 2013). The term “biobased” refers to the derivation of material from bio\nmass (Soroudi & Jakubowicz, 2013). The term “biodegradable” in\ndicates materials that can disintegrate or break down naturally into \nCO2, CH4, H2O, and inorganic compounds, or biomass in which the \nprevalent process is the enzymatic function of microorganisms \n(Peelman et al., 2013), that can be measured by standardized tests \n(ASTM Standard D-5488-94d). Some of these polymers can also be \ncompostable, which means disintegration occurs in a compost site at a \nrate consistent with known compostable materials and without re\nleasing toxic substances (Siracusa, Rocculi, Romani, & Dalla Rosa, \n2008). As stated by the European Bioplastic Organization, bioplastics \nconstitute approximately 1 % of the total global plastics production \nannually (Rujnić-Sokele & Pilipović, 2017). Packaging, as one of the \nlargest application fields for bioplastics, shares almost 65 % of the total \nbioplastics market. This number is predicted to rise continuously in the \nupcoming years mainly due to the increasing consumer requirements \nfor sustainable products and growing awareness over environmental \nissues (van den Oever, Molenveld, van der Zee, & Bos, 2017). Bioplastics can be referred to as plastics obtained from renewable \nresources (biobased), plastics that are biodegradable and/or compo\nstable, or materials that feature both properties (Kumar & Thakur, \n2017). Hence, not all biobased materials are biodegradable and not all Food Packaging and Shelf Life 26 (2020) 100551 H. Haghighi, et al. 1. Introduction Therefore, \nthe objective of the present paper is to provide a comprehensive lit\nerature review of the last five years addressing chitosan-based films and \nstrategies adopted for the improvement of their performances for po\ntential food packaging applications. To get an idea of the complexity of \nthe theme and of the work that has been done in the last years, an 2. History, features, and potential of chitosan Molecular weight \nMoisture content (%) \nTransparency value (A600/T) \nL* \na* \nb* \nΔE* \nWVP \n(× 10-13 g cm-1 s-1 Pa-1) \nOP \n(cm3 μm m-2 day-1 KPa-1) \nTS \n(MPa) \nE \n(%) \nHigh molecular weight chitosan \n15.70 \n0.754 \n96.39 \n−0.23 \n3.15 \n1.68 \n8.07 \n6.65 \n61.82 \n4.59 \nLow molecular weight chitosan \n19.43 \n0.760 \n96.54 \n−0.57 \n4.74 \n5.29 \n9.21 \n7.70 \n55.83 \n4.58 \n. Haghighi, et al. hydrolyzed chitin in several ways and extracted chitosan from marine \narthropods (e.g., crab, shrimp, and lobster). In the 1940s, both chitin \nand chitosan attracted considerable attention as evidenced by about 50 \npatents. In 1950, the structure of chitosan was discovered using X-ray \n(Darmon & Rudall, 1950). The first book about chitosan was published \nby Albert Glenn Richards in 1951 (Richards, 1951). Nowadays, chitin and chitosan are simply described as copolymers \nof N-acetyl-D-glucosamine and D-glucosamine units linked with β-(1–4)- \nglycosidic bonds (Hosseinnejad & Jafari, 2016). They attract consider\nable attention and are employed worldwide for a broad range of ap\nplications. In the food industry, they are applied as antimicrobial agents \n(bactericidal and fungicidal), edible films and coating (e.g., post-har\nvest deterioration control in fruits), additives (e.g., natural flavor ex\ntender, emulsifying agents, thickeners, stabilizing agents, and color \nstabilizers), integrators (e.g., dietary fiber), enzyme immobilization, \nencapsulation of nutraceuticals, and purification of water (e.g. removal \nof dyes) (Ahmed & Ikram, 2017; Dutta, Tripathi, Mehrotra, & Dutta, \n2009; López-Caballero, Gómez-Guillén, Pérez-Mateos, & Montero, \n2005; Zargar et al., 2015; Zhang, Li, & Liu, 2011). g\ng\nChitosan exhibits antioxidant (Ngo & Kim, 2014; Ojagh, Rezaei, \nRazavi, & Hosseini, 2010) and antimicrobial activity against a broad \nrange of pathogenic and spoilage microorganisms, including fungi \n(yeasts and molds), Gram-positive and Gram-negative bacteria \n(Friedman & Juneja, 2010; Kong, Chen, Xing, & Park, 2010; van den \nBroek, Knoop, Kappen, & Boeriu, 2015). The antimicrobial activity of \nchitosan has drawn attention as a potential natural food preservative \n(Del Nobile et al., 2009; No, Meyers, Prinyawiwatkul, & Xu, 2007). Several hypotheses have been suggested to elucidate the mechanism of \nantimicrobial activity of chitosan: the most reasonable hypothesis is \nelectro statistic interaction between protonated amino groups (NH3\n+) \nof glucosamine in the chitosan backbone and microbial negative cell \nmembrane constituents such as phosphoryl groups of the phospholipid \ncomponents, proteins, amino acids, and various lipopolysaccharides \n(Elsabee & Abdou, 2013; Mousavi Khaneghah, Hashemi, & Limbo, \n2018). 2. History, features, and potential of chitosan This interaction affects the membrane integrity and perme\nability, interfering with energy metabolism, nutrient transport, pro\nvoking the permeation of proteinaceous and other intracellular com\nponents, and causing disruptions that lead to cell death of \nmicroorganisms (Goy, de Britto, & Assis, 2009). Another possible me\nchanism is the interaction of chitosan with cellular DNA of micro\norganisms, thus preventing DNA transcription, RNA translation, and \nprotein synthesis (Raafat & Sahl, 2009; Sharif et al., 2018; Verlee et al., \n2017). Moreover, chitosan acts as a chelating agent that selectively \nbinds essential trace metals, spores, prevents the production of toxins \nand microbial growth (Hosseinnejad & Jafari, 2016; Vodnar et al., \n2015). Several researchers also suggested that microbial growth in\nhibition occurs by blocking the supply of essential nutrients into the cell \n(No et al., 2007; Raafat & Sahl, 2009). Chitosan exhibits antioxidant (Ngo & Kim, 2014; Ojagh, Rezaei, \nRazavi, & Hosseini, 2010) and antimicrobial activity against a broad \nrange of pathogenic and spoilage microorganisms, including fungi \n(yeasts and molds), Gram-positive and Gram-negative bacteria \n(Friedman & Juneja, 2010; Kong, Chen, Xing, & Park, 2010; van den \nBroek, Knoop, Kappen, & Boeriu, 2015). The antimicrobial activity of \nchitosan has drawn attention as a potential natural food preservative \n(Del Nobile et al., 2009; No, Meyers, Prinyawiwatkul, & Xu, 2007). l h\nh\nh\nb\nd\nl\nd\nh\nh\nf 2. History, features, and potential of chitosan Chitosan is a unique natural biopolymer, commercially originated \nfrom the deacetylation (to varying degrees) of chitin (Verlee, Mincke, & \nStevens, 2017). It is the second most abundant natural polysaccharide \nbehind \ncellulose \n(Salari, \nSowti \nKhiabani, \nRezaei \nMokarram, \nGhanbarzadeh, & Samadi Kafil, 2018) and the most abundant biopo\nlymer of animal origin (Priyadarshi & Rhim, 2020). Chitin can be ob\ntained from terrestrial arthropods (e.g., spiders, scorpions, beetles, \ncockroaches, and brachiopods), marine crustaceans (e.g., crab, lobster, \nprawn, and krill), Mollusca (e.g., squid) and microorganisms (e.g., fungi \ncell walls) (Zargar, Asghari, & Dashti, 2015). The waste of marine food \nproduction (particularly exoskeleton of crabs, lobsters, and shrimps) is \ncurrently the main industrial source of biomass for chitin production \n(Gutiérrez, 2017). i The first report on chitin traces back to 1811 by French Professor of \nnatural history Henri Braconnot. He found out the alkaline-insoluble \nfraction from mushrooms and named it “fungine”. In 1823, Antoine \nOdier extracted this alkaline-insoluble fraction from the cuticle of in\nsects and named it “chitine”, originated from the Greek word “khiton” \nmeaning “tunic” or “envelope”. Twenty years later, Jean Louis \nLassaigne proved the presence of nitrogen in chitin. In 1859, Prof. C. Rouget discovered the deacylated form of chitin. He treated chitin with \nconcentrated potassium hydroxide solution and heat to become soluble \nin dilute organic acids and named it “modified chitin” (Rouget, 1859). In 1878, Ledderhose identified that chitin was made of glucosamine and \nacetic acid. In 1894, Hoppe-Seyler treated the shells of crabs, scorpions, \nand spiders with potassium hydroxide solution at 180 °C and dissolved \nthe product in dilute acid solution and named it “chitosan”. In 1894, \nGilson proved the presence of glucosamine in chitin. In 1930, Ram\nmelberg found more chitin sources apart from insects and fungi. He 2 Food Packaging and Shelf Life 26 (2020) 100551 H. Haghighi, et al. Table 1 \nMoisture content, transparency value, color parameters including L* (lightness), a* (redness/greenness) and b*(yellowness/blueness), ΔE* (total color difference), water vapor permeability (WVP), oxygen permeability \n(OP), tensile strength (TS) and elongation at break (E) of low and high molecular weight chitosan films. Adapted from Leceta, Guerrero, & de la Caba (2013). 3. Strategies for the improvement of properties of chitosan-based \nfilms Inherent drawbacks of chitosan such as high sensitivity to water, \nlow mechanical and thermal stability lead to a shorter food shelf life \ncompared to the conventional food packaging material and conse\nquently limited its applications in food packaging (Al-Tayyar, Youssef, \n& Al-hindi, 2020; Elsabee & Abdou, 2013). Therefore, different strate\ngies have been proposed to tackle these issues and to improve the \nproperties of chitosan-based materials, such as cross-linking (Jahan, \nMathad, & Farheen, 2016; Khouri, Penlidis, & Moresoli, 2019; Liang, \nWang, & Chen, 2019; Yeamsuksawat & Liang, 2019), enzyme treatment \n(Águila-Almanza, Salgado-Delgado, Vargas-Galarza, García-Hernández, \n& Hernández-Cocoletzi, 2019), graft copolymerization (Argüelles- \nMonal, Lizardi-Mendoza, Fernández-Quiroz, Recillas-Mota, & Montiel- \nHerrera, 2018; Wang, Yu et al., 2016; Wang et al., 2019), complexation \n(Wang, Wang, & Heuzey, 2016), surface coating (Khwaldia, Basta, 3 Food Packaging and Shelf Life 26 (2020) 100551 H. Haghighi, et al. plications. Improvement of the parameters investigated in each contribution is reported as \nantimicrobial activity\nHaghig (continued on next page) Table 2 \nSynopsis of research published between 2015 – 2020 addressing chitosan-polysaccharide blend films for food packaging applications. Improvement of the parameters investigated in each contribution is reported as\nfollows. M: mechanical properties, WB: water barrier properties, GB: gas barrier permeability, AO: antioxidant activity, AM: antimicrobial activity. Biopolymer \nAdditives \nKey findings \nM \nWB \nGB \nAO \nAM \nReference \n• Pectin (2 % w/v) \n• Nano chitosan (2 % w/v) \n• Films with different ratios of pectin/nano chitosan (100:0, 75:25, \n50:50, 25:75, and 0:100 w/w) were developed. • Blending pectin with nano chitosan at proportions of 50:50 \nincreased the tensile strength while water solubility, water vapor \npermeability, and oxygen permeability decreased. • Developed films showed antimicrobial activity against C. gloeosporioides, S. cerevisiae, A. niger, and E. coli. ✓ \n✓ \n✓ \n✓ \nNgo, Nguyen, Dang, Tran, and \nRachtanapun (2020) \n• Cassava starch (2 % w/w) \n• Chitosan (1 % w/w) \n• Pitanga leaf extract (2.25 % w/w of film forming \nsolution) \n• Natamycin (1 % w/w of film forming solution) \n• Pitanga leaf extract /Natamycin mixture \n• Addition of natamycin into the biopolymers blend caused an \nincrease in tensile strength while water vapor permeability \ndecreased. • Films containing additive showed excellent barrier to UV light. • Addition of pitanga leaf extract caused an increase in antioxidant \nactivity while a combination of pitanga leaf extract and natamycin \nled to the reduction of antioxidant activity. 3. Strategies for the improvement of properties of chitosan-based \nfilms • Addition of natamycin showed positive anti-fungal activity against \nAspergillus flavus and Aspergillus parasiticus. ✓ \n✓ \n✓ \n✓ \nSirisha Nallan Chakravartula et al. (2020) \n• Purple yam starch (2 % w/v) \n• Chitosan (0.5 and 1 % w/v) \n• Increasing concentration of chitosan in the biopolymers blend \ncaused an increase in water vapor permeability while moisture \ncontent was reduced. • Application of a purple yam starch/chitosan blend film on apple \nfruits for 4 weeks preserved the fruit quality compared to \nuntreated apple samples. Martins da Costa, Lima Miki, da \nSilva Ramos, and Teixeira-Costa \n(2020) \n• Bacterial cellulose (0.5 % w/v) \n• Chitosan (2 % w/v) \n• Borate (4 %) \n• Tripolyphosphate (4 %) \n• Borate/Tripolyphosphate mixture \n• Films with different proportion of bacterial cellulose/chitosan 0, \n1/64, 1/32, 1/16, 1/8, and 1/4 were developed. • Addition of borate and tripolyphosphate into the biopolymers \nblend (1/32) showed an improvement in tensile strength and \nelasticity values mainly. • Antimicrobial activity of composite film against E. coli, B. cinerea, \nand S. cerevisiae reduced by addition of cross-linking agent. ✓ \n✓ \nLiang et al. (2019) \n• Potato starch (4 % w/v) \n• Chitosan (1.5 % w/v) \n• Citric acid (5, 10, 15, and 20 % w/w based on a dry \nbiopolymer basis) \n• Addition of citric acid into the biopolymers blend improved tensile \nstrength and elasticity. • Active films containing citric acid showed a homogenous and \ncompact structure. • Moisture content and water solubility reduced while water vapor \npermeability, mechanical and antimicrobial properties improved \nby addition of citric acid to the biopolymers blend. • Both control and films containing citric acid showed antibacterial \nactivity against E. coli and S. aureus. ✓ \n✓ \n✓ \nWu et al. (2019) \n• Hemicellulose (2 % w/v) \n• Chitosan (2 % w/v) \n• Cellulose nanofiber (5, 10, 15, and 20 % w/w based on \nbiopolymers \n• Glycerol, xylitol, sorbitol (10, 20, 30, and 40 % v/w on a \ndry biopolymer basis) \n• Adding 5 % cellulose nanofiber to the biopolymers blend \nincreased tensile strength. Films containing glycerol showed \nbetter mechanical properties than films containing xylitol and \nsorbitol. • Films containing glycerol, xylitol and sorbitol showed higher \nwater solubility, barrier properties to water vapor and oxygen, \nlower contact angle and opacity. 3. Strategies for the improvement of properties of chitosan-based \nfilms ✓ \nXu, Xia, Zheng, Yuan, and Sun \n(2019) \n• Xylan (20, 30, and 40 % w/w \nbased on chitosan) \n• Chitosan (1 % w/v) \n• Carvacrol (10 % w/w based on dry chitosan weight) \n• Addition of xylan into the biopolymers blend caused an increase in \nelasticity and samples with 20 and 25 wt.% xylan showed higher \ntensile strength and elastic modulus. • Thermal analysis showed that addition of xylan to chitosan moved \nthe degradation peak to a lower temperature with a lower rate of \ndegradation. • Addition of carvacrol into the biopolymer blend did not show \nantibacterial activity against E. coli and L. innocua. ✓ \nKamdem, Shen, Nabinejad, and \nShu (2019) \n(continued on next page\n4 Food Packaging and Shelf Life 26 (2020) 100551 H. Haghighi, et al. H. Haghighi, et al. (continued on next page) Biopolymer \nAdditives \nKey findings \nM \nWB \nGB \nAO \nAM \nReference \n• Carboxy methyl chitosan (1 % w/ \nv) \n• Chitosan (2 % w/v) \n• Nisin (1000 and 6000 IU/mL of film forming solution) \n• Blending carboxymethyl chitosan with chitosan increased \nelasticity while it reduced thermal stability. • Incorporation of nisin into the biopolymers blend showed \nantibacterial activity against L. monocytogenes. ✓ \n✓ \nZimet et al. (2019) \n• Starch (1.5 % w/v) \n• Chitosan (1.5 % w/v) \n• Clove essential oil (3, 6, 9, and 12 % w/w) \n• Nano titanium dioxide (1, 3, 5, and 7 % w/w) \n• Addition of nano titanium dioxide into the biopolymers blend \ncaused an increase in tensile strength and antioxidant activity \nwhile water vapor permeability and elasticity decreased. • Addition of clove essential oil into the biopolymers blend reduced \ntensile strength, water content, and water vapor permeability \nwhile antioxidant and antibacterial activity against E. coli and S. aureus improved. ✓ \n✓ \n✓ \n✓ \nLi et al. (2019) \n• Carboxymethyl cellulose (2 % w/ \nv) \n• Chitosan (1 % w/v) \n• Cinnamon essential oil (1.5 % v/v) \n• Oleic acid (1 % w/v) \n• Glutaraldehyde (0.01 % w/v) \n• Addition of glutaraldehyde into the biopolymers blend caused an \nimprovement in mechanical property, water solubility, and water \nvapor permeability. • Addition of cinnamon essential oil into the biopolymers blend \nshowed antioxidant and antimicrobial activities against L. monocytogenes and P. aeruginosa. • Addition of cinnamon essential oil and glutaraldehyde at the same \ntime into the biopolymers blend increased the antioxidant and \nantibacterial activities. 3. Strategies for the improvement of properties of chitosan-based \nfilms • Addition of oleic acid into the biopolymers blend reduced water \nsolubility, tensile strength, antioxidant and antimicrobial \nactivities while elasticity, and water vapor permeability increased. ✓ \n✓ \n✓ \n✓ \nValizadeh et al. (2019) \n• Gum arabic (1.5 % w/v) \n• Chitosan (1.5 %w/v) \n• Cinnamon essential oil (8 % w/w of total solid) \n• Increasing gum arabic proportion into the biopolymers blend (1:0, \n1:0.25, 1:0.5, 1:1, 1:2, 1:4) reduced thickness, water content, \ntensile strength, elasticity, and water vapor permeability. • Addition of cinnamon essential oil into the biopolymers blend \nshowed antioxidant activity. Antioxidant activity enhanced when \nthe ratio of chitosan/gum arabic changed from 1:0 to 1:2. Antioxidant activity quickly reduced by further increasing of gum \narabic proportions in biopolymers blend to 1:4. ✓ \n✓ \nXu, Gao, Feng, Yang, Shen and\nTang et al. (2019) \n• Gum arabic (1.5 % w/v) \n• Chitosan (1.5 %w/v) \n• Cinnamon essential oil (5, 10, and 15 % w/w based on \ngum arabic) \n• Clove essential oil (10 % w/w based on gum arabic) \n• cinnamon and clove essential oil combination (5 % w/w \nbased on gum arabic) \n• Addition of essential oils into the biopolymers blend decreased the \nζ-potential and viscosity, while particle size increased. • Addition of essential oils (in particular cinnamon essential oil) \ncaused an increase in elasticity while tensile strength and water \nbarrier properties were reduced \n• Films containing cinnamon essential oils or a combination of \ncinnamon and clove showed better water barrier properties \ncompared to films containing clove. • Films containing cinnamon and clove essential oils combinations \nexhibited better antimicrobial activity against E. coli and S. aureus. Besides, films containing cinnamon essential oil showed better \nantibacterial activity compared to the clove essential oil. ✓ \n✓ \n✓ \nXu, Gao, Feng, Huang, Yang et \n(2019) \n• Corn starch (3 % w/v) \n• Cassava starch (3 % w/v) \n• Chitosan (0.5 % w/v) \n• Glutaraldehyde(10 % w/v based on a dry biopolymer \nbasis) \n• Composite films showed antibacterial activity against aerobic \nmesophilic bacteria. ✓ \nLuchese et al. (2018) \n• Hardleaf oatchestnut starch (0.5, 2, \nand 8 % w/v) \n• Chitosan (2 % w/v) \n• Litsea cubeba oil (4, 8, 12, and 16 % w/w, based on \nbiopolymers total weight) \n• Blending chitosan and hardleaf oatchestnut (ratio 1:1) caused an \nincrease in tensile strength and an improvement in water vapor \npermeability. 3. Strategies for the improvement of properties of chitosan-based \nfilms • The incorporation of Litsea cubeba oil into the biopolymers blend \n(ratio 1:1) decreased tensile strength, elasticity, water vapor \npermeability, water content, and water solubility while contact \nangle values increased. • Addition of Litsea cubeba oil into the biopolymers blend showed \nantimicrobial activity against E. coli and S. aureus. ✓ \n✓ \n✓ \nZheng et al. (2018) \n(continued on next p\n5 5 Food Packaging and Shelf Life 26 (2020) 100551 H. Haghighi, et al. H. Haghighi, et al. (\n)\nBiopolymer \nAdditives \nKey findings \nM \nWB \nGB \nAO \nAM \nReference \n• Cassava starch \n• Chitosan (0, 25, 50, 75, 100, and \n150 mg chitosan/g starch ratios) \n• Gallic acid \n• Increasing chitosan proportion in biopolymers blend decreased \nmoisture content, water activity, water vapor permeability, total \nphenolic contents, and antioxidant activities. • Blending chitosan and cassava starch reduced the growth of \nspoilage microorganisms and prolonged the shelf life of cooked \nham. ✓ \n✓ \nZhao, Teixeira, Gänzle, and \nSaldaña (2018) \n• Burdock root inulin (4 % w/v) \n• Chitosan (2.5 % w/v) \n• Water vapor permeability, water solubility, water content, tensile \nstrength, and lightness value of inulin-chitosan films were reduced \nwith increasing oregano-thyme essential oils blend. • Addition of oregano-thyme essential oils blend into the \nbiopolymers blend increased elasticity, opacity, a*, and b* values. • Active films containing oregano-thyme essential oils blend showed \nantioxidant and antibacterial activity against E. coli, L. monocytogenes, S. aureus, and S. typhimurium. ✓ \n✓ \n✓ \nCao, Yang, and Song (2018) \n• TEMPO cellulose nanofiber (0, 15, \n25 and 100 wt.%) \n• Chitosan (0, 75, 85 and 100 wt.%) \n• Increasing proportion of chitosan in biopolymers blend showed a \nsignificant reduction in the growth of S. enterica, E. coli O157:H7, \nand L. monocytogenes and also had a significant increase in the \nantioxidant activity. ✓ \n✓ \nSoni, Mahmoud, Chang, El-Giar, \nand Hassan (2018) \n• Corn starch (5 % w/v) \n• Chitosan (1, 2, 3 and 4 % w/v) \n• Blending chitosan and corn starch showed an increase in water \nsolubility, total color differences, tensile strength and elasticity, \nand a reduction in crystallinity, elastic modulus, and water vapor \npermeability. • Increasing concentration of chitosan in biopolymers blend caused \nan increase in water vapor permeability and water content values. ✓ \n✓ \nRen et al. 3. Strategies for the improvement of properties of chitosan-based \nfilms (2017) \n• Rice starch (2 % w/v) \n• Chitosan (2 % w/v) \n• Cranberry, blueberry, beetroot, pomegranate, oregano, \npitaya, and resveratrol extract (0.5, 2, and 5 % w/w \nbased on dry biopolymers weight) \n• Addition of plant extracts into the biopolymers blend improved \nUV-Vis light barrier properties. • Active films containing beetroot, cranberry, and blueberry \nextracts showed higher antibacterial activity against E. coli, \naerobic mesophilic bacteria, and fungi (P. notatum, A. niger, and A. fumigatus). ✓ \nLozano-Navarro et al. (2017) \n• Pectin (2 % w/v) \n• Chitosan (2 % w/v) \n• Increasing pectin proportion in biopolymers blend caused an \nincrease in water solubility, water content, and swelling index. • Increasing chitosan proportion in biopolymers blend increased \ntensile strength and reduced elasticity values. ✓ \nBaron et al. (2017) \n• Xanthan gum (1.5 % w/v) \n• Chitosan (1.5 % w/v) \n• Addition of xanthan gum into the biopolymers blend did not affect \nthe water vapor permeability, solubility, and moisture content. • Increasing xanthan gum proportion in biopolymers blend caused \nan increase in tensile strength while it reduced elasticity values. ✓ \nde Morais Lima et al. (2017) \n• Tapioca starch (3 % w/w) \n• Chitosan (20, 40, 60, 80 % w/w of \ndry starch solid weight) \n• Increasing chitosan proportion in biopolymers blend up to 60 % \n(w/w) caused an increase in tensile strength and elastic modulus \nwhile elasticity values reduced. ✓ \nShapi’i and Othman (2016) \n• Carboxymethyl cellulose (1 % w/ \nv) \n• Chitosan (2 % w/v) \n• Zinc oxide nanoparticles (2, 4, and 8 % w/w) \n• Incorporation of zinc oxide nanoparticles into the biopolymers \nblend showed antimicrobial activity against S. aureus, P. aeruginosa, E. coli, C. albicans and prolonged the shelf life of white \nsoft cheese. ✓ \nYoussef, El-Sayed, El-Sayed, \nSalama, and Dufresne (2016) \n(continued on next page\n6 (\n)\nBiopolymer \nAdditives \nKey findings \nM \nWB \nGB \nAO \nAM \nReference \n• Cassava starch \n• Chitosan (0, 25, 50, 75, 100, and \n150 mg chitosan/g starch ratios) \n• Gallic acid \n• Increasing chitosan proportion in biopolymers blend decreased \nmoisture content, water activity, water vapor permeability, total \nphenolic contents, and antioxidant activities. • Blending chitosan and cassava starch reduced the growth of \nspoilage microorganisms and prolonged the shelf life of cooked \nham. 3. Strategies for the improvement of properties of chitosan-based \nfilms ✓ \n✓ \nZhao, Teixeira, Gänzle, and \nSaldaña (2018) \n• Burdock root inulin (4 % w/v) \n• Chitosan (2.5 % w/v) \n• Water vapor permeability, water solubility, water content, tensile \nstrength, and lightness value of inulin-chitosan films were reduced \nwith increasing oregano-thyme essential oils blend. • Addition of oregano-thyme essential oils blend into the \nbiopolymers blend increased elasticity, opacity, a*, and b* values. • Active films containing oregano-thyme essential oils blend showed \nantioxidant and antibacterial activity against E. coli, L. monocytogenes, S. aureus, and S. typhimurium. ✓ \n✓ \n✓ \nCao, Yang, and Song (2018) \n• TEMPO cellulose nanofiber (0, 15, \n25 and 100 wt.%) \n• Chitosan (0, 75, 85 and 100 wt.%) \n• Increasing proportion of chitosan in biopolymers blend showed a \nsignificant reduction in the growth of S. enterica, E. coli O157:H7, \nand L. monocytogenes and also had a significant increase in the \nantioxidant activity. ✓ \n✓ \nSoni, Mahmoud, Chang, El-G\nand Hassan (2018) \n• Corn starch (5 % w/v) \n• Chitosan (1, 2, 3 and 4 % w/v) \n• Blending chitosan and corn starch showed an increase in water \nsolubility, total color differences, tensile strength and elasticity, \nand a reduction in crystallinity, elastic modulus, and water vapor \npermeability. • Increasing concentration of chitosan in biopolymers blend caused \nan increase in water vapor permeability and water content values. ✓ \n✓ \nRen et al. (2017) \n• Rice starch (2 % w/v) \n• Chitosan (2 % w/v) \n• Cranberry, blueberry, beetroot, pomegranate, oregano, \npitaya, and resveratrol extract (0.5, 2, and 5 % w/w \nbased on dry biopolymers weight) \n• Addition of plant extracts into the biopolymers blend improved \nUV-Vis light barrier properties. • Active films containing beetroot, cranberry, and blueberry \nextracts showed higher antibacterial activity against E. coli, \naerobic mesophilic bacteria, and fungi (P. notatum, A. niger, and A. fumigatus). ✓ \nLozano-Navarro et al. (2017)\n• Pectin (2 % w/v) \n• Chitosan (2 % w/v) \n• Increasing pectin proportion in biopolymers blend caused an \nincrease in water solubility, water content, and swelling index. • Increasing chitosan proportion in biopolymers blend increased \ntensile strength and reduced elasticity values. ✓ \nBaron et al. (2017) \n• Xanthan gum (1.5 % w/v) \n• Chitosan (1.5 % w/v) \n• Addition of xanthan gum into the biopolymers blend did not affect \nthe water vapor permeability, solubility, and moisture content. • Increasing xanthan gum proportion in biopolymers blend caused \nan increase in tensile strength while it reduced elasticity values. 3. Strategies for the improvement of properties of chitosan-based \nfilms ✓ \nde Morais Lima et al. (2017)\n• Tapioca starch (3 % w/w) \n• Chitosan (20, 40, 60, 80 % w/w of \ndry starch solid weight) \n• Increasing chitosan proportion in biopolymers blend up to 60 % \n(w/w) caused an increase in tensile strength and elastic modulus \nwhile elasticity values reduced. ✓ \nShapi’i and Othman (2016) \n• Carboxymethyl cellulose (1 % w/ \nv) \n• Chitosan (2 % w/v) \n• Zinc oxide nanoparticles (2, 4, and 8 % w/w) \n• Incorporation of zinc oxide nanoparticles into the biopolymers \nblend showed antimicrobial activity against S. aureus, P. aeruginosa, E. coli, C. albicans and prolonged the shelf life of white \nsoft cheese. ✓ \nYoussef, El-Sayed, El-Sayed, \nSalama, and Dufresne (2016)\n(continued on nex\n6 6 Food Packaging and Shelf Life 26 (2020) 100551 H. Haghighi, et al. H. Haghighi, et al. Table 2 (continued) \nBiopolymer \nAdditives \nKey findings \nM \nWB \nGB \nAO \nAM \nReference \n• Carboxymethyl cellulose (2 % w/ \nv) \n• Qaternized chitosan (5 % w/v) \n• Increasing carboxymethyl cellulose proportion in biopolymers \nblend caused an improvement in tensile strength, thermostability, \nand water vapor permeability values while oxygen permeability \nand opacity values increased. • Increasing carboxymethyl cellulose proportion in biopolymers \nblend caused a reduction in antibacterial activity against E. coli \nand S. aureus. • Higher proportion of quaternized chitosan in biopolymers blend \ndelayed the deterioration of banana fruit. • Quaternary ammonium chitosan was water soluble over a wide \nrange of pH values. The antibacterial activity of quaternized \nchitosan films was better than that of chitosan itself, but these \nfilms showed poor mechanical properties. ✓ \n✓ \n✓ \n✓ \nHu, Wang, and Wang (2016) \ng g , Aloui, & El-Saied, 2014), fillers incorporation (Abdelrazek, Elashmawi, \n& Labeeb, 2010), high-energy irradiation (Shahbazi, Rajabzadeh, & \nAhmadi, 2017) and blending with other biopolymers (Muxika, \nEtxabide, Uranga, Guerrero, & de la Caba, 2017; Wang, Qian, & Ding, \n2018). Blending chitosan with other polymers to form a composite film \ncould combine the advantages of the base polymers into a film with \nhigher performances compared with those of each constituent. A series \nof natural and synthetic polymers have been reported to blend with \nchitosan, such as pectin (Baron, Pérez, Salcedo, Córdoba, & do A. 3. Strategies for the improvement of properties of chitosan-based \nfilms Sobral, 2017; Younis & Zhao, 2019), cellulose and its derivatives \n(Noshirvani et al., 2017; Valizadeh, Naseri, Babaei, Hosseini, & Imani, \n2019), starch (Ren, Yan, Zhou, Tong, & Su, 2017; Suriyatem, Auras, & \nRachtanapun, 2018), gelatin (Bonilla, Poloni, Lourenço, & Sobral, \n2018; Guo et al., 2019), soy protein isolate (Li et al., 2017), polyvinyl \nalcohol (Do Yoon, Kim, Kim, & Je, 2017), polylactic acid (Liu, Wang, \nZhang, Lan, & Qin, 2017), etc. 4. Chitosan blends A polymer blend is a compatible or phase-separated mixture of at \nleast two polymers or copolymers, that is produced to enhance the \nphysical properties of each component (Cazón & Vázquez, 2020; Khan, \nMansha, & Mazumder, 2018). The objective of polymer blending is to \ndevelop composite materials in a simple and cost-effective route which \nwould combine the features of components, possibly enhancing their \nuseful attributes, and minimizing their drawbacks (Parameswaranpillai, \nThomas, & Grohens, 2015; Unger, Sedlmair, Siesler, & Hirschmugl, \n2014). The success of polymer blending as a strategy to improve packaging \nmaterials relies on the wide range of resulting physical, thermal, me\nchanical, barrier, and optical properties. Therefore, studying these \nproperties plays a key factor in the suitable formulation of blends ad\ndressed to specific applications. i\nThe growing interest towards chitosan for packaging applications \nhas resulted in many published studies focusing on the production and \ninvestigation of properties of films obtained from chitosan blended with \nother natural and synthetic polymers (Kumar, Mukherjee, & Dutta, \n2020). In this study, chitosan blends have been classified into two main \ngroups, respectively chitosan-natural biopolymers blends and chitosan- \nsynthetic polymers blends. A synopsis of the literature published in the \nlast five years is presented in each subsection considering: type of \npolymer and its concentration, active compounds, and other additives \nincorporated in the blend and the main properties of the blend films \naddressed for food packaging applications. 4.1. Chitosan-natural biopolymer blends The functional properties of chitosan-based films can be improved \nby blending with other natural biopolymers such as polysaccharides, \nproteins, and their derivatives (Aider, 2010; Cazón & Vázquez, 2020; \nElsabee & Abdou, 2013). Compatibility between chitosan and these \npolymers depends on the ability to associate through electrostatic in\nteraction due to chitosan cationic character at appropriate pH condi\ntions and the availability of high-polarity groups, such as NH/NH2, OH, \nC]O, C−O−Cee, in its backbone to form intermolecular hydrogen \nbonds or dipole association with the corresponding functional groups of \nother biopolymers (Bonilla et al., 2018). It has been reported that \npolysaccharides such as pectin, starch (from rice, corn, potato, cassava, \netc.), alginate, carrageenan, xanthan gum, xylan, glucose, kefiran, cel\nlulose, and its derivatives can be blended with chitosan (Wang et al., \n2018). A synopsis of recent advances in chitosan-polysaccharide blend \nfilms for packaging applications is presented in Table 2. i i\nProtein-based films from animal sources (gelatin, collagen, casein, \nwhey protein, etc.) and plant source (soy protein isolate, corn zein, \nkidney bean protein isolate, quinoa protein, wheat gluten, etc.) have \nbeen studied for the development of biodegradable films due to their 7 Food Packaging and Shelf Life 26 (2020) 100551 H. Haghighi, et al. . Improvement of the parameters investigated in each contribution is reported as follows. M: \nal activity\nHaghig (continued on next page) Table 3 \nSynopsis of research published between 2015 – 2020 addressing chitosan-protein blend films for food packaging applications. Improvement of the parameters investigated in each contribution is reported as follows\nmechanical properties, WB: water barrier property, GB: gas barrier permeability, AO: antioxidant activity, AM: antimicrobial activity. Biopolymer \nAdditives \nKey findings \nM \nWB \nGB \nAO \nAM \nReference \n• Sheep bone collagen (1.5 % w/v) \n• Skin gelatin (1.5 % w/v) \n• Chitosan (1.5 % w/v) \n• Addition of chitosan into bone collagen improved transparency and \ntensile strength of bone collagen film. • Increasing proportion of chitosan over 50 % in the biopolymers blend \nimproved the elasticity value. • Blending chitosan and bone collagen led to an improvement in UV barrier \nproperty, water solubility, and thermal stability while water vapor \npermeability increased. ✓ \nHou et al. 4.1. Chitosan-natural biopolymer blends (2020) \n• Hordein nanofiber (11 % w/v) \n• Chitosan (0.4 % w/v) \n• Quercetin (5 % w/w based on hordein) \n• Addition of quercetin into the nano biopolymers blend showed \nantioxidant activity and treating films with different temperatures (90, \n120, 150, and 180 °C) did not influence the antioxidant activity. • Heat treatment enhanced the water resistance of nano biopolymers blend. • Covering apple and potato samples with heat treated nano fiber films \ndelayed the rate of enzymatic browning and preserved their fresh color \nafter 6 and 12 h, respectively. ✓ \n✓ \nLi, Yan, Guan, and Huang (2020\n• Zein (2 % w/v) \n• Chitosan (2 % w/v) \n• α-tocopherol (50 % w/w based on the content \nof dry materials) \n• Active zein-chitosan films containing α-tocopherol reduced the \npostharvest deterioration of mushroom (Agaricus bisporus) at 4 °C for 12 \ndays. This was mainly due to the excellent gas barrier property and \nantioxidant activity of films. ✓ \n✓ \nZhang, Liu, Sun, Wang, and Li \n(2020) \n• Gelatin (2 % w/v) \n• Chitosan (2 % w/v) \n• Polyphenols from the fruits of Chinese \nhawthorn (2, 4, and 6 % w/w on the total \nbiopolymer weight) \n• Addition of the polyphenol extract into the biopolymers blend increased \nthickness, tensile strength, elasticity, opacity, and total color difference, \nwhile water content and water vapor permeability reduced. • Antioxidant activity of films significantly improved by increasing the \nconcentration of polyphenol extract. ✓ \n✓ \n✓ \nKan et al. (2019) \n• Gelatin (5 % w/v) \n• Chitosan (3, 6 and 9 % w/w based on \ngelatin) \n• Citric acid (10 and 20 % w/w based on gelatin \nweight) \n• Incorporation of citric acid into the biopolymer blend improved elasticity \nvalues. • Higher concentration of chitosan and citric acid in biopolymers blend led \nto better antibacterial activity against E. coli. ✓ \n✓ \nUranga et al. (2019) \n• Fish myofibrillar protein (0.45, 0.8, \n1.3, 1.8, and 2.14 % w/v) \n• Chitosan (13.18, 20, 30, 40, and \n46.81 % w/w) \n• The optimum formulation to produce biodegradable film contained 1.3 % \n(w/v) fish myofibrillar proteins, 30 % (w/w) chitosan, and 40 % (w/w) \nglycerol. • Adding chitosan in the biopolymers blend increased elasticity, thermal \nstability, UV barrier properties while solubility, swelling degree, and \nwater vapor permeability decreased. 4.1. Chitosan-natural biopolymer blends ✓ \n✓ \nBatista, Araújo, Peixoto Joele, Sil\nJúnior, and Lourenço (2019) \n• Porcine plasma protein (3 % w/w) \n• Chitosan (1 % w/w) \n• The porcine plasma protein/chitosan blend film had lower transparency \nthan neat porcine plasma protein and chitosan film. • Blending porcine plasma protein and chitosan increased thermal stability. • Blend films (ratio 1:1) showed improvement in water resistance and \nwater vapor permeability, solubility, and mechanical properties \ncompared to the neat porcine plasma protein film. ✓ \n✓ \nSamsalee and Sothornvit (2019) \n• Gelatin (2 % w/v) \n• Chitosan (2 % w/v) \n• Cinnamon, citronella, pink clove, nutmeg and \nthyme essential oils (1 % w/w based on \nweight) \n• Addition of essential oils into the biopolymers blend improved UV barrier \nproperties and increased thickness, water content, water vapor \npermeability, opacity, and total color difference values. • Incorporation of essential oils into biopolymers blend showed \nantibacterial activity against C. jejuni, E. coli, L. monocytogenes, and S. typhimurium. ✓ \n✓ \nHaghighi, Biard et al. (2019) \n• Gelatin (1 % w/v) \n• Chitosan (1 % w/v) \n• Cinnamon essential oil (0.4 % w/w based on a \ndry biopolymer weight) \n• Addition of cinnamon essential oil into the biopolymer blend improved \nelasticity, thermal stability, water vapor permeability, UV barrier, and \ncontact angle values. • Active films containing cinnamon essential oils showed antibacterial \nactivity against E. coli and S. aureus. ✓ \n✓ \n✓ \nGuo et al. (2019) \n• Collagen (3.5 % w/v) \n• Chitosan (1 % w/v) \n• Pomegranate peel extract (1, 3, and 5 % v/v) • Addition of 5 % pomegranate peel extract into the biopolymers blend \ncaused a reduction in water solubility and enhanced antibacterial activity \nagainst B. saprophyticus, B. subtilis, S. typhi, and E. coli. ✓ \nBhuimbar, Bhagwat, and Dandge\n(2019) \n(continued on next p 8 Food Packaging and Shelf Life 26 (2020) 100551 H. Haghighi, et al. H. Haghighi, et al. Table 3 (continued) \nBiopolymer \nAdditives \nKey findings \nM \nWB \nGB \nAO \nAM \nReference \n• Zein (10 % w/v) \n• Chitosan (6 wt%) \n• TiO2 nanoparticles (0.05, 0.1, 0.15, 0.2, and \n0.25 % w/w) \n• Addition of TiO2 nanoparticles up to 0.2 % into the biopolymers blend \nenhanced water absorption and water vapor permeability. • Biopolymers blend containing TiO2 nanoparticles showed antibacterial \nactivity against S. aureus, E. coli, and S. enteritidis. ✓ \n✓ \nQu et al. 4.1. Chitosan-natural biopolymer blends (2019) \n• Gelatin (2 % w/v) \n• Chitosan (2 % w/v) \n• Ethyl lauroyl arginate (0.1 % v/v) \n• Blending chitosan and gelatin caused an improvement in mechanical and \nwater barrier properties. • Incorporation of ethyl lauroyl arginate into the biopolymer blend \nconferred antibacterial activity against C. jejuni, E. coli, L. monocytogenes, \nand S. typhimurium. ✓ \n✓ \n✓ \nHaghighi, De Leo et al. (2019) \n• Gelatin (2 % w/v) \n• Chitosan (2 % w/v) \n• Silver nanoparticle (0.05 and 0.1 % w/w) \n• Addition of silver nanoparticles into the biopolymers blend enhanced \nelasticity values while tensile strength and light transmittance in the \nvisible light region were reduced. • Incorporation of silver nanoparticles into the biopolymers blend showed \nantimicrobial activity. • Shelf life of red grapes fruits wrapped with gelatin-chitosan blend \nenriched with silver nanoparticles was extended for additional two weeks. ✓ \n✓ \nKumar, Shukla, Baul, Mitra, and \nHalder (2018) \n• Gelatin (1 % w/v) \n• Chitosan (2 % w/v) \n• β-Carotene loaded starch nanocrystals (1mg/ \n1 mL) \n• Addition of β-carotene loaded starch nanocrystals into the biopolymers \nblend caused a significant reduction in water solubility while antioxidant \nactivity increased. ✓ \nHari, Francis, Rajendran Nair, and \nNair (2018) \n• Gelatin (3 % w/v) \n• Chitosan (1 % w/v) \n• Gallic acid (1 % w/w total dry weight of film) \n• Tween 80 (50 and 100 % w/w based on the \nweight of the gallic acid \n• β-cyclodextrin \n• Ethanol \n• Addition of gallic acid into the biopolymers blend increased opacity and \nelasticity. • Incorporation of β-cyclodextrin and gallic acid into the biopolymers blend \nreduced water barrier properties. ✓ \n✓ \nRezaee, Askari, EmamDjomeh, and\nSalami (2018) \n• Gelatin (4 % w/v) \n• Chitosan (1 % w/v) \n• Eugenol and ginger essential oils (0.5 % w/w \nbased on dry biopolymers weight) \n• Addition of essential oils into the biopolymers blend improved elasticity \nand UV barrier properties. • Incorporation of essential oils into biopolymers blend showed significant \nantioxidant activity. ✓ \n✓ \nBonilla et al. (2018) \n• Gelatin (3 % w/v) \n• Chitosan (1 % w/v) \n• Procyanidin (0.25, 0.5, 0.75, and 1 mg/mL) • Addition of procyanidin into the biopolymers blend improved elasticity, \nwater vapor permeability, water solubility, swelling index, and UV barrier \nproperties while tensile strength was reduced. • Incorporation of procyanidin into the biopolymers blend showed \nantioxidant activity and antibacterial activity against S. aureus and E. coli \nstrains. 4.1. Chitosan-natural biopolymer blends ✓ \n✓ \n✓ \n✓ \nRamziia, Ma, Yao, Wei, and Huang\n(2018) \n• Soy protein isolate (2 % w/w) \n• Chitosan (2 % w/w) \n• Elasticity, thermal stability, and homogeneity of chitosan film increased \nby blending with soy protein isolate. ✓ \nXing, Zhang, Li, Li, and Shi (2018)\n• Soy protein isolate \n• Chitosan (1 % w/w) \n• Cu nanoclusters (20 mmol/L) \n• Incorporation of copper nanoclusters into the biopolymers blend \nimproved tensile strength, elasticity, water vapor permeability, contact \nangle, and thermal stability. ✓ \n✓ \nLi et al. (2017) \n• Eggshell membrane gelatin (3 % w/v) \n• Chitosan (1.5 % w/v) \n• Blending chitosan and gelatin showed an improvement in elasticity, water \nsolubility, and water barrier property. ✓ \n✓ \nMohammadi et al. (2018) \n• Gelatin (4 %w/v) \n• Chitosan (1 % w/w) \n• Cinnamon, guarana, rosemary and boldo-do- \nchile ethanolic extract (1 % v/v) \n• Increasing chitosan proportion in biopolymers blend improved the \nmechanical properties and water vapor permeability. • Addition of ethanolic extracts into the biopolymers blend enhanced \nantioxidant and antibacterial activity against S. aureus and E. coli. ✓ \n✓ \n✓ \n✓ \nBonilla and Sobral (2016) \n• Gelatin (10 % w/v) \n• Chitosan (2 % w/v) \n• Boric acid (2, 3, 4 and 5 % w/w) \n• Polyethylene glycol (5, 10 and 20 % v/v) \n• Blending chitosan and gelatin showed UV barrier property. • Addition of boric acid into the biopolymer blend improved tensile \nstrength and water solubility, moisture content, and water vapor \npermeability. • Addition of polyethylene glycol into the biopolymers blend caused an \nincrease in elasticity, water content, and water solubility. ✓ \n✓ \nAhmed and Ikram (2016) \n• Corn starch (2 and 5 % w/v) \n• Gelatin (2 and 5 % w/v) \n• Chitosan (2 % w/v) \n• Glycerol and sorbitol (1, 2, 5, and 10 % w/w) • Addition of sorbitol into the chitosan-starch or chitosan-gelatin blend \nfilms enhanced water vapor permeability compared with films containing \nglycerol. ✓ \n✓ \nBadawy, Rabea, and El-Nouby \n(2016) 9 Food Packaging and Shelf Life 26 (2020) 100551 H. Haghighi, et al. H. Haghighi, et al. high abundance, acceptable mechanical properties, excellent gas bar\nrier properties to non-condensable gases (oxygen, carbon dioxide, and \nnitrogen) and aromas (Arfat, Ahmed, Hiremath, Auras, & Joseph, \n2017). 4.1. Chitosan-natural biopolymer blends The chitosan-protein blend film could render better functional \nproperties than single proteins and chitosan film, thus promoting their \napplication in food packaging (Basta, Khwaldia, Aloui, & El-Saied, \n2015; Ma et al., 2012; Wang et al., 2018). A synopsis of recent advances \nin chitosan-protein blend films for packaging applications is presented \nin Table 3. Biopolymer \nAdditives \nKey findings \nM \nWB \nGB \nAO \nAM \nReference \n• Addition of glycerol and sorbitol into the biopolymers blend showed \nantioxidant activity. • Quinoa protein (6.7 % w/v) \n• Chitosan (1.5 and 2 % w/v) \n• Chitosan-tripolyphosphate nano \nparticles (0.3 w/v) \n• Thymol nanoparticles (0.1 % w/v) \n• Addition of chitosan-tripolyphosphate nanoparticles into the biopolymers \nblend improved water vapor permeability. • Incorporation of chitosan-tripolyphosphate-thymol nanoparticles into the \nbiopolymers blend enhanced antibacterial activity against L. innocua, S. aureus, S. typhimurium, E. aerogenes, P. aeruginosa, and E. coli. ✓ \n✓ \nCaro et al. (2016) \n• Gelatin (3 % w/v) \n• Chitosan (2 % w/v) \n• Red grape seed extract (1 and 2 % w/w) \n• Ziziphora clinopodioides essential oil (1 and 2 \n% w/w) \n• Addition of red grape seed extract and Ziziphora clinopodioides into the \nbiopolymers blend showed antibacterial activity against L. monocytogenes, \ntotal mesophilic and psychrotrophic bacteria, Pseudomonas spp., P. fluorescens, S. putrefaciens, lactic acid bacteria and Enterobacteriaceae \nfamily. • Packing minced rainbow trout fillets with chitosan-gelatin blend enriched \nwith red grape seed extract and Ziziphora clinopodioides essential oil \nextended the shelf life at refrigerated condition due to the delay of lipid \noxidation and inhibition of bacterial growth. ✓ \n✓ \nKakaei and Shahbazi (2016) \n• Brewer’s spent grain protein (3 % w/ \nv) \n• Chitosan (2 % w/v) \n• Blending brewer’s spent grain protein with chitosan caused an \nimprovement in water vapor permeability and mechanical properties. • Blend films showed antioxidant and antibacterial activity against S. aureus, E. coli, L. monocytogenes, and S. typhimurium. ✓ \n✓ \n✓ \n✓ \nLee, Lee, Yang, and Song (2015) 4.2. Chitosan-synthetic polymers blends Blending chitosan with synthetic polymers (polyvinyl alcohol - PVA, \npolyvinyl pyrrolidone - PVP, polylactic acid - PLA, etc.) has been ex\ntensively studied for the positive effects on the physical, mechanical, \nand biological features of composite films. The success of synthetic \npolymers as biodegradable materials depends on their diverse range of \nmechanical properties, chemical resistance, and low production costs \ncompared to natural polymers (Bourakadi et al., 2019). Chitosan is \npotentially miscible with some synthetic polymers mainly due to the \nformation of intermolecular hydrogen bonds between hydroxyl groups \nof synthetic polymer and hydroxyl and amine groups of chitosan \n(Bonilla, Fortunati, Atarés, Chiralt, & Kenny, 2014). Depending on the \ninteractions between polymer components, blending chitosan with \nsynthetic biopolymers can enhance the mechanical and water barrier \nproperties of films in some cases. A synopsis of recent advances in \nchitosan-synthetic polymer blend films for packaging applications is \npresented in Table 4. 5. Conclusions and future perspectives Packaging is an essential item responsible for the protection of the \nproduct and provides food safety assurance during marketing. Conventional plastic packaging material due to non-biodegradability \nand insufficient waste management system has labeled the food in\ndustry as a source of pollution and social concerns. Therefore, bio- \nbased, and biodegradable materials have received considerable atten\ntion to address these issues in recent years. The adoption of chitosan as \npackaging material could contribute to mitigating the environmental \nconcern, despite some drawbacks in terms of thermal stability, barrier \nand mechanical properties, and production costs. Blending chitosan \nwith other natural and synthetic polymers is an effective way to over\ncome these limitations, making the films suitable for specific uses. This \napproach appears to have a bright future for innovative food packaging \ndesign since it will allow the partial replacement of the existing syn\nthetic plastic packaging materials presently available in the market. Potential applications of chitosan blend-based films are for fresh pro\nducts (vegetable, meat and fish) and foods with short to medium shelf \nlife. Such films may represent an interesting alternative to conventional \nplastic films especially when recycling is not possible or is compromised \ndue to presence of food residues: in these cases, the feature of biode\ngradability/compostability offers a valid end-of-life alternative. Nanotechnologies certainly represent a promising complementary tool \nfor further improvement of mechanical and barrier properties of chit\nosan-based films and for the addition of other functionalities (anti\nmicrobial and antioxidant capacity), but their development and appli\ncation faces resistance due to toxicological issues. In particular, \nnanocomposite materials based on the incorporation of biobased na\nnomaterials such as nano-cellulose, emerge for their potential to pro\nvide a barrier and mechanical strength maintaining the full biode\ngradability of the material. Finally, despite contributions retrieved in \nliterature in the considered timeframe, the aspect of biodegradability \nremains mostly disregarded. This omission has two reasons: the first is \nlinked to the difficulty of applying a real holistic and multidisciplinary \napproach, necessary for the development of food packaging; the second \narises from the consideration that making a new material from 10 Food Packaging and Shelf Life 26 (2020) 100551 applications. Improvement of the parameters investigated in each contribution is reported as \n: antimicrobial activity\nHaghig H. Haghighi, et al. Table 4 \nSynopsis of research published between 2015 – 2020 addressing chitosan-synthetic biopolymer blend films for food packaging applications. 5. Conclusions and future perspectives Improvement of the parameters investigated in each contribution is reported as \nfollows. M: mechanical properties, WB: water barrier properties, GB: gas barrier permeability, AO: antioxidant activity, AM: antimicrobial activity. Biopolymer \nAdditives \nKey findings \nM \nWB \nGB \nAO \nAM \nReference \n• PVA (0.5, 1, 1.5, and 2 % w/v) \n• Chitosan (0.5, 1, 1.5, and 2 % w/ \nv) \n• Ethyl vanillin (2 % w/v) \n• Addition of ethyl vanillin into the biopolymers blend caused an \nimprovement in the tensile strength, surface hydrophobicity, and UV barrier \nproperties while water vapor transmission rate and oxygen transmission rate \nwere reduced. • Blend films containing ethyl vanillin showed antimicrobial activity against \nS. aureus and E. coli. ✓ \n✓ \n✓ \n✓ \nNarasagoudr, Hegde, Vanjeri, \nChougale, and Masti (2020) \n• PVA (4 % w/w) \n• Chitosan (2 % w/w) \n• Glycerol \n• Polyethylene glycol \n• Glycerol/ Polyethylene glycol \n• Addition of glycerol showed an enhancement in the crystallinity of PVA/ \nchitosan blends while polyethylene glycol reduced the extent of \ncrystallization. • Combination of glycerol and polyethylene glycol led to the highest level of \ncompatibility. Flexibility of the blend plasticized with the combination of \npolyethylene glycol and glycerol was improved five-times of the blend \nplasticized with glycerol. However, the antibacterial activity of the \nchitosan/PVA blend plasticized with polyethylene glycol /glycerol was \nsignificantly reduced compared to that of glycerol or polyethylene glycol. ✓ \n✓ \nShojaee Kang Sofla, Mortazavi, \nand Seyfi (2020) \n• PVA (4 % w/w) \n• Liquefied chitin (1 % w/w) \n• Silica (0.1, 0.2, 0.4, 0.8, and 1.6 wt.%) \n• Addition of silica into the biopolymers blend up to 0.2 % (wt.) improved the \ntensile strength and elasticity values. • Addition of silica into the biopolymers blend up to 0.2 % (wt.) improved the \nbrowning index of fresh cherries. • Compared with synthetic food packaging materials, the blend films \ndegraded quickly in the soil while addition of silica slightly reduced the \nbiodegradability. ✓ \nZhang, Xu et al. (2020) \n• PVA (5 % w/v) \n• Chitosan (1 % w/v) \n• Ethyl lauroyl arginate (1, 2.5, 5, and 10 % w/w) • Addition of ethyl lauroyl arginate into the biopolymers blend negatively \ninfluenced elasticity, tensile strength, and water barrier properties while \nbarrier properties to UV light improved. • Chitosan-gelatin blend enriched with ethyl lauroyl arginate exhibited \nantibacterial activity against C. jejuni, E. coli, L. monocytogenes and S. typhimurium. ✓ \nHaghighi et al. 5. Conclusions and future perspectives ✓ \nCazón, Vázquez, and Velazquez \n(2018) \n• PVA (3 % w/v) \n• Chitosan (1.5 % w/v) \n• Cellulose nanocrystals from rice straw (1, 3, and 5 \n% w/w base on polyvinyl alcohol-chitosan blend) • Addition of cellulose nanocrystals into PVA-chitosan blend improved tensile \nstrength and thermal properties. • PVA-chitosan blend films enriched with cellulose nanocrystal from rice \nstraw showed antifungal activity against C. gloeosporioides and antibacterial \nactivity against S. mutans, S.aureus, E.coli, and P.aeruginosa. ✓ \n✓ \nPerumal, Sellamuthu, Nambiar, \nand Sadiku (2018) \n• PVA (1 % w/v) \n• Chitosan (2 % w/v) \n• SiO2 (0.3, 0.6, and 0.9 %w/w) \n• Addition of silicon dioxide into the biopolymers blend caused an \nenhancement in mechanical, water and oxygen barrier properties. ✓ \n✓ \nYu, Li, Chu, and Zhang (2018) \n• PVA (10 %w/v) \n• Chitosan (2, 2.5, 3, and 3.5 % w/ \nv) \n• In comparison to neat PVA film, blending PVA and chitosan caused an \nimprovement in elasticity and oxygen barrier properties while water barrier \npropertied decreased. Increasing proportion of chitosan in biopolymers \nblend showed better antibacterial activity against S. aureus and E. coli. ✓ \n✓ \n✓ \nLiu, Wang, and Lan (2018) \n• PVA (2 % w/v) \n• Chitosan (2 % w/v) \n• Sulfosuccinic acid \n• (5, 10, 15, 20, and 30 wt%) \n• Glycerol (0−60 wt%) \n• Xylitol (0−60 wt%)\n• Addition of sulfosuccinic acid into the biopolymers blend caused an \nenhancement in tensile strength, elasticity, swelling degree, water solubility, \nthermal stability, and optical properties. ✓ \nYun, Lee, Kim, and Yoon (2017) \naghighi, et al. Biopolymer \nAdditives \nKey findings \nM \nWB \nGB \nAO \nAM \nReference \n• Microcrystalline cellulose (3, 4 \nand 5 % w/w) \n• PVA (2 and 4 % w/w) \n• Chitosan (0.5 and 1 % w/w) \n• Addition of chitosan-PVA blend into the cellulose based films caused an \nimprovement in mechanical properties. • Blending chitosan and cellulose improved barrier properties to the UV light. • Addition of PVA into the biopolymers blend caused an improvement in light \ntransmittance values. ✓ \nCazón, Vázquez, and Velaz\n(2018) \n• PVA (3 % w/v) \n• Chitosan (1.5 % w/v) \n• Cellulose nanocrystals from rice straw (1, 3, and 5 \n% w/w base on polyvinyl alcohol-chitosan blend) • Addition of cellulose nanocrystals into PVA-chitosan blend improved tensile \nstrength and thermal properties. • PVA-chitosan blend films enriched with cellulose nanocrystal from rice \nstraw showed antifungal activity against C. gloeosporioides and antibacterial \nactivity against S. 5. Conclusions and future perspectives mutans, S.aureus, E.coli, and P.aeruginosa. ✓ \n✓ \nPerumal, Sellamuthu, Nam\nand Sadiku (2018) \n• PVA (1 % w/v) \n• Chitosan (2 % w/v) \n• SiO2 (0.3, 0.6, and 0.9 %w/w) \n• Addition of silicon dioxide into the biopolymers blend caused an \nenhancement in mechanical, water and oxygen barrier properties. ✓ \n✓ \nYu, Li, Chu, and Zhang (20\n• PVA (10 %w/v) \n• Chitosan (2, 2.5, 3, and 3.5 % w/ \nv) \n• In comparison to neat PVA film, blending PVA and chitosan caused an \nimprovement in elasticity and oxygen barrier properties while water barrier \npropertied decreased. Increasing proportion of chitosan in biopolymers \nblend showed better antibacterial activity against S. aureus and E. coli. ✓ \n✓ \n✓ \nLiu, Wang, and Lan (2018)\n• PVA (2 % w/v) \n• Chitosan (2 % w/v) \n• Sulfosuccinic acid \n• (5, 10, 15, 20, and 30 wt%) \n• Glycerol (0−60 wt%) \n• Xylitol (0−60 wt%) \n• Sorbitol (0−60 wt%) \n• Addition of sulfosuccinic acid into the biopolymers blend caused an \nenhancement in tensile strength, elasticity, swelling degree, water solubility, \nthermal stability, and optical properties. ✓ \nYun, Lee, Kim, and Yoon (2\n• PVA (1 % w/v) \n• Chitosan-gallic acid (0.1, 0.5, and \n1 % w/v) \n• Increasing chitosan-gallic acid concentration into the biopolymers blend and \ntreating with UV caused an increase in tensile strength while elasticity \nvalues were reduced. • Films containing chitosan-galic acid (1 % w/v) showed antibacterial activity \nagainst E. coli, S. typhimurium, S. aureus, and B. cereus. ✓ \n✓ \nDo Yoon et al. (2017) \n• PVA (5 % w/v) \n• Sodium lactate loaded chitosan \n(2 % w/v) \n• Montmorillonite (0, 5, 10, 15, and 20 % w/w, \nbased on the dry weight of CS/PVA) \n• Montmorillonite concentration up to 15 % in biopolymers blend improved \ntensile strength and elastic modulus while elasticity values decreased. • Addition of montmorillonite into the biopolymers blend enhanced barrier \nproperties to water vapor, oxygen, and carbon dioxide. Blend films showed \nantibacterial activity against E. coli. ✓ \n✓ \n✓ \n✓ \nZhang et al. (2017) \n• PVA (5 % w/v) \n• Chitosan (0.15 % w/w) \n• Carvacrol (5 % w/v) \n• Cellulose nanocrystals (3 % w/w) \n• Addition of carvacrol and cellulose nanocrystal into the biopolymer blend \ncaused an improvement in mechanical properties while color and \ntransparency were not affected. • Blend films showed antioxidant activity and antimicrobial activity against P. carotovorum subsp. Odoriferum, and X. axonopodis. 5. Conclusions and future perspectives (2020) \n• PVA (0.5 % w/v) \n• Xylan (0.5 % w/v) \n• Chitosan (1 % w/v) \n• Nano hydroxyapatite \n• (0.01 w/v) \n• Curcumin (0.01 w/v) \n• PVA-xylan-chitosan-nano hydroxyapatite-curcumin films were developed as \nintelligent packaging to assess the freshness of Indian oil sardine fish at \nroom temperature. • In vitro biodegradation test showed that incorporation of curcumin into the \nbiopolymers blend increased resistance to biodegradation and improved \nlongevity of these scaffolds for longer last. ✓ \nVadivel et al. (2019) \n• Poly(ε-capro-lactone) (6 % w/v) \n• Chitosan (1 % w/v) \n• Oregano essential oil (1, 3, and 5 % w/w) \n• Addition of oregano essential oil into the biopolymers blend caused a \nreduction in tensile strength and elastic modulus while water vapor \npermeability and elasticity values increased. • Poly(ε-caprlactone)-chitosan blend mats containing 5 % oregano essential \noil showed antibacterial activity against S. aureus, L. monocytogenes, S. enteritidis, and E. coli. ✓ \nHasanpour Ardekani-Zadeh and \nHosseini (2019) \n• PVA (2 % w/v) \n• Fish gelatin (2 % w/v) \n• Chitosan (1.5 % w/v) \n• Increasing fish gelatin proportion in biopolymers blend caused an increase \nin water vapor permeability, water absorption, and opacity values while \nwater solubility, tensile strength, and elasticity values reduced. Ghaderi, Hosseini, Keyvani, and \nGómez-Guillén (2019) \n• PVA (4% w/v) \n• Chitosan (1.25 % w/v) \n• Thiabendazol-ium-montmorillonite (5 % w/w) \n• Addition of thiabendazolium into the biopolymers blend caused an increase \nin tensile strength and elastic modulus values. Chitosan-PVA blend films \ncontaining thiabendazolium showed antibacterial activity against P, \naeruginosa, S. aureus, and E. coli. ✓ \n✓ \nBourakadi et al. (2019) \n• PVA (2 % w/v) \n• Chitosan (2 % w/v) \n• Increasing chitosan proportion in the biopolymer blend caused a reduction \nin tensile strength and elasticity values while UV barrier properties \nimproved. Wu, Ying, Liu, Zhang, and Huang \n(2018) \n(\nd\n)\n11 11 Food Packaging and Shelf Life 26 (2020) 100551 H. Haghighi, et al. 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Preparation, physicochemical \ncharacterizations, and the antioxidant activity of the biopolymer films based on \nmodified chitosan with starch, gelatin, and plasticizers. Journal of Polymer Materials, \n33(1), 17–32. https://doi.org/10.1007/s10924-013-0621-z. Baron, R. D., Pérez, L. L., Salcedo, J. M., Córdoba, L. P., & do A. Sobral, P. J. (2017). Production and characterization of films based on blends of chitosan from blue crab \n(Callinectes sapidus) waste and pectin from Orange (Citrus sinensis Osbeck) peel. International Journal of Biological Macromolecules, 98, 676–683. https://doi.org/10. 1016/j.ijbiomac.2017.02.004. j j\nBasta, A. H., Khwaldia, K., Aloui, H., & El-Saied, H. (2015). Enhancing the performance of \ncarboxymethyl cellulose by chitosan in producing barrier coated paper sheets. 5. Conclusions and future perspectives (2016) \n• PLA (1 % w/v) \n• Chitosan (1 % w/v) \n• Methyldiphenyl diisocyanate (0.2,1, 2, and 3 % w/ \nw of the final PLA/chitosan solution) \n• Increasing concentration of methyldiphenyl diisocyanate in biopolymers \nblend improved tensile strength and contact angle values. ✓ \nGartner, Li, and Almenar (2015) Biopolymer \nAdditives \nKey findings \nM \nWB \nGB \nAO \nAM \nReference \n• PVA \n• Chitosan (1 % w/v) \n• Potassium nitrate \n• (0.1, 0.2, 0.3, 0.4, and 0.5 % w/w) \n• Addition of potassium nitrate into the biopolymers blend caused an \nimprovement in tensile strength and elasticity due to its crosslinking effect. • The degradation behavior can be improved with addition of potassium \nnitrate. ✓ \nJahan et al. (2016) \n• PLA (1 % w/v) \n• Chitosan (1 % w/v) \n• Methyldiphenyl diisocyanate (0.2,1, 2, and 3 % w/ \nw of the final PLA/chitosan solution) \n• Increasing concentration of methyldiphenyl diisocyanate in biopolymers \nblend improved tensile strength and contact angle values. ✓ \nGartner, Li, and Almenar (2015) biodegradable components would result in a new biodegradable ma\nterial. This should not be taken for granted and requires verification \nespecially in the case of film incorporation of antimicrobial compounds. Indeed, compounds which inhibit microbial food spoilage might also \ncause negative effects in the composting process. Hence, future research \non chitosan-based films and sustainable materials, in general, should \ninclude biodegradability among the targeted parameters. 5. Conclusions and future perspectives ✓ \n✓ \n✓ \nLuzi et al. (2017) \n• PVA (2 % w/v) \n• Chitosan (2 % w/v) \n• Increasing proportion of PVA in biopolymers blend caused an increase in \ntensile strength and elasticity. • Increasing proportion of chitosan in the blend improved antioxidant activity \nand antibacterial activity against S. aureus, B. cereus M. luteus, S. enterica, E. coli, and S. typhimurium. ✓ \n✓ \n✓ \nHajji et al. (2016) \n• PVA (10, 20, and 30 % w/w) \n• Montmorillonite (5 %w/v) \n• Chitosan (2 % w/v) \n• Addition of PVA into the biopolymers blend caused a plasticizing effect \nwhile tensile strength decreased. Also, barrier properties to water and \noxygen improved. • Incorporation of montmorillonite into the biopolymer blend enhanced the \nmechanical and antimicrobial activities while barrier properties to water \nand oxygen reduced. ✓ \n✓ \n✓ \n✓ \nGiannakas et al. (2016) \n• EVOH (4 % w/v) \n• Chitosan \n• Nano zinc oxide (1 and 2 %w/w) \n• Addition of nano zinc oxide into the biopolymers blend caused an \nimprovement in barrier properties against water vapor and oxygen. • Presence of chitosan and nano zinc oxide caused excellent antimicrobial \nactivity against A. niger and E.coli. Adding nano zinc oxide improved barrier, \nmechanical, and antimicrobial properties. ✓ \n✓ \n✓ \n✓ \nSadeghi and Shahedi (2016\n(continued on nex 12 Additives \nKey findings \nM \nWB \nGB \nAO \nAM \nReference \n• Potassium nitrate \n• (0.1, 0.2, 0.3, 0.4, and 0.5 % w/w) \n• Addition of potassium nitrate into the biopolymers blend caused an \nimprovement in tensile strength and elasticity due to its crosslinking effect. • The degradation behavior can be improved with addition of potassium \nnitrate. ✓ \nJahan et al. (2016) \n• Methyldiphenyl diisocyanate (0.2,1, 2, and 3 % w/ \nw of the final PLA/chitosan solution) \n• Increasing concentration of methyldiphenyl diisocyanate in biopolymers \nblend improved tensile strength and contact angle values. ✓ \nGartner, Li, and Almenar (2015) \nHaghighi, et al. Food Packaging and Shelf Life 26 (2020) 100551 H. Haghighi, et al. H. Haghighi, et al. Biopolymer \nAdditives \nKey findings \nM \nWB \nGB \nAO \nAM \nReference \n• PVA \n• Chitosan (1 % w/v) \n• Potassium nitrate \n• (0.1, 0.2, 0.3, 0.4, and 0.5 % w/w) \n• Addition of potassium nitrate into the biopolymers blend caused an \nimprovement in tensile strength and elasticity due to its crosslinking effect. • The degradation behavior can be improved with addition of potassium \nnitrate. ✓ \nJahan et al. References Nordic \nPulp and Paper Research Journal, 30(4), 617–625. https://doi.org/10.3183/npprj- \n2015-30-04-p617-625. p\nBatista, J. T. S., Araújo, C. S., Peixoto Joele, M. R. S., Silva Júnior, J. O. 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Effect of pravastatin on survival in patients with advanced hepatocellular carcinoma. A randomized controlled trial
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British journal of cancer
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Effect of pravastatin on survival in patients with
advanced hepatocellular carcinoma. A randomized
controlled trial Yamasaki1, T Nagase1, Y Inui1, N Ito1, Y Matsuda1, M Inada1, S Tamura1, S Noda1, Y Imai1 and S Kawata1, 2, E Yamasaki1, T Nagase1, Y Inui1, N Ito1, Y Matsuda1, M Inada1, S Tamura1, S No
Y Matsuzawa1 S Kawata1, 2, E Yamasaki1, T Nagase1, Y Inui1, N Ito1, Y Matsuda1, M Inada1, S Tamura1, S Noda1, Y Imai1 and
Y Matsuzawa1 1Department of Internal Medicine and Molecular Science, Graduate School of Medicine, Osaka University, Osaka 565-0871, Japan, and 2Department of Internal
Medicine, Yamagata University School of Medicine, Yamagata 990-9585, Japan Summary Chemotherapy is not effective for hepatocellular carcinoma (HCC). HMG-CoA redutase inhibitors have cytostatic activity for cancer
cells, but their clinical usefulness is unknown. To investigate whether pravastatin, a potent HMG-CoA reductase inhibitor, prolongs survival in
patients with advanced HCC, this randomized controlled trial was conducted between February 1990 and February 1998 at Osaka University
Hospital. 91 consecutive patients <71 years old (mean age 62) with unresectable HCC were enroled in this study. 8 patients were withdrawn
because of progressive liver dysfunction; 83 patients were randomized to standard treatment with or without pravastatin. All patients
underwent transcatheter arterial embolization (TAE) followed by oral 5-FU 200 mg–1 d for 2 months. Patients were then randomly assigned to
control (n = 42) and pravastatin (n = 41) groups. Pravastatin was administered at a daily dose of 40 mg. The effect of pravastatin on tumour
growth was assessed by ultrasonography. Primary endpoint was death due to progression of HCC. The duration of pravastatin administration
was 16.5 ± 9.8 months (mean ± SD). No patients in either group were lost to follow-up. Median survival was 18 months in the pravastatin
group versus 9 months in controls (P = 0.006). The Cox proportional hazards model showed that pravastatin was a significant factor
contributing to survival. Pravastatin prolonged the survival of patients with advanced HCC, suggesting its value for adjuvant treatment. © 2001 Cancer Research Campaign
http://www.bjcancer.com Keywords: hepatocellular carcinoma; pravastatin; HMG-CoA reductase inhibitor; survival these inhibitors could lead to suppression of tumour growth by
interfering with the function of Ras p21. However, there are no
report on whether such inhibitors have potential in cancer patients. In this study, we tested whether administration of HMG-CoA
reductase inhibitor would contribute to the survival of patients
with advanced HCC. Received 22 February 2000
Revised 28 December 2000
Accepted 19 January 2001
Correspondence to: S Kawata Effect of pravastatin on survival in patients with
advanced hepatocellular carcinoma. A randomized
controlled trial We administered pravastatin (40 mg day–1),
for which the liver has a high affinity, to HCC patients in a
randomized controlled trial after transcatheter arterial emboliza-
tion (TAE) (Charnsagavej et al, 1983; Yamada et al, 1983;
Stefanini et al, 1995) and oral 5-fluorouracil (5-FU) as standard
treatment. Hepatocellular carcinoma (HCC) causes death in patients with
cirrhosis and is one of the most prevalent malignant tumours
worldwide (Simonetti et al, 1991; Okuda, 1992; Di Bisceglie,
1995). Its incidence has substantially increased in Japan (Okuda
et al, 1987) and in the United States (El-Serag and Mason, 1999). HCC has a dismal 5-year survival rate, and there is no effective
chemotherapy. these inhibitors could lead to suppression of tumour growth by
interfering with the function of Ras p21. However, there are no
report on whether such inhibitors have potential in cancer patients. In this study, we tested whether administration of HMG-CoA
reductase inhibitor would contribute to the survival of patients
with advanced HCC. We administered pravastatin (40 mg day–1),
for which the liver has a high affinity, to HCC patients in a
randomized controlled trial after transcatheter arterial emboliza-
tion (TAE) (Charnsagavej et al, 1983; Yamada et al, 1983;
Stefanini et al, 1995) and oral 5-fluorouracil (5-FU) as standard
treatment. Signal transduction inhibitors, including farnesyl transferase
inhibitors and mitogen-activated protein kinase (MAPK)
kinase inhibitors, have been developed as anti-cancer agents
(Gibbs et al, 1993; James et al, 1993; Kohl et al, 1993; Stebolt-
Leopold et al, 1999). The activity of 3-hydroxy-3-methylglutaryl
coenzyme A (HMG-CoA) reductase, the rate-limiting enzyme of
cholesterol biosynthesis, has been positively correlated with
mammalian cell growth (Kandutsch and Chen, 1979). Mevalonic
acid, produced by HMG-CoA reductase, regulates cell growth
independent of cholesterogenesis: Ras p21 and lamins A and B
undergo covalent modification at the carboxyl terminus by meval-
onate-derived farnesyl isoprenoid (Goldstein and Brown, 1990). HMG-CoA reductase inhibitors exhibit cytostatic activity possibly
as signal transduction inhibitors, when added to proliferating cells
in culture or in vivo (Goldstein et al, 1979; Habenicht et al, 1980;
Maltese et al, 1985). Decreased farnesyl isoprenoid formation by British Journal of Cancer (2001) 84(7), 886–891
© 2001 Cancer Research Campaign British Journal of Cancer (2001) 84(7), 886–891
© 2001 Cancer Research Campaign http://www.bjcancer.com © 2001 Cancer Research Campaign
doi: 10.1054/ bjoc.2001.1716, available online at http://www.idealibrary.com on Assessment Death was the primary endpoint. Clinical status and laboratory
data, including hepatic and renal function tests and haematologic
examinations, were followed at least once a month in the outpa-
tient clinics of Osaka University Hospital and during hospitaliza-
tion. Duing the first 2 months, serum transaminases, bilirubin,
prothrombin time, cholesterol and albumin, were checked weekly
to detect any liver damage due to pravastatin. Serum creatine
kinase activity was also checked every month. Tumour status was
followed by US or computed tomography at least 4 times each
year and tumour marker (AFP, alfa-fetoprotein) monthly. Maximal
diameters of the main tumours in each group were sequentially
measured with US at 2, 6 and 12 months after starting pravastatin
to evaluate its effect on tumour growth. Pravastatin was stopped
when patients had satisfied
exclusion criteria Follow-up till death; lost to
follow-up (n = 0) Patients The cohort comprised 91 consecutive patients with unresectable
advanced HCC who were younger than 70 years old (Figure 1); 71
patients were male and 20 were female. The mean age was 62
(ranging from 39 to 70). The diagnosis of cirrhosis was confined
by biochemical data and ultrasonography (US). The histologic
diagnosis of underlying liver disease was carried out in 47 patients
by US-guided liver biopsy. The diagnosis of HCC was based on
clinical features and findings from US, computed tomography, and
hepatic arteriography. Tumour stage (I–IV) was determined
according to the criteria of the Primary Liver Cancer Study Group
of Japan: stage I, a single tumour ≤2 cm in its greatest dimension
without vascular invasion; stage II, a single tumour <2 cm in its
greatest dimension with vascular invasion, or multiple tumours 886 Effect of pravastatin on human hepatoma Eligible patients (n = 91)
Randomization (n = 83)
Pravastatin group (n = 41)
Standard Treatment: TAE and oral
5-FU (n = 91)
Control group (n = 42)
Withdrawal due to advanced liver dysfunction
during or after standard treatment (n = 8)
Pravastatin was stopped
when patients had satisfied
exclusion criteria
Follow-up till death; lost to
follow-up (n = 0)
Follow-up till death; lost to
follow-up (n = 0)
Completed trial (n = 41)
Completed trial (n = 42)
Figure 1
Protocol for enrolment, randomization and follow-up. TAE;
transcatheter arterial embolization drugs. Pravastatin was discontinued when patients showed any of
the exclusion criteria, or signs and symptoms ascribed to adverse
effects of the drug. The control group was not treated with any
anti-cancer drugs. Written informed consent was obtained from all
subjects prior to entry. The protocol in this study was approved by
the local scientific ethical committee. Measurement of urinary pravastatin Compliance with pravastatin treatment was assessed by detecting
pravastatin in urine according to the method described previously
(Koga et al, 1995). Urine was obtained every 2 months after
entry. Figure 1
Protocol for enrolment, randomization and follow-up. TAE;
transcatheter arterial embolization with a maximum diameter ≤2 cm confined to one lobe, or a single
tumour with a diameter >2 cm, without vascular invasion; stage
III, a single tumour with a diameter >2 cm, with vascular invasion,
or multiple tumours >2 cm confined to one lobe; stage IV, multiple
tumours in more than one lobe or associated vascular invasion in
the first branch of the portal or hepatic veins (The Liver Cancer
Study Group of Japan, 1989). The histologic diagnosis of HCC
was confirmed in the 47 patients with US-guided biopsy. All
patients had died by the end of February 1998, and the histologic
diagnosis of HCC was confirmed by autopsy or needle necropsy in
all patients. Statistical analysis Fisher’s exact (two-tailed) test was used to compare the baseline
characteristics of both groups. Survival curves were generated by
the Kaplan–Meier method. The log-rank test was used to compare
survival. Factors contributing to survival were selected using the
Cox proportional-hazards regression analysis. Changes in lab-
oratory profiles between the 2 groups were compared using
Mann–Whitney test. As standard treatment, all patients underwent transcatheter
arterial embolization (TAE). For the TAE procedure, patients were
treated with gelatin-sponge particles and ethyl ester of poppyseed
oil fatty acids containing 38% iodine by weight (Lipiodol; Andre-
Gelbe Laboratories, Paris, France) after intraarterial infusion of
doxorubicin (30 mg) (Matsuda et al, 1994). Oral 5-FU at a daily
dose of 200 mg was started 2 weeks after the TAE procedure and
continued for 2 months. © 2001 Cancer Research Campaign RESULTS 91 patients with advanced HCC were enroled between February
1990 and January 1993. All patients underwent TAE and oral
administration of 5-FU. 8 patients were withdrawn because of
progressive liver dysfunction. The control (n = 42) and pravastatin
(n = 41) groups were similar in terms of age, sex, liver function,
renal function, stage of disease (The Liver Cancer Study Group of
Japan, 1989), and presence of vascular invasion in portal veins,
extra-hepatic spread or past history of encephalopathy (Table 1) at
the start of pravastatin treatment. Both groups were not different in
TAE-related complications. 33 patients in the pravastatin group
had cirrhosis versus 34 controls. In the pravastatin group, the
Child–Pugh classification in the cirrhotic patients was class A
for 5 patients and class B for 28, compared with 4 and 30 in the
control group, respectively. The Karnofsky performance scale was
80 to 90 for 34 patients and 60 to 70 for 7 patients in the pravas-
tatin group versus 80 to 90 for 36 patients and 60 to 70 for 6
patients in the control group. HBs Ag was positive in 5 pravastatin
patients and 4 controls. Anti-HCV antibody by second or third
generation ELISA (Ortho Diagnostics, Tokyo) was positive in 33 8 of 91 patients were withdrawn during standard treatment for
any of the following exclusion criteria: hyperbilirubinaemia >51
micro mol l–1; hyperammonaemia >70 micro mol l–1; prothrombin
time >14 seconds; hypoalbuminaemia <25 g l–1; serum alanine
aminotransferase (ALT) level >150 U l–1; or massive ascites. The
remaining 83 patients were randomly divided into control (n = 42)
and pravastatin (n = 41) groups after standard treatment;
randomization was generated by a computer program. Survival
analysis in both groups began on the 15th day after 5-FU was
completed. The pravastatin group received oral drug at a dose of
20 mg beginning on the 15th day after the end of 5-FU administra-
tion. 2 weeks later, pravastatin was increased to 40 mg per day. RESULTS The pravastatin group was not treated with any other anti-cancer British Journal of Cancer (2001) 84(7), 886–891 © 2001 Cancer Research Campaign 888
S Kawata et al 888
S Kawata et al Table 1
Baseline demographics for pravastatin and control groups Table 1
Baseline demographics for pravastatin and control groups Table 1
Baseline demographics for pravastatin and control groups
Variable
Pravastatin group (n = 41)
Control group (n = 42)
P value*
n (%)
n (%)
Age (y)
<60
15 (37)
19 (45)
>0.2
≥60
26 (63)
23 (55)
Sex
Female
10 (24)
8 (20)
>0.2
Male
31 (76)
34 (80)
Tumour stage
IV
11 (27)
13 (31)
>0.2
II or III
30 (73)
29 (69)
Vascular invasion in portal veins
Yes
5 (12)
6 (14)
>0.2
No
36 (88)
36 (86)
Extra-hepatic spread
Yes
2 (5)
1 (2)
>0.2
No
39 (95)
41 (98)
Serum ALT** level
<60 U l–1
25 (61)
23 (55)
>0.2
≥60 U l–1
16 (39)
19 (45)
Serum alkaline phosphatase level
<200 IU l–1
26 (63)
24 (57)
>0.2
≥200 IU l–1
15 (37)
18 (43)
Serum albumin level
≥35 g l–1
21 (51)
20 (47)
>0.2
<35 g l–1
20 (49)
22 (53)
Serum total bilirubin level
<22 micro mol l–1
17 (41)
19 (45)
>0.2
≥22 micro mol l–1
24 (59)
23 (55)
Serum creatinine level
<1.2 mg dl-1
21 (51)
20 (47)
>0.2
≥1.2 mg dl-1
20 (49)
22 (53)
Past history of encephalopathy
Yes
2 (5)
2 (5)
>0.2
No
39 (95)
40 (95)
Tumour stage was according to the criteria of the Liver Cancer Study Group of Japan (The Liver Cancer Study
Group of Japan, 1989). *Fisher’s exact test; **alanine aminotransferase. Tumour stage was according to the criteria of the Liver Cancer Study Group of Japan (The Liver Cancer Study
Group of Japan, 1989). *Fisher’s exact test; **alanine aminotransferase. By the end of February 1998, all patients in both groups had
died due to HCC progression and/or hepatic failure. The median
survival was 18 months in the pravastatin group and 9 months in
controls. Survival in the pravastatin group was significantly longer
(P = 0.006 by the log-rank test) (Figure 2). Using the Cox
proportional-hazards model, pravastatin was a significant factor
contributing to prolonged survival (P = 0.02 for univariate analysis
and P = 0.005 for multivariate analysis) (Table 3). RESULTS Absence of the
vascular invasion in portal veins was also a significant factor
contributing to prolonged survival (P = 0.03 for multivariate
analysis). of the pravastatin group and 35 of the control group. Patients were
unresectable because of extensive tumour in 28 pravastatin
patients and 30 controls and because of advanced liver disease in
13 and 12, respectively. The median follow-up was 11 months
(range 2 to 66 months) by the end of February 1998. No patients
were lost to follow-up. The duration of pravastatin administration was 16.5 ± 9.8
months (mean ± SD). Pravastatin was discontinued in all patients
because of advancing disease and not because of any adverse
effects of the medicine. The reasons for discontinuation were
hyperbilirubinaemia in 7 patients, prolonged prothrombin time
in 5, massive ascites in 8, hyperammonaemia in 9, and hypoalbu-
minaemia in 12. No patient had an elevation of ALT levels to
>150 U l–1. During the administration period, pravastation was
detected in all urine samples. Serum AFP level was lower in the pravastatin group compared
with controls 6 months and 1 year after the entry (P = 0.04 and
P = 0.03, respectively; Mann–Whitney test) (Table 2). Regression
of tumour was not observed in the pravastatin group at 2, 6 or 12
months. However, increase in maximal diameter was significantly
less in the pravastatin group at 6 and 12 months compared with
controls (P = 0.03 and P = 0.01, respectively; Mann–Whitney test),
suggesting that tumour growth was suppressed by pravastatin. Serum ALT and total bilirubin did not differ between the
2 groups at 2 and 6 months after the start of pravastatin (Table 2). However, the serum cholesterol concentration was lower in the
pravastatin group at 2 and 6 months (P < 0.001 for both). The
median of total bilirubin level 1 year after entry was 28 micro
mol l–1 (n = 25) in the pravastatin group and 43 (n = 11) in controls
(P = 0.04, Mann–Whitney test). In addition, the median of serum
albumin level 1 year after entry was 31 g l–1 in the pravastatin and
26 in the control group (P = 0.02). These results suggested that
liver function deteriorated more rapidly in the control group. In the control group, 35 patients died of tumour progression and
7 died of hepatic failure. In the pravastatin group, 36 died of
tumour progression and 5 died of hepatic failure. RESULTS Of the 36 patients
who died of tumour progression in the pravastatin group, 1 had
severe cholestasis due to tumour invasion into the bile ducts, 3 had
massive pleural effusion due to lung metastasis, and 28 had © 2001 Cancer Research Campaign British Journal of Cancer (2001) 84(7), 886–891 Effect of pravastatin on human hepatoma 889 Table 2
Changes in liver function test and tumour markers after start of pravastatin administration
Variable
Pravastatin group (n = 41)
Control group (n = 42)
P value
Serum ALT* level (U l–1)
Baseline
58# (42–85)##
63 (45–97)
> 0.2
2M
57 (39–90) (n = 41)
65 (42–92) (n = 42)
> 0.2
6M
60 (40–86) (n = 35)
59 (43–108) (n = 22)
> 0.2
1Y
52 (36–74) (n = 25)
68 (48–93) (n = 11)
> 0.2
Serum total bilirubin level (micro mol l–1)
Baseline
24 (18–37)
25 (18–40)
> 0.2
2M
25 (19–35) (n = 41)
28 (19–44) (n = 42)
> 0.2
6M
28 (21–38) (n = 35)
36 (25–55) (n = 22)
> 0.2
1Y
28 (22–40) (n = 25)
43 (24–58) (n = 11)
0.04
Serum albumin level (g l–1)
Baseline
35 (29–40)
36 (26–38)
> 0.2
2M
36 (28–41) (n = 41)
34 (25–36) (n = 42)
> 0.2
6M
33 (26–37) (n = 35)
29 (24–34) (n = 22)
0.06
1Y
31 (24–35) (n = 25)
26 (23–32) (n = 11)
0.02
Serum AFP level (ng dl–1)
Baseline
130 (25–5140)
120 (5–3450)
> 0.2
2M
108 (21–4270) (n = 41)
172 (45–6710) (n = 42)
> 0.2
6M
218 (60–6540) (n = 35)
292 (85–9573) (n = 22)
0.04
1Y
261 (78–7940) (n = 25)
4140 (140–17300) (n = 11)
0.03
Serum total cholesterol level (mmol l–1)
Baseline
4.30 (3.67–5.03)
4.20 (3.58–4.96)
> 0.2
2M
3.56 (3.25–3.94) (n = 41)
3.93 (3.42–4.75) (n = 42)
< 0.001
6M
3.24 (2.80–3.82) (n = 35)
3.78 (3.52–4.63) (n = 22)
< 0.001
1Y
3.10 (2.63–3.55) (n = 25)
3.40 (2.86–4.07) (n = 11)
0.03
Diameter of main tumour (mm)
Baseline
38 (22–48)
36 (24–52)
> 0.2
2M
40 (24–52) (n = 41)
43 (25–62) (n = 42)
> 0.2
6M
45 (30–67) (n = 35)
60 (34–83) (n = 22)
0.03
1Y
52 (42–78) (n = 25)
73 (45–106) (n = 11)
0.01
2M, 2 months after pravastatin; 6M, 6 months after pravastatin; 1Y, 1 year after pravastatin. RESULTS # Median of values,
## range of values. Table 2
Changes in liver function test and tumour markers after start of pravastatin administration 2M, 2 months after pravastatin; 6M, 6 months after pravastatin; 1Y, 1 year after pravastatin. # Median of values,
## range of values 2M, 2 months after pravastatin; 6M, 6 months after pravastatin; 1Y, 1 year after pravastatin. # Median of values,
## range of values. 1.0
0.8
0.6
0.4
0.2
0
0
1
2
3
4
5
pravastatin group
control group
Years of follow-up
Cumulative survival
Figure 2
Kaplan–Meier survival curves in pravastatin (n = 41) and control
(n = 42) groups. The median survival was 18 months in the pravastatin group
and 9 months in the control group (P = 0.006 by the log-rank test) 1.0
0.8
0.6
0.4
0.2
0
0
1
2
3
4
5
pravastatin group
control group
Years of follow-up
Cumulative survival massive ascites due to the obstruction of the portal vein by tumour. Of the 5 patients who died of hepatic failure in the pravastatin
group, 3 patients developed hepatic coma with progressive
cirrhosis, and 2 had rupture of gastric varices. © 2001 Cancer Research Campaign DISCUSSION Chemotherapy that prolongs survival is not available for advanced
HCC. To test whether pravastatin, a potent HMG-CoA reductase
inhibitor, might increase the survival of patients with advanced
HCC, we designed a randomized clinical trial with death as the
primary endpoint. We chose TAE and 5-FU as standard treatment
before introducing pravastatin administration. TAE prevents
tumour progression (Charnsagavej et al, 1983; Yamada et al, 1983;
Stefanini et al, 1995) and is one of the standard treatments for
unresectable HCC in Japan. 5-FU also has activity against HCC
(Cavalli et al, 1981; Coi et al, 1984; Falkson et al, 1984). To avoid
any bias based on pretreatment, all 91 patients underwent a single
TAE followed by oral 5-FU at a uniform dose for 2 months. 83 patients completed the standard treatment and were randomly
assigned to pravastatin or control groups. Years of follow-up Figure 2
Kaplan–Meier survival curves in pravastatin (n = 41) and control
(n = 42) groups. The median survival was 18 months in the pravastatin group
and 9 months in the control group (P = 0.006 by the log-rank test) The biochemical data after randomization suggested that liver
function deteriorated more rapid in patients who were not taking
pravastatin (Table 2). This may represent more rapid progression
of either tumour or underlying liver disease in the control groups. Serum AFP concentrations more rapidly increased in controls
(Table 2). Regression of the main tumour was not observed in the
pravastatin group. Yet, growth of the main tumours was signifi-
cantly slowed at 6 and 12 months after pravastatin administration,
suggesting that pravastatin suppressed tumour growth. Pravastatin
effects on survival may therefore have resulted from stabilization Patients in the pravastatin group survived significantly longer
than those in the control group (Figure 2). Analysis using the Cox
proportional-hazards model showed that treatment with pravas-
tatin was the significant factor contributing to prolonged survival
(P = 0.02 for univariate analysis and P = 0.005 for multivariate
analysis). This result suggests that HMG-CoA reductase inhibitors
offer a survival advantage in the treatment of advanced HCC. DISCUSSION © 2001 Cancer Research Campaign British Journal of Cancer (2001) 84(7), 886–891 890
S Kawata et al 890
S Kawata et al 890 Table 3
Factors contributing to survival in HCC patients g
p
Univariate analysis
Multivariate analysis
Variable
Risk ratio
95% CI*
P value#
Risk ratio
95% CI
P value
Age
< 60
1
1
≥60
1.72
0.58–4.84
>0.2
1.30
0.67–2.65
>0.2
Sex
Female
1
1
Male
0.62
0.22–1.72
>0.2
0.82
0.38–1.70
>0.2
Tumour stage
IV
1
1
II or III
0.67
0.22–2.06
>0.2
0.72
0.34–1.63
>0.2
Vascular invasion in portal veins
Yes
1
1
No
0.38
0.12–1.25
0.10
0.18
0.04–0.81
0.03
Extra-hepatic spread
Yes
1
1
No
0.65
0.22–1.98
>0.2
0.57
0.25–1.62
>0.2
Serum ALT## level
<60 U l–1
1
1
≥60 U l–1
1.46
0.45–4.64
>0.2
1.80
0.85–4.16
>0.2
Serum alkaline phosphatase level
<200 IU l–1
1
1
≥200 IU l–1
2.05
0.66–6.35
>0.2
1.47
0.64–3.67
>0.2
Serum albumin level
≥35 g l–1
1
1
<35 g l–1
1.33
0.43–4.35
>0.2
1.58
0.68–3.15
>0.2
Serum total bilirubin level
<22 micro mol l–1
1
1
>22 micro mol l–1
2.3
0.71–7.46
>0.2
1.35
0.62–3.05
>0.2
Serum creatinine level
<1.2 mg dl–1
1
1
≥1.2 mg dl–1
1.84
0.56–6.13
>0.2
1.63
0.55–4.65
>0.2
Past history of encephalopathy
Yes
1
1
No
0.67
0.21–2.08
>0.2
0.52
0.18–1.50
>0.2
Pravastatin administration
No
1
1
Yes
0.42
0.20–0.83
0.02
0.35
0.17–0.61
0.005
*CI denotes confidence interval. # Cox proportional-hazards regression analysis. ## analine aminotransferase. values. In general, patients with advanced HCC tolerated long-
term administration of a daily dose of 40 mg of pravastatin. of the tumour. Signal transduction inhibitors are generally cyto-
static in their activity against malignant cells, and our results are
consistent with other in vivo studies (Stebolt-Leopold et al, 1999). HMG-CoA reductase inhibitors have been reported to have cyto-
static activity, possibly due to suppression of protein isoprenylation
(Sinensky et al, 1990). Cholesterol is a primary source for
membrane formation and thus is in great demand in rapid-growth
tissues such as cancers. Previously, we reported that HMG-CoA
reductase activity and protein content, as well as cholesterol bio-
synthesis, were increased in human HCC tissues (Kawata et al,
1990). The liver has a high affinity for pravastatin (Tsujita et al,
1986). © 2001 Cancer Research Campaign DISCUSSION Prior to this study, we observed that pravastatin at a daily
dose of 40 mg led to a significant decrease in serum concentrations
of cholesterol and AFP in 3 patients with hypercholesterolaemia
associated with HCC as a paraneoplastic syndrome (data not
shown). This agent might have been effectively taken up to
hepatoma cells in vivo. In future studies, to clarify the mechanism(s)
whereby pravastatin may prolong survival in advanced HCC, liver
biopsy should be done before and after therapy to monitor changes
in protein isoprenylation and cholesterol content in tumour cells. (
p
,
)
Long-term administration of a daily dosage of 40 mg of pravas-
tatin has been reported to prevent cardiovascular events (Byington
et al, 1995; Shepherd et al, 1995). This dosage was well-tolerated
without severe adverse effects. Because our patients had advanced
HCC with chronic hepatitis and/or cirrhosis, we administered a
daily dose of 20 mg of pravastatin during the first 2 weeks to check
adverse effects. No significant problems were noted, and all
patients subsequently received 40 mg of pravastatin. During
the first 2 months, we found no elevations of serum bilirubin or
transaminase values which could be attributed to pravastatin. Throughout the observation period, there were no significant
differences in liver function tests or haematologic data between the
2 groups. After 2 months, pravastatin was continued until exclu-
sion criteria were satisfied. All patients in the pravastatin group
appeared to die of progressive disease. Patients with chronic liver disease often have muscle cramps. In
this study, the frequency of muscle cramps did not differ between
the 2 groups (data not shown). None of the patients in either group
showed more than a 10-fold elevation in serum creatine kinase This study was not blinded, although it was randomized. The
study also included treatment with TAE and oral 5-FU, although
randomization was done after completion of those treatments. © 2001 Cancer Research Campaign British Journal of Cancer (2001) 84(7), 886–891 Effect of pravastatin on human hepatoma 891 These factors may have introduced bias in assessing the effect of
pravastatin on survival. In the future, a randomized, placebo-
controlled, double-blind study will be needed to clarify whether
HMG-CoA reductase inhibitors are useful as adjuvant anti-cancer
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1934–1937 Maltese WA, Defendini R, Green RA, Sheridan KM and Donley DK (1985)
Suppression of murine neuroblastoma growth in vivo by mevinolin, a
competitive inhibitor of 3-hydroxy-3-methylglutaryl coenzyme A reductase. J Clin Invest 76: 1748–1754 In conclusion, pravastatin prolonged the survival of patients
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948–963 REFERENCES Radiology 148: 397–401 Gibbs JB, Pompliano DL, Mosser SD, Rands E, Lingham RB, Singh SB,
Scolnick EM, Kohl NE and Oliff A (1993) Selective inhibition of farnesyl:
transferase blocks ras processing in vivo. J Biol Chem 268: 7617–7620 Goldstein JL and Brown MS (1990) Regulation of the mevalonate pathway. Nature 343: 425–430 ACKNOWLEDGEMENTS Okuda K, Fujimoto I, Hanai A and Urano Y (1987) Changing incidence of
hepatocellular carcinoma in Japan. Cancer Res 47: 4967–4972 This work was supported in part by a Grant-in-Aid for Cancer
Research to S Kawata (Grant No. 07274240) from the Ministry of This work was supported in part by a Grant-in-Aid for Cancer
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Mackillop JH, Packard CJ, for the West of Scotland Coronary Prevention Study
Group (1995) Prevention of coronary heart disease with pravastatin in men
with hypercholesterolemia. N Engl J Med 333: 1301–1307 Research to S Kawata (Grant No. 07274240) from the Ministry of
Education, Science, and Culture in Japan. Education, Science, and Culture in Japan. Simonetti RG, Camma C, Fiorello F, Politi F, D’amico G and Pagliaro L (1991)
Hepatocellular carcinoma. A worldwide problem and the major risk factors. Dig Dis Sci 36: 962–972 Hepatocellular carcinoma. A worldwide problem and the major risk factors. Dig Dis Sci 36: 962–972 APPENDIX Goldstein JL, Helgeson JAS and Brown MS (1979) Inhibition of cholesterol
synthesis with compactin renders growth of cultured cells dependent on the low
density lipoprotein receptors. J Biol Chem 254: 5403–5409 Current author addresses Habenicht AJR, Glomset JA and Ross R (1980) Relation of cholesterol and
mevalonic acid to the cell cycle in smooth muscle and Swiss 3T3 cells
stimulated to divide by platelet-derived growth factor. J Biol Chem 255:
5134–5140 Dr Kawata: Second Department of Internal Medicine, Yamagata
University School of Medicine, 2-2-2 Iida-Nishi, Yamagata
990-9585, Japan. James GL, Goldstein JL, Brown MS, Rawson TE, Somers TC, McDowell RS,
Crowley CW, Lucas BK, Levinson AD and Marsters Jr JC (1993)
Benzodiazepine peptidomimetics: protein inhibitor of ras farnesylation in
animal cells. Science 260: 1937–1942 Drs Yamasaki, Nagase, Inui, Ito, Tamura, and Matsuzawa:
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cultured cells, DNA synthesis and membrane composition. J Biol Chem 252:
409–415 Drs Matsuda and Inada: Department of Internal Medicine,
Toyonaka Municipal Hospital, 4-14-1 Shibahara-cho, Toyonaka,
Osaka 5675, Japan. Kawata S, Takaishi K, Nagase T, Ito N, Tamura S, Matsuzawa Y and Tarui S (1990)
Increase in the active form of 3-hydroxy-3-methylglutaryl coenzyme A
reductase in human hepatocellular carcinoma: Possible mechanism for
alteration of cholesterol biosynthesis. Cancer Res 50: 3270–3273 Dr Noda: Department of Internal Medicine, Suita Municipal
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Beobachtungen über die Nervenelemente bei Ganoïden und Knochenfischen
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Beobachtungen
fiber die Nervenelemente bei Ganoi'den
und Knochenfischen.
Teil I: Der Bau der Nervenzellen.
Von
Anton Nemiloif
Assistent am anatomisch-histol. Laboratorium der Universitiit St. Petersburg.
H i e r z u T a f e l I, I I u n d 7 T e x t f i g u r e n .
In der letzten Zeit sind in die mikroskopische Technik eine
Reihe yon neuen Methoden (yon B j e 1 s c h o w s k i, D o n a g g i o,
R a m 5 n C a j a 1 und vielen anderen) eingeftihrt worden, welche
unsere Kenntnisse tiber den feineren Bau der Nervenzellen- und
-fasern in betr~tchtlichem Make erweitert haben. Ungeachtet
dessert sind zahlreiche Fragen tiber die wichtigsten morphologischen
Beziehungen des Nervensystems bei weitem noch nicht mit d e r
$orgfalt und Genauigkeit festgestellt, welche fiir irgendwelche
wissenschaftliche Schlussfolgerungen erforderlich ist. Der Mangel
an Tatsachenmateriat, das Fehlen genau festgestellter Befunde
lassen eine Verallgemeinerung der letzteren, sowie Schlussfolgerungen aus denselben, welche doch das Endziel einer wissenschaftlichen Untersuchung darstellen, nicht zu. Dieser Umstand
veranlasste reich, den histologischen Bau der ~N'ervenzellen. und
-fasern vermittelst verschiedener Fixierungs- und Farbungsmethoden
aufs neue zu untersuchen.
I. U n t e r s u c h u n g s o b j e k t .
Als solches wahlte ich verschiedene Repri~sentanten yon
Stisswasserfischen. Beim Arbeiten mit dermassen unbestandigen
und eigensinnigen Methoden, wie es die Mehrzahl der Untersuchungsverfahren des iNervensystems sind, ist die Auswahl eines
passenden Objektes besonders wichtig.
Es mtissen nicht nur die Dimensionen der histologischen
Elemente des betreffenden Tieres, sondern auch der Grad der
A r c h i v f. mikrosk. Anat. Bd. 72.
1
2
Anton
Nemiloff:
Widerstandsfahigkeit seiner Gewebe dem Untersuchungsverfahrea
gegenfiber in Berticksichtigung gezogen werden. Fernerhin ist
auch die Zuganglichkeit des betreffenden Objektes, d. h. die MSglichkeit, dasselbe zu jeder Zeit und in beliebiger Menge zu
erhalten in Betracht zu ziehen. In Berticksichtigung dieser Forderungen stellen die Fische ein sehr geeignetes Untersuchungsobjekt vor.
Fiir meine Untersuchungen benutzte ich sowohl G a n o i d e n (Acipenser
ruthenus) als auch verschiedene Knochenfische wie L u c i o p e r c a
sandra,
Perca fluviatilis,
Acerina
cernua, Coregonus, Silurus glanis,
L o t a v u l g a r i s und andere.
Zum Studium des feineren Baues des Nervensystems eignet sich das
Gehirn 'und Riickenmark weniger als die peripheren Nerven, da erstere zahlreiehe Gliaelemente enthalten und sich schwer fixieren lassen. Ich stelltc
daher haupts~,chlich an Kopf-, Spinal: und teilweise sympathischen Ganglien
und an den yon ihnen abgehenden Nervenst~mlmehen meine Untersuchungen
an. Die Elemente des Gehirns und Rtiekenmarks sind jedoch zur Kontrolle
benutzt worden.
Als ein besonders dankbares Objekt erwies sich fiir reich Lota vulgaris.
Bereits G o r o n o w i t s c h (18) hat darauf hingewiesen, dass die betri~chtliche
Breite der Kopfhiihle, sowie die verh~ltnism~ssig weiche Konsistenz vieler
Sehiidelknochen yon Lota eine morphologisehe Untersuchung seines Nervensystems begiinstigt. ~ieinerseits kann ieh noeh hinzufiigen, dass Lota ein
ausgezeichnetes histologisches Material darstellt. Die Nervenelemente yon
Lota sind der 5[ethylenblauf~rbung leicht zugiinglich. Die Ganglien yon
Lota enthalten neben kleinen Elementen und solehen mittlerer Griisse an
bestimmten Stellen ungeheuer grosse Zellen und Fasern, welche beinahe mit
unbewaffnetem Auge zu erkennen und fiir eine histologische Untersuchung
sehr geeignet sind. Der Reichtum an loekerem, yon der Fixierungsfliissigkeit
leieht durchdringbarem interzelluliirem Bindegewebe begiinstigt den Erfolg
der Fixierung tier Nervenzellen und -fasern; die betri~chtliche GrSsse einiger
Gang'lien, z. B. im Verlauf des Vagus, ermSglichen es, dutch dieselben Schnitte
in ttollundermark aus freier Hand anzulegen, was ftir das Gelingen der
~ethylenblaufarbung yon grosser Bedeutung ist.
Obgleich in vergleichend-anatomischer Hinsicht die Kopfnerven der Fische infolge einer Reihe yon tiefeiagreifendeH
sekundgtren Veranderungen in betrachtlichem Mal~e ihren primitiven
Charakter eingebfisst haben und nur mit einiger Schwierigkeit
einen morphologischen Vergleich mit den Spinalganglien zulassen,
benutzte ich dennoch in gleichem Marie sowohl diese als jene,
Ftir meine vorwiegend histologischen Ziele hat die Herkunft einer
Faser oder Zelle sowie die vergleichend-anatomische Stellung
eines Ganglions keine besondere Bedeutung.
Nervenelemente bei Ganoiden und Knochenflschen.
II. Untersuchungsmethoden.
Von den Fixierungsmitteln benutzte ich haupts~chlich das Chromessig:s~uregemisch, die Mischungen yon L e n h o s s ~ k ,
Flemming,
Zenker
und H e r m a n n , sowie verschiedene Spezialverfahren wie mit Trictllormilchs~ure, mit der Fliissigkeit yon C a r n o y - G i l s o n ,
die Silberbehandlung
nach R. C a j a l usw.
Die Pr~,parate wurden entweder in Paraffin rasch (durch BcrgamotSl)
oder h~iufiger in Celloidin-Paraffin oder in reinem CeIloidin eingebettet.
Von den F~rbungsverfahren ,babe ich am hiiufigsten die Doppelfi~rbung
mit Safranin und Lichtgriin, das H:,tmatoxylinverfahren nach H e i d e n h a i n,
die Fi~rbung mit Tolluidinblau-Erythrosin, die W e i g e r t sche Elastinf~trbung
und viele andere angewandt.
Ausserdem kontrollierte ich meine Beobachtungen an fixiertem Material
durch Studien der Elemente nach i n t r a v i t a l e r Fiirbung mit 5iethylenblau,
wobei ich entwedcr die Ganglien und Nervenst~mmchen in toto f~rbte oder
a u s freier Hand in Hollundermark eingelegte Stiicke in Schnitte zerlegte
and die letzteren fiirbte.
III. Die Nervenzellen der Kopfo, Spinal- und
sympathischen Ganglien.
Die Nervenzellen in den Kopf- oder Spiualganglien der
Fische unterscheidell sich ihrer GrOsse als auch haupts~tchlich
dem Charakter ihrer Fortsatze nach.
Die :,iltercn Autoren wie Ch. R o b i n , B i d d c r . W a g n e r , S t a n n i u s (60),
S t i e d a (61) und anderc hielten den B a u d e r Spinalganglien bci Fischen fiir
ungemein einfach und beschrieben in denselben nut bipolare Zcllen. Auch
R a n v i e r (51) weist ill seincm Lehrbuch der Histologie darauf hin, dass die
Zellen der Spinalganglien yon Fischen einen scharf ausgepr:,tgten bipolaren
Typus aufweisen und empfiehlt insbesonderc die Spinalganglien des Rochens
als das geeigneteste 0 b j e k t zum Studium des Verhaltens der Nervenfasern zur
8ubstanz der Ganglienzellen. Im Jahre 1886 unterscheidet G u s t. F r i t s c h (15)
bereits zwei Arten y o n Elementen in den Spinal- und Kopfganglien yon
Lophius : erstens oppositipolare Ganglienzellen, welche keine typischen Gebilde
der Spinalganglien, sondern, wie )[ a x S c h u l t z e darauf besteht, nur lokale
zellige Erweiterungen des Achsenzylinders darstellen ; zweitens pseudounipolare
oder regentipolare Zellen, mit vielen Forts:,itzen, yon denen einer jedoch in
betr~chtlichem 5IaSe dominiert; diese pseudounipolaren Zellen stellen durchaus nicht eine Besonderheit yon Lophius dar, sondern kommen auch anderen
Fischen zu.
Im Jahre 1893 weist v a n G e h u c h t e n
(17) fibrigens wieder d a r a u f
hin, dass bei der Mehrzahl der Fische die :Nervenzellen der Spinalganglien
bipolar sind und dass somit die Fische im Verlauf des ganzen Lebens die Zellform behalten, welche bei den htiheren Wirbeltieren nur eine ~-bergangsform
darstellt und nur einem bestimmten Entwicklungsstadium zukommt. I m
1"
4
Anton Nemiloff:
Gegenteil zu v a n G e h u c h t e n fiberzeugte sich B e l a H a l l e r (19) 1898
beim Studium des vagalen Spinalganglions bei verschiedenen Knochenfischen
yon der hSheren histologischen Differenzierung dieses Ganglions. So werde~
z.B. bei Barbus ausser den gewShnlichen bipolaren Zellen auch grSssere
Elemente angetroffen, welche nicht nur zwei grosse Achsenzylinderforts~tze,
sondern auch mehrere kleine sich im Ganglion verzweigende aufweisen. IrJ
demselben 5ahre konstatiert E rail Ho 1m g re n (20) beim Studium vermittelst
der l~ethylenblaumethode der Spinalganglien yon Selachiern und Teleostiern bei
Gadus yon den letzteren und bei Raja und Acanthias yon den ersteren ,,schSne
Ubergangsformen zwischen pseudounipolaren und oppositipol bipolaren Spinalganglienzellen". S z a w i n s k a (163) beschreibt wiederum in seiner Arbeit
fiber den Bau der l~ervenzellen yon Selachiern s~mtliche Zellen der SpinaIganglien als bipolare, wobei beide Forts~tze entweder yon entgegengesetzten
Zellpolen oder mehr oder weniger einander gen~hert abgehen kSnnen. Im
Jahre 1899 differenzierte H o 1m g r e n (21) vermittelst einer einfachen Farbung
mit Eisenh~matoxylin in den Spinalganglien yon Lophius multipolare Zellen~
hatte jedoch nicht die MSglichkeit, ihre Forts~tze zu verfolgen.
Eine ausffihrlichere Beschreibung der Spinalganglienelemente bei Fischen
gibt L e v i (34). Nach seinen Untersuchungen werden in den cerebrospinalen
Ganglien yon 0rthagoriscus mola Zellen verschiedener GrSsse angetroffen.
Die grSsseren derselben enthalten einen Kern yon elipsoider Form, einer~
dicken Aehsenzylinderfortsatz und ausserdem zahlreiche Forts~tze in Gestalt
yon Strangen und Balken, welche im peripheren Teil der Zelle ein Netz
bilden. Die grossen Zellen sowie diejenigen mittlerer GrSsse sind bipolar,
aber mit zahlreiehen lmrzen Fortsatzen besetzt, welehe alsbald nach dem
Austritt aus der Kapsel endigen. Fast samtliche kleine Zellen besitzen desgleichen zahlreiche aecessorische Forts~tze, w~hrend yon ihren Aebsenzylinder~
eine betr~chtliehe Anzahl von Kollateralen entspringt. Viele Zellen sin~
yon einem Geflecht dfinner markhaltiger, augenscheinlich sympathischer Fasern
umgeben.
N a c h meinen, h a u p t s a c h l i c h v e r m i t t e l s t des M e t h y l e n b ] a u v e r f a h r e n s I) ausgef~ihrten U n t e r s u c h u n g e n h a b e n sowohl die K o p f a l s auch die c e r e b r o s p i n a l e n G a n g l i e n einen r e c h t k o m p l i z i e r t e n Bau.
D e r v o r w i e g e n d e Z e l l t y p u s i s t in d e r T a t die b i p o 1 a r e
Z e l l e (Taf. I, Fig. 1) m i t zwei yon e n t g e g e n g e s e t z t e n Z e l l p o l e ~
abgehenden Achenzylinderfortsatzen.
Die GrSsse d i e s e r Z e l l e ~
1) Ich fertigte Schnitte durch die Kopfganglien (Trigeminus-Facialiskomplex, Vagusgruppe) und die gr6sseren Spinalganglien in Hollundermark
aus freier Hand vermittelst eines Rasiermessers an, und f~rbte darauf die
Schnitte auf deIn 0bjekttrgger in einer ~/~2proz. bis ~]~+proz. LSsung yon
Methylenblau in physiologischer Kochsalzl~sung im Verlauf yon 2--3 Stunden.
Bisweilen habe ieh aueh die Ganglien in toto gef~rbt, indem ich dieselben
yon oben vermittelst einiger Tropfen l~ethylenblau anfeuchtete, wobei ieh
mit einer st~rkeren Lfisung (t/s proz.) begann und darauf auf sehw~chere
(t/l~ proz. his U~6proz.) fiberging.
Nervenelemente bei Gano'iden und Knochenfischen.
~ariiert, wobei sie jedoch niemals Riesendurchmesser erreichen.
Ein Zellfortsatz erstreckt sich zentralwarts, tier andere peripherwarts. Sowohl der zentrale als auch der periphere Fortsatz
verlaufen das eine Mal unverzweigt, h~tufig sogar ohne Windungen
9eine weite Strecke, das andere Mal gewShnlich T-f0rmig verzweigt.
Beide Fortsi~tze sind meist markhaltig, wobei die Markscheide
bald in einiger Enffernung yon dem Zellk(~rper beginnt, bald die
unmittelbare Fortsetzung der Markhtille der Zelle selber (conf.
welter unten) darstellt.
Ausser den bipolaren Elementen werden in dell yon mir
untersuchten Ganglien best~ndig typische u n i p o l a r e Z el 1e n
(Tar. I, Fig. 2)angetroffen, welche vollkommen den Zellen in
den Spinalganglien der hSheren Wirbeltiere gleichen. Sie stellen
rundliche, ovale oder keulenf(~rmige Gebilde mit bisweilen aus~gebogenen unregelmassigen Rt~ndern und einem grossen runden
Kern dar. Von dem verjtingten Zellende entspringt ein Fortsatz.
welcher keinen Knauel bildet, sondern gew0hnlich mehr oder
weniger gradlinig verlttuft und yon einer recht dicken Markscheide
umgeben ist. Dieser Fortsatz erstreckt sich in einigen ]?~llen
weithin unter Abgabe yon marklosen ~(stchen an den Ranvierschen $chntirringen, in anderen Fallen teilt er sich T-f0rmig in
einer verhMtnismassig nahen Entfernung yon der Zelle.
Die bipolaren und unipolaren Zellen stellen die Hauptmasse
tier Zellelemente in den yon mir untersuchten Ganglien dar.
Ausserdem habe ich jedoch auch hauptsLtchlich im Verlauf der
Gef~tsse in dem dieselben umgebenden Bindegewebe m u l t i p o l a r e
I q e r v e n z e l l e n mit zahlreichen Dendriten (Taf. I, Figg. 3, 4, 5)
gefunden. Diese Zellen weisen gewShnlich eine unregelmassige
~ieleckige, bisweilen stark ausgebogene und verzweigte Form auf.
Ausser einem langen und dtinnen Achsenzylinderfortsatz, welcher
bisweilen auf eine weite Strecke hin in dem die Gefasse der
Ganglien umgebenden Bindegewebe verfolgt werden kann, ent~pringen yon der Zelle noch zahlreiche Dendriten. Diese sind
in einigen Fallen an einer Zelle in grosser Zaht vorhanden,
"~erzweigen sich alsbald, zerfallen in eine grosse Anzahl yon :~sten
mit varikSsen Verdickungen und endigen nicht weit yon der Zelle.
In anderen Fallen ist die Zahl der Dendriten viel geringer, diese
.selber sind bedeutend dtinner, beginnen sich erst in betrachtlicher
~Entfernung yon tier Zelle zu verzweigen, wobei sie niemals eine
6
Anton Nemiloff:
so grosse Anzahl yon Verzweigungen bilden, wie bei Zellen des
anderen Typus. Die Anordnung beiderlei Zellen im Verlauf der
Gefasse sowie ihr allgemeiner Habitus veranlassen mich, sie ftir
sympathische Elemente zu halten. Die Zellen mit kurzen Dendriteg
geh0ren offenbar dem ersten, die ZeIlen mit langen Dendriten
dem zweiten Typus sympathischer Zelten an, wie sie yon
A. S. D o g i e l (8--11) ftir die hSheren Wirbeltiere und fill' die
niedrigen yon S a k u s s e w (55) und mir (43) festgestellt sind.
In den Ganglien des N. vagus wird konstant noch ein Typus
yon Zellen angetroffen, welche sich durch ihre GrSsse und meistenteils eigenartige Kernform (Tar. II, Figg. 26, 27, 28)~ siehe weiter
unten, auszeichnen. Diese Zellen, welche ihrer Gr0sse nach mit Recht
als R i e s e n z e I l e n bezeichnet werden mtissen, sind hauptsachlich
am unteren Ganglionende konzentriert, wobei sie gew0hnlich
einzeln liegen und nut selten in Gruppen yon 3--5. tm oberea
Teil des Ganglions werden sie selten angetroffen; in dem Abschnitt
des Vagus zwischen (}ehirn und der Ganglienanschwellung ist es
mir hie gelungen, sie aufzufinden. In den zahlreichen yon dem
Ganglion n. vagi entspringenden und hauptsachlich latero-ventraL
verlaufenden Sfftmmchen sind die erwlthnten Zellen sehr zahlreich
zwischen den Fasern vorhanden. Sie sind meist in Langsreihen:
zwischen den Faserbiindeln angeordnet und stellen den einzigen
hier vorkommenden Zelltypus dar. Es scheint, als senken sich
diese Zellen aus dem Ganglion langs der Nervenstammchen herab.
Besonders zahlreich sind sie in dem st~trksten Hauptst~.mmchen,
welches aus dem Ganglion n. vagi entspringt.
Bisweilen geht
hier die seriale Langswanderung der Zellen plStzlich in eine
gew0hnliche hnhaufung derselben tiber, wobei bei grossen Fischen
diese Anhliufungen dermassen betrachtlich sind, dass die Stammchen
an diesen Stellen gleichsam eine gangli0se Anschwellung oder
Verbreiterung, welche sogar mit dem unbewaffneten Auge zu
erkennen ist, bilden. Ich habe diese Zellen bei verschiedenen Vertretern der Knochenfische beobachtet; ein besonders gtinstiges
Objekt stellt jedoch Lota dar; sie erreichen hier besonders grosse
Dimensionen und sind der Methylenblaufarbung Ieicht zuganglich.
Offenbar hat auch L e v i (34) diese Zellen bei Orthagoriscus mola
gesehen, sie entsprechen wahrscheinlich auch den grossen Elementea
im Rtickenmark yon Knochenfischen, welche vielfach beschrieben
worden sind, so z. B. yon S a r g e n t (56) bei Ctenolabrus coeruleus,
Nervenelemente bei G~no'iden und Knochenfischen.
yon K o l s t e r (32) bei Perca fluviatilis, voa D a h l g r e n (5) bei
verschiedenen Pleuronectiden, yon F r i t s c h (14, 15) bei Lophius
piscatorius, yon T a gl i a n i (64-- 67) bei Orthagoriscus und Solea
impar usw. Es ist bemerkenswert, dass auch im Rtickenmark
der Fische diese Riesenzellen nach den Beschreibungen der
Forscher (conf. die Zeichnung yon S a r g e n t auf pag. 215 d. XV. Bd.
yore .,Anatom. Anzeig.") in seriaIe Laagsreihen angeordnet sind.
Die R i e s e n z e l l e n (Tar. I, Figg. 6, 7, S, 9) im Ganglion
n. vagi sind gewShnlich multipolar. Selten sind dieselben rundlich
in der Regel l~nglich-eif6rmig oder unregelmassig v!eleckig mit
abgerundeten Ecken. Der Nervenfortsatz entspringt yon tier Zelle
mit einem charakteristischen Kegel, ist recht dick, infolgedessen
diese Fasern sehr augenfMlig sind. Nicht welt yon der Zelle
biegt gewShnlich dieser Fortsatz.wmklig yon seiner urspr~ingliche~l
l[ichtung ab und erh~flt eine Markscheide. .Nach einem kfirzeren
oder l~mgeren Yerlauf biegt er entweder abermals um und erstreckt
.~ich im St~tmmchen riickwhrts oder er teilt sich (h~iufig mehrfach)
aa den Ranvierschen Schnfirringea, wobei die Teil~tste im
$tSmmchel~ nach verschiedeaen Richtungen veriaufea tutti schl~esslich bisweilen in einer betrhchtlichen Entfernung yon der Zelle
dem Beobachter sich entziehen.
Mitunter nimmt der Nervenfortsatz seinen Aafang nicht vot~
der Zelle selber, sondern vo,~ einem recht dicken Auswuchs derselbeJl, yon ~velchem auch einige kurze, dicke, in Ptsttchen in
nachster Nahe der Zelle endigende Fortsatze entspringen.
Die Dendriten entspringen entweder voa dem verlgngerten
und in die Lange gezogenem Abschnitt der Riesenzelle, welcher
in de~ Nervenfortsatz fibergeht oder allseitig yon der Zelle. Im
ersten Fall erscheinen die Dendriten in Gestalt einiger recht
dicker, sich yon dem verengten Tell der Zelle absondernder
Forts~itze, welche mit zugespitzten Seitenhstchen versehen sind.
Sowohl die Forts,~tze selber als auch deren -~ste verfeinern sich
allmahlich und endigen entweder zugespitzt oder in Plattchen
unweit der Zelle selber. Wenn die Dendriten allseitig yon der
Zelle abgehen, erscheinen sie gewShnlich in Gestalt kurzer feiner,
mit EndpF,tttchen versehener Fadchen, welche einzeln oder in
Bitndeln yon der Zelle entspringen. Bisweilen jedoch stellen die
l)eudriten dicke, stark verzweigte oder aber charakteristische,
keulenfOrmige Forts~ttze dar.
8
Anton
Nemiloff:
Sowohl dem Charakter ihrer Dendriten als auch dem
ferneren Schicksal ihres Nervenfortsatzes nach erscheinen diese
Zellen recht mannigfaltig. Bei einem eingehenderen Studium
k(innten dieselbea wahrscheinlich in mehrere charakteristische
Typen, wie die spinalen und sympathischen Ganglien der hSheren
Wirbeltiere, eingeteilt werden.
Fig 1.
P e r i z e l l u l ~ t r e s G e f l e c h t um eine Riesenzelle. Die Zelle
selber ist ungefi~rbt geblieben und daher unsichtbar, sp
perizelluli~res Geflecht; mn ~ eine an alas Geflecht herantretende
feine Faser. Ganglion n. vagi. Lota vulgaris. 5Iethylenblau.
R e i c h e r t s Obj. 7a. Kamera lucida.
Eine jede Riesenzelle i s t yon einem ausserst dichten
perizellul~tren
Geflecht
aus feinen, varikSsen F~dchen
umgeben, so dass sie wie in einem Gespinst zu liegen scheint
(Taf. I, Fig. 9). An jede Zelle treten gewShnlich (conf. Textfig. 1
und Taf. I, Figg. 9, 10) zwei oder mehrere feine markhaltige
Fasern heran, wobei dieselben ihre Markscheide verlieren.
Nervenelemente bei Gano'/den und Knochenfischen.
Bisweilen teilt sich eine markhaltige Faser zun~tchst an
einem R a n v i e r schen Schntirringe, worauf ein Teilast zu einer;
der zweite zu einer anderen benachbarten Zelle verl~tuft; beide
endigen in je einem perizellularen Gefiecht.
Nach Verlust der Markscheide beschreibt die Faser einige
Windungen um die Zelle, windet sich gleichsam um dieselbe auf
ahne sich zu verzweigen unter Beibehaltung ihrer Individualit~t.
Alsdann beginnt sie jedach sich vielfach zu teilen und zerf',tllt
in ein ausserst dichtes Netz feiner varik0ser Fasern, welche sich
in den verschiedensten Richtungen fiberkreuzen. Das ganze dichte
filzartige Geflecht ist iimerhalb der Schichten der um die Zelle
angeordneten Bindegewebshfille gelegen. Van dieser Anardnung
kann man sich leicht i~berzeugen, sobald man das Getlecht im
optischen Durchschnitt betrachtet. Die F•serchen des pericellul~iren
Geflechtes dringen nicht in das Protaplasma der Zelle ein. Die
feinen, fadenf0rmigen Dendriten der Riesenzellen, welche neben
tier Zelle selber endigen, dri~gen in dieses Gettecht ein, wabei
ihre Verzweigungen sich mit den Fasern desselben verflechten
(Taf. I, Fig. 9). Das Geflecht ist dermassen dicht, dass es
unmSglich ist zu entscheiden, ab hier blass ein Kontakt oder
eine echte Verschmelzung stattfindet.
Die Herkunft der markhaltigen, das perizellul/'tre Geflecht
bildenderi Fasern habe ich nicht feststellen kSnnen. Ich habe
diese Fasern auf weite Strecken verfolgen k0nnen, schliesslich
jedach entziehen sie sich der Beobachtung, so dass es mir nicht
gelungen ist, festzustellen, ab sie van Zellen desselben Ganglions
herstammen oder van ausw~trts eindringen.
In der Bindegewebshfille einiger Riesenzellen wird bisweilen
zwischen den Fasern des perizellularen Geflechtes, wie es z. B. auf
Tar. I die Fig. 9 illustriert, eine kleine Zelle angetroffen, welche
sich recht intensiv in Methylenblau farbt. Ihren Dimensionen,
dem Charakter ihres Kernes und Protaplasma nach erinnert dieselbe eher an eine Nervenzelle, welche die Riesenzelle begleitet,
als an einen Leukazyten. Die Anwesenheit einer derartigen
kleinen Zelle neben einer Riesenzelle, welche, wie welter unten
berichtet werden soll, haufig degenerative Prozesse offenbart, erscheint auffallend und l~sst der van B t i h l e r (4) und anderen
Farschern ausgesprochenen Betrachtungen tlber den Ersatz untergegangener Elemente im Nervensystem durch neuauswachsende
10
Anton
Nemiloff:
gedenken. Leider ist es mir nicht gelungen, die Natur und Bedeutung dieses ratselhaften Gebildes naher zu bestimmen; ar~
ihm habe ich weder Fortsatze noch eine deutliche KSrnelung im
Protoplasma wahrnehmen kOnnen. Ich kann nur die Vermutung
aussprechen, dass es mSglicherweise Neuroblasten sind, welche in
einer gewissen Anzahl ftir das ganze Leben im interstitiellen
Gewebe des Ganglions nachbleiben und nachher die absterbendel~
Elemente ersetzen.
Von den Zellen der Kopf- und Spinalganglien unterscheidez~
sich scharf die Elemente der zentralen Sympathikuskette (Taft I,
Fig. l 1), welche bei Fischen nur in dem vorderen KSrperabschnitt
deutlich abgesondert ist. Die ZeUen sind hier kleiner, wobei
multipolare Elemente vorwiegen. Zwischen den letzteren kSnnen
Zellen mit kurzen, verdickten und stark verzweigten Dendriten
als auch solche mit allseitig verlaufenden, langen und kurzen,
mit charakteristischen rosenkranziOrmigen Verdickungen besetzten
Fortsatzen unterschieden werden.
Die Zellen sind nicht nur in dem Ganglion selber angeordnet,
sondern dringen auch teilweise in die Rami communicantes ein.
Auch die yon den sympathischen Ganglien abgehenden Stammchen
enthalten auf betrachtlichen Strecken eine grosse Anzahl vo~
Zellelementen.
IV. D e r B a u der H i i l l e n der N e r v e n z e l l e n .
Die Nervenzellen der Kopf- als auch der Spinalganglien vo~
Fischen sind von einer in den verschiedenen Fallen verschiedenartigen Zellhtille umgeben. Die Literaturangaben fiber den Bau
der Htille der Nervenzellen bei Fischen sind recht widersprechend
und ungenau.
Die ~Iteren Autoren beachten entweder diese Frage nicht oder behandeh~
sie nur voriibergehend. L e y d i g (1851), M a x S c h u l t z e (1859), K e y und
R e t z i u s , R a n v i e r und andere beobachteten an tier Peripherie der Ganglienzellen yon Fischen eine markhaltige Schicht. Von den neueren Autoren
beschreibt H o l m g r e n (20) in einer kleinen Bemerkung iiber die Spinalganglierr
bei Selachiern und Knochenfischen desgleichen ein ,markgleichendes Stratum",
welches ibm durch Osmiums~ure zu differenzieren gelungen war. An den
Zellpolen war diese Htille deutlich unterbrochen. Obgleich die 0smiumsiiure
die verschiedensten Substanzen fi~rbt, erschien es H o l m g r e n dennoch hSchst
wahrscheinlich, dass es sich hier um eine tier Markscheide der Nerven verwandte Substanz handele. H o l m g r en richter ausserdem die Aufmerksamkeit
Nervenelemente
9
bei Ganoiden und Knochenfischen.
auf die Anwesenheit yon Kernen in den Zellelementen des Neurilemms, welches
die Ganglienzelle umgibt. In einer spi~teren Arbeit aus dem Jahre 1899
berichtet Holmgren (21), dass die Zelleu der Spinalganglien yon Lophius
piscatorius von einer Bindegewebskapsel umgeben sind, welche unmittelbar
in die endoneurale Scheide des Achsenzylinders tibergeht und im Zusammenhange mit dem interstitiellen Gewebe des Ganglions steht. Diese Kapsel
hat augenscheinlich einen lamell~ren Bau and enth[flt einze]ne, verhMtnism~ssig kleine, ovale oder gestreckte Kerne. Zwischen dieser Kapsel und
der Ganglienzelle ist eine Schicht grosskerniger endothelialer Zellen eingeschoben. Nach den Beobachtungen yon Hohngren geht diese diinne, nur
aus einer Schicht endothelialer Zellen bestehende Membran in die S ch w an nsche Scheide des Achscnzylinderfortsatzes iiber.
Soviel ich auf Gruud meiner vermittelst verschiedener
Fixierungs- und Fitrbungsverfahrea angesteUten Beobachtungen
beurteilen kann, sind bei Fischen mindestens drei Typen yon
Htillen tier Nervenzellen vorhanden~ welche sehr den H(illen derNervenfasern gleichen.
Im einfachsten Falle (z. B. die Riesenzellen der Ganglie~
n. vagi) besteht die Htille (conf. Textfig. 4, fk) aus mehreren,
konzentrisch um die Zelle angeordneten Bindegewebsschichten.
Die Differenzierung des Bindegewebes ist in diesem Falle eiz~e
einfache Orientierung seiner Elemente und zwar der Fibrillenbiindel der Zelle gegentiber. Das Bindegewebe selber der Htille
ist eine blosse Fortsetzung des tibrigen interstitiellen Gewebes
des Ganglions. Es 1;~sst sich hier weder eine einigermasseu
deutliche Grenzschicht des Bindegewebes noch eine dichtere Htille
oder Schicht erkennen. Auf dem Achsenzylinderfortsatz wird die
ftir die Faserhtille charakteristische konzentrische Anordnung allm~thlich undeutlich und schwindet schliesslich vollkommen. Die
Zellhfille verschmilzt mit dem interstitiellen Gewebe~ welches den
Nervenfortsatz umgibt und yon einigen Autoren als H e n l e s c h e
Scheide unterschieden wird. Ich muss jedoch vermerken, class
bei Fischen kaum yon einer besonderen H e n l e schen Scheide die
Rede sein kann. Das den Nervenfortsatz umgebende interstitielle
Gewebe ist, soviel ich habe wahrnehmen k6nnen, niemals in
besonderer Weise orientiert. Desgleichen babe ich nach keinerlei
Darstellungs- und Farbungsverfahren eine unmittelbar der Faser
anliegende Schicht wahrnehmen k0nnen. Niemals geht diese einfachste Art yon Htille in das Neurilemm der Nervenfaser fiber;
dieses beginnt in derartigen F~tllen auf dem NerYenfortsatz un-
12
Anton Nemiloff:
welt yon dem ZellkSrper und steht in keinem anatomischen
Zusammenhang mit dem umgebenden Bindegewebe.
Am deutlichsten tritt die erwahnte Htille an Praparaten
hervor, welche im Chromessigsauregemisch fixiert und mit Safranin
und Lichtgrtin oder mit Hamatoxylin nach H e i d e n h ain gefarbt
sind. Bei einer einfachen Farbung mit B(ihmerschem Hamatoxylin und Pikrofuchsin wird desgleichen eine recht elektive
Farbung dieser Htille erhalten. Bisweilen tritt auch an Methylenblaupraparaten sehr deutlich die konzentrische Schichtung tier
Fibrillenbtindel des interstitiellen.Gewebes um die h'ervenzelleH
hervor.
In komplizierteren Fallen (Taf. II, Fig. 12) schiebt sich
zwischen die Faserschicht und die iNervenzelle eine dtinne, homogene Membran mit eiaer Schicht platter, sternf0rmiger gellen anf
der dem Cytoplasma der Zelle zugekehrten Seite ein. Eine derartige
H~ille besitzt die Mehrzahl der Zellen der Kopf- und Spinalganglien. In diesen Fallen ist die konzentrische Schichtung des
interstitiellen Gewebes um die Zelle weniger deutlich, ja kann
sogar dermassen verwischt sein, dass sie nur an der Anordnung
der Zellkerne erraten wird. Nach innen yon dieser Htille ist eine
strukturlose, diinne Membran vorhanden, deren Innenflache (d. h.
der dem Zellk6rper zugewandten Flache) eine Schicht flacher
Zellen anliegt, welche vou einigen Forschern, so yon H o l m g r e n ,
als Endothelzellen beschrieben werden. Diese letzteren erscheinen
als flache, sternfSrmige Elemente mit fasrigem Protoplasma, einem
grossen, o~r
Kern und dtinnen, zarten Fortsatzen. Letztere
verasteln sich stark, anastomosieren miteinander und verschmelzen
zu einem zarten Netz, welches der Innenflache der oben beschriebenen homogenen Membran anliegt, mit dieser jedoch niemals
anatomisch zusammenhangt.
Ftir die Differenzierung der erwahnten Membran als auch
des ihr anliegenden Zellnetzes eignet sich am meisten das Methylenblau (schwache L6sungen yon 1/4--1/a~ in 0,75~ Chlornatriuml(isung), mit Hiife dessert eine elektive Farbung dieser Gebilde
erzielt werden kann. In einigen Fallen bleibt hierbei sowohl die
Zelle als auch die homogene Membran ungefarbt, wobei auf dem
hellen Untergrunde prachtvoll das zarte blaue, yon den Fortsatzen
der sternfOrmigen Zellen gebildete ~Netz hervortritt. In anderen
Fallen nimmt wiederum die erwahnte Membran eine intensive
Nervenelemente bei Gano'iden und Knochenfischen.
13
blaue Farbe an, wobei sie dermassen deutlich hervortritt, dass
jeder Zweifel ausgeschlossen ist. Sie liegt der Zelle nicht dicht
an~ sondern umgibt dieselbe bloss, ohne deren Kontur genau zu
folgen, wobei sie stellenweise feine Falten bildet.
Recht deutlich erscheint diese Htille auch an fixiertea
Pr~tp~raten (z. B. nach einer Fixierung in Chromessigs;mregemisch
und einer F,trbung mit Ht~matoxylin nach H e i d e n h a i n oder
nach Fixierung in dem H e r m a n n s c h e n Gemisch und einer
Fitrbung mit Holzessig).
Um die morphologische Bedeutung dieser Gebilde beurteile~
zu kSnnen, mfissen ihre Beziehungen zu den entsprechenden
Schichten des Nervenfortsatzes berficksichtigt werden. Zu diesem
Zweck sind wiederum Methylenblauprhparate und zwar Prhparate
in toto die geeignetsten: auf ihnen ist gleichzeitig die Zelle
selber, sowie deren Fortstttze httufig auf weite Strecken hin sichtbar, so dass man sich fiber die Beziehungen deren Elemente
zueinander orientieren und die auf Schnitten durch fixierte
Prt~parate erhaltenen Befunde ergt~nzen kann. Es l;tsst sich deutlich
feststellen, dass die erw;thnte Membran unmittelbar, ohne Unterbrechung in das Neurilemm des ~Nervenfortsatzes fibergeht und
sich yon diesem durchaus nicht unterscheidet. Das der Innenfl~tche der homogenen Membran anliegende Zellennetz geht desgleichen ohne Unterbrechung und unverttndert unmittelbar in
ein gleiches iNetz auf der Innenflache des Neurilemms des
Nervenfortsatzes tlber2) Bisweilen ist auch ein unmittelbarer
Zusammenhang der Fortsittze einer sternfSrmigen Zelle des
Nervenfortsatzes mit den Verzweigungen einer entsprechenden
Zelle, die der Hfille der Nervenzelle angeh~rt, zu erkennen.
Die Zusammensetzung der H(ille wird ferner noch komplizierter
durch das Auftreten einer markhaltigen oder Myelinschicht (z. B.
an vielen Zellen des Trigeminus-facialis Ganglienkomplexes). In
diesen F~llen sind sowohl die Faserhfille als auch die strukturlose Membran die gleichen wie in dem vorhergehenden. Die der
~) Dieses l~etz ist yon Zellen gebildet, deren Kerne die altbekannten
,,Kerne tier Schwannschen Scheide" darstellen. Die Zellen liegen der
S c h w a n n schen Scheide nut an, ohne sich mit ihr zu verbinden. Genaueres
fiber den Bau tier Schwannschen Scheide wie fiberhaupt der H~illen der
Nervenfasern werde ich in dem zweiten, bereits druckfertigen Teil meiner
Arbeit berichten.
14
Anton N e m i l o f f :
Innenflache der S c h w a n n schen Scheide anliegenden Zellen weisen
jedoch einen etwas abweichenden Charakter auf: ihre Fortsatze
sind dicker, das Protoplasma ist deutlicher fasrig und enthalt kleine
in Methylenblau stark fiirbbare K0rnchen oder Tr0pfchen. Das
yon den Zellfortsittzen gebildete Netz (conf. Tar. III, Fig. 13) ist
weniger zart als in den vorhergehenden Fallen; die Netzschlingen
sind mehr abgerundet, wobei das Netz selber nicht in einer Ebene
angeordnet ist, sondern die Markschicht in deren ganzer Dicke
durchsetzt. Die Zellen bilden somit mit ihren verastelten Fortsatzen eine schwammartige, mit Myelin angeffillte Protoplasmamasse und erinnern teilweise ihrem Bau nach an die unltingst
(44) yon mir beschriebenen Fettzeilen von Acipenser ruthenus;
in Berficksichtigung des Fehlens eines unmittelbaren Zusammenhanges mit der Neurilemmmembran k0nnen diese Zellen richtiger
als ,;Markscheidenzellen" bezeichnet werden. Weiterhin (ira zweiten
Tell der Arbeit) soll gezeigt werden, dass auch die Markscheide
der Nervenfasern, in welche die bier beschriebene Htille der
Ner~enzellen tibergeht~ einen gleichen Ban aufweist. Die Kontinuitiit
der Markschicht wird an der ~)bergangsstelle der Zelle in die
Nervenfaser durchaus nicht gest0rt. In einigen Fiillen ist eine
,Markscheidenzelle" gerade am P o l d e r Nervenzelle gelegen und
gehiirt somit zur H~llfte der Markhtille der Nervenzelle, zur
Halfte der Markscheide des Fortsatzes an. Bei dea yon mir
untersuchten:Fischen ist es mir nicht gelungen, an der (i'bergangsstelle der Nervenzelle in die Faser die ringf0rmigen Gebilde zu
-sehen, welche nach H o l m g r e n (20) an den Zellen yon Selachiern
(Raja) und Teleostiern (Gadus) und anderen sich intensiv mit
Metkylenblau farben. Desgleichen babe ich auch nicht die yon
H o l m g r e n beschriebene, distalwarts von dem erwahnten Ring
gelegene Verengerung des Achsenzylinders wahrgenommen. Ebenso
stimmen auch die yon mir nach der Behandlung der Nervenzelle
saint ihren Fortsatzen mit Osmiumsaure erhaltenen Bilder nicat
mit denjenigen tiberein, welche R a n v i e r (51) in seinem Lehrbuch
und H o l m g r e n (20) in der oben angeftihrten Arbeit gibt. Aui'
meinen Praparaten geht die Markschicht ununterbrochen in Gestalt
einer gleichmassigen Scheide auf die Fortsatze der Zelle tiber.
Nervenelemente bei Gano'/den und Knochenfischen.
15
V. Trophozyten. ')
Ich gehe nun zur Beschreibung derjenigen Zellelemente
tiber, welche stets in grOsserer oder geringerer Anzahl zwischen
der Nervenzelle und der dieselbe umgebenden Htille angetroffen
werden. Zwischen dem Cytoplasma der Nervenzelle und ihrer
Hfille ist kein praformierter Spaltraum vorhanden, wovon man sich
leicht an dem lebenden, in Methylenblau gefarbten Gewebe oder
an gut fixierten Prttparaten fiberzeugen kann und wie es auch
viele Forscher, z.B. H o l m g r e n und L e n h o s s ~ k (gegen S o l g e r ,
Tschassownikoff
und andere) annehmen. Soviel ich habe
wahrnehmen k6nnen, liegt das Cytoplasma stets der Hrille an.
wobei es mit seiner elastischen Masse die hier eingeschlossenen
Zellelemente an letztere anpresst. Eine AblSsung der Hrille
yon dem Cytoplasma ist sehr schwer zu vermeiden; in dieser
Beziehung hat mir auch das yon F u c h s (16) vorgeschlagene
H~trtungsverfahren nach der Fixierung und zwar mit Alkohol
yon 5 0/% dessen Konzentration allmahlich nicht mehr als um 5 ~
gesteigert werden soll, wenig genritzt. Bessere Resultate erzielte
icb nicht durch Ab~tnderung der Hartungsbedingungen, sondern
der Fixierungsbedingungen (z. B. Erw'~rmen des Chromessigsauregemisches, Einlegen yon sehr kleinen Stricken i n d i e Sublimat15sung, versuchsweise Bestimmung des Optimums der Fixierungsdauer usw.).
Zur Frage tiber die morphologische und physiologische
Bedeutung der unter der Htille eingeschlossenen Zellen, welche
verschieden bezeichnet werden, als ,,endokapsulare Zellen ~,
.~Begleitzellen'c, ,,Trophozyten ~c, ,interkapsulttre Zellen" usw., ist
bereits ~iel geschrieben worden. Um meine Arbeit nicht auszudehnen, will ich die grosse Literatur tiber diese Zellen hier
nicht anftthren, zumal dieselbe recht vollstandig in den Arbeiten
you H o l m g r e n (20--31)7 B e r g e n (2), S. R. C a j a l (49--50)
nnd anderen zusammengestellt isL Ich gehe ohne weiteres zur
Beschreibung meiner Befunde an den Nervenzellen yon Fischen fiber.
Ausser den bereits beschriebenen sternf0rmigen, dem Netlrilemm anliegenden Zellen sind bei Fischeu unterhalb tier Hrille
~) Indem ich ttberall in meiner Arbeit den Ausdruck ,,Trophozyten-gebrauche, habe ich durchaus nicht die Absicht, den betreffenden ZeIlelementen
irgend eine Rolle bei der Ern~thrung der Nervenzellen zuzuschreiben, sondern
benutze nut eine gangbare Bezeichnung derselben.
16
Anton ~Nemiloff:
zweierlei Artea yon Zellelementea vorhanden: 1. sternfSrmige~
welche die Trophospongien yon H o l m g r e n bilden uad 2. Leukozyten. Diese Zellen sind nicht schwer zu unterscheiden, zumaI
wean sich das Auge an das betreffende Objekt gewShnt hat und
morphologische Merkmale erkennt, welche beim ersten Anblick
nieht auffallen. Selbst in den F~llen, wenn das Eindringen dec
Fortsatze in das Cytoplasma nicht sichtbar ist, unterscheidet sich
ein Trophozyt dennoch durch den Charakter seines Protoplasmas
und dutch seinen Kern yon einem Leukozyten. Das Protoplasma
des letzteren ist mehr oder weniger k6rnig, wahrend das Protoplasma
des Trophozyten einen mehr oder weniger deutlichen fibrillaren
Bau erkeunea lasst. Der ovale Kern der Trophozyten erscheint
auf gut fixiertea Prltparaten gr~isser als der Kern der Leukozyten.
Besonders deutlich tritt dieser Unterschied ira Protoplasma und
Kern der erwlthnten Zellen an Ganglienpraparaten hervor, welche
entweder aach R a b I fixiert und mit Tolluidinblau-Erythrosin
gef'~rbt oder im Gemisch yon L e n h o s s ~ k
fixiert und mit
Hamatoxylin nach H ei d e n h a i n gefarbt worden sind.
Die Trophozyten (Taf. II, Fig. 14) der yon mir untersuchten
Fische stellen recht grosse, mit zahlreichen Fortstttzen versehene
Elemente dar, welche das Cytoplasma der Nervenzelle allseitig
umgeben. Die Fortsatze derselben sind recht breit, plattchenf6rmig, mit zugespitzten, eckigen Verbreiterungen, welche im
Cytoplasma der Nervenzelle sich verzweigen und, indem sie miteinander anastomosieren, in derselben zu einem dichten Netz
eckiger, plattchenf6rmiger Balken 1) verschmelzen. Das genannte
Netz durchzieht das ganze Cytoplasma und dringt bis zum Kern
vor, ohne jemals in denselben einzudringen.
Zwecks Darstellung der Trophospongien habe ich die MehrzahI der spezielI dafter yon H o 1 m g r e n u. a. vorgeschlagene~
Methoden (C a r a o y s Gemisch, Alkohol-Chloroform-Essigs~tur%
Pikrinsliure-Sublimat, Pikrinsalpetersaure, Fixierung in Trichloressigsaurel6sung undWeigertsResorcin-Fuchsinfarbgemisch u. a.)
versucht, die besten Resultate jedoch mit dem gewOhnlichen
(nicht prikrinsaurem Gemisch) yon L e n h o s s ~ k und einer
Fitrbung mit H~,tmatoxylin nach H e i d e n h a i a erzielt. Ist der
~) FOr die Trophospongien der Fische sind die pliittchenfSrmigen, mit
blattf(irmigen Verbreiterungen besetzten Balken charakteristisch.
17
Nervenelemente bei Ganoiden und Knochenfischen.
Schnitt nicht zu dtinn und gtmstig gefallen, so erhielt ich prachtvolle Bilder, auf welchen zweifellos deutlich das Eindringen der
Forts~ttze der Trophozyten in das Protoplasma der Nervenzelle
und die Bildung yon Trophospongien aus denselben sichtbar war.
Einige Forscher, so unl~ngst Dr. H u g o M e r t o n (42), haben die
Ansicht ausgesprochen, dass die Trophospongien in einigen Zellen
(z. B. in den unipolaren-Ganglienzellen des Zentralnervensystems
yon Tethys leporina) augenscheinlich selbst~ndige Gebilde in Gestalt
yon wichtigen Bestandteilen der Ganglienzelle darstellen, welche
sekundar mit Gliafasern, die in das Cytoplasma der Nervenzelle
eindringen, in Verbindung treten. Bei Fischen wenigstens kann
jedoch yon einer Selbst':mdigkeit der Trophospongien nicht die
Rede sein, da auf Serienschnitten durch Nervenzellen leicht der
unmittelbare Zusammenhang der Trophospongienbalken mit einem
Fortsatze eines Trophozyten festgestellt werden kann; in diesen
Fhllen gelingt es auch leicht, sich davon zu iiberzeugen, dass
samtliche in das Cytoplasma eindringenden Forts;ttze der Trophozyten an der Bildung der Trophospongien teilnehmen.
Bei derselben Behandlung der Praparate treten in demselben
Ganglion an einigen Zellen die Trophospongien ~usserst deutlich
hervor, an anderen sind sie kaum wahrnehmbar. In einem Fall
ist das Trophospongium in der Mehrzahl der Zellen eines Ganglions
zu erkennen, in einem anderen wiederum in keiner einzigen Zelle.
Die Anwesenheit yon Trophozyten unter der Hiille gelingt es
auch in diesem Falle festzustellen, ihre Fortsatze verschmelzen
jedoch gleichsam nach ihrem Eindringen in das Cytoplasma der
Nervenzelle mit diesem und werden unkenntlich.
H o I m g r e n hat, wie bekannt, interessante Veranderungen
an den Trophospongien bei verschiedenen Funktionszusti~nden
der Nervenzelle beschrieben. Unter gewissen Bedingungen erfolgt
eine Veranderung des Aggregatzustandes d e r Trophospongien,
wobei das kSrnige Protoplasma seiner Balken sich stellenweise
in Tropfen einer untingierbaren Substanz umwandelt. Bisweilen
kann dieser Prozess einer physikalisch-chemischen Umanderung
der Trophospongien soweit vorschreiten, dass einzetne TrSpfchen
zu hellen Kan~tlchen verschmelzen, welche in diesen Fallen das
Cytoplasma der Servenzelle drainieren. In einer Reihe yon
Arbeiten (20-- 31) beweist H o 1m g r e n das Vorhandensein eines
Zusammenhanges zwischen den erwahnten Veranderungen in den
A r c h l y f. m i k r o s k . & n a t .
Bd. 72.
2
18
Anton
:Nemiloff:
verschiedenen Abschnitten des Trophospongiums und dem Stoffwechselprozess in dem Cytoplasma der dasselbe einschliessenden
Zelle Es gelang ihm hierbei u. a. den Zusammenhang zwischen
der Kanalisation der Trophospongien in den Nervenzellen und
dem Anwachsen und Schwund der Tigroidsubstanz in denselbell
festzustellen.
Viele andere Forscher, welche sich mit dem Studium der
Trophospongien in verschiedenen Zellen, besonders in den Nervenzellen, beschaftigt haben, stimmten zum Tell der Ansicht H o l m g r e n s bei, zum Tell berichtigten sie und veranderten dieselbe.
So bestreitet T s c h a s s o w n i k o f f (68) nach dem Studium der ,,Saftkan'51chen" in den zentralen und peripheren Nervenzellen der Katze, des
Hundes, des Kaninchens, des Meerschweinchens. des Huhns und der Ente,
zum Teil mit Hilfe der gewShnlichen Fixierungsmethoden, zula Tell mit
Hilfe tier ,,SchwSrzungsmethodc" yon K o l o s s o f f einen Zusammenhang tier
Sat'tkaniilchen mit der Zellkapsel der Nervenzelle und nimmt an, dass die
Saftkaniilchen fiir die Entfermmg der Stoffwechselprodukte dienen. P e w s n e rINe u f e l d (46) untersuchte (lie Saftkaniilehen in den Nervenzellen des Rilckenmarks verschiedener S~iugetiere und gelangte zur ~'bcrzeugung, dass die
intrazellulSren KanSlchen keine eigene Wandung besitzen, in das Protoplasma
ebtgelassen sind und morphologisch demselben angehSren; ein kanMisiertes
Tv,~phospongium war jedoch in den von ibm untersuehten Zellen nieht vorhanden.
R o h d e (53) ist im allgemeinen mit der Lehre H o I m g r e n s yon den Trophospongien einverstanden, nimmt jedoch an, dass dieselben nicht sekundiir in
das Cytoplasma der Nervenzelle eindringen, wie e s H o l m g r e n
behauptet,
und stellt dieselben in innigen Zusammenhang mit der Entwicldung der
Gan~lienzelle und ihreln fibrill~iren Bau. Die Trophozyten scien nicht Zellen
des interstitiellcn Gewebes, sondern Neurogliaelemente. Infolge Anwesenheit
der Trophospongien kSnnen die NervenzeIlen gewissermassen mit den
Geschleehtszellen verglichen werden, da beide vermittelst Zellen ern~hrt
werden, mit denen sie in innigem genetiscben Zusammenhang steben.
In seiner verschiedenen intrazellul~ren Netzapparaten gewidmeten
Arbei~ weist B e r g e n (2, darauf hin, dass s:,imtliehe Versuehe, diese Zellen als
Trophospongien, Sat'tkanMchen. Centrophormien usw. zu deuten, den tats~tchlichen Befunden nicht vollkommen entsprechen; es wird hierbei dem
Umstande Rechnung getragen, dass diese Gebilde bei weitem nicht in allen
Zellen eines Typus angetroffen werden. - - D i e Entstehung dieser intrazellul~iren Apparate stellt sich B e r g e n folgendermassen vor, dass im Cytoplasma KSrnchcn oder TrSpfchen auftreten, welche sieh nebencinander in
Reihen anordnen und miteinander verschmelzen. Die Substanz dieser KSrnchen
besitzt die F~ihigkeit, sich xdtal zu veri~ndern, wobei sie ihr F~irbungsvermOgen
vertiert and sich auflOst.
Schliesslich fand R a m O n C a j a l (50) mit Hilfe einer besonderen
Ab~inderung seines Gruudverfahrens in den Riiekenmarkszellen einen besonderen
Nervenelemente be| Gano'/den und Knochenfischen.
19
Apparat in Gestalt eines Netzes yon feinen RS'hren; letztere sind stellenweise erweitert, stellenweise jedoch dermassen verengt, dass sie kaum wahrnehmbar sind. Dieser Apparat nimmt fa~t den ganzen Zellleib ein und entsendet in die Dendriten ein bis zwei blind endigende :-~stchen. .le griisser der
~euron is~, desto komplizierter und gr6sser stellt sich der erwS.hnte Apparat
dar. In den kleinsten Zellen sind nur einige miteinander anastomosierende,
varik5se :~stchen vorhanden. Hinsichtlich der Bedeutung dieses Apparates
.|st RamSu Cajal der Ansieht, dass das Golginetz und das Kan.~|chennetz
yon Holm grcn ein Gebilde darstellen und dass dasselbe ein geschlossenes
kommunizierendes RShren- und Sinussystem vorstelle.
Ohne meine Beobachtu~gen verallgemeinern zu wollen, kau~l
Jch dennoch nicht umhin, darauf hinzuweisen, dass es mir ia den
yon mir untersuchten Zellen keinmal gelungen war, weder eiue
Kanalisation der Tr0phospongiell noch ein Auftreten yon Tr0pfche~
it1 denselben zu erkennen. War das Pr~parat gut fixiert, so
war auf s~imtlichen im $chnitt gelegenen I,'ortsatzen der Trophozyten keine Ver~nderung sichtbar, die als Kanalisation im Sinne
Holmgrens
gedeutet werdeu konnte.
Eine Vakuolisierung
der Trophozytenforts~tze babe ich nur an solchen Pr~iparate~
beobachtet, welche ungeniigend bearbeitet worden waren.
So
erhielt ich zufi~llig eine Serie nach S. R. C a j a l mit Silber und
nachfolgender Reduktiou
desselben durch Pyrogallolgemisch
behandelter [ri~parate; infolge Schadhaftigkeit des Thermostateu
~,~Lr die Temperatur ill demse|ben betritchtlich gestiegen, so das.~
Gang|ieustticke mehr a|s 24 Stunden be| einer hohen Temperatur
i~ der SilberlSsu~g gelegen batten. ~Nur um mich zu iiberzeugeT~,
wieweit die Zellen hierbei deformiert worden sind, fertigte ich
aus den oberflachlich eingebetteten Stfickchen Schnitte an. Selbstverst~,tndlich war in diesen [ r a p a r a t e n keine Spur yon Neurofibrillenf~rbuz~g vorhanden, die Kerne waren desgleichen schlecht erhaltem
das Protoplasma war jedoch yon einem deutlichen Netz yogi
Kanalchen durchzogen. Be| einer Betrachtung derselben mit
starker Vergr6sserung habe ich wahrnehmen k0nnen, dass die
genannten Kan~,ilchen aus zahlreichen nebeneinander gelegenen
Tr(ipfchen bestehen, zwischen denen noch Reste des Trophospongiumprotoplasma erhalten waren.
In Anbetracht der ungtinstigen
Fixierungsbedingungeu und der starkei~ Deformation der Zellea
kann ich diese Vakuolisierung der Fortsatze nur als ein durch
die missratene Behandiung hervorgerufenes Kunstprodukt an,erkennen. Ich will jedoch damit durchaus nicht behaupten, dass
2*
20
Anton Nemiloff:
jegliehe Kanalisation tier Trophospongien ein Kunstprodukt sei;
ich mOchte nur darauf hinweisen, dass ein jegliches derartiges.
Gebilde, wie Spa]ten, Kanalchen usw., nut mit grosset Vorsicht
beurteilt werden kOnnen, da die tagliche Erfahrung im Laboratorium uns zeigt, wie leicht dieselben in den Praparaten ktinstlich
entstehen.
Eine besondere Aufmerksamkeit in bezug auf Trophospongien
wandte ich denjenigen Nervenzellen zu, in denen irgendwelche
morphologische Merkmale einer in ihnen verlaufenden funktionellen,
Erscheinung sichtbar w a r e n . - Viete Nervenzellen der Fische
erwiesen sich, wie welter unten berichtet werden soll, mit einzelligen Parasiten -- Myxosporidien - - infiziert, welche sie
schliesslich zu Grunde richteten, jedenfalls in ihnen starke
StSrungen bewirkten. Die Kerne vieler Zellen gaben desgleichen
in Berticksichtigung ihrer Form, des Austrittes yon Chromatin
aus ihnen, der in ihnen enthaltenen Einschltisse und anderen
Merkmalen, Anzeichen yon Prozessen in der Zelle, welche augenscheinlich zum Stoffwechsel in Beziehung stehen. Einige der yon mir
untersuchten Zellen waren ausserdem yon dicken mit Leukozyten
angeffillten Gangen durchzogen, welches Verhalten abermals
nicht zugunsten eines normalen Zustandes dieser Zellen sprach.
Ungeachtet dessen ist es mir in allen diesen verschiedenartigen
Fallen keinmal gelungen, irgendwelche KanMisation der Trophospongien wahrzunehmen.
Auf Grund meiner Praparate kann ich nur aussagen, dass,
augenscheinlich in Abhangigkeit yon dem funktionellen Zustande
des Protoplasmas der Nervenzelle, das Trophospongium das einreal sichtbar, das andere Mal unsichtbar ist. Was jedoch hierbei
in dem Protoplasma der Nervenzelle vor sich geht, und welche
Veranderungen dasselbe hierbei erleidet, babe ich nicht sicher
feststellen kSnnen.
In Berticksichtigung hauptsachlich der physiko-chemischea
Ver'anderungen der Trophospongien in einigen Stadien der funktionellen Tatigkeit der Nervenzelle i s t . H o l m g r e n geneigt, die
Trophospongien ftir besonders wichtige Gebilde in der Zelle zt~
halten, welche einen bedeutenden Einfiuss auf die Stoffwechselprozesse in derselben austiben. SeIbst vollkommen sicher festgestellte morphologische Beziehungen geben jedoch leider keine
gentigend sichere Grundlage ftir streng wissenschaftliche Schltisse:
Nervenelemente bei Guno'iden und Knochenfischen.
21
physiologischen Charakters. Wit sind daher genStigt, uns mit
Annahmen zu begniigen, welche mehr oder weniger wahrscheinlich
sein kOnnen, jedoch keinen Anspruch auf vollkommene Sicherheit
machen kSnnen.
Wenngleich ich auch die geistreichen Betrachtungen H o l i n g r e a s als ausserst interessant anerkenne, bin ich dennoch geneigt,
anzunehmen, dass in einigen Fallen, so in den yon mir untersuchten Nervenzellen der Fische, den Trophospongien mit gleicher
Wahrscheinlichkeit eine andere Rolle zugesprocheu werden kann.
Das Netz der Fortsatze, welche das Protoplasma durchziehen,
macht auf mich wenigstens eher den Eindruck eines Skelettgebildes, dem eine mechanische Bedeutung in der Zelle zukommt.
MSglicherweise dient es den weicheren Best~nd[eilen des Protoplasmas als Stiitze, oder aber trennt verschiedene Protoplasmaabschnitte voneinander, oder aber dient zur Isolation der
Nervenfibrillenbtindel voneinander, jedenfalls ist mir die Vorstellung gelaufiger, in der ,,Symbiose" der NervenzelIe mit den
sternfOrmigen Zellen das Ziel einer mechanischen Erscheinung
anzuerkennen, als dieselbe mit den komplizierten Stoffwechselprozessen in Zusammenhang zu bringen. Ein Vergleich der Trophospongien mit den entsprechenden Gebilden in den Nervenzellen
wirbelloser Tiere weist darauf hin, dass bei letzteren die mechanische
Bedeutung yon Forts~ttzen und Fasern, welche in die ~Nervenzelle
eindringen, ill vielen Fallen augenscheinlich ist. Ich erinnere
hierbei an die unlangst (1905) yon G o l d s c h m i d t im Biolog.
Zentralblatt beschriebenen radittrgestreiften h'ervenzellen des
Pferdespulwurms. Die Nervenzellen sind hier gleichsam auf Gliafasern, welche in das Protoplasma derselben allseitig radiar eindringen, aufgereiht. G o 1d s c h m i d t hebt mit Recht die mechanische
Rolle dieser Fasern hervor, welche in diesem Fall vollkommen
klar zutage tritt. In anderen Fallen sind die Verh~ltnisse mehr
"r
trotzdem ist, meiner Meinung nach, die mechanische
Bedeutung dieser Gebilde in vielen Fallen ausserst deutlich. Vom
Standpunkt einer mechanischen Bedeutung der Trophospongien ist
die grSssere oder geringere Deutlichkeit derselben mSglicherweise
yon dem jeweiligen Zustand des Protoplasmas der Nervenzelle
abhangig, infolgedessen das Sttitzgertist in einigen Fallen sich
scharf abhebt, in anderen Fallen unklar erscheint oder sogar
vollkommen verdeckt wird.
22
Anton Nemiloff:
VI. Loukozyton.
Ausser Trophozyten werden unter der Hfille der Nervez~zellen, wie bereits erwlthnt, gew(~hnlich in verschieden grosset
Zahl Leukozyten angetroffen, welche auch im interstitiellen Gewebe
des Ganglions in grosser Zahl vorhanden sind und in demselben
stellenweise besondere Anhaufungen bilden, wie bereits H o l m g r e n bei Lophius, Acanthias und Gadus darauf hingewiesen hat.
Hinsichtlich der Bedeutung und der Rolle der Leukozyten im
Nervengewebe sind in letzter Zeit viele Angaben gemacht wordel~.
Bereits P u g n a t (48) fand in den Spinalganglien iilterer Tiere viele
GanglienzeUen yon einem Haufen yon Leukozyten umgeben; in einigen Fii,llen
waren die letzteren sogar in die Nervenzellen eingedrungen, in welchem FalI
er einige Verttnderungen in dem Fiirbungsverm(igen des Protoplasmas der
Nervenzelle wahrnahm und einen ]~Iolekularzerfall desselben beobachtete.
Mit einigen anderen Forschern nimmt P u g n a t an, dass die Nervenzellen ira.
Alter zugrunde gehen und den Leukozyten, wie fiberall so auch hier, es obliegt~ unniitze und abgestorbene Elemente aus dem Organismus zu entfernen.
In einer Reihe hauptsiichlich dem Alterungsprozess gewidmeten Arbeiten
fiihrt M e t s c h n i k o f f den Gedanken durch, dass die eine Nervenzelle umgebenden Elemente ausgewanderte Leukozyten-Makrophagen sind, welche die
Nervenzelle resorbieren. In seinem halbpopuI~tren Buche ,Essais. optimistes ~
(Paris, 1907) resiimiert M e t s c h n i k off seine friiheren Beobachtungen folgenderreassert: Es unterliegt keinem Zweifel, dass bei der Aitersdegeneration die
Nervenzellen yon Neuronophagen umgeben werden, welche ihren Inhalt absorbieren und eine mehr oder weniger vollst~,ndige Atrophie derselben bewirken.
Eine Neuronophagie beobachtete desgleichen Demoor (6) an Tieren, welche
an den Folgen einer bald nach der Geburt ausgeftihrten Trepanation zugrunde
gegangen waren, sowie ~ a n o u ~ I i a n (36, 37, 37a) im Rtickenmark yon Hunden
und in den Spinalganglien yore )[enschen bei der Tollwut; Mencl (40~ 41)
beschreibt genau den Prozess des Eindringens der Leukozyten in die Nervenzelle und beobachtete sogar das Einwandern yon Leukozyten in den Kern
und die Zerst(irung desselben; P. Vall~e (69) beschreibt die Neuronophagie
bei Altersveriinderungen in dem ~ervensystem yon Hunden usw.
In der speziellen medizinischen Literatnr finden sieh desgleichen zahlreiche ttinweise auf eine ZerstSrung der Nervenelemente dutch Leukozyter~.
bei verschiedenen Erkrankungen, wie Epilepsie, Abdominaltyphus, Fleck'typhususw. Andererseits ist jedoch auch kein Mangel an Arbeiten vorhanden.
welche die phagozytiire Fiihigkeit der Leukozyten im Nervensystem leugne~
und ihnen bier eine andere Rolle zuerteilen.
So hat M a r i n e s c o (38, 39) weder im Gehirn noch im Riickenmark
ein Eindringen yon Phagozyten in die Nervenze]le beobachtet. Im Protoplasma der Elemente, welche die Nervenzelle nmgeben, gelingt es nie~
Bestandteile der letzteren zu finden, infolgedessen ersteren auch keine phagozytliren Eigenschaften zugesprochen werden kSnnen; sie kSnnen nut einen
,-Nervene|emente bei Gan~;iden und Knochenfischen.
23
Druck auf die Nervenzelle ausiiben und Atrophie derselben als Folge yon
Raummangel oder einer Ern~hrungsstSrung bewirken. Eine ak-tive Neuronophagie leugnet auch E x p o s i t o (13), obgleich er ein Resorptionsvermi~gen
der Leukozyten und Neurogliaelemente auf abgestorbene Nervenzellen nicht
in Abrede stellt. Nach der Ansicht yon de B u c k und de ~[uor (3) ist die
Anwesenheit yon Leukozyten in der N~the der Ncrvenzellen durch Reizung
,~der Entziindung bewirkt; es handele sich hier einfach um eine mechanische,
hSchstens h~imotaxische Erscheinung und durchaus n i c h t u m einc zellulttre
Phagozytosc; derartige Bilder werden in jedem infiltrierten entzilndeten
(~ewebe angetroffcn, wobei es Niemandem einf~llt, hier eine Phagozytose anzunehmcn. Auch R a m o n y C a j a l (50) h~lt die erw~hnten Elemente nicht
fiir Phagozyten, sondern schreibt ihnen eine stimulierende Wirlmng auf die
Ern~hrung und das Wachstum der Nervenfasern zu; seiner 3Ieinung nach
sind die Elemente imstande, wichtige Ver~tnderungen der Form und der
Forts~ttze der Nervenzelle hervorzurufen (z. B. Glomerulusbildung bei den
8pinalganglienzeIlen). Nach der Ansicht yon Saigo (55a) kommen die
lakun~ren Ausbuchtungen an den GanglienzeUen mit eingelagerten Rundzellen in jedem Lebensalter vor. Diese Rundzellen erkl'3.rt er ffir Gliazellen;
nicht ftir lymphozyt~tre Elemente.
Soviel ich an meinen Pr'aparaten babe wahrnehmen kSnnen,
l~sst sich die Anwesenheit yon Leukozyten unter der Htilte der
Nervenzellen nicht immer mit einer phagozyt'aren T:atigkeit
derselben in Abhangigkeit bringen, wie denn tiberhaupt die
I:rage der Phagozytose nur mit grosser Vorsicht behandelt werden
muss. Leukozyten umgeben h',tutig in grSsserer oder geringerer
Zahl vollkommen normale Nervenzellen, in denen es auf keine
Weise gelingt, irgend welche Alterserscheinungen oder iiberhaupt
Degenerationserscheinungen darzustellen. In diesen F'allen liegt
natih-lich durchaus kein Grund vor, die Leukozyten ftir Phagozyten
zu erklaren. Andererseits habe ich durch einzellige Parasite~
vollkommen zerstSrte oder zweifellos degenerierende Nervenzellen
mit verSdeten oder kollabierten Kernen gesehen; in derartigen
Fallen wtirde die Anwesenheit yon Leukozyten, welchen nach
P u g n a t (48) und anderen Forschern es obliegt, aus dem Nerven:
gewebe wie auch aus anderen Geweben unntitze und abgestorbene
Elemente zu entfernen, durchaus zweckentsprechend sein; dennoch
habe ich auch hier keine gr6ssere Anzahl yon Leukozyten als
gewShnlich gefunden; im Gegenteil, derartige vertidete oder
zerstSrte Zellen waren yon einer geringeren Zahl von Leukozyten
umgeben als vollkommen normale Elemente. Jn meinen Praparaten
sind mir viele Zellen zu Gesicht gekommen, in welchen, dem
Allgemeinzustande des Protoplasma nach zu urteilen, intensive
24
A n t o n l ~ e m i l o ff:
physiologische Prozesse vor sich gingen, wobei jedoch dieselben
augenscheinlich ohne den stimulierenden Einfluss yon Leukozyten
erfolgten, da die Zahl derselben um die 5Tervenzelle sehr gering
war und dieselbe sich durchaus nicht yon einer normalen unterschied.
Verhaltnismassig selten babe ich ein Eindringen yon Leuko~
zyten in das Protoplasma und sogar in den Kern yon ~'ervenzellen gesehen, welcher Vorgang nach M e t s ch n ik o f f, wie
bekannt, nicht eine notwendige Bedingung einer phagozytaren
Tatigkeit darstellt. Der Prozess des Eindringens eines Leukozyten
beginnt damit, dass am Rande der Zelle, wie auch M e n c l darauf
hinweist, eine kleine Delle erscheint, in welche der Leukozyt eintritt, wobei er dieselbe nicht vollkommen ausftillt, sondern yon der
Wand derselben durch einen kleinen Raum getrennt ist. Der Leukozyt
dringt welter in das Protoplasma ein, wobei der yon ihm zurtickgelegte Weg sich hinter ihm als ein ziemlich breiter, das Protoplasma durchsetzender Kanal darstellt. Wie Men cl (40), so habe
auch ich beobachten kbnnen, wie ein Leukozyt auf diese Weise
in den Kern eindringen kann. Dringen mehrere Leukozyten
gleichzeitig in eine Nervenzelle ein, so entstehen Bilder der Art,
wie ich eines auf Taf. II, Fig. 15 abgebildet babe, auf welcher das
ganze Protoplasma yon diesen Kanalen durchzogen ist. Dieses
Bild erinnert in hohem Grade an das grobe, intrazellulare Netz,
welches nach H o 1 m g r e n (29) die Rtickenmarkszellen yon
Lophius piscatorius durchzieht oder die intrazellul~tren Kapillaren,
welche F r i t s c h (15), H o l m g r e n (21), S t u d n i h k a (62) und
andere beschrieben haben. Bei einem sorgfaltigeren Studium des
Praparates habe ich mich jedoch stets davon tiberzeugen kOnnen,
dass in diesen Kanalen nicht Auslaufer der Kapsel mit Zellelementen und Blutkapillaren, sondern einfach Leukozyten, wie
solche gew6hnlich an den ~'ervenzellen unterhalb der Kapsel
angetroffen werden, enthalten sind.
Die Frage nach der Bedeutung eines derartigen Eindringens
yon Leukozyten und ob dasselbe als Phagozytose aufgefasst
werden muss oder nicht, muss ich often lassen. Die Wanderung
der Leukozyten in dem Zetlprotoplasma kann an und ftir sich
ohne jegliche phagozytitre Tatigkeit vor sich gehen; andererseits
babe ich in dem Zellprotoplasma der Leukozyten nicht die
Anwesenheit yon Bestandteilen der F[ervenzelle nachweisen k0nnen,
Nervenelemente bei Gano'iden und Knochenfischen.
25
wahrend in Fallen echter Neuronophagie es den Forschern, so
z. B. M a n o u ~ l i a n (37) 1906, bisweilen gelang, in den Phagozyten
Cytoplasmareste yon h'ervenzellen (und zwar PigmentkSrner) zu
finden:
VII. E i n w a c h s e n der Kapsel. V a k u o l e n u n d P a r a s i t e n
in d e n N e r v e n z e l l e n .
Ausser Kanalen, vermittelst derer in die h'ervenzelle
Leukozyten eindringen, sind in dem Protoplasma yon ~Nervenzellen, welche einen degenerativen Charakter aufweisen, haufig
noch a n d e r e m i t B i n d e g e w e b e
angeftillte
Kanale
anzutreffen, welche den yon F r i t s c h (15), H o l m g r e n (28),
$ t u d n i S k a (62), E c o n o m o (12a), ~Nils A n t o n i (44a) und
anderen gesehenen entsprechen. Diese Kanlile entstehen, wie es
Fig. 16, Taf. II zeigt, infolge Einwachsens yon Elementen der
fibrillaren Htille in das Cytoplasma der h'ervenzelle, wobei dieselben bald breiter, bald schmaler sein kSnnen. Stellenweise
verbreitern sie sich und bilden betrachtliche, mit Bindegewebe
angeftillte Hohlraume. h'iemals ist der Durchmesser dieser Kanale
dermassen gleichmassig als derjenigen, durch welche Leukozytez~
in die h'ervenzelle eindringen. Ist das Bindegewebe bis zu einer
gewissen Tiefe in das Cytoplasma eingedrungen, so beginnt es
nach verschiedenen Richtungen auszuwachsen, wobei es nicht
setten eine zur ursprttnglichen senkrechte Richtung einschlagt:
infolgedessen erscheinen die Umrisse der yore Bindegewebe im
l~rotoplasma angelegten Gange eigenttimlich gewunden. In einigen
Fallen ist das ganze Protoplasma einer Nervenzelle yore Bindegewebe dermafien stark durchwachsen, class es den Eindruck
macht, als lagen in dem interstitiellen Bindegewebe Bruchstticke
und formlose P~este einer h'ervenzelle. Die Frage, ob mit dem
Bindegewebe auch feine Blutgef~isse einwachsen, wage ich nicht
zu entscheiden, ich finde jedoch in meinen Praparaten einige
Andeutungen daftir und halte daher ein derartiges Einwachsen
u
Blutgef~ssen ffir durchaus m(iglich.
Ein Einwachsen der Htille lasst sich nur an zweifellos
degenerierenden Zellen wahrnehmen, in denen der Kern gew0hnlieh
vollkommen ver(~det oder kollabiert ist. Es ist mSglich, dass
bei diesem ~:orwachsen tier Hiille mit derselben junge INervenelemente vordringen, welche die Stelle der absterbenden Zelle
26
Anton 51emilo ff:
einnehmen und dieselbe ersetzen oder sogar Neuroblasten, die
nach B t i h l e r und anderen Forschern in den Ganglien vorhanden sind.
Sehr haufig fand ich in dem Protoplasma der Nervenzelle
verschieden grosse Vakuolen oder vakuolenartige Gebilde, yon
denen sowohl in der histologischen ~ls auch medizinischen Literatur
bereits viel berichtet worden ist (Taf. II, Fig. 17 und 15v).
In den yon mir untersuchten Zellen erscheinen diese Gebilde
bald als grosse Vakuolen, welche in einem Teil der Zelle konzentriert waren, bald waren sie in Gestalt kleiner Tropfen im
ganzen Cytoplasma zerstreut. Die Vakuolen sind jedenfalls keine
konstanten Bestandteite der Zelle, ihre Anwesenheit im Protoplasms.
wird jedenfalls yon keinerlei wahrnehmbaren Veranderungen im
Kern und anderen Elementen des Neurons begleitet. Mit Hilfe
rein histologischer Methoden i s t meiner Ansicht nach die Frage
schwer zu 10sen, ob diese Vakuoleu der morphologische Ausdruck
irgend welcher normalet physiologischer Prozesse in der Zelle
sind oder ob dieselben den pathologischen Erscheinungen zugerechnet werden mtissen (parasitare oder nicht parasit,tre vakuollare
Degeneration).
In der medizinischen Literatur sind I-Iinweise daftir vorhande~, class in einigen Fallen die Bildung yon Vakuolen im
Protoplasma der Nervenzellen durch Eindringen yon Bakterien
in dieselben hervorgerufen wird. Bereits L. D r t i n er (12), welcher
in seiner Arbeit eine Reihe yon Fallen anftihrt, in denen mikroskopische Parasiten in normaler~ Zellen vorhanden waren, warnt
die Forscher vor hierbei mSglichen Irrttimern.
Eine gewisse hnzahl yon Zellen war bei den yon mir
untersuchten Fischen (besonders bei Lota vulgaris) yon einzelligen
P a r a s it e n infiziert, deren Anwesenheit betrachtliche Ver~
anderungen samtlicher Teile der Nervenzelle bewirkte. Ich habe
diese Parasiten nicht genau, bestimmt; dieselben geh0ren jedoch
augenscheinlich zu den Myxosporidien; meine Praparate entsprechen
vollkommen den Abbildungen yon S c h u b e r g und S c h r S d e r (57),
welche die Myxosporidien im Nervensystem der Forelle beschrieben
hubert. Von anderen Fischen wurden meines Wissens Myxosporidien
nur in den Spinalganglienzellen yon Lophius piscatorius beobachtet,
wo sie yon H e n n e g u y und darauf yon D o f l e i n (7) beschrieben
wurden.
Nervenelemente bei Gano'iden und Knochenfischen.
2T
Wie die Textfigg. 2 und 3 zeigen, haben die Cysten der
Parasiten eine l~tngliche oder ovale Form und sind dermassen im
Protoplasma der Zelle gelegen, dass sie den Kern komprimieren
und zur Peripherie d~'angen. Bisweilen sind auch in einer Zelle
zwei Cysten vorhanden (Textfig. 3). Haufig werden auch in den
Praparaten yon Parasiten verlassene und yon denselben bis zur
Unkenntlichkeit verunstaltete Zellen angetroffen. Die Gr0sse det"
Cysten ist sehr mannigf'altig. Einige ft~llen vollkommen die
Zellen an, so dass yore Protoplasma nur ein schmaler Saum nach-
Fig. 2.
E i n e y o n ein, z e l l i g e n P a r a s i t e n i n f i z i e r t e N e r v e n z e l l e , k ~ Htille der Nervenzelle; i = K e r n ; kn ---~ Kern
einer Zelle der Htille ; p = einzeUige P a r a s i t e n ; nz ~ Protoplasma der l~ervenzelle. Ganglion n. vagi. Lota vulgaris.
Fixiert; im Gemisch yon L e n h o s s ~ ! k ; F~rbung mit Hii,matoxylin nach H e i d e n h a i n ; in Celloidin-Paraffin eingebettet.
R e i c h e r t s Obj. Homog. Immers. ~/1~. Kamera lueida.
bleibt, analog der Protoplasmaschicht der Fettzellen. Andere~
Cysten sind wiederum sehr klein, kleiner sogar als der Kern.
Wenn nun auf einem Schnitt aus einer derartigen Cyste die
Sporen herausgefallen sind, so kann sie leicht for eine grosse
Vakuole oder einen intrazellularen Gang oder Kanal gehalten
werden. Infolge eines verschiedenen Verhaltens der Sporen des.
Parasiten und des Protoplasma der Nervenzelle kommt es vor,
dass das Protoplasma der Nervenzelle gut fixiert, w~thrend die
Sporen schlecht erbalten sind und zu einer kompakten Masse
28
Anton Nemiloff:
verschmelzen, welche sich stark mit dem Farbstoff durchtrankt
und die Vorstellung einer eigenartigen Differenzierung des Protoplasma gibt. Bei einer Ftirbung mit Methytenblau werden die
Cysten ebenso wie der Kern durchgefarbt. Kurz, es sind hierbei
eine Reihe morphologischer Fehler mtiglich, und alas um so mehr,
als der Entwicklungszyklus der Nervenparasiten noch bei weitem
nicht erforscht ist.
-5-' ~ : . : , : . . r
~
.
~'
~+';:~:~2
9
:.W
_-nzi
~z O
III
g
~
',~,, ~ ~ ,
~:.~,."'~.~.
_ ....._,_.....
_P_ .........................
'w,
,
~i"./:~/,~
i
Fig. 3.
Eine v~n eil~zclligen P a r a s i t e n i n f i z i e r t e Nervenzelle.
k ~ Htille der Nervenzelle ; nz ~ Protoplasma der Nervenzelle:
p ~ einzellige Parasiten. Der Kern ist w,m Sehnitt nicht
getroffen. Ganglion n. vagi. Lota vulgaris. Fixiert im Gemisch
yon Lenhoss4k; gefiirbt mit Hiimatoxylin nach Heidenhain;
eingebettet in Celloidin-ParMfin. R e ic h e r t s homog.Immers. ~it,2'
TubuslSnge 180 ram.
Es bleibt mir noch tibrig, auf eine interessante Eigenheit
des Cytoplasma der Nervenzellen yon Fischen hinzuweisen, n~tmlich
anf das vollstandige Fehlen des Pigmentes, welches fast konstant
in den lqervenelementen der hOheren Wirbeltiere angetroffen wird.
5"ur im Verlauf der Gefasse des Ganglions finden sich kleine
Pigmentzellen bindegewebigen Charakters; grosse sternfOrmige
Pigmentzellen werden zuweilen in dem das Ganglion umgebenden
Bindegewebe beobachtet.
Nervenelemente bei Ganoiden und Knochenfischen.
29
VIII. Der B a u des K e r n k 6 r p e r c h e n s und d e s s e n
A u s t r i t t in das C y t o p l a s m a .
Die Kerne yon ~Nervenzellen der yon mir untersuchtea
Fische weisen in morphologischer Hinsicht keine Besonderheiten
auf. Sie sind alle blaschenf6rmig, rund oder oval. Die I(ernmembran ist im Vergleich mit derjenigen anderer Zellen betrachtlich dick.
Das (echte) KernkOrperchen ist recht gross
und enth~tlt fast konstant die yon M a u t h n e r , S c h r a n und
vielen anderen beschriebenen, stark lichtbrechenden Gebilde. Soviel ich habe wahrnehmen kannen, sind ill der Mehrzahl der
Kernkarperchen nicht je ein derartiges lichtbrechendes Kbrperchen,
wie augenscheinlich 0 b ers t e i n e r (45) geneigt war anzunehmen,
sondern mehrere vorhanden, worauf auch [R h 2 i 5 k a (54), welcher
die Kernkarperchen der Nervenzellen des Rfickenmarks yore
Frosch, Meerschweinchen, Katze, Hund, Pferd und Menschen
nntersucht hatte, hinweist. Die yon Rfi'~iaka beschriebene oberflachliche Schicht oder H~'llle um diese Gebilde, sowie die yon
ihm beschriebenen Karperchen mit gez~hnten l~andern, habe ich
auf meinen Praparaten nicht gesehen. Soviel ich habe erkennen
k6nnen, gibt es zweierlei Arten M a u t h n e r - S c h r b n s c h e r
K6rperchen. Die eine Art stellt blasse, schwacher lichtbrechende
Gebilde vor; ihrer betrachtlicheren GrOsse nach gewahren sie den
Eindruck yon kleinen, in die Substanz des Kernkarperchens eingelassener Vakuolen. Die andere Art ist kleiner, jedoch starker
lichtbrechend und gleicht eher festen, karnigen Einschlfissen
als Vakuolen (Taf. II, Fig. 191). Wahrend die Karperchen der
ersten Art sowohl in dem peripheren als auch im zentralen Tell
des KernkOrperchens angetroffen werden, sind die starker lichtbrechenden Karperchen der zweiten Art vorwiegend in der
peripheren Schicht der Kernkarperchensubstanz konzentriert.
Haufig ist ein kleines, glanzendes K6rnchen in dem einer Vakuoie
gleichenden Karperchen erster Art gelegen. Einige KernkOrperchen
entbehren vollkommen der M a u t h n e r- S c h r ~ n schen Karperchen
oder enthalten nur einige stark lichtbrechende oder schwach lichtbrechende. Die Gr6sse dieser Gebilde ist desgleichen ausserst
mannigfaltig und zwar haufig sogar in einem KernkOrperchen.
In verhaltnismltssig seltenen Fallen babe ich den Austritt
des KernkOrperchens in das Cytoplasma gesehen (Taf. II, Fig. 18.
30
A n t o n N e m i l o ff:
und 20). Das Kernk6rperchen erwies sich hierbei (Taf. II, Fig. 20)
recht welt vom Kern entfernt im Cytoplasma eingeschlossen. Auf
verschiedenen Praparaten habe ich eine Reihe yon Stadien des
Austrittes finden k0nnen, welches, einigen Merkmalen nach,
wenigstens in den yon mir untersuchten Zellen sich als Kunstprodukt offenbartc. An einigen gtinstig fixierten und gefttrbten
Praparaten verlief yon dem ins Cytoplasma ausgewanderten KernkSrperchen zum Kern hin eine kaum merkbare Spur in Gestalt
eines Kanals~ welcher durch den Durchtritt des Kernk0rperchet~s
bedingt war. Die Kernmembran ist an der Durchtrittsstelle des
KernkSrperchens zerrissen, desgleichen ist auch der Teil des
Kernnetzes, welcher dem Kernk0rperchen analog, verletzt. Der
tibrige Teil des Kernnetzes offenbarte das Bild eines vollkommen
normalen, ruhenden Kernes, welcher sogar keine Spuren der
Anzeichen an sich trug, die yon den Autoren bei einem scharf
-ausgepr~gten Stoffwechsel zwischen Kern und Protoplasma beschrieben werden. Es wird hierbei der Eindruck gewonnen, als
w~tre das KernkOrperchen mit Gewalt aus dem Kern ausgestossen,
wobei es das Kernnetz verletzt, die Kernmembran eingerissen
hat ul~d tief in das Protoplasma eingedrungen ist.
Das Mitgeteilte veranlasst mich nun zur Annahme, dass
der Austritt des Kernk0rperchens aus dem Kern keine nattirliche
oder funktio~elle Erscheinung darstellt, sondern ktinstlich beim
Herausschneideu des Ganglions, oder beim i~%erftihren desselben
mit der Pinzette aus einer Fltissigkeit in die andere, oder beim
$chueiden auf dem Mikrotom, oder schliesslich bei den wahrend
der Fixierung der Gewebe vor sich gehenden chemischen Prozessen
erfolgt. Die Kerne einiger Zellen erleiden hierbei irgend einen
mechanischen Effekt, infolgedessen das Kernk6rperchen aus dem
Kern herausgepresst wird.
IX. S t R b c h e n f 6 r m i g e u n d a n d e r e Einschlfisse
i m Kern.
In den yon mir untersuchten Nervenzellen habe ich ausser
den gewShnlichen Kernelementen auch verschiedenartige inkonstante
Gebilde und Einschltisse angetroffen. Welter obeu habe ich bereits
angegeben, dass in einigen Fi~llen Leukozyten selbst in den Kern
tier Nervenzelle eindringen.
51"ervenelementebei Gano'iden und Kncchenfischen.
31
Im Kern werden ausserdem bisweilen noch besondere
stabchenf6rmige oder fadenf6rmige Gebilde wahrgenommen, wie
ich solche auf Fig. 21, Taf. III abgebildet habe. Dieselben stellen
sich bald in Gestalt gerader, gleichmassiger Stabchen, bald als
feine, leicht gewundene Bander dar; selten sind sie hufeisenf6rmig oder schlingenfSrmig gekrtimmt; gewShnlich sind diese
Gebilde sehr intensiv gefarbt, wobei nur die Enden derselben
etwas schwacher tingiert erscheinen.
Das Karyoplasma liegt
diesen Gebilden niemals unmittelbar an, sondern ist yon denselben
durch einen geringen Zwischenraum getrennt. Ebenso erreicllt ein
derartiges Stabchen oder Bandchen niemals die Kernmembran,
bertihrt dieselbe niemals, sondern endigt stets in einiger Entfernung
yon derselben.
Diese stabchen- oder fadenfOrmigen Gebilde entsprechen
OffGnbar den ,,Krystalloiden "~, ,stabchenf0rmigen Gebilden",
,,intranuklearen $tabcl|en", welche M a n n (35) in den Kernen yon
Gehirnzellen von Kaninchen, Le nh o s s 6 k (33) in den Kernen
sympathischer Nervenzellen vom Igel, H o l m g r e n (22) in den
Kernen spinaler und sympatbiscl~er Ganglienzellen bei $augetieren
nnd VSgeln, Sj 5 v all (58) in den Kernen yon Spinalganglienzellen
beim Igel, A. $ m i r n o f f (59) in den Kernen yon Spinalganglienzellen bei ei~em viermonatlichen menschlichen Embryo mid
R a m 6 n C a j a l (49) in ~'ervenzellen verschiedener Typen beschrieben haben. ~Niemals habe ich beobachten k6nnen, (lass
diese Gebilde, wie es H o l m g r e n annimmt, sich aus dem Kern
in das Cytoplasma erstrecken oder sogar ausserhalb der Zelle
begannen, ebenso wie ich niemals dergleichen regelmassige
prismatische Formen gesehen habe, wiG sie S m i r n o f f abbildet.
L e n h o s s 6 k hielt, wie bekannt, diese ,intranuklearen
Stabchen" ftir .Krystalloide", M a n n fiir eine besondere Form
eines Centrosoma, H o ! m g r e n erklart sie einfaeh fiir ratselhaft,
wahrend S j 6 v a l l dieselben ftir Gin dauerhafteres Ersatzmaterial
als die Tigroidsubstanz halt.
Zugunsten eines krystallinischen Charakters dieser Gebilde
spricht nur ihr homogenes Aussehen; irgend welehe optische, ftir
Krystalle charakteristische Eigenschaften sind nicht fGstzustellen,
so dass meiner Meinung nach kein reehter Grund vorliegt, dieselben
als krystallinisch zu bezeiebnen; wfirden diese intranukleLtren
Stabchen als Krystalloide zu bezeichnen sein, so k6nnten eben-
32
Anion :Nemilo ff:
sogut auch die Schollen der Tigroidsubstanz den Krystalloiderl
zugezahlt werden. Noch mit weniger Recht k6nnten sie als
Centrosome bezeichnet werden, mit welchen sie weder ihrer Form
noch ihrer Gr6sse noch ihrer Lagerung in der Zelle nacb, irgend
etwas gemein haben.
Am einfachsten und natttrlichsten scheint mir die Annahme,
dasses sich im gegebenen Fail um irgend welche Stoffwechselprodukte
der Zelle handelt, welche sich unter gewissen Bedingungen im
Kern verdichten und eine charakteristische st~tbchenf6rmige oder
fadenfSrmige Form annehmen. Diese Produkte n~ther bestimmen
zu wollen und dieselben durchaus ftir Ablagerungen yon Ersatzmaterial in der Zelle anzunehmen (SjSvall), scheint mir willkt~rlich zu sein, da ja ein pathologischer Charakter dieser
Gebilde m6glich ist. Bei tier geringen Wahrscheinlichkeit irgend
welcher physiologischer Annahmen nur auf Grund yon anatomischen
Befunden ist ja auch die M6glichkeit nicht ausgeschlossen, dass
es sich hier um einen einzelligen Parasiten handelt.
Eine desgleichen ratselhafte Bedeutung haben auch noch
andere Einschlfisse (conf. Textfig. 4, Taft II, Fig. 22), welche hauptsachlich in den Kernen yon Riesenzellen angetroffen werden.
Diese stellen sich als grosse Konkretionen verschiedener Form
dar, die mit den anderen Kernelementen nicht in unmittelbarem
Zusammenhange stehen und sich intensiv in Safranin, Hamatoxylin
nach H e i d e n h a i n , Toluidinblau und anderen Farbstofl'en farben.
Ihre Form ist sehr mannigfaltig, bald rund oder oval, eif6rmig,
bald keulenfSrmig oder kolbenf6rmig, bald kommaf6rmig usw.
Sie sind vollkommen homogen, enthalten weder Vakuolen noch
KSrner und offenbaren tiberhaupt keine Differenzierung.
X. V e r ~ n d e r u n g e n des Kerns.
Das gr6sste Interesse gew~thren diejenigen Kernbilder, welche
einen morphologischen Ausdruck irgend welcher physiologischer
Prozesse. in der Zelle darstellen; dieselben haben bereits vor
langerer Zeit die Aufmerksamkeit der Forscher, wie K o r s c h e l t ,
F l e m m i n g , van B e n e d e n , B a l b i a n i , H e n n e g u y , H o l m g r e n
und anderer auf sich gelenkt. Speziell in betreff des Kernes der
Nervenzellen und seiner morphologischen Eigenttlmlichkeiten bei
verschiedenen funktionellen Zustanden der Zelle sind in den letztea
Nervenelemente bei Gane'/den und Knoehenfischen.
33
Fig 4.
Einlagerungen
~in d e m K ' e r n e i n e r N e r v e n z e l l e .
Der Kern (i)
offenbart einige charakteristische Formver~nderungen und stel]enweise Reduktionen, z . B . in der Kernmembran (st). d : Dentriten, nz----:. Protoplasma
der Nervenzelle ; fk : fibrillate I~l~ille dcr Nervenzelle ; st ~ Reduktionsstelle
der Kernmembran; kr ~ Einlagerun~en.
Ganglion n. vagi. Riesenzelle.
Lota vulgaris. Fixiert in Chromessigsauregemiscb, gef~rbt in H~matoxylin
nach H e i d e n h a i n .
Eingebettet in Celloidin-Paraffin. Z e i s s ' homog.
Immers. 1/~. Kamera lucida.
Archiv f. mikrosk. Anat. Bd. 72.
~
34
Anton N e m i l o f f :
Jahren eine Reihe von Beobachtungen voa Marin esco, H o l m g r e n,
Levi, BaronciniL. eBerettaA.,
P e r r i n de l a T o u c h e et
Dide, Guerrini, Rilvington, Giani e Ligorio, RamSn
C aj al, H a t ai und vielen anderen verSffentlicht worden.
In den Ganglienzellen der Fische habe ich sehr h~'tufig verschiedene Abweichungen yon der gewOhnlichen Kernstruktur tier
normalen, ruhenden Kerne angetroffen. In einigen Fallen war
z. B. das gesamte Chromatin an der Kernperipherie angeordnet
(Tar. II, Fig. 15 und 23). Das ganze Kernnetz war frei yon
Chromatink6rnchen, nut dicht an der Kernmembran war eill
Saum oder Streifen yon Chromatink6rnchen vorhanden; ein Teil
derselben konnte ausserdem auch in dem Cytoplasma in der
Nithe des Kernes festgestellt werden. Dieser Streifen nahm
entweder die ganze Peripherie des Kernes ein oder konzentrierte
sich in einem Teil desselben. Bisweilen war, wie in dem auf Taf. II,
Fig. 15, abgebildeten Falle, diese Chromatinkonzentration an
der Peripherie des Kernes von dem weiter oben beschriebenen
Eindringen yon Leukozyten in die Zelle und den Kern begleitet;
in anderen Zellen war jedoch die Chromatinkonzentration mit
keinerlei anderweitigen Veritnderungen im Karyo- und Cytol)lasm:t
verbunden. Die Kernform war hierbei unverandert.
In anderen Fttllen war die Form des Kernes verandert,
wobei eine Zu- oder Abnahme tier f~trbbaren KOrnchen in ibm
nachweisbar war; die Kernumrisse wurden unregelmitssig, an
vielen Stellen desselben traten HOcker oder zungenf0rmige Auswt'tchse auf, und zwar bald nur an einer Stelle des Kernes, wobei
die sogenannten Flammenfiguren der Autoren entstanden, bald
an der ganzen Peripherie desselben. Es liegt kein Grund vor,
diese Bilder ftir Kunstprodukte zu halten, da weder das Cytoplasma, noch die Membran, noch tiberhaupt das ganze Pritparat
irgend welche Anhaltspunkte daftir bot.
Derartige Formveranderungen des Kernes kOnnen auch noch weiter fortschreiten.
Anstatt H6ckern und Auswtichsen treten an der Kernperipherie
breite, gelappte Fortsatze auf, und zwar besonders hitufig an de~
oben beschriebenen Riesenzellen. Hierbei entstehen, wie es die
Textfigg. 4, 5 und 6, sowie Figg. 24, 25, 26, 27, 28 der Taf. II
zeigen, die verschiedenartigsten Kernformen, yon einer bisquitund hufeisenf0rmige~l his zu einer kringelfSrmigen und gelappten,
wie in den Zellen des Spinnapparates tier Lepidoptera und einiger
Nervenelemente bei Gano'iden und Knochenfischen.
35
anderer Drtisenelemente. Der Kern ist gleichsam bestrebt, vermittelst Lobopodienbildung seine Bertihrungsflache mit dem Cytoplasma zu vergr(issern, in alle Ecken des ZellkSrpers vorzudringen
und seinen Einiiuss auf die entferntesten peripheren Teile der
Zelle zu erstrecken. Es entstehen hierbei h~ufig Bilder, welche
!
nL
Fig. 5.
Bisquitf~irmiger Kern einer Nervenzelle. nz
Protoplasma einer 5Iervenzelle; i --= Kern; nue ~ KernkSrperchen. Ganglion n. vagi. Riesenzelle. Lota vulgaris.
Fixiert im (] emisch yon L e n h o s s ~k ; gefitrbt mit H~h~ato•
nach H e i d e n h a i n ; eingebettet in CelloidinParaffin. Z eis s' homog. Immersion 1,5 mm; Apert. 1,30.
Kamera ]ucida.
an die Figuren einer amitotischen Kernteilung (Textfig. 5) erinnern.
Ich mSchte diese Streckung des Kernes nicht als Amitose bezeichnen,
da in der tiberwiegenden Mehrzahl der Falle es nicht bis z u r B i l d u n g
yon Tochterzellen oder Tochterkernen kommt. Zwei kernige Zellen
sind, wie bereits H o l m g r e n
(21) yon den Ganglien yon Lophius,
Acanthias, Raja, Gadus und Rana berichtet, auch in den yon
3*
36
Anton Nemiloff:
mir untersuchten Zellen die gr(isste Seltenheit. Auf den Serienschnitten durch eine grosse Anzahl yon Ganglien habe ich nur
eine oder zwei Zellen mit zwei oder drei Kernen gesehen; Zellen:
mit verzweigten Kernen sind jedoch recht zahlreich vorhanden;
wtirden diese Kernformen Teilungsfiguren sein, so mtisste die
Zahl der zweikernigen Zellen zweifellos eine viel gr6ssere sein.
Bisweilen k6nnen sich freilich bei der Streckung des Kernes und
bei der Bildung yon geIappten Fortsatzen desselben yon ihm
kleine Abschnitte abschnt~ren oder absondern, welche sp,~terhin
eine runde Gestalt annehmen, so dass eine Art Knospung des
Kernes vorliegen kann. Das weitere Schicksal eines derartigen,
abgeschntirten'Kernteils habe ich leider nicht weiter verfolgel~
k0nnen. Ich glaube jedoch dennoch nicht, dass eine derartige
,Kernknospung" der gew(ihnlichen Amitose gleichgestellt werden
kann, welche in anderen Geweben vorkommt und yon Apolant (1),
O r z e c h o w s k y (45a) und anderen Forschern auch ftir die
Nervenelemente angenommen wird. Die hbschniirung eines Kernabschnittes ist im gegebenen Falle eine Begleiterscheinung, ich
m6chte sagen eine zufallige Erscheinung der lebhaften Metabolie
des Kernes und keine echte Teilung im gewOhnlichen Sinne derselben. Eher noch k6nnte diese Erscheinung mit den Prozessen
einer funktionellen direkten Kernteilung, in der Art, wie sie
P l a t e (47) in den Luftr6hren des neuseeliindischen Janellides
als regenerative Zel]amitose annimmt.
In derartig verzweigten Kernen sind auch einige andere
Veranderungen im Vergleich zu ruhenden Kernen sichtbar. Das
Kernki~rperchen ist gew0hnlich etwas vergr0ssert, das Kernnetz
ist schwach, bisweilen auch gar nicht sichtbar, wahrend die
Menge der Chromatink6rnchen und -schollen mehr oder weniger
zugenommen hat. Noch tiefergreifende Veranderungen werden
an den Riesenzellen beobachtet, die allen Anzeichen nach in der
Degeneration begriffen sind. An irgend einer Stelle des verzweigten Kernes wird dessen Htille reduziert (Textfigg. 4 und 6~
Taf. I.I, Fig. 22), wobei die Kernsubstanz sich frei ins Cytoplasma
ergiesst und sich mit ihr vermengt. Die Kernmembran schwindet
in einigen Fallen nur an dem Ende eines feinen Kernfortsatzes,
wobei eine Vermischung der Elemente des Karyo- und Cytoplasmas
in beschranktem Mal~e erfolgt. In derartigen Fallen werden
auch die grOssten Einschliisse vorgefunden, yon denen weiter
Nervenelemente
bei G~no'/den u n d K n o c h e n f i s c h e n .
3T
oben die Rede war. Ausserdem wird haufig an den v o n d e r
erwahnten Berfihrungsstelle des Karyo- und Cytoplasmas am entferntesten gelegenen Abschnitten des Kernes eine gewisse Konzentration der Kernsubstanz wahrgenommen.
In anderen Fallen verschwindet die Kernhfille auf eine
betr~,tchtliche Strecke, wobei eine recht intensive Vermischung der
Kernelemente mit dem Cytoplasma erfolgt. Haufig sind halb
oder vollkommen verGdete Kerne sichtbar, welche alsdann
kollabieren und als enge Kanale oder Spalten erscheinen, Das
,rk
........
ks
~:~.~ 9ff~j~;'..- :-:~~ .~,?::4.._':~,::2'.',%=.. -:,-.',,~...j,~
:Fig. 6.
Kern
einer Nervenzelle.
n z = P r o t o p l a s m ~ der N e r v e n zelle ; i --~ K e r n ; r k ~--- K e r n e i n s c h l f i s s e ; k s = Stelle, ~n w e l e h e r
die K e r n m e m b r a n
r e d u z i e r t i s t u n d die K e r n s u b s t a n z sieh in
d a s C y t o p l ~ s m ~ e r g i e s s t . G a n g l i o n n. v a g i . Pdesenzelle. L o t ~
vulgaris. Fixiert im Gemiseh yon Lenhossgk;
gef~rbt mit
H ~ m a t o x y l i n n a e h It e i d e n h e i n ; e i n g e b e t t e t in Celloidin. Z e i s s'
h o m o g . I m m e r s . 1,5 r a m ; A p e r t . 1,80. K ~ m e r a lueida.
Protoplasma ist in derartigen Fallen mehr oder weniger vakuolisiert
m~d enthalt in grosset Zahl K6rnehen, Schollen und stabehenfSrmige Gebilde, die sieh intensiv in Hamotoxylifi naeh Heidenh a i n , in Safl'anin und anderen Farbstoffen farben.
Derartige Zellen mit ver6deten und kollabierten Kernen
mtissen offenbar als zugrunde gehende oder absterbende Nervenelemente angesehen werden.
Bei experimentellen Versuchen
gelang es einen Kernschwund nur in Fallen starkerer Verletzungen
tier Nervenzelle zu erzielen. So beobachtete R i l v i n g t o n (52)
einen Kernschwund in den Nervenzellen bei der Vergiftung eines
K~ninchens mit dem Gift der australischen TigerschIange.
38
Anton Nemiloff:
XI. I n t e r s t i t i e l l e s G e w e b e in d e n G a n g l i e n der Fischeo
])as interstitielle Gewebe weist auch in den yon mir untersuchten Kopf- und Spinalganglien das gewShnliche Verhalten auf,
infolgedessen ich mich dabei nicht welter aufhalten werde. Im
Ganglion n. vagi offenbart dasselbe nur eine paradoxe EigenW
-n
Fig. 7.
B i i n d e l q u e r g e s t r e i f t e r M u s k e l f a s e r n im i n t e r s t i t i e l l e n
Gewebe eines G a n g l i o n s . gz ~ Ganglienzellen; ig ~ interstitieUes Gewebe; mp ~ quergestreifte Muskelfasern. Ganglion n. vagi.
Lota vulgaris. Fixiert im Gemisch yon L e n h o s s ~ k ; gef~rbt mit
H~matoxylin nach l ~ e i d e n h a i n . Eingebettet in Celloidin-Paraffin.
Z e i s s ' homog. Immers. 1,5 ram; Apert. 1,30. Kamera lucida.
tfimlichkeit, indem es kleine Btindel quergestreifter Muskelfasern
enthltlt. Ein TeiI d erselben ist an der Peripherie des Ganglions
gelagert, unmitteiber unterhalb der Bindegewebshtille desselben.
Ein anderer Teil erstreckt sich in Gestalt recht feiner Btindel
Nervenelemente bei Gano'/den und Knochenfischen.
39
und sogar einzelner Fasern betr:achtlich weit in das Ganglion
selber. Soviel ich auf Quer- und L;mgsschnitten dieser Muskelfaserbtindel habe warnehmen k6nnen, so offenbaren sie keine
Unterschiede yon der quergestreiften K($rpermuskulatur.
Literaturverzeichnis.
Die mit einem * verzeichneten Arbeiten sind nach einem Referat zitiert.
1. A p o l a n t :
{)ber die sympathisehen Ganglienzellen der Nager. Arch.
f. mikr. Anat., Bd. 47, H. 3.
2. B e r g e n, F. v. : Zm" Kenntnis gewisser 8trukturbilder (,Netzapparate ~,
,Saftkan'alchen ~, ,,Trophospongien =) im Protoplasma verschiedener
Zellenarten. Arch. f. mikr. Anat., Bd. 64, H. 3.
*3. B u c k , D. de et M o o r , L. de: La neuronophagie. Journal de ~leurol.
(Bruxelles-Paris), No. 14, p. 269--274, av. 3 Fig. 190{).
4. B t i h l e r , A.: Untersuehungen iiber den Bau der Nervenzellen. Verh.
phys.-me& Gesellschaft, Wiirzburg, Bd. 31, N. F. No. 8, pag. 285--292.
~Iit 2 Taf.
5. D a h l g r c n ,
U.: The Giant Ganglion Cells in the Spinal Cord of the
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6. D e m o o r : Les effets de la trepanation chez les animaux nouveaux-n~s.
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7. D o f 1e i n , Fr.: Studien zur Naturgeschichte der Protozoen. III. Uber
Myxosporidien. Zool. Jahrb., Abt. Anat., Bd. 11.
8. Do g i e l , A.S.: Zur Frage fiber die Ganglien der Darmgefleehte bei
den Sgugetieren. Anat. Ariz., Bd. X, No. 16.
9. Derselbe: Zur Frage fiber den feineren Bau des sympathischen Nervensystems bei den Siiugetieren. Arch. f. mikr. Anat., Bd. XLVI, 1895,
p. 305--344.
10. Derselbe: Zwei Arten sympathischer iNervenzellen. Anat. A~z., Bd. XI,
.No. 22, 1896.
11. Derselbe: Uber den Ban der Ganglien in den Geflechten des Darmes
and der Gallenblase des Menschen and der S~ugetiere (hierzu Taf. V--IX).
Separat-Abzug aus dem Arch. f. Anat. u. Phys., Anat. Abt., 1899.
12. D r fi n e r, L. : Kern- and Zellendegeneration und ihre Ursache. Jenaische
Zeitschr. f. Naturwissenschaft, Bd. 28.
*12a. E c o n o m o, C. J. : Beitrgge zur normalen Anatomie der Ganglienzellen.
Arch. Psychiatr. u. Nervenkr., Bd. 41, tI. 17 1906, p. 158--201. Mit 5 Tar.
"13. E x p o s i t o : La Neuronofagia. Manicomio Interprovinciale V. E. 11 in
51ocera Inferiore.
14. F r i t s e h ~ G. : Uber den Angelapparat des Lophius piscatorius. Sitzungsbericht d. kgl. preuss. Akad. d Wissenschaften zu Berlin, Jahrg. 1884,
No. 50~ p. 1145--1151.
40
Anton
Nemiloff:
15. Derselbe: g'ber einige bemerkenswerte Elemente des Zentralnervensystems yon Lophius piscatorius L. Arch. f. mikr. Anat., Bd. 27, 1886,
p. 13--31, Taf. II[ und IV.
16. F u c h s , H.: tTber die Spinalganglienzellen und Vorderhirnganglienzellen einiger Siiuger. Anat. Hefte, Bd. XXI, H. 1, 1903.
"17. G e h u c h t e n ,
V a n : Contributions s l'~tude des ganglions cdrSbrospinaux. Bruxelles 1892.
18. G o r o n o w i t s c h ,
N. Dr.: Der Trigemino-facialis-Komplex yon Lota
vulgaris. Festschrift zum siebzigsten Geburtstage yon C a r l G e g e n b a u r am 21. Aug. 189{i, dritter Band. Leipzig 1897.
19. H a l l e r , B. Dr.: Dcr Ursprung der Vagusgruppe bei den Teleostiern.
Mit Taf. I - - I V u. 1 Textfig. Festschrift zum siebzigsten Geburtstage
yon C a r l G e g e n b a u r am 21. Aug. 1896, dritter Band. Leipzig 1897.
20. H o l m g r e n , E m i l : Kurze vorlSufige Mitteilungen fiber die Spinalganglien der Selaehier und Teleostier. Mit 11 Abbild. Anat. Anz.,
Bd. XV, No. 8, 23. Okt 1898.
21. Derselbe : Zur Kenntnis dec Spinalganglienzellen yon Lophius piscatorius
Lin. Mit 2 Abbild. im Text und 32 Fig. auf Taft I X - - X V I I I . Anat.
Hefte, Erste Abt. Arbeiten aus anat. Institut, Heft X ~ ' ( V I I I (Bd. XII,
H. I), 1899.
22. Dersetbe: Weitere ~[itteihmgen fiber den Bau der Nervenzellen. Mit
13 Abbiht. Anat. Anz., Bd. 16, No. 15 16, 22. Sept. 1899.
2:~. Derselbe: Nvch weitcre Mitteilungen fiber den Bau der Nervenzellen
verschiedener Tiere. Anat. Anz., Bd. 17, No. 6/7, 1900.
24. Derselbe: Studien in der feineren Anatomie der Nervenzellen. Anat.
Hefte, Bd. 15. H. 1, 1900.
25. Derselbe: Weitere 5Iitteilungen fiber die ,SaftkanMchen ~ der Nervenzellen. Anat. Anz., Bd. 18, No. 11/12, 1900.
26. Derselbe: Beitr~ge zur Morphologie der Zelle. I. Nervenzellen. Anat.
Hefte, Bd. 18, H. 2, 1901.
27. Derselbe: Einige Worte fiber alas ,Trophospongium" verschiedener Zellarten. Anat. Anz., Bd. 20, No. 18, 1902.
28. Derselbe: Weiteres fiber das ,Trophospongium ~ der Nervenzellen und
der Driisenzellen des Salamander-Pankreas. Arch. f. mikr. Anat., Bd. 60,
1902.
29. Derselbe: L~ber die sogen. ~intrazellulSren F'~den ~ der Nervenzellen
von Lophius piscatorius. Mit 7 Abbild. Anat. Anz., Bd. :CXIII, l~o. 2/3,
8. April 1903.
3!). Derselbe: Beitriige zur Morphologie dec Zellen. II. Verschiedene Zellarten. Anat. Hefte, H. 75, Bd. 25, 1904.
3L Derselbe: T)ber die Tropbospongien zentraler Nervenzellen. Arch. f.
Anat. u. Phys., 1904, Anat. Abt., H. 1, p. 15--32. Mit 3 Taft
39_. K o l s t e r ,
R u d . : gTber bemerkenswerte Ganglienzellen im Riickenmark yon Perca fluviatiles. Mit 1 Abbild. Anat. Anz., Bd. XIV, No. 9,
p. 250--253.
*33. L e n h o s s ~ k : Arch. f. Anat. u. Phys., Anat. Abt, 1897.
Nervenelemente bei Gano'/den und Knochenfischen.
41
*34. L e v i , G.: La struttura dei gangli cerebrospinali nei Selaci e nei
Teleostei. Sperimentale Anno LX, No. 8, p. 242--248, 1906.
35. M a n n : Histological changes induced im sympath, mat. and sens. Nerve
Cells by fonctional activity. Journ. of Anat. and Pbysioh, Vol. 29, 1894.
36. M a n o u ~ l i a n :
Des l~sions des ganglions c~r~brospinaux darts la
vieillesse. C. lt. Soc. biol., Paris 1903, No. 3, p. 115.
37. Derselbe: Ann. de l'Institut Pasteur, 0ktobre 1906, p. 859 (zitiert nach
Metschnikoff,
Essais optimistes.
37a. Derselbe: Etude sur le m~canisme de la destruction des cellules
nerveuses clans la vieillesse et duns les Stats pathologiques. C. R. Ac.
Sc. Paris, 18. f~vr. 1907.
38. M a r i n e s c o , G.: ~I~canisme de la s~nilitd et de la mort des cellules
nerveuses. C.R. Acad. Sc. Par., T. 130, No. 17, p. 1136--1139, 1900.
39. Derselbe: Etudes histologiques sur le m~eanisme de s~nilit~. Revue
g5nerale des sciences, 30 d~cembre 1904, p. 1116.
40. 5 I e n c l , E.: ZurVakuolisation der Gangiienzellen. 5lit 2 Abbildungen.
Anat. Anz., Bd. XXVIII, No. 9/10, 1906.
41. Derselbe: Une petite notice sur la vaeuolisation des cellules nerveuses.
Anat. Anz., Bd. XXIX., No. 1/2.
42. 5 I e r t o n , Hugo, Dr.: Lrber ein intracellul~res Netzwerk der Ganglienzellen yon Tethys leporina. Mit 2 Abbild. Anat. Anz., Bd. XXX,
1907, No. 17 und 18.
43 ~ e m i l o f f , A.: Zur Frage der Nerven des Darmkanals bei den Amphibien. 3 Tafeln. Arb. d. St. Petersb. naturforsch. Gesellsch., Abt. f.
Zool. u. Physiol., T. XXXII, H. 2, p. 59--88.
44. Derselbe : Zur Frage tiber den B a u d e r Fettzellen bei Acipenser ruthenus.
Mit 6 Abbild. Anat. Ariz., Bd. XXVIII, No. 21 u. 22, 1906.
44a. N i l s A n t o n i : ,Deltabildungen ~ ( H o l m g r e n ) und derartige Strukturen
bei den Ganglienzellen yon Lophius.
Anat. Anz., Bd. XXXI, 1907,
No. 7/8.
45. 0 b e r s t e i n e r :
Anleitung beim Studium des Baues tier nervSsen Zentralorgane. Leipzig-Wien 1896.
"45a. O r z e e h o w s k y : Kernteilungsfiguren in Ganglienzellen. Verh. Psychiatr.
u. Neural. Wien Sitzung v. 12. Juni 1906. Wiener klin. Wochenschrift,
1906, No. 34, nach Referat in Neurol. Zentralb., Jahrg. 25, 1906, No. 21,
p. 1016.
46. P e w s n e r - N e u f e l d ,
R.: lJber die Saftkan~lchen in den Ganglienzellen
des Riickenmarks und ihre Beziehungen zum pericellul~ren Saftlttckensystem. Anat. Anz., Bd. 23, No. 16/17, 1903, p. 1--23, mit 2 Taft und
1 Figur.
47. P l a t e , L.: Uber regenerative Amitose, Degenerationserscheinungen
und Phagocytose in den AtemrShren der Janellen. Hierzu Taf. XXVIII.
Arch. f. mikr. Anat., Bd. 51, 1898.
48. P u g n a t , C. A.: De la destruction des cellates nerveuses par les leucocytes chez les animaux '~g~s. C. Rend. Soc. biol. 1898, No. 8, p. 242.
42
Anton Nemiloff:
49. R a m 6 n C a j a l : Un sencillo metodo de coloraeione del reticulo protoplasmico y sus efectos en los diversos centras nerviosos de vertrebratos
y invertebratos. Trabajos del lab. de investig, biolog, de la Univ. de
Madrid, T. II. p. 129, 1903.
50. Derselbe: Tipos celulares de los ganglios sensitivos del hombre y mamiferos, Trabajos del lab. de investig, biolog, de la Univ. de Madrid.
T. IV, fasc. 1. y 2, Madrid 1905.
50 a Derselbe : L'appareil reticulaire de Golgi-Holmgren colors par le nitrate
d'argent. Travaux du Laboratoire de recherches biologiques de l'Universit6 de Madrid T. V (X de la ~Revista Trimestral micrografica ~)
Fascicule 3 ~ Juillet 1907.
51. R a n v i e r : Traite technique d'histologie, russische ~:bersetzung unter
d. Redakt. v. T a r e h a n o f f , St. Petersburg 1881.
52. R i l v i n g t o n , B.: A preliminary communication on the changes in nerve
cells after poisoning with the venom of the australian tigersnake (Hoplocephalus Curtus). Journ. Phys. Cambridge, Vol. 28, No. 6, p. 426--430,
9 Fig.
53. Rohdc, E.: Untersuchungen fiber den Bau der Zelle IV. Zum histologischen Wert der Zelle. Zeitschr. wiss. Zoologie, Bd. 78, H. 1, 1904,
p. 1--148, 7 Tar., 102 Fig.
54. Rfi~.i~ka, V l a d i s l a v : Zur Geschichte uad Kenntnis der feineren
Struktur der Nukleolen zentralcr Nervenzellen. ~lit 1 Abbild. Anat.
Anz., Bd. XVI, 8. November 1899, No. 21 u. 22.
55. S a c u s s e w , S.: Die Nervencndigungen im Darmkanal der Fische. Arb.
d. Naturf. Gesellschaft in St. Petersburg. Zool. und Physiol. Abteilung~
Bd. XXVIII, Lief. 4 (russ.).
55a. Saigo: Uber die Altersver~nderungen der Ganglienzellen im Gehirn.
Virchows Arch., 0kt. 1907, Bd. 190, H. 1.
56. S a r g e n t , P o r t e r E d w a r d : The Giant Ganglion Cells in the Spinal
Cord of Ctenolabrus coeruleus. With 10 Fig. Anat. Anz., Bd. XV, 1899,
p. 212--225.
57. S c h u b e r g , A. und S e h r S d e r , 0.: Myxosporidien aus dem Nervensystem und der Haut der Baehforelle (Myxobolus neurobius n. sp. und
H e n n e g u y a nfisslini n. sp.). Hierzu Taf. III. Arch. f. Protistenkunde,
Bd. VI, Jena 1905.
58. S j S v a l l , E i n a r : 0bet die Spinalganglienzellen des Igels. Ein neuer
Befund yon krystalloiden Bildungen in Nervenzellen. Die intracellul~ren
,,Kan~lchen" Systeme. Anat. Hefte, Abt. I, H. 58 (Bd. 18, H. I), p. 239
bis 266. Mit 2 Taf.
59. S m i r n o w , A. E.: Einige Beobachtungen fiber den Bau der Spinalganglienzellen bei einem viermonatl, menschl. Embryo. Arch. f. mikr.
Anat., Bd. 59, H. 3, p. 459--470.
60. S t a n n i u s , H.: Das peripherische Nervensystem der Fische, anat. und
physiol, untersucht. Mit 5 Steintafeln. Rostock 1849.
61. S t i e d a, L.: Studien fiber das zentrale Nervensystem der Knochenfische.
Mit Tar. I und II. Zeitschr. f. wissensch. Zoologie, Bd. 18, 1868.
Nervenelemente bei Ganoiden und Knochenfischen.
43
62. S t u d n i ~ k a , F. K.: Beitritge zur Kenntnis der Ganglienzellen. III.
TJber endocelluliLre und pericelluli~re Blutkapillaren der grossen Ganglienzellen yon Lophius. Sitz.-Ber. bShm. Ges. Wiss. Prag 1903. Mit I Taf.
63. S z a w i n s k a , W.: Recherches sur le syst~me nerveux des S~laciens.
Arch. Biol., T. 15, F. 3, p. 463--509 ar. 2 pl. et 6 Fig.
64. T a g l i a n i , G i u l i o : Ricerche anatomiehe intorno alla midolla spinale.
del l'0rthagoriscus mola. Monit. Zool. ital., Bd. V, 1894, p. 248--258.
65. Derselbe: Intorno a'cosi detti lobi accessorii e alle cellule giganti della
midolla spinale di alcuni Teleostei. Boll. d. Soe. d. nat. in Napoli, Ser. I,
Vol. 9, 1895, p. 60--69.
66. Derselbe: Conside~azioni morphologiche intorno alle cellule nervose
colossali dell' Amphioxus lanceolatus e alle cellule nervose giganti del
midollo spinale di alcuni .Teleostei. ~Ionit. Zool. ital., Vol. 8, 1897,
p. 264--275.
67. Derselbe: (~ber die Riesennervenzellen im Riickenmarke yon Solea
impar. Anat. Anz., Bd. XV, 1899, p. 234--236.
68. T s e h a s s o w n i k o f f ,
S. G.: Zur Frage fiber die Herkunft und Bedeutung der ,,Saftkan~lehea" in den Nervenzellen. Fragen tier Neuropsychischen Medizin, Bd. 1, 1903, pag. 1--27, 2 Taft (russiseh).
69. V a l l ~ e , P.: St~r Ies l~sions seniles des ganglions ne[veu• du chien.
C. Rend. Soe. biol., Paris 1903, No 3, p. 127--128.
Erklarung der Abbildungen auf Tafel I--II.
Fig.
Fig.
Fig.
Fig.
Fig.
Fig.
T a f e l I.
Bipolare Nervenzelle.
k ~ Zellhiille; n ~ Zellkern; ax
Zellfortsiitze; pr ~ R a n v i e r s c h e
Schntirringe.
Ganglion des:
Trigeminus - facialis - Komplexes. Lota vulgaris. Methylenblau.
Reichert, Obj. 7, Tubusl:,tnge 180. Kamera lucida.
2. U n i p o l a r e Z e l l e . n ~ Kern; Ganglion des Trigeminus-facialis=
Komplexes. Lota vulgaris. Methylenblau. Reichert, Obj. 7. Kamera
lucida.
3. M u l t i p o l a r e
Nervenzelle.
d z Dendl'iten; ax ~ Nervenfortsatz. Ganglion n. vagi. Lota vulgaris. Methylenblau. Reichert,
Obj. 5. Kamera lucida.
4. M u l t i p o l a r e
Nervenzelle.
d : Dendriten; ax : Nervenfortsatz. Ganglion n. vagi. Lota vulgaris. Methylenblau. Reichert,
Obj. 7 a. Kamera lucida.
5. M u l t i p o l a r e
Nervenzelle.
d ---- Dendriten; ax ~-~ Nervenfortsatz. Ganglion n. vagi. Lota vulgaris. Methylenblau. Reichert,
Obj. 7 a. Kamera lucida.
6. R i e s e n n e r v e n z e l l e .
k ~ Hiille;]~d ---- Dendriten; e ---- r~tselhafte kleine Zelle, welche gew(ihn]ich die Riesenzel]en begleitet;
ax = Nervenfortsatz. Ganglion n. vagi. Lota vulgaris. Methylenblau. Reichert, Obj. 7 a. Kamera lucida.
1.
44
Anton
Nemiloff:
Fig.
7.
Riesennervenzelle.
k ~ tt[ille; d ~ Dendriten; ax == Nervenfortsatz. Ganglion n. vagi. Lota vulgaris. ~[ethylenblau. Reichert,
Obj. 7. Kamera lucida.
Fig.
8.
Riesennervenzelle.
k -----fIfille; n = Zellkern; d ~---Dendriten;
ax = Nervenfortsatz. Ganglion n. vagi. Lota vulgaris. Reichert,
Obj. 7. Kamera lucida.
Fig.
9.
Riesennervenzelle,
yon einem perizellul~ren
Geflecht
u m g e b e n , d = Dendriten; nz ---~ Nervenzelle; ps = perizellul~res
Geflecht; e ~--- r~tselhafte kleine Zelle, welche gewShnlich die
Riesenzellen begleitet; ax =: I%rvenfortsatz. Ganglion n. vagi.
Lota vulgaris. Reiehert, Obj. 5. Kamera lucida Leitz.
:Fig. 10.
PerizellulSres
G e f l e c h t yon Nervenfasern um Riesenzellen.
Infolge der betri~chtlichen Dtinne der Astchen ist es auf der Figur
nicht gelungen wiederzugeben, dass dieselben in verschiedenen Ebenen
gelegen sind. Das Geflecht erseheint ausserdem auf der Figur zu
flach, wahrend es tatsi~chlich stark gewSlbt ist; m n = markhaltige
Nervenfaser; pr = R a n v i e r s c h e Schnfirring; ps ---~ perizellul'~res
Geflecht. Ganglion n. vagi. Lota vulgaris. Nethylenblau. Reichert,
Obj. 7a. Kamera lucida.
Fig. 11.
Gruppe yon Nervenzellen
aus einem sympathischcn
G a n g l i o n . k ~ Hiille; n = Kern; d ~ Dendrit; ax ~ Nervenfortsatz. Zentrale sympathische Kette. Lota vulgaris, l~[ethylenblau. Zeiss, Obj. 4,00 mm, apert. 0,95. Kamera lucida.
Fig. 12.
Fig. 13.
T a f e l II.
Bau der Hfille einer Nervenzelle.
fk ~ fibrill::~re tItille;
sk = S c h w a n n s e h e Scheide; c = Protoplasma der Nervenzelle;
n = Kern; nu = KernkSrperchen.
Spinalganglion.
Acipenser
ruthenus. H e r m a n n s c h e Fltissigkeit. Zeiss, Homog. Immers. ~/~.-,.
Kamera lucida.
Bau der Hfille einer Nervenzelle.
EinGefleeht gebildet yon
Forts~tzen sternfSrmiger Zellen, welche der Innenfl:~che des Neurilemms anliegen; die Balken dieses Geflechtes durchziehen das
Mark und bilden ein Gertist desselben. Der Deutlichkeit wegen
ist das Geflecht nur auf einer Seite der Zelle abgebildet und diese
letztere nicht gezeichnet. Auf der Figur ist es jedoch leider nicht
gelungen, wiederzugeben, dass die Netzf'~den in der x3fyelinschicht
in verschiedenen Ebenen verlaufen. Beim Fixieren mit Ammoniummolybdat ist in der Markscheide eine Falte entstanden, welche in
der Figur nicht gut wiedergegeben ist; schz ~ Sternzellen, welehe
tier Innenfl~ehe des Neurilemms anliegen; n = Kern einer Sternzelle; spl---~ das yon den Forts'~tzen der sternfSrmigen Zellen
gebildete Netz, welches ein Gertist der l~Iarkscheide darstellt:
rk = Falte, die sich im Pr'~parat nach tier Fixierung gebildet hat.
Ein Ganglion des Trigeminus-facialis Komplexes. Lota vulgaris.
Methylenblau. Zeiss, Homog. Immers. ~/~. Kamera lucida.
Nervenelemente bei Ganoiden und Knoehenfischen.
Fig. 14.
Fig. 15.
Fig. 16.
Fig. 17.
Fig. 18.
Fig. 19.
45
Trophospongien
einer Nervenzelle
im Durchschnitt.
k ~ Htille der Hervenzelle ; n : Kern einer Hiillenzelle ; c ---- Protoplasma der Nervenzelle; t r ~ Trophozyt; t n ~ Kern eines Trophozyten; trp ~- Fortsi~tze yon Trophozyten (Trophospongien); n z - - Kern der Nervenzelle; nuc ~--- KernkSrperchen. Acipenser rathenus.
Fixiert im Gemisch yon L e n h o s s ~ k; gef~trbt mit Hiimatoxylin
nach t t e i d e n h a i n ; e i n g e b e t t e t in Celloidin-Paraffin. Zeiss, Homog.
Immers. 1,5 ram, Apert. 1,30. K a m e r a lucida.
Eindringen
yon Leukozyten
in eine Nervenzelle.
K ---- Htille einer Nervenzelle ; k n ---- Kern einer Hfillenzelle ; nz ~-Kern der Nervenzelle; chr ~ Chromatin teilweise aus dem K e r n
ausgetreten; 1 ---- Leukozyt; lg ~ die bei seinem Vordringen in
dem Cytoplasma yon dem Leukozyten zurtickgelassene Spur in
Gestalt eines Kanals. Cerebrospinales Ganglion. Acipenser ruthenus.
Fixiert in Chromessigsi~uregemisch; gefSrbt mit Safranin und
Lichtgrtin; eingebettet in CelIoidin-Paraffin. Zeiss, Homog. Immers.
1,5 mm~ Apert. 1,30. K a m e r a lucida.
Einwachsen
der Bindegewebshtille
in eine absterbende
Nervenzelle.
Nur der Rand der Nervenzelle ist abgebi]det.
nz ~ Cytoplasma der Nervenzelle; k ~ fibrill~re Hiille.
Aus
einer Schnittserie; auf den folgenden Sehnitten wiichst die Hiille
ungeffdlr senkrecht zur Schnittebene (resp. Ebene der Zeichnung)
vor, darauf wieder gegen das Zentrum der Zelle. Ganglion n. vagi.
Riesenzelle. Lota vulgaris. Fixiert in Chromessigsiiuregemisch,
gef~rbt mit Eisenh:cimatoxylin; eingebettet in Paraffin. Zeiss,
Homog. Immers. 1/1.. K a m e r a lucida.
Vakuolisierung
des Protoplasma
einer Nervenzelle.
nz = Protoplasma der Nervenzelle; v = Vakuolen; n ---~Kern der
Nervenzelle; nuc ~ KernkSrperchen
Spinalganglion. Fixiert in
Chromessigsi~uregemisch; gefitrbt in Safranin und Lichtgrtin; eingebettet in Celloidin-Paraffin. Zeiss, Homog. Immers. ~/1~., Tubusli~nge 180. Kamera lucida.
Austritt
des KernkSrperchens
i n alas C y t o p ! a s m a
und Vakuolen.
n ~ Kern der Nervenzelle; nuc ---- K e r n k6rperehen wi~hrend seines Austrittes aus dem K e r n ; nz = Protoplasma der Nervenzelle; v ~ Vakuolen; Spinalganglion. Acipenser
ruthenus. Fixiert in Chromessigs~uregemisch; gef~rbt in H~matoxylin nach H e i d e n h a i n und B o r d e a u x , R. ; eingebettet ir~
Celloidin-Paraffin. Zeiss, Homog. Immers. I/~, Tubusl~nge 180 ram.
Kamera lucida.
Bau des KernkSrperchens
einer Nervenzelle.
sl =
starklichtbrechende Gebilde in der Substanz des KernkSrperehens;
1 ----- schwiieher lichtbreehende Gebilde in der Substanz des K e r n kiirperchens. Spinalganglion. Acipenser ruthenus. Fixiert im Gemisch yon L e n h o s s ~ k ;
gefi~rbt mit Hi~matoxylin nach H e i d e n h a i n ; eingebettet in Celloidin. Zeiss, Homog. Immers. 1,5 ram,
Apert. 1,30. Kamera lucida.
46
Fig. 20.
Anton
Nemiloff:
Nervenelemente bei Ganoiden etc.
Austritt
des Kernkiirperchens
in das Cytoptasma.
nz ---- Protoplasma der Nervenzelle; i -~-- K e r n ; s ~--- die vom
Kernkiirperchen bei seinem D u r c h t r i t t durch das Cytoplasma nachgelassene Spar; nuc : KernkSrperchen. Spinalganglion. Acipenser
ruthenus.
Fixiert im Gemisch yon L e n h o s s ~ k; gef~trbt mit
Safranin; eingebettet in Celloidin-Paraffin. Zeiss, Homog. Immers.
1,5 ram, Apert. 1,30. K a m e r a lucida.
Fig. 21. S t i i b e h e n f S r m i g e s
Gebilde im Kern.
nz ---~ Cytoplasma;
i ---- Kern; nuc ---- KernkSrperchen; kr ---- intranuklei~res, sti~bchenf(irmiges Gebilde. Ganglion n. vagi. Lota vulgaris. Fixiert ill
einer ges~ttigten SublimatISsung in pbysiologischer KochsalzlSsung ;
gefiirbt mit H~tmatoxylin nach H e i d e n h a i n - B o r d e a u x R. ;
eingebettet in Celloidin. Zeiss, Homog. Immers. 1/12. K a m e r a lucida.
Fig. 22. E i n s c h l i i s s e
im Kern
einer Nervenzelle.
Der Kern
offenbart charakteristisehe Ver~nderungen der Form sowie stellenweise Reduktion der Kernmembran. r ~ intranukle~res Gebilde;
i ---- Kern; i s ~ Stelle einer Reduktion der Kernmembran. Ganglion n. vagi. Riesenzelle. Lota vulgaris. Fixiert im Gemisch yon
L e n h o s s 4 k; gefi~rbt mit Eisenh~matoxylin ; eingebettet in P a raffin. Reichert, Homog. Immers. 18b. Kamera lucida.
Fig. 23. K o n z e n t r a t i o n
des Chromatins
im peripheren
Teil
des Kerns
ciner Nervenzelle.
~ ~ Hfille; kn ~ Kern
einer Hiillenzelle; 1 ~ Leukozyt ; i --~Kern; nuc ~ KernkSrperchen :
chr ~ Chromatin. Spinalganglien. Acipenser ruthenus. Fixiert
in Chromessigsiiuregemisch; gefSrbt in Safranin-Lichtgriin; eingebettet in Celloidin-Paraffin.
Zeiss, Homog. Immers. 1,5 mm.
kpert. 1,3(}. Kamera lucida.
Fig. 24. G e l a p p t e r
Kern
einer 5IervenzelIe.
nz ~ Cytoplasma
der 1Nervenzelle; i ~- K e r n ; nnc ~ Kernkiirperchen. Ganglion
n. vagi. L o t a ~,ulgaris. Fixiert im Gemisch yon L e n h o s s ~ k ;
gef~trbt mit H~imatoxylin nach H e i d e n h a i n ;
eingebettet in
Celloidin-Paraffin. Zeiss, Homog. Immers. 1/~2. Kamera lueida.
Fig. 25. G e l a p p t e r
Kern
einer
Nervenzelle.
k ~ Htille der
Nervenzelle ; i ~ Kern der Nervenzelle ; nz ---- Cytoplasma. Gang|.
n. vagi. Lota vulgaris. Fixiert im Gemiseh yon L e n h o s s ~ k ;
gef~rbt in H~matoxylin naeh H e i d e n h a i n ; eingebettet in
Celloidin-Paraffin. Zeiss: Homog. Immers. ~/12. Kamera lucida.
Fig. 26--28. G e l a p p t e K e r n e
yon Nervenzellen.
k ~ Hiilh.;
nz ~ Frotoplasma; i ~ Kern. Ganglion n. vagi. Lota vulgaris.
Methylenblau. Reiehert, Obj. 5. Kamera lueida.
Fig. 29. E i n B f i n d e l q u e r g e s t r e i f t e r
~uskelfasern
im interstitiellen
Gewebe eines Ganglions.
mp~quergestreifte
Muskelfasern; mn ----- Kerne der quergestreiften Muskelni ig
interstitielles Gewebe. Ganglion n. vagi. Chromessigs~uregemisch.
Hi~matoxylin nach H e i d e n h a i n .
Zeiss, Homog. Immers. ~/,~.
Kamera lucida.
Samtl. Zeichnungen sind mit Hfilfe d. Zeichenprisma yon Leitz ausgefiihrt worden.
~
7_
B
-o
C7:
;~;!,
J
i;
I
i
I
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,} ";:"
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https://openalex.org/W2992869691
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https://europepmc.org/articles/pmc6896344?pdf=render
|
English
| null |
Garden-based interventions and early childhood health: a protocol for an umbrella review
|
Systematic reviews
| 2,019
|
cc-by
| 6,715
|
Abstract Background: Garden-based interventions have the potential to impact young children’s health in a number of
ways, including enhancing dietary intake, increasing outdoor physical activity, diversifying the gut microbiome, and
promoting general wellbeing. A number of recent systematic reviews have either included or focused on garden-
based interventions for young children. However, most prior reviews including young children only focus on one
health outcome or one setting, making a full summary of prior research assessing the impact of garden-based
interventions nonexistent. As such, this umbrella systematic review aims to synthesize the literature on health
outcomes of garden-based interventions for young children. Methods: This protocol outlines the systematic steps we will take to conduct an umbrella review on health-related
outcomes of garden-based interventions in children younger than 6 years of age. We will systematically search
PubMed, PsycINFO, ERIC, CINAHL, Embase, Scopus, OVID-Agricola, and CAB Direct, including all systematic reviews
and meta-analyses fitting the pre-determined inclusion/exclusion criteria. We will double screen at each phase of
the review: title/abstract, full text, data extraction, and quality appraisal. We will assess the quality of included
reviews using A Measurement Tool to Assess Systematic Reviews (AMSTAR 2). Based on the potential for stark
variability in what how reviews report child health outcomes, we will analyze the reviews both narratively and
quantitatively, reporting summary of findings tables and iteratively mapping the results. This protocol aligns with
the Preferred Reporting Items for Systematic Reviews and Meta-Analyses Protocols statement (PRISMA-P). Discussion: This umbrella review aims to summarize the role that garden-based interventions play in health
promotion for young children. We will focus on a number of diverse child health outcomes in an effort to
comprehensively synthesize the evidence to inform future garden-based interventions, research, and policy. Systematic review registration: PROSPERO CRD42019106848 Systematic review registration: PROSPERO CRD42019106848 Systematic review registration: PROSPERO CRD42019106848 Keywords: Gardening, Young children, Farm to preschool © The Author(s). 2019 Open Access This article is distributed under the terms of the Creative Commons Attribution 4.0
International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and
reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to
the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver
(http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated. Garden-based interventions and early
childhood health: a protocol for an
umbrella review Kara Skelton1*
, Ann Herbert1 and Sara E. Benjamin-Neelon2 Skelton et al. Systematic Reviews (2019) 8:310
https://doi.org/10.1186/s13643-019-1229-8 Skelton et al. Systematic Reviews (2019) 8:310
https://doi.org/10.1186/s13643-019-1229-8 Background and food systems knowledge [1–3]. Research on garden-
based interventions in youth and adult populations have
shown associations between gardening and reductions in
anger, stress, anxiety, and body mass index (BMI). They
have also demonstrated improvements in cognitive func-
tioning, life satisfaction, mood, and overall quality of life
[4–7]. There is growing evidence that garden-based inter-
ventions may have additional benefits for young children,
such as stress reduction and improved mental health and
academic performance, suggesting interventions which are
garden-based may be able to improve multiple aspects of
health simultaneously [5, 8]. However, previous systematic Garden-based interventions have the potential to improve
a wide range of child health outcomes, including enhan-
cing dietary intake, increasing outdoor physical activity,
diversifying the gut microbiome, and promoting general
wellbeing. This may be due, in part, to the potential of
garden-based interventions to promote healthy eating and
physical activity, while enriching children with food origin * Correspondence: kara.skelton@jhu.edu
1Johns Hopkins Bloomberg School of Public Health, 624 N. Broadway, HH904,
Baltimore, MD 21205, USA
Full list of author information is available at the end of the article * Correspondence: kara.skelton@jhu.edu
1Johns Hopkins Bloomberg School of Public Health, 624 N. Broadway, HH904,
Baltimore, MD 21205, USA
Full list of author information is available at the end of the article Review methodology While a number of systematic reviews on garden-based
interventions for children exist [5, 6, 8, 10, 11, 22–24],
there has yet to be a comprehensive umbrella review that
summarizes the wide array of health benefits of garden-
based interventions for young children. As noted above,
existing systematic reviews on garden-based interventions
for children focus primarily on single health outcomes,
such as fruit and vegetable intake [11] or academic per-
formance [10]. Additionally, most reviews examined only
one type of gardening program (e.g., farm-to-preschool)
rather than exploring the multiple settings in which
garden-based interventions can be implemented [24]. Although there is a published review that looks more
broadly at the health impacts of gardening in school-aged
children, it included only one study with preschool-aged
children [8]. Additionally, due to the diversity in settings,
types, and benefits of garden-based interventions, we aim
to holistically evaluate and summarize existing systematic
reviews on garden-based interventions and health out-
comes for young children in a single umbrella review. Given the existence of systematic reviews on garden-based
interventions that focus on or include young children, we
will conduct an umbrella review, in accordance with the
Joanna Briggs Institute Methodology for Umbrella Reviews. The systematic review methodology outlined in this paper
will be used to strategically locate, synthesize, and evaluate
published systematic review- and meta-analysis-level evi-
dence on the role of garden-based interventions in the
health promotion of young children. Umbrella reviews are
able to systematically assess the highest levels of evidence
for an overall topic, while evaluating the quality of the evi-
dence concurrently [25, 27]. Therefore, this umbrella re-
view highlights strengths, as well as gaps, in the evidence
for garden-based interventions. We will assess the quality of included systematic reviews
on garden-based interventions, including both random-
ized studies and non-randomized studies, and with and
without a control or comparison group, appraising meth-
odological characteristics through the use of A Measure-
ment Tool to Assess Systematic Reviews (AMSTAR 2). Through this critical appraisal tool, this umbrella review
will also enable researchers and other stakeholders to de-
termine the quality of existing systematic review-level evi-
dence on garden-based interventions for young children. The following question will guide this umbrella review:
What role can garden-based interventions play in health
promotion for children aged 6 years and younger? To
successfully answer this question, we will explore the fol-
lowing objectives: 1. Skelton et al. Systematic Reviews (2019) 8:310 Page 2 of 8 2. To determine which garden-based interventions are
effective at improving child health and well-being
outcomes; reviews have primarily focused on single health outcomes
[9–12], leaving large gaps in what is known about the hol-
istic health and wellbeing impacts of gardening programs
for young children. 3. To identify the most prominent measures used to
detect and assess the health and wellbeing impacts
of garden-based interventions in young children; Prior garden-based intervention studies in young children
have found some improvement in dietary outcomes, such as
fruit or vegetable intake, willingness to try new foods, and
even BMI [13–15]. Younger children may be more willing
to taste and accept novel foods than older children [16], and
exposure to fruits and vegetables by age 5 years is vital for
establishing habitual consumption later in life [17]. Previous
research has also shown that hands-on experiences through
garden-based interventions may increase fruit and vegetable
consumption more than an intervention that merely in-
creases availability [3, 18]. Additionally, garden-based inter-
ventions have been utilized as a form of therapy for an array
of disorders and diseases, such as autism spectrum disorder
[19] and childhood cancer [20]. The benefits of improved
dietary and physical activity behaviors and increased nutri-
tion knowledge acquired from these interventions may have
the potential to seep through into other child health out-
comes, such as enhanced academic performance and im-
proved mental health [10, 21]. However, few review articles
have considered and assessed diverse child health outcomes
within the same article 4. To critically evaluate available garden-based
interventions on child health outcomes both
narratively and quantitatively; 5. To identify gaps in the literature and to highlight
potential areas of improvement for the scientific
field of garden-based interventions, including, but
not limited to study design, measurement, and child
health outcomes. Review methodology To identify and synthesize existing review articles,
ranging from narrative reviews to meta-analyses, on
garden-based interventions for young children; Protocol development This umbrella review protocol follows the Joanna Briggs In-
stitute Methodology for Umbrella Reviews [25]. This proto-
col was also developed to align with the Preferred Reporting
Items for Systematic Reviews and Meta-Analyses Protocols
(PRISMA-P) 2015 statement [26] (Additional file 1) and has
been registered with the PROSPERO database for systematic
reviews (#CRD42019106848). Intervention This umbrella review will include systematic reviews that
focus on or include garden-based interventions. As there is
no single definition of garden-based interventions due to
their complexity and variation in type and setting, we have
defined this term for the purposes of this review. Thus, we
define garden-based interventions as any intervention that
engages children in active learning about nutrition, food sys-
tems, agriculture, or environmental health through connec-
tions with outside fruit or vegetable gardens or farms, raised
garden beds, greenhouses, container gardens, microfarms,
or other alternative gardening methods. We will also include
farm-to-school and farm-to-child care programs, which typ-
ically link children with fruit and vegetables from local farms
or gardens. For young children, garden-based interventions
can occur in an array of settings, including homes, early care
and education programs (e.g., center-based child care or
preschool), community centers, community gardens, after-
school programs, and summer camps. Similarly, there are
numerous ways in which garden-based interventions can be
implemented. Some garden-based interventions are standa-
lone programs, and others may be integrated into broader
nutrition education programs that incorporate additional in-
terventions simultaneously. For the purposes of this um-
brella review, we will include reviews of any garden-based
interventions that meet the above criteria. This criterion is
intentionally broad to allow for a range of reviews and inter-
ventions to be included in this review. Inclusion criteria We used the population, intervention, context, outcome
and study design (PICOS) structure in formulating the Page 3 of 8 Skelton et al. Systematic Reviews (2019) 8:310 Page 3 of 8 scope of this umbrella review [27]. This enabled us to
precisely delineate a priori inclusion criteria for the um-
brella review. We will apply the inclusion criteria at both
the review and individual study level. For example, there
may be a review that meets our inclusion criteria, but
further examination at the individual study level reveals
there are no studies included within the review that
meet inclusion criteria. In this case, we would exclude
the review. In other words, there must be at least one
individual-level study that meets all inclusion criteria for
us to include the review. take place in any county or climate, or in a rural or
urban setting. Similarly, the garden-based interventions
could be designed for any type of young child, including
those of any gender and socioeconomic status. Garden-
based interventions that are focused on children with
certain health conditions, special developmental and or
psychological considerations, will also be included. Outcomes We will consider reviews that include any child-level health
or wellbeing outcomes. These include but are not limited to
weight or BMI, the gut microbiome, health-related behav-
iors (e.g., diet, physical activity, social interaction), academic
(e.g., knowledge or cognition), and mental health. We will
also include qualitative outcomes, including major themes
and concepts relating to garden-based interventions, where
reported. We will also consider adverse or unintended con-
sequences where noted in reviews. We will include reviews
that report both child and parent-level health outcomes, but
only the child-level outcomes will be extracted and included
in the analysis. We will exclude reviews that focus solely on
parent-, school-, or community-related outcomes. Types of studies For this review, we will include only systematic reviews. In-
cluded reviews could have conducted meta-analysis or nar-
rative synthesis as part of their analysis. We will define a
systematic review with guidance from the PRISMA-P 2015
statement. A systematic review will be defined as a review
which (a) has an explicit set of aims; (b) employs a reprodu-
cible methodology, including a systematic search strategy
and selection of studies; and (c) is a systematic presentation
and synthesis of the characteristics and findings of included
studies [26]. We will exclude review articles that do not
meet this definition of a systematic review. We will also ex-
clude individual primary studies. There are no limitations
for study designs included in the reviews; any systematic
review reporting data about child-level health and overall
wellbeing benefits of garden-based interventions for children
younger than 6 years will be included. We will include
systematic reviews that are randomized (e.g., randomized
controlled trial), quasi-randomized, and non-randomized
designs (e.g., pre-post design, non-randomized trial). We will
exclude systematic reviews that examine qualitative studies. We will include only full review articles published after
1990, as is best practice with umbrella review methodology
[27]. Additionally, we will include only peer-reviewed litera-
ture (i.e., we will exclude dissertations and conference ab-
stracts) (Table 1). Participants This umbrella review will include systematic reviews that in-
clude children younger than 6 years of age. For inclusion, re-
views do not have to be focused solely on our age range of
interest. However, children younger than 6 years must be
within the included age range of at least one included article
included in the review. We will not exclude participants
based on gender or any other socioeconomic-related factors. Pilot search We conducted a pilot search strategy for all databases
listed above (Table 2). We utilized key terms and con-
trolled vocabulary for each database. We used five key
review papers as “targets” to ensure the pilot search lo-
cated the types of articles we wanted to include. The
pilot search included all search terms. As we wanted to
make sure we were not losing a large number of system-
atic reviews due to the date restrictions, we ran the pilot
search without date restrictions. As we did not find any
relevant systematic reviews on this topic for any data-
base prior to 1990, we will include the restriction in the
final search strategy. Additionally, we slightly adapted
search terminology to ensure we capture all relevant
farm-to-school and farm-to-childcare reviews. Adapta-
tion involved the inclusion of additional terminology
and removal of terminology that was not relevant to
yield all potentially eligible reviews. The final search
strategy to be used for the umbrella review is presented
in Additional file 2. Search strategy
Database search Similarly, when included
systematic reviews have been cited more than 200 times,
the citation searches will be limited to the first 200 most
recent citations. As Cochrane reviews are updated fre-
quently and may be published in peer-reviewed journals
in addition to the Cochrane database, we may retrieve
more than one review published by the same author(s) on
the same topic (e.g., an update of an existing review). If
this circumstance arises, we will only include the most re-
cent version of the review. However, we will cite to previ-
ous versions of the review. Search terms We will search the abovementioned electronic databases
using database-specific controlled vocabulary and key
terms. We developed this search strategy using terms for
gardening and young children that have been utilized in
previous reviews [8, 23, 24, 28] as well as additional
terms that were selected to capture the breadth of the
body of literature. To ensure completeness, we drafted
the search strategy in collaboration with a Medical Search strategy
Database search We will not employ any limitations related to the con-
text in which the garden-based interventions take place. Reviews can include garden-based interventions that We will search the following databases from 1990 onward:
PubMed, PsycINFO, ERIC, CINAHL, Embase, Scopus, Skelton et al. Systematic Reviews (2019) 8:310 Page 4 of 8 Table 1 Study inclusion and exclusion criteria
Inclusion criteria
Exclusion criteria
Study type
Systematic reviews, with or without meta-analysis
All other study types (e.g., qualitative systematic review,
non-systematic reviews, individual studies)
Study period
Reviews published in or after 1990
Reviews published prior to 1990
Participants
Children younger than 6 years of age
Children 6 years of age and older
Primary outcomes
Any child-level health or wellbeing outcome
Any non-child-level outcomes (e.g., parent or
community-related outcomes)
Intervention/program type
Garden-based interventions or programs
Reviews that do not include garden-based interventions
or programs Reviews that do not include garden-based interventions
or programs OVID-Agricola, and CAB Direct. Additionally, we will
search
systematic
review
databases,
including
the
Cochrane Register of Systematic Reviews, the Joanna
Briggs Institute Database of Systematic Reviews and Im-
plementation Reports, and PROSPERO. We will also
search the first 200 results of Google Scholar, when sorted
in relevance ranking, for review and meta-analyses articles. Additionally, we will conduct reference list and citation
searches for all included articles. Similarly, when included
systematic reviews have been cited more than 200 times,
the citation searches will be limited to the first 200 most
recent citations. As Cochrane reviews are updated fre-
quently and may be published in peer-reviewed journals
in addition to the Cochrane database, we may retrieve
more than one review published by the same author(s) on
the same topic (e.g., an update of an existing review). If
this circumstance arises, we will only include the most re-
cent version of the review. However, we will cite to previ-
ous versions of the review. Librarian who specializes in systematic reviews and an
expert in early childhood gardening research. OVID-Agricola, and CAB Direct. Additionally, we will
search
systematic
review
databases,
including
the
Cochrane Register of Systematic Reviews, the Joanna
Briggs Institute Database of Systematic Reviews and Im-
plementation Reports, and PROSPERO. We will also
search the first 200 results of Google Scholar, when sorted
in relevance ranking, for review and meta-analyses articles. Additionally, we will conduct reference list and citation
searches for all included articles. Study screening The lead and second reviewer will carry out the initial
database search. To manage the blinded title and ab-
stract screening process, we will utilize Covidence Soft-
ware (Covidence Systematic Review Software, Veritas Table 2 Pilot search results, from 1990 to January 9, 2019
PubMed
PsycINFO
ERIC
CINAHL
Scopus Embase
Google
Scholar
CAB Direct
Agricola
Search strategy details in
Additional file 2
10, plus
MeSH terms
10, plus DE
terms
10, plus SU
terms
10, plus MJ
terms
10
10, plus
Emtree terms
1 AND 2
AND 3
10, plus PG
terms
1 AND 2
AND 3
Number of hits
12,601
518
610
498
1,753
92
200
378
0
Target papers
Savoie-Roskos
✓
✓
✓
✓
✓
Davis
✓
✓
Ohly
✓
✓
✓
✓
Masset
✓
✓ Table 2 Pilot search results, from 1990 to January 9, 2019
P bM d
P
INFO
ERIC
CINAHL
S Page 5 of 8 Page 5 of 8 Skelton et al. Systematic Reviews (2019) 8:310 Page 5 of 8 Health Innovation, Melbourne, Australia). As citations
are imported into Covidence, they will automatically be
de-duplicated based on an exact match of the title, date,
and author. Following the comprehensive search, screen-
ing of the titles and abstracts will occur independently
by three reviewers split into two teams. Within Covi-
dence, each citation will be screened, using a priori
inclusion and exclusion criteria and then categorized as
“No,” “Maybe” or “Yes.” Through Covidence, the citation
will be automatically filtered into one of three lists:
“Irrelevant,” “Resolve Conflicts,” and “Full text review.”
For a citation to be added to the “Irrelevant” list, a “No”
must be cast by both reviewers; if there is a disagree-
ment between the two reviewers, the citation will move
to the “Resolve Conflicts” list. A citation will move auto-
matically to “Full text review” with any combination of
“Maybe” and “Yes” received by a team of reviewers. Dis-
agreements between reviewers will be resolved using
consensus, and by a third reviewer if necessary. that are relevant to the umbrella review questions; (8)
funding sources for each review; (9) main findings rele-
vant to the review question; and (10) comments or notes
regarding included studies. Quality appraisal Quality appraisal
In addition to data extraction, a quality appraisal for
each systematic review will be conducted using the
AMSTAR 2, which is updated to allow for both random-
ized and observational studies [29]. The recent update to
the original AMSTAR tool addresses the more modern
need for policy and research decision making that ac-
count
for
“real-world
observational
evidence”
[29]. AMSTAR 2 is an appraisal tool consisting of 16 items
with the following response options: Yes, Partial Yes,
No. The AMSTAR has been evaluated and shown to be
both valid and reliable [30]. Please note that AMSTAR 2
was not intended to be scored, and as such we will not
score this tool. To evaluate quality, two reviewers will in-
dependently extract relevant data based on the AMSTAR 2
for each included article. Any disagreements between re-
viewers will be resolved among themselves first through
discussion and by a third reviewer if the reviewers are un-
able to achieve consensus. We will not exclude reviews
based on results of their quality assessment. Rather, we will
conduct the quality assessment to critique the strength of
evidence generated. Once the list of citations moving forward to full-text
review is complete, the research team will gather articles
in their full-text, PDF form with assistance from a med-
ical librarian. During full text screening, both reviewers
must agree on a final inclusion/exclusion decision as
well as the accompanying rationale. If the authors can-
not determine eligibility after full-text review, we will
contact the review authors to assist in determining eligi-
bility. We will document all reasons for exclusion
throughout the full text screening phase in Covidence. After exhausting all efforts to retrieve full-text for a
citation, the full text cannot be retrieved, it will be ex-
cluded. Additionally, should there be duplicates at this
level, we will exclude them. Only those articles meeting
all inclusion criteria will move forward for data abstrac-
tion. The number of included studies from search
through data extraction will be automatically created
using a PRISMA flow diagram within Covidence. Study screening For each review article, we
will also extract information for individual primary stud-
ies meeting inclusion criteria, including, but not limited
to citation details, child characteristics, setting, interven-
tion type and design, results, limitations, and conclu-
sions to enable us to account for overlap at the primary
study level. We will be limited to data extraction at the
individual study level based on what is presented in
the review. The data extraction form is included as
Additional file 3. We will contact corresponding au-
thors for any missing data or for clarification of un-
clear items. Reporting of findings For this umbrella review, we will report a summary of
findings from all included reviews based on data synthe-
sis, presenting a comprehensive overview of what is
known in the literature on the role of garden-based in-
terventions in health promotion for children aged 6 years
and younger. We will create the summary of findings ta-
bles from extracted data, directly mapping findings to
our research questions per the Joanna Briggs Institute
methodology for conducting an umbrella review [25]
and the Cochrane Handbook’s Methodology for con-
ducting an overview of reviews [32]. We will take a
mixed-methods approach to synthesizing the review lit-
erature, utilizing both qualitative methods (e.g., narrative
synthesis) and quantitative methods (e.g., numerical pat-
terns or associations). In line with the research questions
guiding this umbrella review, we plan to highlight the
strengths and weakness of included systematic reviews,
as well as describe any evidence gaps we identify. We
also plan to report on effectiveness of garden-based
interventions. For this, we will present a grid of interven-
tion components and child health and well-being out-
comes, noting directionality of each outcome. We plan
to summarize the setting, outcome measures, numbers
of children, and pooled results from each review, includ-
ing implications for future research and practice through
tables and narration, as appropriate. When reporting
findings in tabular form, we will present child health
outcomes across included reviews, stratifying tables by
review methodology (e.g., all evidence gained from re-
views of randomized controlled trials) and child health
outcome (e.g., reporting evidence on academic perform-
ance separately from nutrition outcomes). For child
health outcomes, we anticipate reporting tabular results
in the following categories: child nutrition outcomes,
academic performance, education, mental health and so-
cial skills, gut microbiome, and physical activity. For
child nutrition outcomes, we anticipate a need to break
down results further, in which case we will report results
in the following categories: (1) intake, reporting separ-
ately on fruit and vegetable intake as allowed; (2) selec-
tion, reporting fruit and/or vegetable selection and
preference outcomes; and (3) biometric and anthropo-
metric outcomes (e.g., body mass index, wasting, etc.)
Where tabular presentations of results are presented,
they will be accompanied by detailed descriptions. As we
are including a broad range of health outcomes, we
expect included reviews to report on child health out-
comes in different ways and will be limited to what is re-
ported. Confidence in evidence During the full text data extraction phase, two reviewers
will independently extract article data directly into Covi-
dence. Using recommendations for relevant data fields
for umbrella reviews from Aromataris et al. 2015 [27],
we will collect the following data, at minimum, from
each eligible systematic review: (1) citation details; (2)
purpose/objectives of the included review; (3) review
methodology (e.g., meta-analysis, narrative synthesis); (4)
study population (e.g., age, demographic characteristics),
setting (e.g., country, setting of garden-based interven-
tion), and context; (5) search strategy and results (e.g.,
number of databases sources and searched, date range,
inclusion of gray literature); (6) number of included
studies, citation, type, and country of origin of studies;
(7) child-level health and wellbeing outcomes reported For included studies, we will report on confidence in
findings using the information presented in each review. This could be in the form of a quality of evidence tool,
such as the Grading of Recommendations Assessment,
Development, and Evaluation (GRADE) measures [31]. However, there are many additional tools that existing
reviews can use to assess the confidence in evidence,
which may cause variations in how this aspect is re-
ported in reviews. As such, we will report on the exact
tool used for included reviews and their associated find-
ings, iteratively making the decision on how to display
confidence in findings based on the information re-
ported in each individual review. If a review is included
in which the authors did not conduct an assessment of Page 6 of 8 Skelton et al. Systematic Reviews (2019) 8:310 Skelton et al. Systematic Reviews confidence in evidence, the review team will not conduct
any de novo assessments. In this instance, there will be
no confidence in evidence presented for that review. by the following age groups: infancy (less than 12
months of age), toddlers (12 months of age–less than 36
months of age), and preschool (3 years of age–less than
6 years of age). However, we will be limited in this strati-
fication by how included reviews report on health out-
comes by age. For example, if a review stratifies findings
by age (e.g., preschool, school-age), we will report our
results accordingly. Similarly, if a review does not separ-
ate results by age, we will only be able to report what is
reported in the review. In this instance, results that can-
not be disaggregated by age will be reported separately
within our review. Reporting of findings We will aim to report health outcomes stratified Additionally, we will create a table summarizing the
AMSTAR 2 results for each included review. As is best
practice, we will report the entire umbrella review in ac-
cordance with PRISMA guidelines. Due to the potential for overlap of primary studies in
the review articles, we will report the number of times
individual studies are included across multiple reviews. We will systematically identify any occurrences of over-
lap across systematic reviews by noting individual stud-
ies included in more than one review. We will also
explore the consistency of reporting at the individual
level across reviews [33] to determine if there is any
overlap. We will explore this through the use of The
Cochrane Handbook’s template for mapping individual
primary studies contained within included systematic re-
views [32]. For example, one review article may report
on one specific child health outcome of an individual
study, while another review includes the same study but
reports on a different (perhaps secondary) health out-
come. In this case, we would not consider this overlap. However, if reviews are reporting the same outcomes
from the same study, we will highlight this overlap. If we
do find there is overlap, we will calculate the corrected
covered area [34] and report on this measure in the re-
view paper. We will also consider overlap when inter-
preting results of the review. Author details
1 Author details
1Johns Hopkins Bloomberg School of Public Health, 624 N. Broadway, HH904,
Baltimore, MD 21205, USA. 2Johns Hopkins Bloomberg School of Public
Health, 624 N. Broadway, HH755, Baltimore, MD 21205, USA. 1Johns Hopkins Bloomberg School of Public Health, 624 N. Broadway, HH904,
Baltimore, MD 21205, USA. 2Johns Hopkins Bloomberg School of Public
Health, 624 N. Broadway, HH755, Baltimore, MD 21205, USA. Abbreviations AMSTAR: A Measurement Tool to Assess Systematic Reviews; ECE: Early care
and education; PICO: Population, intervention, context, outcome and study
design; RoB: Risk of bias AMSTAR: A Measurement Tool to Assess Systematic Reviews; ECE: Early care
and education; PICO: Population, intervention, context, outcome and study
design; RoB: Risk of bias Acknowledgements
None. Acknowledgements
None. Discussion For this umbrella review, we aim to (1) identify and
synthesize existing review and meta-analysis articles on
garden-based interventions for young children; (2) iden-
tify the most prominent measures used to detect and as-
sess the impacts of garden-based interventions in young
children; (3) critically evaluate the available evidence
both narratively and quantitatively; and (4) identify gaps
in the literature and describe areas of improvement for
the scientific field of garden-based interventions, includ-
ing, but not limited to study design, measurement, and
child health outcomes. In doing so, we will provide a
very comprehensive overview of what is known in the
literature about the health and wellbeing impacts of
gardening programs for young children. Page 7 of 8 Page 7 of 8 Skelton et al. Systematic Reviews (2019) 8:310 Page 7 of 8 Skelton et al. Systematic Reviews (2019) 8:310 Skelton et al. Systematic Reviews (2019) 8:310 This umbrella review has several strengths. First, this
umbrella review fills a considerable gap in the literature
by providing a holistic overview of existing evidence of
the health and wellbeing benefits of garden-based inter-
ventions for young children, identifying strengths of
current evidence and highlighting areas for improve-
ment. To date, this type of umbrella review does not
exist. Second, this review will examine knowledge gaps
in the field and elaborate on how these gaps could be
addressed by future research. Summarizing this informa-
tion will be an asset to both researchers and public
health professionals aiming to improve the health and
wellbeing of young children. Additionally, this umbrella
review will be conducted using the most systematic pro-
cedures available at this time. Adhering to these guide-
lines helps ensure that we procedure a high-quality
umbrella review that will be a useful and trusted re-
source for interested parties. Received: 12 March 2019 Accepted: 11 November 2019 Received: 12 March 2019 Accepted: 11 November 2019 Competing interests Competing interests
The authors declare that they have no competing interests. Availability of data and materials
N/A Ethics approval and consent to participate
N/A Anticipated challenges for this review include the need
to extract relevant information from existing review arti-
cles. We realize there are numerous benefits to garden-
based interventions throughout the life span. However,
we only focused on children younger than 6 years, as this
is an area where garden-based interventions in an ECE,
community, or home setting could make a substantial
impact. We limited our search to peer-reviewed litera-
ture published after 1990, but do not believe this will
exclude any relevant studies based on the pilot search
strategy. However, we realize the exclusion of non-peer
reviewed literature may eliminate high-quality reviews,
which is another limitation. We will elaborate on add-
itional limitations in regard to findings in the narration
of the review. Another limitation of this review will be
the potential for study overlap across reviews. Knowing
this potential risk, we will examine and report on any
overlap in the review. Consent for publication
N/A Authors’ contributions KS drafted the initial manuscript and critically reviewed and revised the
manuscript. SBN provided oversight and critically reviewed and revised the
manuscript. AH reviewed and edited the manuscript. All authors approved
the final manuscript as submitted and agreed to be accountable for all
aspects of the work. Funding Availability of data and materials
N/A References 1. Hanbazaza MA, Triador L, Ball GD, Farmer A, Maximova K, Alexander First N,
et al. The impact of school gardening on Cree children’s knowledge and
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published maps and institutional affiliations.
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English
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Promoting solution phase discharge in Li–O2 batteries containing weakly solvating electrolyte solutions
|
Nature materials
| 2,016
|
cc-by
| 7,046
|
Promoting solution phase discharge in Li-O2 batteries
containing weakly solvating electrolyte solutions Xiangwen Gao1‡, Yuhui Chen1‡, Lee Johnson1 and Peter G. Bruce1*
1 Departments of Materials and Chemistry, Parks Road, University of Oxford, OX1 3PH, UK Xiangwen Gao1‡, Yuhui Chen1‡, Lee Johnson1 and Peter G. Bruce1*
1 Departments of Materials and Chemistry, Parks Road, University of Oxford, OX1 3PH, UK
* Author to whom correspondence should be addressed * Author to whom correspondence should be addressed Abstract Th
d
ti
d th
h th f ll
i
l t The reduction proceeds through the following general steps: The reduction proceeds through the following general steps: O2 + Li+ + e- → LiO2
(1)
2LiO2 → Li2O2 + O2
(2)
LiO2 + Li+ + e- → Li2O2
(3) (1)
(2)
(3) O2 + Li+ + e- → LiO2
(1)
2LiO2 → Li2O2 + O2
(2)
LiO2 + Li+ + e- → Li2O2
(3) (3) Whether Li2O2 grows in solution or as a film on the electrode surface depends on the solubilit Whether Li2O2 grows in solution or as a film on the electrode surface depends on the solubility of the
LiO2 intermediate; if LiO2 dissolves in the electrolyte solution then Li2O2 grows in solution. Solubility
of LiO2 depends on the strength of the cation and anion solvation, i.e. on the solvent and salt donor
and acceptor numbers15,22-24. However, the very properties that make a good solvent for LiO2, (high
polarity) often makes the solvent more susceptible to nucleophilic attack or proton abstraction by
the reactive O2- radical, leading to undesirable side-reactions25,26. The challenge is to form Li2O2 in
solution on discharge in low donor number (weakly solvating) solvents. Soluble catalysts or salts with high donor numbers (DN) can in principle promote solution phase
growth of Li2O2 in low donor number solvents (e.g. ethers)22,27-30. High DN salts have been shown to
increase the capacity 4 fold and reduce the discharge overpotential by 30-50 mV over low DN
salts22. Viologens27,28, phthalocyanines29 and quinones30 have been investigated as possible soluble
reduction catalysts. While the studies of such catalysts are important, in most cases there is little or
no direct evidence demonstrating that they promote formation of Li2O2 in solution and not on the
electrode surface because they rely on electrochemical measurements alone. Yet past work on Li-O2
batteries has shown how essential it is to provide more than electrochemical evidence in this field31. In some cases, soluble catalysts show an increase in discharge voltage (lower overpotential) as small
as e.g. 40 mV28,29, which is very unlikely to be sufficient to shut-off the direct reduction of O2 to Li2O2,
essential to stop detrimental Li2O2 film formation. Also, none of the previous studies in low donor
number solvents exhibited a significant increase in capacity on discharge at a relatively high rate,
which is important for a successful Li-O2 battery. Abstract On discharge, the lithium-O2 battery can form a Li2O2 film on the cathode surface, leading to low
capacities, low rates and early cell death, or it can form Li2O2 particles in solution, leading to high
capacities at relatively high rates and avoiding early cell death. Achieving discharge in solution is
important and may be encouraged by the use of high donor or acceptor number solvents or salts
that dissolve the LiO2 intermediate involved in the formation of Li2O2. However, the characteristics
that make high donor or acceptor number solvents good (e.g. high polarity) result in them being
unstable towards LiO2 or Li2O2. Here we demonstrate that introduction of the additive 2,5-Di-tert-
butyl-1,4-benzoquinone (DBBQ) promotes solution phase formation of Li2O2 in low polarity and
weakly solvating electrolyte solutions. Importantly, it does so while simultaneously suppressing
direct reduction to Li2O2 on the cathode surface, which would otherwise lead to Li2O2 film growth
and premature cell death. It also halves the overpotential during discharge, increases the capacity
80-100 fold and enables rates > 1 mA cm-2areal for cathodes with capacities of > 4 mAh cm-2areal. The
DBBQ additive operates by a new mechanism that avoids the reactive LiO2 intermediate in solution. 1 The high theoretical specific energy of the rechargeable Li-O2 battery has generated intense interest
in the possibility of a practical device that could deliver energy storage significantly in excess of
today’s lithium-ion batteries1-9. However, major challenges hinder the development of such a
technology1-6,10-14. Typically a Li-O2 battery is composed of a lithium metal anode separated by an
aprotic electrolyte solution from a porous O2 cathode. The reaction at the cathode involves, on
discharge, the reduction of O2 to form Li2O2, with oxidation of the latter on charge. Growth of Li2O2
on the cathode surface leads to low capacities, poor rates and early cell death15-17. In contrast, if
Li2O2 can be induced to grow in the electrolyte solution then high discharge capacities at relatively
high rates and avoiding early cell death is possible15. It is clearly important to operate a Li-O2 battery
in which Li2O2 grows in solution. A number of groups have elucidated the mechanism of O2 reduction to Li2O2 on discharge1 A number of groups have elucidated the mechanism of O2 reduction to Li2O2 on discharge15,16,18-21. CV studies with DBBQ The potential at which O2 is reduced to Li2O2 (the discharge plateau in a Li-O2 cell) is lower than the
thermodynamic potential for O2/Li2O2, 2.96 V. A CV corresponding to this process is shown in Fig. 1. To promote O2 reduction to Li2O2 in solution in low DN solvents while suppressing the direct
reduction of O2 to form a Li2O2 film, which would otherwise passivate the electrode15,16,21, it is
necessary to carry out the reduction of O2 to Li2O2 in solution at a higher potential than the surface
reaction, which also has the advantage of increasing the cell discharge potential closer to its
thermodynamic potential of 2.96 V (reducing the overpotential). To achieve this, molecules with a
redox potential somewhat higher than the potential at which O2 is reduced (discharge plateau in a Li-
O2 cell) are required. Quinones were selected as they are known to exhibit potentials in the relevant
range30,32. Several quinones were investigated but most were found not to enhance O2 reduction,
see Supplementary Fig. S1. Electrolyte preparation and cell assembly are described in the
Supplementary Information. DBBQ, in contrast, showed promising electrochemistry, Fig. 1. The cyclic
voltammograms for DBBQ obtained in 1 M LiTFSI in tetraethylene glycol dimethyl ether (TEGDME)
and dimethoxyethane (DME) at a gold electrode under Ar exhibit quasi-reversible behavior, Fig. 1
and Supplementary Fig. S2. In the presence of O2, the reduction peak is enhanced significantly. Such
a CV is similar to that of a catalyzed reduction33, where a redox active species, in this case DBBQ, is
reduced and then takes part in a chemical reaction, here with O2 to form Li2O2, resulting in the rapid
regeneration of more DBBQ, giving rise to the increased reduction current. The reduction potential is
significantly higher than for the direct reduction of O2, Fig. 1, thus effectively suppressing the direct
reduction of O2 to Li2O2 films on the electrode surface. The mechanism of O2 reduction by DBBQ is
discussed further later; demonstration of the efficiency of DBBQ in promoting Li2O2 formation in
solution and not on the electrode surface, as well as increasing the discharge potential of Li-O2 cells
is presented below. Figure 1 | CVs demonstrating the significant effect DBBQ has on O2 reduction in ethers. CVs for DBBQ in 1 M
LiTFSI in (a) TEGDME and (b) DME. CVs under Ar (blue) and O2 (red) and for direct O2 reduction without DBBQ
(black). Abstract Here we demonstrate that addition of DBBQ (2,5-Di-tert-butyl-1,4-benzoquinone) to a weakly
solvating (low DN) electrolyte solution, LiTFSI in ether22, promotes O2 reduction to Li2O2 in solution
while halving the discharge overpotential (increasing the discharge potential), suppressing the
growth of a Li2O2 film on the electrode surface thus postponing cell death, increasing the discharge
capacity 80-100 fold and permitting discharge at relatively high rates > 1 mA cm-2areal for an electrode
capacity of > 4 mAh cm-2areal. It operates by a new mechanism that does not involve the reactive LiO2
as an intermediate; the new mechanism also decouples the link between the nature of the 2 electrolyte solution (solvating power) and the nature of the product (particles or surface film). The
search for truly stable electrolyte solutions for Li-O2 batteries will focus on very low polarity and
hence weakly solvating solvents. The significance of the present work is that if such stable solvents
can be identified then DBBQ provides a route to solution growth of Li2O2 and hence potentially high
rates, high capacities and sustained cycling, avoiding early cell death. Enhancing the discharge of Li-O2 cells with DBBQ Li-O2 cells were constructed as described in the Supplementary Information (Methods Section). The
cathode was a binder-free carbon-fiber gas diffusion layer (GDL, Freudenberg), similar to cathodes
used widely for aprotic O2 cells20,34. Carbon electrodes are relatively stable on discharge35, which is
our focus here. The anode consisted of LixFePO4, as used in previous Li-O2 studies instead of Li metal
in order to avoid any oxidation of the anode by O2 36. The LixFePO4 potential vs. Li+/Li, 3.45 V, was
used to express all potentials in this work on the Li scale. The electrolyte solution was in all cases 1
M LiTFSI dissolved in the low donor and acceptor number ethers, TEGDME or DME. Cells containing TEGDME and DME saturated with O2 (under 1 atm. of O2), were each discharged at
several different areal current densities with and without DBBQ, Fig. 2. In the absence of DBBQ, the
cells died rapidly, exhibiting very small capacities and poor rate capability, in accord with previous
observations3,37. The cells with DBBQ discharged under the same conditions exhibited a dramatic
improvement, delivering up to 80 to 100 times higher discharge capacities before end of life. In
TEGDME with DBBQ, a capacity of 10.6 mAh cm-2areal (equivalent to 9.1 mg of Li2O2) was obtained at
a current density of 0.2 mA cm-2areal, while in DME with DBBQ, 7.3 mAh cm-2areal (equivalent to 6.3 mg
of Li2O2) was obtained at 0.5 mA cm-2areal and 4 mAh cm-2areal (equivalent to 3.4 mg of Li2O2) at 1 mA
cm-2 areal. Moreover, areal current densities of 0.5 mA cm-2 (in TEGDME) and 2 mA cm-2 (in DME) were
achieved, while halving the discharge overpotential, compared with the performance in the absence
of DBBQ. To estimate the contribution of DBBQ reduction itself to the capacity, the cells were
discharged under Ar, for DME and TEGDME, and at the same current densities as in Fig. 2. The
discharge curves are given in Supplementary Fig. S3. A negligible capacity was observed. These
values are all within the limits of the theoretical capacity for DBBQ reduction of 12.5 mAh m-2BET. It has been shown that the limit of Li2O2 film growth is 6 nm17, which equates to a maximum
capacity of 15 mAh m-2BET (0.4 mAh cm-2areal). As is evident in Fig. 2, the cells without DBBQ exhibit
end of life below this limit, indicating that Li2O2 formation is predominantly by the surface route. CV studies with DBBQ DBBQ concentration was 10 mM and CVs were carried out at planar Au electrodes, scan rate
100 mV s-1. Figure 1 | CVs demonstrating the significant effect DBBQ has on O2 reduction in ethers. CVs for DBBQ in 1 M
LiTFSI in (a) TEGDME and (b) DME. CVs under Ar (blue) and O2 (red) and for direct O2 reduction without DBBQ
(black). DBBQ concentration was 10 mM and CVs were carried out at planar Au electrodes, scan rate
100 mV s-1. 3 Enhancing the discharge of Li-O2 cells with DBBQ Whereas cells containing DBBQ are able to exceed the limit of film growth by an order of magnitude,
signaling predominantly solution growth of Li2O2. 4 4 Figure 2 | Significant effect of DBBQ on discharge in ethers. Load curves of oxygen reduction at gas diffusion
electrode discharged in 1 M LiTFSI in (a) TEGDME and (b) DME with 10 mM DBBQ (solid lines) and without
DBBQ (dash lines) under O2 at various areal current densities from 0.1 mA cm-2 to 2 mA cm-2. (c,d) enlarged
section of load curves recorded without DBBQ in a,b. 200 μl of electrolyte was used. The roughness factor of
the cathode is 270. The amounts of Li2O2 formed on discharge were 10.0, 9.1 and 5.2 mg cm-2areal in TEDGME
and 9.1, 6.3, 3.4 and 2.0 mg cm-2areal in DME. e 2 | Significant effect of DBBQ on discharge in ethers. Load curves of oxygen reduction at gas diffusio Figure 2 | Significant effect of DBBQ on discharge in ethers. Load curves of oxygen reduction at gas diffusion
electrode discharged in 1 M LiTFSI in (a) TEGDME and (b) DME with 10 mM DBBQ (solid lines) and without
DBBQ (dash lines) under O2 at various areal current densities from 0.1 mA cm-2 to 2 mA cm-2. (c,d) enlarged
section of load curves recorded without DBBQ in a,b. 200 μl of electrolyte was used. The roughness factor of
the cathode is 270. The amounts of Li2O2 formed on discharge were 10.0, 9.1 and 5.2 mg cm-2areal in TEDGME
and 9.1, 6.3, 3.4 and 2.0 mg cm-2areal in DME. Figure 2 | Significant effect of DBBQ on discharge in ethers. Load curves of oxygen reduction at gas diffusion
electrode discharged in 1 M LiTFSI in (a) TEGDME and (b) DME with 10 mM DBBQ (solid lines) and without
DBBQ (dash lines) under O2 at various areal current densities from 0.1 mA cm-2 to 2 mA cm-2. (c,d) enlarged
section of load curves recorded without DBBQ in a,b. 200 μl of electrolyte was used. The roughness factor of
the cathode is 270. The amounts of Li2O2 formed on discharge were 10.0, 9.1 and 5.2 mg cm-2areal in TEDGME
and 9.1, 6.3, 3.4 and 2.0 mg cm-2areal in DME. Enhancing the discharge of Li-O2 cells with DBBQ To confirm that Li2O2 grows primarily in solution, away from the electrode surface, in the presence of
DBBQ, despite the use of low donor/acceptor solvents, the discharged cathodes with and without
DBBQ were extracted and examined by SEM. The results are shown in Fig. 3. In both TEGDME and
DME, in the absence of DBBQ, the surfaces of the carbon fibers that constitute the GDL were
covered with a film and there was no evidence of Li2O2 particles. In contrast, identical cells
discharged under the same conditions, except for the presence of DBBQ, show substantial growth of
particles in the pores of the electrodes and with the toroidal morphologies expected for Li2O2, Fig. 3. Equally important is that DBBQ suppresses film growth on the electrode surface. This is shown in Fig. 3 (c,g) where there is little evidence of film growth when DBBQ was present until close to cell death. There will always be some direct reduction to form Li2O2 on the surface, even at the higher potential
where DBBQ is reduced, as the direct reduction to form a Li2O2 film is suppressed but not eliminated
completely. It has been proposed recently that the presence of H2O can itself promote Li2O2 toroid
formation in Li-O2 batteries16,20. Care was taken to rigorously dry the solvents, electrodes and all cell
components used here. The H2O content at the beginning and end of discharge did not exceed 30
ppm, considerably smaller than the quantities required to promote toroid formation; at least
200500 ppm H2O is needed16,20. Overall, the SEM images demonstrate that DBBQ has successfully
displaced the O2 reduction away from the electrode surface, promoting growth of large Li2O2
particles in the adjacent solution within the pores of the electrode. 5 Figure 3 | SEM images showing the Li2O2 morphologies on discharge in 1 M LiTFSI in ethers with and without
DBBQ. (a) the pristine GDL; (b-e) discharge in TEGDME and (f-i) in DME. (b,f) full discharge without DBBQ; (c,g)
half discharge with 10 mM DBBQ and (d,e,h,i) full discharge with DBBQ. Figure 3 | SEM images showing the Li2O2 morphologies on discharge in 1 M LiTFSI in ethers with and without
DBBQ. (a) the pristine GDL; (b-e) discharge in TEGDME and (f-i) in DME. (b,f) full discharge without DBBQ; (c,g)
half discharge with 10 mM DBBQ and (d,e,h,i) full discharge with DBBQ. Enhancing the discharge of Li-O2 cells with DBBQ To demonstrate the particles observed in SEM are indeed Li2O2, powder X-ray diffraction (PXRD),
infrared spectrometry (IR) and Raman spectroscopy were carried out on the porous electrodes
extracted from the cells. The results are presented in Fig. 4. The PXRD pattern collected on the GDLs
discharged in ethers exhibits only peaks associated with Li2O2. The results are confirmed by the IR
and Raman spectra in Fig. 4, which also show Li2O2 as the primary product. Although ethers are one
of the more stable solvents in Li-O2 batteries, it is known that they are not completely stable38. Small
peaks associated with lithium acetate/formate and some Li2CO3 are evident as minor by-products in
the IR, as identified previously for discharge in ethers39. There is little evidence of LiOH. To
investigate the presence of any soluble by-products, NMR was carried out on the electrolyte
solutions. The details are described in the Supplementary Information. In addition to the peaks 6 associated with the electrolyte solutions, only a tiny peak assigned to lithium acetate was observed,
Supplementary Fig. S4. In-situ differential electrochemical mass spectrometry (DEMS) was carried
out to investigate the gas consumption on discharge. The procedure is described in the
Supplementary information and the results are presented in Fig. 5. No gases were detected other
than O2 and in particular there was no evidence of CO2, consistent with the degree of side-reactions
in ethers being small. The total O2 consumed and total charge passed were measured and the
integral gave a ratio of electrons to oxygen consumed of 2.03 e-/O2, consistent with the dominant
reaction on discharge involving Li2O2 formation38,40. These results are in accord with charge/mass
ratios seen previously for ethers38. Taken together, the PXRD, IR, Raman and DEMS indicate that the
dominant product on discharge in the presence of DBBQ in ethers is Li2O2 and that it forms relatively
large particles in the pores rather than on the surfaces of the porous electrode. The amount of Li2O2
present in the electrode was quantified by chemical analysis using TiOSO4 as described in the
Supplementary information. The yield of Li2O2 (observed mass/mass predicted from charge passed)
with DBBQ was 95% and 86% in DME and TEGDME, respectively. This compares with 91% and 81%
reported previously for DME and TEGDME in the absence of DBBQ38. Enhancing the discharge of Li-O2 cells with DBBQ The slightly higher yields
indicates that the relatively high surface area of the Li2O2 film that grows on the electrode in the
absence of DBBQ leads to more decomposition of the electrolyte solution than is the case for the
large particles in solution. It has also been suggested that LiO2 is responsible for solvent
decomposition on discharge26,41,42 and as discussed below, our analysis points to a mechanism that
avoids this reactive intermediate. 7 7 Figure 4 | Characterization of the discharge product confirming Li2O2 is dominant. (a) PXRD pattern, (b) IR and
(c) Raman spectra of GDLs discharged in 10 mM DBBQ - 1 M LiTFSI in TEGDME and DME under O2. aracterization of the discharge product confirming Li2O2 is dominant. (a) PXRD
ctra of GDLs discharged in 10 mM DBBQ - 1 M LiTFSI in TEGDME and DME und Figure 4 | Characterization of the discharge product confirming Li2O2 is dominant. (a) PXRD pattern, (b) IR and
(c) Raman spectra of GDLs discharged in 10 mM DBBQ - 1 M LiTFSI in TEGDME and DME under O2. 8 Figure 5 | In-situ DEMS in DBBQ-TEGDME showing 2.03 e- per O2 consumption, consistent with formation of
Li2O2. (a) discharge current (blue), O2 consumption (green) and CO2 evolution (red) in 10 mM DBBQ - 1 M LiTFSI
in TEGDME; (b) voltage profile of the DEMS cell. Cyclic voltammetry was applied. e-/O2 ratio was obtained from
the integral of charge passed and total O2 consumption. Figure 5 | In-situ DEMS in DBBQ-TEGDME showing 2.03 e- per O2 consumption, consistent with formation of
Li2O2. (a) discharge current (blue), O2 consumption (green) and CO2 evolution (red) in 10 mM DBBQ - 1 M LiTFSI
in TEGDME; (b) voltage profile of the DEMS cell. Cyclic voltammetry was applied. e-/O2 ratio was obtained from
the integral of charge passed and total O2 consumption. Attempts to charge the cells after discharge proved fruitless, see Supplementary Fig. S5. This is to be
expected since the Li2O2 is not well connected to the electrode surface and therefore direct
electrochemical oxidation will be difficult. Therefore, especially in the presence of a reduction
mediated discharge, it will be necessary to employ an oxidation mediator to charge the cell, as
described previously36,43-45. The mechanism of O2 reduction in the presence of DBBQ As mentioned above, DBBQ does not operate as an electrocatalyst like, for example, the
phthalocyanines described previously29,46, for which O2 is bound to the electrocatalyst before, during
and after reduction. Neither does it operate as a redox shuttle, transferring electrons from the
electrode surface to reduce O2 in solution to LiO2 and further to Li2O2 by an outer sphere reaction. Instead, it operates by a different mechanism that changes the pathway of O2 reduction to Li2O2
avoiding the reactive LiO2 as an intermediate. The reduction of quinones, such as DBBQ, in Li+ electrolyte solutions under Ar is known to form Li-
quinone complexes, in this case LiDBBQ, Fig. 147-49. In the presence of O2 the reduction potential for
DBBQ/LiDBBQ does not change, Fig. 1, indicating that the same reduction reaction (DBBQ to LiDBBQ)
occurs, i.e. there is no binding of O2 to DBBQ prior to the initial electron transfer, unlike the
phthalocyanines29, the first step is as shown in equation (4). However, the reduction current is
enhanced significantly, Fig. 1. The observed CV is similar to that of an ECcat reaction, electrochemical 9 reduction followed by a chemical step, in which the reduced form of the redox couple takes part in a
chemical reaction that re-generates the oxidized form of the couple to feed the reduction33. Here
DBBQ is re-generated from LiDBBQ by the latter reducing O2 in a chemical step, which goes on to
form Li2O2. In the absence of DBBQ, reduction of O2 to Li2O2 proceeds via the LiO2 intermediate15,16,18-21, and it is
the need to reach the potential for formation of LiO2 that pins the O2 reduction at a potential
(discharge plateau in a Li-O2 cell) significantly negative of the standard potential for Li2O2 formation,
2.96 V, Fig. 1. Where the energetics of an intermediate dictates the potential required to carry out
an electrochemical reaction this is referred to as a “thermodynamic overpotential”50. In the presence
of DBBQ O2 reduction effectively takes place at the potential for DBBQ reduction, Fig. 1, i.e. at a
significantly higher potential than would be the case if O2 reduction was occurring via the LiO2
intermediate in solution. This indicates that O2 reduction does not follow the usual path via the LiO2
intermediate but involves formation of a different intermediate complex between LiDBBQ and O2. The mechanism of O2 reduction in the presence of DBBQ By
complexing Li+ and O2 with DBBQ- the reaction path and hence free energy of the intermediate (now
a complex of the form LiDBBQO2 not LiO2) is lowered (Fig. 6) and the potential correspondingly
raised, as seen in the higher voltage for the discharge plateau in galvanostatic discharge of Li-O2 cells,
Fig. 2. The sequence of proposed reaction steps at the cathode on discharging a Li-O2 cell containing DBBQ
is summarized in equations (4) to (6). Equation (4) is the initial electrochemical reduction. Equations
(6a) and (6b) are examples of possible steps by which the intermediate formed in (5) could
disproportionate or react with another LiDBBQ, to form Li2O2 that grows from solution, as observed
in for example Fig. 3. Confirmation that LiDBBQ and O2 react together to form Li2O2 was obtained by
a direct chemical experiment in which O2 was bubbled through a solution containing LiDBBQ and the
quantity of Li2O2 measured by TiOSO4 titration, see supplementary information for details. 10
DBBQ(sol) + Li+(sol) + e- → LiDBBQ(sol)
(4)
LiDBBQ(sol) + O2(sol) ⇌ LiDBBQO2(sol)
(5)
2 LiDBBQO2(sol) → Li2O2(s) + O2(sol) + 2 DBBQ(sol)
(6a)
LiDBBQ(sol) + LiDBBQO2(sol) → Li2O2(s) + 2 DBBQ(sol)
(6b) DBBQ(sol) + Li+(sol) + e- → LiDBBQ(sol)
(4)
LiDBBQ(sol) + O2(sol) ⇌ LiDBBQO2(sol)
(5)
2 LiDBBQO2(sol) → Li2O2(s) + O2(sol) + 2 DBBQ(sol)
(6a)
LiDBBQ(sol) + LiDBBQO2(sol) → Li2O2(s) + 2 DBBQ(sol)
(6b) LiDBBQ(sol) + O2(sol) ⇌ LiDBBQO2(sol)
(5)
2 LiDBBQO2(sol) → Li2O2(s) + O2(sol) + 2 DBBQ(sol)
(6a)
LiDBBQ(sol) + LiDBBQO2(sol) → Li2O2(s) + 2 DBBQ(sol)
(6b) 10 10 Figure 6 | Schematics (left) of reactions on discharge and (right) the effect of DBBQ on the potential
determining step. DBBQ is reduced at the electrode surface forming LiDBBQ, and then LiDBBQ reacts with O2,
producing Li2O2 and itself being regenerated to DBBQ. Schematic of free energy plot is at E0 for O2/ Li2O2. Figure 6 | Schematics (left) of reactions on discharge and (right) the effect of DBBQ on the potential
determining step. DBBQ is reduced at the electrode surface forming LiDBBQ, and then LiDBBQ reacts with O2,
producing Li2O2 and itself being regenerated to DBBQ. Schematic of free energy plot is at E0 for O2/ Li2O2. These reactions can be summarized by the schematic shown in Fig. 1.
Abraham KM, Jiang Z. A polymer electrolyte-based rechargeable lithium/oxygen battery. J
Electrochem Soc 1996, 143(1): 1-5. Methods Methods and any associated references are available in the online version of the paper. The mechanism of O2 reduction in the presence of DBBQ 6, and the consequences of this
scheme are relatively simple electron transfer and dominate solution phase product formation that
translate into high rates and capacities during cell discharge. As noted above, DBBQ does not act as a conventional catalyst, it does not bind O2 and facilitate LiO2
formation by stabilizing the superoxide intermediate. Instead DBBQ is reduced to LiDBBQ that binds
O2 to form LiDBBQ, (equation 5). The characteristics that make DBBQ suitable for this function are, a
reduction potential positive of the potential for formation of LiO2 formation thus avoiding direct
formation of LiO2, a reduction potential negative of the overall reduction potential to Li2O2 such that
a driving force remains to push the reaction towards peroxide formation and the ability to bind O2
when in the reduced form (LiDBBQ). Outlook O2 reduction to Li2O2 by the DBBQ mediated route brings a number of benefits. The electrochemistry
at the electrode surface is now DBBQ reduction rather than direct formation of Li2O2, in an
electrolyte solution that does not dissolve LiO2 (weakly solvating electrolyte solution). As a result,
Li2O2 formation is moved into solution without the need for high donor/acceptor number solvents or
salts. DBBQ shuts down the direct formation of a Li2O2 film on the cathode, thus postponing cell
death, increasing capacity 80-100 fold and facilitates discharge rates of > 1 mA cm-2areal for cathodes
with capacities of > 4 mAh cm-2areal. The discharge potential is also increased (overpotential is halved). O2 reduction to Li2O2 in the presence of DBBQ follows a new route that avoids the reactive LiO2 in
solution. The search for truly stable electrolyte solutions for Li-O2 batteries will focus on very low
polarity and hence weakly solvating solvents. The significance of the present work is that if such
stable solvents can be identified then DBBQ provides a route to solution growth of Li2O2 and hence
potentially high rates, high capacities and sustained cycling, avoiding early cell death. These results
demonstrate the importance of moving to a mediated reaction on reduction and imply that the
future of the lithium-air battery involves the mediated formation and decomposition of lithium
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Li–O2 batteries: Solution-driven growth versus nucleophilic stability. J Phys Chem Lett 2015,
6(7): 1254-1259. 25. Khetan A, Luntz A, Viswanathan V. Trade-offs in capacity and rechargeability in nonaqueous
Li–O2 batteries: Solution-driven growth versus nucleophilic stability. J Phys Chem Lett 2015,
6(7): 1254-1259. 25. Khetan A, Luntz A, Viswanathan V. Trade-offs in capacity and rechargeability in nonaqueous
Li–O2 batteries: Solution-driven growth versus nucleophilic stability. J Phys Chem Lett 2015,
6(7): 1254-1259. 13 26. Sharon D, Afri M, Noked M, Garsuch A, Frimer AA, Aurbach D. Oxidation of Dimethyl
Sulfoxide Solutions by Electrochemical Reduction of Oxygen. J Phys Chem Lett 2013, 4(18):
3115-3119. 27. Lacey MJ, Frith JT, Owen JR. A redox shuttle to facilitate oxygen reduction in the lithium air
battery. Electrochem Commun 2013, 26(0): 74-76. 28. References Yang L, Frith JT, Garcia-Araez N, Owen JR. A new method to prevent degradation of lithium-
oxygen batteries: reduction of superoxide by viologen. Chem Commun 2015, 51(9): 1705-
1708. 29. Sun D, Shen Y, Zhang W, Yu L, Yi Z, Yin W, et al. A solution-phase bifunctional catalyst for
lithium-oxygen batteries. J Am Chem Soc 2014, 136(25): 8941-8946. 30. Matsuda S, Hashimoto K, Nakanishi S. Efficient Li2O2 formation via aprotic oxygen reduction
reaction mediated by quinone derivatives. J Phys Chem C 2014, 118(32): 18397-18400. 31. Imanishi N, Luntz AC, Bruce PG. The Lithium Air Battery: Fundamentals. Springer, 2014. 32. Guin PS, Das S, Mandal PC. Electrochemical reduction of quinones in different media: a
review. Int J Electrochem 2011, 2011: 1-22. 33. Saveant J-M. Elements of molecular and biomolecular electrochemistry: an electrochemical
approach to electron transfer chemistry. A JOHN WILEY & SONS, INC., Hoboken, New Jersey.,
2006. 34. Hartmann P, Bender CL, Vracar M, Durr AK, Garsuch A, Janek J, et al. A rechargeable room-
temperature sodium superoxide (NaO2) battery. Nat Mater 2013, 12(3): 228-232. 35. Ottakam Thotiyl MM, Freunberger SA, Peng Z, Bruce PG. The carbon electrode in
nonaqueous Li-O2 cells. J Am Chem Soc 2013, 135(1): 494-500. 36. Chen Y, Freunberger SA, Peng Z, Fontaine O, Bruce PG. Charging a Li–O2 battery using a
redox mediator. Nat Chem 2013, 5: 489–494. 37. Lu Y-C, Kwabi DG, Yao KPC, Harding JR, Zhou J, Zuin L, et al. The discharge rate capability of
rechargeable Li-O2 batteries. Energy Environ Sci 2011, 4(8): 2999-3007. 38. McCloskey BD, Valery A, Luntz AC, Gowda SR, Wallraff GM, Garcia JM, et al. Combining
accurate O2 and Li2O2 assays to separate discharge and charge stability limitations in
nonaqueous Li–O2 batteries. J Phys Chem Lett 2013, 4(17): 2989-2993. 14 39. Freunberger SA, Chen Y, Drewett NE, Hardwick LJ, Barde F, Bruce PG. The lithium-oxygen
battery with ether-based electrolytes. Angew Chem Int Ed 2011, 50(37): 8609-8613. 40. Chen Y, Freunberger SA, Peng Z, Barde F, Bruce PG. Li-O2 battery with a dimethylformamide
electrolyte. J Am Chem Soc 2012, 134(18): 7952-7957. 41. Adams BD, Black R, Williams Z, Fernandes R, Cuisinier M, Berg EJ, et al. Towards a stable
organic electrolyte for the Lithium oxygen battery. Adv Energy Mater 2015, 5(1): 1400867. 42. Zhang Z, Lu J, Assary RS, Du P, Wang H-H, Sun Y-K, et al. Increased Stability Toward Oxygen
Reduction Products for Lithium-Air Batteries with Oligoether-Functionalized Silane
Electrolytes. Acknowledgements P.G.B. is indebted to the EPSRC and the RCUK Energy programme including SUPERGEN for financial
support. Author contributions ‡These authors contributed equally to this work. X.G. and Y.C. designed experiments and analyzed
the data. X.G. performed electrochemical and characterization of discharge products. Y.C. performed
the UV-vis spectroscopy experiments and analyzed the data. P.G.B, X.G., Y.C., L.J. interpreted the
data. P.G.B. wrote the paper. References J Phys Chem C 2011, 115(51): 25535-25542. 43. Vincent Giordani, Wesley Walker, Vyacheslav Bryantsev, Jasim Uddin, Strahinja Zecevic, Dan
Addison, et al. Freely Diffusing Oxygen Evolving Catalysts for Rechargeable Li-O2 Batteries. abstract for 16th IMLB 2012 Jeju Korea; 2012; 2012. p. S6-3. 44. Bergner BJ, Schurmann A, Peppler K, Garsuch A, Janek J. TEMPO: a mobile catalyst for
rechargeable Li-O2 batteries. J Am Chem Soc 2014, 136(42): 15054-15064. 45. Lim HD, Song H, Kim J, Gwon H, Bae Y, Park KY, et al. Superior rechargeability and efficiency
of lithium-oxygen batteries: hierarchical air electrode architecture combined with a soluble
catalyst. Angew Chem Int Ed 2014, 53(15): 3926-3931. 46. Trahan MJ, Jia Q, Mukerjee S, Plichta EJ, Hendrickson MA, Abraham KM. Cobalt
phthalocyanine catalyzed lithium-air batteries. J Electrochem Soc 2013, 160(9): A1577-
A1586. 47. Lee M, Hong J, Seo DH, Nam DH, Nam KT, Kang K, et al. Redox cofactor from biological
energy transduction as molecularly tunable energy-storage compound. Angew Chem Int Ed
2013, 52(32): 8322-8328. 48. Hanyu Y, Honma I. Rechargeable quasi-solid state lithium battery with organic crystalline
cathode. Sci Rep 2012, 2: 453. 49. Peover ME, Davis JD. The influence of ion-association on the polarography of quinones in
dimethylformamide. J Electroanal Chem (1959) 1963, 6(1): 46-53. 50. Koper MTM. Thermodynamic theory of multi-electron transfer reactions: implications for
electrocatalysis. J Electroanal Chem 2011, 660(2): 254-260. 51. Ottakam Thotiyl MM, Freunberger SA, Peng Z, Chen Y, Liu Z, Bruce PG. A stable cathode for
the aprotic Li-O2 battery. Nat Mater 2013, 12(11): 1050-1056. 15 52. Hartmann P, Bender CL, Sann J, Durr AK, Jansen M, Janek J, et al. A comprehensive study on
the cell chemistry of the sodium superoxide (NaO2) battery. Phys Chem Chem Phys 2013,
15(28): 11661-11672. 52. Hartmann P, Bender CL, Sann J, Durr AK, Jansen M, Janek J, et al. A comprehensive study on
the cell chemistry of the sodium superoxide (NaO2) battery. Phys Chem Chem Phys 2013,
15(28): 11661-11672. Competing financial interests The authors declare no competing financial interests. 52.
Hartmann P, Bender CL, Sann J, Durr AK, Jansen M, Janek J, et al. A comprehensive study on
the cell chemistry of the sodium superoxide (NaO2) battery. Phys Chem Chem Phys 2013,
15(28): 11661-11672. 52.
Hartmann P, Bender CL, Sann J, Durr AK, Jansen M, Janek J, et al. A comprehensive study on
the cell chemistry of the sodium superoxide (NaO2) battery. Physical Chemistry Chemical
Physics 2013, 15(28): 11661-11672. 51.
Ottakam Thotiyl MM, Freunberger SA, Peng Z, Chen Y, Liu Z, Bruce PG. A stable cathode for
the aprotic Li-O2 battery. Nature Materials 2013, 12(11): 1050-1056. Materials and methods TEGDME was distilled under vacuum and DME was distilled under Ar. All solvents were further dried
for several days over freshly activated molecular sieves (type 4Å, Aldrich) before use. The final water
content
was
<
10
ppm
(determined
by
Karl
Fischer
titration). Lithium
bis(trifluoromethane)sulfonimide (LiTFSI, Aldrich) was dried at 70 oC under vacuum over several
days. 3,5-di-tert-butyl-o-benzoquinone,
2,5-di-tert-butyl-1,4-benzoquinone
(DBBQ)
and
thymoquinone were obtained from Aldrich. The prepared electrolyte solutions contain < 10 ppm
water content (determined by Karl Fischer titration). High purity N5.5 O2 (BOC) was used in all
measurements. O2 gas flow was further dried by an in-line moisture trap filled with activated 3 Å
molecular sieves. All materials were stored in an Ar-filled glove box. Cyclic voltammetry (CV) was performed using a VMP3 electrochemical workstation (Biologic) and a
multi-necked, air-tight glass cell within a glove box. The measurements were carried out at room
temperature and IR correction was used. 2 mm diameter polycrystalline Au disks (BAS Inc.) were
employed as the working electrodes. A platinum wire served as the counter electrode and a partially
oxidized LiFePO4 composite electrode behind a Vycor frit served as the reference electrode, as
described previously15. 16 Swagelok Li-O2 cells were constructed as described previously51. Binder-free gas diffusion layers
(GDL, H2315, Quintech) served as the O2 electrode. The porosity of the GDLs is 80 %, roughness
factor (total surface area/ areal area) is 90 and the Brunauer-Emmett-Teller surface area is below 1
m2 g-134. Three pieces of GDLs (4 mm x 4 mm) were stacked to form the cathode giving a final
roughness factor of 270 (3 x 90), a glass fibre filter (Waterman) was used as the separator and a
partially oxidized LiFePO4 electrode was used as the anode. The two-phase LixFePO4 has a fixed
potential of 3.45 V vs. Li+/Li. 200 µl of electrolyte solution was used, consisting of either TEGDME or
DME containing 1 M LiTFSI with DBBQ as indicated in the main article. All cell components were
dried at 90 oC under vacuum prior to use. Assembled cells were placed in glass tubes, which were
filled with dried O2 inside the glove box. Cells were discharged inside an Ar-filled glove box. Characterisations of discharged electrodes For post-cycling characterisation, the cells were dissembled in a glovebox and the cathode and
separators were rinsed with a small amount of TEGDME or DME, the resulting solutions were
subjected to Karl Fischer titration to determine the water content after discharge. The electrodes
were rinsed again with DME and dried prior to further characterisation. The morphology of
discharge electrodes were observed by FE-SEM using a Zeiss-Merlin. PXRD was carried out with a
Rigaku X-ray diffractometer in an air-sensitive holder. FTIR spectra were measured with a Thermo IR
spectrometer (Nicolet 6700) in a N2-filled glove box. Raman spectra were measured with a Rinishaw
Invia spectrometer (10 mW laser power at 785 nm) with an air-sensitive sample holder. For NMR
analysis, 100 µl of electrolyte was extracted from the discharge electrodes and separators then
diluted with 0.7 ml of CDCl3, measurements were recorded on a Bruker spectrometer (400 MHz). A
DEMS cell was constructed as described previously40. A GDL served as working electrode and a
partially oxidised LiFePO4 composite electrode served as anode. The electrolyte solution was 10 mM
DBBQ in 1 M LiTFSI in TEGDME. A continuous 95% O2 / 5% Ar gas flow was purged through the cell as
a carrier gas at a flow rate of 0.3 ml min-1. The quantity of Li2O2 formed was determined by UV-vis spectrometry (Thermo Evolution 200) using
a UV-vis titration method reported previously20,52. The unwashed discharged electrode and
separators were added to a vial containing a known amount of water; Li2O2 reacts with water to
produce H2O2 in solution. 1 ml of this solution was mixed with 2 ml of 2 % TiOSO4 dissolved in 1 M
H2SO4 solution and a yellowish complex [Ti(O2)]2+ (λmax= 405 nm) was formed. The UV-vis absorption
spectrum of the solution was measured and compared to a calibration curve, which was obtained by
measuring solutions with known amounts of commercial Li2O2 (Aldrich). The purity of commercial
Li2O2 was determined by titration using KMnO4 and this was taken into account when constructing
the calibration curve. References 17
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Gambaran Pengetahuan tentang Penyakit Tuberkulosis Paru pada Keluarga Penderita di Puskesmas X
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Jurnal Riset Kedokteran
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cc-by
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Gambaran Pengetahuan tentang Penyakit Tuberkulosis Paru
pada Keluarga Penderita di Puskesmas X
Achmad Cesario Ludiana, Yuliana Ratna Wati* Prodi Pendidikan Kedokteran, Fakultas Kedokteran, Universitas Islam Bandung, Indonesia. Creative Commons Attribution-
NonCommercial-ShareAlike 4.0
International License. Creative Commons Attribution-
NonCommercial-ShareAlike 4.0
International License. Volume
: 2
No. : 2
Halaman : 107-116
Terbitan
: Desember 2022 Kata Kunci : Keluarga Penderita; Tingkat Pengetahuan; Tuberkulosis Paru. Kata Kunci : Keluarga Penderita; Tingkat Pengetahuan; Tuberkulosis Paru. @ 2022 Jurnal Riset Kedokteran Unisba Press. All rights reserved. A R T I C L E I N F O A R T I C L E I N F O
Article history :
Received : 25/8/2022
Revised
: 19/12/2022
Published : 21/12/2022
Creative Commons Attribution-
NonCommercial-ShareAlike 4.0
International License. Volume
: 2
No. : 2
Halaman : 107-116
Terbitan
: Desember 2022 Article history :
Received : 25/8/2022
Revised
: 19/12/2022
Published : 21/12/2022 Article history :
Received : 25/8/2022
Revised
: 19/12/2022
Published : 21/12/2022 Article history : Penelitian ini bertujuan mengetahui gambaran pengetahuan tentang penyakit
tuberkulosis paru pada keluarga penderita TB Paru di Puskesmas X
Kabupaten Bandung. Penelitian bersifat deskriptif dengan pendekatan
purposive sampling. Subjek penelitian adalah keluarga penderita TB Paru di
Puskesmas X Kabupaten Bandung. Data didapatkan menggunakan
kuesioner. Keluarga pasien diteliti sebanyak 66 subjek terdiri dari 54,4% laki-
laki, 33,3% berpendidikan menengah atas, 63.6% berstatus ekonomi rendah,
74,2% dari suku Sunda, 74,2% responden bekerja, 34,8% berusia antara 46-
55 tahun, dan status hubungan keluarga dengan pasien 88.89% adalah orang
tua. Tingkat pengetahuan keluarga penderita TB Paru mengenai tanda-tanda
penyakit TB Paru (74,2%), pencegahan (77,3%), dan pengobatan (56,1%)
adalah baik. Tingkat pengetahuan mengenai cara penularan (43,9%),
Pengawas Minum Obat (PMO) (48,5%), dan komplikasi (48,5%) adalah
cukup. Tingkat pengetahuan mengenai penyebab (39,4%) adalah kurang. Secara umum tingkat pengetahuan keluarga tentang penyakit TB Paru adalah
cukup. A.
Pendahuluan Menurut WHO (World Health Organization) Tuberkulosis (TB) merupakan salah satu penyakit paling
mematikan di dunia. Seperempat dari populasi dunia, terinfeksi kuman TB. Berdasarkan WHO Global
Tuberculosis Report tahun 2018, terdapat secara keseluruhan kasus TB baru sebanyak 6,4 juta, dimana setara
dengan 64% dari insidensi TB yaitu 10,0 juta kasus. Kematian akibat tuberkulosis secara global diperkirakan
sebanyak 1,3 juta.[1] WHO Global Tuberculosis Report tahun 2018, juga menjelaskan angka insidensi TB di Indonesia pada
tahun 2017 sebanyak 319 per 100.000 penduduk dan angka kematian penderita tuberkulosis 40 per 100.000
penduduk. Data tersebut menunjukan Indonesia berada pada peringkat ke-2.[1] Pada tahun 2017 ditemukan jumlah kasus tuberkulosis meningkat, dari pada tahun 2016. Jumlah kasus
tertinggi yang dilaporkan terdapat di provinsi dengan jumlah penduduk yang besar yaitu Jawa Barat, Jawa
Timur dan Jawa Tengah. Kasus tuberkulosis di tiga provinsi tersebut sebesar 43% dari jumlah seluruh kasus
tuberkulosis di Indonesia. Akibat tingginya angka penyakit tuberkulosis maka dibutuhkan sosialisasi mengenai
pencegahan dan pengetahuan tentang penyakit. [2] Menurut Kementrian Kesehatan Case Detection Rate (CDR) tertinggi pada tahun 2017 adalah DKI
Jakarta (104,7%), sedangkan CDR terendah adalah Jambi (24,2%). Jawa Barat berada di peringkat ke-6 di
Indonesia dengan nilai CDR 53,2%, hal ini menunjukkan bahwa di Jawa Barat penemuan kasus TB sudah
baik, karena fasilitas kesehatan sudah cukup mumpuni dan merata sehingga cukup mudah untuk dijangkau
oleh masyarakat. CDR Provinsi Jambi cukup rendah, hal ini dapat terjadi karena kurangnya fasilitas yang
mendukung. Angka kejadian Tuberkulosis Paru di Jambi memang kecil atau pengetahuan dan kesadaran
masyarakat akan gejala penyakit TB cukup rendah. [3] Data dari profil kesehatan Departemen Kesehatan Provinsi Jawa Barat tahun 2017 Case Notification
Rate (CNR) tuberkulosis per 100.00 penduduk dari tahun 2003-2017 cenderung meningkat, dibandingkan
tahun 2016. Pada tahun 2017 terdapat tiga kabupaten/kota dengan Case Notification Rate semua kasus
tuberkulosis yang tinggi yaitu di Kota Sukabumi (400 kasus), Cirebon (396 kasus), dan Bandung (386 kasus). Hal ini menunjukkan angka penularan penyakit TB Paru relatif cukup tinggi dan pengendalian kasus TB Paru
cukup rendah karena kurangnya pemahaman masyarakat mengenai pencegahan penyakit TB Paru dan
kurangnya edukasi tentang pencegahan maupun tentang penyakit TB Paru. Adapun CNR (Case Notification
Rate) yang terendah yaitu Kabupaten Bekasi. [2] Menurut Profil Kesehatan Kabupaten Bandung tahun 2019 angka keberhasilan pengobatan tuberkulosis
di Kabupaten Bandung 90,50%. Keberhasilan pengobatan tertinggi di Puskesmas Sukajadi, Sudi, Sukamanah,
Pangalengan dan Cileunyi dengan angka keberhasilan 100%. Wilayah dengan angka keberhasilan terendah
yaitu Puskesmas Nagrak 75,83% dan Puskesmas X 73,95%. A B S T R A C T This research is aimed to know about the general knowledge of pulmonary
tuberculosis in the families of this patients at X Community Health Center,
Bandung District. This research uses descriptive method with purposive
sampling techniques. The subjects of this research are the families of
pulmonary tuberculosis patients at X Community Health Center, Bandung
District. The data were obtained using questionnaires. The families of the
patients, whom were studied, are 66 subjects consists of 54,4% men, 33,3%
with high school level of education, 63,6% with low economic status, 74,2%
are Sundanese, 74,2% are workers, 34,8% aged between 46 to 55 years old,
and the relation between the families and the patients is 88,89% parents. The
pulmonary TB patients’ families’ level of knowledge regarding the signs &
symptoms (74,2%), the prevention (77,3%), and the treatment (56,1%) is
good. The level of knowledge regarding the mode of transmission (43,9%),
Drug-Taking Supervisor (48,5%), and the complication (48,5%) is sufficient. The level of knowledge regarding the causes (39,4%) is low. In general, the
pulmonary TB patients’ families’ level of knowledge is sufficient. Keywords : Family of The Patients; Knowledge level; Pulmonary Tuberculosis. Corresponding Author : *yulianaratnawati@unisba.ac.id
Indexed : Garuda, Crossref, Google Scholar
DOI : https://doi.org/10.29313/jrk.vi.1511 Corresponding Author : *yulianaratnawati@unisba.ac.id
Indexed : Garuda, Crossref, Google Scholar
DOI : https://doi.org/10.29313/jrk.vi.1511 107/116 Achmad Cesario Ludiana et al. Gambaran Pengetahuan tentang Penyakit Tuberkulosis,... A.
Pendahuluan [5] Kepatuhan minum obat bisa mengakibatkan rendahnya tingkat keberhasilan pengobatan TB paru, Hal
ini dikarenakan kepatuhan minum obat merupakan salah satu keberhasilan dalam pengobatan TB. Kepatuhan
adalah suatu sikap yang merupakan respon yang muncul hanya apabila individu tersebut dihadapkan pada
suatu stimulus yang menghendaki adanya reaksi individual. Jika individu tidak mematuhi apa yang telah
menjadi ketetapan dapat dikatakan tidak patuh. Kepatuhan minum obat dipengaruhi oleh beberapa variabel
yaitu variabel umur, pendidikan, penghasilan, pengetahuan, sikap, dan peran PMO (Pengawas Minum Obat). [6] Menurut Niven, keluarga dapat menjadi faktor yang sangat berpengaruh dalam menentukan keyakinan
dan kesehatan individu juga dapat juga menentukan program pengobatan yang mereka dapatkan. Dukungan
dari anggota keluarga merupakan faktor penting dalam kepatuhan terhadap pengobatan.[6] Penelitian tentang dukungan keluarga dalam keberhasilan pengobatan banyak diteliti, salah satunya
penelitian yang dilaksanakan Rachmawati, Laksmiati dan Soenarsongko. Menurut penelitian tersebut
dukungan keluarga mempunyai peran yang sangat penting bagi kepatuhan pasien TB paru. Selain sebagai
pihak yang selalu mendukung untuk kesembuhan, keluarga juga bertanggung jawab sebagai Pengawas Minum
Obat (PMO) yang nantinya akan berperan untuk mengawasi dan mengingatkan secara terus menerus kepada
pasien agar pasien meminum obatnya secara teratur dan tepat waktu sesuai dengan dosis yang sudah ditetapkan 108/116 Volume 2, No. 2, Desember 2022 Jurnal Riset Kedokteran (JRK) oleh petugas, dukungan keluarga dalam keberhasilan pengobatan pada pasien TB tidak terlepas dari faktor
pengetahuan keluarga itu sendiri. [6] B.
Metode Penelitian Metode penelitian ini adalah deskriptif dengan menggunakan pendekatan penelitian cross sectional. Cross sectional yaitu penelitian yang dilakukan pada satu waktu. Pemilihan sampel diawali dengan survei pada
populasi. Sampel yang dipilih adalah yang memenuhi kriteria inklusi dan eksklusi. Populasi didapat dari
keluarga penderita TB Paru di Puskesmas X Kabupaten Bandung. Besar sampel dihitung dengan menggunakan
rumus Lemeshow didapatkan jumlah sample yaitu 66 subjek dengan Kriteria inklusi pada penelitian ini adalah
keluarga penderita TB Paru yang berobat di Puskesmas X Kabupaten Bandung, dan kriteria eksklusi tidak
menjadi caregiver penderita karena caregiver sudah di edukasi oleh puskesmas setempat, dan keluarga yang
tidak serumah. Kemudian subjek diberikan kuisioner yang memberikan gambaran dari pengetahuan, penyebab,
tanda tanda, penularan, komplikasi, pengawas minum obat, pencegahan dan pengobatan. Dalam hal ini ingin
mengetahui gambaran pengetahuan penyakit TB Paru pada keluarga penderita di Puskesmas X Kabupaten
Bandung. Variabel dalam penelitian ini adalah pengetahuan tentang penyakit TB Paru. Data penelitian
diperoleh dari alat penelitian berupa kuesioner. Kuesioner dibagikan kepada responden dengan cara
memberikan link google formulir yang akan diberikan oleh peneliti dan akan dibantu diarahkan oleh tenaga
kesehatan setempat yang telah dilatih. Kuesioner diisi oleh masing-masing responden dan tidak boleh
diwakilkan. C.
Hasil dan Pembahasan Telah dilakukan penelitian mengenai Gambaran Pengetahuan Tentang Penyakit Tuberkulosis Paru Pada
Keluarga Penderita Tuberkulosis Paru di Puskesmas X Kabupaten Bandung. Sampel yang memenuhi kriteria
inklusi yaitu keluarga penderita TB Paru yang berobat di Puskesmas X Kabupaten Bandung dan eksklusi yaitu
keluarga yang tidak menjadi caregiver dikarenakan caregiver sudah di edukasi terlebih dahulu oleh
puskesmas, yaitu sebanyak 66 orang. e-ISSN 2798-6594 | p-ISSN 2808-3040
109/116
Tabel 1. Karakteristik Keluarga Penderita Penyakit TB Paru
Karakteristik
*Frekuensi
Persen
Jenis Kelamin
Laki-laki
36
54.5
Perempuan
30
45.5
Usia
<17 tahun
1
1.5
17-25 tahun
6
9.1
26-35 tahun
6
9.1
36-45 tahun
17
25.8
46-55 tahun
23
34.8
56-65 tahun
12
18.2
>65 tahun
1
1.5 Tabel 1. Karakteristik Keluarga Penderita Penyakit TB Paru Tabel 1. Karakteristik Keluarga Penderita Penyakit TB Paru e-ISSN 2798-6594 | p-ISSN 2808-3040 e-ISSN 2798-6594 | p-ISSN 2808-3040 Achmad Cesario Ludiana et al. Gambaran Pengetahuan tentang Penyakit Tuberkulosis,... Karakteristik
*Frekuensi
Persen
Suku
Betawi
1
1.5
Jawa
7
10.6
Sunda
58
87.9
Pekerjaan
Bekerja
49
74.2
Tidak Bekerja
17
25.8
Pendidikan
SD
21
31.8
SMP
16
24.2
SMA/SMK
22
33.3
PERGURUAN TINGGI (D1-S3)
7
10.6
Penghasilan
<RP.3.200.000
42
63.6
RP.3.200.000
10
15.2
RP.3200.000-RP.5.000.000
14
21.2
Hubungan Dengan Pasien
Anak
17
25.8
Istri
11
16.7
Orang Tua
18
27.3
Saudara Kandung
4
6.1
Suami
16
24.2
Jenis Pengobatan
Pasien Baru
61
92.4
Pasien Kambuh
5
7.6 Volume 2, No. 2, Desember 2022 Jurnal Riset Kedokteran (JRK)
ISSN 2798 6594 |
ISSN 2808 3040
111/116
Tabel 2. Distribusi Frekuensi Indikator Pengetahuan Keluarga Penderita Tuberkulosis Paru
Indikator
Frekuensi
%
Penyebab Tuberkulosis Paru
Baik
18
27.3
Cukup
22
33.3
Kurang
26
39.4
Tanda-tanda Tuberkulosis Paru
Baik
49
74.2
Cukup
0
0
Kurang
17
25.8
Cara penularan Tuberkulosis Paru
Baik
11
16.7
Cukup
29
43.9
Kurang
26
39.4
Pencegahan Tuberkulosis Paru
Baik
51
77.3
Cukup
13
19.7
Kurang
2
3.0
Pengobatan Tuberkulosis Paru
Baik
37
56.1
Cukup
22
33.3
Kurang
7
10.6
Pengawasan Minum Obat Tuberkulosis Paru
Baik
14
21.2
Cukup
32
48.5
Kurang
20
30.3
Komplikasi Tuberkulosis Paru
Baik
29
43.9
Cukup
32
48.5
Kurang
5
7.6 Jurnal Riset Kedokteran (JRK) Jurnal Riset Kedokteran (JRK)
Tabel 2. C.
Hasil dan Pembahasan Distribusi Frekuensi Indikator Pengetahuan Keluarga Penderita Tuberkulosis Paru
Indikator
Frekuensi
%
Penyebab Tuberkulosis Paru
Baik
18
27.3
Cukup
22
33.3
Kurang
26
39.4
Tanda-tanda Tuberkulosis Paru
Baik
49
74.2
Cukup
0
0
Kurang
17
25.8
Cara penularan Tuberkulosis Paru
Baik
11
16.7
Cukup
29
43.9
Kurang
26
39.4
Pencegahan Tuberkulosis Paru
Baik
51
77.3
Cukup
13
19.7
Kurang
2
3.0
Pengobatan Tuberkulosis Paru
Baik
37
56.1
Cukup
22
33.3
Kurang
7
10.6
Pengawasan Minum Obat Tuberkulosis Paru
Baik
14
21.2
Cukup
32
48.5
Kurang
20
30.3
Komplikasi Tuberkulosis Paru
Baik
29
43.9
Cukup
32
48.5
Kurang
5
7.6 Tabel 2. Distribusi Frekuensi Indikator Pengetahuan Keluarga Penderita Tuberkulosis Paru Penyebab Tuberkulosis Paru Penyebab Tuberkulosis Paru Komplikasi Tuberkulosis Paru e-ISSN 2798-6594 | p-ISSN 2808-3040 Achmad Cesario Ludiana et al. Gambaran Pengetahuan tentang Penyakit Tuberkulosis,... Hasil pengkategorian indikator pengetahuan tentang TB Paru adalah sebagai berikut. Pada indikator
penyebab dari 66 orang, 26 orang (39,4%) memiliki tingkat pengetahuan yang kurang. Pada indikator tanda-
tanda dari 66 orang, 49 orang (74,2%) memiliki tingkat pengetahuan yang baik. Pada indikator cara penularan
dari 66 orang, 29 orang (43,9%) memiliki tingkat pengetahuan yang cukup. Pada indikator pencegahan dari
66 orang, 51 orang (77.3%) memiliki tingkat pengetahuan yang baik. Pada indikator pencegahan dari 66 orang,
37 orang (56.1%) memiliki tingkat pengetahuan yang baik. Pada indikator pengawasan dari 66 orang, 32 orang
(48,5%) memiliki tingkat pengetahuan yang cukup. Pada indikator komplikasii dari 66 orang, 32 orang
(48,5%) memiliki tingkat pengetahuan yang cukup. Berikut merupakan kategorisasi tingkat pengetahuan
berdasarkan persentase terbanyak. Tabel 3. Kategorisasi Tingkat Pengetahuan Keluarga Penderita TB Paru
Tingkat Pengetahuan
Jumlah
Persentase
Baik (>75%)
21
31.8
Cukup (56%-75%)
44
66.7
Kurang (<56%)
1
1.5
Jumlah
66
100 Tabel 3. Kategorisasi Tingkat Pengetahuan Keluarga Penderita TB Paru Hasil pengkategorian tingkat pengetahuan tentang TB Paru adalah sebagai beirkut. Dari 66 orang, 21
orang (31,8%) memiliki tingkat pengetahuan yang baik, 44 orang (66,7%) memiliki tingkat pengetahuan yang
cukup dan 1 orang (1,5%) memiliki tingkat pengetahuan yang kurang. Tabel 4. Hubungan Karakteristik Keluarga Penderita TB Paru dengan tingkat pengetahuan 12/116
Volume 2, No. 2, Desember 2022
Tabel 4. Hubungan Karakteristik Keluarga Penderita TB Paru dengan tingkat pengetahuan
Karakteristik
Pengetahuan
Total
Baik
Cukup
Kurang
N
%
N
%
N
%
Jenis kelamin
Laki-laki
9
25.00
27
75
0
0.00
36
Perempuan
12
40.00
17
57
1
3.33
30
Total
21
31.82
44
67
1
1.52
66
Usia
<17 tahun
0
0.00
1
100.00
0
0.00
1
17-25 tahun
3
50.00
3
50.00
0
0.00
6
26-35 tahun
3
50.00
3
50.00
0
0.00
6
36-45 tahun
3
17.65
14
82.35
0
0.00
17
46-55 tahun
7
30.43
16
69.57
0
0.00
23
56-65 tahun
5
41.67
6
50.00
1
8.33
12 Volume 2, No. Penyebab Tuberkulosis Paru 2, Desember 2022 Jurnal Riset Kedokteran (JRK) ISSN 2798-6594 | p-ISSN 2808-3040
113/116
Karakteristik
Pengetahuan
Total
Baik
Cukup
Kurang
N
%
N
%
N
%
>65 tahun
0
0.00
1
100.00
0
0.00
1
Total
21
31.82
44
67
1
1.52
66
SUKU
Betawi
0
0.00
1
100.00
0
0.00
1
Jawa
2
28.57
5
71.43
0
0.00
7
Sunda
19
32.76
38
65.52
1
1.72
58
Total
21
31.82
44
67
1
1.52
66
Pekerjaan
Bekerja
14
28.57
35
71.43
0
0.00
49
Tidak Bekerja
7
41.18
9
52.94
1
5.88
17
Total
21
31.82
44
67
1
1.52
66
Pendidikan
SD
5
23.81
16
76.19
0
0.00
21
SMP
3
18.75
13
81.25
0
0.00
16
SMA/SMK
8
36.36
13
59.09
1
4.55
22
PERGURUAN TINGGI (D1-S3)
5
71.43
2
28.57
0
0.00
7
Total
21
31.82
44
67
1
1.52
66
Penghasilan
<RP.3.200.000
12
28.57
30
71.43
0
0.00
42
RP.3.200.000
2
20.00
8
80.00
0
0.00
10
RP.3200.000-RP.5.000.000
7
50.00
6
42.86
1
7.14
14
Total
21
31.82
44
67
1
1.52
66
Hubungan Dengan Pasien
Anak
9
52.94
7
41.18
1
5.88
17
Istri
4
36.36
7
63.64
0
0.00
11 chmad Cesario Ludiana et al. Gambaran Pengetahuan tentang Penyakit Tuberkulosis,... Achmad Cesario Ludiana et al. Gambaran Pengetahuan tentang Penyakit Tuberkulosis,... Karakteristik
Pengetahuan
Total
Baik
Cukup
Kurang
N
%
N
%
N
%
Orang Tua
2
11.11
16
88.89
0
0.00
18
Saudara Kandung
1
25.00
3
75.00
0
0.00
4
Suami
5
31.25
11
68.75
0
0.00
16
Total
21
31.82
44
67
1
1.52
66
Jenis pengobatan
Pasien Baru
18
29.51
42
68.85
1
1.64
61
Pasien Kambuh
3
60.00
2
40.00
0
0.00
5
Total
21
31.82
44
67
1
1.52
66 Keluarga Penderita tuberkulosis paru di Puskesmas X Kabupaten Bandung, dari 36 orang berjenis
kelamin laki-laki sebanyak 27 orang (75%) berpengetauan cukup, dan dari 30 orang berjenis kelamin
perempuan sebanyak 17 orang (57%) berpengetahuan cukup. Pembahasan Dari tabel 1 menunjukkan bahwa responden yang terbanyak berjenis kelamin laki-laki yaitu sebanyak 36
responden atau 54.5%, sedangkan perempuan berjumlah 30 responden atau 45.5%. Pengetahuan mengenai TB
Paru lebih baik terjadi pada laki-laki dibandingkan wanita karena laki-laki sebagian besar mengetahui
penyebab ataupun penularan TB Paru.[7] Dari tabel 4.1 di atas menunjukkan bahwa responden adalah keluarga
pasien yang terbanyak berusia 46-55 tahun sebanyak 23 responden atau 34,8%, usia 36-45 tahun yakni 17
responden atau 25.8%, usia 56-65 tahun yakni 12 responden atau 18,2%. Penelitian ini juga didukung
penelitian dari Hasriani, usia seseorang mempengaruhi tingkat pengetahuan. Sehingga semakin tinggi usia
keluarga penderita, maka pasien akan mempunyai pengetahuan tentang penyakit Tuberkulosis Paru yang
semakin baik pula. Sehingga hal ini akan menyebabkan keluarga penderita akan lebih paham dengan
pecegahan dan pengobatan, yang pada akhirnyan akan mendukung keberhasilan pengobatan penderita
tuberkulosis paru.[8] Dari tabel 1 di atas menunjukkan bahwa responden yang terbanyak berpendidikan tamat SMA
sebanyak 22 responden atau 33,3%, SD yakni 21 responden atau 31.8%, tamat SMP yakni 16 responden atau
24,2%, dan sedangkan tamat akademik/sarjana yakni 7 responden atau 10.6%. Pendidikan merupakan suatu
kegiatan, usaha manusia atau proses perubahan perilaku menuju kedewasaan dan penyempurnaan kehidupan
manusia. Tolak ukur pendidikan seseorang dapat diketahui dari pengetahuan dan sikapnya. Berdasarkan data
dari kuisioner 60% responden sudah lulus dari pendidikan dasar sehingga responden dinilai sudah mampu
menerima informasi tentang suatu penyakit, terutama penyakit tuberkulosis paru, dimana panyakit tuberkulosis
paru membutuhkan pengetahuan yang baik untuk membantu keberhasilan pengobatan. Semakin tinggi tingkat
pendidikan responden, maka semakin baik penerimaan informasi tentang pengobatan penyakitnya sehingga
akan semakin teratur pengobatannya. Hasil penelitian ini didukung oleh penelitian dari Cemy Nur Fitria bahwa
semakin tinggi pendidikan akan mampu memberikan persepsi yang positif terhadap pengobatan pada pasien
Tuberkulosis Paru.[9] Dari tabel 1 menunjukkan bahwa responden terbanyak bekerja adalah 49 responden atau 74.2%,
sedangkan tidak bekerja yakni 17 responden atau 25,8%. Pekerjaan responden dapat disimpulkan memiliki
penghasilan yang kurang atau rendah biasanya akan lebih mengutamakan kebutuhan primer dari pada
pemeliharaan kesehatan seperti yang disampaikan Amira bahwa umumnya individu yang mempunyai
penghasilan kurang menyebabkan kemampuan memperoleh status gizi menjadi kurang baik dan kurang
seimbang sehingga berdampak pada menurunnya status kesehatan.[10] Dari tabel 1 menunjukkan berdasarkan penghasilan bahwa responden berpenghasilan <Rp 3.2 juta
adalah 42 responden atau 63.6%, berpenghasilan antara Rp 3.2-Rp 5 juta adalah 14 responden atau 21.2% dan
berpenghasilan Rp 3.2 juta sebanyak 10 orang atau 15.2%. Penyebab Tuberkulosis Paru Keluarga penderita tuberkulosis paru di
Puskesmas X Kabupaten Bandung, dari 1 orang berusia <17 tahun sebanyak 1 orang (100%) berpengetahuan
cukup, dari 6 orang berusia 17-25 tahun sebanyak 3 orang (50%) berpengetahuan cukup, dan baik dari 6 orang
berusia 26-35 tahun sebanyak 3 orang (50%) berpengetahuan cukup dan baik, dari 17 orang berusia 36-45
tahun sebanyak 14 orang (82.35%) berpengetahuan cukup, dari 23 orang berusia 46-55 tahun sebanyak 16
orang (69.57%) berpengetahuan cukup, dari 12 orang berusia 56-65 tahun sebanyak 6 orang (50%)
berpengetahuan cukup, dan dari 1 orang berusia >65 tahun sebanyak 1 orang (100%) berpengetahuan cukup. Keluarga penderita tuberkulosis paru di Puskesmas X Kabupaten Bandung, dari 1 orang suku Betawi sebanyak
1 orang (100%) berpengetahuan cukup, dari 7 orang suku jawa sebanyak 5 orang (71.43%) berpengetahuan
cukup, dan dari 58 orang suku sunda sebanyak 58 orang (65.12%) berpengetahuan cukup. Keluarga penderita
tuberkulosis paru di Puskesmas X Kabupaten Bandung, dari 49 orang bekerja sebanyak 35 orang (71.43%)
berpengetahuan cukup, dan dari 17 orang tidak bekerja sebanyak 9 orang (52.94%) berpengetahuan cukup. Keluarga penderita tuberkulosis paru di Puskesmas X Kabupaten Bandung, dari 16 orang berpendidikan SMP
sebanyak 13 orang (81.25%) berpengetahuan cukup, dari 22 orang berpendidikan SMA/SMK sebanyak 13
orang (59.09%) berpengetahuan cukup, dan dari 7 orang berpendidikan PT sebanyak 5 orang (71.43%)
berpengetahuan baik. Keluarga penderita tuberkulosis paru di Puskesmas X Kabupaten Bandung, dari 42 orang
berpenghasilan <Rp 3.200.000 sebanyak 30 orang (71.43%) berpengetahuan cukup, dari 10 orang
berpenghasilan Rp 3.200.000 sebanyak 8 orang (80%) berpengetahuan cukup, dan dari 14 orang
berpenghasilan Rp 3.200.000–Rp 5.000.000 sebanyak 7 orang (50%) berpengetahuan baik. Keluarga Penderita
Tuberkulosis Paru di Puskesmas X Kabupaten Bandung, dari 17 orang hubungannya dengan pasien adalah
anak sebanyak 9 orang (52.94%) berpengetahuan baik, dari 11 orang hubungannya dengan pasien adalah istri
sebanyak 7 orang (63.64%) berpengetahuan cukup, dari 18 orang hubungannya dengan pasien adalah orang
tua sebanyak 16 orang (88.89%) berpengetahuan cukup, dari 4 orang hubungannya dengan pasien adalah orang
tua sebanyak 3 orang (75%) berpengetahuan cukup, dan dari 18 orang hubungannya dengan pasien adalah
suami sebanyak 11 orang (68.75%) berpengetahuan cukup. Keluarga penderita tuberkulosis paru di Puskesmas
X Kabupaten Bandung, dari 61 orang pasien baru sebanyak 42 orang (68.85%) berpengetahuan cukup, dan
dari 5 orang pasien kambuh sebanyak 3 orang (60%) berpengetahuan baik. Volume 2, No. 2, Desember 2022 114/116 Jurnal Riset Kedokteran (JRK) Pembahasan Hasil dari penelitian ini sejalan dengan hasil
penelitian Purwanto juga menyebutkan bahwa tingkat pengetahuan TB paru lebih rendah pada orang dengan
pendapatan kurang dari Upah Minimum Regional (UMR) adalah 5 kali lebih besar dari pada keluarga pasien
dengan pendapatan lebih dari UMR.[8] Dari tabel 1 diperoleh data responden memiliki pengetahuan yang baik yakni sebanyak 44 orang
(66.7%), berpengetahuan cukup baik yakni 21 orang (31.8%) dan berpengetahuan kurang baik sebanyak 1
orang (1.5%). Keluarga pasien tuberkulosis paru yang memiliki pengetahuan yang baik dan cukup baik tentang
penyebab, tanda-tanda, cara penularan, pencegahan, pengobatan, pengawasan, komplikasi, maka diharapkan
akan memberikan pengertian kepada keluarga yang menderita Tuberkulosis Paru sehingga pasien akan patuh
dan teratur dalam minum obat. Sehingga akan sangat membantu sekali dalam proses penyembuhannya.[8] Baik dan cukup baik pengetahuan responden tersebut karena mereka sudah mendapatkan paparan
informasi. Paparan informasi yang semakin lama akan semakin baik dan semakin mudah diperoleh, akan
mempengaruhi tingkat pengetahuan seseorang. Informasi tersebut pada keluarga penderita diperoleh dari
berbagai sumber. Hal ini sesuai teori pengetahuan menurut Notoatmojo, bahwa pengetahuan merupakan hasil dari
tahu, dan ini terjadi setelah orang melakukan pengindraan terhadap suatu obyek tertentu. Pengindraan terjadi
melalui panca indra manusia, yakni indra penglihatan, pendengara, penciuman, rasa dan raba. Sebagian besar
pengetahuan manusia diperoleh melalui mata dan telinga. Hal ini sesuai penelitian Yessica, H.T, persepsi dan e-ISSN 2798-6594 | p-ISSN 2808-3040 115/116 Achmad Cesario Ludiana et al. Gambaran Pengetahuan tentang Penyakit Tuberkulosis,... pengetahuan orang tua yang baik tentang penyakit Tuberkulosis Paru memberikan pengaruh yang signifikan
terhadap keberhasilan pengobatan pasien.[11] Keterbatasan yang dialami peneliti adalah waktu dan regulasi pelayanan Kesehatan di Puskesmas X
Kabupaten Bandung yang terkendala karena pandemi sehingga pelayanan poli TB dibatasi jumlah pasien
perharinya dan kapasitas ruangan dikurangi sehingga peneliti membutuhkan waktu yang cukup lama untuk
mengumpulkan data responden, dan keadaan pandemi yang membuat peneliti tidak bisa datang ke tempat
penelitian yaitu Puskesmas X Kabupaten Bandung. D.
Kesimpulan Simpulan dari penelitian ini adalah keluarga penderita tuberkulosis paru di Puskesmas X Kabupaten
Bandung sebagian besar berjenis kelamin laki-laki, berusia antara 46-55 tahun, status bekerja, berpenghasilan
kurang dari Rp. 3.200.000, hubungan dengan pasien adalah orang tua dan merupakan pasien baru sebanyak 61
orang. Keluarga Penderita Tuberkulosis Paru di Puskesmas X Kabupaten Bandung adalah sebagian besar
berpengetahuan cukup baik dan baik. Hal ini terlihat dari indikator pengetahuan seperti penyebab, tanda-tanda,
cara penularan, pencegahan, pengawas minum obat, komplikasi, dan keluarga penderita tuberkulosis paru di
Puskesmas X Kabupaten Bandung yang memiliki pengetahuan cukup 44 orang (66,7%) berjenis kelamin laki
laki yaitu sebanyak 27 orang (75%), berumur 45-55 tahun yaitu sebanyak 16 orang (69,57%), suku Sunda yaitu
sebanyak 58 orang (65,12%), memiliki pekerjaan yaitu 35 orang (71,43%), riwayat pendidikan 13 orang
dengan pendidikan SMP (81,25%), penghasilan <Rp.3.200.000 yaitu sebanyak 30 orang (71,43%), hubungan
dengan anggota keluarga suami yaitu sebanyak 11 orang (68,85%), dan jenis pengobatan baru yaitu sebanyak
42 orang (68,85%). Daftar Pustaka [1]
WHO, “WHO TB burden report 2018 [Internet],” Work. Heal. Saf., vol. 63, p. 476, 201 [2]
Dinkes Jabar, “Profil Kesehatan Jawa Barat 2017,” 2018. [3]
K. K. Republik Indonesia, “Pedoman Nasional Pengendalian Tuberkulosis-Keputusan Menteri
Kesehatan Republik Indonesia Nomor 364,” J ICT, 2011. [4]
Aini Agnia, “Tingkat Kepatuhan Pengobatan Pasien Fase Intensif Berdasarkan Karakteristik Pasien
TB di Puskesmas X,” J. Ris. Kedokt., 2022. [5]
Dinas Kesehatan, “Profil Kesehat Kabupaten Bandung 2019,” 2019. [6]
Freeman, “Tingkat pengetahuan,” J Chem Inf Model, vol. 53, no. 9, pp. 1689–99, 2013. [7]
I. Y. Y. U. E. Siswanto, “Hubungan Pengetahuan dan Dukungan Keluarga dengan Kepatuhan Minum
Obat Anti Tuberkulosis di Puskesmas Andalas Kota Padang,” J Kesehat Andalas, vol. 4, no. 3, pp. 724–8, 2018. [8]
S. S. A. H. W. Setiarni, “Hubungan Antara Tingkat Pengetahuan, Status Ekonomi Dan Kebiasaan
Merokok Dengan Kejadian Tuberkulosis Paru Pada Orang Dewasa Di Wilayah Kerja Puskesmas
Tuan-Tuan Kabupaten Ketapang Kalimantan Barat,” J Kesehat Masy (Journal Public Heal., vol. 5,
no. 3, 2019. [9]
F. C. M. A. Nur, “Hubungan Tingkat Pengetahuan Tentang Tuberkulosis Dengan Kepatuhan Minum
Obat Di Puskesmas Banyuanyar Surakarta,” Jikk, vol. 7, no. 1, pp. 41–5, 2019. [10]
Permatasari A, “Pemberantasan Penyakit TB Paru dan Strategi Dots,” Univ Stuttgart, pp [11]
Depkes RI, “Kementerian Kesehatan Republik Indonesia,” Kementeri Kesehat RI, 2018. Volume 2, No. 2, Desember 2022 116/116
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Factors Affecting Renewable Energy Technology Adoption Policies of 50 States and District of Columbia in the United States
|
Research Square (Research Square)
| 2,022
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cc-by
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Factors Affecting Renewable Energy Technology Adoption Policies of 50
States and District of Columbia in the United States Samantha Roberts
University of Utah
Tristan Roland
Prairie View A&M University
Ananda S Amarasekara
(
asamarasekara@pvamu.edu
)
Prairie View A&M University
https://orcid.org/0000-0002-2052-3947 Samantha Roberts
University of Utah
Tristan Roland
Prairie View A&M University
Ananda S Amarasekara
(
asamarasekara@pvamu.edu
)
Prairie View A&M University
https://orcid.org/0000-0002-2052-3947 Factors Affecting Renewable Energy Technology Adoption Policies of 50
States and District of Columbia in the United States Introduction Energy policy in the United States engages federal, state, county and city level governmental actions related to the generation, distribution and
consumption of different classical or non-renewable and renewable resources based energy. At all levels these energy policies are enacted and
enforced through legislation and regulation. Fossil fuels are central to the traditional non-renewable sector and the renewable energy includes solar,
wind and hydroelectric power as major sources. Given the multiple policymakers at all levels of government in the United States, energy policy is
complicated and interconnected. Unlike in many parts of the world the state governments of the United States have a major role in exercising their
local energy policies at the state level (Mazmanian et al. 2020). Generally, the state energy policy has several stakeholders; including citizens, state-
level interest groups, agencies, corporations or businesses and elected state officials. In addition, several factors can affect the viability of energy
policies, such as the accessibility of energy resources, the cost of extracting certain forms of energy, weather conditions, geography, consumer
demand as well as the potential environmental impacts. In recent years a number of researchers around the world have studied the nexus between renewable energy economic policy and the
environmental sustainability of countries; however, there is only a handful of studies on United States (Saint Akadiri et al. 2020), (Aslan et al. 2018),
(Mayer 2018), (Koondhar et al. 2018). According to a recent study by Ahmed and co workers the transition to renewable energy in US is impossible
without massive public renewable energy research and development budgets along with sustained federal as well as state policies (Ahmed et al. 2021). These efforts in the United States showed significant fluctuations over the preceding three decades and economic policy uncertainty was
also highly volatile. Furthermore, they have emphasized the need for stable environmental policies in achieving long-term environmental benefits
(Ahmed et al. 2021). In another study on the impact on natural resources, population growth and environmental quality in the US, Khan et al. have
encouraged policymakers in the USA to establish policies that control the excessive use of natural resources, promote sustainable lifestyles,
develop energy-efficient carbon pricing, and fix the ecological budget to secure a sustainable future for the country (Khan et al. 2021). Their
investigation indicates long-run associations among the variables and reveal an inverse relation of natural resources and renewable energy
consumption. Research Article License:
This work is licensed under a Creative Commons Attribution 4.0 International
License. Read Full License Page 1/11 Introduction Furthermore, a positive relationship of non-renewable energy consumption, population growth, and bio capacity with the ecological
footprint and CO2 emissions was also noted during this work (Khan et al. 2021). There are few limited studies on adoption of specific renewable
energy technologies, focusing on a state or a region of the US (Pitt et al. 2018), (Pol and Ford 2020). For instance, a 2019 study analyzed the solar
photovoltic technology adoption in Pacific Northwest region of the US (Cho et al. 2019). This study found a co-relation between solar adoption
trends and higher education levels in the populations. Furthermore, researchers could identify certain areas in the state of Oregon ideal for energy
companies to promote, educate and incentivize home solar program, in order to bolster the adoption (Cho et al. 2019). However, as far as we are aware there are no reports on sustainable energy technology adoption trends in separate states in the United States. In an
attempt to fill this void and as a continuation of our efforts in the development (Amarasekara 2013) and evaluation of sustainable energy
technologies in US we have studied recent energy technology adoption trends in 50 states and district of Columbia in the United States and their
co-relation to a selected set of eight contributing factors. The variables: percentage of high school graduates (HS); college graduates (CD); total
population (TP); area (TA); water covered area (PW); annual income (AI); and registered democrats (RD) were selected as predictor variables for this
study. Furthermore, willingness of individual states to adopt modern renewable energy sources wind (WE), solar (SE), hydro (HE), geothermal (GE) and
biomass energy (BE) for electrical energy generation and the current trends are focused in this study. The electrical energy generated by nuclear
energy is not taken into account in this contemporary renewable energy trend analysis as nuclear fission electricity generation is in rapid decline in
the past 30 years (Markard et al. 2020). Furthermore, nuclear energy is not a part of this sustainability revolution and in a number of large
economies such as China, India, United Kingdom and Germany power generation from non-hydro renewables has already surpassed the electricity
generation from nuclear power plants (IEA 2019). In addition, recent sharp falls in the cost of renewable energy technologies such as solar cells are
likely to undermine the economic competitiveness of nuclear energy still further (IRENA 2018). Abstract Renewable energy policies and adoption of new renewable energy technologies in different states of the United states are not uniform. The factors
affecting the trends in adopting electrical energy generation using sustainable resources: wind, solar, hydro, geothermal and biomass as well as
registered all electric vehicles in 50 states and district of Columbia in the United States was analyzed using multivariate linear regression analysis. Eight contributing factors: percentages of high school graduates; college graduates; total population; land area; percentage of water covered area;
average annual income and registered democrats in the state were selected as predictor variables. Among eight factors considered, percentage of
registered democrats was found as the most influencing factor (p = 0.00543) determining the renewable electrical energy adoption. The transition
to all electric cars strongly co-related to higher average annual income of the population (p = 0.00141). In conclusion, an aggressive education
campaign by environmentalist and pro-sustainability groups may help in de-coupling the energy and environment policies in the United States from
political ideologies in order to achieve a more sustainable future. Introduction We have considered the education standards of the population as a key influencing factor in adopting sustainable technologies. A study on
educational attainment in the United States shows that percentage of high school graduates increased from 41 to 91% and college graduates Page 2/11 increased from 8 to 38% during the period of from 1960 to 2020; however this increase is not uniform throughout the US and there are considerable
irregularities among regions and states (Statista 2022). There are several links, suggesting that education level and cognitive ability of the
population should be related to social awareness of costs and benefits of renewable energy use and consequent public acceptance (Eshchanov et
al. 2021). Research studies have demonstrated less of a preference for smaller, immediate rewards versus larger, delayed rewards in more highly
educated and intelligent groups of people (Shamosh and Gray 2008). Similarly, there is evidence for the co-relation between education level of a
society and the abilities to play important role in mitigating environmental degradation (Salahodjaev 2016). In the United States total population
(TP) of a state and the total land area (TA) are two independent variables; for instance the small state New Jersey with a high population has a
population density of approximately as one thousand times the population density of Alaska (States101 2022). The land area of a state is an
important factor in adopting renewable energy technologies such as wind (WE) and hydro (HE) as well; therefore we have included total population
(TP) and the total area (TA) of states as two other variables. The water covered land area of a state may have a bearing on the ability of a state to
generate hydroelectric power, as most of these power stations are built near a large water reservoir; additionally, water covered area percentage is
independent from the total land area of the state as some large areas of the western United states are arid land with minimal annual rainfall
(Moore et al. 2021). The median annual income (AI) of a population is an important factor in determining the tendency to adopt renewable energy
technologies. This factor is generally independent form most of the other factors considered such as: total population (TP), area (TA), water
covered area (PW), and registered democrats (RD); however may have an association to the education of the population in the states. Introduction Nevertheless,
we have considered annual income (AI) as another variable as this can be correlated to the tendency of embracing more expensive and newest
renewable energy technologies such as electric vehicles and roof-top solar panels. Another important factor may be the political ideology; unlike in
many parts of the developed world, the renewable energy policy in the United States has a greater bearing on the political affiliation of the decision
makers. The US withdrawal from Paris agreement in June 2017 under a republican administration and immediate reentry under democratic control
is a reflection of this political bias (Marlow et al. 2021), (Ali et al. 2021). This phenomena is common to federal, state and local government in the
US; therefore we have included the percentage of registered democrats in a state as one of the factors influencing the renewable energy adoption
trends and decisions. Methodology Multivariable linear regression used to predict an outcome variable (y) on the basis of multiple distinct predictor variables (x) was applied in all
analysis. This multivariable linear regression model can be expressed by the following Eq. (1) where b values are regression weights or coefficients. y = b0 + b1x1 + b2x2 + b3x3 + b4x4 + b4x5 + …….. + bnxn (1) y = b0 + b1x1 + b2x2 + b3x3 + b4x4 + b4x5 + …….. + bnxn (1) The open source R programming environment at: www.r-project.org was used in data analysis. This research analysis is based on the hypothesis that recent renewable energy technology adoption trends in 50 states and district of Columbia in
the United States are co-related to eight contributing factors: percentage of high school graduates (HS), college graduates (CD), total population
(TP), area (TA), water covered area (PW), annual income (AI) and registered democrats (RD). Data Availability Data Availability Page 3/11 Page 3/11 Table 1
Datasets related to this article
Data Source
Available
data
https://www.eia.gov/state/seds/; www.eia/electricity/data/state
Electricity
generation
of states
https://www.census.gov/programs-surveys/popest/technical-documentation/research/evaluation-estimates/2020-evaluation-
estimates/2010s-state-total.html
Population
data of
states
https://www.census.gov/geographies/reference-files/2010/geo/state-area.html
Land and
water area
of states
https://www.census.gov/search-results.html?searchType=web&cssp=SERP&q=median%20income
Median
income of
residence in
a state
https://data.census.gov/cedsci/table? q=educational%20attainment&g=0100000US,.04000.001_0400000US72&tid=ACSST1Y2019.S1501&tp=true&hidePreview=true
Educational
attainment
of residence
in a state
https://www.archives.gov/electoral-college/2020
Electoral
college
results by
state
https://www.statista.com/statistics/1080003/political-party-identification-state-us/
Identification
with political
parties by
state
https://afdc.energy.gov/data
Bio-Energy
and electric
vehicles by
state
Results And Discussion
Percentage of renewable electrical energy in the state (PRE)
In the first phase of the study co-relation between percentage of all forms of combined renewable electrical energy produced in the state (PRE) to
eight predictor variables were studied using multivariate regression analysis according to the Eq. (2):
outcome: PRE = b0 + b1x1 + b2x2 + b3x3 + b4x4 + b5x5 + b6x6 + b7x7 + b8x8 (2)
x1 = HS, x2 = CD, x3 = PD, x4 = TP, x5 = TA, x6 = PW, x7 = AI, x8 = RD
where the predictor variables are: percentage of high school graduates (HS); percentage of college degree graduates (CD); population density of the
state (PD); total population of the state (TP); area of the state (TA); percentage of water covered area of the state (PW); average annual personal https://www.census.gov/geographies/reference-files/2010/geo/state-area.html https://www.archives.gov/electoral-college/2020 https://www.statista.com/statistics/1080003/political-party-identification-state-us/ https://afdc.energy.gov/data ome: PRE = − 3.63 + 3.98 HS + 0.432 CD − 0.0000727 PD − 0.00000000197 TP + 0.000000678 TA − 0.664 P Three predictor variables with p < 0.02 are significantly co-related to the renewable electrical energy generation in a state as shown in Table 2. The
percentage of registered democrats with p = 0.00543 is the most influencing factor determining the tendency of the state policy makers to
implement renewable resources based electrical energy generation. The population density (p = 0.01964) and percentage of high school graduates
(p = 0.02033) are also showing significant influences. The populations with higher education levels are likely to adopt renewable resources based
energy and sustainable environmental policies and similar inclinations are seen in other parts of the world as well (Karasmanaki and Tsantopoulos
2019). In addition, area of the state (p = 0.05995) and water covered area (p = 0.05012) also shows strong positive and negative co-relations. Percentage of combined renewable electrical energy in the state (PRE) shows positive coefficients for HS, CD, TA and RD; whereas negative
coefficients are found for PD, TP, PW and AI. Therefore the analysis predicts an increase in percentage of combined renewable electrical energy in
the state (PRE) for the increase in predictor variables HS, CD, TA and RD. In contrary the model predicts a decrease in percentage of combined
renewable electrical energy in the state (PRE) for the increase in predictor variables PD, TP, PW and AI. ercentages of renewable electrical energy components: wind (WE), solar (SE), hydro (HE), geothermal (GE) Percentages of renewable electrical energy components: wind (WE), solar (SE), hydro (HE), geothermal (GE) and biomass energy (BE) In the second phase, we have expanded the analysis in previous section; where we have studied the co-relations of percentages of individual
components of renewable energy: wind (WE), solar (SE), hydro (HE), geothermal (GE) and biomass (BE) based renewable electrical energy in states
to the same eight predictor variables as in previous study. Multivariate regression analysis was carried out using R for the model: outcome: WE/SE/HE/GE/BE = b0 + b1x1 + b2x2 + b3x3 + b4x4 + b5x5 + b6x6 + b7x7 + b8x8 (4) x1 = HS, x2 = CD, x3 = PD, x4 = TP, x5 = TA, x6 = PW, x7 = AI, x8 = RD Percentage of renewable electrical energy in the state (PRE) (3) can be written as follows:
outcome: PRE = − 3.63 + 3.98 HS + 0.432 CD − 0.0000727 PD − 0.00000000197 TP + 0.000000678 TA − 0.664 PW − 0.00000884 AI + 1.74 RD ( Multivariate regression analysis p values for the
outcome: percentage of combined renewable
electrical energy in the state (PRE)
Predictor variable
p
High school graduates, % (HS)
0.02033
College degree graduates, % (CD)
0.72897
Population density, per sq. mile (PD)
0.01964
Total population (TP)
0.71355
Area of the state, sq. mile (TA)
0.05995
Water covered area % (PW)
0.05012
Average annual income, $ (AI)
0.1324
Registered democrats, % (RD)
0.00543 The model Eq. (3) can be written as follows: Percentage of renewable electrical energy in the state (PRE) In the first phase of the study co-relation between percentage of all forms of combined renewable electrical energy produced in the state (PRE) to
eight predictor variables were studied using multivariate regression analysis according to the Eq. (2): outcome: PRE = b0 + b1x1 + b2x2 + b3x3 + b4x4 + b5x5 + b6x6 + b7x7 + b8x8 (2)
x1 = HS, x2 = CD, x3 = PD, x4 = TP, x5 = TA, x6 = PW, x7 = AI, x8 = RD outcome: PRE = b0 + b1x1 + b2x2 + b3x3 + b4x4 + b5x5 + b6x6 + b7x7 + b8x8 (2)
x1 = HS, x2 = CD, x3 = PD, x4 = TP, x5 = TA, x6 = PW, x7 = AI, x8 = RD x1 = HS, x2 = CD, x3 = PD, x4 = TP, x5 = TA, x6 = PW, x7 = AI, x8 = RD where the predictor variables are: percentage of high school graduates (HS); percentage of college degree graduates (CD); population density of the
state (PD); total population of the state (TP); area of the state (TA); percentage of water covered area of the state (PW); average annual personal
income of the state (AI); and registered democrats in the state (RD), and the results are shown in Table 2. where the predictor variables are: percentage of high school graduates (HS); percentage of college degree graduates (CD); population density of t
state (PD); total population of the state (TP); area of the state (TA); percentage of water covered area of the state (PW); average annual personal
income of the state (AI); and registered democrats in the state (RD), and the results are shown in Table 2. Page 4/11 Page 4/11 Table 2
Multivariate regression analysis p values for the
outcome: percentage of combined renewable
electrical energy in the state (PRE)
Predictor variable
p
High school graduates, % (HS)
0.02033
College degree graduates, % (CD)
0.72897
Population density, per sq. mile (PD)
0.01964
Total population (TP)
0.71355
Area of the state, sq. mile (TA)
0.05995
Water covered area % (PW)
0.05012
Average annual income, $ (AI)
0.1324
Registered democrats, % (RD)
0.00543
The model Eq. (6)
Percentages of renewable electrical energy generated using hydro (HE) The regression analysis p values for hydro based renewable electrical energy generation in states are shown in Table 5. The p values are relatively
high for all the variables studied and the lowest value of 0.145 is for area of the state. This results is logical as states with large land areas are
likely to have rivers and waterways that can be dammed for hydroelectric power generation. Interestingly, the water coverage percent, mostly
counting lakes in a state shows a much higher p as these are still water bodies. Page 6/11 1
2
3
4
5
6
7
8
Percentages of renewable electrical energy generated using wind (WE) Percentages of renewable electrical energy generated using wind (WE) The results of multivariate regression analysis study on wind energy based renewable electrical energy generation in states are shown in Table 3. The two variables: area of the state and the percentage of registered democrats showed significantly low p values in comparison to other variables
as shown in Table 3. As expected states with large land area and suitable geographic terrains can produce more wind energy than smaller states. In
addition, political affiliation of the policy makers can also be an important influence in adopting wind energy electricity generation in a state, as
evident from the second lowest p value in Table 3. Percentage of renewable electrical energy generated using wind (WE) shows positive coefficients for PW, AI and RD; whereas negative coefficients
are found for HS, CD, PD, TP and TA. Therefore the analysis predicts an increase in percentage of electrical energy generated using wind (WE) for
the increase in predictor variables PW, AI and RD. In contrary the model predicts a decrease in percentage of renewable electrical energy generated
using wind (WE) for the increase in predictor variables HS, CD, PD, TP and TA Page 5/11 Page 5/11 Table 3
Multivariate regression analysis p values for the
outcome: percentage of wind based renewable
electrical energy in the state (WE)
Predictor variable
p
High School graduates, % (HS)
0.248
College degree graduates, % (CD)
0.6761
Population density, per sq. mile (PD)
0.3733
Total population (TP)
0.3881
Area of the state, sq. mile (TA)
0.0643
Water covered area % (PW)
0.2835
Average annual income, $ (AI)
0.3548
Registered democrats, % (RD)
0.1014
The model Eq. (5) can be written as follows: Table 3 electrical energy in the state (WE)
Predictor variable
p
High School graduates, % (HS)
0.248
College degree graduates, % (CD)
0.6761
Population density, per sq. mile (PD)
0.3733
Total population (TP)
0.3881
Area of the state, sq. mile (TA)
0.0643
Water covered area % (PW)
0.2835
Average annual income, $ (AI)
0.3548
Registered democrats, % (RD)
0.1014
The model Eq. (5) can be written as follows: 1.08 HS − 0.29 CD − 0.000015 PD − 0.00000000259 TP + 0.000000371 TA + 0.199 PW + 0.000003 AI + 0.5 Percentages of renewable electrical energy generated using solar (SE) Percentages of renewable electrical energy generated using solar (SE) The results of multivariate regression analysis study on solar energy based renewable electrical energy generation in states are shown in Table 4. The popular roof-top solar panel in home energy generation appear to be strongly co-related to the population density of the state with p =
0.00000761 with a positive co-relation. Percentage of renewable electrical energy generated using solar (SE) shows positive coefficients for HS, PD, TP, PW and RD; whereas negative
coefficients are found for CD, TA and AI. Therefore the analysis predicts an increase in percentage of electrical energy generated using solar (SE)
for the increase in predictor variables HS, PD, TP, PW and RD. In contrary the model predicts a decrease in percentage of renewable electrical energy
generated using solar (SE) for the increase in predictor variables CD, TA and AI. Table 4
Multivariate regression analysis p values for the
outcome: percentage of solar based renewable
electrical energy in the state (SE)
Predictor variable
p
High School graduates, % (HS)
0.312
College degree graduates, % (CD)
0.294
Population density, per sq. mile (PD)
0.00000761
Total population (TP)
0.561
Area of the state, sq. mile (TA)
0.419
Water covered area % (PW)
0.622
Average annual income, $ (AI)
0.781
Registered democrats, % (RD)
0.859
The model Eq. (6) can be written as follows: Table 4
Multivariate regression analysis p values for the
outcome: percentage of solar based renewable
electrical energy in the state (SE)
Predictor variable
p
High School graduates, % (HS)
0.312
College degree graduates, % (CD)
0.294
Population density, per sq. mile (PD)
0.00000761
Total population (TP)
0.561
Area of the state, sq. mile (TA)
0.419
Water covered area % (PW)
0.622
Average annual income, $ (AI)
0.781
Registered democrats, % (RD)
0.859
The model Eq. (6) can be written as follows: The model Eq. (6) can be written as follows: The model Eq. (6) can be written as follows: outcome: SE = − 0.121 + 0.214 HS − 0.167 CD + 0.000194 PD + 0.000000000396 TP − 0.0000000363 TA + 0.0207 PW − 0.000000205 AI + 0.0134 RD
( ) outcome: HE = 1.23–1.29 HS − 0.818 CD + 0.0000140 PD − 0.0000000002.76 TP + 0.000000442 TA − 0.244 PW + 0.00000478 AI − 0.0318 RD (7)
Percentages of renewable electrical energy generated using geothermal (GE) mile (PD)
0.000413
Total population (TP)
0.481
Area of the state, sq. mile (TA)
0.399
Water covered area % (PW)
0.375
Average annual income, $ (AI)
0.483
Registered democrats, % (RD)
0.799
The model Eq. (8) can be written as follows:
outcome: GE = − 0.0958 + 0.134 HS − 0.153 CD + 0.00000984 PD + 0.000000000324 TP − 0.0000000256 TA − 0.02.52 PW + 0.000000349 AI + 0.013
RD (8)
Percentages of renewable electrical energy generated using biomass (BE) Table 6
Multivariate regression analysis p values for the
outcome: percentage of geothermal based
renewable electrical energy in the state (GE)
Predictor variable
p
High School graduates, % (HS)
0.349
College degree graduates, % (CD)
0.157
Population density, per sq. mile (PD)
0.000413
Total population (TP)
0.481
Area of the state, sq. mile (TA)
0.399
Water covered area % (PW)
0.375
Average annual income, $ (AI)
0.483
Registered democrats, % (RD)
0.799
The model Eq. (8) can be written as follows: Table 6
Multivariate regression analysis p values for the
outcome: percentage of geothermal based
renewable electrical energy in the state (GE)
Predictor variable
p
High School graduates, % (HS)
0.349
College degree graduates, % (CD)
0.157
Population density, per sq. mile (PD)
0.000413
Total population (TP)
0.481
Area of the state, sq. mile (TA)
0.399
Water covered area % (PW)
0.375
Average annual income, $ (AI)
0.483
Registered democrats, % (RD)
0.799 The model Eq. (8) can be written as follows: The model Eq. (8) can be written as follows:
outcome: GE = − 0.0958 + 0.134 HS − 0.153 CD + 0.00000984 PD + 0.000000000324 TP − 0.0000000256 TA − 0.02.52 PW + 0.000000349 AI + 0.013
( ) outcome: HE = 1.23–1.29 HS − 0.818 CD + 0.0000140 PD − 0.0000000002.76 TP + 0.000000442 TA − 0.244 PW + 0.00000478 AI − 0.0318 RD (7)
Percentages of renewable electrical energy generated using geothermal (GE) Geothermal electrical energy generation is rare in US; however, we have counted this new source as it is a rapidly developing trend in the last couple
of years (Ball 2021), (Ayling 2021). A distinctly low p value of 0.000413 was found for population density of a state, as shown in Table 6. This may
be due to the fact that so far only a few very large states with small populations have tapped this promising sustainable source for electricity
generation. Percentage of renewable electrical energy generated using geothermal (GE) shows positive coefficients for HS, PD, TP, AI and RD; whereas negative
coefficients are found for CD, TA and PW. Therefore the analysis predicts an increase in percentage of electrical energy generated using geothermal
(GE) for the increase in predictor variables HS, PD, TP, AI and RD. In contrary the model predicts a decrease in percentage of renewable electrical
energy generated using geothermal (GE) for the increase in predictor variables CD, TA and PW. Table 6
Multivariate regression analysis p values for the
outcome: percentage of geothermal based
renewable electrical energy in the state (GE)
Predictor variable
p
High School graduates, % (HS)
0.349
College degree graduates, % (CD)
0.157
Population density, per sq. mile (PD)
0.000413
Total population (TP)
0.481
Area of the state, sq. mile (TA)
0.399
Water covered area % (PW)
0.375
Average annual income, $ (AI)
0.483
Registered democrats, % (RD)
0.799 Page 7/11
Table 6
Multivariate regression analysis p values for the
outcome: percentage of geothermal based
renewable electrical energy in the state (GE)
Predictor variable
p
High School graduates, % (HS)
0.349
College degree graduates, % (CD)
0.157
Population density, per sq. mile (PD)
0.000413
Total population (TP)
0.481
Area of the state, sq. mile (TA)
0.399
Water covered area % (PW)
0.375
Average annual income, $ (AI)
0.483
Registered democrats, % (RD)
0.799
The model Eq. (8) can be written as follows:
outcome: GE = − 0.0958 + 0.134 HS − 0.153 CD + 0.00000984 PD + 0.000000000324 TP − 0.0000000256 TA − 0.02.52 PW + 0.000000349 AI + 0.013
RD (8)
Percentages of renewable electrical energy generated using biomass (BE) Page 7/11
Table 6
Multivariate regression analysis p values for the
outcome: percentage of geothermal based
renewable electrical energy in the state (GE)
Predictor variable
p
High School graduates, % (HS)
0.349
College degree graduates, % (CD)
0.157
Population density, per sq. Table 5 Multivariate regression analysis p values for the
outcome: percentage of hydro based renewable
electrical energy in the state (HE) Multivariate regression analysis p values for the
outcome: percentage of hydro based renewable
electrical energy in the state (HE) electrical energy in the state (HE)
Predictor variable
p
High School graduates, % (HS)
0.363
College degree graduates, % (CD)
0.44
Population density, per sq. mile (PD)
0.585
Total population (TP)
0.951
Area of the state, sq. mile (TA)
0.145
Water covered area % (PW)
0.386
Average annual income, $ (AI)
0.334
Registered democrats, % (RD)
0.95 The model Eq. (7) can be written as follows: outcome: HE = 1.23–1.29 HS − 0.818 CD + 0.0000140 PD − 0.0000000002.76 TP + 0.000000442 TA − 0.244 PW + 0.00000478 AI − 0.0318 RD (7)
Percentages of renewable electrical energy generated using geothermal (GE) outcome: HE = 1.23–1.29 HS − 0.818 CD + 0.0000140 PD − 0.0000000002.76 TP + 0.000000442 TA − 0.244 PW + 0.00000478 AI − 0.0318 RD (7)
Percentages of renewable electrical energy generated using geothermal (GE) Page 6/11 Page 6/11 Percentage of renewable electrical energy generated using hydro (HE) shows positive coefficients for PD, TA and AI; whereas negative coefficients
are found for HS, CD, TP, PW and RD. Therefore the analysis predicts an increase in percentage of electrical energy generated using hydro (HE) for
the increase in predictor variables PD, TA and AI. In contrary the model predicts a decrease in percentage of renewable electrical energy generated
using hydro (HE) for the increase in predictor variables HS, CD, TP, PW and RD. Page 7/11
RD (8)
Percentages of renewable electrical energy generated using biomass (BE) Page 7/11
Percentages of renewable electrical energy generated using biomass (BE) The regression analysis results for biomass based renewable electrical energy generation in states are shown in Table 7. A high co-relation is found
with percentage of college degree graduates with p values of 0.039. However, the coefficient for this correlation is negative, indicating that increase
in percentage of college graduates can result a decrease in renewable electrical energy generation in the state using biomass (BE). The regression analysis results for biomass based renewable electrical energy generation in states are shown in Table 7. A high co-relation is found
with percentage of college degree graduates with p values of 0.039. However, the coefficient for this correlation is negative, indicating that increase
in percentage of college graduates can result a decrease in renewable electrical energy generation in the state using biomass (BE). Percentage of renewable electrical energy generated using biomass (BE) shows positive coefficients for HS, PD, TP, AI and RD; whereas negative
coefficients are found for CD, TA and PW. Therefore the analysis predicts an increase in percentage of electrical energy generated using biomass
(BE) for the increase in predictor variables HS, PD, TP, AI and RD. In contrary the model predicts a decrease in percentage of renewable electrical
energy generated using biomass (BE) for the increase in predictor variables CD, TA and PW. Table 7
Multivariate regression analysis p values for the
outcome: percentage of biomass based
renewable electrical energy in the state (BE)
Predictor variable
p
High School graduates, % (HS)
0.365
College degree graduates, % (CD)
0.039
Population density, per sq. mile (PD)
0.568
Total population (TP)
0.471
Area of the state, sq. mile (TA)
0.821
Water covered area % (PW)
0.787
Average annual income, $ (AI)
0.172
Registered democrats, % (RD)
0.135
The model Eq. (9) can be written as follows: outcome: GE = − 0.0958 + 0.134 HS − 0.153 CD + 0.00000984 PD + 0.000000000324 TP − 0.0000000256 TA − 0.0252 PW + 0.0000000349 AI +
0 0130 RD (9) outcome: GE = − 0.0958 + 0.134 HS − 0.153 CD + 0.00000984 PD + 0.000000000324 TP − 0.0000000256 TA − 0.0252 PW + 0.0000000349 AI +
0.0130 RD (9) The model Eq. (10) can be written as follows: outcome: PEV = 0.00148–0.00672 HS − 0.00673 CD − 0.0000000116 PD + 0.0000000000678 TP + 0.0000000857AI + 0.00511 RD (10) outcome: PEV = 0.00148–0.00672 HS − 0.00673 CD − 0.0000000116 PD + 0.0000000000678 TP + 0.0000000857AI + 0.00511 RD (10) outcome: PEV = 0.00148–0.00672 HS − 0.00673 CD − 0.0000000116 PD + 0.0000000000678 TP + 0.0000000857AI + 0.00511 RD (10) Conclusion And Policy Implications In addition, total population of the state and percentage of democrats in the state are also co-
related to the electric automobile adoption; again showing the strong influence in political ideology on sustainability adoption in US. However, the
recent advancements in battery materials, recycling technologies as well as anticipated introduction of a number electric car models by major US
automakers in the next 2–5 years may expect to lower the electric car prices to match the gasoline models, boosting the affordability of electric
cars. Our study has implications for renewable energy technology adoption policies of state and at federal level in the US. This multivariate
regression analysis clearly demonstrate a significant co-relation between the political affiliation and total renewable electrical energy percentage as
well as to some of the individual components of sustainable energy transformation. Then there are variables such as land area, water cover and
population with limited control; where as political bias is a more flexible variable and can be manipulated. Therefore, an aggressive education
campaign by environmentalist and pro-sustainability groups may help in de-coupling the energy and environment policies in the United States from
political ideologies in order to achieve a more sustainable future. Conclusion And Policy Implications We have analyzed the factors influencing the renewable electrical energy generation and transition to fully electric cars in 50 states and district of
Columbia in the United States. This communication reports the possible underlying factors that determines why some states in the US are far
behind in adopting sustainable energy technologies, and some are ahead in new electrical energy generation using sources such as solar and wind
as well as in use of all electric cars. We have found that political inclination of state's population as the most co-related factor in determining the
adoption of sustainable electrical energy generation technologies. In contrary to most other developed countries, sustainability and environment
has become highly politicized issues in the United States. This may be due to two reasons: firstly, extensive lobbying by large oil and fossil fuel
power companies in US have persuaded the policy makers to dismiss and ignore environmental implications of fossil fuels. This symbiosis is
particularly strong in the republican side of the aisle at both federal and state levels. Secondly, the traditional conservative principals of less
government control or freedom to make your own decisions and less taxes, commonly identified as republican core values are often misinterpreted
for the continuation of the anti-sustainability agenda of large oil and fossil fuel power companies. In further investigation of co-relation between renewable electrical energy sources and policies; we have analyzed the individual components: wind,
solar, hydro, geothermal and biomass energy and their co-relation to eight selected variables as well. The sustainable energy technologies such as
wind and hydroelectric power generation that require large land areas showed the expected co-relations to larger states. Solar energy electrical
power generation is showing the highest level of energy penetration in last couple of years and is expected to revolutionize the domestic electrical
energy supply in US. In our analysis, solar electrical energy adoption strongly co-related to the population density and somewhat co-related to the
percentage of college degree graduates in a state, indicating that educated urban populations are in the forefront of solar roof-top adoption. The transition to fully electric battery powered automobiles is another major indicator in sustainability revolution. Our study shows a very strong co-
relation between electric vehicle adoption and the average annual income. This result is logical as the current fully electric cars cost as twice or
more than an equivalent gasoline powered car. Authorship Contribution Statement Samantha Roberts: data collection; literature review; methodology; analysis using R, Tristan Roland: data collection; analysis using R, Ananda S. Amarasekara: conceptualization; writing, editing. Competing interests Authors declare that they have no known competing financial interests or personnel relationships that could have appeared to influence the work
reported in this paper. Authorship contribution statement Authorship contribution statement Samantha Roberts: data collection; literature review; methodology; analysis using R, Tristan Roland: data collection; analysis using R, Ananda S. Amarasekara: conceptualization; writing, editing. Acknowledgements We thank United States National Science Foundation grant: NSF DMS -1950677, REU Site: Mathematical Modeling in the Sciences, for financial
support. ( )
Percentage of fully electric vehicles registered in a state (PEV) In the third phase of the study, co-relation between percentage of fully electric vehicles registered in a state (PEV) and six selected predictor
variables were studied using multivariate regression analysis. The results for electric vehicles registered in a state analyzed using six variables:
percentage of high school graduates (HS); college graduates (CD); total population (TP); annual income (AI); and registered democrats (RD) are
shown in Table 8. The average annual income shows a very small p value of 0.00141, indicating a strong co-relation between the personnel income
and purchasing a fully electric vehicle. Currently, on average fully electric battery powered cars are more expensive than gasoline cars, therefore
personnel annual income appears to be the most important factor in determining the acceptance of this renewable energy technology. Percentage of fully electric vehicles registered in a state (PEV) shows positive coefficients for TP, AI and RD; whereas negative coefficients are
found for HS, CD and PD. Therefore the analysis predicts an increase in percentage of fully electric vehicles registered in a state (PEV) for the
increase in predictor variables TP, AI and RD. In contrary the model predicts a decrease in percentage of fully electric vehicles registered in a state
(PEV) for the increase in predictor variables HS, CD and PD. Page 8/11
Table 8
Multivariate regression analysis p values for the
outcome: percentage of fully electric vehicles
registered in a state (PEV)
Predictor variable
p
High School graduates, % (HS)
0.410
College degree graduates, % (CD)
0.251
Population density, per sq. mile (PD)
0.937
Total population (TP)
0.011
Average annual income, $ (AI)
0.00141
Registered democrats, % (RD)
0.077
The model Eq. (10) can be written as follows: Page 8/11
Table 8
Multivariate regression analysis p values for the
outcome: percentage of fully electric vehicles
registered in a state (PEV)
Predictor variable
p
High School graduates, % (HS)
0.410
College degree graduates, % (CD)
0.251
Population density, per sq. mile (PD)
0.937
Total population (TP)
0.011
Average annual income, $ (AI)
0.00141
Registered democrats, % (RD)
0.077
The model Eq. (10) can be written as follows: The model Eq. (10) can be written as follows: References Ball PJ (2021) A review of geothermal technologies and their role in reducing greenhouse gas emissions in the USA. J Energy Res Technol
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First Report of the Carolina Spiral Nematode, <i>Scutellonema brachyurus</i>, from Soil of a Garden in Crete, Greece
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Journal of nematology
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First Report of the Carolina Spiral Nematode, Scutellonema brachyurus
from Soil of a Garden in Crete, Greece Abstract: Members of the genus Scutellonema can cause substantial crop losses to ornamental and cultivated plants directly by feeding
ectoparasitically on plant roots (Bridge et al., 2005; Coyne et al., 2006). In May 2015, a soil sample from a house garden from
Heraklion city in Crete, Greece, was sent for diagnosis of plant-parasitic nematodes. In this place, there had been cactus (Opuntia sp.)
plants (probably imported), which were uprooted 3 to 4 years earlier. After that, the area was cropped with cucumber (Cucumis sativus L.)
in spring–summer and leaf vegetables such as spinach (Spinacia oleracea L.) and chicory (Cichorium intybus L.) in autumn–winter. The soil was collected 1 mon after the end of chicory crop. A population density (ca. 30 individuals/100 cm3 of soil) of spiral
nematodes (Scutellonema sp.) was found by extracting soil with the wet sieving and decanting method (Cobb, 1918). Morphological
and molecular analyses of females identified the species as Scutellonema brachyurus (Steiner, 1938) Andrassy, 1958. The morphology
of females was characterized by a hemispherical lip region with four to six annuli, morphometric data for 12 females were L, 640 to
760 mm; a, 24.6 to 30.6; b, 5.8 to 7.4; c, 69.1 to 99.3; c0.5 to 0.6; stylet, 24.5 to 27.5 mm with anterior part shorter than posterior; and
spermatheca nonfunctional and male absent. The morphology agreed with the description of S. brachyurus (van den Berg et al.,
2013). Alignment indicated that the D2-D3 and ITS sequences (KU059494 and KU059495, respectively) showed 99% and 100% to
99% similarity, respectively, to other sequences of S. brachyurus (type A) deposited in GenBank from the United States, Italy, and
Korea (JX472037-JX472046, DQ328753, FJ485643; and JX472069, JX472070, JX472071, respectively), differing from one to six nu-
cleotides. Phylogenetic analyses using Bayesian inference of these sequences placed the Scutellonema sp. in a highly supported (100%)
clade that included all S. brachyurus (type A) sequences deposited in GenBank (van den Berg et al., 2013). All identification methods
were consistent with S. brachyurus. To our knowledge, this is the first report of S. brachyurus for Greece. As the cucumbers and the leaf
vegetables cultivated in the area were seed planted, we consider that the nematode originated most probably from the cactus plants
which had been previously root ball planted. Scutellonema brachyurus may represent a threat for ornamental and cultivated plants
production in Crete, Greece. First Report of the Carolina Spiral Nematode, Scutellonema brachyurus
from Soil of a Garden in Crete, Greece The nematode has been already reported, mainly in greenhouses of six European countries (CABI and
EPPO, 2006). In most of these cases, it is hypothesized that the nematode was introduced by imported plant material. Key words: Crete detection Scutellonema brachyurum spiral nematodes Key words: Crete, detection, Scutellonema brachyurum, spiral nematodes. Cobb, N. A. 1918. Agricultural technology circular. Washington,
DC: U.S. Department of Agriculture, Bureau of Plant Industry. No 1,
pp. 48. Received for publication December 20, 2015.
1Department of Viticulture, Vegetable Crops, Floriculture and Plant Protection,
Institute of Olive Tree, Subtropical Crops and Viticulture, National Agricultural
Research Foundation, Hellenic Agricultural Organization-DEMETER, PO Box
2228, 71003 Heraklion, Crete, Greece.
2Institute for Sustainable Agriculture, CSIC, Avenida Menendez Pidal s/n, 14004
Cordoba, Spain.
E-mail: pcastillo@ias.csic.es; p.castillo@csic.es.
This paper was edited by Andrea Skantar. CABI and EPPO 2006. Distribution maps of plant diseases, 1st ed.
October, pp. Map 990. Cobb, N. A. 1918. Agricultural technology circular. Washington,
DC: U.S. Department of Agriculture, Bureau of Plant Industry. No 1,
pp. 48. van den Berg, E., Tiedt, L. R., Coyne, D. L., Ploeg, A. T., Navas-
Cortes, J. A., Roberts, P. A., Yeates, G. W., and Subbotin, S. A. 2013.
Morphological and molecular characterisation and diagnostics
of some species of Scutellonema Andrassy, 1958 (Tylenchida:
Hoplolaimidae) with a molecular phylogeny of the genus. Nematology
15:719–745. Steiner, G. 1938. Nematodes infesting red spider lilies. Journal of
Agricultural Research 56:1–8. Journal of Nematology 48(1):7–7. 2016.
The Society of Nematologists 2016. Journal of Nematology 48(1):7–7. 2016. The Society of Nematologists 2016. pp
Steiner, G. 1938. Nematodes infesting red spider lilies. Journal of
Agricultural Research 56:1–8.
van den Berg, E., Tiedt, L. R., Coyne, D. L., Ploeg, A. T., Navas-
Cortes, J. A., Roberts, P. A., Yeates, G. W., and Subbotin, S. A. 2013.
Morphological and molecular characterisation and diagnostics
of some species of Scutellonema Andrassy, 1958 (Tylenchida:
Hoplolaimidae) with a molecular phylogeny of the genus. Nematology
15:719–745. Received for publication December 20, 2015.
1 This paper was edited by Andrea Skantar. LITERATURE CITED Andrassy, I. 1958. Hoplolaimus tylenchiformis Daday, 1905 (syn. H. coronatus
Cobb, 1923) und die Gattungen der Unterfamilie Hoplolaiminae Filip’ev,
1936. Nematologica 3:44–56. Steiner, G. 1938. Nematodes infesting red spider lilies. Journal of
Agricultural Research 56:1–8. Bridge, J., Coyne, D., and Kwoseh, C. K. 2005. Nematode parasites
of tropical root and tuber crops. Pp. 221–258 in M. Luc, R. A. Sikora,
and J. Bridge, eds. Plant parasitic nematodes in subtropical and
tropical agriculture, 2nd ed. Wallingford, UK: CABI Publishing. Coyne, D. L., Tchabi, A., Baimey, H., Labuschagne, N., and Rotifa, I. 2006. Distribution and prevalence of nematodes (Scutellonema bradys
and Meloidogyne spp.) on marketed yam (Dioscorea spp.) in West Africa. Field Crops Research 96:142–150. 7
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Two new species of the tribe Hemisphaeriini (Hemiptera, Fulgoromorpha, Issidae) from southwestern China
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ZooKeys
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cc-by
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Keywords Fulgoroidea, morphology, Oriental region, planthoppers, taxonomy http://zoobank.org/6E4B7AAE-AA59-4516-9A9B-6D74D4B11F4A Citation: Yang L-J, Yang L, Chang Z-M, Chen X-S (2019) Two new species of the tribe Hemisphaeriini (Hemiptera,
Fulgoromorpha, Issidae) from southwestern China. ZooKeys 861: 29–41. https://doi.org/10.3897/zookeys.861.32594 Abstract Two new species of the tribe Hemisphaeriini: Ceratogergithus brachyspinus Yang & Chen, sp. nov. (Yun
nan) and Neohemisphaerius clavatus Yang & Chen, sp. nov. (Guizhou) are described and illustrated. A
checklist to Hemisphaeriini genera is provided. The generic characteristics of the genera Ceratogergithus
Gnezdilov, 2017 and Neohemisphaerius Chen, Zhang & Chang, 2014 are redefined. Checklists and keys
to the species of each genus are given. Two new
ZooKeys 861: 29–41 (2019)
doi: 10.3897/zookeys.861.32594
http://zookeys.pensoft.net Two new
ZooKeys 861: 29–41 (2019)
doi: 10.3897/zookeys.861.32594
http://zookeys.pensoft.net Two new
ZooKeys 861: 29–41 (2019)
doi: 10.3897/zookeys.861.32594
http://zookeys.pensoft.net ribe Hemisphaeriini fro
RESEARCH ARTICLE Copyright Liang-Jing Yang et al. This is an open access article distributed under the terms of the Creative Commons Attribution License (CC
BY 4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. Liang-Jing Yang1,2,4, Lin Yang1,2, Zhi-Min Chang1,2,3, Xiang-Sheng Chen1,2,3 Liang-Jing Yang1,2,4, Lin Yang1,2, Zhi-Min Chang1,2,3, Xiang-Sheng Chen1,2,3 1 Institute of Entomology, Guizhou University, Guiyang, Guizhou, 550025, China 2 The Provincial Special
Key Laboratory for Development and Utilization of Insect Resources, Guizhou University, Guiyang, Guizhou,
550025, China 3 College of Animal Science, Guizhou University, Guiyang, Guizhou, 550025, China 4 Office
of Academic Affairs, Liupanshui normal College, Liupanshui, Guizhou 55300, China Corresponding author: Xiang-Sheng Chen (chenxs3218@163.com) cademic editor: Mike Wilson | Received 21 December 2018 | Accepted 14 May 2019 | Published 8 July http://zoobank.org/6E4B7AAE-AA59-4516-9A9B-6D74D4B11F4A Two new species of the tribe Hemisphaeriini
(Hemiptera, Fulgoromorpha, Issidae) from
southwestern China Liang-Jing Yang1,2,4, Lin Yang1,2, Zhi-Min Chang1,2,3, Xiang-Sheng Chen1,2,3 Introduction Hemisphaeriini Melichar, 1906 is the second largest tribe of the planthopper family Is
sidae with currently 25 genera and 181 species known (Bourgoin 2018). It was erected
by Melichar (1906) as family Hemisphaeridae but more recently Gnezdilov (2003,
2013a) downgraded it to the tribe level. Sun et al. (2015) raised the group again to the Copyright Liang-Jing Yang et al. This is an open access article distributed under the terms of the Creative Commons Attribution License (CC
BY 4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. Liang-Jing Yang et al. / ZooKeys 861: 29–41 (2019) 30 subfamily level based on partial sequences of the nuclear Wingless (Wg) and 18S rDNA
genes and Wang et al. (2016) enlarged the subfamily based on 18S, 28S, COXI and
Cytb genes to include four tribes (Kodaianellini, Sarimini, Parahiraciini, Hemispha
eriini). However, here we prefer to follow Gnezdilov (2013a) and treat the group as a
tribe of the subfamily Issinae which was also followed by Meng et al (2017). Hemisphaeriini are characterized as follows: body hemispherical; vertex with ante
rior margin approximately transverse or triangularly elongate; pronotum with convex
anterior margin; forewings thick and convex, claval suture present or absent, venation
reticulate; hindwings single-lobed, being either well developed, i.e., longer than half
length of forewings, venation reticulate, or rudimentary, shorter than half length of
forewings, venation simple. The tribe Hemisphaeriini is divided into two groups based on the presence or
absence of the forewing claval suture. The genera Neohemisphaerius and Paramongo
liana both have the forewing claval suture developed. The genus Neohemisphaerius
was erected by Chen et al. (2014) for three species (N. wugangensis, N. yangi and N. signifer Walker, 1851) having a forewing with distinct claval suture. Recently Zhang et
al. (2016) reviewed Neohemisphaerius, transferred species N. signifer Walker, 1851 to
Hemisphaerius Schaum, 1850 and described species N. guangxiensis Zhang, Chang &
Chen, 2016. The genus Ceratogergithus was erected by Gnezdilov (2017) for three spe
cies (C. chelates, C. pseudotessellatus and C. spinosus) having a forewing without a claval
suture and pygofer with a large horn-shaped process on posterior margin. In this paper,
we describe and illustrate two new species of the tribe Hemisphaeriini, give a checklist
to Hemisphaeriini genera, redefine the generic characteristics and provided checklists
and keys to the species of these two genera. Introduction Hemisphaeriini are usually collected in broad-leaved forest, although some species
are also found on Poaceae in open areas (Gnezdilov 2013b). The species Neohemi
sphaerius clavatus Yang & Chen, sp. nov. was captured on Bambusa emeiensis.It maybe
the second species that feeds exclusively on bamboos (host plant Bambusa emeiensis;
Fig. 36), the other species is Rotundiforma nigrimaculata, Meng, Wang & Qin, 2013,
whose host plants may be Gigantochloa ligulata Gamble and Dendrocalamus sp. (Meng,
Wang & Qin, 2013). Materials and methods The morphological terminology follows Chan and Yang (1994) and Bourgoin et al. (2015), except those for male genitalia following Gnezdilov (2003). Dry specimens
were observed by stereoscopic microscope Leica M125 for illustration and descrip
tion. All measurements are in millimeters (mm). The genital segments were separated
and macerated in 10% NaOH, transferred to glycerine for observing and drawing. Illustrations of the specimens were made with a Leica MZ 12.5 stereomicroscope. Photographs of the types were taken by KEYENCE VHX-1000C. Two new species of the tribe Hemisphaeriini from southwestern China 31 The type specimens are deposited in the Institute of Entomology, Guizhou Univer
sity, Guiyang, China (GUGC) and one paratype of Neohemisphaerius clavatus Yang &
Chen, sp. nov. in the Natural History Museum, London (BMNH). Checklist of genera of Hemisphaeriini Bolbosphaerius Gnezdilov, 2013; Brunei, Vietnam. Bolbosphaerius Gnezdilov, 2013; Brunei, Vietnam. p
Bruneastrum Gnezdilov, 2015; Borneo. Ceratogergithus Gnezdilov, 2017; China: Hainan, Yunnan. Choutagus Zhang, Wang & Che, 2006; China: Guangxi, Hainan. Clypeosmilus Gnezdilov & A. Soulier-Perkins, 2017; Northern Vietnam. Euxaldar Fennah, 1978; Vietnam. Epyhemisphaerius Chan & Yang, 1994; China: Taiwan. Euhemisphaerius Chan & Yang, 1994; China: Taiwan. Gergithus Stål, 1870; India, Indonesia, Malaysia, Myanmar, Sri Lanka, Southern Chi
na, Thailand. Gergithus Stål, 1870; India, Indonesia, Malaysia, Myanmar, Sri Lanka, Southern Chi
na, Thailand. h
Gergithoides Schumacher, 1915; Japan, Southern China, Vietnam. g
p
Gnezdilovius Meng, Webb & Wang, 2017; Southern China, Vietnam, Japan. Gnezdilovius Meng, Webb & Wang, 2017; Southern China, Vietnam, Japan. Hemisphaerius Schaum, 1850; China, India, Indonesia, Japan, Malaysia, Mya New Guinea, Philippines, Sri Lanka, Thailand, Vietnam. New Guinea, Philippines, Sri Lanka, Thailand, Vietnam. pph
Hemisphaeroides Melichar, 1903; Sri Lanka. Hemisphaeroides Melichar, 1903; Sri Lanka. Hemiphile Metcalf, 1952; Indonesia. Hemiphile Metcalf, 1952; Indonesia. Hysteropterissus Melichar, 1906; New Guinea. Hysteropterissus Melichar, 1906; New Guinea. Hysterosphaerius Melichar, 1906; Singapore. Hysterosphaerius Melichar, 1906; Singapore. Ishiharanus Hori, 1969; Vietnam. Ishiharanus Hori, 1969; Vietnam. Macrodaruma Fennah, 1978; Southern China, Vietnam. Maculergithus Constant & Pham, 2016; Northern Vietnam, Southern China. Maculergithus Constant & Pham, 2016; Northern Vietna Mongoliana Distant, 1906; Japan, Southern China. Neogergithoides Sun, Meng & Wang, 2012; China: Guangxi, Guangdong, Hainan,
Yunnan, Vienam. Neogergithoides Sun, Meng & Wang, 2012; China: Guangxi, Guangdong, Hainan,
Yunnan, Vienam. Neogergithoides Sun, Meng & Wang, 2012; China: Guangxi, Guangdong, Hainan,
Yunnan, Vienam. Neohemisphaerius Chen, Zhang & Chang, 2014; Southern China. Ophthalmosphaerius Gnezdilov, 2017; Southern China: Yunnan. Ophthalmosphaerius Gnezdilov, 2017; Southern China: Yunnan. Paramongoliana Chen, Zhang & Chang, 2014; China: Guizhou. Paramongoliana Chen, Zhang & Chang, 2014; China: Guizhou. Rotundiforma Meng, Wang & Qin, 2013; China: Yunnan. Taxonomy Family Issidae Spinola, 1839
Subfamily Issinae Spinola, 1839
Tribe Hemisphaerini Melichar, 1906 Liang-Jing Yang et al. / ZooKeys 861: 29–41 (2019) 32 Type species. Ceratgergithus spinosus (Che, Zhang & Wang, 2007). yp
p
g g
p
g
g
Diagnosis. Vertex subsquare or transverse. Metope wide, without median carinae. Postclypeus with distinct median carinae, elevated above the level surface of base of
the frons (Figs 6, 7) or without carinae (Chen et al. 2014: figs 2–14D–E, 2–15D–E). Forewings without claval suture and shoulder-like projections (Chen et al. 2014: figs
2–14A–C, 2–15A–C) or with claval suture developed through its whole length, basally
depressed (Figs 1, 2). Hindwing one lobed, longer than half length of forewing. Py
gofer of male symmetrical (in lateral view), posterior margin with a large horn-shaped
process in upper half. Anal tube of male apically enlarged (in dorsal view). Distribution. China: Hainan, Yunnan.h Discussion. This genus is similar to Gergithus and Neohemisphaerius, but can be
clearly separated from Gergithus by the posterior margin of the pygofer with a large
horn-shaped process (Fig. 12) and the aedeagus without pair of short ventral directed
toward its apex. It differs from the genus Neohemisphaerius by having a frons without a
median carina, with colored marking, a hindwing well developed and longer than half
the length of the forewing, and venation reticulate. Genus Ceratogergithus Gnezdilov, 2017 Type species. Ceratgergithus spinosus (Che, Zhang & Wang, 2007). Ceratogergithus brachyspinus Yang & Chen, sp. nov.
http://zoobank.org/CA131906-B935-4958-8B37-BEB4B11CE542
Figs 1, 2, 5–18 Figs 1, 2, 5–18 Type material. Holotype: ♂, China: Yunnan, Daweishan National Nature Reserve
(103°20'E, 23°07'N), 8 May 2016, L.-J. Yang. Paratypes: 1♂, same data as holotype;
1♂, same data as holotype, except 19 August, 2017, Y.-J. Sui. All in GUGC. Description. Male body length (from apex of vertex to tip of forewing): 5.16–5.31 mm
(n = 3); male forewing 4.43–4.58 mm (n = 3); male hindwing 3.30–3.47 mm (n = 3). Coloration (Figs 1, 2, 5–7). Vertex straw-yellow to pale green, all margins brown
ish (Fig. 5). Frons with brick-red markings, margins brownish (Fig. 7). Clypeus dark
brown. Eyes reddish brown to greenish-brown (Figs 6, 7). Pronotum straw-yellow,
margins brown (Fig. 5). Mesonotum (Fig. 5) fulvous, with fuscous subtriangular mark
ing. Forewing fulvous, with three white markings irregular, costal margin white from
middle to subapical part (Figs 1, 2, 8). Hindwing brownish and hyaline. Head and thorax (Figs 5–9). Vertex shorter in middle than width at base (0.41:
1.00), transverse, anterior margin weakly convex, posterior margin angularly concave,
disc depressed and all margins elevated (Figs 1, 5). Frons longer along midline than
maximal width (1.53: 1.00) (Fig. 7), smooth, without median carina or pustules, apical
margin nearly straight, margins carinate, disc slightly elevated (in frontal view) (Fig. 7)
and arcuate (in lateral view) (Fig. 6). Clypeus with median carina obvious, postclypeus
distinctly elevated (Figs 6, 7). Ocelli absent. Pronotum longer than vertex (1.56: 1.00),
slightly depressed, margins elevated (Fig. 5). Mesonotum subtriangular, longer than pro
notum (3.23:1.00) (Fig. 5), without median and lateral carinae, anterior margin nearly
transverse (Fig. 5). Forewings about 2 times longer than maximal width (Figs 1, 2), with
claval suture developed through its whole length, without “shoulder” basally, venation
obscure. Hindwing 0.70 times as long as forewings (Figs 8, 9), reaching pygofer; venation
reticulate (Fig. 9). Hind tibiae with two lateral teeth. Metatibiotarsal formula: 7–8–2. Male genitalia (Figs 10–19). Anal tube 1.35 times as long as wide (in dorsal view)
(Fig. 10), enlarged apically, apical margin deeply notched medially, bent ventrad (in
lateral view) (Fig. 11). Pygofer symmetrical, posterior margin with large horn-shaped
process in apical fourth (Fig. 12). Genital style subquadrate (in lateral view), moderate
ly long, depressed in base near ventral margin, caudo-ventral angle rounded (Fig. 12). Capitulum with neck and small lateral tooth directed cephalad and big lateral tooth
on posterior margin, directed laterad (Figs 12, 13). Connective cup-shaped (Figs 14,
15). List of Ceratogergithus species Ceratogergithus chelates (Che, Zhang & Wang, 2007); China: Hainan. Ceratogergithus pseudotessellatus (Che, Zhang & Wang, 2007); China: Hainan. Ceratogergithus spinosus (Che, Zhang & Wang, 2007); China: Hainan. Ceratogergithus brachyspinus Yang & Chen, sp. nov.; China: Yunnan. Key to species of the genus Ceratogergithus (male)
1
Clypeus with distinct median carina. Forewing with claval suture developed
(Figs 6–8).......................................C. brachyspinus Yang & Chen, sp. nov. –
Clypeus without median carina. Forewing without claval suture..................2
2
Forewing with four pale green transverse fasciae. Anal tube with apical mar
gins strongly convex (in dorsal view) (Che et al. 2007: figs 26, 28)................ ................................................................C. chelates (Che, Zhang & Wang)
–
Forewing and anal tube not as above............................................................3
3
Forewing yellowish hazel. Anal tube with apical margins slightly concave
(Che et al. 2007: figs 16, 18)..................C. spinosus (Che, Zhang & Wang)
–
Forewing dark with 3 large elongate spots in basal half, with 6 or 7 smaller
elongate spots at apical margin in apical half. Anal tube margin nearly trun
cate (Che et al. 2007: figs 53, 55).................................................................. .................................................C. pseudotessellatus (Che, Zhang & Wang) Key to species of the genus Ceratogergithus (male) Two new species of the tribe Hemisphaeriini from southwestern China 33 Ceratogergithus brachyspinus Yang & Chen, sp. nov. http://zoobank.org/CA131906-B935-4958-8B37-BEB4B11CE542
Figs 1, 2, 5–18 Ceratogergithus brachyspinus Yang & Chen, sp. nov.
http://zoobank.org/CA131906-B935-4958-8B37-BEB4B11CE542
Figs 1, 2, 5–18 Penis twisted medially (Figs 16, 17). Phallobase asymmetrical, with basal tooth
process directed caudad (Figs 16, 17a), with pair of short lateral hooks in basal third,
directed basad (Figs 16, 17b, e); dorso-lateral lobes of phallobase membranous in api
cal two-fifth (Figs 16, 19), with two differently shaped processes of different length
directed apically: one process slender and short, arising in apical fourth (Figs 16–19c),
other one arising in basal third, extended ventrad, with subapical process horn-shaped
(Figs 17–19d). Ventral lobe of phallobase apically convex (in ventral view), shorter
than dorso-lateral lobes (Fig. 18). Liang-Jing Yang et al. / ZooKeys 861: 29–41 (2019) 34 g J g
g
y
Figures 1–4. Dorsal and lateral habitus of two new species adult (male), 1, 2 Ceratogergithus brachyspinus
Yang & Chen, sp. nov. 3, 4 Neohemisphaerius clavatus Yang & Chen, sp. nov. Scale bars: 0.5 mm.hi Figures 1–4. Dorsal and lateral habitus of two new species adult (male), 1, 2 Ceratogergithus brachyspinus
Yang & Chen, sp. nov. 3, 4 Neohemisphaerius clavatus Yang & Chen, sp. nov. Scale bars: 0.5 mm. Figures 1–4. Dorsal and lateral habitus of two new species adult (male), 1, 2 Ceratogergithus brachyspinus
Yang & Chen, sp. nov. 3, 4 Neohemisphaerius clavatus Yang & Chen, sp. nov. Scale bars: 0.5 mm. Etymology. The specific name is derived from the Latin words “brachys”and “spi
na”, referring to the short lateral hooks on the basal third of the phallobase. Etymology. The specific name is derived from the Latin words “brachys”and “spi
na”, referring to the short lateral hooks on the basal third of the phallobase. Host plant. Unknown. Distribution. Southwestern China (Yunnan).h Remarks. This species can be distinguished from all the other species of genus
Ceratogergithus by the following characteristics: Frons with brick-red markings (Fig. 7); Two new species of the tribe Hemisphaeriini from southwestern China 35 Figures 5–19. Ceratogergithus brachyspinus Yang & Chen, sp. nov. adult (male), 5 head and thorax,
dorsal view 6 head and thorax, lateral view 7 face, front view 8 fore wing 9 hindwings 10 anal tube, dor
sal view 11 anal tube, lateral view 12 pygofer and genital style, lateral view 13 capitulum of gonostylus,
dorsal view 14 connective, lateral view 15 connective, caudal view 16 penis, right lateral view 17 penis,
left lateral view 18 penis, ventral view 19 penis, dorsal view. Scale bars: 0.5 mm. Figures 5–19. Ceratogergithus brachyspinus Yang & Chen, sp. nov. Genus Neohemisphaerius Chen, Zhang & Chang, 2014 Type species. Neohemisphaerius wugangensis Chen, Zhang & Chang, 2014. Diagnosis. Body hemispherical. Vertex about 2.5–3.9 times as wider than long
along midline, anterior margin straight, posterior margin angulately excavated. Frons
elongate, with median carina, lateral margins elevated. Clypeus with median carina
moderately convex, median carinae with or without a tubercle process in middle. Pro
notum depressed, edges elevated. Mesonotum subtriangular, anterior margin approxi
mately straight. Forewings hemispherical, claval suture developed, without shoulder-
like projections basally. Hindwing rudimentary, shorter than half length of forewing,
venation indistinct and simple. Hind tibiae with 2 lateral teeth. Metatibiotarsal for
mula: (9, 10)–(4, 5)–2. Anal tube of male wide and short. Phallobase with pair of
ventral hooks directed basad. Distribution. China (Guangdong, Guangxi, Hunan, Guizhou). Discussion. Neohemisphaerius is similar to Hemisphaerius Schaum, 1850 and
Gergithus Stål, 1870, but it differs from the two genera by having a frons with a me
dian carina, and forewings with a claval suture developed. The genus Neohemisphaerius
runs close to Paramongoliana in the key by Meng et al. (2017). It differs from Para
mongoliana in: frons with median carinae, without a row of pustules along the lateral
margins; clypeus distinctly convex on disc in midline; forewings with irregular mark
ings; phallobase with pair of ventral hooks directed basad. List of Neohemisphaerius species Neohemisphaerius clavatus Yang & Chen, sp. nov.; China: Guizhou. Neohemisphaerius guangxiensis Zhang, Chang & Chen, 2016; China: Guangxi. Neohemisphaerius wugangensis Chen, Zhang & Chang, 2014; China: Hunan. Neohemisphaerius yangi Chen, Zhang & Chang, 2014; China: Guangdong. Key to species of the genus Neohemisphaerius (males; modified from Zhang et al. 2016)
1
Frons with disc rugose (Fig. 22); clypeus with distinct median carinae (Fig. 22); forewings with three subparallel dark stripes, slanted caudad (Figs 3, 4);
anal tube (in dorsal view) with apical margin concave medially (Fig. 25); Phal
lobase asymmetrical (Figs 33–35).............N. clavatus Yang & Chen, sp. nov. –
Frons with disc smooth (Zhang et al. 2016: figs 3, 16, 20); clypeus with a
hump-shaped median carinae (Zhang et al. 2016: figs 2, 16, 19); anal tube
not as above; phallobase symmetric..............................................................2 Ceratogergithus brachyspinus Yang & Chen, sp. nov.
http://zoobank.org/CA131906-B935-4958-8B37-BEB4B11CE542
Figs 1, 2, 5–18 adult (male), 5 head and thorax,
dorsal view 6 head and thorax, lateral view 7 face, front view 8 fore wing 9 hindwings 10 anal tube, dor
sal view 11 anal tube, lateral view 12 pygofer and genital style, lateral view 13 capitulum of gonostylus,
dorsal view 14 connective, lateral view 15 connective, caudal view 16 penis, right lateral view 17 penis,
left lateral view 18 penis, ventral view 19 penis, dorsal view. Scale bars: 0.5 mm. clypeus with distinct median carina, postclypeus distinctly elevated (Figs 6, 7); fore
wing fulvous, with three white irregular markings, with claval suture developed, basally
depressed (Figs 1, 2). Liang-Jing Yang et al. / ZooKeys 861: 29–41 (2019) 36 Key to species of the genus Neohemisphaerius (males; modified from Zhang et al.
2016) 1
Frons with disc rugose (Fig. 22); clypeus with distinct median carinae (Fig. 22); forewings with three subparallel dark stripes, slanted caudad (Figs 3, 4);
anal tube (in dorsal view) with apical margin concave medially (Fig. 25); Phal
lobase asymmetrical (Figs 33–35).............N. clavatus Yang & Chen, sp. nov. –
Frons with disc smooth (Zhang et al. 2016: figs 3, 16, 20); clypeus with a
hump-shaped median carinae (Zhang et al. 2016: figs 2, 16, 19); anal tube
not as above; phallobase symmetric..............................................................2 Two new species of the tribe Hemisphaeriini from southwestern China 37 2
Forewings pale brown, with two black patches at costal margin (Zhang et al. 2016: figs 1, 2, 4–5); anal tube with apical margin medially convex (in dorsal
view) (Zhang et al. 2016: fig. 12)..........................................N. guangxiensis
–
Forewings black brown, with 4 or 5 light yellow patches (Zhang et al. 2016:
figs 13, 14); anal tube not as above..............................................................3
3
Frons with obscurely short median carinae; anal tube with apical margin
round (Chen et al. 2014: figs 2–36: H); a pair of ventral hooks of phallobase
longer than half length of aedeagus.................................................. N. yangi
–
Frons with distinctly long median carina; apical margin of anal tube sinuate
(in dorsal view) (Chen et al. 2014: fig. 2–35: H); a pair of ventral hooks of
phallobase shorter than fifth length of aedeagus (Chen et al. 2014: figs 2–35:
M, K)...................................................................................N. wugangensis 2 2
Forewings pale brown, with two black patches at costal margin (Zhang et al. 2016: figs 1, 2, 4–5); anal tube with apical margin medially convex (in dorsal
view) (Zhang et al. 2016: fig. 12)..........................................N. guangxiensis
–
Forewings black brown, with 4 or 5 light yellow patches (Zhang et al. 2016:
figs 13, 14); anal tube not as above..............................................................3
3
Frons with obscurely short median carinae; anal tube with apical margin
round (Chen et al. 2014: figs 2–36: H); a pair of ventral hooks of phallobase
longer than half length of aedeagus.................................................. N. yangi
–
Frons with distinctly long median carina; apical margin of anal tube sinuate
(in dorsal view) (Chen et al. 2014: fig. 2–35: H); a pair of ventral hooks of
phallobase shorter than fifth length of aedeagus (Chen et al. 2014: figs 2–35:
M, K)...................................................................................N. wugangensis Neohemisphaerius clavatus Yang & Chen, sp. nov.
http://zoobank.org/DE9C89F6-24C8-4E2F-9EF1-E4354252141F
Figs 3, 4, 20–36 Type material. Holotype: ♂, China: Guizhou, Duyun, Doupengshan (107°07'E,
25°51'N), L.-J. Yang, 19 August 2017; paratypes 2♂♂, same data as holotype; 3♂♂, same
data as holotype except J.-K. Long, 8 August 2016. GUGC and one paratype in BMNH. yp
p J
g
g
p
yp
Description. Male body length: 4.53–4.76 mm (n = 5); male forewings 4.23–4.38
mm (n = 5); male hindwing 1.17–1.42 (n = 5). Coloration (Figs 3, 4, 20–22). Head fulvous, margins of vertex and frons brown
(Figs 20, 22). Clypeus with dark brown strip on each side of median carinae (Figs 21,
22). Rostrum brown (Figs 21, 22). Eyes dark brown, antennae brown (Fig. 21). Pro
notum and mesonotum yellow brown, mesonotum with anterior margin dark brown
in the middle (Fig. 20). Forewings yellowish and slightly pellucid, with three dark
brown irregular stripes subparallel, slanted caudad, venation mostly fulvous (Figs 3, 4). Hindwing brownish hyaline. Legs brown. Abdomen yellowish. Head and thorax (Figs 5–9). Vertex longer in middle than maximal width (0.37:1.00),
quadrangular, anterior margin nearly straight, posterior margin angularly concave, mar
gins elevated (Fig. 20). Frons rough, basally narrow, longer than maximal width in basal
third (1.45:1.00), with median carinae, margins elevated (Figs 21–22). Clypeus with me
dian carinae moderately convex, arcuate in lateral view (Figs 21–22). Pronotum longer
than vertex in midline (1.63:1.00), slightly depressed, without carinae and pustules (Fig. 20). Mesonotum subtriangular, about 3 times longer than pronotum, anterior margin
approximately straight (Fig. 20). Forewings about 1.70 times longer than maximal width,
with claval suture developed through its whole, venation obscurely reticulate (Figs 3, 23). Hindwings rudimentary, shorter than half length of forewing, venation simple (Fig. 24). Hind tibiae with 2 lateral teeth. Metatibiotarsal formula of hind leg: 10–4–2. Liang-Jing Yang et al. / ZooKeys 861: 29–41 (2019) 38 g
g
g
y
Figures 20–35. Neohemisphaerius clavatus Yang & Chen, sp. nov. adult (male), 20 head and thorax, dor
sal view 21 head and thorax, lateral view 22 head and thorax, front view 23 forewing 24 hindwing 25 anal
tube, dorsal view 26 anal tube, lateral view 27 pygofer, lateral view 28 genital styles, lateral view 29 ca
pitulum of gonostylus, dorsal view 30 connective, lateral view 31 penis left lateral view 32 penis, right
lateral view 33 penis, ventral view 34 apical penis, dorsal view 35 penis, dorsal view. Scale bars: 0.5 mm. Figures 20–35. Neohemisphaerius clavatus Yang & Chen, sp. nov. Neohemisphaerius clavatus Yang & Chen, sp. nov.
http://zoobank.org/DE9C89F6-24C8-4E2F-9EF1-E4354252141F
Figs 3, 4, 20–36 adult (male), 20 head and thorax, dor
sal view 21 head and thorax, lateral view 22 head and thorax, front view 23 forewing 24 hindwing 25 anal
tube, dorsal view 26 anal tube, lateral view 27 pygofer, lateral view 28 genital styles, lateral view 29 ca
pitulum of gonostylus, dorsal view 30 connective, lateral view 31 penis left lateral view 32 penis, right
lateral view 33 penis, ventral view 34 apical penis, dorsal view 35 penis, dorsal view. Scale bars: 0.5 mm. Male genitalia (Figs 25–35). Anal tube pyriform, midline longer than broad (in
dorsal view) (Fig. 25). Pygofer nearly rectangular (in lateral view), narrow, anterior and
posterior margin subparallel (Fig. 27). Genital styles subtriangular (in lateral view),
dorsal margin with triangular process, disc with fingerlike process below capitulum Male genitalia (Figs 25–35). Anal tube pyriform, midline longer than broad (in
dorsal view) (Fig. 25). Pygofer nearly rectangular (in lateral view), narrow, anterior and
posterior margin subparallel (Fig. 27). Genital styles subtriangular (in lateral view),
dorsal margin with triangular process, disc with fingerlike process below capitulum Two new species of the tribe Hemisphaeriini from southwestern China 39 Figure 36. Host plant of Neohemisphaerius clavatus Yang & Chen, sp. nov. in Doupengshan, Duyun
(Guizhou, China). Photograph by L.-J. Yang. Figure 36. Host plant of Neohemisphaerius clavatus Yang & Chen, sp. nov. in Doupengshan, Duyun
(Guizhou, China). Photograph by L.-J. Yang. (Fig. 28). Capitulum with subapical tooth and lateral tooth (Figs 28, 29). Connective
short and thick (Fig. 30). Phallobase asymmetrical, with process clavate, arched in basal
third (in lateral view), directed basad, H-shaped (in dorsal view) (Figs 31, 32, 34a),
process apically and phallobase basally with transparently membranous process with
pair of strong hooks directed caudad (Figs 31–34b, c). Ventral lobe with pair of hooks
asymmetrical in apical third, directed cephalad (Figs 31–34h, i); Lateral lobe bifurcate. Dorsal lobe with apical margin slightly notched medially (in dorsal view), with four
differently sheet-shaped subapical processes (Figs 34–35d, e, f, g), the smallest near the
left middle (Figs 34, 35g), with a short carinae left dorsally near its middle (Fig. 35j).h Etymology. The name of new species is derived from the Latin words “clavate”,
referring to the club-shaped process of the aedeagus in basal third (in lateral view). Host plant. Bambusa emeiensis. Distribution. Southwestern China (Guizhou).h Remarks. This species resembles N. wugangensis, N. Acknowledgments We are grateful to Dr. Mick Webb (Department of Entomology, The Natural History
Museum, U. K.) for proofreading and advice. This work was supported by the Nation
al Natural Science Foundation of China (No. 31472033, 31601886), the Program of
Science and Technology Innovation Talents Team, Guizhou Province (No. 20144001),
the Program of Excellent Innovation Talents, Guizhou Province (No. 20154021), the
International Cooperation Base for Insect Evolutionary Biology and Pest Control
(No. 20165802), the Project Funded by China Postdoctoral Science Foundation (No. 2017M613002), the Science and Technology Project of Guiyang (No. 2017525), the
Academic New Cultivation and Innovation Exploration Special Project of Guizhou
University(No. 20175788) and the Science and Technology Program in Guizhou
Province ( No. 20177267, 20181032). Neohemisphaerius clavatus Yang & Chen, sp. nov.
http://zoobank.org/DE9C89F6-24C8-4E2F-9EF1-E4354252141F
Figs 3, 4, 20–36 yangi and N.guangxiensis, but
can be distinguished by the following characteristics: Frons rough (Fig. 22), disc flat,
slightly depressed; clypeus with median carinae without a tubercles process in middle Liang-Jing Yang et al. / ZooKeys 861: 29–41 (2019) 40 (Fig. 22); forewings yellowish brown, with three dark stripes subparallel (Figs 3, 4);
anal tube with apical margin concave medially (in dorsal view) (Fig. 25); Phallobase
asymmetrical, with process clavate in basal third (in lateral view), process directed ba
sad, H-shaped (in dorsal view) (Figs 31, 32a, 34a). References Bourgoin T (2018) FLOW (Fulgoromorpha Lists on the Web): a world knowledge base dedi
cated to Fulgoromorpha. Version 8, updated 30 September 2018. http://hemiptera-data
bases.org/flow/ Bourgoin T, Wang RR, Asche M, Hoch H, Soulier-Perkins A, Stroiński A., Yap S, Szwedo J (2015)
From micropterism to hyperpterism: recognition strategy and standardized homology-driven
terminology of the Forewing venation patterns in planthoppers (Hemiptera: Fulgoromor
pha). Zoomorphology 134(1): 63–77. https://doi.org/10.1007/s00435-014-0243-6 Chan ML, Yang CT (1994) Issidae of Taiwan (Homoptera: Fulgoroidea). Chen Chung Book,
Taichung, 188 pp. Chen XS, Zhang ZG, Chang ZM (2014) Issidae and Caliscelidae (Hemiptera: Fulgoroidea)
from China. Guizhou Science and Technology Publishing House, Guiyang, 242 pp. Gnezdilov VM (2003) Review of the family Issidae (Homoptera, Cicadina) of the European
fauna, with notes on the structure of ovipositor in planthoppers. Chteniya pamyati N.A. Kholodkovskogo (Meetings in memory of N.A. Cholodkovsky), St. Petersburg 56(1): 1–145. (
)
y
(
p
)
p
fauna, with notes on the structure of ovipositor in planthoppers. Chteniya pamyati N.A. Kholodkovskogo (Meetings in memory of N.A. Cholodkovsky), St. Petersburg 56(1): 1–145. Gnezdilov VM (2013a) Modern classification and the distribution of the family Issidae Spinola
(Homoptera, Auchenorrhyncha, Fulgoroidea). Entomologicheskoe Obozrenie 92(4): 724–738. Gnezdilov VM (2013b) Notes on planthoppers of the tribe Hemisphaeriini (Homoptera, Ful
goroidea, Issidae) from Vietnam with description of a new genus and new species. Zoolog
ichesky Zhurnal 92(6): 659–663. [English translation published in Entomological Review
(2013) 93(8): 1024 1028] https://doi org/10 1134/S0013873813080095 Gnezdilov VM (2013a) Modern classification and the distribution of the family Issidae Spinola
(Homoptera, Auchenorrhyncha, Fulgoroidea). Entomologicheskoe Obozrenie 92(4): 724–738. Gnezdilov VM (2013b) Notes on planthoppers of the tribe Hemisphaeriini (Homoptera, Ful
goroidea, Issidae) from Vietnam with description of a new genus and new species. Zoolog
ichesky Zhurnal 92(6): 659–663. [English translation published in Entomological Review
(2013), 93(8): 1024–1028] https://doi.org/10.1134/S0013873813080095 Two new species of the tribe Hemisphaeriini from southwestern China 41 Gnezdilov VM (2017) Addenda to the revisions of the genera Gergithus Stål and Hemisphae
rius Schaum (Hemiptera, Auchenorrhyncha, Fulgoroidea, Issidae). Entomological Review
97(9): 1338–1352. https://doi.org/10.1134/S0013873817090123 Melichar DL (1906) Monographie der Issiden (Homoptera). Abhandlungen der k. k. Zoolo
gisch-botanischen Gesellschaft in Wien 3: 1–327. Meng R, Wang YL, Qin DZ (2013) A new genus of the tribe Hemisphaeriini (Hemiptera: Ful
goromorpha: Issidae) from China. Zootaxa 3691(2): 283–290. References https://doi.org/10.11646/
zootaxa.3691.2.7 Meng R, Webb MD, Wang YL (2017) Nomenclatural changes in the planthopper tribe Hemi
sphaeriini (Hemiptera: Fulgoromorpha: Issidae), with the description of a new genus
and a new species. European Journal of Taxonomy 298: 1–25. https://doi.org/10.5852/
ejt.2017.298 Sun YC, Meng R, Wang YL (2015) Molecular systematics of the Issidae (Hemiptera: Ful
goroidea) from China based on wingless and 18S rDNA sequence data. Entomotaxonomia
37(1): 15–26. Wang ML, Zhang YL, Bourgoin T (2016) Planthopper family Issidae (Insecta: Hemiptera:
Fulgoromorpha): linking molecular phylogeny with classification. Molecular Phylogenet
ics and Evolution 105: 224–234. https://doi.org/10.1016/j.ympev.2016.08.012 Zhang ZG, Chang ZM, Chen XS (2016) Review of the planthopper genus Neohemisphaerius
(Hemiptera, Fulgoroidea, Issidae) with description of one new species from China. Zook
eys 568: 13–21. https://doi.org/10.3897/zookeys.568.6700
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The Crest Affair: Judicial Independence and Yukon’s Supreme Court
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Commentary The Hon. Ronald Veale*
Andrea Bailey* *The Hon. Ronald Veale, Chief Justice, Supreme Court of Yukon
*Andrea Bailey, JD, Whitehorse, Yukon
The Northern Review 50 (2020): 219–234 https://doi.org/10.22584/nr50.2020.011 The Hon. Ronald Veale, Chief Justice, Supreme Court of Yukon
*Andrea Bailey, JD, Whitehorse, Yukon
The Northern Review 50 (2020): 219–234 https://doi.org/10.22584/nr50.2020.011 Introduction Th e Yukon’s 1986 “Crest Aff air” has entered into local legal lore as a contest
about judicial independence. It was that and more. In addition to galvanizing the
general public to take note of the Yukon courts as an independent institution, the
resulting proceedings before the Law Society of Yukon resolved a live question
about the professional obligations of the Yukon minister of justice as a member
of the bar. As well, the Crest Aff air is simply a good story, given that it took place
at a time of confl ict between the Yukon’s Minister of Justice, the Senior Judge of
the Yukon Supreme Court, and the president of the Law Society. In the context
of a small jurisdiction with outspoken personalities and robust local media, the
Crest Aff air led to lively public debate and generated a signifi cant amount of news
coverage, some of which is recounted here. Th e Crest Aff air took place shortly after the unveiling of the newly built
Whitehorse courthouse, which featured a locally-carved1 Yukon coat of arms2
mounted behind the judge in each of the fi ve courtrooms. Although striking
pieces of art with a vivid rendering of the Yukon malamute and the blue, red,
and gold shapes representing Yukon’s mountains, rivers, and resources,3 Senior
Judge Harry Maddison ordered that the coat of arms be removed from the
Supreme Court courtrooms. Th e Minister of Justice, Roger Kimmerly,4 refused
to do so and, in the face of his refusal, Judge Maddison acted on his own motion, 219 compelling their removal by court order. Although the immediate presence of the
coat of arms in the courtrooms was resolved in this manner relatively quickly, the
disagreement between the Senior Judge and the Minister continued to play out
for much of the next two years. Indeed, the broader context for the Crest Aff air is replete with clashes
between the Minister of Justice, the Court, and the Law Society of Yukon, and
many of these clashes were seized on by local commentators and media. Introduction Th ere
were disagreements about courtroom carpets, clothes hangers, and rosewood
furniture; a fi ght over a “bridge to nowhere”; a fairly unconventional use of court
robes; an informal boycott of the government building’s opening; and, pushing the
dispute into a diff erent forum, a lawyer’s complaint to the law society alleging the
Minister called the Senior Judge of the Supreme Court “silly,” thereby insulting
the public and demonstrating disrespect for the administration of justice, contrary
to his professional obligations as a lawyer. Beyond these colourful facts, however, the Crest Aff air started an important
conversation and educated many in the Yukon about the independence of the
courts and the role of the judiciary. Although the story may be unfamiliar to many
of today’s Yukon lawyers, the Crest Aff air marks an important chapter in the
territory’s legal history. A New Courthouse By the mid-1980s, there was consensus about the need for a new courthouse in
Whitehorse. Th e old courthouse was located above the post offi ce in the federal
building on Main Street. Th ere were no public bathrooms, few chairs, and people
in custody were escorted to court in handcuff s through the single public hallway. f
While the preference of the bar and the judiciary was for a stand-alone
courthouse, for practical reasons the Yukon government wanted to house both
the courts and government offi ces in one building. Ultimately, a compromise was
reached whereby courts and government would coexist in one building, but with
clear physical delineation between their facilities.5 Th e design and planning of the shared building were carried out by a
committee, which included both the Senior Judge and the Minister of Justice. During the unveiling of the plans, however, the Minister publicly introduced
the facility as a new “Territorial Government Building” in which “a wing … has
been set aside for court rooms and associated activities and is known as the Law
Courts.” Given the explicit discussions about how to structure a shared facility, it may
be suspected that the Senior Judge and the Minister of Justice had diff ering views
about whether the courthouse was in fact “a wing” of the government building. The Northern Review 50 | 2020 220 But, in any event, at least everyone could agree that the new space was a marked
improvement from the “two territorial courtrooms and one supreme courtroom
stuff ed into the aging, stale-aired Main Street federal building.”6 f
Th e striking new building, which is substantially unchanged today, was
ultimately built with two separate sides, divided by an airy atrium that houses
a variety of maintained plants and a popular koi pool. Th e north side, the Law
Centre, holds government offi ces; and the south side, the Yukon Courts, includes
the Supreme and Territorial Court courtrooms, the shared court registry, judges’
chambers, and the law library. In a nod to the fact that the building houses two
branches of government, the north and south sides each have a distinct street
address. Despite the clear spatial separation provided by the atrium, a specifi c element
of the design provoked a small political skirmish that foreshadowed the dispute
over the crests in the courthouse. A New Courthouse Th e atrium had been constructed with a broad
walkway connecting the government side of the building with the second-fl oor
courtrooms on the court side. Prior to the building’s opening, Judge Maddison
ensured that a wall closed the walkway on the government side of the building
so that there could be no perception of preferred court access by the Minister of
Justice or government lawyers. Th e intended bridge, since dubbed “the bridge to
nowhere” and now fi lled with plants, still raises questions (and eyebrows) when it
is seen for the fi rst time. i
Tensions between the executive and judicial branches of government also
erupted over judicial furnishings. Th e legislature’s concerns about the costs of the
building, coupled with a government position about using Yukon-built furniture
in government offi ces, had led to very deliberate choices for Yukon public
servants. However, pursuant to federal guidelines for judges, Yukon’s Supreme
Court judge could order up to $20,000 worth of new furniture, to be paid for
by the territory.7 Known to be a man of refi ned taste, Judge Maddison ordered a
$20,000 rosewood ensemble from Edmonton, which included a desk, coff ee table,
credenza, and bookcase. Although Minister Kimmerly complained about this
being “exorbitant”8 in the media, it was out of his hands. An August 1 Whitehorse
Star article9 also reported that Judge Maddison had “expressed dissatisfaction with
the type of green carpet chosen for his new offi ce” and that, further, there was
“some contention between Judge Maddison and the government over a special
type of garment hanger system installed in his new offi ce.” Possibly in retaliation
for these perceived excesses, Minister Kimmerly cut the budget for chairs in the
courtrooms from $400 apiece to $200.10 Although the $13 million building was opened for business on July 4, 1986,
it was in a state of partial completion at the time, and its formal opening did not
take place until October 1. A decision had been made in March 1986 to name the 221 Veale and Bailey | The Crest Affair building the Andrew Philipsen Law Centre, in honour of a Conservative Justice
Minister who had died in a motor vehicle accident while in offi ce, and whom
Premier Tony Penikett referred to as “the principal author” in the construction
of the new building. A New Courthouse Th is did not sit well with the Law Society of Yukon, which
publicly objected to the courthouse being associated with a politician. While the
government took steps to address this legitimate concern through clear labelling
of “Th e Law Courts” on the wall on the south side of the atrium, the opening
ceremony was nonetheless reportedly the subject of an informal boycott by lawyers
and judges.11 Th e various confl icts surrounding the new building did not arise in a
vacuum. Indeed, for reasons unrelated to the courthouse, tensions were at a high
point between the government and the bar and courts. Th ese included chronic
underfunding of the law library and a dispute about the cost of the territory’s
“out of control” legal aid system, then administered through the law society, and
over which Minister Kimmerly threatened to impose legislated caps.12 Indeed,
in mid-1986, it appears that the Law Society was at the point of threatening
to sue the government.13 As well, in March 1986, in response to pressure in the
legislative assembly, Minister Kimmerly announced a $100,000 review into the
territory’s justice system at large, inviting the public to tell a two-member panel
what they felt was “wrong with the justice system.”14 Given his promise not to
involve any lawyers or judges, one can readily infer his views about where the
problems originated. Th e Crest Aff air became part of this volatile mix in October 1986. Th e Crest is In the Courtrooms! Presumably in the earlier spirit of cooperation that dissipated after the building’s
planning phase, the Minister of Justice and the Senior Judge had agreed that a
Yukon coat of arms would be placed on the wall behind the judge in the two
Supreme Court courtrooms and three Territorial Court courtrooms.h Th e coats of arms were on display without public controversy from the time of
the building’s opening in July. Th en, on September 24, Judge Maddison abruptly
ordered that they be removed and refused to preside over matters until they were. Waiting for this to happen, Maddison J. adjourned his ongoing proceedings, and
Justice Perry Meyer, a visiting Supreme Court deputy judge who was sitting on a
lengthy and signifi cant constitutional case, took the unusual step of “shrouding”
the crest in his courtroom with a lawyer’s black robe.15 The Northern Review 50 | 2020 222 Minister Kimmerly wasted no time in responding to this state of aff airs. Th at
same day, he was quoted in the Whitehorse Star as saying “the entire matter is silly”
and that “the cloaking over of the coat of arms is insulting to the public.” He went
on to observe that “[i]t is this kind of thing that brings the court and the judiciary
into public ridicule and contempt.” Not willing to ignore such commentary, Judge Maddison took the unusual
step of delivering public comments from the bench on September 26, explaining
his opposition to the coat of arms in his courtroom. As reported in the Whitehorse
Star,16 the Judge said that he intended no disrespect, but that he believed the crest
is a symbol of the government and, as a judge, he must not be seen as a servant
of the Yukon government. Th is was especially important to emphasize in the new
facility, because, as Maddison J. Th e Crest is In the Courtrooms! pointedly said, the courtrooms were located in a
“government administration building and not a courthouse.” Th e president of the law society also took the opportunity to make public
comment about the matter.17 Bruce Willis cited the bar’s ongoing concerns about
law library funding and the naming of the building, and described the coats of
arms in the courtrooms as “another example [of] interference with the courts’
ability to control themselves.” In the meantime, and virtually immediately after hearing Minister
Kimmerly’s comments, Elizabeth Th omas, a former Yukon Crown prosecutor
visiting from Ontario, fi led a formal complaint with the law society. Her concerns
were based on a CBC Radio news clip that included Minister Kimmerly’s response
to the “shrouding” of the coats of arms, and specifi cally reporting that: When the Justice Minister heard about all of this … he was upset. He called it silly … It brings the repute of the courts and the judiciary into disrespect
in the Yukon, and I’m extremely saddened by the whole thing. Th e provincial crests appear in all provincial courtrooms, and the
territories shouldn’t be any diff erent at all. Th ere’s no independence
issue here at all in my view. Th e position of the government is that
the Yukon crest will appear in Yukon courtrooms, including the
Supreme Court Room, and a, ah that justice will be done in the
presence of a symbol of the Yukon territory. Ms. Th omas complained that, as a member of the law society, Minister Kimmerly’s
comments amounted to conduct deserving of censure. Veale and Bailey | The Crest Affair 223 Th e Crest is Out of the Courtrooms! Th e Crest is Out of the Courtrooms! As noted, Judge Maddison had provided oral reasons for the removal order on
September 26: Th e reason that Court business is conducted in specially designed
rooms is not only for the purpose of providing an appropriate
forum for dispute resolution between citizens, and between
citizens and various branches of government, but is also to
symbolize that what is going on is quite independent of any other
branch of government. … it is essential to the perceived fairness of the judicial process
and the independence of the judiciary that this symbolic presence
of the Territorial Government, a frequent litigant, is eliminated. … I have concluded that, in the interest of the due and impartial
administration of justice, that the tradition of the past continue;
that there be no insignia in the courtroom. Accordingly, Mr. Clerk
has been instructed to cover the Crest. Th e coats of arms were accordingly removed over the weekend. However,
anxious to appeal Judge Maddison’s decision, the following week the Justice
Minister directed government lawyers to fi le a draft order that rendered the
Court’s direction into writing. Minister Kimmerly is quoted as saying the order
would become appealable once signed by the Judge, and “if [he] refuses to sign it,
the coats of arms will simply be put back up.”18 Judge Maddison issued his written order on October 3, 1986, stating that the
Government of Yukon had unilaterally installed the crest in each courtroom and
refused to remove the “decoration” when requested to do so. He noted the refusal
of the Government of Yukon to remove the Yukon coats of arms and ordered the
Clerk of the Court to remove them. Maddison J. provided further written reasons for his Order on October 6,
again clearly situating his objections to the coats of arms as countering a threat to
the independence of the courts and judiciary: Where the crest is understood to be and is asserted by the
government as a symbol of government, it cannot but leave
the impression with the citizen that the court is part of, not
independent of that government. Th is is particularly signifi cant
when that Government is a party to proceedings taking place
in these courtrooms, as it frequently is. Th e Crest is Out of the Courtrooms! Th e importance of the The Northern Review 50 | 2020 224 symbolism is heightened when the court rooms are housed in a
government administration building, not a separate court facility. It is critical to the public’s understanding that the judicial process
is impartial that the independence of the judiciary be preserved
and the symbolic predominance of the Yukon Government
be removed. Th is fundamental principle of independent and
impartial justice is refl ected, for example, in s. 11(d) of the Charter
of Rights and Freedoms which accords an accused person a fair and
public hearing by an independent and impartial tribunal. No one
must think that this court is in any way an agency or arm of the
legislative or executive arms of government. Th e Public Response and a Resolution in the Courthouse Th e Whitehorse Star published a perceptive editorial on September 26, the day after
Judge Maddison made his order. After noting that, as a symbol of government,
the coat of arms is as appropriately used by the judiciary as by the executive,19
the newspaper observed that the debate was “a reaction to a perception that the
executive is making the judiciary’s job diffi cult on a number of points,” but that,
nevertheless, “Justice Minister Roger Kimmerly should not be making orders
about the interior of a judge’s courtroom.” Th e editorial continued on: … If a superior judge is to have control of his or her own courtroom
on the important legal and procedural issues, as our laws require,
then surely there must be similar independence on the minor
issues – minor issues that go to the dignity of the court. Simply by maintaining the crests will stay where they are,
Kimmerly is showing he, as a politician and cabinet minister, feels
he has some control over what goes on in the courtrooms. It may only be control over a decoration on a wall, but that is
important symbolically. An independent judiciary is more than
independence in fact or point of law – it is independence in public
perception. If Justice Maddison’s view, even if it is wrong, is that the crest is
a symbol of the executive, then he should have the right to have
it removed. Th e Whitehorse Star also published a Letter to the Editor by Lynn Gaudet,
a lawyer who was then the program manager with the Yukon Public Legal
Education Association.20 In a half-page piece, she explained why an independent
judiciary is important to our system of law and why it is that the legal system gives
judges the right to control their courtrooms.21 Veale and Bailey | The Crest Affair 225 In the face of public response that was clearly running against him, the
Justice Minister retreated and advised that he would not be appealing the order
of Maddison J. after all. He is quoted in the Whitehorse Star as saying that the
controversy was “not doing anybody any good ... I sincerely hope that the issue
dissolves and is forgotten about.”22 He also alluded to a “solution” that he had
discussed with Nathan Nemetz, the then-Chief Justice of the Yukon Court of
Appeal. Th e Public Response and a Resolution in the Courthouse While not explicitly stated, the proposed solution seems likely to have
been to install the Royal Coat of Arms of the United Kingdom in the Supreme
Court courtrooms; a display that follows the practice in British Columbia.23 In a second editorial, the Whitehorse Star expressed relief that the matter had
been resolved, calling the argument “rather silly, but nevertheless serious.” It also
noted that the government’s “hard-nosed attitude … showed to many that the
government was prepared to interfere with the courts,” but that the longer the
debate continued the more “ludicrous the matter looked to the vast majority of
people.” While a truce was thus reached in the forum of public opinion, Minister
Kimmerly’s accounting before the law society was just getting underway (Figure 1). Th e Law Society Complaint On October 10, 1986, Minister Kimmerly wrote the Law Society of Yukon in
response to Ms. Th omas’s discipline complaint. He stated, among other things,
that the comments were justifi ed given his role in the government: It is of course my constitutional responsibility to maintain and
defend the role of the Executive in our form of Government and
it is my fi rm belief that I was discharging that duty under these
circumstances. I am cognizant of my role with respect to the
judiciary and my responsibilities in that regard, and my comments
on this particular issue were, in my view, responsible to both of my
aforesaid duties. Having reviewed the complaint and Minister Kimmerly’s response, Grant
Macdonald, the chair of the discipline committee, found that Mr. Kimmerly’s
conduct was not deserving of censure, in part due to the role he played in his
political offi ce. The Northern Review 50 | 2020 226 Figure 1. Editorial cartoon depicting Minister Kimmerly with a tube of Crest toothpaste
Rick Peterson, Whitehorse Star, October 7, 1986. Figure 1. Editorial cartoon depicting Minister Kimmerly with a tube of Crest toothpaste. Rick Peterson, Whitehorse Star, October 7, 1986. 227 Veale and Bailey | The Crest Affair Ms. Th omas appealed that fi nding to the full executive of the law society, and
while not unanimous, on January 20, 1987, the executive advised: A consensus was reached, subject to Mr. Kilpatrick’s dissent, that
Mr. Kimmerly, during the interview in question, acted in his
capacity as Minister of Justice and while his remarks may have
been impolite and impolitic, he could not be found to be deserving
of censure or disciplinary action by the Executive and furthermore
that Mr. Macdonald had acted properly as Discipline Chairman
in this case. Dissatisfi ed, Ms. Th omas applied to the Supreme Court of Yukon for an order
quashing the decision of the executive. Dissatisfi ed, Ms. Th omas applied to the Supreme Court of Yukon for an order
quashing the decision of the executive. Minister versus Courts and Law Society, Round 2 Concurrent with the developments in the complaint before the law society
was a judicial council issue that was also attracting media attention and being
linked to more fundamental tensions between the branches of government, and
indeed between the same individual actors. As noted somewhat noirishly by the
Whitehorse Star, “[b]eneath the surface debate … brew petty politics and cool
personal relationships between Kimmerly and other main players—Supreme
Court Justice Harry Maddison and key members of the law society.”24 In a nutshell, Minister Kimmerly was unhappy with the judicial candidates
he was being presented with for appointments, and the implication was that it
was because there were too many lawyers on the judicial council that then, as now,
vetted judicial applicants. As with other aspects of the legal system, the Minister
believed that a majority of lay people should sit on the council because lawyers
and the law society necessarily favoured the “professional elite.” Th e Minister
proposed either presenting his own list of candidates to the council or having
the Public Service Commission department of the Yukon Territorial Government
prepare a list. In a gambit that ultimately failed, the Minister did present twelve
names selected by the Department of Justice to the council in July 1988, only to
have it decline to consider them. At the same time that the law society executive was considering the Kimmerly
complaint, it was also separately considering the broader issue of judicial
independence. On May 21, 1987, David Gates, the newly-elected law society
president, advised the media that the society was striking a committee to study
the issue of the Court’s independence from government.25 Th is step had been
decided on at the society’s recent annual general meeting and was prompted by
the clashes between the courts and the executive branch, including the naming of
the law centre, the removal of the coats of arms, the public dispute about the cost
of Judge Maddison’s furnishings, as well as more-recent comments by Minister
Kimmerly about the high salaries of federal judges and his advocacy with respect
to changing the process for judicial appointments by altering the composition of
judicial council. Dissatisfi ed, Ms. Th omas applied to the Supreme Court of Yukon for an order
quashing the decision of the executive. She was successful. In its review, the law society did not have access to the
September 25 CBC interview with the Minister, which was the basis of Th omas’s
complaint. Deputy Judge Wachowich, to whom tape recordings were made
available, agreed that this omission provided a suffi cient basis on which to quash
the law society’s decision. Accordingly, on May 12, 1987, Justice Wachowich
returned the matter to the law society, ordering the executive to consider the
additional evidence fi led, including the tape recordings provided by the CBC, in
its reconsideration. Th e executive of the law society met on May 15, 1987, to review all of the
evidence relating to the discipline complaint. On May 25, it publicly announced
that it was referring the matter to a Committee of Inquiry for a full hearing. Seizing his opportunity while the inquiry was being convened, on July 10,
1987, the Minister of Justice applied to the Supreme Court of Yukon for an
order prohibiting the law society from proceeding with the discipline complaint,
on the grounds that he was at all times acting in his capacity as Minister of Justice
and not as a member of the Law Society of Yukon. Th e petition characterized the
discipline citation as an unlawful attempt to interfere with the Government of
Yukon. On July 17, 1987, Deputy Judge Bracco dismissed Minister Kimmerly’s
petition, fi nding that the Law Society of Yukon had proper and reasonable
grounds for issuing the citation. He concluded that the principle of ministerial
immunity asserted by Minister Kimmerly had not been established. Th e matter
was therefore remitted to the Law Society’s Committee of Inquiry for a full and
fair inquiry into the Minister’s conduct, and to test an important proposition
about the extent to which a minister is accountable to the law society, despite their
role in government. The Northern Review 50 | 2020 228 Th e Committee of Inquiry Although the dust-ups between the courts and the Minister continued throughout
1987 and into 1988 and beyond, the Crest Aff air did receive its fi nal resolution
in July 1988, with formal hearings before the law society’s Committee of Inquiry
over two days, and written reasons released by the panel on July 25. h Th e law society was represented by counsel before the Committee of
Inquiry,26 and the issue was framed as whether the specifi c comments made to 229 Veale and Bailey | The Crest Affair CBC Radio amounted to conduct deserving of censure. Th is term is defi ned in
the Legal Profession Act as conduct that “is contrary to the public interest or that
harms the standing of the legal profession generally, or that is contrary to the code
of legal conduct.” In particular, the Committee of Inquiry focused on the Minister’s assertion
that “Yukoners have been insulted,” “It is silly,” and “It brings the repute of the
courts and judiciary into disrespect in the Yukon and I am extremely saddened by
the whole thing.” Th e Committee of Inquiry found that what Minister Kimmerly had called
“silly” was the shrouding of the coats of arms. It was neither a reference to the
courts, nor to Judge Maddison personally. Although Ms. Th omas suggested that
there was some “ulterior motive” to the Minister’s comments, this point was not
pressed by the law society and the committee declined to further describe or make
a fi nding about it.27 i
Both the law society and Minister Kimmerly presented expert opinion
evidence in support of their arguments. Th e expert lawyer called by the law society
testifi ed that the Minister had breached the code of professional conduct with
respect to his role in public offi ce and with respect to the administration of justice. Ron Veale, who was acting as counsel for the law society, argued that while a lawyer
can properly state a view that a Court is wrong, they cannot publicly state that a
Court’s actions are “silly.” Additionally, rather than making a public statement to
various media outlets, the Minister should have pursued his grievance through the
Canadian Judicial Council. Here, the Minister’s comments, which he alliteratively
described as the “petulant pique of a politician,” lowered public confi dence in the
justice system and were deserving of censure. Th e Committee of Inquiry In contrast, one of the lawyers called by the Minister, John D. McAlpine,
QC, from Vancouver, opined that the Supreme Court had itself “thrown down
the gauntlet” in a public way requiring a response from the Minister of Justice, and
that, in the context, the Minister’s comments were “sensible,” “understandable,”
and a valid exercise of his freedom of speech. Minister Kimmerly’s counsel,
Richard Peck QC, argued that to censure the Minister’s comments would be to
curtail a lawyer’s fundamental right to speak out on matters of principle. Quoting
from Justice Dubin of the Ontario Court of Appeal, he protested that “the Courts
are not fragile fl owers that will wither in the heat of controversy.” Comments made
in good faith without malice and without attempting to impair the administration
of justice are fair game. The Northern Review 50 | 2020 230 In a relatively sparsely-reasoned decision, the Committee of Inquiry
accepted that a member holding public offi ce is bound by the same standards of
professional conduct required of a practising lawyer, and in some instances held
to an even higher duty. However, here, Minister Kimmerly, as Minister of Justice,
had found himself in circumstances where he was obliged to respond to the
Court’s actions. While his words may not have been well-chosen, the committee
was mindful “of the realities of political life and the position of the member as
Minister of Justice at the end of a telephone in Haines Junction when told of
the shrouding of the Coat of Arms.” After balancing the Minister’s obligations
to the profession against his freedom to make a fair and reasonable comment,
the committee concluded that the comments of the Minister of Justice were not
deserving of censure and dismissed the complaint. Th us ended this chapter of Yukon history.28 Conclusion Despite the fraught background and interpersonal confl ict, and the perception
by some that the matter was a “tempest in a teapot,” or “silly” as the Minister of
Justice described it, the independence of the Yukon’s judiciary and the broader
relationships between the Court, executive, and the bar were nevertheless at the
heart of the Crest Aff air, and the incident raised public awareness of how these
important institutions intersect. For one thing, the law society complaint clarifi ed that the Minister was still
subject to its disciplinary process, despite his role in public life. Th irty years later,
this precedent remains one of the few considerations of the potentially confl icting
duties of a lawyer-politician in Canadian law.29 As well, particularly from the perspective of Ron Veale who, after playing
a minor role in the controversy, later assumed Judge Maddison’s role at the
helm of Yukon’s Supreme Court, the Crest Aff air was not a mere idiosyncrasy
of the bench but a necessary intervention that advanced public understanding
of the independence of the judiciary from the Government of Yukon and the
Department of Justice. While the Crest Aff air arose on the heels of the seminal case of Valente v Th e
Queen,30 in the years since, various appellate courts, including the Supreme Court
of Canada, have continued to refi ne our understanding of the important role that
court and judicial independence play in Canadian society. Indeed, this principle
lies at the heart of our system of government. An independent judiciary is not
the right of a judge—it is a right of the public to the confi dence that a case will
be adjudicated fairly, on its merits, and without the exercise of political or other
pressure. Veale and Bailey | The Crest Affair 231 As noted above, Yukon’s Supreme Court and Territorial Court continue to
share a building with offi ces of the Yukon Department of Justice. Th e second fl oor
walkway between the two institutions is still a bridge to nowhere. Now, however,
the relationship between the branches of government is one of mutual respect and
shared responsibility for delivering a standard of justice that is rightly the envy of
many Canadians. Notes 1. Th e artist was Colin Sawrenko. One of his pieces is on display on the government
side of the building, near the elevators. A second coat of arms is outside the building
on the courthouse side. hi 1. Th e artist was Colin Sawrenko. One of his pieces is on display on the government
side of the building, near the elevators. A second coat of arms is outside the building
on the courthouse side. hi 2. Th e “crest” forms part of the Yukon coat of arms; specifi cally, it is the part on top of
the shield, which consists of the Yukon malamute (or husky) on a mound of snow.h 2. Th e “crest” forms part of the Yukon coat of arms; specifi cally, it is the part on top of
the shield, which consists of the Yukon malamute (or husky) on a mound of snow.h 3. Th e technical description, as registered with the Canadian Heraldic Authority, is
“Arms: Azure two pallets wavy Argent between two piles reversed Gules fi mbriated
Argent, each charged with two bezants, on a chief Argent a cross Gules surmounted
by a roundel Vair; Crest: A husky statant on a mount of snow proper.” 4. Roger Kimmerly was a lawyer and had been a magistrate in the Yukon before
making a move into politics. 5. Evidence of Timothy Preston before the Law Society Commission of Inquiry,
refl ected in Law Society of Yukon v Kimmerly, [1988] LSDD No. 1. l
6. Becky Striegler, “New comfort and security”, Whitehorse Star (August 26, 1986). 7. Jim Butler, “Judges order new furniture outside: Costs taxpayers $50,000”, Whitehorse
Star (August 1, 1986). Th e additional $30,000 refl ects that the legislature and/or
executive approved $10,000 to furnish each of the offi ces used by the three resident
Territorial Court judges. 7. Jim Butler, “Judges order new furniture outside: Costs taxpayers $50,000”, Whitehorse
Star (August 1, 1986). Th e additional $30,000 refl ects that the legislature and/or
executive approved $10,000 to furnish each of the offi ces used by the three resident
Territorial Court judges. 8. While considered “exorbitant” at the time, all of these items have been in consistent
use by resident Supreme Court judges, and Judge Maddison’s furniture may well
have ultimately cost taxpayers less in the long run. 8. Notes While considered “exorbitant” at the time, all of these items have been in consistent
use by resident Supreme Court judges, and Judge Maddison’s furniture may well
have ultimately cost taxpayers less in the long run. 9. Butler, supra note 7. 9. Butler, supra note 7. 10. Ibid 11. Becky Streigler, “Courts dedicated: Many lawyers, judges boycott”, Whitehorse Star
(October 10, 1986). According to the article, the only lawyers attending were two
federal Crown attorneys, lawyers from the Yukon Department of Justice, and one
lawyer who was also an MLA. One of the Yukon’s three resident judges attended. hf 12. Th is was ultimately resolved when a tariff schedule was agreed on in September
1986. The Northern Review 50 | 2020 232 13. Becky Streigler, “Minister interfering with justice, law society says”, Whitehorse Star
(September 25, 1986). 14. Jim Butler, “Justice inquiry team appointed”, Whitehorse Star (April 9, 1986). 15. Becky Striegler, “Crest called symbol of government; judge refuses to hear case in
decorated courtroom”, Whitehorse Star (September 25, 1986). 16. Becky Streigler, “Judge explains why he wants crest out”, Whitehorse Star (September
26, 1986), citing comments made by then Law Society of Yukon President Bruce
Willis. 17. Streigler, supra note 13. 18. Becky Striegler, “Gov’t may appeal court’s crest order”, Whitehorse Star (October 1,
1986). 19. Indeed, the commissioner has granted the Territorial Court, as a branch of
government, the right to use the Yukon coat of arms, and it does so today in its
courtrooms and on its letterhead. 20. And also, it appears, a former law partner of Roger Kimmerly. i 21. “Courts rely on public confi dence: Letter to the Editor”, Whitehorse Star (October
1, 1986). 22. Becky Striegler, “Gov’t gives up coat of arms battle”, Whitehorse Star (October 6,
1986). 23. On December 18, 2009, Ron Veale, now Chief Justice of Yukon, discovered the
Royal Crest in the court’s basement storage and placed it behind the bench in
Courtroom #1. 24. Jim Butler, “Kimmerly plans changes to method of picking judges,” Whitehorse Star
(May 15, 1987). 25. “Law Society studying judicial independence,” Whitehorse Star (May 22, 1987). 26. Ron Veale, as a lawyer, represented the Law Society of Yukon.h 27. Th e decision of the Committee of Inquiry is available online through Quicklaw at
Law Society of Yukon v Kimmerly, [1988] LSDD No. 1. 28. Notes As a postscript, it is worth noting that, in an editorial published on July 4, 1988 (“Silly
evidence”), the Whitehorse Star quoted earlier CBC reporting that Judge Maddison
had in fact called the coats of arms “tacky.” It also cited evidence presented at the
law society hearing about letters authored by Maddison J., in which he had agreed to
their presence in the courtrooms, provided they “were smaller and of better quality.”
Th is evidence was not mentioned in the committee’s decision, but the Whitehorse
Star opined that, in light of it, the protracted proceedings were themselves bringing
the administration of justice into disrepute. h 29. Th is subject has since been considered in an article by Andrew Flavelle Martin,
“Legal Ethics Versus Political Practices: Th e Application of the Rules of
Professional Conduct to Lawyer-Politicians” (2012) 91:1 Canadian Bar Review 1,
2013 CanLIIDocs 182, online: <http://www.canlii.org/t/28h2>. 29. Th is subject has since been considered in an article by Andrew Flavelle Martin,
“Legal Ethics Versus Political Practices: Th e Application of the Rules of
Professional Conduct to Lawyer-Politicians” (2012) 91:1 Canadian Bar Review 1,
2013 CanLIIDocs 182, online: <http://www.canlii.org/t/28h2>. 29. Veale and Bailey | The Crest Affair 233 30. [1985] 2 SCR 673. In Valente, the Supreme Court of Canada considered whether
an Ontario provincial court judge was suffi ciently independent to meet the
requirement of s. 11(d) of the Charter. In answering the question affi rmatively, Le
Dain J. articulated the nature and content of judicial independence, including a
recognition of its individual and institutional aspects. Broadly speaking, judicial
independence requires security of tenure, fi nancial security, and institutional
independence over matters of administration bearing directly on the exercise of a
court’s judicial function. Authors Th e Honourable Ronald Veale is Chief Justice, Supreme Court of Yukon. Th e Honourable Ronald Veale is Chief Justice, Supreme Court of Yuko Th e Honourable Ronald Veale is Chief Justice, Supreme Court of Yukon. Andrea Bailey is legal counsel with the Yukon Department of Justice. Any
views and opinions expressed in this article are those of the author and do not
necessarily refl ect any views and opinions of the Yukon Department of Justice or
the Government of Yukon. The Northern Review 50 | 2020 234
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The Effect of Fattening Time on Fattening Performance, Slaughter and Carcass Characteristics in Tuj Male Lambs
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Zenodo (CERN European Organization for Nuclear Research)
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cc-by
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DOI: http://dx.doi.org/10.5281/zenodo.7933388
Araştırma Makalesi / Research Article The Effect of Fattening Time on Fattening Performance, Slaughter and Carcass
Characteristics in Tuj Male Lambs MAS JAPS 8(2): 256–264, 2023 MAS JAPS 8(2): 256–264, 2023 The Effect of Fattening Time on Fattening Performance, Slaughter and Carcass
Characteristics in Tuj Male Lambs Serpil ADIGÜZEL IŞIK1*
, Mehmet SARI2
, Muammer TİLKİ3
, Kadir ÖNK1 1Kafkas University, Faculty of Veterinary Medicine, Department of Animal Science, Kars
2Kırşehir Ahi Evran University, Agriculture Faculty, Department of Animal Science, Kırşehir
3Karadeniz Technical University, Department of Veterinary, Macka Vocational School, Trabzon *Sorumlu yazar (Corresponding author): serpiladiguzel78@hotmail.com Abstract The research was carried out in 39 Tuj male lambs with an average weight of 29 kg, weaned at the age of 2.5 and
3 months, reared in the Education, Research and Application Farm of the Faculty of Veterinary Medicine of Kafkas
University. In the study, intensive fattening was done by using lamb rearing feed and ad libitum roughage in 3
groups, 13 lambs in each group, and 6 lambs were slaughtered on the 60th, 75th and 90th days in the first, second
and third groups, respectively. slaughter and carcass characteristics were examined. At the beginning, middle and
end of the experiment, body weights and some body measurements were taken from the lambs in the morning
before the animals were fed, and the live weights were recorded by weighing the lambs every 2 weeks during the
experiment. At the end of the study, the difference between the groups was found to be significant in terms of
anterior shank circumference measured in the middle of the trial in the sixty-day fattening group (P<0.05). Again,
at the end of the experiment, the differences between the groups in terms of anterior shank circumference were
significant (P<0.05, P<0.01). The difference between the groups was found to be significant in terms of anterior
shank circumference measured in the middle of the trial in the group that was fed for seventy-five days (P<0.05). The difference between the groups was found to be significant in terms of anterior shank circumference measured
in the middle of the trial in the group that was fed for ninety days (P<0.05). Again, in the 90-day group, the
differences between the groups in terms of anterior shank circumference taken at the end of the trial were
significant (P<0.01), while the differences between other body measurements taken at other periods in all groups
were insignificant (P>0.05). Keywords: Tuj lamb, fattening shape, fattening performance, slaughter and carcass characteristics 256 MAS JAPS 8(2): 256–264, 2023 profitability (Koçak, 2019). Tuj breed,
which is the subject of this study, is bred
around Kars, Ardahan and Iğdır. Pure
breeds are found in Arpaçay District of Kars
and Çıldır District and villages of Ardahan
(Aksoy et al., 2001). Although 6 months
old lambs are sold in Kars province, they are
not sent to slaughter. They are sold to
breeders or people who breed yearling
lambs. Abstract Yearling lambs are overwintered by
the breeders or the fatteners and sold to
slaughterhouses,
combines,
and
slaughterers to be slaughtered when they are
20-21 months old in autumn the following
year. This situation increases the costs such
as feed, shelter, labour, vaccination and
treatment. In addition, since yearling lambs
are kept in the pasture period for the second
time, the pastures are worn out due to heavy
grazing
(İlaslan
and
Geliyi,
1984). Considering these reasons, it is thought that
by fattening lambs and yearling lambs in
Kars, the pastures will be less worn out and
more male lambs will gain more live weight
(Aksoy, 1996). In this study, the effect of
fattening period on fattening performance
and carcass characteristics of Tuj male
lambs was investigated. 1. Introduction Turkey's natural and environmental
conditions and family traditions create a
favourable environment for sheep and goat
breeding to be widely practised and to have
an important place in livestock breeding. Because sheep and goat breeding is a lower
cost livestock breeding activity compared to
cattle breeding (Elmalı Aksu et al., 2010). According to the data of Turkish Statistical
Institute (TUIK), a total of 22 million ovine
animals were slaughtered in 2021, and 480
thousand 488 tonnes (24.61%) of the 1
million 952 thousand tonnes of red meat
production is provided by sheep and goats
(TUIK, 2023). The most important income
item in sheep breeding is obtained from
lamb meat production. In this context, an
economically effective fattening practice
should be carried out in order to raise lambs
to a certain live weight in a certain period of
time. The
determination
and
implementation of technical and economic
conditions in lamb fattening instead of
traditional production will positively affect
both the profitability of enterprises and
mutton production (Karaoğlu et al., 2001). As there are differences among species in
terms of growth and development and thus
meat production ability, there are also great
differences among breeds and groups
within breeds (Laçin and Aksoy, 2003). Differences within the same breed are
greatly
affected
by
gender
and
environmental
conditions
(Akçapınar,
2000). However, it has been reported that
the most economical and fastest lamb
fattening is intensive fattening after
weaning (Koçak, 2009). As in all livestock
farms, the main objective in lamb fattening
is to increase profitability. However, for a
profitable and efficient breeding, it is
necessary to know the cost factors,
especially feed costs, and to control the
costs (Çiçek and Sakarya, 2003; Demir et
al., 2015). In addition, in fattening
enterprises, live weight gain in lambs to be
fattened, feed consumption, feed utilisation
ability and the relationships between them
are also important factors that directly affect 2. Material and Method In the study, 39 male lambs raised in
Kafkas University Education Research and
Application Farm were used. After the
lambs were vaccinated against internal and
external
parasites,
a
one-week
feed
acclimatisation period was applied and then
they were divided into 3 groups with 13
lambs in each group. These groups were
given ad libitum concentrate feed and 300 g
of medium quality dry meadow grass daily
for each lamb during fattening and clean
water was kept in front of them during the
experiment. Concentrate feed was prepared
in a private feed factory and hay was
purchased from the Veterinary Faculty
Farm. Body measurements (body height,
body length, chest circumference, chest
depth, front shank and back shank
circumference) were taken three times for
each group at the beginning, middle and end
of the experiment. During the experiment, 257 MAS JAPS 8(2): 256–264, 2023 lambs were weighed every 2 weeks in the
morning before feeding and their live
weights were determined during fattening. At the end of the fattening period
determined for each group, lambs were
slaughtered after weighing and slaughter
and carcass characteristics (hot and cold
carcass weights, hot and cold yield, skin,
head, feet, heart-lungs, spleen, kidney,
kidney fat, stomach (full, empty), small and
large intestine weights (full, empty), rump,
arm, loin (fillet), back (chop), tail, rump-
neck and others weights, MLD cross-
sectional area were determined during cold
carcass
dismemberment. MLD
cross-
sectional area in the carcass was determined
according to the method reported by
Colomer-Rocher et al. (1988) by taking a
copy of the cross-section made between the
12th-13th ribs on tracing paper and
measuring it with the help of millimetre
paper. Shell fat thickness was also
determined by measuring with callipers
from the same place. Carcass measurements were taken after slaughtering. Measuring
stick and measuring tape were used to take
the measurements. The left side of the
carcass was separated into thigh, arm, skirt,
neck, shoulder head, back-lumbar and tail
and weights were taken. The carcass parts
were weighed with an electronic scale
sensitive to 1 g. The values obtained from
the carcass parts were multiplied by two and
the values of the whole carcass were
obtained (Colomer-Rocher et al. 1988). Statistical analyses were performed using
Minitab 12.0 package programme. The
significance of the differences between
groups was analysed by ANOVA and the
significance of the differences between two
groups was analysed by t test. 3. Results At the end of the
experiment, the differences between the
groups were significant (P<0.05, P<0.01),
but the differences between the body
measurements taken at other periods were 258 MAS JAPS 8(2): 256–264, 2023 body measurements taken in other periods
were insignificant (P>0.05). the differences between the groups in terms
of forelimb circumference were significant
(P<0.01), but the differences between the Table 2. Various body measurements (cm) determined at the beginning, middle and end of the
experiment in the group fattened for sixty days
Features
Chest
circumference
Front shank
circumference
Rear shank
circumference
Body
length
Height at
Withers
Chest
depth
Trial Head
-
-
-
-
-
-
60 day
75.99±2.85
7.44±0.13
8.63±0.15
57.89±1.62
60.98±1.06
27.57±0.78
75 day
74.05±2.04
7.61±0.09
8.74±0.19
58.01±1.04
59.02±0.91
26.35±0.60
90 day
75.39±2.03
7.49±0.11
8.72±0.17
58.72±1.34
59.02±1.05
26.38±0.68
Mid-trial
-
*
-
-
-
-
60 day
79.52±2.71
7.71±0.13b
9.30±0.16
60.55±1.48
61.38±1.12
27.93±0.52
75 day
79.77±2.36
8.18±0.09a
9.37±0.13
60.00±1.14
60.62±0.83
27.34±0.54
90 day
80.55±2.22
8.04±0.12ab
9.30±0.17
60.74±1.11
59.74±0.86
27.38±0.52
End of trial
-
**
-
-
-
-
60 day
83.19±2.66
7.99±0.20b
9.99±0.25
63.30±1.58
61.80±1.25
28.31±0.65
75 day
85.71±2.81
8.77±0.14a
10.02±0.17
62.07±1.54
62.29±0.96
28.37±0.69
90 day
85.89±2.55
8.62±0.14a
9.90±0.20
62.84±1.09
60.50±0.82
28.42±0.54
The difference between groups with different letters in the same column is significant. -: P>0.05 insignificant,. *: P<0.05, **: P<0.01, ***: P<0.001. Table 2. Various body measurements (cm) determined at the beginning, middle and end
experiment in the group fattened for sixty days ody measurements (cm) determined at the beginning, middle and end of the
up fattened for sixty days Table 3. Various body measurements determined at the beginning, middle and end of the experiment in
the group fattened for seventy-five days
Chest
Front shank
Rear shank
Body
Height at
Chest Table 3. Various body measurements determined at the beginning, middle and end of the exper
the group fattened for seventy-five days Table 3. 3. Results The live weights of lambs weighed every
two weeks are given in Table 1. In the
analyses, no significant difference was
found between the groups in terms of live
weights (P>0,05). Table 1. Live weight of lambs in various periods (kg)
Day
Groups
60 day
75 day
90 day
importance
Beginning
35.43±2.49
35.32±2.42
35.70±2.15
-
14
38.68±2.76
38.51±2.53
39.27±2.27
-
28
40.77±2.94
40.22±2.60
41.15±2.27
-
42
43.37±3.05
42.75±2.66
43.11±2.48
-
56
-
44.91±2.75
45.27±2.56
-
70
-
46.15±2.80
46.48±2.51
-
84
-
-
48.89±2.34
-
90
-
-
51.17±2.18
The difference between groups with different letters on the same line is significant. -: P>0.05, insignificant *: P<0.05, **: P<0.01, ***: P<0.001. The difference between groups with different letters on the same line is significant. -: P>0.05, insignificant *: P<0.05, **: P<0.01, ***: P<0.001. insignificant (P>0.05). In the group fattened
for 75 days, the difference between the
groups was found to be significant (P<0.05)
in terms of front shank circumference taken
in the middle of the experiment. The
differences
between
the
body
measurements taken in other periods were
insignificant (P>0.05). In the ninety-day
fattening group, the difference between the
groups was found to be significant (P<0.05)
in terms of forelimb shank circumference
measurements taken in the middle of the
experiment. At the end of the experiment, In Tables 2, 3 and 4, various body
measurements taken at the beginning,
middle and end of the experiment of the
groups fed for different periods are given
respectively. The difference between the
groups was found to be significant (P<0.05)
in terms of forelimb circumference taken in
the middle of the experiment in the group
fed for sixty days. At the end of the
experiment, the differences between the
groups were significant (P<0.05, P<0.01),
but the differences between the body
measurements taken at other periods were In Tables 2, 3 and 4, various body
measurements taken at the beginning,
middle and end of the experiment of the
groups fed for different periods are given
respectively. The difference between the
groups was found to be significant (P<0.05)
in terms of forelimb circumference taken in
the middle of the experiment in the group
fed for sixty days. 3. Results Various body measurements determined at the beginning, middle and end of the experiment in
the group fattened for seventy-five days
Features
Chest
circumference
Front shank
circumference
Rear shank
circumference
Body
length
Height at
Withers
Chest
depth
Trial
Head
-
-
-
-
-
-
60 day
75.99±2.85
7.44±0.13
8.63±0.15
57.89±1.62
60.98±1.06
27.57±0.78
75 day
74.05±2.04
7.61±0.09
8.74±0.19
58.01±1.04
59.02±0.91
26.35±0.60
90 day
75.39±2.03
7.49±0.11
8.72±0.17
58.72±1.34
59.02±1.05
26.38±0.68
Mid-trial
-
*
-
-
-
-
60 day
80.31±2.69
7.77±0.14b
9.45±0.18
61.14±1.48
61.47±1.14
28.01±0.51
75 day
81.04±2.44
8.31±0.10a
9.51±0.13
60.44±1.20
60.98±0.84
27.56±0.56
90 day
81.69±2.28
8.17±0.12ab
9.43±0.17
61.19±1.08
59.91±0.83
27.61±0.51
End
of
trial
-
-
-
-
-
-
75 day
81.10±6.50
8.64±0.18
10.17±0.21
64.61±1.20
61.65±0.81
29.56±0.65
90 day
88.98±2.60
8.82±0.16
10.26±0.21
63.70±1.10
62.38±1.20
30.78±1.90
The difference between groups with different letters in the same column is significant. -: P>0.05 insignificant,. *: P<0.05, **: P<0.01, ***: P<0.001. 259 MAS JAPS 8(2): 256–264, 2023 Table 4. Various body measurements (cm) determined at the beginning, middle and end of the
experiment in the group fattened for ninety days
Features
Chest
circumference
Front shank
circumference
Rear shank
circumference
Body
length
Height at
Withers
Chest
depth
Trial
Head
-
-
-
-
-
-
60 day
75.99±2.85
7.44±0.13
8.63±0.15
57.89±1.62
60.98±1.06
27.57±0.78
75 day
74.05±2.04
7.61±0.09
8.74±0.19
58.01±1.04
59.02±0.91
26.35±0.60
90 day
75.39±2.03
7.49±0.11
8.72±0.17
58.72±1.34
59.02±1.05
26.38±0.68
Mid-trial
-
**
-
-
-
-
60 day
81.67±2.67
7.88±0.17b
9.71±0.21
62.16±1.51
61.63±1.19
28.15±0.54
75 day
83.25±2.61
8.53±0.12a
9.75±0.14
61.21±1.35
61.60±0.88
27.95±0.61
90 day
83.68±2.40
8.38±0.13a
9.65±0.18
61.97±1.07
60.19±0.81
27.99±0.51
End
of
trial
-
-
-
-
-
-
90 day
88.83±2.23
8.09±1.14
9.88±0.12
66.02±0.66
61.82±0.91
29.67±0.76
The difference between groups with different letters in the same column is significant. -: P>0.05 insignificant,. *: P<0.05, **: P<0.01, ***: P<0.001. . Various body measurements (cm) determined at the beginning, middle and end of the
ent in the group fattened for ninety days carcass and large intestine full and empty
weights, but the differences between the
groups were insignificant (P>0.05) in terms
of other characteristics. Table
5
shows
various
slaughter
characteristics of different groups. When
Table 5 was analysed, it was found that the
differences between the groups were
significant (P<0.05, P<0.01) in terms of hot Table 5. 3. Results Various slaughter characteristics of lambs (g, kg)
Features
Fattening time
60 day (n=6)
75 day (n=6)
90 day (n=6)
importance
Cutting weight (kg)
46.28±2.97
47.32±2.04
51.98±2.39
-
Hot carcass weight (kg)
16.90±0.92b
18.83±0.93ab
21.43±1.36a
*
Skin weight (kg)
5.65±0.46
6.02±0.54
6.10±0.45
-
Head weight (kg)
2.45±0.08
2.49±0.13
2.73±0.16
-
Foot weight (g)
838.30±50.30
948.30±34.70
898.30±59.70
-
Heart-lung weight (g)
828.30±62.10
836.70±37.50
818.30±24.40
-
Liver weight (g)
680.00±36.10
623.33±36.20
651.67±20.40
-
Spleen weight (kg)
73.33±9.55
76.67±8.03
66.67±4.22
-
Kidney weight (g)
148.33±13.50
141.67±16.20
123.33±5.58
-
Testes weight (g)
366.70±32.60
438.30±71.80
373.30±52.40
-
Stomach full weight (kg)
6.60±0.42
5.47±0.39
5.47±0.38
-
Empty stomach weight (kg)
1.47±0.10
1.43±0.09
1.42±0.07
-
Small intestine full weight (kg)
2.09±0.12
2.02±0.13
2.02±0.15
-
Small intestine empty weight (kg)
1.00±0.14
0.88±0.06
0.68±0.06
-
Large intestine full weight (kg)
1.73±0.26b
1.08±0.11a
1.07±0.07a
*
Large intestine empty weight (kg)
0.55±0.06b
0.34±0.02a
0.36±0.03a
**
The difference between groups with different letters in the same column is significant. -: P>0.05 insignificant,. *: P<0.05, **: P<0.01, ***: P<0.001. Table 5. Various slaughter characteristics of lambs (g, kg) P<0.01, P<0.001) for body depth, rump
length II and rump circumference I in Table
7, and insignificant (P>0.05) for the other
parameters given in Tables 6 and 7. P<0.01, P<0.001) for body depth, rump
length II and rump circumference I in Table
7, and insignificant (P>0.05) for the other
parameters given in Tables 6 and 7. P<0.01, P<0.001) for body depth, rump
length II and rump circumference I in Table
7, and insignificant (P>0.05) for the other
parameters given in Tables 6 and 7. Carcass parameters of different groups are
given in Tables 6 and 7. The differences
between the groups were found to be
significant (P<0.05) for rump, arm and loin
weights in Table 6, significant (P<0.05, 260 MAS JAPS 8(2): 256–264, 2023 Table 6. Various carcass parameters of lambs (kg, mm, cm²)
Features
Fattening time
60 day (n=6)
75 day (n=6)
90 day (n=6)
importance
Thigh weight (kg)
5.23±0.58b
6.26±0.18ab
7.11±0.38a
*
Arm weight (kg)
3.43±0.39b
4.27±0.24ab
4.74±0.26a
*
Loin (fillet) weight (kg)
1.55±0.17b
2.14±0.30ab
2.50±0.14a
*
Back (chop) weight (kg)
3.39±0.53
4.00±0.15
4.97±0.53
-
Tail weight (kg)
3.94±0.36
3.35±0.39
3.73±0.42
-
Weight of neck and neck (kg)
1.40±0.15
1.72±0.18
2.02±0.20
-
MLD shell oil thickness (mm)
0.30±0.02
0.34±0.03
0.35±0.02
-
MLD cross-sectional area (cm2)
21.10±2.48
18.37±1.22
20.62±1.30
-
The difference between groups with different letters in the same column is significant. 3. Results -: P>0.05 insignificant,. *: P<0.05, **: P<0.01, ***: P<0.001. Table 6. Various carcass parameters of lambs (kg, mm, cm²) Table 7. Various carcass parameters of lambs (cm)
Features
Fattening time
60 day (n=6)
75 day (n=6)
90 day (n=6)
importance
Karkas uzunluğu I (cm)
50.72±1.86
55.38±1.38
54.02±1.78
-
Karkas uzunluğu II (cm)
71.55±1.27
68.82±1.00
69.90±2.30
-
Gövde derinliği (cm)
26.53±0.40b
25.68±0.36b
23.15±0.74a
**
But uzunluğu I (cm)
39.53±0.77
40.38±0.57
41.12±0.72
-
But uzunluğu II (cm)
60.47±6.38b
72.63±1.06b
33.60±0.91a
***
But çevresi I (cm)
38.35±1.66b
41.87±0.82ab
42.93±0.67a
*
But çevresi II (cm)
31.21±1.33
31.93±0.49
34.38±0.76
-
Kol uzunluğu (cm)
23.20±2.51
21.40±0.33
21.63±0.30
-
Kol çevresi (cm)
15.67±0.73
15.22±0.43
16.40±0.27
-
The difference between groups with different letters in the same column is significant. -: P>0.05 insignificant,. *: P<0.05, **: P<0.01, ***: P<0.001. Table 7. Various carcass parameters of lambs (cm) between the live weights of the lambs in the
groups since the birth periods of the lambs
were not close to each other and they were
at different ages. The end of fattening
weights in all three groups were higher than
the end of fattening weight (34.24 kg)
reported by Işık and Kaya (2011) at the end
of 90-day trial in their study on the
determination of fattening performance of
Tuj breed lambs grazing on pasture, and
higher than the end of fattening weight (38
kg) obtained in pasture fattening with Tuj
lambs weaned at Kars Experimental and
Breeding Station and weighing 19 kg on
average (Eliçin et al. 1988). This may be
due to the fact that the lambs used in the
studies were at different ages and had
different starting weights and the studies
were conducted as pasture fattening. In
some studies (İlaslan and Geliyi 1979,
Ulusan and Aksoy 1996), the live weights
determined with Tuj and Morkaraman
lambs during the pasture period were lower
than the results of this study. It can be said
that this may be due to the different ages and 4. Discussion In this study, rump,
arm and neck weight values reported in all
three groups were higher than the values of
rump weight (6.29, 6.36 and 6.47 kg), arm
weight (3.51, 3.66 and 3.75 kg) and neck
weight (1.52, 1.55 and 1.66 kg) reported by
Sarı et al. (2012) in pasture, pasture+200
and pasture+400 g groups in Tuj lambs. In
a study conducted in Tuj and Morkaraman
lambs
reared
under
semi-intensive
conditions (Kırmızıbayrak et al. 2003), the
rump weight (5.66 kg) of Tuj male lambs was similar to the group fed for 60 days,
while the values reported in the other two
groups were higher. The results were higher
than the values of arm weight (2.95 kg),
back-lumbar weight (2.61 kg) and MLD
cross-sectional area (9.84 cm2) determined
in the same study, while the values of thigh
weight (6.04 kg) reported in Morkaraman
breed male lambs were similar in the 75-day
group and arm weight (3.26 kg) was similar
in the 60-day group. In the same study,
back-lumbar weight (2.91 kg) and MLD
cross-sectional area (10.46 cm2) were lower
than
the
experimental
results. The
measurements of chest circumference,
anterior shank circumference, posterior
shank circumference, body length, body
height and chest depth of each group were
taken 3 times at the beginning, middle and
end of the experiment. In the 60-day
fattening group, the difference between the
groups
in
terms
of
anterior
shank
circumference at the middle and end of the
experiment
was
significant
(P<0.05,
P<0.01), while the differences found in
terms of different body measurements in
other periods were found to be insignificant
(P>0.05). Again, the differences between
the groups in terms of the front shank
circumference measurements taken in the
middle of the experiment in the 75 and 90
days fattening groups were significant
(P<0.05, P<0.01, respectively), while the
differences in the other periods were found
to be insignificant (P>0.05). The chest girth
measurements obtained at different periods
were higher than the values (44.57, 46.49,
57.52, 59.05, 68.67 cm) determined by
Akçapınar et al. (2002) at 45th and 90th
days in Karayaka and Bafra lambs and at
180th day in Karayaka under the conditions
of Lalahan Livestock Research Institute,
while the value reported for Bafra at 180th
day (71.83 cm) was similar to the value
reported at the beginning of the experiment
for all three groups. 4. Discussion The chest girth
measurements obtained at different periods
were higher than the values (44.57, 46.49,
57.52, 59.05, 68.67 cm) determined by
Akçapınar et al. (2002) at 45th and 90th
days in Karayaka and Bafra lambs and at
180th day in Karayaka under the conditions
of Lalahan Livestock Research Institute,
while the value reported for Bafra at 180th
day (71.83 cm) was similar to the value
reported at the beginning of the experiment
for all three groups. Again, the results of the
study were higher than the values (41.12,
42.67; 18.61, 19.72; 42.57, 44.27 cm)
determined at 45th day for Karayaka and
Bafra lambs in the same study in terms of MAS JAPS 8
weights of the lambs included in the
experiment. The differences between the
groups were found to be insignificant
(P>0.05) in terms of various slaughter
characteristics of lambs (skin, head, feet,
heart-lung, liver, spleen, kidney, testes,
stomach full and empty, small intestine full
and empty) except for the weights of large
intestine full and empty (P<0.05, P<0.01). This may be due to the fact that the growth
in the internal organs and extremities was
completed to a great extent when the age
and weight of the lambs at the beginning of
fattening were considered. In terms of
carcass parameters, rump, arm and loin
weights
were
5.23±0.58,
6.26±0.18,
7.11±0.38;
3.43±0.39,
4.27±0.24,
4.74±0.26
and
1.55±0.17,
2.14±0.30,
2.50±0.14,
respectively. While
the
differences between the groups were
significant (P<0.05) in terms of the related
traits, the differences between the groups
were found insignificant (P>0.05, Table 6)
in terms of other carcass parameters (back,
tail, rump and neck weight, MLD shell fat
thickness and MLD cross-sectional area). Among the carcass parameters expressed in
cm units in Table 7, the differences between
the groups were significant (P<0.05,
P<0.01, P<0.001) for body depth, rump
length II and rump circumference I, while
the differences were insignificant for the
other parameters (P>0.05, Table 7). The hot
carcass weight values reported in all three
fattening groups were higher than the hot
carcass weight values (20.66, 21.36 and
22.15 kg) reported by Sarı et al. (2012) in
pasture, pasture+200 and pasture+400 g
groups in Tuj lambs. 4. Discussion On days 0, 14, 28, 42, 56, 56, 70, 84 and
90, the mean body weights of lambs
belonging to the groups were 35.43±2.49, belonging to the groups were 35.43±2.49,
35.32±2.42,
35.32±2.42;
38.68±2.76,
38.51±2.53, 38.51±2.53; 40.77±2. 94,
40.22±2.60,
41.15±2.27;
43.37±3.05,
42.75±2.66, 43.11±2.48; 2nd and 3rd
groups
44.91±2.75,
44.91±2.75,
46.15±2.80,
46.48±2.51;
3rd
group
48.89±2.34 and 51.17±2.18 kg. The average
live weight of lambs in the three groups at
the beginning of the experiment was 35 kg. Slaughter weights of the three groups were
46.28±2.97,
47.32±2.04,
51.98±2.39,
respectively. While there was no significant
statistical difference between the groups in
terms of slaughter weight, hot carcass
weights were determined as 16.90±0.92,
18.83±0.93, 21.43±1.36 kg, respectively,
and the difference between the 1st and 2nd
groups was found significant (P<0.05). The
fact that there was no difference between
the groups in terms of slaughter weights is
thought to be due to the high variation 261 MAS JAPS 8(2): 256–264, 2023 56–264, 2023
was similar to the group fed for 60 days,
while the values reported in the other two
groups were higher. The results were higher
than the values of arm weight (2.95 kg),
back-lumbar weight (2.61 kg) and MLD
cross-sectional area (9.84 cm2) determined
in the same study, while the values of thigh
weight (6.04 kg) reported in Morkaraman
breed male lambs were similar in the 75-day
group and arm weight (3.26 kg) was similar
in the 60-day group. In the same study,
back-lumbar weight (2.91 kg) and MLD
cross-sectional area (10.46 cm2) were lower
than
the
experimental
results. The
measurements of chest circumference,
anterior shank circumference, posterior
shank circumference, body length, body
height and chest depth of each group were
taken 3 times at the beginning, middle and
end of the experiment. In the 60-day
fattening group, the difference between the
groups
in
terms
of
anterior
shank
circumference at the middle and end of the
experiment
was
significant
(P<0.05,
P<0.01), while the differences found in
terms of different body measurements in
other periods were found to be insignificant
(P>0.05). Again, the differences between
the groups in terms of the front shank
circumference measurements taken in the
middle of the experiment in the 75 and 90
days fattening groups were significant
(P<0.05, P<0.01, respectively), while the
differences in the other periods were found
to be insignificant (P>0.05). 4. Discussion Again, the results of the
study were higher than the values (41.12,
42 67; 18 61
19 72; 42 57
44 27 cm) weights of the lambs included in the
experiment. The differences between the
groups were found to be insignificant
(P>0.05) in terms of various slaughter
characteristics of lambs (skin, head, feet,
heart-lung, liver, spleen, kidney, testes,
stomach full and empty, small intestine full
and empty) except for the weights of large
intestine full and empty (P<0.05, P<0.01). This may be due to the fact that the growth
in the internal organs and extremities was
completed to a great extent when the age
and weight of the lambs at the beginning of
fattening were considered. In terms of
carcass parameters, rump, arm and loin
weights
were
5.23±0.58,
6.26±0.18,
7.11±0.38;
3.43±0.39,
4.27±0.24,
4.74±0.26
and
1.55±0.17,
2.14±0.30,
2.50±0.14,
respectively. While
the
differences between the groups were
significant (P<0.05) in terms of the related
traits, the differences between the groups
were found insignificant (P>0.05, Table 6)
in terms of other carcass parameters (back,
tail, rump and neck weight, MLD shell fat
thickness and MLD cross-sectional area). Among the carcass parameters expressed in
cm units in Table 7, the differences between
the groups were significant (P<0.05,
P<0.01, P<0.001) for body depth, rump
length II and rump circumference I, while
the differences were insignificant for the
other parameters (P>0.05, Table 7). The hot
carcass weight values reported in all three
fattening groups were higher than the hot
carcass weight values (20.66, 21.36 and
22.15 kg) reported by Sarı et al. (2012) in
pasture, pasture+200 and pasture+400 g
groups in Tuj lambs. In this study, rump,
arm and neck weight values reported in all
three groups were higher than the values of
rump weight (6.29, 6.36 and 6.47 kg), arm
weight (3.51, 3.66 and 3.75 kg) and neck
weight (1.52, 1.55 and 1.66 kg) reported by
Sarı et al. (2012) in pasture, pasture+200
and pasture+400 g groups in Tuj lambs. In
a study conducted in Tuj and Morkaraman
lambs
reared
under
semi-intensive 262 MAS JAPS 8(2): 256–264, 2023 Akçapınar, H., Ünal, N., Atasoy, F.,
Özbeyaz, C., Aytaç, M., 2002. Karayaka
ve Bafra (Sakız × Karayaka G1)
Koyunlarının
Lalahan
Hayvancılık
Araştırma Enstitüsü Şartlarına Uyum
Kabiliyeti. Lalahan
Hayvancılık
Araştırma Enstitüsü Dergisi, 42(1): 11-
24. body height, chest depth and body length
measurements. Funding This study was supported by the Scientific
Research Projects Coordinatorship of
Kafkas University (Project No: 2010-VF-
22) Colomer-Rocher, F., Morand-Fher, P.,
Kirton, A.H., Delfa, R., Sierra, I., 1988. Standard
methods
to
study
the
quantitative and qualitative carcass
characteristics in goat and sheep. Cuadernos INIA 17, 25. Declaration of Conflicts of Interest
All authors declare that there is no conflict
of interest related to this article. Aksoy,
A.R.,
1995. Farklı
kesim
ağırlıklarında morkaraman ve tuj erkek
kuzularının besi performansı kesim ve
karkas özellikleri. Ankara Üniversitesi
Veteriner Fakültesi Dergisi. 42(1): 15-
23. All authors declare that there is no conflict
of interest related to this article. Declaration of Author Contributions Declaration of Author Contributions
The authors declare that they have
contributed equally to the article. All
authors declare that they have seen/read and
approved the final version of the article
ready for publication. The authors declare that they have
contributed equally to the article. All
authors declare that they have seen/read and
approved the final version of the article
ready for publication. Aksoy, A.R., Kırmızıbayrak, T., Saatcı, M.,
Dalcı, M.T., 2001. Tuj Irkı koyunların
verim özellikleri. II. süt verimi ve yapağı
verimi. Veteriner Bilimleri Dergisi,
17(2): 123-126. Declaration of Conflicts of Interest
All authors declare that there is no conflict
of interest related to this article. 4. Discussion On the 180th day, the body
length (58.06 cm) determined for Bafra
sheep was similar to the values reported at
the beginning of the experiment for all three
groups, while it was found to be lower in
other periods. On the 90th day, the
measurements of chest girth, body length,
body length, chest depth (64.76, 52.34,
51.44, 23.89 cm) determined by Akçapınar
et al. (2001) in Sakız × Akkaraman F1s
were lower than the values obtained in
different periods in all three groups in the
experiment. As a result, the differences
between the various parameters obtained
during the experiment were not significant
except for the hot carcass, thigh, arm and
loin weights and front shank circumference. This is thought to be due to the high
variation in live weights among lambs at the
beginning of the experiment. Akçapınar, H., Atasoy, F., Ünal, N., Aytaç,
M.,
Aylanç,
A.,
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(Sakız×KarayakaG1) Kuzularda Besi ve
Karkas Özellikleri. Lalahan Hayvancılık
Araştırma Enstitüsü Şartlarına Uyum
Kabiliyeti. Lalahan
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Araştırma Enstitüsü Dergisi, 42(2) 19-
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H.:
Koyun
Yetiştiriciliği. Yenilenmiş 2. baskı, İsmat Matbaacılık,
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Characteristics of morbidity and mortality conferences associated with the implementation of patient safety improvement initiatives, an observational study
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© 2016 François et al. Open Access This article is distributed under the terms of the Creative Commons Attribution 4.0
International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and
reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to
the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver
(http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated. François et al. BMC Health Services Research (2016) 16:35
DOI 10.1186/s12913-016-1279-8 François et al. BMC Health Services Research (2016) 16:35
DOI 10.1186/s12913-016-1279-8 * Correspondence: pfrancois@chu-grenoble.fr
1Quality of Care Unit, University Hospital, and Research Unit, TIMC-IMAG
(UMR 5525 CNRS/UJF-Grenoble 1), Grenoble F-38043, France
Full list of author information is available at the end of the article Characteristics of morbidity and mortality
conferences associated with the
implementation of patient safety
improvement initiatives, an observational
study Patrice François1*, Frédéric Prate2, Gwenaëlle Vidal-Trecan3, Jean-François Quaranta2, José Labarere1
and Elodie Sellier1 Abstract Background: The aim of this study was to identify the characteristics of morbidity and mortality conferences
(MMCs) associated with the implementation of patient health-care quality and safety improvement initiatives. Methods: We conducted an observational study of MMCs and followed up improvement initiatives for 1 year. Data
on MMC baseline characteristics were abstracted using document analysis and observation of a meeting in three
university hospitals in France (Grenoble, Nice, and Cochin [Paris] hospitals). Fifty-nine MMCs were included in medical
(n = 24), surgical (n = 21), and anesthesiology and/or intensive care (n = 14) departments. An effectiveness index was
computed by summing a composite score for each initiative pertaining to the MMC. Results: Overall, 282 initiatives were identified in 42 MMCs. During the follow-up period, 215 initiatives (76 %) were
totally or partially implemented and the impact was evaluated for 73 (26 %). An effectiveness index higher than the
median (i.e., ≥10) was associated with a standardized presentation of cases (81 % versus 29 %, p <0.001), recording of
improvement initiatives (94 versus 57, p = 0.001), the existence of an annual activity report (94 % versus 68 %, p = 0.01),
the prior dissemination of a meeting agenda (71 % versus 36 %, p = 0.007), longer meeting duration (109 versus
80 min, p = 0.005), anesthesiology and/or intensive care specialty (39 % versus 7 %, p = 0.02), a theme-focused
MMC (29 % versus 4 %, p = 0.01), and a thorough analysis of failures (58 % versus 25 %, p = 0.01). Conclusions: This study suggests that the implementation of improvement initiatives relates to MCC
characteristics. Recommendations for developing more effective patient safety-oriented MMCs can be proposed. Conclusions: This study suggests that the implementation of improvement initiatives relates to MCC
characteristics. Recommendations for developing more effective patient safety-oriented MMCs can be proposed. Keywords: Morbidity and mortality conferences, Patient safety, Quality improvement, Hospital © 2016 François et al. Open Access This article is distributed under the terms of the Creative Commons Attribution 4.0
International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and
reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a lin Endpoint All MMCs established in the participating hospitals for
more than 1 year were eligible. They were identified by
researchers between September and December 2010. The purpose of the study was presented to the MMC
leaders and their consent was required for participation
in the study. All MMC leaders gave their informal oral
consent for document analysis and requested the oral
consent of MMC participants to accept the presence of
two observers at a meeting. In case of refusal from the
MMC leader and/or a participant, the MMC was not in-
cluded in the study. Data collected on the forms con-
tained no data directly or indirectly identifying patients
or healthcare professionals. Ethics review board (Direction
for
clinical
research,
Grenoble
university
hospital)
approval was not required for this observational study
because no personal data was collected [19, 20]. The main endpoint of the study was an effectiveness
index calculated for each department and based on the
number and completion of improvement initiatives. Each single initiative was scored according to four items
including designation of a person in charge of imple-
mentation (yes or no), definition of a timeline (yes or
no), completion (fully, partially, or not completed), and
evaluation of its impact (fully, partially, or not evalu-
ated). Completion was categorized as partially when a
part of the action plan was not achieved or when the
entire target population was not reached. The evaluation
was considered as partial if it was only an informal assess-
ment and was considered as complete if the impact of the
action was formally assessed by an indicator or audit. The
initiative score was obtained by summing the points for
each item (Table 1) and ranged from 0 to 6, with a higher
score denoting higher levels of completion and evaluation. Study design We conducted an observational study of MMC character-
istics with a prospective follow-up of improvement initia-
tives in three university hospitals in France (Grenoble,
Nice, and Cochin [Paris] hospitals). In each hospital, the
organization of MMCs was defined in a guideline and de-
partments could obtain methodological assistance from
the quality-assurance team. Background This observation may reflect the lack of
explicit goals, methods, and format for MMCs [3, 4, 15]. However, it is not known whether the characteristics of
MMCs are associated with effectiveness in healthcare qual-
ity and safety. Previous studies have reported conflicting
results regarding the impact of MMCs. Few single-center
studies found significant reductions in adverse events such
as ventilator-associated pneumonia rates or cardiac arrest
incidence [10, 16]. Other studies failed to show any im-
provement in patient clinical outcomes, [17, 18] probably
due to the low incidence of adverse events [18]. Another way to assess the effectiveness of MMCs is to
study their effect on care processes. Since changes in
practices are mediated by the improvement initiatives
that are decided on during the meetings, studying these
initiatives may help assess the effectiveness of the con-
ferences [8, 9, 11]. Additionally, two researchers independently observed a
meeting for each identified MMC, using a structured data
collection form (Additional files 3 and 4). They recorded
the types of participants, the format of presentations (use
of slides, chronological presentation of facts, literature re-
view), and the content of the discussion (investigation of
adverse events and underlying factors). Observers attended
two 4-h sessions together to standardize data collection
and coding, and coding instructions were written in a data
collection guide. The aim of this multicenter study was to investigate
the characteristics of MMCs and to find which of them
were associated with the number of improvement initia-
tives and their implementation. Methods
Study design All improvement initiatives identified by direct obser-
vation or document analysis were followed up for 1 year. They were categorized according to the International
Classification for Patient Safety [21]. At the end of the
study period, MMC leaders were asked whether the initia-
tives had been implemented and if their impact had been
evaluated. Two investigators independently reviewed the
documents to ascertain whether the improvement initia-
tives were actually implemented and evaluated. Background is basically an educational process and a training oppor-
tunity for residents [6, 7]. Furthermore, MMCs oriented
toward clinical risk management can help develop the
general competencies of those involved in practice-based
learning and improvement as well as a system-based
practice, mandated by the Accreditation Council for
Graduate Medical Education (ACGME) [4, 7–12]. Morbidity and mortality conferences (MMCs) were pri-
marily established as an educational tool for surgeons in
the United States [1]. Their use rapidly extended to
other specialties and countries. MMCs seek to analyze
medical errors and adverse events in order to improve
medical practices [2–5]. Identifying and analyzing errors Evidence is lacking on whether the MMC is an effective
tool for improving patient safety [12, 13]. Substantial vari-
ations exist in MMCs with regard to frequency, attend-
ance, case selection or presentation, analysis methods, and * Correspondence: pfrancois@chu-grenoble.fr
1Quality of Care Unit, University Hospital, and Research Unit, TIMC-IMAG
(UMR 5525 CNRS/UJF-Grenoble 1), Grenoble F-38043, France
Full list of author information is available at the end of the article François et al. BMC Health Services Research (2016) 16:35 Page 2 of 8 Page 2 of 8 Page 2 of 8 follow-up [13, 14]. This observation may reflect the lack of
explicit goals, methods, and format for MMCs [3, 4, 15]. However, it is not known whether the characteristics of
MMCs are associated with effectiveness in healthcare qual-
ity and safety. Previous studies have reported conflicting
results regarding the impact of MMCs. Few single-center
studies found significant reductions in adverse events such
as ventilator-associated pneumonia rates or cardiac arrest
incidence [10, 16]. Other studies failed to show any im-
provement in patient clinical outcomes, [17, 18] probably
due to the low incidence of adverse events [18]. MMC written documents produced during the year before
the inclusion date were analyzed. These documents included
the charter or the organizational procedure, all meeting re-
ports, the annual activity reports, and all documents related
to improvement initiatives decided in meetings. Data col-
lected included department specialty, documents tracing the
activity, number of meetings, number of cases presented,
and number of senior physicians, residents, nurses and other
paramedics who attended the meetings during the period
under study. Attendance rates were computed by dividing
the number of MMC attendants by the number of eligible
professionals in the department. follow-up [13, 14]. Data collection The effectiveness index of MMCs within a department
was obtained by summing the initiative scores related to
this department. The effectiveness index was higher In each center, data on MMC baseline characteristics were
abstracted from document analysis by two researchers with
the MMC leader present (Additional files 1 and 2). All François et al. BMC Health Services Research (2016) 16:35 Page 3 of 8 Page 3 of 8 Table 1 Items and scoringa system for improvement initiative
completion (N = 282)
Points
Number
Percent
Designation of person in charge
No
0
132
(46.8)
Yes
1
150
(53.2)
Definition of a timeline
No
0
185
(65.6)
Yes
1
97
(34.4)
Completion of action
None
0
67
(23.8)
Partial
1
28
(9.9)
Complete
2
187
(66.3)
Evaluation
None
0
209
(74.1)
Partial
1
38
(13.5)
Complete
2
35
(12.4)
aFor each improvement initiative, the score ranged from 0 to 6 Table 1 Items and scoringa system for improvement initiative
completion (N = 282) Table 1 Items and scoringa system for improvement initiative of four meetings per MMC (IQR, 3–7) were conducted
during the study period (Table 2). A median number of
18 cases were examined (IQR, 9–47), mostly deaths or
complications from a medical procedure. Senior physi-
cians and residents accounted for the vast majority of
MMC attendants. of four meetings per MMC (IQR, 3–7) were conducted
during the study period (Table 2). A median number of
18 cases were examined (IQR, 9–47), mostly deaths or
complications from a medical procedure. Senior physi-
cians and residents accounted for the vast majority of
MMC attendants. A meeting report was found for each meeting in 53
MMCs (90 %), whereas some meeting reports were lack-
ing in five MMCs and no meeting report was found in
one MMC. The improvement initiatives were recorded
for 45 MMCs (76 %). Direct observation of MMCs recorded 766 case presen-
tations, including 352 deaths (45.8 %), 405 complications
(52.7 %), and nine near-miss events. Senior physicians ex-
clusively presented the cases in 34 MMCs (58 %) (Table 3). In the vast majority of MMCs, the clinical facts were de-
scribed chronologically. In 13 MMCs (22 %), the presenter
reported information drawn from a literature review. The
discussion was centered on clinical practice (91 %) and
less frequently on organizational issues (49 %). Data collection Defects in
the patient’s care were sought in 54 MMCs (91 %) and
were thoroughly analyzed in 25 MMCs (42 %) with a when the initiatives were more numerous and more
thoroughly planned, implemented, and evaluated. Table 2 Baseline morbidity and mortality conference
characteristics abstracted from document analysis (n = 59) Table 2 Baseline morbidity and mortality conference
characteristics abstracted from document analysis (n = 59)
Center, n, (%)
Grenoble
29
(49.2)
Nice
21
(35.6)
Cochin
9
(15.3)
Specialty, n, (%)
Medicine
24
(40.7)
Surgery
21
(35.6)
Anesthesiology and intensive care
14
(23.7)
Documents, n, (%)
Written charter
53
(89.8)
Annual activity report
48
(81.4)
Nominative list of attendants
50
(84.7)
Meeting report for each meeting
53
(89.8)
Record of decided actions
45
(76.3)
Organization
Number of meetings during the year, median, [IQR]
4
[3─7]
Number of cases studied during the year,
median, [IQR]
18
[9─47]
Theme-focused MMC, n, (%)
10
(17.0)
Prior dissemination of meeting agenda, n, (%)
32
(54.2)
Professionals attending at least one meeting, %, [IQR]
Senior physicians
80
[60─100]
Residents
77
[55─100]
Head nurses
67
[0─100]
Nurses
8
[0─19] Statistical analysis MMC baseline characteristics were reported as numbers
and percentages for categorical variables, and median
and interquartile range (IQR) for continuous variables. The continuous variables, including the effectiveness
index, were dichotomized according to their median. In
univariate analysis, we examined the associations be-
tween the dichotomized effectiveness index and MMC
characteristics using the chi-square test or Fischer’s
exact test, when appropriate, for categorical variables,
the chi-square test for trend for ordered categorical vari-
ables, and the Kruskal-Wallis test for continuous vari-
ables. We performed multivariate logistic regression
analysis to estimate adjusted odds ratios for the charac-
teristics that were independently associated with the
dichotomized effectiveness index. Covariates were re-
moved from a full non-parsimonious model using a
backward approach with a p-value <0.10; p-values less
than 0.05 were considered statistically significant. In case
of multiple comparisons, the Bonferroni correction was
applied to calculate a corrected threshold αc. Analyses
were performed using Stata 11.0 (Stata Corp, College
Station, TX, USA). Results Organizational, equipment, and
patient factors accounted for 32.3, 8.5, and 7.1 % of im-
provement initiatives respectively
Table 3 Baseline morbidity and mortality conference
characteristics recorded by direct observation (n = 59)
Characteristics
Number
Percent
Function of the professional presenting the
cases, n, (%)
Senior physician
34
(57.6)
Resident
4
(6.8)
Both
21
(35.6)
Cases presentation, n, (%)
Standardized with use of slides
33
(55.9)
Chronological presentation of facts
54
(91.5)
Presentation of literature data
13
(22.0)
Topics of discussion, n, (%)
Clinical practice
54
(91.5)
Communication/organizational issues
29
(49.2)
Failures, n, (%)
Searched
54
(91.5)
Searched and thoroughly analyzed
25
(42.4)
Searched and analyzed using a structured
method
3
(5.1)
Monitoring of previous initiatives, n, (%)
8
(13.6)
Length of meeting (min), median, [IQR]
87
[60─120]
Table 4 Factors that contributed to an incident and were the
target of an improvement initiative decided during morbidity
and mortality conferences (N = 282)
Factors
Number
Percent
Staff
111
39.4
Training
32
11.3
Orientation
2
0.7
Supervision/assistance
4
1.4
Availability of checklists/protocols/policies
72
25.5
Adequate staff numbers/quality
1
0.4
Organizational/environmental
91
32.3
Matching physical environment to needs
8
2.8
Making arrangements for access to a service
17
6.0
Performing risk assessment/root cause analyses
2
0.7
Current code/specifications/regulations being met
9
3.2
Arranging ready access to protocols/policies/
decision aids
31
11.0
Improved leadership/guidance
22
7.8
Matching of staff to tasks/skills
1
0.4
Improving safety culture
1
0.4
Other
36
12.8
Recommending a new practice
9
3.2
Literature review
14
5.0
Study of clinical cohorts
8
2.8
Improved file/traceability
3
1.1
Declaration to risk management unit
2
0.7
Agent/equipment
24
8.5
Provision of equipment
20
7.1
Regular audits
4
1.4
Patient
20
7.1
Provision of adequate care/support
7
2.5
Provision of patient education/training
6
2.1
Provision of protocols/decision aid
6
2.1
Provision of medication dispensing aid
1
0.4 Table 4 Factors that contributed to an incident and were the
target of an improvement initiative decided during morbidity
and mortality conferences (N = 282)
Factors
Number
Percent
Staff
111
39.4
Training
32
11.3
Orientation
2
0.7
Supervision/assistance
4
1.4
Availability of checklists/protocols/policies
72
25.5
Adequate staff numbers/quality
1
0.4
Organizational/environmental
91
32.3
Matching physical environment to needs
8
2.8
Making arrangements for access to a service
17
6.0
Performing risk assessment/root cause analyses
2
0.7
Current code/specifications/regulations being met
9
3.2
Arranging ready access to protocols/policies/
decision aids
31
11.0
Improved leadership/guidance
22
7.8
Matching of staff to tasks/skills
1
0.4
Improving safety culture
1
0.4
Other
36
12.8
Recommending a new practice
9
3.2
Literature review
14
5.0
Study of clinical cohorts
8
2.8
Improved file/traceability
3
1.1
Declaration to risk management unit
2
0.7
Agent/equipment
24
8.5
Provision of equipment
20
7.1
Regular audits
4
1.4
Patient
20
7.1
Provision of adequate care/support
7
2.5
Provision of patient education/training
6
2.1
Provision of protocols/decision aid
6
2.1
Provision of medication dispensing aid
1
0.4 search for underlying factors. Results All solicited MMC leaders and participants agreed to
participate in the study. The study sample consisted of
59 MMCs, including 24 (40.7 %) in medical units, 21
(35.6
%)
in
surgical
units,
and
14
(23.7
%)
in
anesthesiology or intensive care units. A median number François et al. BMC Health Services Research (2016) 16:35 Page 4 of 8 Page 4 of 8 Table 3 Baseline morbidity and mortality conference
characteristics recorded by direct observation (n = 59)
Characteristics
Number
Percent
Function of the professional presenting the
cases, n, (%)
Senior physician
34
(57.6)
Resident
4
(6.8)
Both
21
(35.6)
Cases presentation, n, (%)
Standardized with use of slides
33
(55.9)
Chronological presentation of facts
54
(91.5)
Presentation of literature data
13
(22.0)
Topics of discussion, n, (%)
Clinical practice
54
(91.5)
Communication/organizational issues
29
(49.2)
Failures, n, (%)
Searched
54
(91.5)
Searched and thoroughly analyzed
25
(42.4)
Searched and analyzed using a structured
method
3
(5.1)
Monitoring of previous initiatives, n, (%)
8
(13.6)
Length of meeting (min), median, [IQR]
87
[60─120] search for underlying factors. This cause analysis was
based on a structured method in three MMCs (5 %). In
eight MMCs (14 %), the previously identified initiatives
were followed up at each subsequent meeting. A total of 282 improvement initiatives were identified in
MMCs in 42 departments during the study period, with a
median number of four initiatives per department (Table 4). Of these, 111 initiatives (39.4 %) targeted factors related to
the staff, with 72 aiming at developing or amending check-
lists, protocols, or policies. Results BMC Health Services Research (2016) 16:35 Page 5 of 8 Page 5 of 8 Table 5 Differences between the characteristics of morbidity and mortality conferences according to the level of the effectiveness
index Table 5 Differences between the characteristics of morbidity and mortality conferences according to the level of the effectiveness
d Table 5 Differences between the characteristics of morbidity and mortality conferences according to the level of the effectiveness y
y
g
index
Index <10
Index ≥10
p*
N = 28
N = 31
Center, n, (%)
0.14
Grenoble
17
(60.7)
12
(38.7)
Nice
9
(32.1)
12
(38.7)
Paris
2
(7.1)
7
(22.6)
Specialty, n, (%)
0.02
Medicine
14
(50.0)
10
(32.3)
Surgery
12
(42.9)
9
(29.0)
Anesthesia and intensive care
2
(7.1)
12
(38.7)
Formalization characteristics, n, (%)
Charter
23
(82.1)
30
(96.8)
0.08
Annual activity report
19
(67.9)
29
(93.5)
0.01
Nominative list of attendants
22
(78.6)
28
(90.3)
0.19
Meeting reports for each meeting
25
(89.3)
28
(90.3)
0.61
Record of decided actions
16
(57.1)
29
(93.5)
0.001
Organization
No. of meetings during the year, median, [IQR]
4
[3–7]
4
[3–7]
0.65
No. of cases, median, [IQR]
19
[8–60]
15
[10–29]
0.63
Theme focused MCC, n (%)
1
(3.6)
9
(29.0)
0.01
Prior dissemination of meeting agenda, n (%)
10
(35.7)
22
(71.0)
0.007
Monitoring of previous actions, n, (%)
1
(3.6)
7
(22.6)
0.04
Length of meeting (min), median, [IQR]
80
[50–90]
118
[60–120]
0.005
No. Results of professionals attending, %, [IQR]
Physicians, % [IQR]
82
[59–100]
80
[68–100]
0.83
Residents, % [IQR]
67
[60–100]
78
[50–100]
0.36
Head nurses, % [IQR]
60
[0–100]
75
[0–100]
0.79
Nurses, % [IQR]
2
[0–12]
9
[3–21]
0.06
Cases presentation and discussion
Standardized with use of visual support, n (%)
8
(28.6)
25
(80.6)
<0.001
Presentation of literature data, n (%)
1
(3.6)
12
(38.7)
0.001
Search of failures, n(%)
24
(85.7)
30
(96.8)
0.15
Thorough analysis of failure, n,(%)
7
(25.0)
18
(58.1)
0.01
Abbreviations: IQR interquartile range, MMC morbidity and mortality conference
*p-values must be interpreted with respect to the threshold αc = 0.002, adjusted by the Bonferroni method Abbreviations: IQR interquartile range, MMC morbidity and mortality conference
*p-values must be interpreted with respect to the threshold αc = 0.002, adjusted by the Bonferroni method interval, [1.66–5.04]) and recording of decisions for im-
provement initiatives (aOR = 3.31, 95 % CI, [1.54–7.1])
remained independently associated with a high effectiveness
index. We found that the effectiveness of MMCs, as reflected
by a composite index, was associated with the standard-
ized presentation of cases using visual aids. This finding
was consistent with previous studies reporting that
the use of a standard format or slides for case pre-
sentations enhanced the effectiveness of MMCs in
terms of participant satisfaction and production of
improvement initiatives [22, 23]. Results This cause analysis was
based on a structured method in three MMCs (5 %). In
eight MMCs (14 %), the previously identified initiatives
were followed up at each subsequent meeting. A total of 282 improvement initiatives were identified in
MMCs in 42 departments during the study period, with a
median number of four initiatives per department (Table 4). Of these, 111 initiatives (39.4 %) targeted factors related to
the staff, with 72 aiming at developing or amending check-
lists, protocols, or policies. Organizational, equipment, and
patient factors accounted for 32.3, 8.5, and 7.1 % of im-
provement initiatives, respectively. The median score for each improvement initiative
completion was 3 (IQR, 1–4). A person in charge was
designated for 150 (53.2 %) actions and a timeline was
defined for 97 (34.4 %) (Table 1). Overall, 215 initiatives
(76.2 %) were implemented either partially or fully and
their impact was evaluated for 73 (25.9 %). previously decided actions (p = 0.04), and theme-focused
MMCs (p = 0.01). The higher effectiveness index was also associated with
meeting characteristics: when the presentation of cases
was standardized with the use of visual aids (p < 0.001),
when the presentation included literature data (p = 0.001),
when failures were sought and thoroughly analyzed with
the search for causes of adverse events (p = 0.01). When
interpreting p-values with the threshold αc = 0.002, the
only features associated with the effectiveness of MMCs
were standardized presentation using visual aids and
recording of decisions for improvement initiatives. The median effectiveness index per MMC was 10
(IQR, 3–43). In univariate analysis, the MMCs with an
effectiveness index higher than the median were com-
pared with those having a lower index than the median
(Table 5). A higher effectiveness index was associated
with a higher prevalence of documents, in particular with
annual activity reports (p = 0.01) and with organizational
issues: longer duration of meetings (p = 0.005), prior dis-
semination of a meeting agenda (p = 0.007), monitoring of In multivariate analysis, a standardized presentation using
visual aids (adjusted odds ratio = 2.89, 95 % confidence François et al. Discussion In MMCs attended only by physicians,
the debate tends to focus on clinical questions and
medical practices, whereas in multidisciplinary MMCs,
organizational issues are more often discussed [27]. Eliciting input from all staff involved in patient care has
been described as essential to a high-quality investiga-
tion because the patient’s clinical course is thoroughly
overviewed [13, 18, 28]. A multidisciplinary approach
might also foster a culture of teamwork [1–3, 9, 11]. Above all, MMCs are a direct means to involve staff in
quality-improvement initiatives [10]. y
)
Other frequently reported changes relate to criteria for
selecting cases and monitoring improvement initiatives. The number and types of cases presented during MMCs
are extremely variable and affect the content of discus-
sions and outcomes of the MMC [5, 27]. Some authors
advocate a rapid analysis of all deaths and complications
because unexamined cases are missed opportunities to
identify failures [30, 31]. Others consider a detailed inves-
tigation of a limited number of adverse events to be more
effective to mitigating recurrent errors than a superficial
investigation of a large number [6, 12, 13]. Our study is
not contributive to this debate because we did not find
any association between the number of cases examined by
the MMC and the MMC’ index of effectiveness. In trad-
itional MMCs, a large proportion of the cases presented
were selected for their educational interest or potential
clinical teaching value and often lack root cause analysis
[11, 14, 17]. To guide MMCs toward patient safety, one
study recommended a change consisting in selecting the
cases on the basis of the potential for highlighting import-
ant healthcare system safety issues [8]. This selection is
usually made by a multidisciplinary committee or a mor-
tality review task force [9–11]. Planning and monitoring
the implementation of improvement initiatives are other
major issues. Depending on the context, this task is usu-
ally entrusted to specific working groups, an executive
board, a quality-improvement committee, or a perform-
ance improvement meeting [9, 11, 12, 26]. The depth of the analysis of adverse events appears to
be a key issue for MMC effectiveness. The thoroughness
of the analysis of root causes is contingent upon the use
of a method, time availability, and the involvement of all
stakeholders. This is rarely compatible with the format
of the traditional MMC. We observed that only three
MMCs used a structured method. Discussion This study indicates that MMCs may produce initiatives
for improving the quality and safety of care and that
most of these initiatives are actually implemented. How-
ever, this ability to initiate improvement actions varies
widely across MMCs. Other
MMC
baseline
characteristics
associated
with improvement initiatives were formalization and
organizational issues: production of annual activity François et al. BMC Health Services Research (2016) 16:35 Page 6 of 8 Page 6 of 8 reports, prior dissemination of a meeting agenda, recording
of improvement initiatives, longer meetings, and theme-
focused meetings. These characteristics imply a more for-
malized organization and a higher level of traceability. This
effort to formalize the meetings reflects the importance
given to this activity as well as a high level of organizational
culture consistent with the principles of quality improve-
ment [24]. The association of anesthesiology and intensive
care departments with a high effectiveness index is not sur-
prising because anesthesiology is recognized as one of the
safest clinical specialties and a leader in patient safety [25]. after the meeting, makes it possible to devote more time
to analysis and to meet all stakeholders involved in the
event who might not participate in the MMC. Associating
the effectiveness index with the organization of thematic
MMCs is also part of a detailed analysis. In these meet-
ings, the cases selected refer to the same issues. A more
focused discussion facilitates a more thorough analysis of
adverse events [6]. Certain authors noted that MMCs were missed oppor-
tunities for exploring systems contributing to medical
errors and adverse outcomes in patient care and for
implementing system changes [4, 5, 11]. System-based is-
sues are rarely identified in MMCs and the time devoted
to discussing interventions to improve patient care is
insufficient [5]. Various experiments, usually conducted at
a single hospital or department, have been designed to
change the format of MMCs to move toward patient
safety and enhancing residents’ ACGME competency in
systems-based practice. Most of these safety-oriented
MMCs include the aforementioned characteristics (i.e.,
multidisciplinary participation, standardized presentation,
and root cause analysis). p
p
y
This study fails to show a significant association be-
tween attendance of healthcare professionals and the ef-
fectiveness index of MMCs. However, many studies have
found that multidisciplinary MMCs were more oriented
toward the analysis of systemic causes of adverse events
and were more likely to implement improvement initia-
tives [9, 12, 26]. Authors’ contributions – Inviting all staff to participate in multidisciplinary
meetings; PF participated in the design of the work, in data analysis and drafted the
manuscript. FP: participated in the design of the work and revised the
manuscript for important intellectual content. GVT participated in the
design of the work and revised the manuscript for important intellectual
content. JFQ participated in the design of the work and revised the
manuscript for important intellectual content. JL participated in the data
analysis and interpretation and revised the manuscript for important
intellectual content. ES participated in the data analysis and interpretation and
drafted the manuscript. All authors approved the final version to be published
agreed to be accountable for all aspects of the work. – Selecting the cases presented based on their
potential for systemic improvement. This study had several limitations. First, the endpoint
of MMC effectiveness was not an objective measure of
improvement but an ad hoc index based on decision
making and completion of initiatives for improvement. Taking action does not guarantee the effectiveness of the
action but taking action is a step that can lead to im-
provement. We therefore considered, as other authors
have, that the completion of improvement initiatives
could be a reasonable surrogate endpoint for assessing
the effectiveness of MMCs [8, 9, 11]. Acknowledgments We acknowledge Linda Northrup for her assistance in editing the manuscript
in English. We acknowledge Linda Northrup for her assistance in editing the manuscript
in English. This study was supported by the French Ministry of Health: Projet de
Recherche en Qualité Hospitalière [25Preqhos10]. The French Ministry of
Health did not participate in design or conduct of the study; collection,
management, analysis, and interpretation of the data; or in preparation,
review, or approval of the manuscript. Second, the results from our multivariable logistic
regression analysis should be interpreted with caution
because the relatively limited number of observations
compared with the large number of independent variables
may lead to overfitting. Colinearity between independent
variables might explain why unadjusted associations did
not remain significant in multivariable analysis. Discussion This observation was
in accordance with Aboumatar et al., who reported that
only one team used a structured method for incident
analysis in 12 MMCs at Johns Hopkins Hospital [13]. In experiments intended to guide MMCs toward pa-
tient safety, one of the main changes is to facilitate root
cause analysis of events in order to promote system
changes [11, 12]. Most often, this is done using a formal
method of analysis derived from Ichikawa’s fishbone dia-
gram [4, 11, 26] or from the protocol of the Association of
Litigation and Risk Management (ALARM) [10, 12, 29]. In many cases, the investigation was conducted outside
and before the meeting in which the case was discussed
[4, 10, 12, 23]. Depending on the study, the case selected
for analysis was assigned to a resident or fellow for in-
vestigation within a framework called a “systems audit,”
[4] “learning from the defect tool,” [12] “audit-based
program,” [10] or “assessment tool.” [23] The time
spent on this task is estimated at 35 h [4]. The
externalization of adverse event investigation, before or The present study’s results, as well as published evi-
dence, do not clearly identify an ideal format for MMCs. However, we can formulate a number of recommenda-
tions for care safety-oriented MMCs: François et al. BMC Health Services Research (2016) 16:35 Page 7 of 8 Page 7 of 8 – Clearly defining the goals of the MMC and its
functioning in a charter; References 1. Kravet SJ, Howell E, Wright SM. Morbidity and mortality conference, grand
rounds, and the ACGME’s core competencies. J Gen Intern Med. 2006;
21(11):1192–4. 1. Kravet SJ, Howell E, Wright SM. Morbidity and mortality conference, grand
rounds, and the ACGME’s core competencies. J Gen Intern Med. 2006;
21(11):1192–4. 2. Szekendi MK, Barnard C, Creamer J, Noskin GA. Using patient safety morbidity
and mortality conferences to promote transparency and a culture of safety. Jt Comm J Qual Patient Saf. 2010;36(1):3–9. 3. Ksouri H, Balanant PY, Tadie JM, Heraud G, Abboud I, Lerolle N, et al. Impact of
morbidity and mortality conferences on analysis of mortality and critical events
in intensive care practice. Am J Crit Care. 2010;19(2):135–45. quiz 146. Additional files Additional file 1: Analyse documentaire. (DOC 105 kb)
Additional file 2: Document analysis. (DOCX 22 kb)
Additional file 3: Observation d'une réunion. (DOC 81 kb)
Additional file 4: Observation of MMC meeting. (DOCX 23 kb) Additional file 1: Analyse documentaire. (DOC 105 kb)
Additional file 2: Document analysis. (DOCX 22 kb)
Additional file 3: Observation d'une réunion. (DOC 81 kb)
Additional file 4: Observation of MMC meeting. (DOCX 23 kb) Additional file 1: Analyse documentaire. (DOC 105 kb)
Additional file 2: Document analysis. (DOCX 22 kb)
Additional file 3: Observation d'une réunion. (DOC 81 kb)
Additional file 4: Observation of MMC meeting. (DOCX 23 kb) – Formalizing and tracking the activity of MMCs in
meeting and annual reports; – Using a standardized format and visual aids for case
presentation; p
– Analyzing the root causes of failures, using a
structured method; The authors declare that they have no competing interest. The authors declare that they have no competing interest. Author details
1 1Quality of Care Unit, University Hospital, and Research Unit, TIMC-IMAG
(UMR 5525 CNRS/UJF-Grenoble 1), Grenoble F-38043, France. 2Public Health
Department, University Hospital, Nice F-06003, France. 3Public Health Unit:
Risk Management and Quality of Care, Paris Centre University Hospital Group,
AP-HP, and Research Unit, (INSERM U738), Paris Descartes University,
Sorbonne Paris cite, Paris F- 75014, France. Received: 7 January 2015 Accepted: 22 January 2016 Received: 7 January 2015 Accepted: 22 January 2016 Third, this study was conducted in three university
hospitals in France wherein the development of MMCs
is rather recent (i.e., dating from the 1990s) and the par-
ticipation in MMCs is not required in the medical train-
ing curriculum. Hence, these findings may not apply to
other settings or countries. Competing interests – Organizing the follow-up of actions for
improvement; Conclusions Morbidity and mortality conference: a survey of
academic internal medicine departments. J Gen Intern Med. 2003;18(8):656–8. 15. Orlander JD, Barber TW, Fincke BG. The morbidity and mortality conference:
the delicate nature of learning from error. Acad Med. 2002;77(10):1001–6. 16. Nolan SW, Burkard JF, Clark MJ, Davidson JE, Agan DL. Effect of morbidity
and mortality peer review on nurse accountability and ventilator-associated
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mortality reduce complication rates in neurosurgery? Acta Neurochir. 2010;
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years of mortality and morbidity conferences in a hospital gastrointestinal
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and observational studies in medical research: various rules in a common
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an International Classification for Patient Safety: the conceptual framework. Int J Qual Health Care. 2009;21(1):2–8. 22. Kim MJ, Fleming FJ, Peters JH, Salloum RM, Monson JR, Eghbali ME. Improvement in educational effectiveness of morbidity and mortality
conferences with structured presentation and analysis of complications. J Surg Educ. 2010;67(6):400–5. 23. Mitchell EL, Lee DY, Arora S, Kenney-Moore P, Liem TK, Landry GJ, et al. Improving the quality of the surgical morbidity and mortality conference:
a prospective intervention study. Acad Med. 2013;88(6):824–30. 24. Pelieu I, Djadi-Prat J, Consoli SM, Cariou A, Guidet B, You-Harada C, et al. Impact of organizational culture on preventability assessment of selected
adverse events in the ICU: evaluation of morbidity and mortality conferences. Intensive Care Med. 2013;39(7):1214–20. 25. Staender SE, Mahajan RP. Anesthesia and patient safety: have we reached
our limits? Curr Opin Anaesthesiol. 2011;24(3):349–53. 26. Schwarz D, Schwarz R, Gauchan B, Andrews J, Sharma R, Karelas G, et al. Implementing a systems-oriented morbidity and mortality conference in
remote rural Nepal for quality improvement. BMJ Qual Saf. 2011;20(12):1082–8 27. Sellier E, David-Tchouda S, Bal G, Francois P. François et al. BMC Health Services Research (2016) 16:35 Conclusions This study demonstrates substantial variations in MMC
characteristics, which may relate to their effectiveness
in improving patient safety. The framework of MMCs
is highly flexible, which is a cause of MMC variability. However, this flexibility enables each team to adapt the
MMC format to its objectives and constraints, which
may contribute to the involvement of physicians. It is
tempting to rely on MMCs to involve healthcare pro-
viders in patient safety management, but this goal
requires revising the functioning of MMCs to establish
a more rigorous methodological framework and to
guide MMCs toward the identification, analysis, and
prevention of adverse events. 4. Szostek JH, Wieland ML, Loertscher LL, Nelson DR, Wittich CM, McDonald
FS, et al. A systems approach to morbidity and mortality conference. Am J Med. 2010;123(7):663–8. 5. Pierluissi E, Fischer MA, Campbell AR, Landefeld CS. Discussion of medical
errors in morbidity and mortality conferences. JAMA. 2003;290(21):2838–42. 6. Gore DC. National survey of surgical morbidity and mortality conferences. Am J Surg. 2006;191(5):708–14. 9. Kauffmann RM, Landman MP, Shelton J, Dmochowski RR, Bledsoe SH,
Hickson GB, et al. The use of a multidisciplinary morbidity and mortality
conference to incorporate ACGME general competencies. J Surg Educ. 2011;
68(4):303–8. Page 8 of 8 Page 8 of 8 François et al. BMC Health Services Research (2016) 16:35 10. Kirschenbaum L, Kurtz S, Astiz M. Improved clinical outcomes combining
house staff self-assessment with an audit-based quality improvement
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Transforming the Morbidity and Mortality Conference into an Instrument
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morbidity and mortality conferences. Am J Med Qual. 2009;24(3):192–5. 12. Berenholtz SM, Hartsell TL, Pronovost PJ. Learning from defects to enhance
morbidity and mortality conferences. Am J Med Qual. 2009;24(3):192–5. 13. Aboumatar HJ, Blackledge CG, Dickson C, Heitmiller E, Freischlag J, Pronovost
PJ. A descriptive study of morbidity and mortality conferences and their
conformity to medical incident analysis models: results of the morbidity
and mortality conference improvement study, phase 1. Am J Med Qual. 2007;22(4):232–8. 14. Orlander JD, Fincke BG. Conclusions Morbidity and mortality
conferences: their place in quality assessments. Int J Health Care Qual
Assur. 2012;25(3):189–96. 28. Kim C, Fetters MD, Gorenflo DW. Residency education through the family
medicine morbidity and mortality conference. Fam Med. 2006;38(8):550–5. Submit your next manuscript to BioMed Central
and we will help you at every step: Submit your next manuscript to BioMed Central
and we will help you at every step: 29. Vincent C, Taylor-Adams S, Chapman EJ, Hewett D, Prior S, Strange P, et al. How
to investigate and analyse clinical incidents: clinical risk unit and association of
litigation and risk management protocol. BMJ. 2000;320(7237):777–81. • We accept pre-submission inquiries
• Our selector tool helps you to find the most relevant journal
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a d
e
e p you at e e y step: 30. Murayama KM, Derossis AM, DaRosa DA, Sherman HB, Fryer JP. A critical
evaluation of the morbidity and mortality conference. Am J Surg. 2002;
183(3):246–50. 31. Hutter MM, Rowell KS, Devaney LA, Sokal SM, Warshaw AL, Abbott WM, et
al. Identification of surgical complications and deaths: an assessment of the
traditional surgical morbidity and mortality conference compared with the
American College of Surgeons-National Surgical Quality Improvement
Program. J Am Coll Surg. 2006;203(5):618–24.
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Hamiltonian structure of 2D fluid dynamics with broken parity
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SciPost physics
| 2,023
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cc-by
| 12,746
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Gustavo Machado Monteiro1⋆, Alexander G. Abanov2,3 and Sriram Ganeshan1,4 1 Department of Physics, City College, City University of New York,
New York, NY 10031, USA
2 Simons Center for Geometry and Physics, Stony Brook, NY 11794, USA
3 Department of Physics and Astronomy, Stony Brook University,
Stony Brook, NY 11794, USA
4 CUNY Graduate Center, New York, NY 10031, USA ⋆gmachadomonteiro@ccny.cuny.edu Isotropic fluids in two spatial dimensions can break parity symmetry and sustain
transverse stresses which do not lead to dissipation. Corresponding transport coeffi-
cients include odd viscosity, odd torque, and odd pressure. We consider an isotropic
Galilean invariant fluid dynamics in the adiabatic regime with momentum and parti-
cle density conservation. We find conditions on transport coefficients that correspond
to dissipationless and separately to Hamiltonian fluid dynamics. The restriction on the
transport coefficients will help identify what kind of hydrodynamics can be obtained by
coarse-graining a microscopic Hamiltonian system. Interestingly, not all parity-breaking
transport coefficients lead to energy conservation and, generally, the fluid dynamics is
energy conserving but not Hamiltonian. We show how this dynamics can be realized by
imposing a nonholonomic constraint on the Hamiltonian system. Received 17-08-2021
Accepted 15-02-2023
Published 10-05-2023
Check for
updates
doi:10.21468/SciPostPhys.14.5.103 Copyright G. Machado Monteiro et al. This work is licensed under the Creative Commons
Attribution 4.0 International License. Published by the SciPost Foundation. SciPost Phys. 14, 103 (2023) 1
Introduction In fluid dynamics, viscosities appear as transport coefficients in the first-order derivative ex-
pansion of the stress tensor. Viscosity terms preserve both mass and momentum conservation
laws but usually spoil the energy conservation due to their dissipative nature. For example,
shear viscosity (η) introduces friction between adjacent fluid layers that do not flow with the
same velocity, whereas the bulk viscosity (ζ) provides resistance to compression or expansion
of the fluid. In two spatial dimensions, there exist viscosity coefficients within the first-order hydrody-
namics that break parity symmetry and preserve both the fluid isotropy and energy conser-
vation. Odd viscosity (ηH) is undoubtedly the most famous of the parity-breaking viscosity
terms, first showing up in the study of plasma physics [1] and later on as a new quantized re-
sponse in quantum Hall systems [2]. It was introduced in the hydrodynamic context by Avron
in [3] and was recently experimentally observed in both electron fluids [4] and active matter
systems [5]. In quantum Hall systems, the odd viscosity is associated with the intrinsic angular momen-
tum density of the electron fluid [6–8]. In classical systems, the intrinsic angular momentum
density (ℓ) is an independent dynamical variable with its own continuity equation. On the
other hand, odd viscosity is a transport coefficient, that is, a function of density and tempera-
ture. If we initialize ℓto be proportional to density, this relationship is preserved for all times
since both quantities satisfy similar continuity equations (in the absence of internal torque). This class of initial conditions with ℓ∝ρ corresponds to a projected Hamiltonian system. In
general, such a projection need not lead to a new Hamiltonian system. However, ℓ∝ρ does
not spoil the underlying Poisson algebra as shown in Ref. [9]. Together with a velocity re-
definition [8], this projection gives rise to odd viscosity terms in the momentum conservation
equation. Physically, this projection (ℓ∝ρ) can be realized in systems where fluid intrinsic
angular momentum equilibrates much faster than the other hydrodynamic quantities [10]. Recently, it was shown in Ref. [11] that odd viscosity could also arise in the equation of
motion from a non-Hamiltonian reduction of the intrinsic angular momentum ℓ. For that, the
authors introduced dissipative terms and an external drive to a Hamiltonian system. The out-
of-equilibrium dynamics leads to the relaxation of the fluid intrinsic angular momentum, giving
rise to the odd viscosity term in the Navier-Stokes equation. Contents 1
Introduction
2
2
Energy conservation in 2D fluid dynamics
3
3
Hamiltonian fluid dynamics in two dimensions
6
3.1
Hamiltonian structure of zeroth-order hydrodynamics
6
3.2
Modification of brackets for the first-order hydrodynamics
7
3.3
Constraints imposed by Jacobi identity
8
3.4
Conditions for Hamiltonian hydrodynamics
9
3.5
Generalized Hamiltonian hydrodynamics
10
4
Energy conservation and nonholonomic constraints
12
5
Discussion and conclusions
14
A
Conditions for energy conservation
16
A.1
Case I: G′(ρ) = 0
18
A.2
Case II: G′(ρ) ̸= 0
18
1 1
Introduction
2
2
Energy conservation in 2D fluid dynamics
3
3
Hamiltonian fluid dynamics in two dimensions
6
3.1
Hamiltonian structure of zeroth-order hydrodynamics
6
3.2
Modification of brackets for the first-order hydrodynamics
7
3.3
Constraints imposed by Jacobi identity
8
3.4
Conditions for Hamiltonian hydrodynamics
9
3.5
Generalized Hamiltonian hydrodynamics
10
4
Energy conservation and nonholonomic constraints
12
5
Discussion and conclusions
14
A
Conditions for energy conservation
16
A.1
Case I: G′(ρ) = 0
18
A.2
Case II: G′(ρ) ̸= 0
18
1 SciPost Phys. 14, 103 (2023) B
Condition to satisfy the Jacobi identity
References B
Condition to satisfy the Jacobi identity 22 1
Introduction We discuss the projection
of the intrinsic angular momentum to a function of mass density and the breakdown of the
Hamiltonian system from the point of view of nonholonomic constraints.i ing heat transport.1 There are in total 6 independent viscosity coefficients which preserve fluid
isotropy and satisfy Galilean symmetry in two dimensions. Half of these transport coefficients
are even under parity symmetry, and the other half is parity odd.2 In general, parity-violating
forces are transverse to the fluid motion and perform no work. Therefore, such terms are
expected not to dissipate energy. However, it is not apparent whether a 2D hydrodynamical
system with parity-odd coefficients possesses conserved energy in general. In addition, even
if the conserved energy exists, it is not obvious that the corresponding system is Hamiltonian. This paper is organized as follows: we begin by defining our hydrodynamic system in Sec 2
and present the conditions for the fluid energy to be conserved. In Sec. 3, we derive under
which conditions the aforementioned energy-conserving systems are Hamiltonian. In Sec. 4,
we study the connection between dynamical intrinsic angular momentum and odd viscosity
as well as its implications towards non-Hamiltonian systems with conserved energy density. We close the paper with conclusions and discussions. Some technical details are relegated to
appendices. 2Throughout this paper, we denote parity-breaking terms with a subscript H. 1Adiabatic conditions are satisfied when the fluid contracts or expands so fast that there is no time to exchange
heat between its adjacent layers. The adiabaticity ensures that energy conservation follows directly from mass and
momentum conservation laws. 2Throughout this paper, we denote parity-breaking terms with a subscript H. 1
Introduction The non-Hamiltonian projection
in Ref. [11], odd viscosity is a linear function of the mass density, but it depends explicitly
on the external drive. Although Refs. [9–11] describe different physical systems, all of them
obtain odd viscosity through relaxation of the intrinsic angular momentum. However, odd
viscosity is not the only parity odd coefficient in two dimensions and it is not a priori clear if
some or all of these other coefficients can be obtained starting from a microscopic Hamiltonian
system. In fact, the identification of Hamiltonian systems provides a benchmark for idealized
dissipationless systems about which the dissipative contributions can be introduced.i In this work, we start from the most general first-order hydrodynamic equations of motion
and derive under which conditions the density dependent viscosity coefficients can be derived
from a Hamiltonian system. Throughout the paper, we only consider adiabatic flows, neglect- 2 SciPost Phys. 14, 103 (2023) ing heat transport.1 There are in total 6 independent viscosity coefficients which preserve fluid
isotropy and satisfy Galilean symmetry in two dimensions. Half of these transport coefficients
are even under parity symmetry, and the other half is parity odd.2 In general, parity-violating
forces are transverse to the fluid motion and perform no work. Therefore, such terms are
expected not to dissipate energy. However, it is not apparent whether a 2D hydrodynamical
system with parity-odd coefficients possesses conserved energy in general. In addition, even
if the conserved energy exists, it is not obvious that the corresponding system is Hamiltonian. We show that not all parity-breaking transport coefficients amount to energy conservation. For a hydrodynamic system whose energy is conserved, we derive sufficient conditions on the
transport coefficients for the system to be Hamiltonian. As a consequence, we obtain that
an energy-conserving hydrodynamic system is Hamiltonian if there exists a conserved quan-
tity, ρvi + εi j∂jηH, which satisfies the diffeomorphism algebra. This quantity is associated
with the “molecular” center-of-mass momentum density, as pointed out in [11]. The energy-
conserving cases that fail to be Hamiltonian systems are closely related to projections of the
intrinsic angular momentum incompatible with the Poisson algebra. 2
Energy conservation in 2D fluid dynamics The relation between pressure and mass density for adiabatic flows gives us
the equation of state, (4) p(ρ) = ρ ϵ′(ρ) −ϵ(ρ),
(4) where ϵ(ρ) is the internal energy density of the fluid.il where ϵ(ρ) is the internal energy density of the fluid.ili In first-order hydrodynamics, the fluid velocity cannot be uniquely defined, leading to
different hydrodynamic frames [12–15]. Even though hydrodynamic equations depend on the
specific parametrization of momentum density in terms of the fluid velocity, the momentum
conservation must not rely on any particular definition of the fluid velocity. In this work, we
define the fluid velocity such that the momentum density is expressed as ρvi. Equations (1, 2)
must be invariant under the Galilean symmetry, that is, t →t ,
xi →xi −Vi t ,
and
vi →vi + Vi , t →t ,
xi →xi −Vi t ,
and
vi →vi + Vi , for a constant boost velocity Vi. Consequently, the divergence of the stress tensor must be
invariant under this Galilean symmetry; that is, the force must be independent of the boost
velocity. Moreover, this also implies that the mass current can only differ from the momen-
tum density by some “magnetization current”, which does not modify the equations of mo-
tion (1, 2). The isotropic condition imposes that there are only 6 independent viscosity coefficients
two dimensions, that is, ηi jkl = η
δikδjl + δilδjk −δi jδkl
+ ζδi jδkl + Γ εi jεkl
+ ηH
εikδjl + εjlδik
+ ζH δi jεkl + ΓHεi jδkl . (5) (5) Here and in the following, we suppress the dependence of all coefficients on density using the
notation η(ρ) →η, etc. As previously mentioned, η, ζ, and ηH are shear, bulk, and odd viscosities, respectively. The quantity ζH is the odd pressure coefficient, Γ is the rotational viscosity, and we refer
to the ΓH term as the odd torque coefficient. Rotational viscosity gives rise to torque when
the fluid vorticity is non-zero, and the odd pressure coefficient generates pressure when fluid
vorticity does not vanish. Finally, the odd torque coefficient ΓH generates torque when the
fluid expands or compresses.3 A close inspection of Eqs. (3) and (5) shows that there is a symmetry among transport
coefficients that leaves Eq. (2) invariant. 3For a hydrodynamic system without any internal torque, the stress tensor must be symmetric, which imposes
that Γ = ΓH = 0. 2
Energy conservation in 2D fluid dynamics Hydrodynamic equations consist of local conservation laws for mass and momentum, assuming
all other relevant quantities are equilibrated. These equations are supplemented by constitu-
tive relations between the conserved quantities. The presence of a finite mean-free-path and
a finite characteristic relaxation time of the interacting system modify the dynamics at small
length scales and at transient times, giving rise to derivative corrections in these constitutive
relations. This means that constitutive relations can be formally written as an expansion in
derivatives, both in time and space, and the hydrodynamic equations are obtained by trun-
cating this series at some particular order. In non-relativistic hydrodynamics, spatial and time
derivatives do not scale the same way, and only terms with a single spatial derivative enter in
the constitutive relations in the first-order derivative expansion. Mass (the continuity equa-
tion) and momentum conservation can be written in terms of the mass density (ρ) and velocity
(vi) as (vi) as ∂tρ + ∂i(ρvi) = 0,
(1)
∂t vj + vi∂ivj = 1
ρ ∂iTi j . (2) (1) (2) Here, the stress tensor Ti j is of first-order in spatial gradients and is given by Ti j = −p(ρ)δi j + ηi jkl(ρ)∂kvl ,
(3) (3) Ti j = −p(ρ)δi j + ηi jkl(ρ)∂kvl , 1Adiabatic conditions are satisfied when the fluid contracts or expands so fast that there is no time to exchange
heat between its adjacent layers. The adiabaticity ensures that energy conservation follows directly from mass and
momentum conservation laws. 1Adiabatic conditions are satisfied when the fluid contracts or expands so fast that there is no time to exchange
heat between its adjacent layers. The adiabaticity ensures that energy conservation follows directly from mass and
momentum conservation laws. 3 SciPost Phys. 14, 103 (2023) where ηi jkl is the viscosity tensor. In principle, all transport coefficients must be functions of
density and temperature, however, for adiabatic flows, temperature can be expressed in terms
of fluid density. The relation between pressure and mass density for adiabatic flows gives us
the equation of state, where ηi jkl is the viscosity tensor. In principle, all transport coefficients must be functions of
density and temperature, however, for adiabatic flows, temperature can be expressed in terms
of fluid density. 2
Energy conservation in 2D fluid dynamics Indeed, under the transformation η →η + c1 ,
ζ →ζ −c1 ,
Γ →Γ −c1 ,
(6)
ηH →ηH + c2 ,
ζH →ζH −c2 ,
ΓH →ΓH + c2 ,
(7) (6)
(7) (6) (7) with two arbitrary constants c1 and c2, we obtain ∂iTi j →∂i[Ti j + 2∂∗
i
c1 v∗
j + c2 vj
] = ∂iTi j . (8) (8) Here and in the following, we define the star operation as a∗
i ≡εi jaj. Since we are only
interested in equations of motion and not in a particular form of the stress tensor, we will
ignore these redundancies for the rest of this work. The particular form of the stress tensor,
however, is crucial for the free surface problems for which a no-stress boundary condition is
imposed [16]. 4 SciPost Phys. 14, 103 (2023) For reasons that will be clear later, it is convenient to parametrize the parity-breaking part
of Eq. (5), i.e. viscosity coefficients with subscript H, as ηH
i jkl = ¯ηi jkl −ρG′δi jεkl . (9) (9) Here we have introduced the tensor ¯ηi jkl = ηH
εikδjl + εjlδik
+ ΓH
εi jδkl −δi jεkl
,
(10) (10) which is anti-symmetric with respect to the interchange of following pairs of indices ¯ηi jkl = −¯ηkli j . (11) (11) Comparing (5) with (9,10), we see that the newly introduced function G(ρ) is related to ζH by omparing (5) with (9,10), we see that the newly introduced function G(ρ) is related to ζH by ζH = −ΓH −ρG′ . (12) (12) In order to study the Hamiltonian structure of Eqs. (1-3,5) the first step is to obtain under
which conditions these equations allow for a third conserved quantity, namely, energy. We are
looking for a conserved energy density E satisfying ∂tE + ∂iQi = 0 ,
(13) (13) with some local energy current Qi. To be consistent with zeroth-order hydrodynamics, that is,
ηi jkl →0, the energy density should have the form E = 1
2ρv2
i + ϵ(ρ) + ... ,
(14) (14) where dots denote terms of higher order in spatial gradients of density and velocity fields. Here and in the following, we use v2
i instead of vivi to shorten up the notation. where dots denote terms of higher order in spatial gradients of density and velocity fields. 2
Energy conservation in 2D fluid dynamics Here and in the following, we use v2
i instead of vivi to shorten up the notation. i
We now state the general condition (up to the redundancies (6-8) in the stress tensor) for
the energy conservation while leaving the full details of the calculation to the Appendix A. Statement I. The energy of a hydrodynamic system described by Eqs. (1-5) is only conserved
when the parity-preserving viscosity coefficients vanish, that is, η = ζ = Γ = 0, and when the
parity-breaking viscosity coefficients satisfy one of the following two conditions ase 1: For ηH(ρ) and ΓH(ρ) arbitrary and Case 1: For ηH(ρ) and ΓH(ρ) arbitrary and G = 0. Case 2: For an arbitrary function G(ρ) and an arbitrary constant parameter c, along with Case 2: For an arbitrary function G(ρ) and an arbitrary constant parameter c, along with ηH
=
cG ,
ΓH
=
c(G −2ρG′). From Eq. (12), we obtain that ζH = −ΓH in the first case and ζH = −c(G −2ρG′) −ρG′ in
the second one. The conserved energy density in both cases can be generically written as E = 1
2ρv2
i + ϵ + vi∂∗
i G + c
ρ (∂iG)2 . (15) (15) Note that when G = 0 (Case 1), the energy density has the same functional form as in the
inviscid case. Note that when G = 0 (Case 1), the energy density has the same functional form as in the
inviscid case. 5 SciPost Phys. 14, 103 (2023) The dissipative nature of viscosities η,ζ,Γ is well known. It is not known however that an
arbitrary choice of odd viscosities ηH,ζH,ΓH may not lead to dissipationless fluid dynamics. The energy density equation can be deduced from Eqs. (1-3) and can be written as ∂t
ϵ + 1
2ρv2
i
+ ∂i
ϵ′ + 1
2 v2
j
ρvi −ηi jkl vj∂kvl
= −ηi jkl∂ivj∂kvl . (16) (16) In Case 1, the viscosity tensor is given by ¯ηi jkl which forces the right hand side of (16) to
vanish due to the antisymmetry property (11), leading to conserved energy density. The second condition of Statement I is more subtle, and we refer the reader to Appendix A
for details. For the particular case of c = 0, the only nonvanishing viscosity coefficient is
ζH = −ρG′. 2
Energy conservation in 2D fluid dynamics For this particular case, the corresponding stress is diagonal and can be consid-
ered a modification of the pressure term in the Euler equation so that p →p −ζHω. Here
ω = ∂1v2 −∂2v1 is the fluid vorticity.l In the next section, we will address when the energy-conserving fluid dynamics described
in Statement I can be endowed with the Hamiltonian structure. 3
Hamiltonian fluid dynamics in two dimensions A fluid dynamic system is Hamiltonian if its hydrodynamic equations can be generated by
a Hamiltonian function (total energy of the fluid) and a set of Poisson brackets. In other
words, both mass and momentum conservation laws can be written as Hamilton’s equations. We often refer to the Hamiltonian function together with the Poisson algebra as the Hamil-
tonian structure. In contrast to the standard textbook examples, here we have both the
Hamiltonian, i.e. the integrated energy density of the fluid (Eq. (15)) and the equations of
motion (Eqs. (1-3)) together with the conditions of Statement I. Our goal is to derive, when it
exists, the Poisson algebra for these systems. As a result of our analysis, we show that not all
cases in Statement I can possess Hamiltonian structure. It is worth to note that the Hamiltonian function need not always be the total energy of
system, however we do not consider this possibility in this work. We aim to recover the ideal
fluid structure, in the limit of vanishing viscosity coefficients. In addition to that, we only
consider local deformations of the ideal fluid Poisson algebra here. 3.1
Hamiltonian structure of zeroth-order hydrodynamics Before we proceed to study the cases of Statement I, let us briefly review the well-known
Hamiltonian formulation for the inviscid or, more precisely, the zeroth-order hydrodynam-
ics [17–19]. Let us consider the set of Eqs. (1-3) with ηi jkl = 0. Here it is convenient
to write the hydrodynamic equations in terms of conserved quantities since they are frame-
independent. Indeed, it is straightforward to check that both equations (1) and (2), written
in terms of ρ and Ji ≡ρvi, are generated by the Hamiltonian H0 =
Z J2
i
2ρ + ϵ(ρ)
d2x ,
(17) (17) along with the following Poisson brackets along with the following Poisson brackets along with the following Poisson brackets {ρ(x),ρ(y)} = 0,
(18)
{ρ(x),Ji(y)} = −ρ(y) ∂
∂yi
δ(x −y),
(19)
{Ji(x),Jk(y)} =
Jk(x) ∂
∂xi
−Ji(y) ∂
∂yk
δ(x −y). (20) (18) (19) (20) 6 SciPost Phys. 14, 103 (2023) The subalgebra defined in Eq. (20) is the diffeomorphism algebra so that the momentum
density Ji is the generator of “local translations” (diffeomorphisms). The Lie-Poisson algebra
defined in Eqs. (18-20) is a semidirect product algebra which we will refer to simply as Ex-
tended Diffeomorphism Algebra (EDA) hereon. The time evolution of any quantity is defined
by ∂tQ = {H,Q}.4 In particular, for the time evolution of density and momentum density
fields, one proceeds as ∂tρ(x) = {H,ρ(x)} =
Z δH
δρ(y){ρ(y),ρ(x)} +
δH
δJi(y){Ji(y),ρ(x)}
d2 y ,
(21)
∂tJi(x) = {H,Ji(x)} =
Z δH
δρ(y){ρ(y),Ji(x)} +
δH
δJk(y){Jk(y),Ji(x)}
d2 y . (22) (21) (22) It can be checked that substituting Poisson’s brackets (18-20) into the above equations one
obtains the correct evolution equations for ρ and Ji = ρvi equivalent to (1,2). It can be checked that substituting Poisson’s brackets (18-20) into the above equations one
obtains the correct evolution equations for ρ and Ji = ρvi equivalent to (1,2). Using (18-20) one can compute Poisson brackets of any two functionals of ρ and Ji. Poisson
brackets between two functions (or functionals) of ρ and Ji must satisfy two conditions: (1)
antisymmetry {Q,R} = −{R,Q},
(23) (23) and (2) Jacobi identity J
Q,R,S
≡{{Q,R},S} + {{S,Q},R} + {{R,S},Q}
= 0. (24) (24) Here J (Q,R,S), defined in the first line of (24), is referred as the Jacobiator of three function-
als Q,R,S of ρ and Ji. 3.1
Hamiltonian structure of zeroth-order hydrodynamics The Jacobi identity is the statement that the Jacobiator vanishes for any
three functionals.5 It can be checked that (18-20) satisfy antisymmetry condition and Jacobi
identity (23,24). 5Jacobi identity is associated to the existence of local canonical coordinates. 5Jacobi identity is associated to the existence of local canonical coordinates. 4Here, we follow the notation convention in Ref. [17] The algebra presented here may differ by an overall
gative sign from some other references in the literature.
5 3.3
Constraints imposed by Jacobi identity Prima facie one might think that the identification of antisymmetric brackets (26) means that
all energy-conserving cases specified by Statement I are Hamiltonian. However, for the system
to be Hamiltonian, brackets must also satisfy the Jacobi identity (24). We now present the
main condition for which the brackets in Eqs. (18,19,26) satisfy the Jacobi identity (24). Statement II. The antisymmetric brackets from Eqs. (18,19,26) are Poisson brackets, i.e, satisfy
Jacobi identity if and only if ΓH(ρ) = ηH(ρ) −ρ η′
H(ρ). (29) (29) When this condition holds, there exists a locally conserved quantity, namely Ji ≡Ji + ∂∗
i ηH(ρ),
(30) (30) which satisfies the diffeomorphism algebra. 3.2
Modification of brackets for the first-order hydrodynamics The direct computation of equations of motion generated by the Hamiltonian (25) with
the algebra (18,19,26) provides us the following hydrodynamic equations ∂tρ = −∂iJi ,
(27)
∂tJk = −∂i
JiJk
ρ + p δik −ηH
iklm ∂l
Jm
ρ
,
(28) (27) (28) with ηH
i jkl defined by (9,10) with parameters specified in the Statement I. More specifically,
in Case 1, both ηH and ΓH are independent functions of density in the bracket (26) and the
Hamiltonian is obtained by taking G = 0 in the Eq. (25). In Case 2, we must substitute
ηH = cG and ΓH = c(G −2ρG′) in the bracket (26). It is easy to see that this system of
equations is equivalent to Eqs. (1,2), when the stress tensor is given by Eqs. (3-5) and the
viscosity tensor satisfies one of the the cases in the Statement I. Because these equations are
generated by antisymmetric brackets, the Hamiltonian (25) itself is automatically conserved,
since ∂tH = {H, H} = 0. In the following, we will check if these almost Poisson brackets satisfy
the Jacobi identity. 3.2
Modification of brackets for the first-order hydrodynamics Since not all dynamical systems with conserved energy are Hamiltonian systems [20–22], the
scope of this section is to find under which conditions the systems defined in the Statement I
are Hamiltonian. For that, we must obtain the brackets that, together with the Hamiltonian H =
Z J2
i
2ρ + ϵ + Ji
ρ ∂∗
i G + c
ρ (∂iG)2
d2x ,
(25) (25) generate Eqs. (1,2), where the stress tensor satisfy both Eqs. (3-5) and the Statement I. The
Hamiltonian (25) is obtained by integrating the energy density (15). It is important to point
out that this choice of Hamiltonian is not only natural, but it recovers the ideal fluid Hamilto-
nian in the limit when ηi jkl →0. generate Eqs. (1,2), where the stress tensor satisfy both Eqs. (3-5) and the Statement I. The
Hamiltonian (25) is obtained by integrating the energy density (15). It is important to point
out that this choice of Hamiltonian is not only natural, but it recovers the ideal fluid Hamilto-
nian in the limit when ηi jkl →0.i We find that the continuity equation can be generated by the brackets (18,19), while the
bracket (20) must be modified in order to provide us the correct momentum conservation
equation. After such deformation, the momentum density algebra becomes {Ji(x),Jk(y)} =
Jk(x) ∂
∂xi
−Ji(y) ∂
∂yk
δ(x −y)
−∂
∂x j
¯ηjilk
ρ(x)
∂
∂xl
δ(x −y)
,
(26) (26) 4Here, we follow the notation convention in Ref. [17] The algebra presented here may differ by an overa
negative sign from some other references in the literature. 5Jacobi identity is associated to the existence of local canonical coordinates. 5Jacobi identity is associated to the existence of local canonical coordinates. 7 SciPost Phys. 14, 103 (2023) where ¯ηi jkl is defined in (10). The antisymmetry property of ¯ηi jkl (Eq. (11)) together with
the identities f (x)δ(x −y) = f (y)δ(x −y),
∂
∂xm
δ(x −y) = −∂
∂ym
δ(x −y), guarantees the antisymmetry of the bracket (26). Here, we assume that the bracket defor-
mation is local and recovers the diffeomorphism algebra (20) in the limit of an ideal fluid. The algebra (18,19,26) is sometime called almost Poisson brackets [22], since it satisfies the
property (23), but not necessarily the Jacobi identity (24). which satisfies the diffeomorphism algebra. To see the origin of the condition (29) let us consider the modified momentum den-
sity Ji (30). It is clear that the bracket {ρ(x), Ji(y)} is not modified and coincides with (19). Using brackets (18,19,26) it is straightforward to compute y
i
ρ
ii
Using brackets (18,19,26) it is straightforward to compute ¦
Ji(x), Jk(y)
©
=
Jk(x) ∂
∂x i −Ji(y) ∂
∂yk
δ(x −y) −(εjiδlk −δjiεlk)
×
∂
∂x j
ΓH −ηH + ρη′
H
(x) ∂
∂x l δ(x −y)
. (31) (31) 8 8 SciPost Phys. 14, 103 (2023) One immediately notices that the condition (29) annihilates the second term in the right hand
side of Eq. (31) and the algebra of brackets of ρ and Ji becomes identical to the original
diffeomorphism algebra (18-20) thereby satisfying the Jacobi identity. Throughout the rest of
the paper we will use Ji to refer to the diffeomorphism generators. In Appendix B, we perform more direct computation showing that the condition (29) is
also necessary for brackets (18,19,26) to satisfy the Jacobi identity. The key point of that
computation is that the Jacobiator (see Eq. (24)) is given by J
¦
Ji(x),Jk(y),Jm(z)
©
=
εkm
∂
∂xi
∂
∂yl
∂
∂zl
+ εik
∂
∂xl
∂
∂yl
∂
∂zm
+ εmi
∂
∂xl
∂
∂yk
∂
∂zl
2(ηH −ρη′
H −ΓH)δ(x −y)δ(x −z)
. (32) (32) The Jacobiator J vanishes only when (29) holds completing the proof of Statement I The Jacobiator J vanishes only when (29) holds completing the proof of Statement II. J
y
p
g
p
We now discuss the physical picture behind the constraint (29). The constraint can be
rewritten as ΓH/ρ + ρ(ηH/ρ)′ = 0. We consider the angular momentum per particle
ℓ/ρ = ηH/ρ and notice that if it is itself ρ-independent, the constraint requires ΓH = 0. We see that if one compresses the fluid of rotating particles, no intrinsic torque is needed if
the angular momentum of each particle does not depend on the particles’ density. If ηH(ρ)
is nonlinear in ρ, the compression would require an additional torque applied to each parti-
cle. If (29) is satisfied, this torque can be provided by the intrinsic torque ΓH of the fluid. If
the condition (29) is not met, additional “constraint forces” are needed rendering the system
non-Hamiltonian. 3.4
Conditions for Hamiltonian hydrodynamics [11], the authors identify the generators
of diffeomorphism Ji to the “molecular” center-of-mass momentum density. For Case 2, the Hamiltonian is different from that of the inviscid case and can be writte
as as H =
Z J2
i
2ρ + ϵ + Ji
ρ ∂∗
i G
d2x . (33) (33) However, the Poisson brackets remain the same as in the inviscid zeroth-order hydrodynamics,
i.e. EDA given by (18,19,20). In this case the full stress tensor is explicitly given by However, the Poisson brackets remain the same as in the inviscid zeroth-order hydrodynamics,
i.e. EDA given by (18,19,20). In this case the full stress tensor is explicitly given by Ti j = −
p + ρG′ω
δi j ,
(34) (34) which proves the Corollary III.1. 3.4
Conditions for Hamiltonian hydrodynamics For the first-order hydrodynamics defined by Eqs. (1-5) to be Hamiltonian the viscous stress
coefficients in Eq. (5) must jointly satisfy Statement I and Statement II. Case 1 of Statement I
defines a Hamiltonian system as long as ΓH = −ζH = ηH(ρ) −ρ η′
H(ρ). For the Case 2, the
Jacobi identity constraint is incompatible with the energy conservation condition unless c = 0. We summarize these findings in the following statement. Statement III. The hydrodynamics Eqs. (1-5) is Hamiltonian only in the following cases
Case 1: For arbitrary ηH(ρ), G = 0, and Case 1: For arbitrary ηH(ρ), G = 0, and ΓH(ρ) = −ζH(ρ) = ηH(ρ) −ρ η′
H(ρ). Case 2: For arbitrary G(ρ) and ζH(ρ) = −ρG′(ρ),
ΓH(ρ) = ηH(ρ) = 0. Furthermore, Case 2 itself comes with a corollary. Corollary III.1. If the momentum density satisfies the diffeomorphism algebra (20) the only
allowed viscosity term in the Hamiltonian is the odd pressure term ζH. In both cases, the hydrodynamic equations are obtained from the Hamiltonian (25) and
the Poisson brackets (18,19) and (26), with the viscosity coefficients satisfying one of the con-
ditions in the Statement III. Note that the Hamiltonian function for Case 1 has the same form
as the inviscid Hamiltonian (17). In addition to that, we would like to emphasize that the
Hamiltonian hydrodynamics corresponding to Case 1 could be equivalently written in terms
of the diffeomorphism generator Ji defined in (30). In these new variables, the Poisson al-
gebra becomes the EDA and the equation of motion for the “modified momentum density” Ji 9 SciPost Phys. 14, 103 (2023) posses higher-order derivative terms and no odd viscosity stress (only odd pressure). This was
already pointed out in several references, such as [9,11,16] for the particular case of ΓH = 0. When ΓH = 0, the Jacobi identity condition (29) imposes that ηH(ρ) = νoρ, where νo is a
constant kinematic odd viscosity. In fact, in the Ref. [11], the authors identify the generators
of diffeomorphism Ji to the “molecular” center-of-mass momentum density. posses higher-order derivative terms and no odd viscosity stress (only odd pressure). This was
already pointed out in several references, such as [9,11,16] for the particular case of ΓH = 0. When ΓH = 0, the Jacobi identity condition (29) imposes that ηH(ρ) = νoρ, where νo is a
constant kinematic odd viscosity. In fact, in the Ref. 6These terms generalize the “quantum pressure” arising from the Madelung transformations in Schrödinger
equation. 3.5
Generalized Hamiltonian hydrodynamics In this form the only viscous term present is the odd
pressure term with ζH = −ρG ′ and primes denote derivatives with respect to ρ. Let us now shift the momentum density according to (30), i.e. Ji = Ji + ∂∗
i ηH, where
ηH(ρ) is an arbitrary function of ρ. As a result, we obtain the hydrodynamic system in terms
of these new variables,7 that is, ∂tρ + ∂iJi = 0,
(40)
∂tJk + ∂i
JiJk
ρ −T H
ik
= 0,
(41) (40) (41) where the new stress tensor T H
i j is given by T H
i j = ηH
i jkl∂k
Jl
ρ
−A
ρ ∂iρ ∂jρ −δi j
p −B(∇ρ)2 −C∆ρ
,
(42) (42) with with ζH = −ηH −ρG ′ ,
ΓH = ηH −ρη′
H ,
(43)
A = K′2 −η′
H
2 ,
C = A+ η′
H(G ′ + η′
H),
(44)
B = 1
2A′ + (G ′ + η′
H)
η′′
H −
η′
H
ρ
. (45) (43) (44) (45) We notice that the modified stress tensor’s parity-breaking part is generally defined by
two independent functions ηH(ρ) and G(ρ). An additional free function K(ρ) contributes
to Madelung terms. The expressions (43-45) are the most general relations on parity-odd
coefficients compatible with Hamiltonian hydrodynamics. If by some reason one requires that
Madelung term vanish one obtains K = ±ηH and (G ′ + η′
H)η′
H = 0. The latter equation has
two solutions G = −ηH or ηH = 0. These two solutions give Cases 1 and 2 of the Statement III,
respectively.It is interesting to note that the odd viscosity term ηH appears in this construction
not as a parameter of the Hamiltonian (36) but as the parameter of the momentum density
shift or equivalently as a modification of Poisson’s brackets. We remark here that it is relatively straightforward to generate all Hamiltonian systems. One can start with a general local form of the Hamiltonian (36), generate equations using
(18-20) and then consider redefinitions of hydrodynamic fields (30) preserving the structure
of equations of motion. However, this procedure is based on the assumption that there are no
non-trivial extensions of the EDA within the order in derivatives used in this work. 3.5
Generalized Hamiltonian hydrodynamics In the previous sections, we showed that the Hamiltonian structure is intimately related to the
existence of hydrodynamic variables ρ and Ji, which satisfy the EDA. This way, we can easily
generalize our results and propose the most general Hamiltonian hydrodynamics within an
appropriate counting scheme. It is not hard to see that the Poisson algebra (18,19,20) is invariant under the scaling Ji →αJi ,
∂i →α∂i ,
ρ →ρ . (35) (35) Hence, the diffeomorphism generators Ji, defined in Eq. (30) also scales as Ji →αJi. This new
counting scheme differs from the original derivative expansion of the stress tensor. Under this
scaling, first-order hydrodynamic terms, such as viscous terms in the stress tensor, show up in
the same order as the following second-order hydrodynamic terms τi jkl(ρ)∂kρ ∂lρ + σi jkl(ρ)∂k∂lρ . In the following, we refer to them as Madelung terms.6 Note that Eq. (35) together with the continuity equation impose that ∂t must be of order α2. The scaling (35) is similar to the one used for energy conservation in Appendix A and gives us
that the energy density of the fluid must scale in the same way as the fluid stress tensor. Thus,
within this counting scheme, the most general Hamiltonian dynamics is given by the following
simple prescription. Let us first take the most general Hamiltonian of the second order in α,
that is, H =
Z J2
i
2ρ + ϵ + Ji
ρ ∂∗
i G + 1
2ρ (∂iK)2
d2x ,
(36) (36) where Ji is the diffeomorphism generator, G and K are arbitrary functions of ρ. Let us as-
sume conventional EDA brackets (18-20) and generate equations of motion for ρ and Ji. The
equation for ρ is the standard continuity equation ∂tρ + ∂iJi = 0,
(37) (37) 6These terms generalize the “quantum pressure” arising from the Madelung transformations in Schrödinger
equation. 10 SciPost Phys. 14, 103 (2023) while the one for Ji is
∂tJk + ∂i
JiJk
ρ
−Tik
= 0,
(38) i
∂tJk + ∂i
JiJk
ρ
−Tik
= 0,
(38) ∂tJk + ∂i
JiJk
ρ
−Tik
= 0,
(38)
with
1
J∗
k
(38) with Ti j = −1
ρ ∂iK∂jK −
p + ρ G ′∂k
J∗
k
ρ
−K′∆K
δi j . (39) (39) Once again, pressure is given by (4). 7There is a certain ambiguity in the form of the stress tensor resulting from the freedom to add to the stre
arbitrary divergenceless terms. These additions, however, do not change the equations of motion. 4
Energy conservation and nonholonomic constraints The absence of Hamiltonian structure in energy-conserving systems is one of the prominent
features of so-called nonholonomic systems. These systems are described as systems with
restrictions on types of motion. Typical examples include systems like rolling balls and rolling
wheels as well as skates with rolling constraints and skating constraints, respectively [21,22,
24]. In these systems, the constraints imposed on velocities are not integrable and, therefore,
cannot be reduced to the constraints on the configurational space of the dynamic system. Such
constraints are called nonholonomic and are related to the break down of the Jacobi identity
in the Hamiltonian framework [22,25].l In this section, we consider the fluid dynamics described by Case 1 of Statement I, but not
satisfying the condition of Statement II. We show that it arises from Hamiltonian fluid dynamics
with internal angular momentum degree of freedom subject to a nonholonomic constraint. The
constraint pins the internal angular momentum density to the function of the density of the
fluid, preserving energy conservation but breaking the Hamiltonian structure. Let us consider the following Hamiltonian Hλ =
Z
d2x
J2
i
2ρ + ϵ(ρ) + λ(ℓ+ 2ηH(ρ))2
. (46) (46) This Hamiltonian is a functional of hydrodynamic fields ρ and Ji as well as of the new field ℓ,
which corresponds to the internal angular momentum density of the fluid. The numerical
constant λ > 0 couples the internal angular momentum density to a function of the density of
the fluid ηH(ρ). For large λ, it is energetically favorable for the system to have ℓ≈−2ηH.i Let us assume that the fields obey the Lie-Poisson algebra given by the brackets {ρ(x),ρ(y)} = {ℓ(x),ρ(y)} = {ℓ(x),ℓ(y)} = 0,
(47)
{ρ(x),Ji(y)} = −ρ(y) ∂
∂yi δ(x −y),
(48)
{ℓ(x),Ji(y)} =
2ΓH(ρ(x)) ∂
∂x i −ℓ(y) ∂
∂yi
δ(x −y),
(49)
Ji(x),Jk(y)
=
Jk(x) ∂
∂x i −Ji(y) ∂
∂yk
δ(x −y)
+ (εikδjl + δikεjl) ∂
∂x j
ℓ(x)
2
∂
∂x l δ(x −y)
−(δi jεkl −εi jδkl) ∂
∂x j
ΓH(ρ(x)) ∂
∂x l δ(x −y)
. (50) (47) (48) (49) (50) One can check that these brackets do satisfy the Jacobi identity. In fact, this is true by construc-
tion, since the brackets involving ℓwere derived from replacing ηH by the new variable −1
2ℓ
in Eqs. (98, 105). 3.5
Generalized Hamiltonian hydrodynamics A priori
one might have a non-trivial extension of Poisson algebra similar to the central extensions con-
sidered in [23]. The authors are not aware of the theorem on the absence of such extensions,
and one should consider the computations done in Appendix B as an explicit proof of such a
theorem within our counting scheme. 11 SciPost Phys. 14, 103 (2023) 4
Energy conservation and nonholonomic constraints Furthermore, we can recover the conventional EDA presented in [9, 11] if
we rewrite this algebra in terms of the quantities Ji,ρ, L, which are defined by Ji = Ji −1
2∂∗
i ℓ,
(51)
L = ℓ+ M ,
(52) (51) (51)
(52) (51)
(52) (52) L = ℓ+ M ,
(52)
with with with with t
ΓH = 1
2(M −ρM′). (53) ΓH = 1
2(M −ρM′). (53) (53) The Hamiltonian (46) with these brackets define a Hamiltonian fluid dynamics, whos The Hamiltonian (46) with these brackets define a Hamiltonian fluid dynamics, whose The Hamiltonian (46) with these brackets define a Hamiltonian fluid dynamics, whose 12 SciPost Phys. 14, 103 (2023) equations of motion are given by n are given by ∂tρ + ∂i(ρvi) = 0,
(54)
∂tℓ+ ∂i (ℓvi) = −2ΓH ∂ivi ,
(55)
∂tJj + ∂i
ρvivj + ˜p δi j
= ∂i
ηℓ
i jkl∂kvl
,
(56)
ηℓ
i jkl = −1
2ℓ(δikεjl + δjlεik) + ΓH (δi jεkl −εi jδkl),
(57)
˜p = ρϵ′ −ϵ + λ(δℓ)2 −4λ(ηH −ρη′
H −ΓH)δℓ. (58) (56) (58) Here we introduced the notation δℓ= ℓ+ 2ηH and vi = Ji/ρ. Notice that the form of the
viscous tensor (57) is identical to (10) with the replacement ℓ→−2ηH. Here we introduced the notation δℓ= ℓ+ 2ηH and vi = Ji/ρ. Notice that the form of the
viscous tensor (57) is identical to (10) with the replacement ℓ→−2ηH. It is important to understand that the dynamical system (54-58) is Hamiltonian for any
value of the parameter λ as it is generated by the Hamiltonian (46) with the use of Poisson
brackets (47-50). It is clear that, at finite energy, the intrinsic angular momentum ℓshould
follow −2ηH(ρ), in the limit λ →∞. However, from (54,55) we obtain that ∂t(δℓ) + ∂i(δℓvi) = −2(ΓH −ηH + ρη′
H)∂ivi . (59) (59) If the condition (29) is satisfied, the right hand side of (59) vanishes. In this case one can start
with initial conditions ℓ= −2ηH(ρ) and the dynamics (59) will preserve these conditions at
all times. The constraint If the condition (29) is satisfied, the right hand side of (59) vanishes. In this case one can start
with initial conditions ℓ= −2ηH(ρ) and the dynamics (59) will preserve these conditions at
all times. 4
Energy conservation and nonholonomic constraints The energy equation acquires a dissipative term ∂tE + ∂iQi = −γλ2(δℓ)2 . (62) (62) This regularization procedure allows us to take the limit λ →∞without imposing the incom-
pressibility condition. Solving Eq. (61) in powers of 1/λ gives us This regularization procedure allows us to take the limit λ →∞without imposing the incom-
pressibility condition. Solving Eq. (61) in powers of 1/λ gives us ℓ= −2ηH −2
γλ(ΓH −ηH + ρη′
H)∂ivi + O(λ−2). (63) (63) Plugging this expression back in the Eqs. (56-58), we obtain the regularized stress tensor Ti j = (−p + ζ∂kvk)δi j + ¯ηi jkl∂kvl ,
(64) (64) with the bulk viscosity given by with the bulk viscosity given by ζ = 8
γ(ΓH −ηH + ρη′
H)2 . (65) (65) The intrinsic angular momentum relaxation introduces a bulk viscosity in the system and
spoils the energy conservation. With the dissipative regularization (61) the limit λ →∞can
be taken. The energy equation (62) in this limit becomes The intrinsic angular momentum relaxation introduces a bulk viscosity in the system and
spoils the energy conservation. With the dissipative regularization (61) the limit λ →∞can
be taken. The energy equation (62) in this limit becomes ∂tE + ∂iQi = −ζ(∂ivi)2 ,
(66) (66) where the bulk viscosity is given by Eq. (65). We observe that the limit λ →∞produced a
family of hydrodynamic equations characterized by the parameter γ (compare with [27,28]). Within this family for γ →0, the bulk viscosity becomes infinite and forces the fluid to be
incompressible. This way, we recover the Hamiltonian case with second-class constraints,
discussed previously. In the opposite limit γ →∞, the bulk viscosity vanishes, and the system
conserves energy, even though it cannot be written from a Hamiltonian principle. 4
Energy conservation and nonholonomic constraints The constraint −1
2ℓ= ηH(ρ)
(60) (60) in this case is the first-class constraint [26] and the substitution of ℓ= −2ηH(ρ) in all brackets,
Hamiltonian and equations is consistent and produces the Hamiltonian dynamics of ρ and Ji
specified in the Statement III, Case 1. Let us assume now that (29) does not hold. In this case, imposing the constraint (60)
cannot be reduced to just a choice of initial conditions. Choosing initial conditions satisfy-
ing ℓ= −2ηH we find that, for large but finite λ, ℓwill deviate from −2ηH in time, due
to (59). However, this deviation creates a large pressure term (58) proportional to λ which
will lead the flow to be incompressible, that is, ∂ivi = 0. Consequently, the right hand side of
Eq. (59) vanishes, making sure that ℓ≈−2ηH. The limiting solution at λ →∞will satisfy
the constraint (60) at all times, however it constrains the flow to be incompressible. In other
words, in the absence of the restriction (29), the time evolution of the constraint (60) gives
rise to incompressibility, which is a second-class constraint [26]. The system with both con-
straints, that is, Eq. (60) together with ∂ivi = 0, can be written from a Hamiltonian principle
by working out the Dirac brackets of the system [26], which will turn out to be non-local. If, on
the other hand, we insist in imposing only the constraint (60), without the incompressibility
condition, i.e. neglecting Eq. (59), we end up with a nonholonomic constraint. This can be
directly observed, if we substitute ℓby −2ηH(ρ) in the Poisson bracket (49). This replacement
is inconsistent to Eq. (48). In the following, we explore a possible origin of energy-conserving but non-Hamiltonian
fluid dynamics as coming from Hamiltonian systems with additional degrees of freedom
through dynamical nonholonomic constraints. The problem of realizing nonholonomic con-
straints has been considered in the context of dynamical systems. The realization of constraints
is not always unique and might result in different equations of motion. We refer the reader to
the original article [27] and reviews [21, 22]. The discussion here is heuristic and is closely
related to the so-called vakonomic mechanics [28]. Let us introduce a relaxation term proportional to δℓon the right hand side of Eq. (55),
that is, (61) ∂tℓ+ ∂i(ℓvi) = −2ΓH∂ivi −γλ(δℓ),
(61) ∂tℓ+ ∂i(ℓvi) = −2ΓH∂ivi −γλ(δℓ), 13 SciPost Phys. 14, 103 (2023) with γ > 0. 5
Discussion and conclusions We considered a space of two-dimensional fluid dynamics with parity-breaking terms in the
viscous stress tensor in this work. We started by identifying the subset of energy-conserving
fluids within this space (Statement I). Surprisingly, not all parity-odd viscosity coefficients lead
to energy conservation in first-order hydrodynamics. For example, for a hydrodynamic system
with ηi jkl = ΓHεi jδkl, Eqs. (77-81) give us ∂tE + ∂iQi = −
ΓH
ρ2
′
ΓH(∂iρ)2 +
Γ 2
H
ρ2 ∆ρ
∂jvj . The right hand side can be either positive or negative, depending on the flow and the den-
sity distribution. Hydrodynamic systems which neither conserve energy nor are exclusively
dissipative may be realized in active matter systems, where the driving is local. If, however,
we insist on having both energy conservation and (ηH,ΓH,ζH) being independent functions,
we must allow for Madelung terms in the stress tensor, which is the subject of future work. Some of the hydrodynamical systems considered in this work turn out to be energy-conserving
but not Hamiltonian. An obstacle for the system to be Hamiltonian is that the brackets gen-
erating equations of motion fail to satisfy the Jacobi identity. We found that this condition
amounts to (29) defining what we might refer to as Hamiltonian fluids. We also observed
that the bracket generating equations of Hamiltonian fluids could always be transformed to 14 SciPost Phys. 14, 103 (2023) ⌘ijkl = ⌘(δikδjl + δilδjk −δijδkl) + ⇣δijδkl + Γ ✏ij✏kl
+ ⌘H (✏ikδjl + ✏jlδik) + ⇣H δij✏kl + ΓH✏ijδkl
⌘ijkl = ⌘H
ijkl
⌘ijkl = ¯⌘ijkl
⌘= Γ = ⇣= 0
⇣H = −ΓH
⌘H = cG
ΓH = c(G −2⇢G0)
⇣H = −c(G −2⇢G0) −⇢G0
ΓH = ⌘H −⇢⌘0
H
c = 0
Energy conservation
Hamiltonian
Isotropic viscous tensor
Parity-odd viscous tensor
⇣H = −⇢G0
Figure 1: The space of parity breaking barotropic Galilean fluids in two dimensions. In addition to the internal energy density ϵ(ρ), the space is parametrized by viscosity
coefficients that are considered to be arbitrary functions of density. Figure 1: The space of parity breaking barotropic Galilean fluids in two dimensions. In addition to the internal energy density ϵ(ρ), the space is parametrized by viscosity
coefficients that are considered to be arbitrary functions of density. the conventional extended diffeomorphism algebra (EDA) (18-20) by changing hydrodynamic
variables (Statement II). 5
Discussion and conclusions In particular, if the momentum density satisfies the EDA, the only al-
lowed viscosity term in the Hamiltonian dynamics is the odd pressure ζH. The main results
supporting the described structure of the space of theories are formulated as Statements I-III
with some details of derivations relegated to appendices. The study of the space of parity-violating hydrodynamic equations in 2+1 dimensions have
been done before both in relativistic [13] and nonrelativistic [29,30] context. In this work, we
focus on the Hamiltonian fluids. We use a nonrelativistic counting scheme, described in 3.5, to
make sure that there are only a finite number of terms in the stress tensor at any given order of
the counting scheme. We find the most general Hamiltonian fluid dynamics within the second-
order of that counting scheme. This dynamics is characterized by three independent functions
of density. The stress tensor (42) and the correspondent transport coefficients are given by
Eqs (43-45).l In Section 4, we provided a possible origin of nonholonomic fluid dynamics as originating
from fully Hamiltonian extended dynamics with nonholonomic constraints imposed on an ad-
ditional degree of freedom. This additional degree of freedom, in our case, has a meaning of
an intrinsic angular momentum density of the fluid. We introduced an energy cost term in the
Hamiltonian (46), such that, in the limit of infinite rigidity (λ →∞), the intrinsic angular
momentum (ℓ) is pinned to the odd viscosity, ηH(ρ). Solving for ℓ, with a particular regu-
larization procedure, we obtain an effective dissipative hydrodynamic system with the stress
tensor given by Eqs. (64,65). Therefore, “integrating out” the intrinsic angular momentum
density provides us a one-parameter family (γ) of a dissipative hydrodynamic system. Inter-
estingly enough, we can recover the energy conservation for γ →0 and γ →∞. In the former
case, the hydrodynamic system is Hamiltonian and subjected to the incompressibility condi-
tion, i.e. ∂ivi = 0. In the latter, we obtain an energy-conserving system, described in Case 1 of 15 SciPost Phys. 14, 103 (2023) the Statement I, yet not Hamiltonian, since it does not satisfy the condition of the Statement II. the Statement I, yet not Hamiltonian, since it does not satisfy the condition of the Statement II. To conclude, if the stress tensor contains gradient terms, there are both Hamiltonian and
energy-conserving nonholonomic fluids. We note that the stability analysis is very different
for Hamiltonian and nonholonomic systems [22]. Acknowledgements We want to thank Tom Lubensky, Tomer Markovich, and Boris Khesin for helpful discussions. We specially thank Boris Khesin for bringing Ref. [23] to our attention and Tomer Markovich
for carefully reading and suggesting improvements to the manuscript. Funding information
This work is supported by NSF CAREER Grant No. DMR-1944967
(SG) and partly from PSC-CUNY Award. GMM was supported by 21st century foundation
startup award from CCNY. This research was supported by grants NSF DMR-1606591 (AGA)
and US DOE DESC-0017662 (AGA). 5
Discussion and conclusions In particular, additional instabilities are
expected to occur in nonholonomic systems realizable in active matter. A
Conditions for energy conservation counting scheme differs from the original derivative expansion and set Madelung terms, such as
γi jkl(ρ)∂kρ∂lρ +σi jkl(ρ)∂k∂lρ, to be of the same order as viscous terms.. For the inviscid case
the well-known conserved energy is recovered by setting F = G = W = 0. gy
y
g
Taking the time derivative of Eq. (69) give us gy
y
Taking the time derivative of Eq. (69) give us ∂tE = −∂iQi + F′(ρ)ϵ′′(ρ)(∂iρ)2 + Ai jkl ∂ivj∂kvl + Bi jkl ∂iρ ∂jρ ∂kvl + Ci jkl ∂i∂jρ ∂kvl , (70)
where ∂tE = −∂iQi + F′(ρ)ϵ′′(ρ)(∂iρ)2 + Ai jkl ∂ivj∂kvl + Bi jkl ∂iρ ∂jρ ∂kvl + Ci jkl ∂i∂jρ ∂kvl , (70) (70) where Qi = E vi + Ti jvj −F δik + G εik
ρ
∂jTjk + ρκW∂iρ −
F′ δjm + G′ εjm
ρ
ηimkl ∂jρ ∂kvl ,
(71)
Ai jkl = −ηi jkl + F
2 εi jεkl + F
2
δikδjl + δilδjk −δi jδkl
+
F
2 −ρF′
δi jδkl −ρ G′δi jεkl , (72)
Bi jkl =
F′
ρ δjm + G′
ρ εjm
′
ηimkl + ρ W ′
2
δi jδkl −W
2
δikδjl + δilδik −δi jδkl
,
(73)
Ci jkl =
F′
ρ δjm + G′
ρ εjm
ηimkl + ρ W δi jδkl . (74) (71) (73) (74) The term F′ϵ′′(∂iρ)2 is velocity independent and must vanish by itself for the energy to be
conserved. This means that either F′(ρ) = 0 or ϵ′′(ρ) = 0. However, the sound velocity on a
fluid is given by
Æ cs =
Æ
ρϵ′′(ρ), which implies that F′(ρ) must necessarily vanish to guarantee energy conservation. Since the
energy density is only defined up to total derivatives, we obtain that which implies that F′(ρ) must necessarily vanish to guarantee energy conservation. Since the
energy density is only defined up to total derivatives, we obtain that F(ρ) = 0,
(75) (75) which substantially simplifies Eqs. (72-74). which substantially simplifies Eqs. (72-74). The term Ai jkl ∂ivj ∂kvl is a quadratic form and cannot be written as a total derivative
unless Γ = ζ = −η = c1. However, as mentioned in the main text, we ignore this particular
case, since it does not modify the equations of motion in flat space. Thus, Ai jkl ∂ivj ∂kvl must
necessarily vanish to ensure energy conservation. A
Conditions for energy conservation Let us consider Eqs. (1-5) and let us work out under which conditions this set of equations
allows for a third conserved quantity, namely, energy conservation. One way to do so is to
determine the most general form of the energy density and then match all the transport coef-
ficients such that the energy density E satisfies Eq. (13). To determine the form of E, we need
to study the symmetries of Eqs. (1-2). The continuity equation ∂tρ + ∂i(ρvi) = 0, ∂tρ + ∂i(ρvi) = 0, is invariant under the following scaling xi →xi/α,
t →t/β ,
and
vi →viβ/α. (67) (67) Plugging this scaling into equation ∂t vj + vi∂ivj = 1
ρ ∂iTi j = 1
ρ ∂i
−p(ρ)δi j + ηi jkl(ρ)∂kvl
, and choosing that ρ →ρ, we obtain and choosing that ρ →ρ, we obtain Ti j →(β/α)2Ti j . (68) Ti j →(β/α)2Ti j . (68) This means that all viscosity coefficients scale as β/α2. Since they are only functions of ρ,
they should have no scaling, which imposes that β = α2. Here, one could argue that pressure
is also only a function of the density and, thus, should not scale. However, we must note that
p′(ρ) = c2
s , where cs is the sound velocity. Since cs scales as the velocity flow, we obtain that
pressure must scale as (β/α)2. The scaling (67) with β = α2 fixes the form of energy density. Hence, the most general energy density of order α2, up to total derivatives, is given by E = 1
2ρv2
i + ϵ(ρ) + F(ρ)κ + G(ρ)ω + 1
2W(ρ)(∂iρ)2 ,
(69) (69) where ω = ∂iv∗
i is the fluid vorticity, κ = ∂ivi is the flow compressibility and the functions
F(ρ), G(ρ) and W(ρ) must be determined in terms of the viscosity coefficients. Note that this where ω = ∂iv∗
i is the fluid vorticity, κ = ∂ivi is the flow compressibility and the functions
F(ρ), G(ρ) and W(ρ) must be determined in terms of the viscosity coefficients. Note that this 16 SciPost Phys. 14, 103 (2023) counting scheme differs from the original derivative expansion and set Madelung terms, such as
γi jkl(ρ)∂kρ∂lρ +σi jkl(ρ)∂k∂lρ, to be of the same order as viscous terms.. For the inviscid case
the well-known conserved energy is recovered by setting F = G = W = 0. A
Conditions for energy conservation This is obtained when Ai jkl = −Akli j and,
after imposing Eq. (75), we end up with η(ρ) = ζ(ρ) = Γ(ρ) = 0,
(76)
ζH(ρ) + ΓH(ρ) + ρ G′(ρ) = 0. (77) (76)
(77) (76) (77) Let us now turn our attention to the last two terms. They give us Let us now turn our attention to the last two terms. They give us Bi jkl ∂iρ ∂jρ ∂kvl + Ci jkl ∂i∂jρ ∂kvl = ∂i
κ∂iρ −∂jρ ∂jvi
ρ
2ηHG′
+
ΓH −ηH
ρ
G′ + ρW
κ∆ρ
+
G′
ρ
′
(ΓH −ηH) −
η′
HG′
ρ
+ ρW ′
2
κ(∂iρ)2
+
η′
HG′
ρ
−W
2
∂iρ ∂jρ (∂ivj + ∂jvi −δi jκ). (78) +
η′
HG′
ρ
−W
2
∂iρ ∂jρ (∂ivj + ∂jvi −δi jκ). (78) (78) In order to write the right hand side of Eq. (78) as a total derivative, we must impose that In order to write the right hand side of Eq. (78) as a total derivative, we must impose that
η′ G′
W η′
HG′
ρ
−W
2 = 0,
(79)
G′
ρ (ΓH −ηH) + ρW = 0,
(80)
G′
ρ
′
(ΓH −ηH) −
η′
HG′
ρ
+ ρW ′
2
= 0. (81) (79) (80) ρ
G′
ρ
′
(ΓH −ηH) −
η′
HG′
ρ
+ ρW ′
2
= 0. (81) (81) 17 17 SciPost Phys. 14, 103 (2023) Equation (77) allows us to express G(ρ) in terms of ζH(ρ) and ΓH(ρ). This means that there
are four variables (ηH,ζH,ΓH,W) and 3 equations. Unless Eqs. (79-81) are linearly dependent,
there is no way to satisfy them for ηH(ρ), ζH(ρ) and ΓH(ρ) independent. Plugging Eq. (79)
into Eq. (80), we find that ΓH −ηH + 2ρη′
H
G′ = 0. (82) ΓH −ηH + 2ρη′
H
G′ = 0. (82) This breaks into two possible cases, namely, G′(ρ) = 0 or G′(ρ) ̸= 0. This breaks into two possible cases, namely, G′(ρ) = 0 or G′(ρ) ̸= 0. A.1
Case I: G′(ρ) = 0 A.1
Case I: G′(ρ) = 0 A.1
Case I: G′(ρ) = 0 A.1
Case I: G′(ρ) = 0 Let us first consider the case when G′(ρ) = 0. Plugging this into Eq. (79) gives us W = 0,
which is consistent with Eq. (81). From Eq. (77), we see that this case is simply the condition ζH(ρ) = −ΓH(ρ),
(83) (83) or equivalently ηi jkl(ρ) = ¯ηi jkl(ρ),
(84) (84) where ¯ηi jkl is defined in Eq. (10). A.2
Case II: G′(ρ) ̸= 0 In this case, Eq. (82) imposes that ΓH(ρ) −ηH(ρ) + 2ρη′
H(ρ) = 0,
(85) (85) and Eq. (81) can be written solely in terms of G′(ρ) and ηH(ρ). Plugging Eq. (79) into Eq. (81)
and expressing ΓH(ρ) in term of ηH(ρ) gives us and Eq. (81) can be written solely in terms of G′(ρ) and ηH(ρ). Plugging Eq. (79) into Eq. (81)
and expressing ΓH(ρ) in term of ηH(ρ) gives us η′
H(ρ) G′′(ρ) −η′′
H(ρ) G′(ρ) = 0. (86) (86) Note that G′(ρ) ̸= 0, otherwise we recover the case I. Therefore, we can express η′
H(ρ) in
terms of G′(ρ). This gives us η′
H(ρ) = c G′(ρ),
(87) (87) for a constant c. Hence, we obtain for a constant c. Hence, we obtain for a constant c. Hence, we obtain ηH(ρ) = c G(ρ) + c2 ,
(88)
ΓH(ρ) = c
G(ρ) −2ρ G′(ρ)
+ c2 ,
(89)
ζH(ρ) = −c G(ρ) + (2c −1)ρ G′(ρ) −c2 ,
(90)
W(ρ) = 2c
ρ
G′(ρ)
2
(91) (88) (90) (91) for a generic function G(ρ) and some constant c2. However, if we focus on the stress tensor,
we see that for a generic function G(ρ) and some constant c2. However, if we focus on the stress tensor,
we see that Ti j = −
p(ρ) + (2c −1)ρ G′(ρ)ω
δi j −2 cρ G′(ρ)κεi j
+ [c G(ρ) + c2]εik ∂kvj . (92) (92) The constant c2 in the last term does not contribute to equations of motion and we can set it
to zero without loss of generality. Moreover, when c = 0, only odd pressure is present and the
stress tensor becomes diagonal. 18 SciPost Phys. 14, 103 (2023) B
Condition to satisfy the Jacobi identity For the system to be Hamiltonian, the algebra defined through expressions (18), (19), and (26)
must satisfy the Jacobi identity. Let us define FA =
Z fA ρ + Ji ξi
A
d2x ,
(93) (93) for some test functions fA, ξ1
A and ξ2
B. In this notation, Jacobi identity can be written as εABC{{FA, FB}, FC} = 0. (94) (94) Using equation (18), we find that the brackets between FA and FB is given by Using equation (18), we find that the brackets between FA and FB is given by {FA, FB} =
ZZ
d2x d2 y
fA(x)ξi
B(y) −fB(x)ξi
A(y)
{ρ(x),Ji(y)}
+ ξi
A(x)ξk
B(y){Ji(x),Jk(y)}
,
{FA, FB} =
Z
d2x
ρ
ξi
A∂i fB −ξi
B∂i fA
+ Ji
ξk
A∂kξi
B −ξk
B∂kξi
A
+ ¯ηjiℓk ∂jξi
A∂ℓξk
B
. (95) {FA, FB} =
Z
d2x
ρ
ξi
A∂i fB −ξi
B∂i fA
+ Ji
ξk
A∂kξi
B −ξk
B∂kξi
A
+ ¯ηjiℓk ∂jξi
A∂ℓξk
B
. (95 (95) Plugging the expression (95) into equation (94), we find Plugging the expression (95) into equation (94), we find εABC{{FA, FB}, FC} = εABC
ZZ
d2x d2 y
2
ξi
C(y)ξk
A(x) ∂fB
∂x k (x) −fC(x)ξk
A(y)
∂ξi
B
∂x k (x)
× {ρ(x),Ji(y)} + 2ξk
C(x)ξℓ
A(y)
∂ξi
B
∂xℓ(x){Ji(x),Jk(y)}
+ fC(y)
∂ξi
A
∂x j
(x)
∂ξk
B
∂xℓ
(x){ ¯ηjiℓk(x),ρ(y)}
+ ξm
C (y)
∂ξi
A
∂x j
(x)
∂ξk
B
∂xℓ
(x){ ¯ηjiℓk(x),Jm(y)}
. (96) εABC{{FA, FB}, FC} = εABC
ZZ
d2x d2 y
2
ξi
C(y)ξk
A(x) ∂fB
∂x k (x) −fC(x)ξk
A(y)
∂ξi
B
∂x k (x)
i εABC{{FA, FB}, FC} = εABC
ZZ
d2x d2 y
2
ξi
C(y)ξk
A(x) ∂fB
∂x k (x) −fC(x)ξk
A(y)
∂ξi
B
∂x k (x)
× {ρ(x),Ji(y)} + 2ξk
C(x)ξℓ
A(y)
∂ξi
B
∂xℓ(x){Ji(x),Jk(y)}
+ f (y)
∂ξi
A(x)
∂ξk
B (x){ ¯η
(x) ρ(y)} × {ρ(x),Ji(y)} + 2ξk
C(x)ξℓ
A(y)
∂ξi
B
∂xℓ(x){Ji(x),Jk(y)}
+ fC(y)
∂ξi
A
∂x j
(x)
∂ξk
B
∂xℓ
(x){ ¯ηjiℓk(x),ρ(y)}
+ ξm
C (y)
∂ξi
A
∂x j
(x)
∂ξk
B
∂xℓ
(x){ ¯ηjiℓk(x),Jm(y)}
. (96) (96) Note that there are two types of terms in equation (96), i.e. B
Condition to satisfy the Jacobi identity some of them depend on 3 vectors
(ξA,ξB,ξC), whereas the others depend on 2 vectors (ξA,ξB) and one function fC. Since they
are independent, each type of term must vanish separately. Let us now focus on terms with 2
vectors (ξA,ξB) and one function fC. The Jacobi identity imposes that Note that there are two types of terms in equation (96), i.e. some of them depend on 3 vectors
(ξA,ξB,ξC), whereas the others depend on 2 vectors (ξA,ξB) and one function fC. Since they
are independent, each type of term must vanish separately. Let us now focus on terms with 2
vectors (ξA,ξB) and one function fC. The Jacobi identity imposes that εABC
Z
d2x
2ρ(x)ξi
A(x)ξk
B
∂2 fC
∂x i∂x k (x)
−
∂ξi
A
∂x j
(x)
∂ξk
B
∂xℓ
(x)
Z
d2 y fC(y){ ¯ηjiℓk(x),ρ(y)}
= 0, εABC
ZZ
d2x d2 y
∂ξi
A
∂x j
(x)
∂ξk
B
∂xℓ
(x)fC(y){ ¯ηjiℓk(x),ρ(y)} = 0,
(97) (97) where in the second line we used that εABCξi
Aξk
B is antisymmetric in the indices (i, k). Equa-
tion (97) imposes that { ¯ηjiℓk(x),ρ(y)} = 0,
(98) (98) which is automatically satisfied when the components ¯ηi jkℓare functions solely of ρ. 19 SciPost Phys. 14, 103 (2023) Let us now turn our attention to terms in equation (96) with 3 vectors (ξA,ξB,ξC), εABC
Z
d2x
2 ¯ηjiℓk(x)
∂ξk
C
∂xℓ
(x) ∂
∂x j
ξm
A
∂ξi
B
∂x m
(x) −2Ji(x)ξk
A(x)ξj
B(x)
∂2ξi
C
∂x k∂x j (x)
+
Z
d2 y ξm
C (y)
∂ξi
A
∂x j
(x)
∂ξk
B
∂xℓ
(x){ ¯ηjiℓk(x),Jm(y)}
= 0,
εABC
Z
d2x
¯ηjiℓk(x)
ξm
A (x) ∂
∂x m
∂ξi
B
∂x j
∂ξk
C
∂xℓ
(x) + 2
∂ξm
A
∂x j
(x)
∂ξi
B
∂x m (x)
∂ξk
C
∂xℓ
(x)
+
Z
d2 y ξm
C (y)
∂ξi
A
∂x j
(x)
∂ξk
B
∂xℓ
(x){ ¯ηjiℓk(x),Jm(y)}
= 0. (99 (99) In the third line, we used one more time that εABCξk
Aξj
B is antisymmetric in the indices (k, j)
and that εABC ¯ηjiℓk∂m
∂jξi
B∂ℓξk
C
= εABC( ¯ηjiℓk −¯ηi jkℓ)∂ℓξk
C ∂m∂jξi
B = 2εABC ¯ηjiℓk∂ℓξk
C ∂m∂jξi
B . B
Condition to satisfy the Jacobi identity 14, 103 (2023) Plugging equation (103) into (102), we see that Plugging equation (103) into (102), we see that quation (103) into (102), we see that εABC
Z
d2x
ΓH −ηH
∂ξm
A
∂x m −ξm
A
∂ηH
∂x m +
Z
d2 y ξm
A (y){ ¯ηH(x),Jm(y)}
i
k εABC
Z
d2x
ΓH −ηH
∂ξm
A
∂x m −ξm
A
∂ηH
∂x m +
Z
d2 y ξm
A (y){ ¯ηH(x),Jm(y)}
× (εjℓδik + δjℓεik)
∂ξi
B
∂x j
∂ξk
C
∂xℓ
= 0. (104 × (εjℓδik + δjℓεik)
∂ξi
B
∂x j
∂ξk
C
∂xℓ
= 0. (104) (104) The bracket between the odd viscosity and the momentum density is fully determined by
Jacobi identity, i.e. The bracket between the odd viscosity and the momentum density is fully determined by
Jacobi identity, i.e. {ηH(x),Jm(y)} =
ηH(x) −ΓH
ρ(x)
∂
∂x m + ∂ηH
∂x m (x)
δ(x −y),
{ηH(x),Jm(y)} = −
ηH(y) ∂
∂ym + ΓH
ρ(x)
∂
∂x m
δ(x −y). (105) (105) So far, we have not used that ηH is a function of ρ. Imposing it into equation (104) give
us us us εABC(εjℓδik + δjℓεik)
Z
d2x
ΓH(ρ) −ηH(ρ) + ρ η′
H(ρ)
∂ξm
A
∂x m
∂ξi
B
∂x j
∂ξk
C
∂xℓ
= 0,
(106) (106) in other words, the Jacobi identity is only satisfied when in other words, the Jacobi identity is only satisfied when in other words, the Jacobi identity is only satisfied when ΓH(ρ) = ηH(ρ) −ρ η′
H(ρ). (107) (107) In fact, equation (105) must always be valid, even when ηH cannot be expressed in terms
of ρ. Therefore, equation (105) defines the brackets between the fluid intrinsic angular mo-
mentum and momentum density. Equation (105) however has a deeper implication. Note that ∂
∂x j
¯ηjiℓk(x) ∂
∂xℓ
δ(x −y)
=
∂
∂x j
ηH(x)
εjℓδik + εikδjℓ
+ ΓH(x)(εjiδℓk −δjiεℓk)
∂
∂xℓ
δ(x −y),
∂
∂x j
¯ηjiℓk(x) ∂
∂xℓ
δ(x −y) =
εi j
∂
∂yj
ηH(y) ∂
∂yk
−εkj
∂
∂x j
ηH(x) ∂
∂x i
δ(x −y)
−εi j
∂
∂x j
ΓH(x) ∂
∂x k
δ(x −y) + εkj
∂
∂yj
ΓH(x) ∂
∂yi
δ(x −y). B
Condition to satisfy the Jacobi identity Integrating equation (99) by parts give us εABC
Z
d2x
2 ¯ηjiℓk(x)
∂ξm
A
∂x j
(x)
∂ξi
B
∂x m (x)
∂ξk
C
∂xℓ
(x) −
∂ξi
B
∂x j
(x)
∂ξk
C
∂xℓ
(x) ∂
∂x m
ξm
A ¯ηjiℓk
(x)
+
Z
d2 y ξm
A (y)
∂ξi
B
∂x j
(x)
∂ξk
C
∂xℓ
(x){ ¯ηjiℓk(x),Jm(y)}
= 0. (100) (100) Note that equation (100) is valid for any spatial dimensions, since we still have not used the
2-dimensional form of ¯ηi jkℓ. Moreover, if the stress tensor is symmetric, ¯ηi jkℓ= ¯ηjikℓand the
first term vanishes identically. Let us now focus on the first term in (100). Hence, Note that equation (100) is valid for any spatial dimensions, since we still have not used the
2-dimensional form of ¯ηi jkℓ. Moreover, if the stress tensor is symmetric, ¯ηi jkℓ= ¯ηjikℓand the
first term vanishes identically. Let us now focus on the first term in (100). Hence, 2εABC ¯ηjiℓk∂jξm
A ∂mξi
B∂ℓξk
C = εABC ¯ηjiℓkεjiεnr∂nξm
A ∂mξr
B∂ℓξk
C = 2ΓHεjkδiℓ∂jξi
A∂ℓξk
B∂mξm
C , and equation (100) becomes εABC
Z
d2x
∂ξi
B
∂x j
(x)
∂ξk
C
∂xℓ
(x)
ΓH(x)(εjkδiℓ+ δjkεiℓ) −¯ηjiℓk(x)
∂ξm
A
∂x m (x) −ξm
A (x)
∂¯ηjiℓk
∂x m (x)
+
Z
d2 y ξm
A (y){ ¯ηjiℓk(x),Jm(y)}
= 0. (101) (101) However, using that εABC∂iξi
A∂jξj
B = 0, together with However, using that εABC∂iξi
A∂jξj
B = 0, together with εjkδiℓ+ δjkεiℓ= εjℓδik + δjℓεik , we obtain εABC
Z
d2x
∂ξi
B
∂x j
(x)
∂ξk
C
∂xℓ
(x)
εjℓδik + δjℓεik
ΓH(x) −ηH(x)
∂ξm
A
∂x m (x) −ξm
A (x)∂ηH
∂x m (x)
−
εjiδℓk −δjiεℓk
ξm
A (x) ∂ΓH
∂x m (x) +
Z
d2 y ξm
A (y){ ¯ηjiℓk(x),Jm(y)}
= 0. (102) Here is convenient to use that ΓH is a function of ρ, that is, Here is convenient to use that ΓH is a function of ρ, that is, Here is convenient to use that ΓH is a function of ρ, that is,
ΓH
ρ(x)
,Jm(y)
= −Γ ′
H
ρ(x)
ρ(y) ∂
∂ym δ(x −y). (103) (103) 20 SciPost Phys. B
Condition to satisfy the Jacobi identity (108) Using equation (105), we can eliminate the dependence in ΓH, since −εi j
∂
∂x j
ΓH(x) ∂
∂x k
δ(x −y) = {∂∗
i ηH(x),Jk(y)} −ηH(y)εi j
∂2
∂yj∂yk δ(x −y),
(109)
εk j
∂
∂yj
ΓH(x) ∂
∂yi
δ(x −y) = {Ji(x),∂∗
k ηH(y)} + ηH(x)εkj
∂2
∂x j∂x i δ(x −y). (110) Therefore, we obtain Therefore, we obtain ∂
∂x j
¯ηjiℓk(x) ∂
∂xℓ
δ(x −y) ={∂∗
i ηH(x),Jk(y)} + {Ji(x),∂∗
k ηH(y)} ∂
∂x j
¯ηjiℓk(x) ∂
∂xℓ
δ(x −y) ={∂∗
i ηH(x),Jk(y)} + {Ji(x),∂∗
k ηH(y)}
+
∂iηH(y) ∂
∂yk −∂∗
k ηH(x) ∂
∂x k
δ(x −y). (111) +
∂iηH(y) ∂
∂yk −∂∗
k ηH(x) ∂
∂x k
δ(x −y). (111) (111) Combining this with equation (26), we see that the quantities Ji+∂∗
i ηH are the diffeomorphism
generators, that is, they satisfy following algebra Ji + ∂∗
i ηH
(x),
Jk + ∂∗
k ηH
(y)
=
Ji + ∂∗
i ηH
(y) ∂
∂yk −
Jk + ∂∗
k ηH
(x) ∂
∂x i
δ(x −y). (112 Ji + ∂∗
i ηH
(x),
Jk + ∂∗
k ηH
(y)
=
Ji + ∂∗
i ηH
(y) ∂
∂yk −
Jk + ∂∗
k ηH
(x) ∂
∂x i
δ(x −y). (112) Ji + ∂∗
i ηH
(x),
Jk + ∂∗
k ηH
(y)
=
Ji + ∂∗
i ηH
(y) ∂
∂yk −
Jk + ∂∗
k ηH
(x) ∂
∂x i
δ(x −y). (112) 21 SciPost Phys. 14, 103 (2023) References [1] E. Lifshitz and L. Pitaevskii, Physical kinetics: Volume 10, Butterworth-Heinemann, Ox-
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4877(94)90038-8. [26] P. A. M. Dirac, Lectures on quantum mechanics, Courier Corporation, North Chelmsford,
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594 (1992), doi:10.1016/0021-8928(92)90017-3. [28] V. Kozlov, Realization of nonintegrable constraints in classical mechanics, Proc. USSR Acad. Sci. 272, 550 (1983). [29] M. Kaminski and S. Moroz, Nonrelativistic parity-violating hydrodynamics in two spatial
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Súvislosti konceptu spoločensky zodpovedného podnikania
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Pošta, Telekomunikácie a Elektronický obchod
ISSN 1336-8281
SÚVISLOSTI KONCEPTU SPOLOČENSKY ZODPOVEDNÉHO
PODNIKANIA
Vladimíra Žiačková∗
Úvod
Spoločensky zodpovedné podnikanie (CSR) je konceptom, ktorý pozitívnym vplyvom
na spoločnosť na mikroúrovni ovplyvňuje zároveň celú spoločnosť a úzko súvisí s naliehavou
snahou nájsť prostriedky riešenia globálnych problémov dnešného sveta. Tlak na podniky,
aby sa začali správať spoločensky zodpovedne, je odpoveďou na sociálne a ekonomické
výzvy, ktorým čelia komunity všade na svete, a je dôkazom, že ani samotné vlády, ani
predstavitelia občianskej spoločnosti nedokážu nájsť dlhodobo udržateľné riešenia bez
zapojenia súkromného sektora.
V súčasnom období zvyšujúcej sa konkurencie, ako aj zvyšujúcich sa požiadaviek
zákazníkov, ktoré spôsobujú komplexné zmeny okolia, je samozrejmé, že šancu uspieť majú
len podniky, ktoré sú dostatočne flexibilné. Preto sa počas uplynulých desiatich rokov
spoločensky zodpovedné podnikanie stalo rozhodujúcim nástrojom podnikovej politiky.
Podniky nie sú uzatvorené jednotky, ktoré nie sú nezávislé od prostredia, v ktorom
pôsobia. Práve naopak – ich aktivity vedú k tomu, že sú závislé od stálej výmeny s vonkajším
prostredím a formujú globálny systém, ktorý má ekologickú, ekonomickú a sociálnu stránku.
Podniky vytvárajú vzájomný vzťah s prostredím, keďže vplyvy na spoločnosť vyvolané
činnosťou podnikov pôsobia spätne na samotné podniky. Táto súvislosť je známa ako princíp
kontextuálnej relativity. Na základe tohto princípu podniky neexistujú izolovane a preto je
v ich záujme brať do úvahy ekologickú, či sociálnu stránku svojich podnikateľských aktivít.
CSR vs. trvalo udržateľný rozvoj a podnikateľská etika
Trvalo udržateľný rozvoj predstavuje koncept, ktorý bol prijatý Svetovou konferenciou
OSN pre životné prostredie a rozvoj a neskôr aj Svetovou bankou. Tento koncept vychádza
z myšlienky zladiť rast blahobytu žijúcich generácií s ochranou životného prostredia.
Kľúčovou ideou je nelimitovať možnosti budúcich generácií. Pojem trvalo udržateľný rozvoj
(sustainable development) sa prvýkrát objavil v správe Svetovej komisie pre životné
prostredie a rozvoj zo summitu v Rio de Janeiru. Spôsob podnikania založený na trvalo
udržateľnom rozvoji hľadá rovnováhu medzi individuálnymi právami a slobodami
a vymedzením zodpovednosti za svoje správanie so zreteľom na dôsledky svojho konania vo
vzťahu ku všetkým zainteresovaným stranám. [1] Národná stratégia trvalo udržateľného
rozvoja SR hovorí, že „trvalo udržateľným rozvojom sa rozumie cielený, dlhodobý,
komplexný a synergický proces, ovplyvňujúci podmienky a všetky aspekty života, na všetkých
∗
Ing. Vladimíra Žiačková, Žilinská univerzita v Žiline, Fakulta Prevádzky a ekonomiky dopravy a spojov,
Katedra spojov, Univerzitná 1, 010 26 Žilina, tel. č.: 041/513 3144, e-mail: vladimira.ziackova@fpedas.uniza.sk
IV/2010
52
Pošta, Telekomunikácie a Elektronický obchod
ISSN 1336-8281
úrovniach a smerujúci k takému funkčnému modelu určitého spoločenstva, ktorý kvalitne
uspokojuje biologické, materiálne, duchovné a sociálne potreby a záujmy ľudí, pričom
eliminuje alebo výrazne obmedzuje zásahy ohrozujúce, poškodzujúce alebo ničiace
podmienky a formy života, nezaťažuje krajinu nad únosnú mieru, rozumne využíva jej zdroje a
chráni kultúrne a prírodné dedičstvo.“
Podnikateľská etika je normatívna etika, ktorá sa zaoberá pôsobením morálnych
noriem a princípov na všetkých úrovniach ekonomiky. Predmetom podnikateľskej etiky je
oblasť konfliktu medzi ekonomickou a etickou racionalitou, medzi individuálnymi
a všeobecnými záujmami, medzi princípom maximalizácie zisku a dobrom, resp. princípom
spravodlivosti. [2] Vzťah medzi podnikaním a spoločenskou zodpovednosťou je jednou
z najaktuálnejších tém podnikateľskej etiky. [3]
Všetky uvedené teórie vychádzajú zo zodpovednosti voči spoločnosti, sú však
viditeľné určité rozdiely. Koncept zodpovedného podnikania je zameraný najmä na externé
prostredie a prvotne vychádza z marketingu, trvalo udržateľný rozvoj sa zaoberá životným
prostredím a podnikateľská etika vychádza z princípu etiky samotnej, aplikovanej
v podnikateľskom prostredí. Dodržiavanie princípov zodpovedného podnikania je kľúčom
k trvalo udržateľnému rozvoju. Ak sa však podnik hlási k princípom podnikateľskej etiky,
tým sa hlási aj k ekologickému a sociálne orientovanému podnikaniu. Jednoznačne môžeme
konštatovať, že medzi týmito teóriami je veľmi tenká línia a často medzi nimi dochádza
k názorovým nezrovnalostiam a prelínaniu obsahových vymedzení.
Prelínanie týchto konceptov reflektuje Reidenbachov a Robinov model, v rámci
ktorého môžeme určiť niekoľko vývojových stupňov morálneho rozvoja podnikov, ktoré sú
znázornené na obrázku 1.
ETICKÝ
ETICKY SA RODIACI
SPOLOČENSKY
ZODPOVEDNÝ
FORMÁLNE PRÁVNY
AMORÁLNY
Obrázok 1. Reidenbachov a Robinov model morálneho rozvoja podniku
Zdroj: ROLNÝ, I. - LACINA, L.: Globalizace, etika, ekonomika. 3. vyd. Ostrava: Key Publishing, s.r.o.,
2008. 281 s. ISBN 978-80-87071-62-5. s. 65.
Z obrázku vyplýva, že autori rozlišujú z etického hľadiska celkom 5 vývojových typov
podnikov podľa proporcií ich záujmu o zisk a podnikateľskú etiku. Adekvátne
charakteristikám jednotlivých stupňov môžeme prisúdiť i mieru spoločenskej zodpovednosti
podniku.
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1. stupeň – amorálny:
V tejto fáze sa podnik riadi zásadou, že jeho správanie je etické, pokiaľ jeho nečisté
praktiky nie sú odhalené. Nijaký etický kódex, príp. iná norma tu neexistujú, všetko je
podriadené maximalizácii zisku.
2. stupeň – formálne právny:
Podnik dbá o to, aby jeho činnosť bola po formálnej právnej stránke v poriadku.
Pohybuje sa výhradne na pôde legálnosti, i keď maximálne využíva legislatívne nedostatky vo
svoj prospech. Ak sa objavia spoločenské problémy, na škody, ktoré spôsobí reaguje ex-post.
Ak existuje podnikový etický kódex, či iné verejne prezentované zásady, sú zamerané
výhradne na požiadavky lojality zamestnancov voči podniku.
3. stupeň – spoločensky zodpovedný:
Manažment podniku si uvedomuje, že fungovať len na právnej rovine nestačí, preto
vzrastá jeho záujem o podnikateľskú etiku. Podniková kultúra odráža zodpovedný občiansky
postoj, nezameriava sa výhradne na akcionárov, ale berie ohľad i na širšiu verejnosť. Zvyšuje
sa vyváženosť záujmu o zisk s etickou stránkou spôsobu jeho dosiahnutia. Chýbajú však
konkrétne systémové a organizačné opatrenia.
4. stupeň – eticky sa rodiaci:
Etické hodnoty sa stávajú súčasťou podnikovej kultúry. Najvyššími hodnotami
podnikového manažmentu sa stávajú vytýčené kľúčové hodnoty podniku, ktoré sú
deklarované verejnosti. Na tomto stupni sa objavuje aktívna snaha vedenia reagovať na
vznikajúce spoločenské problémy a prihlásiť sa verejne ku spoločenskej zodpovednosti. Pri
ekonomických rozhodnutiach manažment prihliada k morálnym hodnotám. I napriek tomu na
tomto stupni nie sú spracované etické princípy a zásady do celej organizačnej štruktúry
podniku. Etika ešte nie je súčasťou strategického plánovania, i keď je na ňu kladený zreteľ pri
praktickej podnikateľskej činnosti.
4. stupeň – etický:
Tento stupeň je charakteristický rovnovážnym záujmom podniku o etické
a ekonomické výsledky. Etická analýza ekonomickej činnosti je integrovanou súčasťou
podnikateľských zámerov podniku a jeho strategického plánu a využíva ju na predvídanie
možných problémov. Dôraz na etické normy a princípy je súčasťou všetkých dokumentov
a materiálov podniku. V jeho organizačnej štruktúre existujú články vedenia, ktoré sa priamo
etickými problémami a ich predchádzaním zaoberajú. [4]
Stakeholderská teória
„Stakeholderská teória identifikuje najdôležitejšie skupiny, ktoré podnik ovplyvňujú,
alebo ktoré ovplyvňuje samotný podnik. Teória pomohla manažérom, ktorí chceli aplikovať
spoločensky zodpovedné podnikanie v praxi, určiť, kam majú zacieliť svoju pozornosť a
upresnila voči komu majú byť zodpovední.“ Uvedená teória predstavuje formuláciu
stakeholderskej koncepce vytvorenú Fremanom v roku 1984. [4]
Práve od tohto roku sa začínajú objavovať namiesto všeobecných definícií, ktorých
objektom je osoba manažéra, definície reagujúce na stakeholderský prístup. Najlepšie je tento
posun viditeľný v definíciách Johnsona, ktorý tvrdí, že zodpovedný podnik je ten, ktorý berie
do úvahy okrem záujmov shareholderov tiež záujmy zamestnancov, dodávateľov, lokálnych
komunít a spoločnosti. [5]
Táto teória vyjadruje, že podnik vystupuje ako subjekt zodpovednosti za svoje konanie
a za dôsledky svojho konania vo vzťahu k rozličným skupinám. [1] Pre tieto skupiny sa
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používa pojem stakeholderi, ktorý nemá úplne presný jednoslovný preklad do slovenčiny, kde
sa zaužíval preklad „záujmové skupiny“, príp. „zainteresované subjekty“. [6]
S rozvojom stakeholderskej teórie sú odhaľované ďalšie skupiny, ktoré sú vo
vzájomnej interakcii s podnikom a teda voči ktorým by mal byť podnik zodpovedný. Tým
stakeholderská teória, ktorá v 90. rokoch minulého storočia pomohla spresniť šírku
podnikového záberu voči stakeholderom, začína vďaka svojmu neustálemu rozvoju strácať
hranice, čo spôsobuje, že sa stáva pre zodpovedné podnikanie nepoužiteľnou, resp.
použiteľnou len pri určitom obmedzení a za cenu určitého skreslenia. [4] Aj napriek tomu má
stakeholderská teória stále nezanedbateľný význam. Možným pozitívnym výsledkom dialógu
so zainteresovanými skupinami je napr. šírenie dobrých praktík, vzájomná inšpirácia a
motivácia. Veľmi zreteľne sa tento aspekt prejavuje v dodávateľsko-odberateľských
vzťahoch, napr. ak je odberateľom podnik s vysokým profilom spoločenskej zodpovednosti
a ak bude rovnaké štandardy vyžadovať od svojich dodávateľov.
Dialóg so zainteresovanými subjektmi je zložitý, a to predovšetkým s tými, ktoré
podniky nie vždy považujú za svoje zainteresované subjekty (napr. nevládne ekologické
organizácie). Má byť vedený včas, transparentne, efektívne, racionálne a s obojstrannou
dobrou vôľou. Takto vedený dialóg, môže prinajmenšom pomôcť prekonávať vzájomnú
nedôveru a zaisťovať vzájomné pochopenie. Dialóg potom v ideálnych prípadoch môže
vyústiť až v dlhodobé partnerstvo medzi jednotlivými sektormi spoločnosti - súkromným
a verejným (tzv. cross-sector partnership). [7]
Šírku záberu stakeholderskej koncepcie najvýstižnejšie zobrazuje prehľad uvedený
v Prílohe A. Podnik potrebuje vedieť, ktorí stakeholderi sú najdôležitejší. Preto by mal pred
zahájením spoločensky zodpovedných aktivít vytvoriť tzv. analýzu zúčastnených strán. [8]
Pomocou analýzy podnik určí kľúčových stakeholderov, ktorí majú najväčší vplyv na jeho
prosperitu a najvyššie očakávania od jeho zodpovedného podnikania. Pri analýze je možné
použiť maticu zobrazenú na obrázku 2.
miera očakávania
vysoká
nízka
priebežne
informovať
viesť dialóg
odpovedať
na otázky
zaistiť
spokojnosť
nízka
vysoká
miera vplyvu
Obrázok 2. Matica analýzy stakeholderov
Zdroj: STEINEROVÁ, M., VÁCLAVÍKOVÁ, A., MERVART, R. (Business Leaders Forum): Společenská
odpovědnost firem. Praha: TOP Partners, s.r.o., 2008, s. 17.
Jednotlivým kvadrantom matice podnik priradí stakeholderov podľa miery ich vplyvu
a očakávaní. Tým zároveň získa predstavu o ďalšom postupe voči jednotlivým skupinám.
Riadenie spolupráce so stakeholdermi vedie k ich poznaniu, porozumeniu ich záujmov
a k následnému dialógu, ktorého výsledkom je obojstranná spokojnosť – tzv. win – win
situácia. Ideálnym stavom je rovnováha medzi aktivitami, ktoré uprednostňuje vedenie
podniku a tými, o ktoré prejavia záujem stakeholderi. [9]
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Pyramída spoločensky zodpovedného podnikania
Archie B. Carroll bol prvým teoretikom, ktorý rozlíšil viac druhov podnikovej
zodpovednosti. Pyramída CSR, zobrazená na obrázku 3, by mala manažérom pomôcť
systematicky uvažovať o očakávaniach rozličných skupín stakeholderov. Vymedzenie
dimenzií v pyramíde je pragmatické, pretože akceptuje tiež požiadavky na ziskovosť
a legálnosť činnosti podnikov. Nerieši však situácie, keď sa dostanú niektoré zodpovednosti
do konfliktu. [5]
filantropická
zodpovednosť
etická
zodpovednosť
právna
zodpovednosť
ekonomická zodpovednosť
Obrázok 3. Pyramída spoločenskej zodpovednosti
Zdroj: WERTHER, W., CHANDLER, D.: Strategic Corporate Social. Sage Publications, Inc., California,
2006. ISBN 978-1-4129-1373- 7, p. 9.
Podrobnejšia konštrukcia pyramídy spoločenskej zodpovednosti je zameraná na
rozlíšenie podnikovej filantropie a zodpovedného podnikania. Toto rozlíšenie reflektuje
obrázok 4.
podniková
filantropia
Charitatívne
dary
Spoločenské
investície
Komerčné aktivity v
spoločnosti
Nezištná podpora verejne prospešných
projektov a potrebných oblastí
prostredníctvom darov a služieb.
Strategická angažovanosť podnikov,
ktorá má pozitívny vplyv na reputáciu.
Spojenie komerčných a filantropických
aktivít spoločnosti, propagácia značky.
Mandatórne
výdavky
Výdavky, ktoré sú dôsledkom zákona,
smernice alebo zmluvy, napr. použitie
podielu zaplatenej dane na osobitné
účely.
Poslanie firmy –
komerčná činnosť
Podnik úspešne realizuje svoju komerčnú
činnosť s cieľom dosiahnuť max. zisk,
zároveň dodržiava etické, spoločenské
a environmentálne normy.
spoločensky
zodpovedné
podnikanie
Obrázok 4. Rozšírená pyramída spoločenskej zodpovednosti
Zdroj: HORÁKOVÁ, I., et al.: Strategie firemní komunikace. Praha: Management Press, 2008. 233 s.
ISBN 978-80-7261-178-2, s. 93.
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Obrázok popisuje štruktúru rôznych foriem podnikovej angažovanosti a je štandardom,
ktorý definuje náklady vynaložené na spoločensky zodpovedné aktivity. Tento štandard
známy pod názvom „Štandard zodpovedný podnik“ v roku 2005 zaviedlo české Fórum
darcov. [10]
Trojitá výsledovka
Spoločenská zodpovednosť podniku sa prejavuje integráciou pozitívnych postojov,
praktík, či programov do stratégie podniku. Vyžaduje posun pohľadu na vlastnú spoločenskú
rolu z úrovne „profit only“ k širšiemu pohľadu v kontexte 3P – „people, planet, profit“ (ľudia,
planéta, prínos) ako znázorňuje obrázok 5.
PRÍNOS
triple bottom
line
PLANÉTA
ĽUDIA
Obrázok 5. Trojitá výsledovka, Zdroj: vlastné spracovanie
Kontext troch prvkov, ktoré tvoria základ pyramídy CSR, znamená fungovanie
s ohľadom na tzv. triple – bottom – line, kedy sa podnik sústreďuje nielen na ekonomický
rast, ale aj na environmentálne, či sociálne aspekty svojej činnosti [11]
Porterova konkurenčná výhoda
Porter definuje, že konkurenčná výhoda je jadrom výkonnosti podniku na tých trhoch,
kde je konkurencia. Vzniká z hodnoty, ktorú je podnik schopný vytvoriť pre kupujúcich,
a ktorá prevyšuje náklady podniku na jej vytvorenie. [12] Podnik má konkurenčnú výhodu, ak
implementuje stratégiu, ktorú konkurenti nie sú schopní napodobniť, prípadne by to pre nich
bolo príliš nákladné. Práve takou stratégiou je stratégia zodpovedného podnikania.
Záver
Kým v minulosti pojem spoločensky zodpovedné podnikanie zosobňovali najmä
filantropi, v súčasnosti sa stáva neoddeliteľnou súčasťou bežnej praxe. Túto skutočnosť
výstižne vyjadruje výrok bývalého britského premiéra Gordona Browna: „Spoločenská
zodpovednosť podnikov dnes smeruje ďaleko za hranice filantropie minulosti a stáva sa z nej
celoročná zodpovednosť, ktorú podniky prijímajú s ohľadom na životné prostredie, ktoré ich
obklopuje, na zacielenie do miestnych komunít a s vedomím, že meno značky závisí nielen na
kvalite, cene a nezameniteľnosti, ale rovnako na celkovom spolupôsobení so zamestnancami, s
komunitou a životným prostredím.
Požiadavka spoločensky zodpovedného podnikania stojí stále naliehavejšie v popredí
všetkých podnikateľských aktivít. Vzťahuje sa vždy na konkrétne prostredie, jeho charakter
a špecifiká. Subjekt tak vždy stojí v prostredí určitých spoločenských hodnôt, preferencií a
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záujmov, ku ktorým sa vzťahuje a ktoré ovplyvňujú proces jeho rozhodovania o prevzatí
vlastnej zodpovednosti. V súčasnosti sa stále viac presadzuje tendencia chápania
zodpovednosti nie ako osobnej zodpovednosti pred určitou konkrétnou situáciou, ale ako
zodpovednosť vo vzťahu k spoločnosti, ľudstvu a prírode. Preto je teória spoločensky
zodpovedného podnikania vysoko aktuálna. Nehovorí sa už ani tak o tom, či sa majú podniky
správať spoločensky zodpovedne, ale skôr o tom, čo to presne znamená a ako túto ideu
podporiť. Ťažiskom by mala zostať prax - realizácia konkrétnych aktivít a opatrení, jasne
definované, transparentné a dodržiavané pravidlá, vytváranie a implementácia uznávaných
štandardov.
Literatúra
[1] REMIŠOVÁ, A.: Etika a ekonomika. 2. vyd. Bratislava: Ekonomická univerzita
v Bratislave, Vydavateľstvo Ekonóm, 2004. 238 s. ISBN 80-225-1820-4.
[2] REMIŠOVÁ, A.: Podnikateľská etika v praxi. Vydavateľstvo EPOS, Bratislava. 1999.
272 s. ISBN 80-8057-106-6.
[3] ROLNÝ, I. - LACINA, L.: Globalizace, etika, ekonomika. 3. vyd. Ostrava: Key
Publishing, s.r.o., 2008. 281 s. ISBN 978-80-87071-62-5.
[4] BLAŽEK, L. - DOLEŽALOVÁ, K. - KLAPALOVÁ, A.: Společenská odpovědnosť
podniku. In: WORKING PAPER č. 9/2005, Centrum výzkumu konkurenční schopnosti
české ekonomiky. Brno, 2005. ISSN 1801-4496.
[5] CAROLL, A. B. - BUCHHOLTZ, A. K.: Business and Society - Ethics and Stakeholders
Management. 7. vyd. Ohio: SouthWestern Publishing Co., 1999. 970 s. ISBN 978-0-32456939-1.
[6] BUSSARD, A. – BUNČÁK, M. – MARČEK, E. – MAZURKIEWICZ, P. – MARKUŠ,
M.: Spoločensky zodpovedné podnikanie. [online]. Bratislava: Nadácia Integra, 2005.
[2010-06-06]. Dostupné na: <http://www.nadaciapontis.sk/tmp/asset_cache/link/
0000013632/Publikacia_SZP.pdf>.
[7] FRANC, P. - NEZHYBA, J. - HEYDENREICH, C: Když se bere společenská
odpovědnost vážně. 1. vyd. Brno: Ekologický právní servis, 2006. 72 s. ISBN 80-8654408-7.
[8] MAJTÁN, M., et al.: Manažment. Bratislava: SPRINT, 2008. 424 s. ISBN 978-80-8908572-9.
[9] STEINEROVÁ, M. - VÁCLAVIKOVÁ, A. - MERVART, R.: Společenská odpovědnost
firem, průvodce nejen pro malé a střední podniky. Praha: TOP Partners, s.r.o., 2008.
[10] HORÁKOVÁ, I., et al.: Strategie firemní komunikace. Praha: Management Press, 2008.
233 s. ISBN 978-80-7261-178-2.
[11] TRNKOVÁ, J.: Společenská odpovědnost firem - kompletní průvodce tématem & závěry
z průzkumu v ČR. Praha: Business Leaders Forum, 2004. 56 s.
[12] ZICH, R.: Strategický rozvoj konkurenčních výhod v koncepci úspěchuschopnosti ve
vztahu k pojetí založeném na zdrojích a základních kompetencích. In Ekonomika
a management. [online]. Vydanie 3/2009. [Citované 2010-08-01]. Dostupné na:
http://www.ekonomikaamanagement.cz/cz/clanek-strategicky-rozvoj-konkurencnichvyhod-v-koncepci-uspechuschopnosti-ve-vztahu-k-pojeti-zalozenem-na-zdrojich-azakladnich-kompetencich.html. ISSN 1802-8934.
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TUNNEL PORTAL INSTABILITY IN LANDSLIDE AREA AND REMEDIAL SOLUTION: A CASE STUDY
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Acta Polytechnica
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∗corresponding author: farhadfarhadi18964@gmail.com Abstract. The construction of tunnel portals in mountainous or slope areas often involves problems,
which are closely related to factors, such as slope topography, geology, geotechnics, construction
geometry and the tunnel excavation method. The activation of landslides or the acceleration of these
events is one of the main challenges faced in the construction of tunnel portals. In this paper, we address
the instability problem in Sabzkuh tunnel portal that has been excavated with a complex geological
profile and high seismicity in Iran’s High Zagros region. The complexity and intense heterogeneity in
geological formations, land acquisition problems and the lack of appropriate monitoring programs led
to the instability of the tunnel portal. The excavation process started without applying appropriate
techniques for a ground stabilization. The use of inappropriate tunnel excavation methods for this
unstable geological structure resulted in an activation of an old Solaghan fault and several collapses in
the tunnel. Crossing the collapsed areas and reinforcing the tunnel portal took about 7 months and
imposed heavy costs on the project. This case study deals with the importance of the choice of the site
location, ground and underground monitoring, analysing and summarizing the collected data in order
to prepare a geological model before and during the construction process. Keywords: Slope instability, collapse, landslide, Sabzkuh Tunnel, remedial solution DOI:10.14311/AP.2019.59.0435
Acta Polytechnica 59(5):435–447, 2019 DOI:10.14311/AP.2019.59.0435
Acta Polytechnica 59(5):435–447, 2019 © Czech Technical University in Prague, 2019
available online at https://ojs.cvut.cz/ojs/index.php/ap TUNNEL PORTAL INSTABILITY IN LANDSLIDE AREA AND
REMEDIAL SOLUTION: A CASE STUDY rhad Farhadi Ayoubloua,∗, Majid Taromib, Abbas Eftekharic Farhad Farhadi Ayoubloua,∗, Majid Taromib, Abbas Eftekharic a Amirkabir University of Technology, Faculty of Engineering, Department of Civil Engineering, Hafez Street, No
350, 4413-15875 - Tehran, Iran b Islamic Azad University of South Tehran Branch, Faculty of Engineering, Department of Civil Engin
Karimkhan-e-Zand Street, No. 223, 1584743311 - Tehran, Iran Islamic Azad University of South Tehran Branch, Faculty of Engineering, Department of Civil Engineer
Karimkhan-e-Zand Street, No. 223, 1584743311 - Tehran, Iran c Kashan University, Faculty of Engineering, Department of Mining Engineering, 6th kilometer from Ghotbe
Ravandi Boulevard, 8731753153 - Kashan, Iran Kashan University, Faculty of Engineering, Department of Mining Engineering, 6th kilometer from Gho
Ravandi Boulevard, 8731753153 - Kashan, Iran c Kashan University, Faculty of Engineering, Department of Mining Engineering, 6th kilometer from Ghotbe
Ravandi Boulevard, 8731753153 - Kashan, Iran ∗corresponding author: farhadfarhadi18964@gmail.com ∗corresponding author: farhadfarhadi18964@gmail.com 1. Introduction characteristics of soil layers, old landslide activation,
poor drainage, and the use of unfavourable tunnel
excavation methods caused a funnel like collapse in
tunnel in such a way that the cave-in measured about
22 meters in diameter on the ground level. Crossing
through the collapsing area took about seven months
to complete and it imposed high costs on the project
and consequently its schedule [1, 2]. Sabzkuh water conveyance tunnel with a length of
10,617 meters is being excavated using both conven-
tional and mechanized techniques in Chaharmahal
and Bakhtiari Province across the Iran’s central zone
and Zagros and with a close distance from the Za-
gros Fault in the High Zagros region. The Naghan
earthquake on 7 May 1997 with a 6 magnitude on
the Richter scale and the resulting landslide in the
rural areas of Saki-Abad and at the southern tunnel
entrance in the southern part of Choghakhor Lake
caused a structural failure in the region under the
study. This paper presents a case study of the instability
at Sabzkuh tunnel portal, which is located in an area
with a high potential for landslides, faults and the
complex geological structures that were not known
before starting the tunnelling operations. After de-
scribing the geological characteristics and geotechnical
conditions of the study area, the importance of mon-
itoring systems to identify landslide and instability
potentials before and during the tunnel excavation
was estimated using various methods. Afterwards, the
slope instability and tunnel collapse mechanisms were
investigated. Then, the collected data were accumu-
lated in a database in order to analyse the landslide
profile, find slope improvement strategies, and con-
tinue the excavation operation. Due to geological complexities, high groundwater
levels in the region, and the inability of the project
employer to acquire enough land to build the tunnel en-
trance in an appropriate location, the slope stability in
the Sabzkuh tunnel entrance faced a challenge. After
constructing tranches and before starting the tunnel
excavation, signs of slope instability were observed. However, as these signs were not taken seriously and
there were no proper monitoring programs as well as
guidelines and appropriate measures for stabilization,
the instability level was intensified. After excava-
tion of 35 meters from the tunnel using conventional
methods, the steep slope of layers, poor geotechnical 435 Acta Polytechnica F. F. Ayoublou, M. Taromi, A. Eftekhari Figure 1. Map of geological zone in Iran [3]. Figure 1. 2.1. Geology of study area The study region, Solaghan Fault is located along
northeast Sabzkuh syncline at N130 and a dip di-
rection to the southwest in the southwestern part of
Choghakhor Lake. This fault has caused Paleozoic
units and clastic-rock units on the fault path, have
been placed on recent sediments. There are many
springs such as Saki Abad spring running along this
fault. The fault zone is not visible across the tunnel,
but Solaghan fault can be detected on the satellite
images because of the height differences caused by
the fault and the border that is placed between the
vegetation and mountains. Solaghan Fault is placed 2. General geology on a rupture structure with a dip of 40 to 65 degree
and the fault zone is located in a distance of 0 + 380
(10 + 237) meters from the tunnel portal. This fault
has branches that spread from the high depths to
the surface and are called the STF. In the footwall
and headwall of the fault, two thrust faults have also
been detected and are regarded as the footwall and
headwall of the Solaghan fault zone. The function
of the fault caused the disturbance and complexity
of geological layers in the region, which is displayed
in Figure 2. The STF1 fault is the first fault in the
tunnel portal and is regarded as one of the branches
of footwalls of Solaghan Fault. There is no external
evidence for the existence of the fault in the area of the
tunnel portal. This fault has been discovered based
on the geological log of boreholes and the data from
the geophysical study. These data show that the fault
has a dip close to Solaghan Fault and in the same
direction. The fault zone is located in a distance of
0 + 235 meters from the northern tunnel portal. The
fault is located on a rupture structure with a dip of
about 25 to 60 degrees (Figure 2). The studied region is located in the southeastern part
of Chaharmahal and Bakhtiari Province in Iran. The
water transfer route from Sabzkuh to Choghakhor is
located in wrinkled mountain belts of Zagros, which
is located in the middle part of the Alpine orogeny
belt and is considered as one of the youngest Cenozoic
orogenies. In addition, the tunnel portal is located
in the southern part of the lake of Choghakhor Dam
and the north of Kalar Mountain Range. Zagros
thrust encompasses the highest Zagros Mountains
(Zardkuh 4 400 ˜meters, Oshtorankuh 4 170 meters, and
Dena 4 000 meters) and thus it is called High Zagros
(Figure 1). 1. Introduction Map of geological zone in Iran [3]. 4.3. Slope stability analysis results A comparison of the slope stability safety factors in the
limit equilibrium analysis and the numerical analysis
shows that the safety factor obtained in the numerical
analysis is lower than that obtained through the limit
equilibrium analysis. In addition, the complex geome-
try slope, the presence of water in the slope and the
inclusion of the earthquake effects in both methods
can reduce the slope stability safety factor [6]. The
safety factor calculated from the limit equilibrium and
numerical analysis are shown in Table 2. Stability analysis (Flac/Slope) Due to the advantages of the slope analysis using
numerical analysis compared to the limit equilibrium
analysis, the slope stability analysis was performed
using Flac/Slope Software [5], which is a numerical
software that works based on finite difference method. This software is capable of calculating the safety factor
of slopes by reducing soil shear strength at different
stages to the slope failure. The stability analysis for
the cross-section in question was performed for static
and pseudo-static conditions and in the presence of
water. Table 1 shows the calculated safety factor. 4.2. Numerical analysis and the position of drilled boreholes indicate that the
geological structure in the flood plain is different from
that of the hillsides, and the geological structure of
the entrance area consists of the units mixed with
sand, clay, and silt. In addition, the boreholes and the
surface monitoring results show that the groundwater
is at a high level. 3. Geotechnical study The local evidence and the data from the boreholes
indicate that the geology of the area is composed of
alluvium and debris-flow deposits in the vicinity of the
heights. The results obtained from the observations 436 Tunnel portal instability in landslide area and remedial solution vol. 59 no. 5/2019 Figure 2. The plan of the study area. Figure 2. The plan of the study area. 4. Slope stability analysis To perform the slope stability analysis of Sabzkuh tun-
nel entrance, a limit equilibrium method was employed
using Slide 5.0 Software (2010) [4] and the numerical
analysis using FLAC/Slope [5] and the safety factor
of the slope stability was measured in both static and
pseudo-static conditions. The input parameters of the
soil for these applications are shown in Table 1. The
slope was designed with berms of 4 meter in width
and 8 meters in height each. The slope for the two
lower steps was set as 1 : 1 and for the two higher
steps was set as 1 : 2 (horizontal). Stability analysis (Slide 5.0 Software) The tunnel entrance cross-section was estimated using
Slide 5.0 [4] by including the effects of groundwater
and the pseudo-static seismic analysis. Given the
high seismicity potential of the studied region, the
horizontal seismic coefficient was set as 0.5 and the
minimum safety factor was set as 1. The critical
circular cutting surface was automatically created
and the safety factor was calculated under different
conditions. As it can be seen, the quasi-static slope
safety is generally smaller than that of the static
condition. Also, the presence of the underground
water in the slope can reduce the safety factor by
almost 30 %. 4.1. Limit equilibrium analysis Given the geological conditions of the region un-
der study, which was made of heterogeneous soils,
Morgenestern-Price Method (Half-sine function) was
used to perform the stability analysis of the Sabzkuh
tunnel entrance. However, both methods are disadvantageous as they
do not consider the effects of the tunnel excavation on
the slope stability. Therefore, it can be concluded that
the slope stability calculations, taking into account the
tunnel structure in slope, is a full three-dimensional
problem and using two-dimensional analysis methods
makes the slope stability calculations unreliable. 6. Tunnel collapse and slope
failure Since the gravity component in steep slopes increases
the shear stress, the slope topography and angle is the
main feature of slopes in terms of sensitivity to land-
slide and risk assessment. Therefore, slopes with lower
angles are less likely to undergo failure [7]. Changes
in the slope geometry reduce the shear stress in the
soil yielding and intensify the slope instability. The
problem of land acquisition by the employer affected
slope geometry, so that the tunnel portal was designed
with steep slopes and high altitude. This reduced the
safety factor of the slope stability. The excavation operation of the T1 part of Sabzkuh
tunnel was generally performed below the groundwa-
ter levels. Because of the excavation operation in
the saturated ground, the pore water seeped into the
created cavity. On the one hand, the flow of the
groundwater reduced the quality of geotechnical pa-
rameters of the soil mass around the tunnel, but, on
the other hand, reduced the effective stress around the
tunnel. This problem along with facing the old land-
slide surface with complex geological stratification,
and inappropriate excavation pace, led to the insta-
bility on the tunnel crown. Encountering these areas
at a distance of 35 m along the tunnel simultaneously
led to local collapses in the forefront of the excavation
operation and the rapid development of collapses in
less than 8 hours towards the tunnel crown, creating
a chimney-like cavity at the top of the tunnel and 5. Slope instability monitoring Safety, reliability, the optimization of the design, and
the evaluation of its effectiveness, the calibration of the
employed model, the evaluation of the maintenance
system, the prediction of failure and displacement
are among the main objectives of the monitoring of
geotechnical structures. One of the most primitive
methods of slope monitoring is a visual inspection 437 Acta Polytechnica F. F. Ayoublou, M. Taromi, A. Eftekhari Construction materials
γ (ton/m3)
(deg.)
C (kPa)
ML
1.96
17
28
SC-SM
1.99
29
5
CH-CL
1.80
17
0.00
Table 1. Physical and mechanical features of the slope soil. analysis
safety factor
limit equilibrium analysis
static without groundwater
1.68
static with groundwater
1.39
pseudo-static without groundwater
1.22
pseudo-static with groundwater
1.03
numerical analysis
static without groundwater
1.64
static with groundwater
1.22
pseudo-static without groundwater
1.13
Table 2. The safety factor calculated from the limit equilibrium and numerical analysis. Construction materials
γ (ton/m3)
(deg.)
C (kPa)
ML
1.96
17
28
SC-SM
1.99
29
5
CH-CL
1.80
17
0.00
Table 1. Physical and mechanical features of the slope soil. eventually leading to the slope failure. In addition,
the activation of the old landslide surface caused the
mass smoothening of about 1000 cubic meters of soil
from the collapsing area into the tunnel exterior and
the development of the cavity into the entrance slope
(Figure 4). by geotechnical engineers and geologists. The imple-
mentation of reinforced concrete slabs covering the
surfaces of the slopes and berms led to the inaccu-
racy of visual inspections and observations. Upon the
completion of the excavation and concrete slope cover
and before starting the tunnel excavation, some cracks
were observed on the surface of concrete slab covers
and in the slope surface water sewage channel, which
indicated the displacement in the slopes. 7. The survey phase After the tunnel collapse, given the size and complex-
ities of continuing the excavation process, a working
group of experts consisting of geological, geotechnical,
and structural engineers was formed to investigate the
possible causes of the collapse and how to pass through
the collapsing zone. They also analysed factors af-
fecting the slope stability and the tunnel collapse by
conducting surface and subsurface studies and back
analysis. The following sections addressed the reasons
for the tunnel collapse. This caused the alarm for geotechnical engineers to
design a monitoring system using mapping points for
monitoring slopes. For this purpose, nine settlement
markers were installed on the surface along the tunnel
and the berms and the monitoring of them was car-
ried out by surveying (Figure 3). Readings of those
markers were taken at regular intervals to check for
any signs of settlement or heave. The results of the
monitoring showed some displacements in both Z and
Y directions. 7.2. Geology Placing geological units with different permeability
and strength together and providing a poor surface
with steep slope and improper orientation of the soil
layers are among factors affecting the slope instability
and the collapse in the tunnel. Stratified steep soils
are prone to landslides and displacement along the 438 Tunnel portal instability in landslide area and remedial solution 8. Remedial solution The results of ground surface and subsurface studies
show that the axis of Sabzkuh tunnel has an angle of
about 30 degrees with the old sliding surface. Given
that the tunnel axis is parallel to the slope direction,
the shear deformation occurs along the linear profile. In addition, the angle between the sliding surface
and the tunnel axis resulted in the development of
the shear zone. However, the effects of the tunnel
excavation were not considered in the slope stability
analysis. The results of numerical analyses and limit
equilibrium show that the sliding wedge is located
across the tunnel route and there is a possibility of the
slope instability as a result of the tunnel excavation. In landslides, in which the used materials are mainly
debris and hillside alluvia, the collapsing area is not
generally reinforced under the alluvial deposits and a
shell is located in substances, such as silt and materials
with low adhesion to rock fragments in different sizes. Given the negative effects of the slope materials and
sliding areas in the alluvial slopes and hillside debris,
the slope stability is vulnerable to many different
factors. Therefore, the procedure taken to stabilize
the landslide is of a high importance [8]. 7.3. Hydrology Water is always considered as an important factor in
the slope instability. Climatological studies, periodic
explorations of boreholes and springs in the studied
region and the observation of aquifers when excavating
the tunnel entrance, all of them showed the high
groundwater levels in the region. A nonstop rainfall
just one week before the collapse resulted in the water
infiltration into the pores of the soil masses. On the
one hand, this increased the pore water pressure and
reduced the effective tension among the soil grains and,
on the other hand, the additional weight of the slope
ingredients, due to the saturation, increased the shear
stress between the slope layers. Ultimately, the water
infiltration into the faults increased the hydrostatic
pressure so that the gravity drainage system alone
could not meet the water discharge requirements inside
the slope. Geoelectrical explorations that were performed in
this study used combined resistivity profiling (CRP). This technique is able to detect heterogeneities and
discontinuities, such as fault zones and intersections,
in the studied area. In order to evaluate the variation
in the resistance of alluvial layers and detecting them
based on their resistivity and their possible rupture
to a distance of 350 meters from the entrance of the
tunnel, a total number of 82 CRP stations were used
on four main exploration lines called lines 1 to 4 with
a north-south orientation. In addition, a total of
12 offset lines, termed as X1 to X12, were marked on
the location map (Figure 6). Seismography In order to perform a low-depth reflective survey
across the survey lines in the site of Sabzkuh wa-
ter tunnel, the following operating parameters were
defined as shown in figure 9. 7.5. Geophysical studies 7.5. Geophysical studies weak layers. Thus, special attention must be paid
to the geological aspects when performing the slope
stability assessment. In Figure 5, the geological char-
acteristics of the soil layers, the slope of the layers,
the groundwater level, and the different levels of over-
burden of the tunnel are displayed at a distance of
350 meters from the tunnel entrance (Figure 5). The present study used geoelectrical techniques in
conjunction with seismography to analyse the slope
instability and identify sites with landslide and fault
potentials. Geoelectrics Electrical resistivity methods are among the most
widely used conventional methods of geophysical ex-
plorations that are highly effective in both engineering
studies and exploring various geological features. Elec-
trical resistivity methods are also frequently used to
explore landslides due to their accuracy and speed. The main rationale behind the use of geoelectircal
techniques is their high resolution power to identify
aquifers across the collapse areas as these aquifers
accelerate the slide of instable masses. 7.4. History of landslides and tunnel
excavation To avoid the adverse effects of landslides during the
tunnel excavation, a distance between the tunnel axis
and the sliding area was studied. This requires a good
understanding of the interaction between the landslide
and tunnel excavation, which must be investigated in
terms of controlling displacements and the effects of
stress through long-term monitoring and numerical
analyses. Tunnel portal instability in landslide area and remedial solution vol. 59 no. 5/2019 Figure 3. The location of monitoring points in the tunnel portal. Figure 4. The development of the collapse and slope failur. Figure 3. The location of monitoring points in the tunnel portal. Figure 3. The location of monitoring points in the tunnel portal. Figure 4. The development of the collapse and slope failur. Figure 5. The geological characteristics of the soil layers of tunnel portal. Figure 3. The location of monitoring points in the tunnel portal. Figure 4. The development of the collapse and slope failur. Figure 4. The development of the collapse and slope failur. Figure 4. The development of the collapse and slope failur. Figure 4. The development of the collapse and slope failur. Figure 5. The geological characteristics of the soil layers of tunnel portal. Figure 5. The geological characteristics of the soil layers of tunnel portal. 439 F. F. Ayoublou, M. Taromi, A. Eftekhari Acta Polytechnica 8.3. Debris flows In April 2013, coinciding with the implementation of
the drainage system in the slopes and before the start
of the tunnel excavation, after heavy rainfall and rapid
melting of snow because of a spike in temperature in
the surrounding mountains, signs of the increased
stress imposed on the pre-support systems and the
arch support technique were observed (Figure 10). In order to validate and verify the results of the
numerical analysis, a convergence station was installed
in the centre of the tunnel crown in the collapsing area
and the displacement of the support system during
the filling process was monitored and recorded. The
maximum displacement recorded in the tunnel crown
was 8 mm. The results of the monitoring are shown
in Figure 14. Following this, just one day after the heavy rain-
fall, the second event occurred. Within 35 meters
of the tunnel entrance, about 500 cubic meters of
soil in the form of debris flows started to move from
the tunnel crown toward the entrance of the tunnel
in 8 hours (Figure 11). The samples taken for the
materials showed that more than 50 percent of the
materials included gravels, sand, and silt and only a
small percentage of clay. These materials started to
flow down under the influence of the steep slope of lay-
ers, the gravity, and gravitational forces accompanied
by the increased leakage force. In addition, another
reason for the occurrence of debris flow was the pres-
ence of an old landslide in this area, which placed
unstable soil masses on steep slopes. The infiltration
of water flow over the old landslide lubricated and
smoothed the sliding materials. Besides, the impacts
and shocks from the arch support system stimulated
sliding masses in the slope followed by decreased re-
sistance forces, which resulted in debris flows inside
the tunnel. 8.5. The tunnel excavation method The cross-excavation method resulted in the develop-
ment of the plastic zone around the tunnel and the
tunnel stability was deteriorated after confronting the
old sliding surface, leading to the slope failure. The
forefront displacement was controlled by changing the
cross-excavation method into Sequential Excavation
Method (SEM) and performing the reinforcement mea-
sures in the forefront including the use of fiberglass
nails, traditional cement injection around the tunnel,
an early installation of the apron wall, the improve-
ment of the drainage system, and regular monitoring
inside the tunnel. This resulted in the expansion of the cavity devel-
oped in the entrance and intensified the slope insta-
bility. Besides, the implemented pre-support system
moved down about 60 cm, but it was not broken due 8.2. Slope improvement To fill the cavity developed in the slope by meeting the
slope stability requirements and minimizing stresses
applied to the pre-support system, three options were
proposed, (Table 3) and the three-dimensional mod-
elling was performed using FLAC-3D Software [10]. The input parameters of the soil for the modelling are
shown in Table 1. Given the high groundwater levels and annual rainfalls
in the region as well as the water seepage through
the irrigation of farming lands, two types of drainage
systems were proposed: (1) installing drainage sys-
tems with a long length in the entrance (2) installing
drainage systems inside the tunnel to lower groundwa-
ter levels. A pumping system was used in the route
of Section T1 to lower groundwater levels and to re-
duce risks during the tunnel excavation. The surface
water collection system in the tunnel entrance was
also repaired and improved. Besides, the irrigation of
gardens around the tunnel entrance came to a halt
to reduce the effects of water leakage in this area. Finally, micro-piles and nailing were also employed to
stabilize the slope. In order to model the filling conditions of the col-
lapsing cavity, it was divided into two parts: The first
part started from the tunnel crown to a height of 5 me-
ters and the second parts included areas from a height
of 5 meters to a height of 11.8 meters (Figure 12). In the next stage, the properties of filling materials
were studied and the displacement and maximum
stress on the crown were calculated. The technical and
economic results indicated that the first option is not
favourable because of the displacement and high stress
imposed on the support system. From the second and
third options, the second option was selected due to
lower displacement and stresses applied to the tunnel
crown and its economic advantages. As shown in
Fig. 13, the maximum calculated displacement in the
tunnel crown after filling the collapsing cavity with
soil and lightweight aggregate concrete (LWAC) is
about 20 mm. 8.1. Passing through the collapsing
area of the tunnel After summarizing the data from identification and
survey stages, the three-dimensional slope stability
analysis was performed by considering the sliding sur-
face, the new geological model, and the effects of the
tunnel excavation on the slope stability. The results of
this analysis predicted the tunnel collapse [2]. There-
fore, as indicated by the complex geological model,
conducting complementary studies and revising the
excavation method was deemed necessary. In order to pass the collapsing area, the causes and
mechanism of similar collapses were studied by taking
into account technical and economic considerations. For this purpose, the results of second stage excavation
of Istanbul Metro between Unkapani and Yenikapi
were studied. Given the almost similar excavation
method and geological conditions in both projects,
and also the efficiency of umbrella arch method (UAM) 440 Tunnel portal instability in landslide area and remedial solution vol. 59 no. 5/2019 Figure 6. Profile plan of geoelectrical explorations. Figure 6. Profile plan of geoelectrical explorations. Figure 7. The cross-section of geoelectrical explorations. Figure 7. The cross-section of geoelectrical explorations. 441 F. F. Ayoublou, M. Taromi, A. Eftekhari Acta Polytechnica blou, M. Taromi, A. Eftekhari
Acta Pol
Figure 8. Profile plan of geoelectrical cross-sections. Figure 9. Seismic reflection survey profile. Figure 8. Profile plan of geoelectrical cross-sections. Figure 8. Profile plan of geoelectrical cross-sections. Figure 9. Seismic reflection survey profile. Figure 9. Seismic reflection survey profile. 442 Tunnel portal instability in landslide area and remedial solution vol. 59 no. 5/2019 in sensitive regions, this method was proposed by the
designers [9]. Then, in the implementation phase of
this method in the collapsing area in Section T1 of
Sabzkuh tunnel, IPE180 with 15 cm spacing and a
length of 9 meter was used based on the design re-
quirements, implementing the arch support technique
and results of the finite element analysis [2]. to its high rigidity. After the discharge of sliding mate-
rials inside the tunnel, so as to prevent re-occurrence
of the problem and reduce the pressure from the exca-
vation, the forefront was plugged with plastic concrete
with a thickness of 10 m before resuming the excava-
tion. 8.6. Monitoring stages In order to evaluate the performance and control the
optimal progress of the project based on the rein- 443 F. F. Ayoublou, M. Taromi, A. Eftekhari Acta Polytechnica Figure 10. Cracking in the pre-support system. Figure 10. Cracking in the pre-support system. Options
Materials
Special weight (KN/m3)
First phase materials
Second phase materials
1
Soil
18
2
Soil and lightweight
aggregate concrete (LWAC)
13
18
3
Controlled low-strength concrete
materials (CLSM) and soil
10
18
Table 3. Properties of the proposed options. Figure 11. The mud flow running into the tunnel. rcement procedure, the slope monitoring continued
hrough visual visits and geodetic surveying to make
ure that the instability would not be further devel-
ped in the long run. As it is shown in figure 14,
efore the start of the reinforcement operations, the
splacement rate was on the rise. The displacement
th Y
i
t
th
l
th
d
Figure 12. Two stages of filling the collapsing cavity
above the tunnel crown. of the stage excavation, displacement rates becam
almost stagnant (Figure 15). Figure 10. Cracking in the pre-support system. Figure 10. Cracking in the pre-support system. Options
Materials
Special weight (KN/m3)
First phase materials
Second phase materials
1
Soil
18
2
Soil and lightweight
aggregate concrete (LWAC)
13
18
3
Controlled low-strength concrete
materials (CLSM) and soil
10
18
Table 3. Properties of the proposed options. Table 3. Properties of the proposed options. Figure 12. Two stages of filling the collapsing cavity
above the tunnel crown. Figure 11. The mud flow running into the tunnel. Figure 11. The mud flow running into the tunnel. Figure 11. The mud flow running into the tunnel. Figure 12. Two stages of filling the collapsing cavity
above the tunnel crown. forcement procedure, the slope monitoring continued
through visual visits and geodetic surveying to make
sure that the instability would not be further devel-
oped in the long run. As it is shown in figure 14,
before the start of the reinforcement operations, the
displacement rate was on the rise. The displacement
along the Y axis was greater than along other axes due
to a higher sliding potential. The maximum displace-
ment was observed in Pin No.1, which was caused by
a high pore-water pressure in this area of aquifers that
were observed during the slope excavation. 8.6. Monitoring stages After per-
forming each step of the improvement in the tunnels
and the slope, displacements slowed down. After the
completion of the improvements and with the start of the stage excavation, displacement rates became
almost stagnant (Figure 15). of the stage excavation, displacement rates became
almost stagnant (Figure 15). 9. Discussion and conclusion This article presents a case study of the activation of
a landslide resulting from the tunnel excavation in an
area with complex geological conditions and active
tectonics that were not identified before starting the
tunnelling operation. The excavation of the tunnel
portal in problematic areas has always been associated 444 Tunnel portal instability in landslide area and remedial solution vol. 59 no. 5/2019 Figure 13. The displacement changes around the tunnel after filling the collapsing cavity with the second option. The displacement changes around the tunnel after filling the collapsing cavity with the second option. Figure 13. The displacement changes around the tunnel after filling the collapsing cavity with the sec Figure 14. The displacement curve of the convergence station in the centre of the tunnel crown in collapsing area. Figure 14. The displacement curve of the convergence station in the centre of the tunnel crown in collapsing area. with some challenges, which implies the necessity of
the slope management and planning. Accordingly, the
following points must be taken into account for the
tunnel excavation: • Monitoring and controlling displacement in complex
and problematic areas are of high significance for
exploring and predicting necessary actions and de-
tecting the causes of abnormalities in the slope and
the tunnel support system through measuring sur-
face topography, visual and inspections, piezometer,
convergence-meter inside the tunnel, geotechnical
laboratory studies, and geological mapping. • Monitoring and controlling displacement in complex
and problematic areas are of high significance for
exploring and predicting necessary actions and de-
tecting the causes of abnormalities in the slope and
the tunnel support system through measuring sur-
face topography, visual and inspections, piezometer,
convergence-meter inside the tunnel, geotechnical
laboratory studies, and geological mapping. • Two boreholes A and B had been drilled for the
design of the Sabzkuh tunnel portal to identify
underground excavation layers. Given that the ex-
cavation data were collected from sporadic points,
they were not helpful in estimating the changes in
the underground layers between these two borehole
points. Therefore, integrating the results of ground
and underground studies is necessary in regions
with complex geological conditions in order to pan
an appropriate geological model. • The excavation and maintenance techniques can
affect the stability of the slope. As such, the inter-
action between the excavation method and the slope
stability should be considered in the modelling. 9. Discussion and conclusion • The tunnel excavation resulted in the redistribution
of stress in the earth surrounding the tunnel excava-
tion and the activation of an old landslide. There-
fore, the effects of the tunnel excavation should be
considered in the slope stability analysis. • In mountainous areas, detailed studies need to be
conducted in order to identify old landslides, find
the optimal route for the tunnel axis, and observe
the needed distance from these areas. 445 F. F. Ayoublou, M. Taromi, A. Eftekhari Acta Polytechnica y
,
,
Figure 15. The slope monitoring stages. Figure 15. The slope monitoring stages. Figure 15. The slope monitoring stages. Figure 15. The slope monitoring stages. Acknowledgements [3] M. Mannani, M. Yazdi. Late triassic and early
cretaceous sedimentary sequences of the northern
Isfahan province Central Iran): Stratigraphy and
paleoenvironments. Boletín de la Sociedad Geológica
Mexicana 61:367–374, 2009. doi:10.18268/BSGM2009v61n3a6. The authors are thankful to the Project Manager of
Sabzkuh water supply system, Mr. A. Izadi of F.T.R
Engineering Ins. for sharing his vast experience and his
guidance. The authors are thankful to the Project Manager of
Sabzkuh water supply system, Mr. A. Izadi of F.T.R Engineering Ins. for sharing his vast experience and his
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A decade of neonatal sepsis caused by gram-negative bacilli—a retrospective matched cohort study
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European journal of clinical microbiology & infectious diseases
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| ERROR: type should be string, got "https://doi.org/10.1007/s10096-021-04211-8\nEuropean Journal of Clinical Microbiology & Infectious Diseases (2021) 40:1803–1813 https://doi.org/10.1007/s10096-021-04211-8\nEuropean Journal of Clinical Microbiology & Infectious Diseases (2021) 40:1803–1813 https://doi.org/10.1007/s10096-021-04211-8\nEuropean Journal of Clinical Microbiology & Infectious Diseases (2021) 40:1803–1813 ORIGINAL ARTICLE Abstract This study is to determine the incidence and outcome of neonatal gram-negative bacilli (GNB) sepsis in Stockholm, Sweden, and\ndescribe bacterial characteristics. This is a retrospective cohort study. All infants with GNB-sepsis between 2006 and 2016 were\nincluded and matched with two control groups, with suspected sepsis and uninfected neonates, respectively. Outcome was death\nbefore discharge, risk of death within 5 days after sepsis onset, and morbidity. The resistance pattern from all GNB was collected,\nand all available isolates were subjected to genome typing. All neonates with GNB-sepsis (n = 107) were included, and the\ncumulative GNB-sepsis incidence was 0.35/1000 live born. The in-hospital mortality was 30/107 (28%). GNB late-onset sepsis\n(LOS) was associated with an increase in mortality before discharge compared to uninfected controls (OR = 3.9; CI 1.6–9.4) but\nnot versus suspected sepsis. The suspected LOS cases did not statistically differ significantly from uninfected controls. The case\nfatality rate (CFR) at 5 days was 5/33 (15%) in GNB early-onset sepsis (EOS) and 25/74 (34%) in GNB-LOS. The adjusted\nhazard for 5 days CFR was higher in GNB-LOS versus uninfected controls (HR = 3.7; CI 1.2–11.2), but no significant difference\nwas seen in GNB-LOS versus suspected sepsis or in suspected sepsis versus controls. ESBL production was seen in 7/107 (6.5%)\nof the GNB isolates. GNB-LOS was associated with a higher 5 days CFR and in-hospital mortality compared to uninfected\ncontrols but not versus suspect sepsis. The incidence of both GNB-EOS and GNB-LOS was lower than previously reported from\ncomparable high-income settings. The occurrence of antibiotic resistance was low. Keywords Gram-negative bacilli . Sepsis . Neonatal . Antibiotic resistance . Mortality Viveka Nordberg1,2\n& Aina Iversen3,4 & Annika Tidell5 & Karolina Ininbergs3,4 & Christian G. Giske3,4 & Lars Navér1,2 Received: 20 September 2020 /Accepted: 23 February 2021\n# The Author(s) 2021\n/ Published online: 24 March 2021 Received: 20 September 2020 /Accepted: 23 February 2021\n# The Author(s) 2021\n/ Published online: 24 March 2021 * Viveka Nordberg\nviveka.nordberg@ki.se Keywords Gram-negative bacilli . Sepsis . Neonatal . Antibiotic resistance . Mortality A decade of neonatal sepsis caused by gram-negative\nbacilli—a retrospective matched cohort study Viveka Nordberg1,2\n& Aina Iversen3,4 & Annika Tidell5 & Karolina Ininbergs3,4 & Christian G. G Materials and methods There was no variability of GA in the matching groups, but\nthere was variability in closest birth date in the controls de-\npending on GA. The variability in closest birth date between\ncases in the three matching groups was 10 years, but on aver-\nage below 24 months. Identifying the cases and the controls To identify the sepsis cases, we used the ICD-10 codes for\nGNB-sepsis in the electronic medical record systems Take\nCare and Clinisoft and merged them with the Swedish\nNeonatal Quality Register (SNQ). Patient characteristics from\nthe total NICU-stay were collected. The two groups of controls, manually collected from the\nsame registries, were neonates with suspected sepsis and those\nuninfected during their NICU-stay. We chose controls with the\nsame gestational age (GA) and closest birth date. Suspected\nsepsis was defined as the ICD-10 code P36.9, clinical symp-\ntoms, a negative blood culture, and subsequent antibiotic ther-\napy for at least 5 days. Uninfected infants, alive at 72 h of age,\nwere defined as not fulfilling the ICD-10 criteria for sepsis or\nsuspect sepsis during the NICU-stay. The proportion of the case\nvs suspected sepsis vs uninfected was planned to be 1:1:3. The\nnumber of uninfected neonates in the same gestational ages as\nthe cases during 2006–2016 was insufficient; hence, the pro-\nportion of the cases to controls was 1:1:2.6. We aimed to analyze the incidence of neonatal GNB-\nsepsis and associated mortality and morbidity in neonates\nin our setting. We also wanted to determine whether there\nwere differences in outcome between patients with culture\nproven sepsis, suspected sepsis (negative blood culture)\nand uninfected patients. We characterized the invasive\nbacterial isolates as to clonality and presence of AMR\ngenes. Patients and study design deaths/year globally [13]. A reduction in inappropriate use of\nantibiotics would be the most important step to decrease AMR. The challenge is to reduce the use of antibiotics without an\nincrease in fatal outcome [14, 15]. A matched cohort study was undertaken where all neonates\nwith GNB-sepsis at Stockholm’s four NICUs between\nJanuary 2006 and December 2016 were included. We identi-\nfied all patients with a positive GNB blood culture, at least two\nclinical signs (fatigue, respiratory instability, temperature insta-\nbility, poor feeding, vomiting, cyanosis) and antibiotic therapy\nfor > 5 days. Patients with GPB-sepsis were not analyzed. EOS\nand LOS were defined according to age at onset of sepsis\nsymptoms before or after 72 h of age. Early diagnosis and treatment of neonatal sepsis are dif-\nficult, and the fact that a consensus definition of neonatal\nsepsis is lacking makes it even more challenging [16–18]. The neonatal immune defense, clinical symptoms, and\npathophysiologic responses to bacterial infection differ in\nterm and preterm neonates due to age-dependent maturity. Sepsis onset is most rapid in preterm neonates [19–21]. The\ncharacteristics of the infecting bacteria, such as virulence\nand resistance factors, play a role in the dynamics of\nthe infection. A positive blood culture is the gold stan-\ndard definition of sepsis. However, the difficulties in\ngetting adequate blood volumes for culture and bio-\nmarkers with low sensitivity and specificity complicate\nthe sepsis diagnosis [22]. The intestinal dysbiosis, fol-\nlowing antibiotic treatment, is associated with a higher\nrisk of LOS, necrotizing enterocolitis (NEC) and other\nlong-term morbidities [23–28]. Study population and setting There are six delivery units and four NICUs in the\nStockholm region. A total of 29,553 infants were born alive\nat these delivery units during 2016. The NICUs are\nKarolinska Danderyd (level 2), Karolinska Solna (level\n3), Karolinska Huddinge (level 3), and Södersjukhuset\n(level 2). From March 2014 to May 2016, a seventh small\ndelivery unit and levels 1–2 neonatal unit, BB Sophia,\noperated. Introduction neonatal mortality and accounts for more than one million\ndeaths/year worldwide [1, 2]. In high-income settings, the inci-\ndence of neonatal sepsis is reported to be 1–4/1000 live births\n[1, 3]. Among very low birth weight (VLBW) neonates, ap-\nproximately 30–40% suffer from late-onset sepsis (LOS) with a\nmortality rate between 10 and 36% depending on the infecting\norganism [4–6]. Infants with gram-negative bacilli (GNB)-LOS\nare associated with a higher mortality compared to gram-\npositive bacteria (GPB)-LOS [7, 8]. Studies from Sweden in\nthe last decade report an incidence of early-onset sepsis (EOS)\nof 0.9/1000 live births with a case fatality rate (CFR) of 7% and\nthe GNB-EOS incidence of 0.25/1000 live born with a CFR of\n13% [9]. There are no previous studies on the incidence or the\nCFR of neonatal GNB-LOS in Sweden. Neonatal infections account for more than one-third (36%) of\nall neonatal deaths globally. Sepsis is the leading cause of * Viveka Nordberg\nviveka.nordberg@ki.se * Viveka Nordberg\nviveka.nordberg@ki.se 1\nDepartment of Neonatology, Karolinska University Hospital,\nStockholm, Sweden 2\nDepartment of Clinical Science, Intervention and Technology\n(CLINTEC), Division of Paediatrics, Karolinska Institutet,\nStockholm, Sweden The growing challenge of antimicrobial resistance (AMR) in\nneonatal intensive care units (NICUs), especially with resistant\nGNB, is associated with a high mortality and poor long-term\noutcome [7, 10–12]. The spread of antibiotic resistant bacteria\nhas been a persisting clinical problem during the last decades\nand has resulted in approximately 214,000 attributable neonatal 3\nDepartment of Clinical Microbiology, Karolinska University\nHospital, Stockholm, Sweden 4\nDepartment of Laboratory Medicine, Division of Clinical\nMicrobiology, Karolinska Institutet, Stockholm, Sweden 5\nDepartment of Neonatology, Sachs’ Children’s Youth Hospital,\nSödersjukhuset, Stockholm, Sweden Eur J Clin Microbiol Infect Dis (2021) 40:1803–1813 1804 Outcomes and definition of sepsis-related mortality The primary outcome was death before discharge from NICU. The secondary outcomes were sepsis mortality 5 days after\nonset of GNB-LOS and major morbidities, such as retinopa-\nthy of prematurity (ROP), intraventricular hemorrhage (IVH),\nand bronchopulmonary dysplasia (BPD). The all-cause neonatal mortality before 28 days of life in\nthe Stockholm region was 0.7–1.8/1000 live born (mean 1.4/\n1000) (2006–2016). The recommended empiric antibiotic\ntherapy for unknown EOS was since 2012 benzylpenicillin/\namikacin and for LOS cloxacillin/amikacin or cefotaxime/\namikacin [29]. Between 2006-2012 the empiric aminoglyco-\nside was gentamicin or netilmicin, which during 2012 was\nchanged to amikacin due to local outbreaks with gentamicin\nresistant E.coli. Infection control routines were similar in\nall included hospitals. Death 5 days following a positive blood culture is present-\ned in the study as 5 days case fatality rate (CFR). The\nsuspected sepsis CFR was death 5 days after onset of therapy\nfor suspected sepsis. Repeated episodes of sepsis were docu-\nmented in a few numbers of patients, but survival was ana-\nlyzed from the first invasive GNB episode. Proportions of\nmultidrug-resistant GNB strains and the burden of AMR in\nclinical samples were determined. Eur J Clin Microbiol Infect Dis (2021) 40:1803–1813 1805 Statistical methods This was an open cohort design with varying lengths of time\nfrom onset of sepsis to discharge. Comparisons of continuous\nvariables were made with Wilcoxon rank-sum or two sample\nt-test and summarized using means and SDs if unimodal, sym-\nmetrically distributed variables. If the distribution was\nskewed, they were shown with median values and ranges. Pearson’s Chi-squared test was used to compare categorical\nvariables. Statistical significance was defined as p values <\n0.05, and confidence intervals of 95% were used. Selection of bacterial isolates steroid treatment. In the LOS group, we adjusted for gesta-\ntional age, gender, prenatal steroid treatment, mechanical ven-\ntilation, and necrotizing enterocolitis (NEC). We chose these\nvariables since mechanical ventilation is associated with a\nhigher mortality and prenatal steroids with a lower mortality\ngenerally. We also adjusted for NEC since we considered\nNEC to be a confounder in the association between GNB-\nsepsis and death. Because of the strong correlation between\nbirth weight (BW) and GA, the risk factor BW was excluded\nfrom the analysis. In the logistic regression for morbidities\n(ROP, IVH, BPD), we used composite binary variables for\ndeath and the specific morbidity. GNB in the study refers to the following species: Escherichia\ncoli, Klebsiella pneumoniae, K. oxytoca, K. aerogenes,\nEnterobacter cloacae, Citrobacter koseri, Serratia\nmarcescens, Proteus mirabilis, Pseudomonas aeruginosa,\nAcinetobacter baumannii, and Haemophilus influenzae. The\nNeisseria species were considered to be contaminants. Blood\ncultures with contaminants were not included. All isolates\nwere susceptibility tested for the following: gentamicin,\namikacin, trimethoprim-sulfamethoxazole, cefotaxime, cef-\ntazidime, ciprofloxacin, imipenem, meropenem, ertapenem,\nand piperacillin-tazobactam. We analyzed EOS and LOS separately in the survival anal-\nysis. The Kaplan-Meier method was used to visualize survival\nover time. In the survival analysis for 5-day mortality after\nindex day (GNB-sepsis date of the respective case), Cox pro-\nportional hazard regression was performed to measure the\nhazard ratio (HR) for dying between the cases and their\nmatched controls. The HR gives the time-dependent instanta-\nneous rate ratio of dying, but is in this study interpreted as a\nratio of risks of death occurring within 5 days, similar to the\ninterpretation of ORs in logistic regression. Results During the study period, 310,091 infants were born alive at the\nincluded delivery units. Of these, 31,878 (10.2%) neonates\nwere admitted to the neonatal units of Karolinska Danderyd\n(n = 10,418), Karolinska Solna (n = 5828), Karolinska\nHuddinge (n = 6904), and Södersjukhuset (n = 8728). These\nfour units are levels 2–3 NICUs with a total of 75–80in-patient\ncots. Characterization of gram-negative bacilli All GNB isolates were cultured, isolated, and identified ac-\ncording to routine validated clinical methods and guidelines\nused during the study period. Antibiotic susceptibility testing\nwas performed by the disk diffusion method and interpreted\naccording to the guidelines of the Swedish Reference Group\nof Antibiotics before 2011 and between 2011 and 2016 ac-\ncording to guidelines from the European Committee on\nAntimicrobial Susceptibility Testing (www.eucast.org). MDR was defined as resistance to at least one antibiotic\nagent in three or more antibiotic groups [30]. Covariates adjusted for in the Cox-regression model in the\nEOS and LOS cohort were the same as in the logistic regres-\nsion model. Stata Statistical Software version 16.0, StataCorp,\nTX, USA, and JMP 15.1.0. SAS Institute Inc., Cary, USA,\nwere used. Due to the retrospective design of the study, only 33/107\nisolates were available for the genetic analyzes. Whole ge-\nnome sequencing (WGS) was performed at the Science for\nLife Laboratory (SciLife, Solna, Sweden). Multi-locus se-\nquencing (MLST) was performed in silico as described previ-\nously [31]. All Enterobacterales were assigned to sequence\ntypes except S. marcescens. The isolates that were closely\nrelated in the MLST analysis were further analyzed with sin-\ngle nucleotide polymorphism (SNP) analysis in CLC\nWorkbench [31]. Mortality Among neonates with invasive GNB-sepsis (n = 111),\nmedical records were retrievable in 107 patients, of which\n33 were GNB-EOS and 74 were GNB-LOS. These cases were\nmatched with 107 patients with suspected sepsis (culture-\nnegative) and 295 uninfected controls. In total, data from\n509 patients were analyzed. The clinical characteristics of in-\ncluded patients are presented in Table 1. Thirty (30/107) neonates with GNB-sepsis died before dis-\ncharge (5/33 EOS and 25/74 LOS), with a case fatality rate\nof 28%. The median age at death was 28 days (IQR 14–52)\namong the infants with GNB-LOS that died during hospital\nstay. The mortality in the EOS group was too small to make\nunivariate comparisons between the groups relevant. Comparing GNB-LOS with the suspected sepsis and uninfect-\ned control groups, the proportion of deaths before discharge\nwas 33.7% (25/74), 18.9% (14/74), and 7.6% (15/196), re-\nspectively. The CFR of GNB-LOS in different gestational\nages were in GA ≤28 (18/52, 35 %), GA 29–32 (6/17,\n35%), GA 33–36 (1/3, 33%), and GA ≥37 (0/2, 0%). Proportions of deaths of GNB-EOS and GNB-LOS in differ-\nent gestational ages are presented in Online Resource 1. More than one LOS episode was seen in 35/107 (33%)\ncases where the causative pathogens were GNB and GPB,\nand 57% (20/35) of them had a GPB-sepsis episode before a\nGNB-sepsis. The 33 GNB-EOS cases were distributed as 4, 4,\n1, 3, 2, 4, 4, 5, 1, 2, and 3 per year during the years 2006–\n2016. There was no statistical difference in the trend of EOS\ncases per year during the study period. The 74 GNB-LOS\ncases were distributed as 4, 9, 12, 5, 11, 8, 5, 3, 4, 5, and 8\nwhich indicate a slight but not statistically significant decrease\nover the period. In the logistic regression of the relation between GNB-LOS\nand death, there was a 2.2 times higher odds (crude OR) of\ndying before discharge at NICU in the GNB-sepsis group\n(EOS and LOS combined) compared to the suspected sepsis\ngroup and 4.8 times higher odds compared to uninfected\ncases. There was no statistically significant difference in mor-\ntality before discharge between patients with GNB-EOS,\nsuspected EOS, and controls. Gestational age was the only\nfactor associated with death in GNB-EOS(Table 2). Mortality The pairwise analysis between groups showed that the me-\ndian age at diagnosis was 1 day for GNB-EOS, 0 for suspected\nEOS (p = 0.023), 19 days for GNB-LOS, and 9 for suspected\nLOS (p < 0.001). The administration of prenatal steroids did not differ be-\ntween culture proven GNB-EOS and suspected sepsis. The\nGNB-EOS group did not differ from the suspected EOS group\nregarding administration of antibiotics to mothers prenatally\n(p = 0.11), but the GNB-EOS group had a significantly higher\nuse compared to the uninfected group (52% vs 33 %). Similar\nresults were found in GNB-LOS (49%) where use of antenatal\nantibiotics differed from their uninfected control group (40%)\n(p < 0.01).’ Neonates with GNB-LOS were 6.5 (crude OR) and 3.9 (CI:\n1.6–9.4) (adjusted OR) more likely to die during hospital stay\ncompared to the uninfected matched control group. A higher\ngestational age was protective. The comparison between\nGNB-LOS and suspected LOS showed no significant differ-\nence in the odds of dying before discharge (OR 2.0; CI: 0.8–\n4.6) (Table 2). There were 43/74GNB-LOS cases vs 41/74 suspected LOS\ncases that received prophylactic antibiotics before the sepsis/\nsuspected sepsis episodes. Mode of delivery did not differ\nbetween the groups in the GNB-EOS analysis, but caesarean\nsection was significantly more common in GNB-LOS (42%)\ncompared to suspected LOS (15%) and uninfected controls\n(22%) (Table 1). The 5 days CFR was 15% (5/33) in GNB-EOS. All neo-\nnates with GNB-EOS that died died before 5 days after GNB-\nEOS onset. The 5 days CFR of GNB-LOS was 17.6% (13/74). The crude 5 days CFR differed significantly between GNB-\nLOS and the uninfected controls (p < 0.001) and between\nGNB-LOS and the suspected sepsis group (p = 0.039) but\nnot between the suspected sepsis group and uninfected con-\ntrols (p = 0.37). In a Cox-regression model, the adjusted haz-\nard ratio (HR) of dying 5 days after GNB-LOS onset vs unin-\nfected controls was 3.7 (CI: 1.2–11.2), but no increased hazard\nwas seen in GNB-LOS versus suspected LOS (Table 3). The\ncumulative survival rate, shown in the Kaplan-Meier curves\nfor 5 days survival, is illustrated in Fig. 2. Intensive care interventions The median days of mechanical ventilation differed between\nGNB-EOS cases (median 1 day, IQR 0–7 days) and uninfect-\ned cases (median 0, IQR 0–0 days). The days of total parental\nnutrition (TPN) in the GNB-EOS (median 8 days, IQR 2–13)\ndays were higher and differed significantly from the uninfect-\ned group (median 1 day, IQR 0–8 days). Incidence of GNB-sepsis and baseline characteristics A flowchart of included patients is depicted in Fig. 1 during\nthe period, a total of 804 admitted infants had a culture-\nconfirmed neonatal sepsis, which corresponds to a total inci-\ndence of 2.6/1,000 live born. GNB-sepsis counted for 111/804\n(14%) of all culture-confirmed sepsis cases. The proportion of GNB-sepsis for all admitted neonates\nwas 111/31,878 (0.36%), with a cumulative incidence of\n0.35 cases per 1000 live born during the study period. Among the infants admitted to the neonatal unit,\n1026/31,878 (3.2%) had suspected but not culture-verified\nsepsis with a cumulative incidence of 3.3/1,000 live born. We used logistic regression to measure odds ratios (OR) of\ndying, separately for EOS and LOS, and adjusted for different\nvariables in the regression model of EOS and LOS. Variables\nadjusted for in the EOS group were as follows: gestational\nage, gender, perinatal antibiotics, birth mode, and prenatal Eur J Clin Microbiol Infect Dis (2021) 40:1803–1813 1806 Flow chart of all included patients in the study Fig. 1 A Flow chart of all included patients in the study Eur J Clin Microbiol Infect Dis (2021) 40:1803–1813 1807 Mortality Morbidity GNB-LOS and suspected LOS had significantly more days\nof ventilatory support, umbilical artery catheter (UAC), pe-\nripheral central venous catheter (pCVC), and TPN than the\nuninfected group. Days of TPN and total days with pCVC\nwere significantly higher in the GNB-LOS group compared\nto the suspected sepsis and the uninfected group (Table 1). The GNB-EOS group differed in univariate analysis from the\nuninfected controls with a higher proportion of IVH grades 3–\n4 (15% vs 2%, p = 0.004) and ROP 3–4 (12% vs 1%, p =\n0.01). No difference was seen regarding BPD. Morbidity Verified\nGNB-LOS differed from uninfected controls regarding ROP 1808 Eur J Clin Microbiol Infect Dis (2021) 40:1803–1813 Table 1\nCharacteristics of 107 GNB cases (EOS and LOS) and pair-wise comparisons with suspected sepsis controls and uninfected controls\nGNB-EOS (n=33) Susp EOS (n=33)\nNo inf control (n=99) P*\nEOS\nP**\nEOS\nP***\nEOS\nGNB-LOS (n=74) Susp LOS (n=74)\nNo inf control (n=196) P*\nLOS\nP**\nLOS\nP***\nLOS\nGest age (w)\n34 (26–38)\n34 (26–38)\n34 (26–38)\n0.94\n0.97\n0.91\n27 (25–29)\n27 (25–29)\n27 (25–29)\n0.98\n0.60\n0.58\nGender, male\n16 (48)\n21 (64)\n57 (58)\n0.16\n0.36\n0.42\n45 (61)\n53 (72)\n99 (51)\n0.16\n0.13\n0.002\nBW (g)\n2225 (994–2950)\n2013 (686–3500)\n2087 (995–3325)\n0.88\n0.81\n0.89\n885 (750–1395)\n812 (627–1259)\n960 (747–1315)\n0.17\n0.69\n0.04\nApgar at 5 min<7\n13 (39)\n5 (15)\n26 (26)\n0.027\n0.16\n0.18\n23 (31)\n29 (39)\n63 (32)\n0.33\n0.83\n0.33\nCaesarean section\n16 (48)\n16 (48)\n50 (22)\n0.90\n0.96\n0.84\n31 (42)\n11 (15)\n44 (22)\n<0.001 <0.001\n0.17\nPrenatal steroids\n11 (33)\n14 (42)\n34 (34)\n0.72\n0.72\n0.40\n52 (70)\n64 (87)\n146 (75)\n0.17\n0.61\n0.034\nAntenatal antibiotics\n17 (52)\n11 (33)\n16 (16)\n0.11\n<0.001\n0.037\n36 (49)\n31 (42)\n79 (40)\n0.048 <0.01\n0.81\nOnset sepsis (d)\n1 (0–1)\n0 (0)\n0.023\n19 (11–31)\n9 (4–17)\n<0.001\nDays of MV\n1 (0–7)\n0 (0–6)\n0 (0)\n0.77\n<0.001\n0.57\n8 (2–24)\n9 (2–16)\n0 (0–7)\n0.43\n<0.001\n<0.001\nDays of CPAP\n2 (0–8)\n1 (0–4)\n3 (0–20)\n0.31\n0.048\n0.24\n16 (3–36)\n18 (2–38)\n6 (1–25)\n0.77\n0.003\n0.03\nDays of TPN\n8 (2–13)\n2 (0–10)\n1 (0–8)\n0.06\n0.001\n0.001\n22 (11–37)\n13 (8–24)\n9 (5–14)\n0.001 <0.001\n<0.001\nDays of UAC\n1 (0–6)\n0 (0–2)\n0 (0–4)\n0.038\n0.046\nNA\n6 (3–8)\n5 (0–7)\n3 (0–6)\n0.43\n<0.001\n0.036\nDays of UVC\n1 (0–5)\n0 (0–1)\n0 (0–0)\n0.062\n0.015\nNA\n1 (0–4)\n2 (0–5)\n0 (0–5)\n0.40\n0.72\n0.20\nDays of pCVC\n0 (0–9)\n0 (0–9)\n0 (0–0)\n0.39\n<0.001\n0.55\n15(8–28)\n7 (1–20)\n2 (0–8)\n0.009 <0.001\n<0.001\nBPD discharge\n4 (12)\n6 (18)\n13 (13)\n0.64\n0.67\n0.78\n32 (43)\n35 (47)\n64 (33)\n0.48\n0.12\n0.083\nROP 1–2 discharge\n4 (12)\n6 (18)\n2 (2)\n0.48\n0.004\n0.059\n9 (12)\n20 (27)\n26 (13)\n0.11\n0.99\n0.017\nROP 3–4 discharge\n4 (12)\n0 (0)\n1 (1)\n0.095\n0.01\n0.85\n10 (14)\n4 (5)\n9 (5)\n0.18\n0.019\n0.83\nIVH 1–2 discharge\n7 (21)\n4 (12)\n5 (5)\n0.32\n0.005\n0.059\n16 (22)\n14 (19)\n19 (10)\n0.55\n0.008\n0.039\nIVH 3–4 discharge\n5 (15)\n3 (9)\n2 (2)\n0.48\n0.004\n0.059\n6(8)\n6 (8)\n11 (6)\n0.60\n0.20\n0.45\nAll NEC\n27 (36)\n15 (20)\n5 (3)\n0.09\n0.059\n0.39\nSurgical NEC\n11 (15)\n5 (7)\n0 (0)\n0.11\n0.003\n0.78\nMortality\n5 (15)\n3 (9)\n7 (7)\n0.46\n0.24\n0.86\n25 (34)\n12 (16)\n15 (7.6)\n0.04\n<0.001\n0.008\n*Comparison between case and suspect sepsis, **comparison between case and uninfected control, ***comparison between suspected case and uninfected control. Discussion For GNB-LOS, the OR for the composite variable death/\nBPD was 3.8 (CI: 1.68–8.67) compared to uninfected con-\ntrols, but no difference was seen compared to suspect LOS. Gram-negative sepsis is an uncommon but serious disorder in\nthe neonate, especially in the premature born [4–6, 8, 32]. In\nthis 11-year retrospective study, we sought to describe GNB-\nsepsis by reporting the incidence, subsequent mortality, and\nmorbidity and to compare it to suspected sepsis and uninfected\ncontrols in neonates in our region. Morbidity Of all GNB strains, 7/107 were resistant\nto at least two groups of antimicrobials, and all were suscep-\ntible to carbapenems. 3–4 (14% vs 5%, p = 0.019), but not regarding IVH 3–4 and\nBPD (Table 1). Morbidity analyses with logistic regression for\nGNB-EOS showed an OR for the composite outcome mea-\nsure death/IVH3–4 of 7.5 (CI: 1.29–43.4) compared to sus-\npect EOS and 5.2 (CI: 1.17–23.4) compared to uninfected\ncontrols. For GNB-LOS OR was 3.0 (CI: 1.30–6.76) for\ndeath/ROP3–4 compared to suspect LOS and 6.3 (CI: 2.79–\n14.0) compared to uninfected controls. Morbidity Continuous variables are presented with\nmeans, SD, medians, and interquartile range. Categorical variables are presented with proportions and %. BW birth weight, MV mechanical ventilation, CPAP continuous positive airway pressure, TPN total\nparental nutrition, pCVC peripheral central venous catheter, UVC umbilical venous catheter, UAC umbilical arterial catheter, BPD bronchopulmonary dysplasia, ROP retinopathy of the newborn, IVH\nintraventricular hemorrhage *Comparison between case and suspect sepsis, **comparison between case and uninfected control, ***comparison between suspected case and uninfected control. Continuous variables are presented with\nmeans, SD, medians, and interquartile range. Categorical variables are presented with proportions and %. BW birth weight, MV mechanical ventilation, CPAP continuous positive airway pressure, TPN total\nparental nutrition, pCVC peripheral central venous catheter, UVC umbilical venous catheter, UAC umbilical arterial catheter, BPD bronchopulmonary dysplasia, ROP retinopathy of the newborn, IVH\nintraventricular hemorrhage Eur J Clin Microbiol Infect Dis (2021) 40:1803–1813 1809 Table 2\nLogistic regression with adjusted odds ratio of neonatal death after GNB-sepsis before discharge from NICU\nEOS\nAdjusted OR\n95% CI\np Value\nLOS\nAdjusted OR\n95% CI\np Value\nGNB-EOS: uninfected*\n2.5\n0.53–11.4\n0.25\nGNB-LOS: uninfected*\n3.9\n1.61–9.36\n0.003\nSuspected EOS: uninfected*\n0.92\n0.18–4.74\n0.92\nSuspected LOS: uninfected*\n2.0\n0.78–5.05\n0.15\nGNB-EOS: suspected EOS*\n2.7\n0.49–14.7\n0.26\nGNB-LOS: suspected LOS*\n2.0\n0.82–4.65\n0.13\nGestational week\n0.8\n0.67–0.95\n0.01\nGestational week\n0.8\n0.67–0.92\n0.002\nGender (male)\n0.9\n0.26–2.84\n0.81\nGender (male)\n1.8\n0.87–3.62\n0.12\nPrenatal steroids\n0.7\n0.13–3.79\n0.67\nMechanical ventilation\n3.8\n1.00–14.1\n0.049\nPrenatal antibiotics\n2.1\n0.50–8.56\n0.32\nPrenatal steroids\n0.4\n0.16–0.89\n0.26\nBirth mode (CS)\n1.4\n0.37–5.50\n0.60\nNecrotizing enterocolitis\n3.0\n1.34–6.48\n0.007\nAdjusted odds ratio of the comparisons between the sepsis group and the reference groups. GNB-EOS and GNB-LOS are reported separately. *Reference group ogistic regression with adjusted odds ratio of neonatal death after GNB-sepsis before discharge from NICU Adjusted odds ratio of the comparisons between the sepsis group and the reference groups. GNB-EOS and GNB-LOS are reported separately. *Reference group Table 4. The genomic characterization of the invasive isolates\nthat infected one-third of the neonates in the study can be seen\nin Online Resource 4. Of all GNB strains, 7/107 were resistant\nto at least two groups of antimicrobials, and all were suscep-\ntible to carbapenems. Table 4. The genomic characterization of the invasive isolates\nthat infected one-third of the neonates in the study can be seen\nin Online Resource 4. Bacterial characteristics and antibiotic resistance All 107 GNB from confirmed positive blood cultures are pre-\nsented in Online Resource 2. The majority belonged to the\norder Enterobacterales, comprising E. coli, K. pneumoniae,\nEnterobacter spp., and S. marcescens. Three other gram-\nnegative species were represented: A. baumannii,\nP. aeruginosa, and H. influenzae. Proportions of deaths from\nGNB-EOS and GNB-LOS and the causing pathogen can be\nseen in Online Resource 3. Multidrug resistance was observed\nin 3/47E. coli and 2/20K. pneumoniae and 2/14E. cloacae. The antibiotic resistance pattern of all isolates is presented in The incidence of neonatal GNB-sepsis in the region was\n0.35/1000 live born neonates and remained unchanged during\nthe study period. The incidence of GNB-EOS was 0.11/1000\nlive births which is about half of what recently has been re-\nported from the western part of Sweden, where the incidence\nof GNB-EOS was 0.25/1000 live births [9]. The difference is\nsubstantial but might be influenced by methodological differ-\nences. The incidence of GNB-LOS was 0.24/1000 live births\nand has not been previously described in a Swedish context. Table 3\nCox-regression survival analysis of hazard rate (HR) at 5 days after onset of LOS symptoms\nCase—uninfected*\nCase—suspected*\nSuspect—uninfected*\nGroup\nHR\n95% CI\np Value\nHR\n95% CI\np Value\nHR\n95% CI\np Value\n5 days ALL crude\n5.5\n2.4–12.8\n<0.001\n4.5\n1.9–10.7\n0.001\n1.2\n0.3–4.9\n0.76\n5 days LOS crude\n5.8\n2.2–15.2\n<0.001\n3.2\n1.0–10.0\n0.039\n1.8\n0.5–6.3\n0.37\n5 days LOS adjusted#\n3.7\n1.2–11.2\n0.019\n2.7\n0.8–8.8\n0.095\n1.4\n0.4–5.4\n0.65\n*Reference group\n# The analyses are adjusted for gestational age, gender, prenatal steroids, mechanical ventilation, and necrotizing enterocolitis (NEC)\nThe uninfected group is matched to the same days of life when the GNB-sepsis case was diagnosed Table 3\nCox-regression survival analysis of hazard rate (HR) at 5 days after onset of LOS symptoms g\np\n# The analyses are adjusted for gestational age, gender, prenatal steroids, mechanical ventilation, and necrotizing enterocolitis (NEC)\nThe uninfected group is matched to the same days of life when the GNB-sepsis case was diagnosed Eur J Clin Microbiol Infect Dis (2021) 40:1803–1813 1810 Fig. 2 The Kaplan-Meier method visualizes survival over time in GNB-\nLOS. The figure depicts survival 5 days after sepsis onset parenteral nutrition, and central catheters, than the uninfected\ncontrols. Bacterial characteristics and antibiotic resistance The antenatal factors delivery by caesarean section and\nexposure to prenatal antibiotics occurred more frequently in\ninfants with GNB-LOS than in infants with suspected sepsis\nor in uninfected controls. A dysbiotic neonatal intestinal mi-\ncrobiota due to C-sectionand/or use of antibiotics has previ-\nously been associated as a risk factor for neonatal LOS. The\nsuggested biological rationale is that an altered first-\ncolonizing microbiota cannot confer protection against bacte-\nrial translocation in the neonatal intestine [33, 34]. We found GNB-sepsis to be a great risk factor for\nmortality and show the in-hospital mortality rate to be\n28% of all GNB-sepsis cases. The in-hospital mortality\nrate was more than 2.3 times higher among the infants\nwith GNB-LOS compared to those with GNB-EOS,\nwhich possibly reflects the fact that the LOS group\nwere more premature, had lower BW, had more co-\nmorbidities and a longer duration of hospital care. Prenatal steroids have been shown to be protective\nagainst a number of morbidities in preterm infants\n[35], and in this study it was protective against death\nfrom GNB-LOS but not from GNB-EOS. Fig. 2 The Kaplan-Meier method visualizes survival over time in GNB-\nLOS. The figure depicts survival 5 days after sepsis onset The incidence of 1.4 E.coli-LOS per 1000 NICU admissions\nwas about half that reported in studies from other high-income\ncountries [3, 5, 8]. We found that the need for intensive care interventions\ndiffered between the groups. The GNB-LOS group had sig-\nnificantly more days of supportive intensive care compared to\nuninfected controls, but not to suspected-LOS. These invasive\nmeasures could be risk factors for LOS but also the conse-\nquences of infection. As well neonates with suspected sepsis\nneeded more intensive care in terms of mechanical ventilation, When adjusted for confounders, the GNB-LOS group’s in-\nhospital mortality was 3.9 times higher compared to uninfect-\ned controls. We found no statistical differences in in-hospital\nmortality between the other control groups. Gram-negative bacteria\nNumber of isolates\nRatio of resistant isolates\nEnterobacterales\nE.coli\n47\n2/47 GEN\n3/47 TSU, CTX, CFZ\n7/47 TSU\nK. pneumoniae\n20\n2/20 TSU, CTX, CTZ, GEN, CIP\nK. aerogenes\n2\n1/2 TSU\nK. oxytoca\n4\n0\nE. cloacae\n14\n1/14 GEN\n2/14 CTX, CFZ\nS. marcescens\n10\n0\nC. koseri\n1\n0\nNon-Enterobacterales genera\nAcinetobacter\nA. baumannii\n3\n0\nPseudomonas\nP. aeruginosa\n4\n0\nHaemophilus\nH. Table 4 Summary of antibiogram\nof the 107 Gram-negative isolates\nfrom all neonates included in the\nstudy All isolates were susceptibility tested for the following: GEN gentamicin, AMI amikacin, TSU trimethoprim-\nsulfamethoxazole, CTX cefotaxime, CFZ ceftazidime, CIP ciprofloxacin, IMI imipenem, MER meropenem, ERT\nertapenem, and PT piperacillin-tazobactam Bacterial characteristics and antibiotic resistance influenzae\n2\n0\nAll isolates were susceptibility tested for the following: GEN gentamicin, AMI amikacin, TSU trimethoprim-\nsulfamethoxazole, CTX cefotaxime, CFZ ceftazidime, CIP ciprofloxacin, IMI imipenem, MER meropenem, ERT\nertapenem, and PT piperacillin-tazobactam 1811 Eur J Clin Microbiol Infect Dis (2021) 40:1803–1813 Many studies on neonatal sepsis present crude mortality after\na positive blood culture. However, autopsy completion is infre-\nquently performed. We have tried to relate the sepsis episode\nwith sepsis-related mortality and calculated the 5 days CFR. The 5 days CFR for GNB-EOS was 15% and for GNB-LOS\n17%. GNB-LOS was most common (70%) in the lower GA (≤\n28 weeks), and the CFR was as high as 35% in this group. repeatedly small outbreaks of gentamicin-resistantE.coli in the\nregion. After that, we could not see any high rates resistance to\namikacin or third generation cephalosporins that would lead to\nany change in the empiric therapy. One strength of the study is its population-based approach as\nit covers almost all 310,091 infants born in the Stockholm region\nduring the study period. Another strength of the study is that all\nmedical records from the patients with GNB-sepsis, suspected\nsepsis, and controls were validated against medical records. All\ndata was validated against medical records because between\n2006 and 2010, there were no predefined sepsis criteria and data\ncompleteness in SNQ regarding causative agents was low in the\nstudy region. Sepsis criteria have in later years been standardized,\nand reporting to SNQ has been changed from retrospective sum-\nmaries to web-based uploads on a daily basis. In later years, SNQ\nhas been shown to exhibit similar or higher completeness for\nneonatal sepsis as the Swedish Medical Birth register which is\nconsidered to be very high [41] . From the survival analysis, we concluded that the adjusted\nhazard for dying within 5 days from the GNB-LOS onset was\nfour times greater than if the neonate was uninfected. There\nwas no statistical significance in the adjusted Cox-regression\nanalysis in comparing the other groups with each other, which\npossibly might reflect a type II error and the small number of\nobservations. The Kaplan-Meier curve gives us the indication\nthat suspected-LOS is associated with a greater hazard of sur-\nviving than in uninfected, but we could not show that statisti-\ncally. Bacterial characteristics and antibiotic resistance Causal data on reasons for death in the suspected sepsis\nand uninfected group were not analyzed but could be ex-\nplained by the most common non-infectious causes of death\nin the NICU such as respiratory failure, asphyxia, IVH, met-\nabolic disease, and lethal genetic syndromes. The limitations of the study are related to the retrospective\ndesign and, despite covering all cases during an 11-year peri-\nod in an area with more than 2 million inhabitants, the small\nsample size. The procedure of matching the controls to each\nsepsis case has been done as accurately as possible. The phys-\niological vulnerability of the neonate in different gestational\nages is the most important variable for matching. The size of\nthe cohort makes it impossible to match for more morbidities\nand is therefore a limitation of the study. Without doubt, culture proven GNB-LOS is related to an\nincreased risk of mortality and morbidity, as previously reported\n[3, 6, 8, 32]. However, the power of this study is not sufficient to\nfind out whether suspect sepsis is an entity of its own or just\nsepsis not possible to detect by culture. Studies conducted in\nhigh-income countries report suspected sepsis to be 6–16 times\nas more common than culture proven sepsis [14, 18]. We could not draw conclusions about the association between\nGNB-sepsis and severe complications of preterm birth such as\nBPD and ROP 3–4, as the most severely ill patients died before\nthey could be validated for these conditions. IVH occurs early\nduring the same time frame as GNB-EOS and was also overrep-\nresented in GNB-EOS compared to neonates with suspected\nsepsis and the uninfected. As IVH often occurs before the onset\nof GNB-LOS, we did not analyze it in this context. Both ROP 3–\n4 and BPD was associated with GNB-LOS. Data availability The dataset is available on your request. 8. Stoll BJ, Hansen N, Fanaroff AA, Wright LL, Carlo WA,\nEhrenkranz RA, Lemons JA, Donovan EF, Stark AR, Tyson JE,\nOh W, Bauer CR, Korones SB, Shankaran S, Laptook AR,\nStevenson DK, Papile LA, Poole WK (2002)Late-onset sepsis in\nvery low birth weight neonates: the experience of the NICHD\nNeonatal Research Network. Pediatrics 110(2 Pt 1):285–291 Conflict of interest\nThe authors declare no competing interests. Open Access This article is licensed under a Creative Commons\nAttribution 4.0 International License, which permits use, sharing, adap-\ntation, distribution and reproduction in any medium or format, as long as\nyou give appropriate credit to the original author(s) and the source, pro-\nvide a link to the Creative Commons licence, and indicate if changes were\nmade. The images or other third party material in this article are included\nin the article's Creative Commons licence, unless indicated otherwise in a\ncredit line to the material. If material is not included in the article's\nCreative Commons licence and your intended use is not permitted by\nstatutory regulation or exceeds the permitted use, you will need to obtain\npermission directly from the copyright holder. To view a copy of this\nlicence, visit http://creativecommons.org/licenses/by/4.0/. 11. World Health Organisation (2014) Antimicrobial resistance: global\nreport on surveillance. www.who.int 12. Ting JY, Synnes A, Roberts A, Deshpandey A, Dow K, Yoon EW,\nLee KS, Dobson S, Lee SK, Shah PS, Canadian Neonatal Network\nI (2016) Association between antibiotic use and neonatal mortality\nand morbidities in very low-birth-weight infants without culture-\nproven sepsis or necrotizing enterocolitis. JAMA Pediatr 170(12):\n1181–1187. https://doi.org/10.1001/jamapediatrics.2016.2132 13. Laxminarayan R, Matsoso P, Pant S, Brower C, Rottingen JA,\nKlugman K, Davies S (2016) Access to effective antimicrobials: a\nworldwide challenge. Lancet 387(10014):168–175. https://doi.org/\n10.1016/S0140-6736(15)00474-2 Conclusion We conclude that GNB-sepsis is rare but it remains a serious\nthreat to neonatal patients in the region. GNB-sepsis is a risk\nfactor for neonatal mortality compared to suspect sepsis and\nuninfected controls. We found a lower incidence of GNB-\nEOS than previously described in Sweden and other high-\nincome settings, and for the first time, we present the inci-\ndence of GNB-LOS in Sweden. The GNB-EOS or GNB-\nLOS incidence did not change during the study period. The\nincidence of AMR was low, the AMR pattern did not reveal\nany highly resistant strains, and the incidence did not change\nover time. This is reassuring as the current empiric therapy\nagainst bacterial sepsis of unknown origin appears to be rele-\nvant despite its use over a long period of time. E.coli was the most common pathogen causing GNB-LOS\nwith a 5 days CFR of 9%. The highest 5 days CFR (33%) was\ncaused by the Enterobacter spp. We could not statistically\nrelate specific pathogens to mortality which is an important\nissue for the clinician. The rate of antibiotic resistant bacteria in our study was low\ncompared to studies from other settings [36, 37]. In a recent\nretrospective study between 2009 and 2017 from the USA, a\nmean of 5% ESBL-producingE.coli was seen in a large cohort\n(n = 733) of neonatal E-coli sepsis [38]. The proportion of all\nESBL-producingEnterobacterales in our study, with a smaller\nsample size, was 7/107 (6.5%) and is still considered low. The\nlow incidence of GNB-LOS and AMR could be the result of\nlong-standing efforts in infection control and antimicrobial\nstewardship [39, 40]. In 2012, we changed our empiric ami-\nnoglycoside from gentamicin or netilmicin to amikacin due to Supplementary Information The online version contains supplementary\nmaterial available at https://doi.org/10.1007/s10096-021-04211-8. Acknowledgements We like to thank Jessica Stenquist, Gabriella Lang,\nand Mikaela Winderud for their contribution to the data collection. Code availability\n“Not applicable.” Eur J Clin Microbiol Infect Dis (2021) 40:1803–1813 1812 5. Tsai MH, Hsu JF, Chu SM, Lien R, Huang HR, Chiang MC, Fu\nRH, Lee CW, Huang YC (2014) Incidence, clinical characteristics\nand risk factors for adverse outcome in neonates with late-onset\nsepsis. Pediatr Infect Dis J 33(1):e7–e13. https://doi.org/10.1097/\nINF.0b013e3182a72ee0 Authors’ contributions VN, LN, AI, and CG planned and designed the\nstudy. VN and AT acquired the data. VN, AI, KI, and CG performed the\nmicrobiological analyses. Declarations Ethics approval\nThe study is approved by the Regional Ethics Review\nboard in Stockholm (Dnr:2016/202-31/2). Ethics approval\nThe study is approved by the Regional Ethics Review\nboard in Stockholm (Dnr:2016/202-31/2). 9. Johansson Gudjonsdottir M, Elfvin A, Hentz E, Adlerberth I,\nTessin I, Trollfors B (2019) Changes in incidence and etiology of\nearly-onset neonatal infections 1997-2017 - a retrospective cohort\nstudy in western Sweden. BMC Pediatr 19(1):490. https://doi.org/\n10.1186/s12887-019-1866-z Consent to participate\n“Not applicable.” Consent for publication\nThis study has not been submitted for publica-\ntion or consideration in any other journal. Consent for publication\nThis study has not been submitted for publica-\ntion or consideration in any other journal. 10. Stoll BJ, Hansen NI, Adams-Chapman I, Fanaroff AA, Hintz SR,\nVohr B, Higgins RD, National Institute of Child H, Human\nDevelopment Neonatal Research N (2004) Neurodevelopmental\nand growth impairment among extremely low-birth-weight infants\nwith neonatal infection. Jama 292(19):2357–2365. https://doi.org/\n10.1001/jama.292.19.2357 Conflict of interest\nThe authors declare no competing interests. Conclusion VN and LN drafted the manuscript and the data\nanalysis. VN, LN, AI, CG, AT, and KI participated in the interpretation of\nthe data and critically revised the manuscript. All authors have read and\napproved the final manuscript. 6. Tsai MH, Chu SM, Lee CW, Hsu JF, Huang HR, Chiang MC, Fu\nRH, Lien R, Huang YC (2014) Recurrent late-onset sepsis in the\nneonatal intensive care unit: incidence, clinical characteristics and\nrisk factors. Clin Microbiol Infect 20(11):O928–O935. https://doi. org/10.1111/1469-0691.12661 Funding Open access funding provided by Karolinska Institute. The\nstudy was supported by grants from the Samariten Foundation for\nPediatric Research, Mjölkdroppen Foundation, Kronprinsessan Lovisas\nFoundation for pediatric healthcare, and Karolinska University Hospital\nresearch fund. 7. Benjamin DK, DeLong E, Cotten CM, Garges HP, Steinbach WJ,\nClark RH (2004) Mortality following blood culture in premature\ninfants: increased with Gram-negative bacteremia and candidemia,\nbut not gram-positive bacteremia. J Perinatol 24(3):175–180. https://doi.org/10.1038/sj.jp.7211068 Data availability The dataset is available on your request. References 14. Cantey JB, Wozniak PS, Pruszynski JE, Sanchez PJ (2016)\nReducing unnecessary antibiotic use in the neonatal intensive care\nunit (SCOUT): a prospective interrupted time-series study. Lancet\nInfect Dis 16(10):1178–1184. https://doi.org/10.1016/S1473-\n3099(16)30205-5 1. Shane AL, Sanchez PJ, Stoll BJ (2017) Neonatal sepsis. 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Sharma D, Kumar C, Pandita A, Pratap OT, Dasi T, Murki S (2015)\nBacteriological profile and clinical predictors of ESBL neonatal\nsepsis. J Matern Fetal Neonatal Med:1–4. https://doi.org/10.3109/\n14767058.2015.1011118 27. Dedrick S, Sundaresh B, Huang Q, Brady C, Yoo T, Cronin C,\nRudnicki C, Flood M, Momeni B, Ludvigsson J, Altindis E\n(2020) The role of gut microbiota and environmental factors in type\n1 diabetes pathogenesis. Front Endocrinol (Lausanne) 11:78. https://doi.org/10.3389/fendo.2020.00078 38. Flannery DD, Akinboyo IC, Mukhopadhyay S, Tribble AC, Song\nL, Chen F, Li Y, Gerber JS, Puopolo KM (2020) Antibiotic suscep-\ntibility of Escherichia coli among infants admitted to neonatal in-\ntensive care units across the US from 2009 to 2017. JAMA Pediatr. https://doi.org/10.1001/jamapediatrics.2020.4719 p\ng\n28. Marild K, Ye W, Lebwohl B, Green PH, Blaser MJ, Card T,\nLudvigsson JF (2013) Antibiotic exposure and the development\nof coeliac disease: a nationwide case-control study. BMC\nGastroenterol 13:109. https://doi.org/10.1186/1471-230X-13-109 39. Bjorkman L, Ohlin A (2015) Scrubbing the hub of intravenous\ncatheters with an alcohol wipe for 15 sec reduced neonatal sepsis. Acta Paediatr 104(3):232–236. https://doi.org/10.1111/apa.12866 p\ng\n29. http://www.lakemedelsverket.se/ SMPa Neonatal sepsis- back-\nground information (Swedish) 40. Gray JW, Ubhi H, Milner P (2014) Antimicrobial treatment of\nserious gram-negative infections in newborns. Curr Infect Dis\nRep 16(2):400. https://doi.org/10.1007/s11908-014-0400-6 30. Magiorakos AP, Srinivasan A, Carey RB, Carmeli Y, Falagas ME,\nGiske CG, Harbarth S, Hindler JF, Kahlmeter G, Olsson-Liljequist\nB, Paterson DL, Rice LB, Stelling J, Struelens MJ, Vatopoulos A,\nWeber JT, Monnet DL (2012) Multidrug-resistant, extensively\ndrug-resistant and pandrug-resistant bacteria: an international ex-\npert proposal for interim standard definitions for acquired resis-\ntance. Clin Microbiol Infect 18(3):268–281. https://doi.org/10. 1111/j.1469-0691.2011.03570.x 41. Norman M, Kallen K, Wahlstrom E, Hakansson S, Collaboration\nSNQ (2019) The Swedish Neonatal Quality Register - contents,\ncompleteness and validity. Acta Paediatr 108(8):1411–1418. https://doi.org/10.1111/apa.14823 31. References Froding I, Hasan B, Sylvin I, Coorens M, Naucler P, Giske CG\n(2020)Extended-Spectrumbeta-Lactamase- and plasmid AmpC-\nproducing Escherichia coli causing community-onset bloodstream Publisher’s note Springer Nature remains neutral with regard to jurisdic-\ntional claims in published maps and institutional affiliations."
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Long memory estimation for complex-valued time series
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This is a repository copy of Long memory estimation for complex-valued time series. White Rose Research Online URL for this paper:
https://eprints.whiterose.ac.uk/132566/ Version: Published Version Version: Published Version Article:
Knight, Marina Iuliana orcid.org/0000-0001-9926-6092 and Nunes, Matthew A. (2018)
Long memory estimation for complex-valued time series. Statistics and computing. pp. 1-
20. ISSN 0960-3174 https://doi.org/10.1007/s11222-018-9820-8 Reuse This article is distributed under the terms of the Creative Commons Attribution (CC BY) licence. This licence
allows you to distribute, remix, tweak, and build upon the work, even commercially, as long as you credit the
authors for the original work. More information and the full terms of the licence here:
https://creativecommons.org/licenses/ Abstract Long memory has been observed for time series across a multitude of fields, and the accurate estimation of such dependence,
for example via the Hurst exponent, is crucial for the modelling and prediction of many dynamic systems of interest. Many
physical processes (such as wind data) are more naturally expressed as a complex-valued time series to represent magnitude and
phase information (wind speed and direction). With data collection ubiquitously unreliable, irregular sampling or missingness
is also commonplace and can cause bias in a range of analysis tasks, including Hurst estimation. This article proposes a new
Hurst exponent estimation technique for complex-valued persistent data sampled with potential irregularity. Our approach
is justified through establishing attractive theoretical properties of a new complex-valued wavelet lifting transform, also
introduced in this paper. We demonstrate the accuracy of the proposed estimation method through simulations across a range
of sampling scenarios and complex- and real-valued persistent processes. For wind data, our method highlights that inclusion
of the intrinsic correlations between the real and imaginary data, inherent in our complex-valued approach, can produce
different persistence estimates than when using real-valued analysis. Such analysis could then support alternative modelling
or policy decisions compared with conclusions based on real-valued estimation. Keywords Complex-valued time series · Hurst exponent · Irregular sampling · Long-range dependence · Wavelets Keywords Complex-valued time series · Hurst exponent · Irregular sampling · Long-range depen Takedown If you consider content in White Rose Research Online to be in breach of UK law, please notify us by
emailing eprints@whiterose.ac.uk including the URL of the record and the reason for the withdrawal request. eprints@whiterose.ac.uk
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https://eprints.whiterose.ac.uk/ Statistics and Computing
https://doi.org/10.1007/s11222-018-9820-8 Marina I. Knight1 · Matthew A. Nunes2 Marina I. Knight1 · Matthew A. Nunes2 Received: 22 December 2017 / Accepted: 22 June 2018
© The Author(s) 2018 Received: 22 December 2017 / Accepted: 22 June 2018
© The Author(s) 2018 Received: 22 December 2017 / Accepted: 22 June 2018
© The Author(s) 2018 2
Department of Mathematics and Statistics, Fylde College,
Lancaster University, Lancaster LA1 4YF, UK 1
Department of Mathematics, University of York, Heslington,
York YO10 5DD, UK 1.1 Persistence in wind series Our motivating data example in this article arises from cli-
matology. More specifically, wind series have been analysed
extensively in the literature for modelling local weather pat-
terns and spread of pollutants, as well as global climate
dynamics. Long memory in wind series has been established
by a number of authors; see, for example, Haslett and Raftery
(1989), Chang et al. (2012) and Piacquadio and de la Barra
(2014) and references therein. Specifically, Hurst exponent
estimates for wind speed series on a range of sampling reso-
lutions, including the 5min scale considered here, have been
showntobeintherange0.7–0.9,indicatingstronglong-range
dependence; see, for example, Fortuna et al. (2014). Accurate
Hurst exponent estimation is used for accurate forecasting
of wind speed, for example to assess future power yields
(Haslett and Raftery 1989; Bakker and van den Hurk 2012). Our motivating data example in this article arises from cli-
matology. More specifically, wind series have been analysed
extensively in the literature for modelling local weather pat-
terns and spread of pollutants, as well as global climate
dynamics. Long memory in wind series has been established
by a number of authors; see, for example, Haslett and Raftery
(1989), Chang et al. (2012) and Piacquadio and de la Barra
(2014) and references therein. Specifically, Hurst exponent
estimates for wind speed series on a range of sampling reso-
lutions, including the 5min scale considered here, have been
showntobeintherange0.7–0.9,indicatingstronglong-range
dependence; see, for example, Fortuna et al. (2014). Accurate
Hurst exponent estimation is used for accurate forecasting
of wind speed, for example to assess future power yields
(Haslett and Raftery 1989; Bakker and van den Hurk 2012). Wind speed analysis in the literature is predominantly per-
formed using real-valued data, such as (magnitude) wind
speed series. However, more recently, a number of authors
have advocated modelling wind measurements as complex-
valued, developing analysis tools which exploit both speed
and directional information of wind time series; see, for
example, Goh et al. (2006) and Tanaka and Mandic (2007). These complex-valued modelling approaches have resulted
in methodology for improved prediction for series such as
those considered in this article (Mandic et al. 2009; Dowell
et al. 2014). To our knowledge, long memory estimation for
stationary time series is exclusively performed using real-
valued time series. In this article, we analyse the degree of
persistence (long memory intensity) exhibited by complex-
valued wind measurements, i.e. 1 Introduction 2013; Rehman and Siddiqi 2009; Knight et al. 2017). The wind series we consider in this article consists of two
datasets measured at a 5min resolution from the Iowa Depart-
ment of Transport’s Automated Weather Observing System
(AWOS). The (speed and angular) measurements for both
datasets are available at http://mesonet.agron.iastate.edu/
AWOS/. We firstly analyse data obtained from the Atlantic
Municipal Airport (AIO) monitoring site over a period from
15 April 2017 until 30 April 2017. Whilst the sampling inter-
valforthemeasurementsisreportedas5min,duetoanumber
of reasons, for example faulty recording devices, the data in
fact feature missingness which results in a mix of sampling
intervals—our first dataset has intervals ranging from 5 to
15min. Complex-valued processes, both proper (circular) and
improper (noncircular), are relevant across fields such as
oceanography and geophysics (Adali et al. 2011; Sykulski
et al. 2017), where data are typically difficult to acquire
and will frequently suffer from omissions/ missingness or
be irregularly sampled (see, e.g. Fig. 1). In the next section,
we describe datasets arising in environmental science that
feature missing observations, which can be examined for
long memory with a complex-valued representation. How-
ever, we note here that data from other scientific areas may
benefit from analysis with our proposed methodology; see
Sect. 6 for further discussion. Since we have both speed and directional information for
the dataset, we shall view the series using a complex-valued
representation. The real and imaginary components of the
series are shown in Fig. 1a, b, together with the locations
of the missing data (depicted by triangles). The length of
the first series is n = 3131 with an overall rate of miss-
ingness of 12%. Similar datasets from the Iowa monitoring
system have been previously studied in the literature for the
non-missing case but not in the context of Hurst estimation;
see, for example, Tanaka and Mandic (2007) and Adali et al. (2011). 1 Introduction aspect which has received recent attention is the property of
impropriety or noncircularity, describing series whose statis-
tics are not rotationally invariant in the complex plane [for
a precise definition, the reader is directed to Sykulski and
Percival (2016)]. Such models of improper processes have
seen growing interest in the statistics community; see, for
example, Schreier and Scharf (2003), Rubin-Delanchy and
Walden (2008) and Mohammadi and Plataniotis (2015). Fur-
thermore, complex-valued analysis of real-valued data has
been shown to be beneficial in a number of settings; see,
for example, Olhede and Walden (2005) and Hamilton et al. (2017). For a comprehensive introduction to complex-valued
signals, we refer the reader to Schreier and Scharf (2010); see
Adali et al. (2011) and Walden (2013) for recent advances in
modelling complex-valued signals. Complex-valued time series arise in many scientific fields
of interest, for example digital communication and signal
processing (Curtis 1985; Martin 2004), environmental series
(Gonella 1972; Lilly and Gascard 2006; Adali et al. 2011)
and physiology (Rowe 2005). Modelling and analysis of such
series in the complex domain is not only natural, but also
convenient. In addition, complex-valued time series mod-
els are often able to represent more realistic behaviour in
observed physical processes; see, for example, Mandic and
Goh(2009) andSykulski et al. (2017). Aparticular modelling Electronic supplementary material
The online version of this article
(https://doi.org/10.1007/s11222-018-9820-8) contains supplementary
material, which is available to authorized users. Recently, there has been an increased interest in models
for complex-valued stochastic processes exhibiting long-
range dependence (i.e. persistent) behaviour, which has seen
extensions of real-valued process modelling frameworks for
the complex-valued fractional Brownian motion (fBM) and
Matérn processes, see, respectively, Coeurjolly and Porcu
(2017) and Lilly et al. (2017), as well as for (improper) frac-
tional Gaussian noise (Sykulski and Percival 2016). For these B Matthew A. Nunes
m.nunes@lancaster.ac.uk
Marina I. Knight
Marina.Knight@york.ac.uk B Matthew A. Nunes
m.nunes@lancaster.ac.uk
Marina I. Knight
Marina.Knight@york.ac.uk 12 3 3 Statistics and Computing speed and direction, using new complex-valued Hurst esti-
mation methodology we propose here. constructions, just as for real-valued processes (Hurst 1951;
Mandelbrot and Ness 1968), the degree of memory can still
be quantified by means of a single parameter, the Hurst expo-
nent parameter (Amblard et al. 2012; Sykulski and Percival
2016). Accurate estimation of the Hurst parameter offers
valuable insight into a multitude of modelling and analysis
tasks, such as model calibration and prediction (Beran et al. 1.1 Persistence in wind series series which have both wind To explore the potential persistence in wind series, we
examine the autocorrelation in the real and imaginary parts
of the series, shown in Fig. 2a, b for the Wind A series. For
these data, both components show highly significant auto-
correlation over a range of lags, indicating long memory. To further illustrate potential benefits of a more considered
analysis approach for such data, we also investigate a dataset
from the same monitoring site but for a different time peri-
ods, specifically, 30 April 2017 until 14 May 2017. For this
dataset, the majority of the data are observed at a spacing
of 5min, but a significant amount have intra-measurement
sampling between 10 and 20min resulting from a missing-
ness proportion of 20%; the series is of length n = 2942. We
have specifically chosen to examine this second time period
due to its high degree of missingness. The two components of
the complex-valued series can be seen in Fig. 1c, d (triangles
indicate missing series values). Wind speed analysis in the literature is predominantly per-
formed using real-valued data, such as (magnitude) wind
speed series. However, more recently, a number of authors
have advocated modelling wind measurements as complex-
valued, developing analysis tools which exploit both speed
and directional information of wind time series; see, for
example, Goh et al. (2006) and Tanaka and Mandic (2007). These complex-valued modelling approaches have resulted
in methodology for improved prediction for series such as
those considered in this article (Mandic et al. 2009; Dowell
et al. 2014). To our knowledge, long memory estimation for
stationary time series is exclusively performed using real-
valued time series. In this article, we analyse the degree of
persistence (long memory intensity) exhibited by complex-
valued wind measurements, i.e. series which have both wind Similar observations about potential long memory char-
acteristics can be made for the second complex-valued wind
series. In particular, both real and imaginary components
of the series show considerable autocorrelation over a large
range of lags (Fig. 2c, d). In addition, plotting the series in the complex plane, we
see that both datasets exhibit a rotational behaviour, due to
the angular component of the series (Fig. 3). 1.1 Persistence in wind series The series are
not symmetric, exhibiting clear noncircularity, suggesting a
model which allows for impropriety is appropriate for analy- 12 123 Statistics and Computing Statistics and Computing
(a)
(b)
(c)
(d)
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Fig. 1 a Real component of the Wind A data series; b imaginary component of the Wind A data series; c real component of the Wind B data
series; d imaginary component of the Wind B data series. Red triangles indicate missing data locations. (Color figure online) (b)
Apr 19
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Wind Series (Imag. component) (d) (c) Fig. 1 a Real component of the Wind A data series; b imaginary component of the Wind A data series; c real component of the Wind B data
series; d imaginary component of the Wind B data series. Red triangles indicate missing data locations. (Color figure online) sis [for an in-depth discussion of these properties, the reader
is directed to e.g. Sykulski and Percival (2016)]. This reflects
similar observations on impropriety shown for other Iowa
AWOS data in Adali et al. (2011), as well as other wind
series (Mandic and Goh 2009). of information into a single, complex-valued series and anal-
yse its properties (Mandic and Goh 2009). Adopting this
approach thus calls for analysis techniques capable of dealing
with complex-valued data. Additionally, for many applica-
tions the process sampling structure is inherently irregular, as
the two components may be measured at irregular times, or
the data may be blighted by missingness due to measurement
device failures. 1.1 Persistence in wind series In the real-valued case, the common prac-
tice of preprocessing the data to mitigate against irregular or
missing observations results in inaccuracies in long memory
estimation by traditional methods. More specifically, there is
now well-documented evidence that preprocessing by impu-
tation or interpolation as well as data aggregation leads to 1.2 Aim and structure of the paper A feature of many geophysical series, such as described in
Sect. 1.1, is that there is a need to jointly analyse both com-
ponents of a bivariate signal in order to reveal a common
behaviour. Due to the natural representation in the complex
plane,onemathematicalsolutionistocombinethetwopieces 12 3 3 Statistics and Computing Statistics and Computing
0
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(d)
Fig. 2 a Autocorrelation for (a) the real component of the Wind A
series from Fig. 1; b the imaginary component of the Wind A series; c
the real component of the Wind B series from Fig. 1; and d the imagi-
nary component of the Wind B series (all treated as regularly spaced). Both components of the two datasets show autocorrelation at large lags,
indicating persistent behaviour 0
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(d) (d) (c) Fig. 2 a Autocorrelation for (a) the real component of the Wind A
series from Fig. 1; b the imaginary component of the Wind A series; c
the real component of the Wind B series from Fig. 1; and d the imagi- nary component of the Wind B series (all treated as regularly spaced). Both components of the two datasets show autocorrelation at large lags,
indicating persistent behaviour processes featuring regular or irregular sampling (including
missingness). overestimation of persistence; see, for example, Beran et al. (2013), Zhang et al. (2014) or Knight et al. (2017). In practice, to the authors’ best knowledge, the only tech-
nique that permits Hurst exponent estimation for complex-
valuedprocessesisthatofCoeurjollyandPorcu(2017)which
tackles the setting of regularly sampled (proper) complex-
valued fractional Brownian motion. 1.2 Aim and structure of the paper Motivated by the serious
implications of inaccurate estimation in the real-valued
setting, in this work we propose the first methodologi-
cal approach that answers the timely challenge of accurate
assessment of long memory persistence for complex-valued At the heart of our methodology is a second generation
wavelet-based approach. The reasoning behind this choice
is twofold: (1) (classical) wavelets have proved to be very
successful in the context of regularly sampled (real-valued)
time series with long memory and are considered the ‘right
domain’ of analysis (Flandrin 1998), and (2) for irregularly
sampled (real-valued) processes, or those featuring missing-
ness, the wavelet lifting algorithm of Knight et al. (2017) has
provided a first long memory estimation solution and was 12 3 3 Statistics and Computing −20
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noncircular (improper) characteristics −20
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(a) (b) (a) Fig. 3 Scatter plot of real and imaginary series values for a the Wind A data and b the Wind B series shown in Fig. 1. Both series exhibit
noncircular (improper) characteristics 2 Review of complex-valued processes,
long-range dependence and wavelet
lifting shown to yield competitive results even for regularly sam-
pled data. The main contributions of the work in this paper are as
follows. We propose (1) a novel lifting algorithm designed
to work on complex-valued data with a potentially irregular
sampling structure and (2) a Hurst parameter estimator for
complex-valued processes sampled with a regular or irreg-
ular structure. Our method will be shown to improve on
real-valued Hurst estimation results, including for regularly
spaced data. 2.1 Complex-valued processes Let us denote a (complex-valued) second-order stationary
time series by {Xt} and its autocovariance function as γX(ti −
t j) = E(Xti Xt j ), under the assumption that E(Xt) = 0
and denoting by ·p complex conjugation. As the autoco-
variance function γX does not completely characterize a
complex-valued time series, we also make use of its com-
plementary or pseudo-covariance, rX(ti −t j) = E(Xti Xt j ),
again assuming E(Xt) = 0. In general, both autocovariances
are complex-valued and have the properties of Hermitian
symmetry and symmetry, respectively [see, e.g. Sykulski and
Percival (2016)]. The remainder of this article is organized as follows. We begin, in Sect. 2, by reviewing (complex-valued) long
memory processes and giving an overview of wavelet lifting
transforms. Section 3 introduces our novel complex-valued
lifting transform, establishes its iterative bases construction
and theoretical results on its decorrelation properties. Sec-
tion 4 demonstrates how these properties can be exploited
to design our proposed lifting-based Hurst exponent esti-
mation procedure for complex-valued data sampled with
irregularity/ missingness. Section 5.1 contains a simulation
study evaluating the performance of our new method using
synthetic data. In Sect. 5.2, we consider the application
of our approach to the wind series datasets introduced in
Sect. 1.1, discussing the potential consequences of our anal-
ysis. Finally, Sect. 6 outlines some avenues of future work
and discusses other potential applications. In many applications, such as radar and communications,
processes are assumed to have the property that rX(·p) = 0
(Neeser and Massey 1993; Picinbono 1994; Adali et al. 2011); such processes are known as proper or circularly
symmetric and are completely determined by their autoco-
variance γX. In contrast, applications such as those described
in Schreier and Scharf (2010), Adali et al. (2011) and
Chandna and Walden (2017) deal with improper processes,
whereby there exists a lag τ such that rX(τ) ̸= 0. Another
often encountered property is that of time reversibility; for
complex-valued processes, Didier and Pipiras (2011) have
shown that time reversibility results in complex-valued pro-
cesses with real-valued autocovariances, which is precisely
the setting under which Sykulski and Percival (2016) develop 12 3 3 Statistics and Computing has long memory (−β = 2δ−3 = 2H −2 ∈(−1, 0); hence,
1/2 < H < 1). their exact simulation method for improper stationary Gaus-
sian processes. 2.2 Long memory and its estimation Classical literature for long-range behaviour of real-valued
processes shows that persistence is often characterized by
a parameter, such as the Hurst exponent, H, introduced to
the literature by Hurst (1951) in hydrology and its estima-
tion is treated across a large body of established literature,
for example Beran et al. (2013). Mandelbrot and Ness
(1968) introduced self-similar and related processes with
long memory, along with the associated statistical inference. Extensions of fractional Brownian motion to the complex-
valued case, defined as a self-similar Gaussian process with
stationary increments, are dealt with in, for example, Coeur-
jolly and Porcu (2017) and Lilly et al. (2017). Put simply, the
property of self-similarity amounts to the preservation of the
process’ statistical properties in the face of rescaling, thus
naturally fostering the definition of the Hurst exponent. Just as in the real-valued case, a complex-valued self-
similar process {Xt} with parameter H satisfies X(at)
d=
aH X(t) for a > 0, H
∈(0, 1) and where
d= means
equal in distribution (Coeurjolly and Porcu 2017). Note
that the self-similarity definition implies that both the real
and imaginary strands of the complex-valued process {Xt}
evolve according to the same exponent H. The property of
self-similarity results into the fBM spectrum to behave as
fX(ω) = A2|ω|−2δ for frequencies ω, a constant A and
δ ∈(1/2, 3/2). The spectral slope parameter δ is linked to
the aspect ratio of process rescaling for self-similar behaviour
as H = δ −1/2 ∈(0, 1) and also determines the degree of
persistence in the differenced version of the process, the frac-
tional Gaussian noise (Lilly et al. 2017). An example of such
a process is the improper fractional Gaussian noise with the
pseudo-covariance proportional to the autocovariance (both
real-valued), both proportional to τ 2δ−3 (Sykulski and Per-
cival 2016; Lilly et al. 2017). 2.1 Complex-valued processes For real-valued time series, estimation of the Hurst expo-
nent H traditionally takes place in the time domain (Mandel-
brot and Taqqu 1979; Bhattacharya et al. 1983; Taqqu et al. 1995; Giraitis et al. 1999; Higuchi 1990; Peng et al. 1994)
and/ or in the frequency domain by means of connections
to Fourier or wavelet spectrum decay, for example Lobato
and Robinson (1996), McCoy and Walden (1996), Whitcher
and Jensen (2000) and Abry et al. (2013). Recent works
that deal with long memory estimation in various settings
are Vidakovic et al. (2000), Shi et al. (2005), Hsu (2006),
Jung et al. (2010) and Coeurjolly et al. (2014). Some authors
have recently considered Hurst estimation using complex-
valued wavelets in the regularly spaced real-valued image
context; see Nelson and Kingsbury (2010), Jeon et al. (2014)
and Nafornita et al. (2014). Reviews comparing several tech-
niques for Hurst exponent estimation (for real-valued series)
can be found in, for example, Taqqu et al. (1995). Even when
only considering real-valued data, Knight et al. (2017) show
that methods designed for regularly spaced data often fail to
deliver a robust estimate if the time series is subject to miss-
ing observations or has been sampled irregularly, and in this
context they propose a lifting-based approach for Hurst esti-
mation. Whilst this approach serves well when the process is
real-valued, it cannot cope with complex-valued processes. Coeurjolly and Porcu (2017) propose a method of estima-
tion in the setting of (circular) complex-valued fractional
Brownian motion assuming a regular sampling structure, but
cannot readily cope with sampling irregularity or measure-
ment dropout/ missingness. 2.3 Wavelet lifting paradigm for irregularly sampled
real-valued data The lifting algorithm, first introduced by Sweldens (1995),
constructs ‘second-generation’ wavelets adapted for non-
standard data settings, such as intervals, surfaces, as well
as irregularly spaced data. Lifting has since been used
successfully for a variety of statistical problems dealing
withreal-valuedsignals,includingnonparametricregression,
spectral estimation and long memory estimation; see, for
example, Trappe and Liu (2000), Nunes et al. (2006), Knight
et al. (2012), Knight et al. (2017) and Hamilton et al. (2017). For a recent review of lifting, the reader is directed to Jansen
and Oonincx (2005). Definition 1 (Lilly et al. 2017) A stationary (finite variance)
complex-valued process {Xt} with real-valued autocovari-
ance γX is said to have long memory if γX(τ) ∼cγ |τ|−β
as |τ| →∞and β ∈(0, 1), where ∼means asymptotic
equality. In other words, the process autocovariance displays
long-term decay. Equivalently, the autocovariance Fourier pair, namely the
spectral density, has the property that fX(ω) ∼c f |ω|−α for
frequencies ω →0 and α ∈(0, 1) with α = 1−β = 2H −1. In general, if 0.5 < H < 1 the process exhibits long mem-
ory, with higher H values indicating stronger dependence,
whilst if 0 < H < 0.5 the process has short memory. An
improper fractional Gaussian noise constructed as outlined
above (Sykulski and Percival 2016) with 1 < δ < 3/2 thus As our proposed lifting transform and subsequent long
memory estimation method both make use of a recently
developed lifting transform, the lifting one coefficient at a
time (LOCAAT) transform of Jansen et al. (2001), Jansen
et al. (2009), we shall briefly introduce it next. Suppose a real-valued function f (·p) is observed at a
set of n, possibly irregular, locations or time points, x = 123 123 Statistics and Computing (x1, . . . , xn) and is represented by {(xi, f (xi) = fi)}n
i=1. The lifting algorithm of Jansen et al. (2001) begins with the
f = ( f1, . . . , fn) values, known as scaling function val-
ues, together with an interval associated with each location,
xi, which represents the ‘span’ of that point. By performing
LOCAAT, we aim to transform the initial f into a set of, say,
L coarser scaling coefficients and (n −L) wavelet or detail
coefficients, where L is a desired ‘primary resolution’ scale. This is achieved by repeating three steps: split, predict and
update. In the algorithm of Jansen et al. 2.3 Wavelet lifting paradigm for irregularly sampled
real-valued data (2001), the split step
is performed by choosing a point to be removed (‘lifted’), jn,
say. We denote this point by (x jn, f jn) and identify its set of
neighbouring observations, In. The predict step estimates
f jn by using regression over the neighbouring locations In. The prediction error (the difference between the true and
predicted function values), d jn or detail coefficient, is then
computed by An attractive feature of lifting schemes, including the
LOCAAT algorithm, is that the transform can be inverted
easily by reversing the split, predict and update steps. The current scarcity of Hurst estimation techniques for
complex-valued processes, in a uniform, but even more so in
a non-uniform sampling setting, and the effectiveness of the
lifting transform in representing irregularly sampled infor-
mation, jointly motivate our proposed approach to tackle
this analysis problem: firstly we propose a novel lifting
transform able to cope with irregularly sampled complex-
valued processes, and secondly we construct a long memory
estimator using the corresponding complex-valued lifting
coefficients. Notably, the proposed method is suitable for
regularly or irregularly sampled processes, both real- and
complex-valued; in particular, Hurst estimation is addressed
for improper complex-valued processes that have real-valued
covariances, as introduced in Sykulski and Percival (2016),
as well as for proper complex-valued series, as described in
Coeurjolly and Porcu (2017). d jn = f jn −
i∈In
an
i fi,
(1) (1) 3 A new lifting algorithm for
complex-valued signals and its properties where (an
i )i∈In are the weights resulting from the regres-
sion procedure. For points with only one neighbour, the
prediction is simply d jn = f jn −fi. This prediction via
regression can of course be carried out using a variety of
weights. Notably, Hamilton et al. (2017) proposed to use
two (rather than just one) prediction filters and encompassed
the detail information into complex-valued wavelet coeffi-
cients. As more information was extracted from the signal,
this approach was shown to improve results for nonparamet-
ric regression and spectral/ coherence estimation settings,
but nevertheless is limited to real-valued signals. The update
step consists of updating the f -values of the neighbours of
jn used in the predict step using a weighted proportion of the
detail coefficient: In this section, we introduce our proposed lifting algorithm
for a complex-valued function and establish its decorrelation
properties. neighbours {sn,i} are updated according to filter L: removed first, but other predefined removal choices are also
possible, as we shall discuss below. We shall often refer to the
removal order as a trajectory, following Knight and Nason
(2009). cn−1,i = cn,i + bn
i λ jn,
sn−1,i = sn,i + ln
i sn, jn
∀i ∈Jn,
(7) (7) Predict The set of neighbours (Jn) of the point jn is iden-
tified. Note that the set of neighbours is indexed by n
as the choice will depend on the removal stage (via the
points remaining at that stage). The predict step estimates
cn, jn = f jn by using regression over the neighbouring loca-
tions Jn andtwopredictionschemes,astrategyfirstsuggested
by Hamilton et al. (2017) for real-valued signals. Each pre-
diction scheme is defined by its respective filter, L and M,
orthogonal on each other. The filter L corresponds to the
(possibly) linear regression choice as is usual in LOCAAT. The filter M is linked to L through a specific set of properties,
discussed in detail in Hamilton et al. (2017) and described in
step 2 of Algorithm 1. Both filters are constructed such that
the corresponding wavelet coefficients of any constant poly-
nomial are 0 (known in the wavelet literature, as possessing
(at least) one vanishing moment). where bn
i
= (sn, jnsn−1,i)/(
i∈Jn s2
n−1,i) are the update
weights, again computed so that the mean of the signal is pre-
served (Jansen et al. 2009). Updating the neighbours’ spans
accounts for the modification to the sampling grid induced
by removing one of the observations, and using just one filter
for update [akin to the approach of Hamilton et al. (2017)]
ensures the use of a common scale across both d(1) and d(2). The observation jn is then removed from the set of smooth
coefficients; hence, after the first algorithm iteration, the
index set of smooth coefficients is Sn−1 = {1, ..., n}\{ jn}
and the index set of detail coefficients is Dn−1 = { jn}. The
algorithm is then reiterated until the desired primary reso-
lution level R has been achieved. In practice, the choice of
the primary level R in LOCAAT lifting schemes is not cru-
cial provided it is sufficiently low (Jansen et al. 2009), with
R = 2 recommended by Nunes et al. (2006). neighbours {sn,i} are updated according to filter L: The prediction residuals following the use of each filter
are given by The three steps are then repeated on the updated signal,
and each repetition yields two new wavelet coefficients. After
points jn, jn−1, . . . , jR+1 have been removed, the function
can be represented as a set of 2 × (n −R) detail coefficients,
{d(1)
jk }k∈Dn−R and {d(2)
jk }k∈Dn−R, and R smooth coefficients,
{cr−1,i}i∈Sn−R, thus resulting in a redundant transform. An
algorithmic description of C2-LOCAAT appears in Algo-
rithm 1. λ jn = ln
jncn, jn −
i∈Jn
ln
i cn,i,
(3)
μ jn = mn
jncn, jn −
i∈Jn
mn
i cn,i,
(4) (3) (4) where {ln
i }i∈Jn∪{ jn} and {mn
i }i∈Jn∪{ jn} are the prediction
weights associated with filters L and M; as is typical in
LOCAAT, we take ln
jn = 1. The proposed algorithm can then be easily inverted by
recursively ‘undoing’ the update, predict and split steps
described above for the first filter (L). More specifically, the
inverse transform can be performed by the steps jn
Our proposal is to obtain two complex-valued detail
(wavelet) coefficients by combining the two prediction resid-
uals as follows: Undo Update cn,i = cn−1,i −bn
i λ jn, ∀i ∈Jn te cn,i = cn−1,i −bn
i λ jn, ∀i ∈Jn Undo Update cn,i = cn−1,i −bn
i λ jn, ∀i ∈Jn d(1)
jn = λ jn + i μ jn,
(5)
d(2)
jn = λ jn −i μ jn. (6) (5) 3.1 Proposed C2-LOCAAT algorithm for
complex-valued signals Suppose now a complex-valued function f (·p) is observed
at a set of n, possibly irregular, locations or time points, x =
(x1, . . . , xn) and is represented by {(xi, f (xi) = fi)}n
i=1. Our proposed algorithm builds a redundant transform that
starts with the complex-valued signal f = ( f1, . . . , fn) ∈
Cn and transforms it into a set of, say, R coarse (complex-
valued) scaling coefficients and 2×(n−R) (complex-valued)
detail coefficients, where R is the desired primary resolution
scale. As is usual in lifting, our algorithm reiterates the three
steps—split, predict and update—in a modified version, as
described below. f (updated)
i
:= fi + bn
i d jn,
i ∈In,
(2) (2) where the weights (bn
i )i∈In are subject to the constraint that
the algorithm preserves the signal mean value (Jansen et al. 2001, 2009). The interval lengths associated with the neigh-
bouring points are also updated to account for the effect of
the removal of jn. In effect, this attributes a portion of the
interval associated with the removed point to each neighbour. At the first stage (n) of the algorithm, denote the smooth
coefficients as cn,k = fk, the set of indices of smooth coef-
ficients by Sn = {1, . . . , n} and the set of indices of detail
coefficients by Dn = ∅. The sampling structure is accounted
for using the distance between neighbouring observations,
and at stage n we define the span of xk as sn,k = xk+1−xk−1
2
. These split, predict and update steps are then repeated on
the updated signal, and after each iteration a new wavelet
coefficient is produced. Hence, after say (n −L) removals,
the original data are transformed into L scaling and (n −L)
wavelet coefficients. This is similar in spirit to the classical
discrete wavelet transform (DWT) step which takes a signal
vector of length 2ℓand through filtering operations produces
2ℓ−1 scaling and 2ℓ−1 wavelet coefficients. At the next stage (n−1), the proposed algorithm proceeds
as follows: Split Choose a point to be removed and denote its index by
jn. Typically, points from the densest sampled regions are 123 12 3 Statistics and Computing neighbours {sn,i} are updated according to filter L: neighbours {sn,i} are updated according to filter L: neighbours {sn,i} are updated according to filter L: Proposed C2-LOCAAT using two symmetrical
neighbours: By construction, M is orthogonal on L, has at
least one vanishing moment and ∥L∥= ∥M∥. Using M, obtain
a new prediction residual, μ jn (see Eq. (4)). (b) Construct a new filter M = (Am, (1+ A)m, m) with A = l1−2
l1+1
and m = l1+1
√
3 . By construction, M is orthogonal on L, has at
least one vanishing moment and ∥L∥= ∥M∥. Using M, obtain
a new prediction residual, μ jn (see Eq. (4)). p
μjn
q
(c) The complex-valued wavelet (detail) coefficients at jn are
d(1)
jn = λ jn + i μ jn and d(2)
jn = λ jn −i μ jn. jn
(c) The complex-valued wavelet (detail) coefficients at jn are
d(1)
jn = λ jn + i μ jn and d(2)
jn = λ jn −i μ jn. jn
(c) The complex-valued wavelet (detail) coefficients at jn are
d(1)
jn = λ jn + i μ jn and d(2)
jn = λ jn −i μ jn. 3. Update: the smooth coefficients and their associated scales using
the filter L (see Eq. (7)). Update the index sets of smooth and detail coefficients as Sn−1 =
Sn\{ jn} and Dn−1 = { jn}, respectively. 3. Update: the smooth coefficients and their associated scales using
the filter L (see Eq. (7)). Update the index sets of smooth and detail coefficients as Sn−1 =
Sn\{ jn} and Dn−1 = { jn}, respectively. 3. Update: the smooth coefficients and their associated scales using
the filter L (see Eq. (7)). Update the index sets of smooth and detail coefficients as Sn−1 =
Sn\{ jn} and Dn−1 = { jn}, respectively. 4. Iterate steps 1–3 for jn−1, . . . , jR+1 with a typical primary reso-
lution level R = 2, hence obtain a set of complex-valued wavelet
coefficients indexed by DR = { jn, ..., jR+1}. Alg. 1 The complex-valued lifting scheme (C2-LOCAAT) on a
complex-valued signal matrix with complex-valued entries. When expressed as a
matrix transform, our proposed C2-LOCAAT algorithm for
a complex-valued process ( f ) can be expressed as Proposed C2-LOCAAT using two symmetrical
neighbours: Proposed C2-LOCAAT using two symmetrical
neighbours: Choose a removal order (trajectory), either dictated by the sampling
sequence or following a random permutation. 1. Split: Choose the first/next point to be removed from the set of
smooth coefficients Sn = {1, ..., n} and denote its index by jn. (a) Determine the set of neighbours Jn (one each side of jn) and
use linear regression over the neighbourhood in order obtain a
prediction at jn. Calculatethepredictionresidual,λ jn,asthedifferencebetween
the observed and predicted values at jn (see Eq. (3)). This
coupled with the requirement of achieving at least one vanish-
ing moment amounts to obtaining a filter L = (l1, 1,l3) with
l1 + l3 = 1. l
2 (a) Determine the set of neighbours Jn (one each side of jn) and
use linear regression over the neighbourhood in order obtain a
prediction at jn. Calculatethepredictionresidual,λ jn,asthedifferencebetween
the observed and predicted values at jn (see Eq. (3)). This
coupled with the requirement of achieving at least one vanish-
ing moment amounts to obtaining a filter L = (l1, 1,l3) with
l1 + l3 = 1. Choice of removal order The lifting algorithms in Sects. 2.3
and 3.1 are inherently dependent on the order in which points
are removed as the algorithm progresses. Jansen et al. (2009)
remove points in order from the finest continuous scale to
the coarsest, to mimic the DWT, which produces coefficients
at the finest scale first, then at progressively coarser scales. However, in our proposed C2-LOCAAT scheme, we can
choose to remove points according to a predefined path (or
trajectory) T = (xo1, . . . , xon), where (o1, o2, . . . , on) is a
permutation of the set {1, . . . , n}. Knight and Nason (2009)
introduced the nondecimated lifting transform, which pro-
poses examining data using P bootstrapped paths from the
space of n! possible trajectories. Aggregating the informa-
tion obtained via this approach typically improves estimator
variance and accuracy, not only in the long memory estima-
tion context (Knight et al. 2017), but also for, for example
nonparametric regression (Knight and Nason 2009). This
strategy will be embedded in our proposed methodology in
Sect. 4. (b) Construct a new filter M = (Am, (1+ A)m, m) with A = l1−2
l1+1
and m = l1+1
√
3 . Undo Predict (6) cn, jn =
λ jn −
i∈Jn ln
i cn,i
ln
jn
or
(8)
cn, jn =
μ jn −
i∈Jn mn
i cn,i
mn
jn
. (9) (8) Note that if the original signal is real-valued, then d(2) = d(1)
and all we need is d(1). However, when the process is
complex-valued as is the case here, d(2) ̸= d(1) and we need
bothd(1) andd(2).ThisisincontrasttoHamiltonetal.(2017),
where the information from the two prediction schemes is
corroborated into just one complex-valued wavelet coeffi-
cient, and although its naive implementation on the real and
imaginary process strands would yield two sets of complex-
valued wavelet coefficients, it would not be obvious how to
best combine their information. (9) Undoing either predict (8) or (9) step is sufficient for inver-
sion. A few remarks on our proposed C2-LOCAAT lifting algo-
rithm are now in order. Transform matrix representation As with any linear trans-
form, the algorithm that determines one set of detail coef-
ficients, say d(1), can also be represented using a matrix
transform, i.e. d(1) = W (c) f , where W (c) is a n × n Update
In the update step, both the (complex-valued)
smooth coefficients {cn,i} and (real-valued) spans of the 123 Statistics and Computing the complex-valued wavelet coefficients produced using our
C2-LOCAAT algorithm. An alternative is to group the coef-
ficients via their interval lengths into ranges (2 j−1α0, 2 jα0],
where j ≥1 and α0 is the minimum scale. This construc-
tion more closely resembles classical wavelet dyadic scales,
but both produce similar results. Note that by construction,
the C2-LOCAAT transform crucially uses a common scale
for both real and imaginary parts, and it is this feature that
ensures that information is obtained on the same scale at
every step. Proposed C2-LOCAAT using two symmetrical
neighbours: 3.3 Decorrelation properties of the C2-LOCAAT
algorithm with d(i)
ℓ
=< f , ˜ψ(i)
ℓ
> and c(i)
r,k =< f , ˜ϕ(i)
r,k > for both
bases i = 1, 2, where the inner product is as usual defined
on L2(C). As the update step is the same for both bases, it fol-
lows that c(1)
r,k = c(2)
r,k. Hence, denote cr,k =< f , ˜ϕ(1)
r,k >=<
f , ˜ϕ(2)
r,k >, for all r, k and thus the dual scaling functions
coincide under both bases. In what follows, we shall denote
these by ˜ϕr,k. with d(i)
ℓ
=< f , ˜ψ(i)
ℓ
> and c(i)
r,k =< f , ˜ϕ(i)
r,k > for both
bases i = 1, 2, where the inner product is as usual defined
on L2(C). As the update step is the same for both bases, it fol-
lows that c(1)
r,k = c(2)
r,k. Hence, denote cr,k =< f , ˜ϕ(1)
r,k >=<
f , ˜ϕ(2)
r,k >, for all r, k and thus the dual scaling functions
coincide under both bases. In what follows, we shall denote
these by ˜ϕr,k. Wavelet transforms are known to possess good decorrela-
tion properties; see in the context of long memory processes,
for example, Abry et al. (2000), Jensen (1999), Craigmile
et al. (2001) for classical wavelets, and Knight et al. (2017)
for lifting wavelets constructed by means of LOCAAT. The
decorrelation property amounts to the consequent removal
of the long memory in the wavelet domain, and thus esti-
mation of the Hurst exponent can be carried out in this
simplified context. Therefore, we next provide mathematical
evidence for the decorrelation properties of the C2-LOCAAT
algorithm and these will subsequently benefit our proposed
long memory estimation procedure (see Sect. 4). The state-
ment of Proposition 2 (next) aims to establish decorrelation
results similar to earlier ones concerning regular wavelets
(see, e.g. Abry et al (2000, p. 51) for fractional Gaussian
noise, Jensen (1999, Theorem 2) for fractionally integrated
processes or Theorem 5.1 of Craigmile and Percival (2005)
for fractionally differenced processes) and lifting wavelets
[see Proposition 1 in Knight et al. (2017)]. In what follows,
we establish the decorrelation properties for the proposed
complex-valued lifting transform C2-LOCAAT in a more
general data setting than previously considered for lift-
ing wavelets, involving complex-valued stationary processes
with real-valued autocovariances that may be proper or
improper in nature. where ˜ψ L denotes the dual wavelet function corresponding
to the L-filter only. In our proposed construction, let us denote the two
scaling
function
and
wavelet
biorthogonal
bases
by
ϕ(1), ˜ϕ(1), ψ(1), ˜ψ
(1)
and
ϕ(2), ˜ϕ(2), ψ(2), ˜ψ
(2)
,
respectively. We now explore their relationships and recur-
sive construction. The proof can be found in ‘Appendix A, Section A.1’. The proof can be found in ‘Appendix A, Section A.1’. Summarizing,
the
two
bases
can
be
represented
as {ϕ(1), ˜ϕ, ψ(1), ˜ψ
(1)} and {ϕ(1), ˜ϕ, ψ(1), ˜ψ
(2)} and their
recursive construction established above will be used in
obtaining the formal properties required to justify our pro-
posed long memory estimation approach. At stage r, the complex-valued signal f can be decom-
posed on each basis as f (x) =
ℓ∈Dr
d(i)
ℓψ(i)
ℓ(x)+
k∈Sr
c(i)
r,kϕ(i)
r,k(x),
i = 1, 2, (12) 3.3 Decorrelation properties of the C2-LOCAAT
algorithm Proposition 1 Suppose we are at stage r −1 of the C2-
LOCAAT algorithm. The recursive construction of the primal
scaling and wavelet functions corresponding to the coeffi-
cients d(1), in terms of the functions at the previous stage r,
is given by ϕ(1)
r−1, j(x) = ϕ(1)
r, j(x) + ˜ar
jϕ(1)
r, jr (x), if j ∈Jr,
(13)
ϕ(1)
r−1, j(x) = ϕ(1)
r, j(x), if j /∈Jr,
(14)
ψ(1)
jr (x) =
ar
jr
|ar
jr |2 ϕ(1)
r, jr (x) −
j∈Jr
br
jϕ(1)
r−1, j(x),
(15) (13) (14) (15) where ar
j = ℓr
j + i mr
j and ˜ar
j =
ar
jr ar
j
|ar
jr |2 . jr
Similarly, the recursive construction for the primal scaling
and wavelet functions corresponding to the coefficients d(2),
in terms of the functions at the previous stage r, is given by ϕ(2)
r−1, j(x) = ϕ(2)
r, j(x) + ˜a
r
jϕ(2)
r, jr (x), if j ∈Jr,
(16)
ϕ(2)
r−1, j(x) = ϕ(2)
r, j(x), if j /∈Jr,
(17)
ψ(2)
jr (x) =
ar
jr
|ar
jr |2 ϕ(2)
r, jr (x) −
j∈Jr
br
jϕ(2)
r−1, j(x). (18) (16) (16) Proposition 2 Let X
= {Xti }N−1
i=0
denote a (zero-mean)
stationary long memory complex-valued time series with
Lipschitz continuous spectral density fX. Assume the pro-
cess is observed at irregularly spaced times {ti}N−1
i=0 , and
let {{cR,i}i∈{0,...,N−1}\{ jN−1,..., jR−1}, {d jr }N−1
r=R−1} be the C2-
LOCAAT transform of X, where d jr =
d(1)
jr
d(2)
jr
T
. Then,
both sets of detail coefficients {d(1)
jr }r and {d(2)
jr }r have auto-
correlation and pseudo-autocorrelation whose magnitudes
decay at a faster rate than for the original process. Proposition 2 Let X
= {Xti }N−1
i=0
denote a (zero-mean)
stationary long memory complex-valued time series with
Lipschitz continuous spectral density fX. Assume the pro-
cess is observed at irregularly spaced times {ti}N−1
i=0 , and
let {{cR,i}i∈{0,...,N−1}\{ jN−1,..., jR−1}, {d jr }N−1
r=R−1} be the C2-
LOCAAT transform of X, where d jr =
d(1)
jr
d(2)
jr
T
. Then,
both sets of detail coefficients {d(1)
jr }r and {d(2)
jr }r have auto-
correlation and pseudo-autocorrelation whose magnitudes
decay at a faster rate than for the original process. 3.2 Refinement equations for the scaling and
wavelet functions under C2-LOCAAT d =
W (c)
W (c)
f
(10)
=
d(1)
d(2)
,
(11)
with d(1) = W (c) f and d(2) = W (c) f . d =
W (c)
W (c)
f
(10)
=
d(1)
d(2)
,
(11) Although not explicitly apparent, the wavelet lifting con-
struction induces a biorthogonal (second generation) wavelet
basis construction; see, for example Sweldens (1995). In
the real-valued lifting one coefficient at a time paradigm,
as the algorithm progresses, scaling and wavelet functions
decomposing the frequency content of the signal are built
recursively according to the predict and update Eqs. (1)
and (2) (Jansen et al. 2009). Also, the (dual) scaling func-
tions are defined recursively as linear combinations of (dual)
scaling functions at the previous stage. (10) (11) with d(1) = W (c) f and d(2) = W (c) f . with d(1) = W (c) f and d(2) = W (c) f . with d(1) = W (c) f and d(2) = W (c) f . Wavelet lifting scales and artificial levels The (log2) span
associated with an observation at the last stage before its
removal, say log2(sk, jk) for the detail coefficient d jk obtained
at stage k, is used as a (continuous) measure of scale—this
indirectly stems from the fact the wavelets are not dyad-
ically scaled versions of a single mother wavelet. As the
notion of scale of lifting wavelets is continuous, Jansen
et al. (2009) group wavelet functions of similar (continu-
ous) scales into ‘artificial’ levels, to mimic the dyadic levels
of classical wavelets [see Jansen et al. (2001), Jansen et al. (2009) for more details]. We also adopt this strategy to group Let us now investigate the basis decomposition afforded
by our proposed C2-LOCAAT transform, as a result of
performing the split, predict and update steps. As our con-
struction involves two prediction filters, we decompose f on
two biorthogonal bases. Our construction is reminiscent of
the dual-tree complex wavelet transform (CWT) (Kingsbury
2001;Selesnicketal.2005)whichemploystwoseparateclas-
sical wavelet transforms, but fundamentally differs through
the construction of linked orthogonal filters. 123 12 3 3 Statistics and Computing where ˜ψ L denotes the dual wavelet function corresponding
to the L-filter only. where ˜ψ L denotes the dual wavelet function corresponding
to the L-filter only. 4 Long memory parameter estimation using
complex wavelet lifting (CLoMPE) j
jr
jr
2. Normalize both sets of (complex-valued) detail coefficients by their
corresponding C-modulus: divide each squared (C) modulus by
the corresponding diagonal entry of W (c)W (c),T , where W (c) is the
complex-valued lifting transform matrix corresponding to d(1). j
jr
jr
2. Normalize both sets of (complex-valued) detail coefficients by their
corresponding C-modulus: divide each squared (C) modulus by
the corresponding diagonal entry of W (c)W (c),T , where W (c) is the
complex-valued lifting transform matrix corresponding to d(1). As the newly constructed wavelet domain through C2-
LOCAAT displays small magnitude autocorrelations, we
now focus on the wavelet coefficient variance and show that
the log2-variance of each of the complex-valued lifting coef-
ficients d(1) and d(2) is linearly related to their corresponding
artificial scale level, a result paralleling classical and real-
valued lifting wavelet results. This result suggests a Hurst
parameter estimation method for potentially irregularly sam-
pled long memory processes that take values in the complex
(C) domain. 3. Group the coefficients into a set of artificial scales as described in
Sect. 2.3. Estimate the wavelet energy within the artificial level j⋆
by 3. Group the coefficients into a set of artificial scales as described in
Sect. 2.3. Estimate the wavelet energy within the artificial level j⋆
by ˆσ (ℓ)
j⋆
2
:= (n j⋆−1)−1
n j⋆
r=1
|d(ℓ)
jr |2, for each ℓ= 1, 2,
(24) (24) where n j⋆is the number of observations in artificial level j⋆. Note
that the C2-LOCAAT construction, by its use of an unique update
step, ensures that the number of observations in each j⋆artificial
level coincides for both ℓ= 1 and ℓ= 2. 2 4. Fit a weighted linear regression to all points log2
ˆσ (ℓ)
j⋆
2
with
ℓ= 1, 2 versus j⋆; use its slope to estimate α as suggested by
the results in Proposition 3. Note that Eq. (23) allows us to pull the
information across both d(1) and d(2). Proposition 3 next establishes a result similar to that in
Proposition 2 of Knight et al. (2017) by taking into account
the specific C2-LOCAAT construction and thus extends the
scope of Hurst estimation methodology to irregularly sam-
pled complex-valued processes. 5. Iterate steps A-1 to A-4 for P bootstrapped trajectories, obtaining
an estimate ˆαp for each trajectory p ∈1, P. 3.3 Decorrelation properties of the C2-LOCAAT
algorithm (17) (18) For the corresponding dual bases, the recursive construc-
tions are given by ˜ϕr−1, j(x) = ˜ϕr, j(x) + br
j ˜ψ L
jr (x),
∀j ∈Jr,
(19)
˜ϕr−1, j(x) = ˜ϕr, j(x),
∀j /∈Jr,
(20)
˜ψ(1)
jr (x) = ar
jr ˜ϕr, jr (x) −
j∈Jr
ar
j ˜ϕr, j(x),
(21)
˜ψ(2)
jr (x) = ar
jr ˜ϕr, jr (x) −
j∈Jr
ar
j ˜ϕr, j(x),
(22) ˜ϕr−1, j(x) = ˜ϕr, j(x) + br
j ˜ψ L
jr (x),
∀j ∈Jr,
(19)
˜ϕr−1, j(x) = ˜ϕr, j(x),
∀j /∈Jr,
(20)
˜ψ(1)
jr (x) = ar
jr ˜ϕr, jr (x) −
j∈Jr
ar
j ˜ϕr, j(x),
(21)
˜ψ(2)
jr (x) = ar
jr ˜ϕr, jr (x) −
j∈Jr
ar
j ˜ϕr, j(x),
(22) Theproofcanbefoundin‘AppendixA,SectionA.2’anduses
similar arguments to the proof of Proposition 1 in Knight
et al. (2017), adapted for the C2-LOCAAT algorithm and
complex-valuedsettingweaddresshere.JustasforLOCAAT Statistics and Computing (Knight et al. 2017), Proposition 2 above assumes no spe-
cific lifting wavelet and we conjecture that if smoother lifting
wavelets were employed, it might be possible to obtain even
better rates of decay. Assume that {Xti }N−1
i=0 is as in Proposition 3. We estimate α as follows. 1. Apply C2-LOCAAT to the complex-valued observed process
{Xti }N−1
i=0 using a particular lifting trajectory to obtain the coef-
ficients {d jr =
d(1)
jr
d(2)
jr
T
}r; see Eq. (10). 4 Long memory parameter estimation using
complex wavelet lifting (CLoMPE) The final estimator is
ˆα = P−1 P
p=1 ˆαp, from which an appropriate estimate for H can
be obtained. Proposition 3 Let X
= {Xti }N−1
i=0
denote a (zero-mean)
complex-valued long memory stationary time series with
finite variance and spectral density fX(ω) ∼c f |ω|−α as
ω →0, for some α ∈(0, 1). Assume the series is observed at
irregularly spaced times {ti}N−1
i=0 , and transform the observed
data X into a collection of lifting coefficients, {d(1)
jr }r and
{d(2)
jr }r, via application of C2-LOCAAT from Sect. 3.1. be obtained. Alg. 2 The long memory parameter estimation procedure (CLoMPE)
for a complex-valued process {Xti }N−1
i=0 , sampled at potentially irregu-
larly spaced times Alg. 2 The long memory parameter estimation procedure (CLoMPE)
for a complex-valued process {Xti }N−1
i=0 , sampled at potentially irregu-
larly spaced times 1 We would like to thank Adam Sykulski for supplying the Matlab
code to simulate the improper complex fractional Gaussian noise pro-
cesses. 5 Simulated performance of CLoMPE and
real data analysis j
Let r denote the stage of C2-LOCAAT at which we obtain
the wavelet coefficients d(ℓ)
jr (with ℓ= 1, 2), and let its cor-
responding artificial level be j⋆. Then, denoting by | · p| the
C-modulus, we have for some constant K Alg. 2 The long memory parameter estimation procedure (CLoMPE)
for a complex-valued process {Xti }N−1
i=0 , sampled at potentially irregu-
larly spaced times 5.1 Simulated performance of CLoMPE In what follows, we investigate the performance of our Hurst
parameter estimation technique for complex-valued series. We simulated realizations of two types of long memory
processes, namely circularly symmetric complex fractional
Brownian motion, as introduced in Coeurjolly and Porcu
(2018), and improper complex fractional Gaussian noise
(with real-valued covariances) as described in Sykulski and
Percival (2016),1 investigating series of lengths of 256, 512
and 1024. These lengths were chosen to reflect realistic data
collection scenarios—long enough for the Hurst parameter
(a low-frequency asymptotic quantity) to be reasonably esti- (σ (ℓ)
j⋆)2 = E
|d(ℓ)
jr |2
∼2 j⋆(α−1) × K. (23) (23) (23) The proof can be found in ‘Appendix A, Section A.3’. This result suggests a long memory parameter estimation
method for an irregularly sampled, complex-valued time
series, described in Algorithm 2, which we shall refer to as
CLoMPE (Complex-valued Long Memory Parameter Esti-
mation Algorithm). Section 5.1, next, will show that our
proposed CLoMPE methodology below not only adds a new
much needed tool in the estimation of long memory for
complex-valued processes, but also improves Hurst exponent
estimation for real-valued processes, sampled both regularly
and irregularly. The proof can be found in ‘Appendix A, Section A.3’. This result suggests a long memory parameter estimation
method for an irregularly sampled, complex-valued time
series, described in Algorithm 2, which we shall refer to as
CLoMPE (Complex-valued Long Memory Parameter Esti-
mation Algorithm). Section 5.1, next, will show that our
proposed CLoMPE methodology below not only adds a new
much needed tool in the estimation of long memory for
complex-valued processes, but also improves Hurst exponent
estimation for real-valued processes, sampled both regularly
and irregularly. 12 3 Statistics and Computing performs only slightly worse in terms of bias when compared
to the ‘CP’ method. performs only slightly worse in terms of bias when compared
to the ‘CP’ method. mated, whilst reflecting lengths of datasets encountered in
practice. To investigate the effect of sampling irregularity on the
performance of our method, we simulated datasets with dif-
ferent levels of random missingness (5–20%), which are
representative of degrees of missingness reported in many
application areas, for example in paleoclimatology and envi-
ronmental series (Broersen 2007; Junger and Ponce de Leon
2015). Real-valued processes
To assess whether our complex-
valued approach achieves performance gains for real-valued
processes, we repeated the simulation study from Knight
et al. (2017) for a number of long memory processes. In
particular, we studied the performance of our estimator for
real-valued fractional Brownian motion, fractional Gaussian
noise and fractionally integrated series, for a range of Hurst
parameters and levels of missingness. The processes were
simulated via the fArma add-on package (Wuertz et al. 2013). We compare our method with the real-valued lifting tech-
nique of Knight et al. (2017), shown to perform well in a
number of settings. Again, for brevity, we do not report these
bias results here, but they can be found in Appendix B in the
supplementary material. 2 The authors would like to thank Jean-François Coeurjolly for provid-
ing the R code for simulating the circular fractional Brownian motion
series, as well as for the implementation of the estimation technique of
Coeurjolly and Porcu (2017). (23) The results show that our method
is competitive with the real-valued estimation method in
Knight et al. (2017), achieving better results (in terms of
MSE and bias) in the majority of cases for fractional Gaus-
sian noise and fractionally integrated series. For fractional
Brownian motion, we observe that our method achieves gains
in mean square error, albeit at a cost of a decrease in bias
performance. These results agree with other studies using
complex-valued wavelet methodology, which is shown to
outperform its real-valued counterpart in a variety of appli-
cations, from denoising (Barber and Nason 2004 to Hurst
estimation in the (real-valued) image context (Nelson and
Kingsbury 2010; Jeon et al. 2014; Nafornita et al. 2014). This is due to the use of two rather than just one filter, thus
eliciting more information from the signal under analysis. We compared results across the range of Hurst parameters
H = 0.6, . . . , 0.9. Each set of results is taken over K = 100
realizations and P = 50 lifting trajectories. Our CLoMPE
technique was implemented using modifications to the code
fromthe liftLRD package(Knight andNunes2016) andCNL-
Treg package (Nunes and Knight 2017) for the R statistical
programming language (R Core Team 2013), both available
on CRAN. The measure we use to assess the performance of
the methods is the mean squared error (MSE) defined by MSE = K −1
K
k=1
(H −ˆHk)2. (25) (25) In the case of regularly spaced circularly symmetric frac-
tional Brownian motion (i.e. 0% missingness), we compare
our CLoMPE estimation technique with the recent estima-
tion method in Coeurjolly and Porcu (2017) (denoted ‘CP’).2 Table 1 reports the mean squared error for our CLoMPE
estimator on the complex-valued fractional Brownian motion
series for different degrees of missingness (0% up to 20%). In the case of regularly spaced series, our estimation method
works well when compared to the ‘CP’ method. This is pleas-
ing since the “CP” method is designed for regularly spaced
series, whereas CLoMPE is specifically designed for irreg-
ularly spaced series. The tables also show that the CLoMPE
technique is robust to the presence of missingness, attain-
ing good performance even for high degrees of missingness
(20%). 5.2 Analysis of complex-valued wind series with
CLoMPE Boxed num- H
n = 256
n = 512
n = 1024
Missingness proportion, p
Missingness proportion, p
Missingness proportion, p
CP
CLoMPE
CP
CLoMPE
CP
CLoMPE
0%
0%
5%
10%
20%
0%
0%
5%
10%
20%
0%
0%
5%
10%
20%
0.6
2 (3)
1 (2)
1 (2)
1 (1)
2 (3)
1 (2)
1 (1)
0 (0)
0 (1)
1 (1)
1 (1)
1 (1)
0 (0)
0 (0)
0 (0)
0.7
2 (3)
1 (2)
1 (1)
1 (2)
2 (3)
1 (1)
1 (1)
1 (1)
1 (1)
1 (1)
0 (1)
2 (1)
1 (1)
1 (1)
0 (0)
0.8
3 (3)
2 (2)
2 (2)
1 (2)
2 (2)
1 (2)
2 (2)
1 (2)
1 (2)
1 (2)
1 (1)
3 (2)
2 (2)
2 (1)
1 (1)
0.9
2 (3)
3 (4)
2 (3)
2 (3)
2 (2)
1 (2)
2 (2)
2 (3)
2 (2)
2 (2)
2 (2)
2 (2)
3 (2)
3 (2)
2 (2)
Table 2 Mean squared error
(×103) for fractional Gaussian
noise featuring different degrees
of missing observations for a
range of Hurst parameters for
the CLoMPE estimation
procedure. Numbers in brackets
are the estimation errors’
standard deviation
H
n = 256
n = 512
n = 1024
Missingness proportion, p
Missingness proportion, p
Missingness proportion, p
0%
5%
10%
20%
0%
5%
10%
20%
0%
5%
10%
20%
0.6
1 (2)
1 (2)
1 (2)
2 (2)
1 (1)
1 (1)
1 (1)
1 (1)
1 (1)
1 (1)
1 (1)
1 (1)
0.7
1 (2)
2 (2)
2 (2)
2 (3)
1 (1)
2 (2)
2 (2)
3 (2)
2 (1)
2 (1)
2 (1)
3 (2)
0.8
2 (2)
2 (3)
2 (3)
3 (5)
2 (2)
3 (3)
3 (3)
4 (4)
2 (2)
3 (2)
3 (2)
5 (3)
0.9
3 (4)
3 (3)
3 (3)
3 (5)
2 (2)
2 (3)
3 (3)
3 (3)
2 (2)
3 (2)
3 (2)
4 (3) ory parameter for this series is more reliable than that in the
currently existing literature, as our proposed algorithm nat-
urally encompasses both the complex-valued and improper
features of wind series. A complex-valued analysis using our
approach could hence provide more accurate long memory
information, reducing miscalibration of predictive climate
models. 5.2 Analysis of complex-valued wind series with
CLoMPE In this section, we provide a more detailed long memory anal-
ysis of the complex-valued wind series described in Sect. 1.1. More specifically, we applied our CLoMPE Hurst estimation
method to the (detrended) irregularly sampled wind series to
assess its persistence properties. The estimated Hurst param-
eter was ˆHC = 0.86 for the Wind A series and ˆHC = 0.8
for the Wind B series, based on P = 50 lifting trajectories. Both of these estimates indicate moderate long memory. For the complex-valued fractional Gaussian noise, Table 2
demonstrates that our CLoMPE estimation technique per-
formswellforregularandirregularsettings,withonlyaslight
degradation in performance for increasing missingness. We also studied the empirical bias of our estimator for
both types of long memory process. For reasons of brevity,
we do not report these results here, but these can be found
in Appendix B in the supplementary material. As for the
mean squared error results above, there is a small drop in
performance with increasing missingness, and our estimator To highlight potential differences with other approaches,
we also performed the LoMPE technique of Knight et al. (2017) to each of the real and imaginary components of the
two series. In addition, we also estimated the Hurst exponent
using the Knight et al. (2017) method for the two magnitude
series, since such series (i.e. data without directional infor-
mation) are most commonly analysed in the literature. The
Hurst exponent estimates are denoted by ˆHR and ˆHI for
the real and imaginary component series, and ˆHMod for the
magnitude series. The estimates are summarized in Table 3. 12 3 Statistics and Computing bers indicate best result for the regularly spaced setting. Numbers in
brackets are the estimation errors’ standard deviation Table 1 Mean squared error (×103) for fractional Brownian motion
series featuring different degrees of missing observations for a range of
Hurst parameters for the CLoMPE estimation procedure. 5.2 Analysis of complex-valued wind series with
CLoMPE We further suggest that this precision would provide
more certainty when assessing renewable energy resource
potential, as discussed in, for example, Bakker and van den
Hurk (2012). Table 3 Hurst parameter estimates for the Wind A and Wind B data
from complex-valued series using CLoMPE and from real-valued com-
ponent and magnitude series using LoMPE Table 3 Hurst parameter estimates for the Wind A and Wind B data
from complex-valued series using CLoMPE and from real-valued com-
ponent and magnitude series using LoMPE
Dataset
R
I
Mod
C
Wind A
0.90
0.82
0.80
0.86
Wind B
0.85
0.75
0.80
0.80 For the Wind A dataset, our CLoMPE technique esti-
mates the persistence as between those of the real and
imaginary components, and higher than that of the magnitude
series. In contrast, for the Wind B dataset, the estimate from
our complex-valued approach coincides with the result for
the series derived from the C-modulus. This analysis high-
lights that ignoring the dependence structure between the real
and imaginary components of the series may result in mis-
estimation. Hence, we recommend an approach that uses the
complex-valued structure of the data, thus accounting for its
intrinsic rotary structure and dependence, not visible by only
using the traditional magnitude series or individual real and
imaginary strands. 6 Discussion 2 (b) (a) The dependence structure is markedly different to that shown for the
real and imaginary series components shown in Fig. 2 Fig. 4 a Autocorrelation for the magnitude wind series for the Wind A
series from Fig. 1 (treated as regularly spaced); b autocorrelation for the
magnitude Wind B dataset from Fig. 1 (treated as regularly spaced). sition and data richness; see, for example, Aston and Kirch
(2012) for an accessible introduction to the area from the sta-
tistical perspective. In particular, fMRI studies often measure
information on blood flow in the brain; these voxel-level data
are used to investigate neuronal activity of participants dur-
ing task-based experiments, and many authors have asserted
that such time courses possess fractional noise structure, see,
for example, Bullmore et al. (2003). Evaluation of the Hurst
exponent in this context has been shown to be important in
characterizingbrainactivityunderarangeofconditions,indi-
cating different levels of cognitive effort (Park et al. 2010;
Ciuciu et al. 2012; Churchill et al. 2016). Despite data col-
lection being performed in a controlled set-up, recent work
has highlighted the need for tailored statistical methodology
to cope with both unbalanced designs, as well as miss-
ingness, which can feature in fMRI data for a number of
reasons (Lindquist 2008; Ferdowsi and Abolghasemi 2018). In actuality, fMRI scanners record both phase and magni-
tudeinformation,thoughmoststudiesonlyusethemagnitude
image for analysis. As a result, there has been a recent body
of work dedicated to complex-valued analysis of fMRI data,
most notably by Rowe and collaborators [see, e.g. Rowe
(2005) and Rowe (2009) and Adrian et al. (2018)]. Such an
approach has shown improvements over real-valued methods
for a range of analysis tasks; see also the work by Adali and
collaborators (Calhoun et al. 2002; Li et al. 2011; Rodriguez
et al. 2012). Thus, our methodology has the potential of tak-
ing advantage of the full complex-valued image information
whilst also coping with the inherent non-uniform sampling. methods have not been able to exploit the wealth of signal
information in such data, whilst also coping with irregular
sampling regimes. Our CLoMPE wavelet lifting methodol-
ogy was shown to give accurate Hurst estimation for a variety
of complex-valued fractional processes and is suitable for
both proper and improper complex-valued processes. Simu-
lations demonstrate that the technique is robust to estimation
with significant degrees of missingness, as well as in the
non-missing (regular) setting. 6 Discussion Hurst exponent estimation is a recurrent topic in many
scientific applications, with significant implications for mod-
elling and data analysis. One important aspect of real-world
datasets is that their collection and monitoring are often not
straightforward, leading to missingness, or to the use of prox-
ies with naturally irregular sampling structures. In parallel,
in many applications of interest there is a natural complex-
valued representation of data. To this end, this article has
proposed the first Hurst estimation technique for complex-
valued processes with sampling missingness or irregularity,
and in doing so it has also constructed a novel lifting algo-
rithm able to work on complex-valued data sampled with
irregularity. Until the work in this article, Hurst estimation It could also be argued that these differences in esti-
mates are unsurprising, since the dependence structure for
the magnitude series, shown in Fig. 4, is visibly different
to that of the real and imaginary component series shown
in Fig. 2. We argue that our estimation of the long mem- 12 3 Statistics and Computing 0
20
40
60
80
100
0.0
0.2
0.4
0.6
0.8
1.0
Lag
ACF
(a)
Fig. 4 a Autocorrelation for the magnitude wind series for the Wind A
series from Fig. 1 (treated as regularly spaced); b autocorrelation for the
magnitude Wind B dataset from Fig. 1 (treated as regularly spaced). 0
20
40
60
80
100
0.0
0.2
0.4
0.6
0.8
1.0
Lag
ACF
(a)
0
20
40
60
80
100
−0.2
0.0
0.2
0.4
0.6
0.8
1.0
Lag
ACF
(b)
Fig. 4 a Autocorrelation for the magnitude wind series for the Wind A
series from Fig. 1 (treated as regularly spaced); b autocorrelation for the
magnitude Wind B dataset from Fig. 1 (treated as regularly spaced). The dependence structure is markedly different to that shown for the
real and imaginary series components shown in Fig. 2 0
20
40
60
80
100
−0.2
0.0
0.2
0.4
0.6
0.8
1.0
Lag
ACF
(b)
The dependence structure is markedly different to that shown for the
real and imaginary series components shown in Fig. 2 0
20
40
60
80
100
0.0
0.2
0.4
0.6
0.8
1.0
Lag
ACF
(a) 0
20
40
60
80
100
−0.2
0.0
0.2
0.4
0.6
0.8
1.0
Lag
ACF
(b)
The dependence structure is markedly different to that shown for the
real and imaginary series components shown in Fig. 123 6 Discussion We have demonstrated the use of our CLoMPE tech-
nique in an application arising in environmental science. Through our analysis of wind speed data, we have shown
that embedding directional wind information in the analysis
can lead to significantly different Hurst exponent estimates
when compared to only considering real-valued information,
such as magnitude series. This highlights that not exploiting a
complex-valued data representation in this setting can poten-
tially result in misleading conclusions being drawn about
wind persistence. This in turn has a subsequent impact on
parameters in climate models and inefficiencies in resource
management decisions. Whilst the development of our proposed complex-valued
Hurst estimator was motivated by an application in climatol-
ogy, we believe that the work in this article has sufficient
generality to have appeal in other settings. We thus con-
clude this article with outlining some example applications
in which our methodology is potentially beneficial. Data from neuroimaging studies Functional magnetic reso-
nance imaging (fMRI) data continue to enjoy popularity in
the neuroscience community due to their non-invasive acqui- 123 Statistics and Computing
k∈Sn cn,kϕ(1)
n,k(x) with ϕ(1)
n,k(x) = χIn,k(x) as proposed in
the LOCAAT construction (Jansen et al. 2009). (1)
(1) Ocean surface measurement devices There is a long-standing
history of studying ocean circulation using GPS-tracked
oceanbuoydrifters,seee.g.Osborneetal.(1989).Sincethese
trajectories are measured in the longitude-latitude plane, they
are often converted to complex-valued vector series; see, for
example, Sykulski et al. (2017). It has long been observed
that due to the buffeting motion of ocean currents, posi-
tional drifter trajectories often exhibit fBM-like behaviour,
whilst their velocity over time resembles fGn characteris-
tics (Sanderson and Booth 1991; Summers 2002; Qu and
Addison 2010; Lilly et al. 2017). In this context, accurate
Hurst exponent estimation is useful in indicating the inten-
sity of ocean turbulence, giving evidence towards particular
theorized dynamical regimes (Osborne et al. 1989). These
in turn can provide insight into initial conditions and origin
of ocean circulation. Moreover, the trajectories often display
rotary characteristics (Elipot and Lumpkin 2008; Elipot et al. 2016). Due to the interrupted nature of satellite coverage and
thepossibilityofmeasurementsfrommultiplesatelliteorbits,
the temporal sampling of the trajectories are typically highly
non-uniform. In addition, due to the irregular sampling struc-
ture, the data are often interpolated prior to analysis (Elipot
et al. 2016). 6 Discussion (28) (27) (28) For the primal wavelet function construction, we can sim-
ilarly take f (x) := ψ(1)
jn (x) and obtain the corresponding
wavelet decomposition with coefficients d(1)
jn
= 1 (thus
λ jn = 1 and μ jn = 0) and cn−1,k = 0, ∀k ̸= jn. From
the update equations, we have cn, j = −bn
j, ∀j ∈Jn and
cn, j = 0, ∀j /∈Jn. For the primal wavelet function construction, we can sim-
ilarly take f (x) := ψ(1)
jn (x) and obtain the corresponding
wavelet decomposition with coefficients d(1)
jn
= 1 (thus
λ jn = 1 and μ jn = 0) and cn−1,k = 0, ∀k ̸= jn. From
the update equations, we have cn, j = −bn
j, ∀j ∈Jn and
cn, j = 0, ∀j /∈Jn. Using d(1)
jn
= cn, jnan
jn −
j∈Jn an
j cn, j (as above) and
d(1)
jn = 1, we have cn, jnan
jn = 1 −
j∈Jn an
j bn
j and cn, jn =
an
jn
|an
jn |2
1 −
j∈Jn an
j bn
j
. Since f (x) := ψ(1)
jn (x), we then
have Using d(1)
jn
= cn, jnan
jn −
j∈Jn an
j cn, j (as above) and
d(1)
jn = 1, we have cn, jnan
jn = 1 −
j∈Jn an
j bn
j and cn, jn =
an
jn
|an
jn |2
1 −
j∈Jn an
j bn
j
. Since f (x) := ψ(1)
jn (x), we then
have Acknowledgements The R package CliftLRD implementing the
CLoMPE technique will be released via CRAN in due course. Open Access This article is distributed under the terms of the Creative
Commons Attribution 4.0 International License (http://creativecomm
ons.org/licenses/by/4.0/), which permits unrestricted use, distribution,
and reproduction in any medium, provided you give appropriate credit
to the original author(s) and the source, provide a link to the Creative
Commons license, and indicate if changes were made. ψ(1)
jn (x) =
an
jn
|an
jn|2
⎛
⎝1 −
j∈Jn
an
j bn
j
⎞
⎠ϕ(1)
n, jn(x) −
j∈Jn
bn
j ϕ(1)
n, j(x)
=
an
jn
|an
jn|2 ϕ(1)
n, jn(x) −
j∈Jn
bn
j
ϕ(1)
n, j(x) + ˜an
j ϕ(1)
n, jn(x)
. A Proofs and theoretical results Using the primal scaling function construction in Eq. (27),
we obtain an expression for the primal wavelet function This appendix gives the theoretical justification of the results
from Sects. 3 and 4, following the notation outlined in the
text. ψ(1)
jn (x) =
an
jn
|an
jn|2 ϕ(1)
n, jn(x) −
j∈Jn
bn
jϕ(1)
n−1, j(x), 6 Discussion One aspect of exploration in this setting could be
to contrast Hurst estimation using our proposed methodol-
ogy with/without data interpolation to investigate its effect,
since previous work substantiates that such processing can
produce bias (in the context of Hurst exponent estimation)
for real-valued series (Knight et al. 2017). It would also be
interesting to investigate modifications to our technique to
parameter estimation for Matérn processes discussed in Lilly
et al. (2017). Let us now suppose f (x) := ϕ(1)
n−1, j(x), thus ϕ(1)
n−1, j(x) =
d(1)
jn ψ(1)
jn (x) +
k∈Sn−1 cn−1,kϕ(1)
n−1,k(x). Hence, d(1)
jn
= 0,
cn−1,k = 0, ∀k ̸= j and cn−1, j = 1. From the update
relationship cn−1,k
= cn,k + bn
kλ jn from (7), we have
cn−1,k = cn,k, ∀k ∈Jn (as λ jn = 0 from d(1)
jn
= 0) and
also cn−1,k = cn,k, ∀k /∈Jn. n
,k
n,k
/
n
From Eq. (5), we have From Eq. (5), we have d(1)
jn = λ jn + i μ jn = cn, jn
ℓn
jn + i mn
jn
+
k∈Jn
cn,k
ℓn
k + i mn
k
. (26) By denoting an
k = ℓn
k + i mn
k, we obtain d(1)
jn
= cn, jnan
jn −
k∈Jn an
k cn,k. Using also the fact that d(1)
jn
= 0, we have
cn, jn =
an
jn
|an
jn |2
k∈Jn an
k cn,k. If j ∈Jn then cn, j = 1 and all
others are zero, so cn, jn =
an
jn an
j
|an
jn |2 := ˜an
j . Thus By denoting an
k = ℓn
k + i mn
k, we obtain d(1)
jn
= cn, jnan
jn −
k∈Jn an
k cn,k. Using also the fact that d(1)
jn
= 0, we have
cn, jn =
an
jn
|an
jn |2
k∈Jn an
k cn,k. If j ∈Jn then cn, j = 1 and all
others are zero, so cn, jn =
an
jn an
j
|an
jn |2 := ˜an
j . Thus ϕ(1)
n−1, j(x) = ϕ(1)
n, j(x) + ˜an
j ϕ(1)
n, jn(x), if j ∈Jn,
(27)
ϕ(1)
n−1, j(x) = ϕ(1)
n, j(x), if j /∈Jn. A.2 Proof of Proposition 2 continuous scale) of detail d jr by Ir, jr . These steps are subsequently reiterated, and hence the same
also holds for stage r. Since from (15) and (22), regardless of whether we work
with the basis indexed by ℓ= 1 or ℓ= 2, the (dual) wavelet
functions are linear combinations of the (same) dual scaling
functions, hence Eq. (29) can be rewritten as In order to obtain the primal scaling function recursive
construction corresponding to the second basis, we proceed
in the same way as for the first basis and similarly obtain ϕ(2)
n−1, j(x) = ϕ(2)
n, j(x) + ˜a
n
jϕ(2)
n, jn(x), if j ∈Jn,
ϕ(2)
n−1, j(x) = ϕ(2)
n, j(x), if j /∈Jn. E(d jr d jk ) =
R
⎧
⎨
⎩˜ϕr, jr (t) −
i∈Jr
Ar
i ˜ϕr,i(t)
⎫
⎬
⎭
×
R
⎧
⎨
⎩˜ϕk, jk (s) −
j∈Jk
Ak
j ˜ϕk, j(s)
⎫
⎬
⎭γX(t −s) ds dt,
(30) We obtain the primal wavelet equations in a similar manner
to the previous development (30) ψ(2)
jn (x) =
an
jn
|an
jn|2 ϕ(2)
n, jn(x) −
j∈Jn
bn
jϕ(2)
n−1, j(x). where A generically denotes the appropriate coefficient that
corresponds to basis ℓ= 1 or ℓ= 2, but ˜ϕ is the same for
both bases. The above equations show that the primal scaling and wavelet
functions corresponding to the second basis are the con-
jugates of the corresponding primal and wavelet functions
under the first basis, respectively. The above equations show that the primal scaling and wavelet
functions corresponding to the second basis are the con-
jugates of the corresponding primal and wavelet functions
under the first basis, respectively. As C2-LOCAAT progresses, the (dual) scaling functions
are defined recursively as linear combinations of (dual) scal-
ing functions at the previous stage, see, for example, Eq. (19). Hence, the scaling functions in the above equation can be
written as linear combinations of scaling functions at the
first stage (i.e. r = n). A.2 Proof of Proposition 2 For the dual scaling functions, we use the update equations
and the fact that cr, j =< f , ˜ϕr, j > for any r, hence we have,
at stage n, Let {Xt} be a zero-mean complex-valued stationary long
memory series with autocovariance γX(τ) ∼cγ |τ|−β. We
noteherethatforimproperprocessesofthetypeconsideredin
Sykulski and Percival (2016), the pseudo-autocovariance has
the same decay rate as the autocovariance (rX(τ) ∼cr|τ|−β)
whilst for proper processes, rX(τ) = 0, ∀τ, hence we
shall concentrate on the lifting decorrelation properties for
improper processes. < f , ˜ϕn−1, j > = < f , ˜ϕn, j > +bn
j < f , ˜ψ L
n, j >, ∀j ∈Jn
< f , ˜ϕn−1, j > = < f , ˜ϕn, j > ∀j /∈Jn, where ˜ψ L denotes the dual wavelet function corresponding
to the L-filter only. Thus, the recursive relations for the dual scaling functions
are The autocovariance of {Xt} can be written as γX(ti −t j) =
E(Xti Xt j ) and rX(ti −t j) = E(Xti Xt j ), assuming E(Xt) =
0, where 0 is to be understood as the complex number 0 =
0+i 0. Hence, E(d(ℓ)
j ) = 0 for ℓ= 1, 2. In what follows, we
drop the superscript (ℓ) in order to avoid notational clutter. ˜ϕn−1, j(x) = ˜ϕn, j(x) + bn
j ˜ψ L
n, j(x), ∀j ∈Jn
˜ϕn−1, j(x) = ˜ϕn, j(x), ∀j /∈Jn. Using the assumption that E(d j) = 0, it follows that Similarly, since d(1)
jn = cn, jnan
jn −
j∈Jn an
j cn, j, we have
< f , ˜ψ(1)
jn
>=< f , an
jn ˜ϕn, jn −
j∈Jn an
j ˜ϕn, j > and we
obtain the dual wavelet construction Similarly, since d(1)
jn = cn, jnan
jn −
j∈Jn an
j cn, j, we have
< f , ˜ψ(1)
jn
>=< f , an
jn ˜ϕn, jn −
j∈Jn an
j ˜ϕn, j > and we
obtain the dual wavelet construction E(d jr d jk) =
R
˜ψ jr (t)
R
˜ψ jk(s)γX(t −s) ds
dt,
(29) (29) ˜ψ(1)
jn = an
jn ˜ϕn, jn(x) −
j∈Jn
an
j ˜ϕn, j(x). where we have used d jr =< X, ˜ψ jr >, and the timepoints
jr and jk are distinct. In what follows, denote the interval
length (i.e. A.1 Proof of Proposition 1 which demonstrates the recursive construction from stage n
to n −1 and concludes the proof for the primal wavelet and
scaling function construction. To obtain the recursive construction for each basis, we start
with the basis indexed by i = 1. At stage n, we have f (x) = 12 3 Statistics and Computing A.3 Proof of Proposition 3 where ⋆is the convolution operator, and i and j refer to time
locations that were involved in obtaining d jr and d jk. Note
that at this stage we do not use complex conjugation as the
(dual) scaling functions are initially defined (at stage r = n)
as scaled characteristic functions of the intervals associated
with the observed times, i.e. ˜ϕn,i(t) = I −1
n,i χIn,i (t) (thus real-
valued). As Cov(Xti , Xt j ) = γX(ti −t j) and d jr =< X, ˜ψ jr >, it
follows that d jr has mean zero (as the original process is
zero-mean) and in a similar manner to (29) we have E(|d jr |2) =
R
˜ψ jr (t)
R
˜ψ jr (s)γX(t −s) ds
dt,
(35) (35) Using Parseval’s theorem in Eq. (31) gives where again we have dropped the basis index ℓ= 1, 2 for
notational brevity and we remind the reader that |· p| denotes
the C-modulus. As before, we denote the associated interval
length of the detail d jr by Ir, jr . Bn,i, j = (2π)−1
R
ˆ˜ϕn,i(ω)
˜ϕn, j⋆γX
(ω) dω
= (2π)−1
R
ˆ˜ϕn,i(ω)ˆ˜ϕn, j(ω) fX(ω) dω,
(32) (32) Using the recursiveness in the dual wavelet construction
(Eqs. (15) and (22)), it follows that the (dual) wavelet func-
tions are linear combinations of the (same) scaling functions. For the first basis, Eq. (35) can be rewritten as where in general ˆg denotes the Fourier transform of g. As the
Fourier transform of an initial (dual) scaling function (scaled
characteristic function on an interval, (b −a)−1χ[a,b]) is E(|d(1)
jr |2) =
R
⎧
⎨
⎩ar
jr ˜ϕr, jr (t) −
j∈Jr
ar
j ˜ϕr, j(t)
⎫
⎬
⎭
×
R
⎧
⎨
⎩ar
jr ˜ϕr, jr (s) −
j′∈Jr
ar
j′ ˜ϕr, j′(s)
⎫
⎬
⎭γX(t −s) ds dt. A.3 Proof of Proposition 3 (36)
(b −a)−1χ[a,b]
(ω) = sinc {ω(b −a)/2} exp {−i ω(b + a)/2} , where sinc(x) = x−1 sin(x) for x ̸= 0 and sinc(0) = 1 is
the (unnormalized) sinc function, we can write (32) as (36) This can be expanded as
R
sinc
ωIn,i/2
sinc
ωIn, j/2
exp
−i ωδ(In,i, In, j)
fX(ω)dω, (33) E(|d(1)
jr |2) =
R
R
ar
jr ar
jr ˜ϕr, jr (t) ˜ϕr, jr (s)γX(t −s) ds dt
−
j∈Jr
R
R
ar
jar
jr ˜ϕr, j(t) ˜ϕr, jr (s)γX(t −s) ds dt
−
j′∈Jr
R
R
ar
jr ar
j′ ˜ϕr, jr (t) ˜ϕr, j′(s)γX(t −s) ds dt
+
j∈Jr
j′∈Jr
R
R
ar
jar
j′ ˜ϕr, j(t) ˜ϕr, j′(s)γX(t −s) ds dt. (37) where δ(In,i, In, j) is the distance between the midpoints of
intervals In,i and In, j at the initial stage n. j
Equation (33) can be interpreted as the Fourier transform
of u(x) = fX(x) sinc
x In,i/2
sinc
x In, j/2
evaluated at
δ(In,i, In, j). (37) Since the sinc function is infinitely differentiable and
the spectrum is Lipschitz continuous, results on the decay
properties of Fourier transforms (Shibata and Shimizu 2001,
Theorem 2.2) imply that, for i ̸= j, terms of the form
Bn,i, j decay as O
δ(In,i, In, j)−1
. Hence, as in Knight et al. (2017), the further away the time points are, the less autocor-
relation is present in the detail coefficients and as the rate of
autocorrelation decay is of reciprocal order, it is faster than
that of the original process assumed to have long memory
(hence O(|τ|−β) with β ∈(0, 1)). A.2 Proof of Proposition 2 Due to the linearity of the integral
operator, (30) can be written as a linear combination with
complex-valued coefficients of terms like As already explained, the update step is the same for both
bases and cr,k =< f , ˜ϕ(1)
r,k >=< f , ˜ϕ(2)
r,k >, for all r, k
thus the dual scaling functions coincide under both bases
( ˜ϕ(1)
r,k = ˜ϕ(2)
r,k). ,
,
Forthedualwaveletfunction,followingthesameapproach
as above, we obtain Bn,i, j :=
R
˜ϕn,i(t)
R
˜ϕn, j(s)γX(t −s) ds
dt
=
R
˜ϕn,i(t)
˜ϕn, j⋆γX
(t) dt, Bn,i, j :=
R
˜ϕn,i(t)
R
˜ϕn, j(s)γX(t −s) ds
dt
˜
( )
˜
( ) d ˜ψ(2)
jn (x) = an
jn ˜ϕn, jn(x) −
j∈Jn
an
j ˜ϕn, j(x). =
R
˜ϕn,i(t)
˜ϕn, j⋆γX
(t) dt,
(31) (31) This concludes the proof for the second basis. ⊓⊔ 123 Statistics and Computing References where Δ ∈{−1 + log2(α0), log2(α0)} for some α0, thus
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English
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Non-equilibrium steady state formation in 3+1 dimensions
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SciPost physics
| 2,021
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cc-by
| 21,505
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Christian Ecker1⋆, Johanna Erdmenger2 and Wilke van der Schee3 1 Institut für Theoretische Physik, Goethe Universität,
Max-von-Laue-Str. 1, 60438 Frankfurt am Main, Germany
2 Institut für Theoretische Physik und Astrophysik, Julius-Maximilians-Universität Würzburg,
Am Hubland, 97074 Würzburg, Germany
3 Theoretical Physics Department, CERN, CH-1211 Genève 23, Switzerland 1 Institut für Theoretische Physik, Goethe Universität,
Max-von-Laue-Str. 1, 60438 Frankfurt am Main, Germany
2 Institut für Theoretische Physik und Astrophysik, Julius-Maximilians-Universität Würzburg,
Am Hubland, 97074 Würzburg, Germany
3 Theoretical Physics Department, CERN, CH-1211 Genève 23, Switzerland ⋆ecker@itp.uni-frankfurt.de Abstract We present the first holographic simulations of non-equilibrium steady state formation
in strongly coupled N = 4 SYM theory in 3+1 dimensions. We initially join together two
thermal baths at different temperatures and chemical potentials and compare the sub-
sequent evolution of the combined system to analytical solutions of the corresponding
Riemann problem and to numerical solutions of ideal and viscous hydrodynamics. The
time evolution of the energy density that we obtain holographically is consistent with
the combination of a shock and a rarefaction wave: A shock wave moves towards the
cold bath, and a smooth broadening wave towards the hot bath. Between the two waves
emerges a steady state with constant temperature and flow velocity, both of which are
accurately described by a shock+rarefaction wave solution of the Riemann problem. In
the steady state region, a smooth crossover develops between two regions of different
charge density. This is reminiscent of a contact discontinuity in the Riemann problem. We also obtain results for the entanglement entropy of regions crossed by shock and
rarefaction waves and find both of them to closely follow the evolution of the energy
density. Copyright C. Ecker et al. This work is licensed under the Creative Commons
Attribution 4.0 International License. Published by the SciPost Foundation. Received 12-04-2021
Accepted 16-08-2021
Published 01-09-2021
Check for
updates
doi:10.21468/SciPostPhys.11.3.047
Contents
1
Introduction
2
2
Riemann problem in ideal hydrodynamics
4
2.1
Double shock solution
4
2.2
Shock + rarefaction wave solution
7
3
Riemann problem in holography
9
3.1
Holographic model
9
3.2
Holographic steady states
10
4
Holographic entanglement entropy
13
1 Copyright C. Ecker et al. This work is licensed under the Creative Commons
Attribution 4.0 International License. Published by the SciPost Foundation. Received 12-04-2021
Accepted 16-08-2021
Published 01-09-2021
Check for
updates
doi:10.21468/SciPostPhys.11.3.047 Received 12-04-2021
Accepted 16-08-2021
Published 01-09-2021
Check for
updates
doi:10.21468/SciPostPhys.11.3.047 SciPost Phys. 11, 047 (2021) Contents 1
Introduction
2
2
Riemann problem in ideal hydrodynamics
4
2.1
Double shock solution
4
2.2
Shock + rarefaction wave solution
7
3
Riemann problem in holography
9
3.1
Holographic model
9
3.2
Holographic steady states
10
4
Holographic entanglement entropy
13
1 SciPost Phys. 11, 047 (2021) 5
Results
16
5.1
Energy and charge density
16
5.2
Shock evolution and entropy production
22
5.3
Extremal surfaces and entanglement entropy
24
6
Discussion
28
A
Rankine–Hugoniot jump conditions
29
B
Sensitivity to initial conditions
30
References
30 5
Results
16
5.1
Energy and charge density
16
5.2
Shock evolution and entropy production
22
5.3
Extremal surfaces and entanglement entropy
24
6
Discussion
28
A
Rankine–Hugoniot jump conditions
29
B
Sensitivity to initial conditions
30
References
30 5
Results
16
5.1
Energy and charge density
16
5.2
Shock evolution and entropy production
22
5.3
Extremal surfaces and entanglement entropy
24
6
Discussion
28
A
Rankine–Hugoniot jump conditions
29
B
Sensitivity to initial conditions
30
References
30 30 1
Introduction Describing the far-from-equilibrium dynamics of strongly coupled quantum systems is ex-
tremely challenging. Gauge/gravity duality [1–3] provides important insights by mapping the
dynamics of certain strongly coupled non-Abelian gauge theories to the dynamics of classical
gravity in higher dimensions. This approach has been successfully applied to study the dy-
namics of the strongly coupled quark-gluon plasma in relativistic heavy ion collisions [4] and
strongly correlated condensed matter systems [5,6]. The picture arises that strongly coupled
far-form-equilibrium states typically evolve extremely fast towards a hydrodynamic regime
before reaching a state of thermal equilibrium after a sufficiently long time. An important
exception to this rule are quantum states on dynamical backgrounds that arise for example in
the context of cosmology [7,8]. Another exception are systems driven by external sources that therefore never reach ther-
mal equilibrium, but instead evolve towards a steady-state with non-vanishing fluxes, but time
independent thermodynamic properties. An important example, which is the subject of this
work, is a cold-hot interface of two identical copies of a quantum critical system at differ-
ent temperatures and chemical potentials from which a Non-Equilibrium Steady State (NESS)
emerges between two outgoing waves. The properties and formation process of NESSs have been studied extensively using various
different approaches. In 1+1 dimensional conformal field theories (CFT2), the heat and charge
flows of the system considered show universal behaviour [9–13]. The appearance of the NESS
as well as its properties are insensitive to the details of the initial state and depend only on
fundamental parameters, the central charge and current algebra level, of the CFT2, as well
as on the initial temperatures and chemical potentials of the two copies. More recently, exact
results have also been obtained in T ¯T-deformed CFT2 [14]. In [15] it was shown that the NESSs in holographic CFT2 are dual to Lorentz boosted
black brane geometries in the bulk. The Einstein equations for the gravity dual determine
the geometry such that even far-from-equilibrium solutions such as propagating shockwaves
are related by large coordinate transformations to static AdS3. The holographic entanglement
entropy has been studied for the two-dimensional case in [16] using the Hubeny-Rangamani-
Takayanagi prescription [17,18]. One might ask if these NESSs are a curiosity of integrable CFT2 or if they also exist in
more general theories and dimensions higher than two? 1
Introduction This question was addressed in sev-
eral studies by constructing solutions of the Riemann problem in relativistic hydrodynamics 2 SciPost Phys. 11, 047 (2021) [15,19–22], in holographic CFT3 [23], in theories with gravity duals in the limit of large
number of dimensions [24] and in non-relativistic theories with Lifshitz scale symmetry [25]. This led to the insight that the formation of NESSs does not rely on conformal symmetry or
integrability, but rather is a universal feature of the hydrodynamic description of any fluid,
independent of the underlying equation of state. However, the details on how a NESS dynamically emerges from the interface depend cru-
cially on the number of dimensions in which the system lives. In 1+1 dimensions, the NESS
region emerges between two planar shockwaves travelling at the speed of light outwards from
the interface. In higher dimensions however, this is not the case any more: For entropic rea-
sons, the wave front moving towards the hot side is a smoothly broadening rarefaction wave,
while the wave front moving towards the cold side is still given by a shockwave [20,21]. g
g
y
One goal of this work is to sharpen the picture of the formation process of NESSs at strong
coupling in four spacetime dimensions. First, we compare the evolution of both the stress
tensor and the charge density in the strongly coupled field theory to analytical solutions and
numerical approximations of the Riemann problem in ideal and viscous hydrodynamics, re-
spectively. We consider double-shock solutions, that are known to violate the second law of
thermodynamics in dimensions larger that two [20, 21], physically sound combinations of
shock and rarefaction waves. Also, as we discuss both for the case of two shock waves as well
as for the shock+rarefaction wave combination, the charge density displays a discontinuity
within the NESS region, for which we plot examples. Then, moving on to the gravity dual
in five dimensions, we numerically evolve the dual gravity problem to obtain the fully far-
from-equilibrium quantum dynamics in principle also beyond the hydrodynamic regime. In
particular, we numerically establish and analyse the gravity dual of the rarefaction wave. While
being entirely smooth, our holographic solutions agree to very good numerical accuracy with
the shock+rarefaction wave scenario. Importantly, our results are in line with the proposal
of [20] that a NESS forms also for the shock+rarefaction case, i.e. 1
Introduction the spreading of the rar-
efaction wave is not so large as to impede the NESS formation. We present a quantitative study
of the deviations between the shock+shock and shock+rarefaction cases, the hydrodynamic
simulation and our holographic solutions. We find them to be generically small. Nevertheless,
our holographic solutions favour the shock+rarefaction scenario. A further goal is to generalise the holographic entanglement entropy (HEE) calculation
of [16] to four spacetime dimensions. In [16], where two 1+1-dimensional shockwaves and
their gravity dual were considered, the time dependence of the HEE for a strip entangling
region was shown to display universal behaviour and to satisfy a velocity bound. In contrast
to CFT2, where the dual Riemann problem has a closed solution [26], in dimensions larger
than two it is necessary to solve the extremal surface problem for the HEE numerically [27]. We perform a numerical analysis of the HEE for infinite strip regions of different width. In
particular for the shock+rarefaction case, we find that a convenient way to make physical
statements about the HEE time evolution is to compare it to the time evolution of the energy
density. We compare the time evolution of both HEE and energy density during the passing of
the shock and rarefaction waves. We find the time evolution of HEE and energy density to be
very similar, the main difference being that the HEE trails the energy density by a small amount. This effect is more pronounced in the rarefaction case, where the wave takes a relatively long
time to move through the entangling region. The paper is structured as follows. Sec. 2 is a review of the Riemann problem in ideal
hydrodynamics. In particular, we recall the derivation of analytical solutions with two shock
waves and solutions with one shock and one rarefaction wave. In Sec. 3 we introduce the
holographic model which is Einstein-Maxwell gravity in five dimensions. In Sec. 4 we discuss
our setup of the HEE computation. In Sec. 5 we present the time evolution of the stress tensor
and charge density obtained from the holographic model and compare them to analytical and 3 SciPost Phys. 11, 047 (2021) numerical solutions of the corresponding Riemann problem in ideal and viscous hydrodynam-
ics. We then analyse the holographic entanglement entropy for shock and rarefaction waves. In Sec. 6 we conclude and point towards a number of interesting future directions. 1
Introduction In two
appendices we derive the Rankine-Hugoniot jump conditions and provide numerical evidence
that our results are independent on how we approximate the initial interface of the Riemann
problem on the gravity side. 2
Riemann problem in ideal hydrodynamics We can now state
the Riemann problem which is an initial value problem for (3) with piecewise constant initial
conditions at time t = 0 for the energy and charge density with a planar discontinuity at x = 0, E(0, x) =
¨
EC
∀x < 0
EH
∀x > 0 ,
n(0, x) =
¨
nC
∀x < 0
nH
∀x > 0 . (5) (5) In the following we assume, without loss of generality, EC < EH, where subscripts C and H
denote the “cold” and the “hot” side of the system, respectively. 2
Riemann problem in ideal hydrodynamics Prior to discussing the holographic calculation, it is useful to review the Riemann problem in
ideal hydrodynamics. A standard reference on the Riemann problem is [28]. Here we consider
it in presence of a conserved U(1) charge. We start by defining the stress tensor and charge
current of a relativistic fluid, T µν = (E + P)uµuν + Pηµν ,
Jµ = nuµ ,
(1) (1) where E, P, n and η denote energy density, pressure, charge density and the mostly plus
Minkowski metric, respectively. We are interested in one dimensional relativistic flows for
which the normalised velocity can be written as uµ = γ(1, v, ⃗0),
u2 = uµuνηµν = −1. (2) (2) The Lorentz factor γ = 1/
p
1 −v2 is expressed in terms of the local fluid velocity v. The
equations of motion of the fluid are the conservation laws for the stress tensor and the charge
current The Lorentz factor γ = 1/
p
1 −v2 is expressed in terms of the local fluid velocity v. The
equations of motion of the fluid are the conservation laws for the stress tensor and the charge
current ∂µT µν = 0,
∂µJµ = 0. (3) (3) These equations need to be closed by an equation of state (EoS) relating pressure to energy
and charge density. In what follows we neglect the dependence of the pressure on the charge
density and assume the fluid to be conformally invariant, These equations need to be closed by an equation of state (EoS) relating pressure to energy
and charge density. In what follows we neglect the dependence of the pressure on the charge
density and assume the fluid to be conformally invariant, P(E) = c2
s E ,
c2
s = 1
d ,
(4) (4) where cs is the speed of sound and d the number of spatial dimensions. We can now state
the Riemann problem which is an initial value problem for (3) with piecewise constant initial
conditions at time t = 0 for the energy and charge density with a planar discontinuity at x = 0, where cs is the speed of sound and d the number of spatial dimensions. 2.1
Double shock solution (10) (10) vC(J t
C −J t
1) = J x
C −J x
1 ,
vH(J t
2 −J t
H) = J x
2 −J x
H . (10) These conditions determine the charge densities n1 and n2, the shock velocities vC and vH, as
well as the boost velocity vS and energy density ES of the NESS region in terms of the boundary
conditions nC, nH, EC and EH, vS = −
cs(1 −χ)
Æ
(1 + c2
s χ)(c2
s + χ)
,
vC = −cs
v
u
t1 + c2
s χ
c2
s + χ ,
vH =cs
v
u
t c2
s + χ
1 + c2
s χ ,
ES =
p
ECEH ,
n1 =nC
v
u
t 1 + c2
s χ
χ(c2
s + χ) ,
n2 =nH
v
u
tχ(c2
s + χ)
1 + c2
s χ
,
(11) ES =
p
ECEH , (11) where χ =
p
EC/EH. In Fig. 1 we plot the energy and charge density for different values of
χ for d = 3. In Fig. 2 (left) we show the velocities as a function of χ for d = 3, whereby we
note that 1 > vH > cs and cs > vC. We express the solutions as functions of the ratio of the
x-coordinate in which the shocks propagate and time t, x/t. Note that on the right of both
plots, the value of the quantities shown is one since E = EH. For special ratios of the initial
charge and energy densities nC
nH
=
χ(c2
s + χ)
1 + c2
s χ
,
(12) (12) the contact discontinuity of the charge is absent, implying n1 = n2. For d = 3 spatial dimen-
sions and nC/nH = 1/2, this is the case for χ = (
p
73 −1)/12, as also shown in Fig. 1. For
smaller values of χ the charge density becomes non-monotonic: the difference in the energy
densities generates such a strong flow of charge that charge builds up next to the cold bath. 2.1
Double shock solution One possible solution of the Riemann problem consists of two shock discontinuities moving in
opposite directions. In this case, there are three different regions, for which the stress tensor
is given by T µν
C
=
EC
0
0
c2
s EC
,
T µν
S
= c2
s ES
(1 + 1/c2
s )uµuν + ηµν
,
T µν
H =
EH
0
0
c2
s EH
,
(6) (6) 4 SciPost Phys. 11, 047 (2021) respectively. In this subsection we suppress the d −1 transverse coordinates for clarity. The
middle region, labelled by subscript S for steady state, is described by a fluid with local rest-
frame energy density ES moving with velocity vS, respectively. In this subsection we suppress the d −1 transverse coordinates for clarity. The
middle region, labelled by subscript S for steady state, is described by a fluid with local rest-
frame energy density ES moving with velocity vS, uµ = γ(1, vS),
γ = 1/
q
1 −v2
S . (7) (7) The charge density can in addition develop a so-called contact discontinuity in the central
region where the pressure and the velocity are continuous. This means that the solution for
the charge density consists of four different regions in general, with local charge densities of
nC, n1, n2 and nH such that Jµ
C = nC
1
0
,
Jµ
1 = n1γ
1
vS
,
Jµ
2 = n2γ
1
vS
,
Jµ
H = nH
1
0
. (8) (8) omentum and charge conservation then imply the Rankine-Hugoniot jump condi-
details see Appendix A) for the stress tensor at the left and right moving shock, vC(T tt
C −T tt
S ) = T x t
C −T x t
S ,
vC(T t x
C −T t x
S ) = T x x
C
−T x x
S
,
vH(T tt
S −T tt
H ) = T x t
S
−T x t
H ,
vH(T t x
S
−T t x
H ) = T x x
S
−T x x
H ,
(9) (9) and correspondingly for the charge densities vC(J t
C −J t
1) = J x
C −J x
1 ,
vH(J t
2 −J t
H) = J x
2 −J x
H . 2.1
Double shock solution As noted in [20, 24], a shock wave moving into a region of higher energy density an
pressure locally violates the entropy condition ∂µsµ ≥0,
(13) (13) where sµ = E+P
T uµ = kE
1
1+c2s uµ is the entropy density current and k a constant that depends on
the microscopic properties of the theory. To discuss this in the present context, we first evaluate where sµ = E+P
T uµ = kE
1
1+c2s uµ is the entropy density current and k a constant that depends on
the microscopic properties of the theory. To discuss this in the present context, we first evaluate 5 SciPost Phys. 11, 047 (202
χ=1/4
χ=1/2
χ=3/4
-1.0
-0.5
0.0
0.5
1.0
0.0
0.2
0.4
0.6
0.8
1.0
x/t
ℰ/ℰH
χ=1/4
χ=
73 -1
12
χ=3/4
-1.0
-0.5
0.0
0.5
1.0
0.0
0.2
0.4
0.6
0.8
1.0
1.2
1.4
x/t
n /nH
Figure 1: Energy density (left) and charge density (right) of the double shock solu-
tion. The energy plot on the left shows the two heat baths and the NESS region. The
charge plot displays the additional contact discontinuity that is absent for the middle
value of χ given. SciPost Phys. 11, 047 (2021) χ=1/4
χ=1/2
χ=3/4
-1.0
-0.5
0.0
0.5
1.0
0.0
0.2
0.4
0.6
0.8
1.0
x/t
ℰ/ℰH χ=1/4
χ=
73 -1
12
χ=3/4
-1.0
-0.5
0.0
0.5
1.0
0.0
0.2
0.4
0.6
0.8
1.0
1.2
1.4
x/t
n /nH Figure 1: Energy density (left) and charge density (right) of the double shock solu-
tion. The energy plot on the left shows the two heat baths and the NESS region. The
charge plot displays the additional contact discontinuity that is absent for the middle
value of χ given. the jump conditions for the entropy current across the shock waves. 2.1
Double shock solution Using the entropy currents
in the left, central and right regions sµ
C = kE
1
1+c2s
C
1
0
,
sµ
S = kE
1
1+c2s
S
γ
1
vS
,
sµ
H = kE
1
1+c2s
H
1
0
,
(14) (14) we find the jump conditions for the entropy current across the shock waves to be ∆sC = vC
st
C −st
S
−
sx
C −sx
S
= kcsE
1
1+c2s
H
χ
3
2(1+c2s ) −χ
2
1+c2s
v
u
t1 + c2
s χ
c2
s + χ
! ,
(15)
∆sH = vH
st
S −st
H
−
sx
S −sx
H
= kcsE
1
1+c2s
H
χ
1−c2s
2(1+c2s ) −
v
u
t c2
s + χ
1 + c2
s χ
! . (16) (15) (16) For the number of spatial dimensions d > 1, these expressions reveal that both shocks violate
the jump condition for the entropy current, i.e. ∆sC/H ̸= 0. However, as shown in Fig. 2 (right),
the right-moving shock (orange curve) gives ∆sH < 0. This shock, moving in the direction of
the hot bath, hence violates the local second law of thermodynamics. Recently, [29] (based
on [30–34]) managed to proof the local second law of thermodynamics (see also [35–37] for a
statistical physics point of view) under the very general assumptions of unitarity and hence we
have to regard this right-moving shock as an unphysical solution. In fact, in the next subsection
we show how this problem can be resolved by replacing the unphysical shock with a physical
rarefaction wave. The entropy flow across the right-moving shock is negative and monotonic. In the limit
χ →0, it is bounded by lim
χ→0∆sH = −k c2
s (EH)
1
1+c2s . (17) (17) The flow across the left-moving shock is completely suppressed in this limit, i.e. limχ→0 ∆sC = 0. Interestingly, for each dimension d the entropy flow across the left mover has a local maximum
at some χ∗
d for which the shock produces a maximum amount of entropy. For d = 2,3,4, the
corresponding value of χd is given by χ∗
2 ≈0.1301,
χ∗
3 ≈0.1397,
χ∗
4 ≈0.1428,
... . (18) (18) 6 SciPost Phys. 2.1
Double shock solution 11, 047 (2021)
vS
vC
vH
cs
0.0
0.2
0.4
0.6
0.8
1.0
0.0
0.2
0.4
0.6
0.8
1.0
χ
Cold
Hot
0.0
0.2
0.4
0.6
0.8
1.0
-0.04
-0.03
-0.02
-0.01
0.00
0.01
χ
Δs ℰH
-
1
1+cs
2 /(k cs)
Figure 2: (left) The velocities of the steady state flow (vS), and the left- and right-
moving shock velocities vC and vH in comparison to the sound velocity cs for d = 3
according to Eqn. (11). (right) Change in entropy across the left and right moving
shock waves, as function of χ =
p
EC/EH. ‘Cold’ refers to the left-moving and ‘Hot’
to the right-moving shock. The normalisation factor is motivated by (15). SciPost Phys. 11, 047 (2021) vS
vC
vH
cs
0.0
0.2
0.4
0.6
0.8
1.0
0.0
0.2
0.4
0.6
0.8
1.0
χ
-
1 Cold
Hot
0.0
0.2
0.4
0.6
0.8
1.0
-0.04
-0.03
-0.02
-0.01
0.00
0.01
χ
Δs ℰH
/(k cs) χ χ Figure 2: (left) The velocities of the steady state flow (vS), and the left- and right- Figure 2: (left) The velocities of the steady state flow (vS), and the left- and right-
moving shock velocities vC and vH in comparison to the sound velocity cs for d = 3
according to Eqn. (11). (right) Change in entropy across the left and right moving
shock waves, as function of χ =
p
EC/EH. ‘Cold’ refers to the left-moving and ‘Hot’
to the right-moving shock. The normalisation factor is motivated by (15). 2.2
Shock + rarefaction wave solution As is well known in the literature on the Riemann problem for some time already, [38], a phys-
ical solution that - unlike the shock solution discussed above - is locally in thermal equilibrium
and respects the second law of thermodynamics is the rarefaction wave. For the setup consid-
ered here, this was discussed for instance in [20]. A rarefaction wave is a smooth, self-similar
solution that by construction saturates the entropy condition (13) and depends on x and t
only via ξ = x/t. In the ξ coordinate, the conservation equations for the stress tensor become ξ d
dξ
E
1 + c2
s v2
1 −v2
= d
dξ
Ev
1 + c2
s
1 −v2
,
ξ d
dξ
Ev
1 + c2
s
1 −v2
= d
dξ
E
c2
s + v2
1 −v2
,
(19) (19) which can be rearranged to
0
0
= M
d
dξE
d
dξ v
. (20) (20) his system of ordinary differential equations has solutions different from E = v = 0 if and
nly if This system of ordinary differential equations has solutions different from E = v = 0 if and
only if This system of ordinary differential equations has solutions different from E = v = 0 if and
only if
d
2ξ2
(ξ)2
2
ξ (ξ)
2
ξ2 detM =
c2
s ξ2 −1
v(ξ)2 −2
c2
s −1
ξv(ξ) + c2
s −ξ2 = 0,
(21) (21) which gives a relation for the local velocity in terms of ξ, v(ξ) = ξ ± cs
1 ± csξ ,
(22) v(ξ) = ξ ± cs
1 ± csξ ,
(22) (22) where the plus (minus) sign corresponds to a left (right) moving wave. Next we demand local
entropy conservation ∂µsµ = 0 for the right-moving wave, where the plus (minus) sign corresponds to a left (right) moving wave. Next we demand local
entropy conservation ∂µsµ = 0 for the right-moving wave, ξ d
dξ
E
1
1+c2s
p
1 −v2
= d
dξ
vE
1
1+c2s
p
1 −v2
. 2.2
Shock + rarefaction wave solution (23) (23) From this we can express the energy density of the rarefaction wave as E = EH
(cs −1)(ξ + 1)
(cs + 1)(ξ −1)
1−c2s
2cs
,
(24) (24) 7 SciPost Phys. 11, 047 (2021) where we fixed the integration constant by E(ξ = cs) = EH. Similarly the conservation law for
the charge current ξ d
dξ
n
p
1 −v2
= d
dξ
nv
p
1 −v2
,
(25) (25) can be solved for the charge density in the rarefaction region can be solved for the charge density in the rarefaction region n(ξ) = nH
(1 + ξ)(1 −cs)
(1 −ξ)(1 + cs)
cs/2
,
(26) (26) where we used (22) to express the local velocity and n(ξ = cs) = nH to fix the integration
constant. By combining (22) and (24) we can express the energy density in the central region
in terms of the flow velocity
1
2 where we used (22) to express the local velocity and n(ξ = cs) = nH to fix the integration
constant. By combining (22) and (24) we can express the energy density in the central region
in terms of the flow velocity
2 ES = EH
1 + vS
1 −vS
1−c2s
2cs . (27) (27) An analogous expression can be derived from the Rankine-Hugoniot jump conditions (9) for
the left moving shock wave An analogous expression can be derived from the Rankine-Hugoniot jump conditions (9) for
the left moving shock wave vC
EC −ES
1 + c2
s v2
S
1 −v2
S
= −
ES(1 + c2
s )vS
1 −v2
S
,
−vC
ES(1 + c2
s )vS
1 −v2
S
= c2
s EC −
ES(v2
S + c2
S)
1 −v2
S
,
(28) (28) from which we obtain ES = EC
2c2
s + v2
S + c4
s v2
S ± vS(1 + c2
s )
q
4c2
s + (c2
s −1)2v2
S
2c2
s (1 −v2
S)
,
(29)
vC =
v2
S + c2
s
1 −(1 −v2
S)
1−vS
1+vS
1+c2s
2cs χ2
vS(1 + c2
s )
,
(30) (29) (30) where the solution with the minus (plus) sign corresponds to a right (left) moving rarefaction
wave. 2.2
Shock + rarefaction wave solution Combining (27) and (29) fixes a unique value for vS which we are only able to determine
numerically. With this in mind, we express the charge densities in terms of vS, n1 = nC
(v2
S −1)χ2 1−vS
1+vS
c2s +1
2cs + 1 +
v2
S
c2
s
q
1 −v2
S
1 −χ2 1+vS
1+vS
c2s +1
2cs
,
n2 = nH
(1 + vS)(1 −cs)
(1 −vS)(1 + cs)
cs/2
. (31) (31) In Fig. 3 we plot some examples for energy and charge density. In contrast to the shock+shock
case the rarefaction wave provides a continuous solution near the hot bath. From the figure
it seems that χ = (
p
73 −1)/12 again provides a solution without a contact discontinuity,
but in fact a careful numerical comparison shows that n1 −n2 ≈0.001092. We also note
that the direction the rarefaction wave travels is solely determined by the presence of the
hot bath, and does not depend on nH being higher or smaller than nC, which is clear from
Fig. 3 (right). Similarly, the contact discontinuity does not get replaced by a rarefaction wave,
as in the steady state rest frame it is just a connection between two baths of different charge
densities. In practice charge will diffuse from the higher to the lower charge density, but this is
a process that is parametrically slower than the shock and rarefaction waves (see also Section
5). All these solutions are now potential physical solutions that satisfy the second law. In the
remainder of this work, we will investigate these further from a microscopic perspective. In Fig. 3 we plot some examples for energy and charge density. In contrast to the shock+shock
case the rarefaction wave provides a continuous solution near the hot bath. From the figure
it seems that χ = (
p
73 −1)/12 again provides a solution without a contact discontinuity,
but in fact a careful numerical comparison shows that n1 −n2 ≈0.001092. We also note
that the direction the rarefaction wave travels is solely determined by the presence of the
hot bath, and does not depend on nH being higher or smaller than nC, which is clear from
Fig. 3 (right). 2.2
Shock + rarefaction wave solution Similarly, the contact discontinuity does not get replaced by a rarefaction wave,
as in the steady state rest frame it is just a connection between two baths of different charge
densities. In practice charge will diffuse from the higher to the lower charge density, but this is
a process that is parametrically slower than the shock and rarefaction waves (see also Section
5). All these solutions are now potential physical solutions that satisfy the second law. In the
remainder of this work, we will investigate these further from a microscopic perspective. 8 SciPost Phys. 11, 047 (2021) χ=1/4
χ=1/2
χ=3/4
-1.0
-0.5
0.0
0.5
1.0
0.0
0.2
0.4
0.6
0.8
1.0
x/t
ℰ/ℰH
χ=1/4
χ=
73 -1
12
χ=3/4
-1.0
-0.5
0.0
0.5
1.0
0.0
0.2
0.4
0.6
0.8
1.0
1.2
1.4
x/t
n /nH
χ=1/4
χ=
73 -1
12
χ=3/4
-1.0
-0.5
0.0
0.5
1.0
0
1
2
3
4
5
x/t
n /nH
Figure 3:
Energy density (left) and charge density (middle and right) for the
shock+rarefaction wave solution. The rarefaction wave moving to the hot bath ap-
pears on the right. This figure is to be compared to the two-shock solution displayed
in Fig. 1. χ=1/4
χ=1/2
χ=3/4
-1.0
-0.5
0.0
0.5
1.0
0.0
0.2
0.4
0.6
0.8
1.0
x/t
ℰ/ℰH χ=1/4
χ=
73 -1
12
χ=3/4
-1.0
-0.5
0.0
0.5
1.0
0.0
0.2
0.4
0.6
0.8
1.0
1.2
1.4
x/t
n /nH χ=1/4
χ=
73 -1
12
χ=3/4
-1.0
-0.5
0.0
0.5
1.0
0
1
2
3
4
5
x/t
n /nH Figure 3:
Energy density (left) and charge density (middle and right) for the
shock+rarefaction wave solution. The rarefaction wave moving to the hot bath ap-
pears on the right. This figure is to be compared to the two-shock solution displayed
in Fig. 1. 1The full five-dimensional action for this truncation would include a Chern-Simons term (see e.g. [41]), b
this will play no role in our analysis and we have therefore omitted it. 3.1
Holographic model The holographic dual model that we use is five-dimensional Einstein-Maxwell gravity with
negative cosmological constant. This allows us to study the dynamics of the stress tensor and
a conserved U(1) current in the dual field theory. The action of the gravity system is given by S =
1
16πGN
Z
M
d5x
p
−g
R + 12
L2 −e2L2
4
FMN F MN
+
1
8πGN
Z
∂Mε
d4x
p
−γK + Sct , (32) where GN is Newton’s constant, L is the asymptotic AdS radius, R is the Ricci scalar of the bulk
geometry on a manifold M with flat boundary ∂M and bulk metric gMN, FMN ≡∂[MAN] is the
electromagnetic field strength with AM the U(1) gauge field in the bulk and the coupling con-
stant e controls the strength of the electromagnetic field. The trace of the extrinsic curvature
K of the induced metric γµν and the counter-term [39,40] are to be evaluated at a radial slice
∂Mε close to the boundary and are necessary to render the variational principle well-defined
and the on-shell action finite. The action (32) can be viewed as a consistent truncation of the dimensional reduction of
type IIB supergravity on S5. In this case the dual gauge theory is N = 4 Super Yang-Mills and
the U(1) current arises from the R-symmetry of this theory.1 In the context of this work we
see (32) simply as bottom-up model that incorporates the dynamics of the stress tensor and a
conserved U(1) current in the dual gauge theory. The equations of motion that follow from (32) are RMN + 4
L2 gMN = e2L2
2
FM P F P
N −1
6 gMN F2
,
(33a)
∇M FMN = 0. (33b) (33a) (33b) The ground state of the theory is given by a constant gauge field configuration on AdS5, ds2 = L2
u2
du2 + ηµνdxµdxν
,
AM = const. (34) (34) A general solution of the Maxwell equations near the AdS boundary takes in axial gauge
(Au = 0) the form A general solution of the Maxwell equations near the AdS boundary takes in axial gauge
(Au = 0) the form (Au = 0) the form Aµ(u, xµ) = a(0)
µ (xµ) + u2
a(1)
µ (xµ) + ˜a(1)
µ (xµ)logu
+ ... 3.1
Holographic model ,
(35) (35) 1The full five-dimensional action for this truncation would include a Chern-Simons term (see e.g. [41]), but
this will play no role in our analysis and we have therefore omitted it. 9 SciPost Phys. 11, 047 (2021) where the coefficient a(0)
µ (xµ) is identified as coupling of the global U(1) current Jµ(xµ) in the
quantum field theory. A constant a(1)
µ (xµ) is then, by the holographic dictionary (see e.g. [42]),
identified as chemical potential µ for a global charge density ρ µ ≡a(0)
t
,
〈J t〉= ρ ≡−e2L4
8πGN
a(1)
t
. (36) (36) In the following we will be interested in solutions dual to field theory states in the grand
canonical ensemble, i.e., thermodynamic states characterised by fixed chemical potential and
temperature. Such states are dual to Reissner–Nordström (RN) black branes, In the following we will be interested in solutions dual to field theory states in the grand
canonical ensemble, i.e., thermodynamic states characterised by fixed chemical potential and
temperature. Such states are dual to Reissner–Nordström (RN) black branes, ds2
RN = L2
u2
−f (u)dt2 + f (u)−1du2 + d⃗x2
,
At(u) = µ
1 −u2
u2
h
(37a)
f (u) = 1 −M u4
u4
h
+ Q2 u6
u6
h
,
M = 1 + Q2 ,
Q2 =
µ2u2
h e2
3L2
,
(37b) (37a) (37b) where u = uh is the radial location of the horizon defined by f (uh) = 0 and f (0) = 1 fixes the
boundary metric to Minkowski. The temperature of the field theory state dual to the geometry
(37) is given by the Hawking temperature of the horizon. It can be derived by demanding
periodicity β of time circles in the Euclidean continuation of the line element, T = 1
β = −f ′(uh)
4π
= 2 −Q2
2πuh
. (38) (38) By the Bekenstein–Hawking formula [43,44], the entropy density is proportional to the horizon
area,
3 s =
L3
4G u3
h
. (39) (39) The charge density then follows from using (37a) in (36), The charge density then follows from using (37a) in (36), he charge density then follows from using (37a) in (36), ρ =
e2L2µ
8πGNu2
h
. 3.1
Holographic model (40) (40) RN-geometries (37) with different T and µ will serve as initial conditions to the left and to
the right of the interface in the Riemann problem and at the same time provide the necessary
boundary conditions at spatial infinity to solve the initial value problem. In the next section
we explain that NESSs emerging from the interface are dual to Lorentz transformed (boosted)
versions of (37) and present the method we use to simulate their formation. 3.2
Holographic steady states The holographic duality maps NESSs in the field theory to boosted black brane geometries on
the gravity side [15], ds2
NESS = L2
u2
du2 f (u)−1 −f (u)(dt coshη −dz sinhη)2 + (dz coshη −dt sinhη)2 + dx2
⊥
,
(41 ⊥
(41)
1 where the rapidity η is related to the fluid velocity vs in the steady state by η = tanh−1 vs. In contrast to Sec. 2, where we denote the spatial coordinate in which the waves propagate
by x, we denote the corresponding coordinate here and in the following by z. At this point
it is important to emphasise that explicit relations between the temperature, fluid velocity,
etc. of the holographic steady state and the properties of the hot and cold reservoirs are only 10 SciPost Phys. 11, 047 (2021) known in d = 2 [20]. The temperatures of the cold and the hot reservoir (TC,H) depend on
the corresponding chemical potentials by (38) (µC,H) and radial horizon positions (uh(C,H)), known in d = 2 [20]. The temperatures of the cold and the hot reservoir (TC,H) depend on
the corresponding chemical potentials by (38) (µC,H) and radial horizon positions (uh(C,H)), TC,H =
2 −Q2
C,H
2πuh(C,H)
=
1
πuh(C,H)
−
µ2
C,Huh(C,H)
6π
e2
L2 . (42) (42) The dual geometry for the steady state regime can be approximated as ds2 =
ds2
RN,C
if
z ≲vC t ,
ds2
NESS
if
vC t ≲z ≲vH t ,
ds2
RN,H
if
z ≳vH t ,
(43) (43) where ds2
RN,C (ds2
RN,H) is (37) for T = TC(TH) and µ = µC(µH). In the hydrodynamic limit,
the left (vC) and right (vH) moving wave velocities are well approximated by (28) with (22)
evaluated for ξ = cs. It is important to note that if χ is not close to unity we expect more
complicated solutions that in particular include the rarefaction waves introduced in Sec. 2.2. Similarly we can arrive at approximate expressions for the gauge field using the formulae in
Sec. 2.2. This is only an approximate solution, because the precise form of the metric in the
vicinity of the left and right moving waves is not available in closed form. In Sec. 3 we present
numerical evidence that the expressions for temperature, fluid velocity and charge density
derived for the shock+rarefaction solution in Sec. 3.2
Holographic steady states 2 are, at sufficiently late time, in excellent
agreement with the results of the holographic simulation. To study the Riemann problem in full detail we construct the solution numerically. This
will allow us to analyse the precise shapes of the propagating waves, how they change in time
and how they compare to the analytically constructed shock and rarefaction wave solution in
ideal hydrodynamics. For this we make the simplifying assumption that the strength of the
electromagnetic field is small, i.e. e L ≪1. In this limit the backreaction of the gauge field to
the metric is subleading and the right hand side of (33a) vanishes. This means our charged
results are leading order results in a small e L expansion. g
p
For the metric and the gauge field we follow [45–48] and use the ansätze ds2
EF = −Cdt2 + 2drdt + 2Gdzdt + S2 eBdx2
⊥+ e−2Bdz2
,
(44a)
AM = Atdt + Azdz ,
(44b) (44a)
(44b) (44b) where all functions depend on the Eddington–Finkelstein like time coordinate t, the longitu-
dinal coordinate z and the AdS bulk coordinate r, but not on the two transverse coordinates
x⊥. The explicit form of the corresponding equations of motion for the metric can for example
be found in [45,49]. 2We note that in this section we switched to the z-coordinate to describe the boundary direction, to make it
explicit that we work in a 3+1D boundary field theory. Also note that in Section 2 E referred to the energy density
in the local restframe, whereas to be consistent with previous literature we here use E for the energy density in the
lab frame. For the hot and cold bath the lab frame is the local restframe, but for the steady state and rarefaction
waves it is necessary to compare to T tt in (1). 3.2
Holographic steady states The Maxwell equations with (44b) as ansatz for the gauge field can be
written as S3F′
rt = −e2B Frz
S
2˜B −G′
+ ˜S
+ S ˜Frz
−3S2FrtS′ ,
(45a)
S3F′
tz =1
4S2 −2S
˜Frt + Frz
CB′ + 2˙B + C′
+ 2B′ (GFrt + Ftz)
+ CF′
rz + FrtG′
+ S′ (−CFrz + 10GFrt −2Ftz) −2˙SFrz
+ e2BG
Frz
S
2˜B −G′
+ ˜S
+ S ˜Frz
,
(45b) (45a) (45b) 4S ˙Frz = −2S
−˜Frt + Frz
CB′ + 2˙B + C′
+ 2B′ (GFrt + Ftz) + FrtG′
−S′ (CFrz + 2GFrt + 2Ftz) −2˙SFrz ,
(45c) 4S ˙Frz = −2S
−˜Frt + Frz
CB′ + 2˙B + C′
+ 2B′ (GFrt + Ftz) + FrtG′
−S′ (CFrz + 2GFrt + 2Ftz) −2˙SFrz ,
(45c)
2S3 ˙Frt =e2B
S
2G
2˜BFrt + ˜Frt
+ 4˜BFtz + C ˜Frz + 2 ˜GFrt + 2˜Ftz
+
Frz
2S
C ˜B + ˜C + ˙G
+ C ˜S
+ 2˜S (GFrt + Ftz)
−6S2˙SFrt ,
(45d) (45c) 2S3 ˙Frt =e2B
S
2G
2˜BFrt + ˜Frt
+ 4˜BFtz + C ˜Frz + 2 ˜GFrt + 2˜Ftz
+
Frz
2S
C ˜B + ˜C + ˙G
+ C ˜S
+ 2˜S (GFrt + Ftz)
−6S2˙SFrt ,
(45d) 2S3 ˙Frt =e2B
S
2G
2˜BFrt + ˜Frt
+ 4˜BFtz + C ˜Frz + 2 ˜GFrt + 2˜Ftz
+
Frz
2S
C ˜B + ˜C + ˙G
+ C ˜S
+ 2˜S (GFrt + Ftz)
−6S2˙SFrt ,
(45d) 11 SciPost Phys. 11, 047 (2021) where ˙h = ∂th + 1
2Ch′ and ˜h = ∂zh −Gh′. Once Frz is specified the first three equations can
be used to respectively solve for Frt, Ftz and ˙Frz, after which it is possible to obtain the time
derivative of Frz. The last equation is a constraint equation and can be used to monitor the
accuracy of the numerical evolution. Close to the boundary, the solution for the metric and
the gauge field can be expressed as power series in the radial coordinate, where ˙h = ∂th + 1
2Ch′ and ˜h = ∂zh −Gh′. Once Frz is specified the first three equations can
be used to respectively solve for Frt, Ftz and ˙Frz, after which it is possible to obtain the time
derivative of Frz. 3.2
Holographic steady states The last equation is a constraint equation and can be used to monitor the
accuracy of the numerical evolution. Close to the boundary, the solution for the metric and
the gauge field can be expressed as power series in the radial coordinate, C(r, t, z) = (r + α)2 −2∂tα + c4
r2 + ∂tc4 −4αc4
2r3
+ O
r−4
,
(46a)
B(r, t, z) = b4
r4 + 15∂t b4 + 2∂z f4 −60αb4
15r5
+ O
r−6
,
(46b)
S(r, t, z) = r + α −4∂z g4 + 3∂tc4
60r4
+ O(r−5),
(46c)
G(r, t, z) = ∂zα + g4
r2 + 4∂t g4 + ∂zc4 −10αg4
5r3
+ O(r−4),
(46d)
At(r, t, z) =
at,2
r2 +
2
3∂zaz,2 −2αat,2
r3
+ O(r−4),
(46e)
Az(r, t, z) =
az,2
r2 +
−6αaz,2 −∂zat,2 + 3∂taz,2
3r3
+ O(r−4),
(46f) (46a) (46b) (46f) where the function α(t,z) is a residual gauge freedom of the ansatz (44a) which we used
to fix the horizon at r = 1. The functions c4(t,z), b4(t,z), g4(t,z), at,2(t,z) and az,2(t,z)
are not determined by the near boundary analysis, but need to be extracted from a full bulk
solution. The charge density and the holographic stress tensor in the field theory are then
given by [47,49,50] where the function α(t,z) is a residual gauge freedom of the ansatz (44a) which we used
to fix the horizon at r = 1. The functions c4(t,z), b4(t,z), g4(t,z), at,2(t,z) and az,2(t,z)
are not determined by the near boundary analysis, but need to be extracted from a full bulk
solution. The charge density and the holographic stress tensor in the field theory are then
given by [47,49,50] 〈Jµ〉= e2L4
4πGN
ρ
σ
0
0
,
〈T µν〉=
1
4πGN
E
S
0
0
S
P∥
0
0
0
0
P⊥
0
0
0
0
P⊥
,
(47) (47) where we defined the reduced variables for charge density (ρ), charge flow (σ), energy density
(E), pressure in longitudinal (P∥) and transverse (P⊥) directions and momentum flux (S). 2
These quantities are related to the expansion coefficients as follows ρ = 1
2at,2 ,
σ = 1
2az,2 ,
E = −3
4a4 ,
P∥= −1
4a4 −2b4 ,
P⊥= −1
4a4 + b4 ,
S = −f4 . 3.2
Holographic steady states (48) (48) (48)
For N = 4 SU(Nc) SYM we have GN = π/2N 2. For N = 4 SU(Nc) SYM we have GN = π/2N 2
c . For the metric ansatz (44a) consistent initial conditions can be obtained by specifying
B(r, 0, z), as well as the functions a4(0, z), f4(0, z) and α(z) that determine the stress-energy
tensor at initial time t = 0. The initial conditions for the electromagnetic field strength can be
parametrised by Fr y(r, 0, z) = ∂rAy and the normalisable mode of At, which we call at,2(t, z). The initial conditions B(r, 0, z) and Fr y(r, 0, z) can be used to start with a far-from-equilibrium
state, which then relaxes in a time of order 1/T, where T is the local temperature at the
moment at which hydrodynamics becomes a good description (hydrodynamisation) [51]. In
this work, however, we are interested in much longer time scales and we therefore set the
initial values of these two functions to zero, i.e., their values in thermal equilibrium. The 12 SciPost Phys. 11, 047 (2021) initial conditions for the cold and hot bath are then solely determined by the corresponding
energy and charge densities, for which we choose initial conditions for the cold and hot bath are then solely determined by the corresponding
energy and charge densities, for which we choose E(z) = EC + (EH −EC)θ
z −1
4zmax
θ
3
4zmax −z
,
(49a)
ρ(z) = ρC + (ρH −ρC)θ
z −1
4zmax
θ
3
4zmax −z
,
(49b) (49a) (49a)
(49b) (49b) where we define θ(x) = 1
2
1 + tanh 3
2 x
to be a smooth step function and zmax denotes the
size of the computational domain in z-direction. Since we neglect the back-reaction of the
gauge field to the geometry our results are conformally invariant and the ratio of the energy
densities of the hot and cold baths simply equals the fourth root of the ratio of the correspond-
ing temperatures EH
EC =
4Ç TH
TC . To make the scale invariance of our results manifest we multiply
axis labels and legends by appropriate powers of m = πTC, with TC = ( 4
3EC)1/4/π being the
temperature of the cold bath. 3.2
Holographic steady states We close this section with some comments on the numerical scheme we use to solve the
dual gravity problem. We impose periodic boundary conditions at z = 0 = zmax. In the longi-
tudinal direction we use a Fourier decomposition with 1500 grid points, whereas in the holo-
graphic direction we use a pseudo-spectral representation with 28 grid points. Our longest
simulations use zmax = 80π and run from t = 0 till t = 80 with a time step of δt = 0.0012. In all our plots we shift one of the hot/cold transitions to the origin and make sure to only
show times where the periodic boundary conditions do not yet affect the results. At every time
step we apply low-pass filters to the time derivatives, whereby for the holographic direction
we interpolate on a grid with 2/3 of the original grid points and subsequently interpolate back
to main grid (see [47]). For the longitudinal direction we keep the lowest 30% of the Fourier
modes used. Using Mathematica 11 with the scheme presented in [49] this gives a runtime on
a standard laptop of about one week for each of the runs presented. 4
Holographic entanglement entropy We consider entanglement entropy as a measure for the entanglement of states associated to
different spatial subregions R in quantum field theory [52], SR = −TrR ˆρR log ˆρR ,
(50) (50) where ˆρR = Tr ¯R ˆρ denotes the reduced density matrix obtained by performing on the full
density matrix ˆρ a partial trace over the degrees of freedom outside R. For simplicity we will
assume spatial subregions that are adapted to the symmetries of the Riemann problem. This
means we choose for R at every constant time-slice (t = t0) spatial stripes of finite width ℓin
z-direction and assume very large extend ℓ⊥≫ℓin the two other spatial directions x1
⊥and
x2
⊥, (51) R± = {t = t0, −ℓ/2 ≤z ∓∆z ≤ℓ/2, |x1
⊥| = |x2
⊥| ≤ℓ⊥}. (51) In practice we assume ℓ⊥→∞and define two different regions R± centered at a distance
±∆z to the left and to the right of the initial location z = 0 of the interface in the Riemann
problem. In Fig. 4 we show a typical arrangement of entangling regions that we use in our
numerical simulations. The two entangling regions with ℓ= 1, shown in blue and red, are
centered at ∆z = ±4. We also show a typical initial (solid black) and late time (dashed
black) profile of the energy density. Our motivation for this specific placement of the two
regions is that both regions reside initially entirely within either the cold or the hot bath,
whereas at late time they both reside entirely within the NESS region. This will allow us to
independently monitor the propagation of entanglement by the shock wave in the left region 13 SciPost Phys. 11, 047 (202
m t =2
m t =40
-30
-20
-10
0
10
20
30
0.0
0.5
1.0
1.5
2.0
2.5
3.0
m z
ℰ/m4
Figure 4: Entangling regions: blue and red stripes are typical arrangements of en-
tangling regions of size ℓ= 1 that initially reside entirely within the cold and hot
bath, respectively. Black solid and black dashed lines are the spatial distributions of
the energy density at early (t = 2) and late (t = 40) time in units of m = πTC. SciPost Phys. 4
Holographic entanglement entropy 11, 047 (2021) m t =2
m t =40
-30
-20
-10
0
10
20
30
0.0
0.5
1.0
1.5
2.0
2.5
3.0
m z
ℰ/m4 Figure 4: Entangling regions: blue and red stripes are typical arrangements of en-
tangling regions of size ℓ= 1 that initially reside entirely within the cold and hot
bath, respectively. Black solid and black dashed lines are the spatial distributions of
the energy density at early (t = 2) and late (t = 40) time in units of m = πTC. and the propagation of entanglement by the rarefaction wave in the right region and compare
the results. In the limit ℓ→∞the entangling region (51) covers an entire spacelike slice of Minkowski
space and for thermal equilibrium states (50) equals the von Neumann entropy of the full den-
sity matrix ˆρR = ˆρ, i.e., the thermodynamic entropy of a quantum state in thermal equilib-
rium. For the NESS system the situation is more subtle since at finite t the NESS is still of finite
size. The expectation, however, is that after taking t →∞first it is possible to take the large
size limit ℓ→∞with the region falling entirely in the NESS regime. In that case it should be
possible to identify the entanglement entropy with the thermal entropy of the boosted thermal
state. Explicit solutions for entanglement entropy are only available in exceptional cases such as
free QFTs [53] or for 1+1 dimenstional CFTs in time-independent [54] and time dependent
settings [55]. The holographic duality replaces the field theory computation of entanglement
entropy by a much simpler extremisation problem for the area AR of a codimension two
surface in the bulk [18],
A SR = AR
4GN
. (52) (52) We emphasise that this was originally proposed in a static setting [17], where the extremisation
reduces to a minimal surface problem, but was later extended to the time-dependent setting
we use here. The relevant surface shares its boundary with the entangling region R in the
field theory and extremises the area functional in the bulk theory AR[X] =
Z
d3σ
Æ
Det(∂aX M∂bX N gMN),
s.t. ∂X = ∂R. (53) (53) In general the surface embedding X M = X M(σa) is parametrised by three intrinsic coordinates
σa. 4
Holographic entanglement entropy In our context, it is convenient to switch from (44a) to the inverse radial coordinate
u = 1/r for which the boundary is located at u = 0, ds2 = gMNdx Mdx N = −Cdt2 −2dudt
u2
+ 2Gdzdt + S2 eBdx2
⊥+ e−2Bdz2
,
(54) (54) with {C, G,S, B} depend on {u, t,z}. The entangling regions (51) do not break translation
symmetry in x1,2
⊥-directions of the line element (54), hence also not of the Riemann problem
in the boundary theory. Since we neglect the backreaction of the gauge field to the geometry, 14 SciPost Phys. 11, 047 (2021) it does not enter in the calculation of the entanglement entropy. Analogously to [56] we can
parametrise the bulk surface as follows, X M(σ, x1
⊥, x2
⊥) = {X α(σ), x1
⊥, x2
⊥},
X α(σ) = {U(σ), T(σ), Z(σ)}. (55) X M(σ, x1
⊥, x2
⊥) = {X α(σ), x1
⊥, x2
⊥},
X α(σ) = {U(σ), T(σ), Z(σ)}. (55) (55) This choice simplifies the area functional considerably, because the integration over the per-
pendicular directions x1,2
⊥
can be performed explicitly and gives an overall factor ℓ⊥/2
ZZ
−ℓ⊥/2
d⃗x⊥= ℓ2
⊥. (56) (56) The remaining expression takes the form of a geodesic action, The remaining expression takes the form of a geodesic action, The remaining expression takes the form of a geodesic action, AR[X] = ℓ2
⊥
Z
dσ
v
t
¯gαβ(U(σ), T(σ), Z(σ))dX α
dσ
dX β
dσ
s.t. X α(0) = {0, t0,±ℓ/2},
(57) (57) where the metric ¯gαβ is related by a conformal factor to a three dimensional subspace
(α,β = {u, t,z}) of the bulk metric (44a) ¯ds
2 = ¯gαβdxαdxβ = S(u, t,z)4e2B(u,t,z)gαβdxαdxβ . (58) (58) motion that follow from δAR = 0 are given by the geodesic equation d2X α
dr2 + Γ α
βγ
dX β
dr
dX γ
dr = J dX α
dr ,
(59) (59) where Γ α
βγ is the Levi-Cività connection associated to ¯gαβ and is meant to be evaluated at the
location of the surface X α(σ); the friction term on the right hand side includes the Jacobian
J = d2τ(σ)
dσ2 / dτ(σ)
dσ
that originates from transforming from the affine parameter τ defined by
dX α(τ)
dτ
dX β(τ)
dτ
¯gαβ = 1 to the non-affine parameter σ. 4
Holographic entanglement entropy For numerical convenience, we choose a
parametrisation that leads to the following Jacobian (for details see [57]) J(σ) = −51σ + 145σ3 −205σ5 + 159σ7 −65σ9 + 11σ11
(2 −σ2)(1 −σ2)(3 −3σ2 + σ4)(1 −σ2 + σ4)
. (60) (60) The area functional (53) for the stripe region (51) suffers from two kinds of infinities. The
first one is due to the infinite overall factor ℓ2
⊥due to the infinitely long sides of the stripe
in transverse direction. Since this factor contains no dynamical information we tame this
infinity by considering in practice the entanglement entropy per transverse area SR/ℓ2
⊥. The
second one is less trivial and due to the fact that extremal surfaces in the HRT-prescription of
the holographic entanglement entropy (HEE) extend all the way to the asymptotic boundary,
which has infinite distance from any point in the interior. To regularise the entanglement
entropy we subtract the vacuum value, i.e., the area of surfaces in Poincaré patch AdSd+1 with
appropriate conformal pre-factor, ¯ds
2
0 = ¯g(0)
αβ dxαdxβ =
1
u2(d−2)
dt2 −2dtdu + dz2
. (61) (61) The solution for the extremal surface embedding of stripe regions can be expressed in closed
form U0(σ) = u∗(1 −σ2),
(62a)
Z0(σ) = sgn(σ)
−ℓ
2 + U0(σ)4
dud−1
∗
2F2
1
2,
d
2(d−1), 3d−8
2d−6;
U(σ)
u∗
2(d−1)
,
(62b)
T0(σ) = t0 −U0(σ),
(62c) U0(σ) = u∗(1 −σ2),
(62a)
Z0(σ) = sgn(σ)
−ℓ
2 + U0(σ)4
dud−1
∗
2F2
1
2,
d
2(d−1), 3d−8
2d−6;
U(σ)
u∗
2(d−1)
,
(62b)
T0(σ) = t0 −U0(σ),
(62c) (62a) (62c) 15 SciPost Phys. 11, 047 (2021) where the u∗= 2ℓ
pπΓ
1
d(d−1)
/Γ
d
2(d−1)
is the location of the turning point of the surface in
radial direction. The corresponding cut-off regularised surface area is given by Acut
0
= ℓd−2
⊥
Z σ+
σ−
dσ
1
Ud−1
0
q
−˙T 2
0 −2 ˙U0 ˙T0 + ˙Z2
0 ,
(63) (63) where the cutoff at fixed radial location u = ucut is realized by the following bounds on the
non-affine parameter
v σ± = ±
v
t
1 −ucut
u∗
. 4
Holographic entanglement entropy (64) (64) Together with the cut-off regularised expression for the gravity dual of the Riemann problem Together with the cut-off regularised expression for the gravity dual of the Riemann problem Acut = ℓ2
⊥
Z σ+
σ−
dσS2eB
v
t
−A˙T 2 −2
U2 ˙U ˙T + 2F ˙T ˙Z + S2e−2B ˙Z2 ,
(65) (65) we can express the finite vacuum subtracted entanglement entropy per transverse area as Sren =
Acut −Acut
0
4GNℓ2
⊥
. (66) (66) In practice, we solve (59) using a relaxation algorithm [27, 57] using a cut-off ucut = 0.075
and verified this value is small enough to not affect the results presented. In practice, we solve (59) using a relaxation algorithm [27, 57] using a cut-off ucut = 0.075
and verified this value is small enough to not affect the results presented. 5.1
Energy and charge density The
shapes of the shock and the rarefaction wave in the ideal hydro simulation depend on the
initial details of the transition region. However, we have checked that the energy density in
the steady state region is insensitive to this choice. In Appendix B we verify that also the
properties of the NESS region in the holographic system do not depend on how the initial
conditions are set up. The factor 20 in the denominator of (67) is a convenient numerical choice for realizing the
initial conditions such that the evolution resembles the holographic result at t = 20. The
shapes of the shock and the rarefaction wave in the ideal hydro simulation depend on the
initial details of the transition region. However, we have checked that the energy density in
the steady state region is insensitive to this choice. In Appendix B we verify that also the
properties of the NESS region in the holographic system do not depend on how the initial
conditions are set up. Although the initial conditions of the hydrodynamic simulation are perfectly smooth, the
wave travelling towards the cold side steepens significantly as time progresses until the ap-
plicability of ideal hydrodynamics and eventually also the numerical evolution breaks down. Shock+shock
Shock+rarefaction
-60
-40
-20
0
20
40
60
0.0
0.5
1.0
1.5
2.0
2.5
m z
ρ/m3, m t ={0, 4, 8, 12, 16, 20, 24, 28, 32, 36, 40, 44, 48, 52, 56, 60, 64, 68, 72, 76, 80}
Figure 6:
Evolution of the energy density (top) and charge density (bottom). Coloured lines are snapshots at various different times of the holographic simulation. For comparison we show in the upper panel results of the analytical shock+shock
(black dotted, at t = 40 and 80) and shock+rarefaction (black dashed) solution as
well as a numerical solution of the ideal hydrodynamics equations with smooth initial
data (black solid, at t = 20,40 and 60). Shock+shock
Shock+rarefaction
-60
-40
-20
0
20
40
60
0.0
0.5
1.0
1.5
2.0
2.5
m z
ρ/m3, m t ={0, 4, 8, 12, 16, 20, 24, 28, 32, 36, 40, 44, 48, 52, 56, 60, 64, 68, 72, 76, 80} Figure 6:
Evolution of the energy density (top) and charge density (bottom). Coloured lines are snapshots at various different times of the holographic simulation. 5.1
Energy and charge density In this section we present our results for the evolution of energy and charge density obtained
from the holographic calculation. The global features of the evolution are similar to those of
the analyticalal shock+rarefaction wave solution of the Riemann problem obtained in Sec. 2.2. In Fig. 5 we plot the time evolution of the energy and charge density for an initial cold/hot
ratio of χ =
p
EC/EH =
p
nC/nH = 9/16 for both the energy and charge density. In the plot
for the energy density (left) we clearly see a NESS region emerging briefly after t = 0 between
two wave fronts that propagate from z = 0 towards z = ±∞. In the plot on the right we show Figure 5: Time evolution of the energy density (left) and charge density (right) for
χ = 9/16 and nC/nH = χ2. A steady state region forms between the shock (moving
towards the cold bath) and the rarefaction wave (moving towards the hot bath). Two
regions with constant charge density can be identified within the steady state region. Figure 5: Time evolution of the energy density (left) and charge density (right) for
χ = 9/16 and nC/nH = χ2. A steady state region forms between the shock (moving
towards the cold bath) and the rarefaction wave (moving towards the hot bath). Two
regions with constant charge density can be identified within the steady state region. 16 SciPost Phys. 11, 047 (2021) the evolution of the charge density. Two regions with constant but different charge densities
emerge inside the NESS region, which indicates the formation of a contact discontinuity. It is interesting to compare the result of the holographic simulation to the solution of the
corresponding Riemann problem in ideal hydrodynamics. For this we show in Fig. 6 profiles of
the energy density and charge density of the holographic result at various times together with
the (unphysical) shock+shock and (physical) shock+rarefaction solutions presented in Sec. 2. In addition we include a numerical solution obtained from an ideal hydrodynamic simulation
with smooth initial conditions for the energy density E(z) = EC + EH
2
+ EH −EC
2
tanh
zmax
20 sin 2πz
zmax
. (67) (67) The factor 20 in the denominator of (67) is a convenient numerical choice for realizing the
initial conditions such that the evolution resembles the holographic result at t = 20. 5.1
Energy and charge density For comparison we show in the upper panel results of the analytical shock+shock
(black dotted, at t = 40 and 80) and shock+rarefaction (black dashed) solution as
well as a numerical solution of the ideal hydrodynamics equations with smooth initial
data (black solid, at t = 20,40 and 60). 17 SciPost Phys. 11, 047 (2021) Figure 7: Snapshots of the local fluid velocity (solid) and charge velocity (dashed)
at four different times for the same evolution as in Fig. 5. The bottom panel shows a
magnification of the upper panel, where the velocity profile of the charge diffusion
at the contact discontinuity of the two charge plateaus is clearly visible. Figure 7: Snapshots of the local fluid velocity (solid) and charge velocity (dashed)
at four different times for the same evolution as in Fig. 5. The bottom panel shows a
magnification of the upper panel, where the velocity profile of the charge diffusion
at the contact discontinuity of the two charge plateaus is clearly visible. The formation of shocks from smooth initial data is a well known phenomenon in non-viscous
hydrodynamics and faithful simulations require shock-capturing methods which we did not
attempt to implement. The wave that moves towards the hot side on the other hand re-
mains smooth and becomes wider with time. Coloured lines present snapshots of the holo-
graphic result, which at early times resemble the hydrodynamic solution, but at late times
become closer to the shock+rarefaction solution. The energy density in the NESS steady state
region agrees accurately with the result from the ideal hydrodynamic calculation, but dif-
fers slightly from the analytical shock+shock (dotted) solution. To be precise, using (27)
we find ES = 625/432 ≈1.44676, ES ≈1.4450 and ES ≈1.446 for the shock+shock,
shock+rarefaction and ideal hydrodynamics case respectively and ES ≈1.4435 in the holo-
graphic simulation. By varying the z-location of the probe point we estimate the numerical
accuracy of the holographic result to be 0.001, which means that within numerical accuracy
the holographic result agrees with the shock+rarefaction solution as presented in Section 2. The formation of shocks from smooth initial data is a well known phenomenon in non-viscous
hydrodynamics and faithful simulations require shock-capturing methods which we did not
attempt to implement. The wave that moves towards the hot side on the other hand re-
mains smooth and becomes wider with time. 5.1
Energy and charge density -15
-10
-5
0
5
10
15
0.0
0.5
1.0
1.5
2.0
2.5
m z
ρ/m3, m t ={0, 4, 8, 12, 16, 20, 24, 28, 32, 36, 40}
1.363
m t
1
5
10
2
4
6
8
m t
Δdiff
Figure 9: Left: Diffusion of the charge density in a heat bath with constant temper-
ature. Right: Evolution of the charge diffusion width ∆diff(t). The blue line is the
result extracted form the numerical simulation and the black line the analytical fit. Figure 8: Time evolution of the energy density (left) and charge density (right) as a
function of ξ = z/t. At the latest time we managed to obtain (mt = 80) the solution
closely resembles the shock+rarefaction solution found in Section 2. -15
-10
-5
0
5
10
15
0.0
0.5
1.0
1.5
2.0
2.5
m z
ρ/m3, m t ={0, 4, 8, 12, 16, 20, 24, 28, 32, 36, 40}
1.363
m t
1
5
10
2
4
6
8
m t
Δdiff
Figure 9: Left: Diffusion of the charge density in a heat bath with constant temper-
ature. Right: Evolution of the charge diffusion width ∆diff(t). The blue line is the
result extracted form the numerical simulation and the black line the analytical fit. -15
-10
-5
0
5
10
15
0.0
0.5
1.0
1.5
2.0
2.5
m z
ρ/m3, m t ={0, 4, 8, 12, 16, 20, 24, 28, 32, 36, 40}
1.363
m t
1
5
10
2
4
6
8
m t
Δdiff
Figure 9: Left: Diffusion of the charge density in a heat bath with constant temper-
ature. Right: Evolution of the charge diffusion width ∆diff(t). The blue line is the
result extracted form the numerical simulation and the black line the analytical fit. -15
-10
-5
0
5
10
15
0.0
0.5
1.0
1.5
2.0
2.5
m z
ρ/m3, m t ={0, 4, 8, 12, 16, 20, 24, 28, 32, 36, 40}
1.363
m t
1
5
10
2
4
6
8
m t
Δdiff Figure 9: Left: Diffusion of the charge density in a heat bath with constant temper-
ature. Right: Evolution of the charge diffusion width ∆diff(t). The blue line is the
result extracted form the numerical simulation and the black line the analytical fit. expected from a solution that is locally in equilibrium the two velocities are virtually indis-
tinguishable. 5.1
Energy and charge density Coloured lines present snapshots of the holo-
graphic result, which at early times resemble the hydrodynamic solution, but at late times
become closer to the shock+rarefaction solution. The energy density in the NESS steady state
region agrees accurately with the result from the ideal hydrodynamic calculation, but dif-
fers slightly from the analytical shock+shock (dotted) solution. To be precise, using (27)
we find ES = 625/432 ≈1.44676, ES ≈1.4450 and ES ≈1.446 for the shock+shock,
shock+rarefaction and ideal hydrodynamics case respectively and ES ≈1.4435 in the holo-
graphic simulation. By varying the z-location of the probe point we estimate the numerical
accuracy of the holographic result to be 0.001, which means that within numerical accuracy
the holographic result agrees with the shock+rarefaction solution as presented in Section 2. In the bottom panel of Fig. 6, we plot profiles of the charge density in the holographic result
(solid coloured lines) at various times together with two dashed lines for times t = 40 and
80, which have ¯ρ1 = 19/16 = 1.1875 and ¯ρ2 = 43/27 ≈1.5926 obtained from the analytical
double shock solution (11) as well as two dotted lines at ¯ρ1 ≈1.1866 and ¯ρ2 ≈1.5866 of
the shock+rarefaction solution (31). We evaluate the full holographic values of ¯ρ1,2 at the
point where the z-derivative of ¯ρ is minimised, which at t = 80 happens at z = −41.29
and z = 10.26, where ¯ρ1 ≈1.1845 and ¯ρ1 ≈1.5823 respectively. In contrast to the analytical
solution the contact discontinuity (see Sec. 2 and also [20]) manifests in the holographic model
as a smooth crossover region that progressively broadens with time. Fig. 7 shows the local fluid velocity, as determined by diagonalising the full stress-energy
tensor (solid), as well as the velocity of the charge as defined by vcharge = Jz/Jt (dashed). As 18 SciPost Phys. 11, 047 (2021) SciPost Phys. 11, 047 (2021)
Figure 8: Time evolution of the energy density (left) and charge density (right) as a
function of ξ = z/t. At the latest time we managed to obtain (mt = 80) the solution
closely resembles the shock+rarefaction solution found in Section 2. Figure 8: Time evolution of the energy density (left) and charge density (right) as a
function of ξ = z/t. At the latest time we managed to obtain (mt = 80) the solution
closely resembles the shock+rarefaction solution found in Section 2. 5.1
Energy and charge density In particular this implies that in the rest frame of the steady state the charge is
almost at rest throughout the contact discontinuity. Nevertheless, due to diffusion the charge
does smooth out, and a small velocity profile is visible (Fig. 7 bottom, see also below. The time evolution of the charge and energy density and in particular the rarefaction wave
can be better understood by showing the profiles as a function of the scaled coordinate ξ = z/t,
as shown in Fig. 8. Since the width of the shock is approximately constant in time, in the
scaled coordinates the shock indeed resembles more closely a true shock (i.e. a discontinuity),
both for the energy and charge density. Also the rarefaction wave resembles the analytical
rarefaction wave from Section 2 more closely at later times, but with the limited time span
available it is not clear if it would converge to the analytical result in the late time limit. The
charge density again clearly shows the two plateaus at late times, and also here it is clear that
the diffusion at the contact discontinuity becomes a true discontinuity in the late time limit in
these scaled coordinates. This contact discontinuity can be studied more precisely by studying a related but separate
problem where we set up of two baths of charge at different chemical potential in a space at
constant temperature. We simulated this situation by using the initial condition of Fig. 5, with
the sole difference that we made both temperatures equal to the temperature of the cold bath. The results are shown in Fig. 9. Indeed, we find that the diffusion of charge is qualitatively
different as compared to the shock and rarefaction waves. To quantify the difference we define
the (time dependent) charge diffusion width ∆diff(t) as the spatial distance between the two
points where the charge density is at 25% and 75% in between the two baths with lower and
higher charge, respectively. On the right hand side of Fig. 9 we plot the time evolution of ∆diff
which clearly follows the expected pt scaling of a diffusion process. In rescaled coordinates
this indeed implies the contact discontinuity becomes a true discontinuity on a timescale of 19 SciPost Phys. 11, 047 (2021)
Shock+rarefaction
-30
-20
-10
0
10
20
30
0.0
0.5
1.0
1.5
2.0
2.5
m z
ρ/m3, m t =40.0 SciPost Phys. 5.1
Energy and charge density 11, 047 (2021) Shock+rarefaction
-30
-20
-10
0
10
20
30
0.0
0.5
1.0
1.5
2.0
2.5
m z
ρ/m3, m t =40.0
Figure 10: We show a snapshot of the charge density at t = 40 for a temperature
ratio of χ = 16/9 and three different ratios of the charge density, with nH/nC being
256/81, 64/27 and 1 for the blue, red and green curves respectively. In general there
are two regions of constant charged, determined solely by χ and nH/nC. These two
regions almost coincide for the 64/27 ratio, but are different for the blue and green
evolutions. For comparison we again show the analytical shock+rarefaction solutions
of Section 2 (dashed). Figure 10: We show a snapshot of the charge density at t = 40 for a temperature
ratio of χ = 16/9 and three different ratios of the charge density, with nH/nC being
256/81, 64/27 and 1 for the blue, red and green curves respectively. In general there
are two regions of constant charged, determined solely by χ and nH/nC. These two
regions almost coincide for the 64/27 ratio, but are different for the blue and green
evolutions. For comparison we again show the analytical shock+rarefaction solutions
of Section 2 (dashed). pt. As explained in Sec. 2 the profile of the charge density depends on both the ratio of the χ
as well as nC/nH. In Fig. 10 we show charge densities at t = 40 for nC/nH equal to 256/81
(blue, same as Fig. 5), 64/27 (red) and 1 (green). The ratio 64/27 equals χ−3/2, which
implies that the third root of the charge density has the same ratio as the fourth root of the
energy density, as suggested by dimensional analysis. Indeed this ratio approximately leads to
a charge profile with only one constant charge region, as opposed to the other two solutions,
where two separate charged regions are present. Even if the charge densities in the hot and
cold bath are equal (nC = nH) there is still a non-trivial charge flow and density, as driven by
the steady state of the energy density. One crucial feature of the NESS is that in particular the shock is a far-from-equilibrium
effect that cannot be described by hydrodynamics. To quantify this we show in Fig. 11 (left)
the transverse pressure over the energy density in the local restframe (again determined by
diagonalising the stress-energy tensor). In ideal hydrodynamics of a conformal theory this
ratio PT/Eloc = 1/3, however in particular near the shock region significant deviations are
visible (see also solid lines in Fig. 11 (right)). For this we use the hydrodynamic constituent
equations Tµν
=
ϵ uµuν + p[ϵ]∆µν −η[ϵ]σµν −ζ[ϵ]∆µν∇µuµ + O(∂2), where
(68)
σµν
=
∆µα∆νβ(∇αuβ + ∇βuα) −2
3∆µν∆αβ∇αuβ ,
(69)
∆µν
=
gµν + uµuν ,
(70) (68) (69) (70) together with our determined local energy density ε, pressure p[ε] = ε/3, fluid velocity uµ
as well as the ratio η/s = 1/4π and ζ = 0, we also compare the transverse pressure with the
transverse pressure as determined from these first order viscous hydrodynamics, as shown as
dashed lines in Fig. 11 (right). Indeed the evolution of the rarefaction wave can be entirely de-
scribed using viscous hydrodynamics, however for the shock there are significant differences. Numerically it is more challenging to evolve profiles with χ < 9/16. However, we were
able to evolve some shorter runs stably, albeit on smaller grids and with a shorter evolution
time. Results for the energy density and the hydrodynamic comparison at t = 12 are shown in 20 SciPost Phys. 5.2
Shock evolution and entropy production One of the main motivations in studying the NESS in holography is a complete description
of its dynamics beyond the hydrodynamic limit, which is particularly relevant for the evolu-
tion of the shocks. References [15, 20] showed that at intermediate times the shock widens
diffusively as governed by viscous hydrodynamics, with characteristic width wshock ∝pt. At
some time, however, the entropy production within hydrodynamics is not large enough to be
consistent with the total entropy production and the shock cannot continue to diffuse. The
typical timescale for this transition was estimated to be equal to tdiff ∝
η
sTδ2 ,
(71) (71) where δ = TH/TC −1 is assumed to be small. After this time it is unknown if the shock settles
down to a soliton-like object of constant width, or if it continues to widen at a smaller rate. In
Fig. 13 (left) we show snapshots of the time derivative of the energy density for the evolution
of the shocks in Fig. 5 (which has δ = 1/3). In the right plot we show the full-width at half-
maximum of the shocks shown in the left plot as a function of time. Indeed, at early times the
width grows diffusively (red dashed, with a small off-set that is subleading, but can also be
partly explained by the initial profile). Around t ≈20 the width starts growing more slowly,
in qualitative agreement with the estimate provided in (71) (note that T = m/π). All our
numerical data points indicate that this width keeps growing logarithmically in time, but we
note that it is nevertheless also possible to fit a function of the form C + ae−bt, which would
settle down to the soliton-like object as conjectured in [20]. As discussed in section 2, solutions to the Riemann problem in ideal hydrodynamics are not
unique and physically sensible solutions need to be selected by imposing additional constraints,
such as the entropy condition (13). Solutions to the holographic Riemann problem are unique
and conditions such as (13) are encoded in the equations of motion of the dual gravity problem
[58]. In Fig. pt. 11, 047 (2021) Fig. 12 for values of χ of 9/16 (blue, as in Fig. 5), 4/9 (red) and 16/49 (green). Interestingly,
also for these larger ratios the rarefaction wave is always well described by hydrodynamics,
though with larger viscous corrections as is apparent from the comparison with ideal hydro-
dynamics. For the shock region deviations from viscous hydrodynamics become larger as one
increases the ratio between the hot and cold baths. Fig. 12 for values of χ of 9/16 (blue, as in Fig. 5), 4/9 (red) and 16/49 (green). Interestingly,
also for these larger ratios the rarefaction wave is always well described by hydrodynamics,
though with larger viscous corrections as is apparent from the comparison with ideal hydro-
dynamics. For the shock region deviations from viscous hydrodynamics become larger as one
increases the ratio between the hot and cold baths. pt. 11, 047 (2021) Figure 11: (left) For the evolution of Fig. 6 we show the ratio of the transverse pres-
sure over the energy density in the local restframe together with the shock velocities
(black, dashed) computed from Eqn. (11). Most of the evolution is close to ther-
mal equilibrium (PT = Eloc/3, in green in the colour coding), but around the shocks
there are significant deviations. (right) For several times we present the deviations
with respect to ideal hydro (solid) and first order viscous hydrodynamics (dashed),
normalised to the transverse pressure itself. The entire evolution can be described
by viscous hydrodynamics with better than 1% accuracy. Figure 11: (left) For the evolution of Fig. 6 we show the ratio of the transverse pres-
sure over the energy density in the local restframe together with the shock velocities
(black, dashed) computed from Eqn. (11). Most of the evolution is close to ther-
mal equilibrium (PT = Eloc/3, in green in the colour coding), but around the shocks
there are significant deviations. (right) For several times we present the deviations
with respect to ideal hydro (solid) and first order viscous hydrodynamics (dashed),
normalised to the transverse pressure itself. The entire evolution can be described
by viscous hydrodynamics with better than 1% accuracy. Shock+rarefaction
-10
-5
0
5
10
0
2
4
6
8
m z
ℰ/m4, m t =12.0
-10
-5
0
5
10
-0.10
-0.05
0.00
0.05
m z
T-T,hyd
T
(solid ideal, dashed viscous), m t =12.0
Figure 12: (top) Energy density for different heat bath temperature ratios together
with the shock+rarefaction from Section 2 (dashed). (bottom) Comparison with
ideal (solid) and viscous (dashed) hydrodynamics. For larger ratios ideal hydrody-
namics becomes a worse description for the rarefaction wave, though viscous hy-
drodynamics is applicable. The shock region has increasingly large deviations from
viscous hydrodynamics as the ratio is increased. T-T,hyd
T
(solid ideal, dashed viscous), m t =12.0 -10
-5
0
5
10
-0.10
-0.05
0.00
0.05
m z Figure 12: (top) Energy density for different heat bath temperature ratios together
with the shock+rarefaction from Section 2 (dashed). (bottom) Comparison with
ideal (solid) and viscous (dashed) hydrodynamics. For larger ratios ideal hydrody-
namics becomes a worse description for the rarefaction wave, though viscous hy-
drodynamics is applicable. The shock region has increasingly large deviations from
viscous hydrodynamics as the ratio is increased. 21 SciPost Phys. 5.2
Shock evolution and entropy production 14 we show snapshots of the divergence of the entropy current as a function of
time, where sµ = 4Eloc
3T uµ, with uµ the local fluid velocity and Eloc the energy density in the -60
-40
-20
0
20
40
60
-0.10
-0.05
0.00
0.05
0.10
0.15
m z
∂tℰ/m5, m t ={10, 20, 30, 40, 50, 60, 70, 80}
1.102 log(m t) + 0.609
0.782
m t + 5.5
5.82 - 3.18 ⅇ-0.0256 m t
5
10
50
100
0
1
2
3
4
5
6
m t
m wshock, FWHM
Figure 13: We show the change in shape of the outgoing waves from the time deriva-
tive of the energy density. Colours from yellow to red correspond to snapshots of the
energy density profile from early to late times. Both, the left moving and the right
moving waves disperse. On the right we show the time evolution of the full-width
at half-maximum together with different numerical fits, corresponding to diffusive
growth (red dashed), logarithmic growth (blue solid), or a possible exponential de-
cay to a shock of constant width at late times (green dotted). -60
-40
-20
0
20
40
60
-0.10
-0.05
0.00
0.05
0.10
0.15
m z
∂tℰ/m5, m t ={10, 20, 30, 40, 50, 60, 70, 80} 1.102 log(m t) + 0.609
0.782
m t + 5.5
5.82 - 3.18 ⅇ-0.0256 m t
5
10
50
100
0
1
2
3
4
5
6
m t
m wshock, FWHM m t Figure 13: We show the change in shape of the outgoing waves from the time deriva-
tive of the energy density. Colours from yellow to red correspond to snapshots of the
energy density profile from early to late times. Both, the left moving and the right
moving waves disperse. On the right we show the time evolution of the full-width
at half-maximum together with different numerical fits, corresponding to diffusive
growth (red dashed), logarithmic growth (blue solid), or a possible exponential de-
cay to a shock of constant width at late times (green dotted). 22 SciPost Phys. 5.2
Shock evolution and entropy production The entropy
production is to a good approximation given by the sum of the entropy production
of the shock and rarefaction waves as derived in Fig. 14, and also the late time value
(4.07, from the red dashed fit on the right) matches well with the hydrodynamic
result shown in Fig. 14 (3.77). local restframe. The entropy production is negligible in the NESS region, but a significant
amount of entropy is produced by the outgoing waves. As expected from [29] the divergence
of the local entropy current is however everywhere positive. Fig. 14 (right) shows the integral
of the divergence of the entropy current over the waves that travel towards the cold (blue
dots) and the hot side (red dots). The entropy produced by the wave moving towards the cold
bath slowly decays to a constant value, similar to a shock wave, and can be compared to the
analytical solution (14), which for χ = 9/16 gives Z
z<0
dz ∂µsµ =
π
p
3m3
χ−1/4 −
v
tχ(3 + χ)
1 + 3χ
≈0.00610. (72) (72) At the end of the simulation we find an entropy production of about 0.007, which is still higher
than the value obtained from the shock+shock solution of the Riemann problem cited above,
but the extrapolation shown in Fig. 14 predicts for t →∞a significantly smaller final value
of about 0.0037. On the other hand, the entropy production of the wave moving towards
the hot side (red dots in Fig. 14 (right)) decays to zero with a power law indicating that this
wave indeed becomes at late time a rarefaction wave which has zero entropy production per
definition. At the end of the simulation we find an entropy production of about 0.007, which is still higher
than the value obtained from the shock+shock solution of the Riemann problem cited above,
but the extrapolation shown in Fig. 14 predicts for t →∞a significantly smaller final value
of about 0.0037. On the other hand, the entropy production of the wave moving towards
the hot side (red dots in Fig. 14 (right)) decays to zero with a power law indicating that this
wave indeed becomes at late time a rarefaction wave which has zero entropy production per
definition. Lastly, we can compare the total entropy production directly with the holographic dual by
evaluating the area density of the apparent horizon A as shown in Fig. 5.2
Shock evolution and entropy production 11, 047 (2021) -60
-40
-20
0
20
40
60
0
1
2
3
4
5
6
m z
103∂μsμ/m4, m t = {10, 20, 30, 40, 50, 60, 70, 80}
shock
rarefaction
3.77+ 28.8
m t
80.5
t0.700
10
20
50
5.0
7.5
10.0
12.5
15.0
17.5
m t
103 m3
z≶0
dz ∂μsμ
Figure 14: We show the divergence of the entropy current for several times (left)
as well as the integral over the left (shock, blue) and right (rarefaction, red) re-
gions (right). The entropy production in the shock settles down to a constant value,
whereas for the rarefaction wave the entropy production decays to zero in a power-
law fashion. -60
-40
-20
0
20
40
60
0
1
2
3
4
5
6
m z
103∂μsμ/m4, m t = {10, 20, 30, 40, 50, 60, 70, 80}
103 m3
dz ∂μsμ shock
rarefaction
3.77+ 28.8
m t
80.5
t0.700
10
20
50
5.0
7.5
10.0
12.5
15.0
17.5
m t
103 m3
z≶0
dz ∂μsμ Figure 14: We show the divergence of the entropy current for several times (left)
as well as the integral over the left (shock, blue) and right (rarefaction, red) re-
gions (right). The entropy production in the shock settles down to a constant value,
whereas for the rarefaction wave the entropy production decays to zero in a power-
law fashion. Apparent horizon
4.07 +
96.3
(mt)0.610
5
10
50
100
10
20
50
m t
103 m3 ∫dz ∂tsAH
Figure 15: We show the entropy density as determined from the area of the apparent
horizon (left) as well as time derivative of the spatial integral (right). The entropy
production is to a good approximation given by the sum of the entropy production
of the shock and rarefaction waves as derived in Fig. 14, and also the late time value
(4.07, from the red dashed fit on the right) matches well with the hydrodynamic
result shown in Fig. 14 (3.77). Apparent horizon
4.07 +
96.3
(mt)0.610
5
10
50
100
10
20
50
m t
103 m3 ∫dz ∂tsAH Figure 15: We show the entropy density as determined from the area of the apparent
horizon (left) as well as time derivative of the spatial integral (right). 5.3
Extremal surfaces and entanglement entropy Let us now discuss our numerical results for the entanglement entropy in the NESS system. It is
useful to first analyse some features of extremal surfaces from which we compute the entangle-
ment entropy. Fig. 16 shows a typical family of such surfaces together with the radial position
of the apparent horizon in a gauge where α = 0. In the top (bottom) row, we display the results
for entangling regions of width ℓ= 2 (ℓ= 1.5) centered at z = −4 (z = +4) corresponding
to the blue (red) region in Fig. 4. Surfaces with small ℓ(not shown here) reside mostly in
the asymptotic AdS part of the geometry which explains the universal (state-independent) UV
scaling of entanglement entropy. Surfaces with large ℓreach deep into the bulk and are there-
fore sensitive to the geometry close to the horizon and lead to state-dependent contributions
in the IR scaling of the entanglement entropy (see similar discussion in [59]). In static and boosted AdS black brane geometries, extremal surfaces that are connected to
the boundary cannot enter the region beyond the horizon [60]. However, in time-dependent
geometries such as the one considered here, the situation is different and there are exam-
ples known, where extremal surfaces cross the apparent horizon and therefore also the event
horizon in regions where the spacetime changes rapidly in time [61]. The holographic NESS 0
10
20
30
40
0.2
0.4
0.6
0.8
1.0
1.2
m t
u
m ℓ=2
0
2
4
6
8
10
12
14
0.75
0.80
0.85
0.90
0.95
1.00
m t
u
m ℓ=2
m t =2
m t =40
-5.0
-4.5
-4.0
-3.5
-3.0
0.2
0.4
0.6
0.8
1.0
1.2
m z
u
m ℓ=2
0
10
20
30
40
0.2
0.4
0.6
0.8
1.0
1.2
m t
u
m ℓ=1.5
0
5
10
15
20
0.70
0.75
0.80
0.85
m t
u
m ℓ=1.5
m t =2
m t =40
3.2
3.4
3.6
3.8
4.0
4.2
4.4
4.6
0.2
0.4
0.6
0.8
1.0
1.2
m z
u
m ℓ=1.5
Figure 16: Cross-sections of extremal surfaces for entangling regions of size ℓ= 2
centered at z = −4 (top, cold region) and of size ℓ= 1.5 centered at z = 4 (bottom,
hot region) in the geometry with χ =
p
EC/EH = 9/16. 5.2
Shock evolution and entropy production 15 (left), whereby we
use that SAH = A/4GN, and in analogy with (47) we show sAH ≡S/4πGN. In Fig. 15 (right) 23 SciPost Phys. 11, 047 (2021) we show the spatial integral of the time derivative of the apparent horizon density and it can
be seen that the time evolution matches well with the sum of the entropy production of the
shock and rarefaction waves from the hydrodynamic results shown in Fig. 14. 5.3
Extremal surfaces and entanglement entropy While
we have not attempted to construct examples for such geodesics, we expect the situation to
be similar in the holographic dual of the NESS system. system in our work is similar to a system of colliding shock waves [56], where geodesics dual to
two-point functions could cross the horizon, but no such extremal surfaces were found. While
we have not attempted to construct examples for such geodesics, we expect the situation to
be similar in the holographic dual of the NESS system. A further effect is the warping of surfaces close to the apparent horizon in the boosted part
of the geometry, i.e. in the part that corresponds to the NESS in the boundary theory. This
effect is clearly visible in our example with ℓ= 2 (less pronounced for ℓ= 1.5) in the plots
in the middle of Fig. 16, in which we zoom into the region close to the horizon where the
geometry transitions from the static to the boosted black brane geometry. In addition, we show in the right panel of Fig. 16 cross-sections of surfaces in the u-z plane
at early (t = 2) and late time (t = 40), i.e., surfaces that reside entirely in the static and in the
boosted black brane geometry, respectively. At early times, when the surfaces reside entirely in
the static part of the geometry, the embedding function is symmetric with respect to the center
of the entangling region (located at z = ±4). At late times this symmetry is clearly broken by
velocity of the steady state. In Fig. 17 we show the renormalised entanglement entropy as a function of time at these
locations for several different lengths of the interval, ranging from ℓ= 0.6 till ℓ= 2.0, together
with the energy density as also shown in Fig. 6. The renormalised entropy is computed as a
difference to its vacuum value, for which we use a cut-off in the holographic coordinate at
ucut = 0.075, in a gauge where α = 0 (see also Sec. 3 and [56]). Since the entanglement
entropy of the infinite strip region has both UV and IR divergences, we choose to show a linear
transformation such that its renormalised version Sren agrees with the energy density in both
the black brane and the steady state regime: aSren + b = E, which in particular means the
curves are insensitive to our choice of regularisation. 5.3
Extremal surfaces and entanglement entropy The plots on the left show
surfaces at various different boundary times and their position relative to the appar-
ent horizon whose radial position is shown in black and regions beyond the horizon
are shown in gray. In the middle, we zoom into the transition region close to the hori-
zon between static and boosted black brane. On the right, we show cross-sections of
surfaces in the u-z plane at early (t = 2) and late time (t = 40). 0
10
20
30
40
0.2
0.4
0.6
0.8
1.0
1.2
m t
u
m ℓ=2
u
m ℓ=1.5 m t =2
m t =40
-5.0
-4.5
-4.0
-3.5
-3.0
0.2
0.4
0.6
0.8
1.0
1.2
m z
u
m ℓ=2
m ℓ=1.5 0
2
4
6
8
10
12
14
0.75
0.80
0.85
0.90
0.95
1.00
m t
m ℓ=2 0
10
20
30
40
0.2
0.4
0.6
0.8
1.0
1.2
m t
u
m ℓ=1.5
0
5
10
15
20
0.70
0.75
0.80
0.85
m t
u
m ℓ=1.5
u 0
10
20
30
40
0.2
0.4
0.6
0.8
1.0
1.2
m t
u
m ℓ1.5 0
5
10
15
20
0.70
0.75
0.80
0.85
m t
u
m ℓ=1.5
u m t =2
m t =40
3.2
3.4
3.6
3.8
4.0
4.2
4.4
4.6
0.2
0.4
0.6
0.8
1.0
1.2
m z
u Figure 16: Cross-sections of extremal surfaces for entangling regions of size ℓ= 2
centered at z = −4 (top, cold region) and of size ℓ= 1.5 centered at z = 4 (bottom,
hot region) in the geometry with χ =
p
EC/EH = 9/16. The plots on the left show
surfaces at various different boundary times and their position relative to the appar-
ent horizon whose radial position is shown in black and regions beyond the horizon
are shown in gray. In the middle, we zoom into the transition region close to the hori-
zon between static and boosted black brane. On the right, we show cross-sections of
surfaces in the u-z plane at early (t = 2) and late time (t = 40). 24 SciPost Phys. 11, 047 (2021) system in our work is similar to a system of colliding shock waves [56], where geodesics dual to
two-point functions could cross the horizon, but no such extremal surfaces were found. 5.3
Extremal surfaces and entanglement entropy 11, 047 (2021) Figure 17: We show the energy density at z = −4 (shock regime, left) and z = 4
(rarefaction regime, right) together with the time evolution of the holographic en-
tanglement entropy SEE for different lengths. Since the SEE is sensitive to UV regu-
larisation and length dependence we apply a linear transformation such that at early
time (hot/cold) and late time (steady state) the entanglement entropy agrees with
the energy density. After this rescaling the curves agree almost exactly, although
shorter lengths that are more sensitive to regions closer to the boundary have a small
delay (see insets). Figure 17: We show the energy density at z = −4 (shock regime, left) and z = 4
(rarefaction regime, right) together with the time evolution of the holographic en-
tanglement entropy SEE for different lengths. Since the SEE is sensitive to UV regu-
larisation and length dependence we apply a linear transformation such that at early
time (hot/cold) and late time (steady state) the entanglement entropy agrees with
the energy density. After this rescaling the curves agree almost exactly, although
shorter lengths that are more sensitive to regions closer to the boundary have a small
delay (see insets). Figure 18: Similarly to Figure 17, for ℓ= 1 we now show the energy density (solid)
as well as the rescaled HEE (dashed, the rescaling parameters are the same as in
Figure 17 for ℓ= 1) for different positions of the entangling region, varying from −4
till −14 (left, shock region) and from 4 till 14 (right, rarefaction region). Note that
the rescaling is the same for all curves, which reaffirms that the evolution of the HEE
is almost entirely determined by the evolution of the energy density. Figure 18: Similarly to Figure 17, for ℓ= 1 we now show the energy density (solid)
as well as the rescaled HEE (dashed, the rescaling parameters are the same as in
Figure 17 for ℓ= 1) for different positions of the entangling region, varying from −4
till −14 (left, shock region) and from 4 till 14 (right, rarefaction region). Note that
the rescaling is the same for all curves, which reaffirms that the evolution of the HEE
is almost entirely determined by the evolution of the energy density. nd it was shown that for any theory vE ≤vB [63]. and it was shown that for any theory vE ≤vB [63]. 5.3
Extremal surfaces and entanglement entropy The plots in Fig. 17 hence compare
the shape of the entanglement entropy with the shape of the energy density both during the
passing of the shock and rarefaction waves. From the insets it is clear that the entanglement
entropy is slightly delayed as compared to the energy density, in particular for shorter intervals. This delay is expected, as the surfaces probe into the past geometry (Fig. 16), even though for
larger intervals we note that the entangling geometry starts to feel the wave earlier, since the
region is bounded by z ± ℓ/2. Fig. 18 shows the renormalised entanglement entropy as a function of time for intervals
of ℓ= 1 located at eleven different locations ranging from z = −4 till z = −14 (left figure,
shock region) and from z = 4 till z = 14 (right figure, rarefaction region). Here the same
linear transformation is used as in Fig. 17 for ℓ= 1. As time progresses the shock (left) or
rarefaction (right) wave passes through the interval, after which the interval settles down to
the steady state regime. The values of the entanglement entropy in the cold, steady state and
hot bath regions are given by 0.466, 0.835 and 1.351 respectively, as can also be analytically
computed [62]. We again find a small delay of the entanglement entropy evolution, which is
more pronounced for the rarefaction case. The time evolution of the entanglement entropy received some recent attention as a probe
of equilibration towards a thermal state. After perturbing or quenching a quantum state, the
entanglement entropy will saturate to its final value in a time tS that is at least tS ≥R/vB
[63], with R the radius of the largest sphere that can be inscribed in the entangling region
and vB the butterfly velocity that characterises chaotic growth of quantum operators (for our
case of a neutral holographic plasma vB =
p
d/2(d −1) in d spacetime dimensions). The
start of this equilibration process, also called entanglement tsunami [64], is characterised
by the entanglement velocity, whereby SEE(t) = seqAvEt, with seq the equilibrium entropy
density, A the area of the boundary of the entangling region and where this equation defines
the entanglement velocity vE. For neutral holographic plasmas it was found that [64] vE =
p
d(d −2)1/2−1/d/(2[d −1])1−1/d vE =
p
d(d −2)1/2−1/d/(2[d −1])1−1/d
(73) (73) 25 SciPost Phys. 5.3
Extremal surfaces and entanglement entropy For the case of the steady state formation, a simple approximation of vE is possible when
the entanglement equilibration is much faster than the timescale of the perturbation of the
state [16]. For the shock/rarefaction regions considered here, this would be the case when
the respective shock and rarefaction velocities are much slower than vE. In that case the time
evolution of the HEE can be approximated by the time evolution of the equilibrium entropy
density, which in the local restframe is just proportional to T d. In this approximation the
analogy of the entanglement velocity is given by [16] vav,C/H = vC/H
1 −
T d
C/H
cosh(θ)T d
! ,
(74) (74) where θ = arctanh(vS) is the boost factor associated to the steady state region. As discussed
for the case of two shock waves in [16], when χ →0 this velocity violates the bound on tS
mentioned above for d > 2 spacetime dimensions. For χ →0 a full holographic calculation is 26 SciPost Phys. 11, 047 (2021) therefore necessary, extending the results for intermediate values of χ shown here in Figs. 17
and 18. Our small time delay of the HEE compared to the energy density can indeed be
interpreted as the need to study the full HEE instead of the equilibrium entropy density. Un-
fortunately in our setting it is numerically difficult to probe small enough χ and large enough
entangling regions to truly investigate the butterfly bound tS ≥R/vB. We leave this to a future
investigation. A promising approach for this is to use membrane theory [63,65]. therefore necessary, extending the results for intermediate values of χ shown here in Figs. 17
and 18. Our small time delay of the HEE compared to the energy density can indeed be
interpreted as the need to study the full HEE instead of the equilibrium entropy density. Un-
fortunately in our setting it is numerically difficult to probe small enough χ and large enough
entangling regions to truly investigate the butterfly bound tS ≥R/vB. We leave this to a future
investigation. A promising approach for this is to use membrane theory [63,65]. We end this section with an attempt to characterise the differences between shock and
rarefaction waves in the NESS system with a new quantity that is inspired by the entanglement
temperature. 5.3
Extremal surfaces and entanglement entropy In the limit where the entangling region is small compared to the length scale
as given by the energy density (meaning ℓd ≪E) changes in entanglement entropy and the
energy density satisfy a universal relation that is analogous to the first law of thermodynamics
(dE = TdS) and is therefore called first law of entanglement entropy [66] ∆ER = Tent∆SR ,
(75) (75) where Tent is the entanglement temperature, ∆SR is the variation of the entanglement entropy
associated to the region R and ∆ER is variation of the integral of the energy density over R. In
this small size limit the entanglement temperature depends only on the theory and the shape
of the chosen subregion, with where Tent is the entanglement temperature, ∆SR is the variation of the entanglement entropy
associated to the region R and ∆ER is variation of the integral of the energy density over R. In
this small size limit the entanglement temperature depends only on the theory and the shape
of the chosen subregion, with (76) Tent = c/ℓ. (76) For stripe shaped subregions (51) and thermal states the constant c can be expressed in closed
form [66]
2 c =
2(d2 −1)Γ
1
2 +
1
d−1
Γ
d
2(d−1)
2
pπΓ
1
2(d−1)
2
Γ
1
d−1
,
(77) (77) while in the limit ℓ→∞the entanglement temperature becomes equal to the thermodynamic
temperature Tent = T. Inspired by (75) we define the dynamic entanglement temperature as the ratio of the total
energy and the renormalised entanglement entropy inside the entangling region T dyn
ent =
R
R dz〈T tt(t,z)〉
Sren(t)
. (78) (78) The quantity (78) is well-defined for dynamic states and reduces for static states in the small
ℓlimit to the entanglement temperature defined by (75). We compute T dyn
ent in the NESS with
χ =
p
EC/EH = 9/16 for entangling regions that are passed by shock and rarefaction waves. It
turns out T dyn
ent behaves qualitatively different when either a shock or a rarefaction wave passes
the region. The results for three different sizes (ℓ= 0.6,1,1.5) of the entangling region are
shown in Fig. 19. For these lengths (76) implies Tent = 0.703, 0.422, 0.281 respectively, and
note that we have TC = 1/π ≈0.318, TS ≈0.367 and TH = 4/3π ≈0.424. 6
Discussion To the best of our knowledge, our work is the first successful simulation of the dynamic forma-
tion of NESSs in a holographic field theory in four spacetime dimensions. We considered the
evolution of energy and charge densities in particular, as well as the evolution of entanglement
entropy. Let us recall our main results. Most importantly, our holographic results are consistent with
a solution involving a shock wave travelling towards the cold bath and a rarefaction wave trav-
elling towards the hot bath, with a steady state region forming in between. The wave moving
towards the cold side approaches a steep, but smooth wave with time independent profile and
finite entropy production at late times. The wave moving towards the hot side is progressively
broadening and approaches a rarefaction wave with zero entropy production at late times. At
sufficiently late time the properties of the NESS region (energy density, charge density, etc) are
numerically very close to those of an analytical shock+rarefaction wave solution (less close to
a shock+shock solution) of the Riemann problem. For the dynamics of a conserved U(1) charge density, we find that there emerge two sep-
arate plateaus with different charge density inside the NESS region, as expected from the
analogous Riemann problem. In contrast to the Riemann problem however, for which these
plateaus are separated by a discontinuity, in our holographic simulation this transition region
is realised as smooth crossover that broadens in time. We also investigated the evolution of entanglement entropy of spatial sub-regions regions
crossed by our holographic shock and rarefaction waves using the Hubeny-Rangamani-Takaya-
nagi prescription [18] to determine the HEE in our time dependent setting. Subject to appro-
priate normalisation by which the energy density and HEE are chosen to agree in the NESS
and thermal regions, the evolution of the entanglement entropy follows closely the evolution
of the energy density, except for a small time delay that is more pronounced for the rarefac-
tion wave than for the shock wave. Inspired by the first law of entanglement, we define the
dynamical entanglement temperature as the ratio of the entanglement entropy and the spatial
integral over the energy density inside the entangling region. There are many interesting future directions. A logical extension of the current work is
to turn on the back-reaction of the gauge field to the metric [48]. 5.3
Extremal surfaces and entanglement entropy From the figure
it is clear that for ℓ= 0.6 the dynamic entanglement temperature is closer to the small region
limit (Eqn. (76)), whereas for ℓ= 1.5 the result is closer to the large region limit (the physical
temperature), and we see that the dynamic entanglement temperature is always higher than
either of them. One curious feature happens when a rarefaction wave passes a smaller region,
in which case T dyn
ent can be non-monotonic. One reason is that T dyn
ent for ℓ= 0.6 is larger at late
times for the rarefaction wave, even though the physical temperature has decreased from the
hot temperature towards the lower steady state temperature. 27 SciPost Phys. 11, 047 (2021) shock
rarefaction
10
20
30
40
0.73
0.74
0.75
0.76
0.77
mt
Tent
dyn
m ℓ=0.6
shock
rarefaction
10
20
30
40
0.49
0.50
0.51
0.52
0.53
0.54
0.55
mt
Tent
dyn
m ℓ=1
shock
rarefaction
10
20
30
40
0.40
0.42
0.44
0.46
mt
Tent
dyn
m ℓ=1.5
Figure 19:
Dynamical entanglement temperature for ℓ= 0.6 (left), ℓ= 1
(middle) and ℓ= 1.5 (right) as function of time, all for the the NESS with
χ =
p
EC/EH = 9/16. shock
rarefaction
10
20
30
40
0.40
0.42
0.44
0.46
mt
Tent
m ℓ=1.5 Figure 19:
Dynamical entanglement temperature for ℓ= 0.6 (left), ℓ= 1
(middle) and ℓ= 1.5 (right) as function of time, all for the the NESS with
χ =
p
EC/EH = 9/16. 6
Discussion Physically this implies
that the pressure is not a function of the energy density only in the hydrodynamic regime,
but also depends on the charge density. It would be interesting to see how features such as
the contact discontinuity in the charge density change when the back reaction is taken into
account. Including the back-reaction will also allow to study the relation of the null energy
condition in the gravity dual to the dynamics of the stress tensor in the boundary theory along
the lines of [67]. One could introducing a scalar field [68] with non-trivial potential to study the effect 28 SciPost Phys. 11, 047 (2021) conformal symmetry breaking on the properties of the NESS. Another possibility is to investi-
gate the effect of finite coupling corrections with simulations in Gauss–Bonnet gravity [69,70]. It would also be interesting to include transverse flow, in the presence of which not only the
charge density, but also the energy density can develop a contact discontinuity [71]. Further-
more, it would be interesting to compare our results against solutions recently obtained from
the equations of relativistic hydrodynamics of non-perfect fluids [72]. It would be very interesting to study the time evolution of HEE in membrane theory, us-
ing [63,65] as a starting point to study the long time and large scale dynamics of the entan-
glement entropy. In that case the extremal surface computation reduces to a minimisation
problem that is much easier to study numerically with e.g. the Surface Evolver [73]. The cur-
rent setting could be a perfect playground to employ membrane theory in non-homogeneous
settings, as it would be possible to use the analytically available metric (43) in the shock region. Generally, such a study will provide new information on velocity bounds for the holographic
shock+rarefaction wave solution. Moreover, it will also be of interest to make contact with the analysis of [74] which studies
NESS using a quasinormal mode approach, in a rather different setup though that involves a
forced flow across obstacles in which inhomogeneous, but time-independent states form. Finally, it is highly desirable to numerically probe the far-from-equilibrium dynamics of
the system considered in this paper under more extreme conditions, for χ ≪1. Fig. 12 rep-
resents our efforts in this direction, but we found it prohibitively hard to numerically achieve
stable time evolution at smaller ratios of the initial energy densities. Acknowledgements It is our pleasure to thank Daniel Grumiller, Giuseppe Policastro and Luciano Rezzolla for
comments on the manuscript and Koenraad Schalm for useful discussions in the early stages
of this project. 6
Discussion The question whether
the breakdown of our simulations at small χ is just an artefact of our numerical scheme or if
it indicates a physical instability is currently not clear and deserves further investigation. A
Rankine–Hugoniot jump conditions We arrive at the Rankine-Hugoniot jump condition vS(qL −qR) = fL −fR ,
(83) (83) where vS = x′
S(t) is the propagation speed of the shock. where vS = x′
S(t) is the propagation speed of the shock. B
Sensitivity to initial conditions Numerically it is difficult to initialize the evolution of our coupled heat baths with a truly
discontinuous step function. In practice we approximate the discontinuous interface by a
smooth function of the form tanh(cz), which in the limit c →∞converges to the Heaviside
theta function. In the following we verify that the evolution is insensitive to the choice of
the constant c that determines the steepness of the initial interface. For this we compare in
Fig. 20 two evolutions, where solid lines equal the evolution in Fig. 5 and the dashed lines an
evolution with an 1.5 times smaller value of c. At t = 0 the smaller value of c gives a wider
profile, but after a time t ≳4 the two simulations are virtually indistinguishable. [3] S. S. Gubser, I. R. Klebanov and A. M. Polyakov, Gauge theory correlators from non-critical
string theory, Phys. Lett. B 428, 105 (1998), doi:10.1016/S0370-2693(98)00377-3. A
Rankine–Hugoniot jump conditions In this appendix we review the derivation of the Rankine-Hugoniot jump conditions [75–79]. We start with the following Riemann problem ∂tq(t, x) + ∂x f (q(t, x)) = 0,
q(0, x) =
¨
qL
∀x < 0
qR
∀x > 0 ,
(79) (79) where q(t, x) is a conserved charge and f (q(t, x)) the associated flux. A discontinuous solution
of (79) can be obtained from the integrated conservation law ∂t
Z xS(t)
xL
dx q(t, x) +
Z xR
xS(t)
dx q(t, x)
= −
Z xR
xL
dx ∂x f (q(t, x)),
(80) (80) where xS(t) parametrizes the location of the discontinuity at time t and the integration bounds
are chosen such that xL < xS(t) < xR. To simplify the expression on the left hand side we use
Leibniz integral rule ∂t
Z b(t)
a(t)
dx g(t, x)
= g(t, b(t)) d
dt b(t) −g(t, a(t)) d
dt a(t) +
Z b(t)
a(t)
dx ∂t g(t, x)
. (81) (81) 29 SciPost Phys. 11, 047 (2021) -20
-10
0
10
20
0.0
0.5
1.0
1.5
2.0
2.5
m z
ℰ/m4, m t ={0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22, 24, 26}
Figure 20: Evolution of the energy density for two different initial profiles: c = 3
2
(solid) and c = 1 (dashed). For mt ≳4 the evolution is insensitive to the initial
condition. -20
-10
0
10
20
0.0
0.5
1.0
1.5
2.0
2.5
m z
ℰ/m4, m t ={0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22, 24, 26} Figure 20: Evolution of the energy density for two different initial profiles: c = 3
2
(solid) and c = 1 (dashed). For mt ≳4 the evolution is insensitive to the initial
condition. This gives This gives qL x′
S(t) + lim
ε→0+
Z xS(t)−ε
xL
dx ∂tq(t, x) −qRx′
S(t) + lim
ε→0+
Z xR
xS(t)+ε
dx ∂tq(t, x) = −(fR −fL), (82) where we defined fR/L = f (qL/R). The remaining two integrals vanish when taking the limits
xL →xS(t) −ε and xR →xS(t) + ε. We arrive at the Rankine-Hugoniot jump condition where we defined fR/L = f (qL/R). The remaining two integrals vanish when taking the limits
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The Beatific Experience of Being: A Phenomenology of The Chakrasamvara Tantra
Rudolph Bauer
Artículos atravesados por (o cuestionando) la idea del sujeto -y su género- como una construcción psicobiológica de la cultura.
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Vol. 5 (2020), enero-diciembre
ISSN 2469-0783
https://datahub.io/dataset/2020-5-e132
THE BEATIFIC EXPERIENCE OF BEING: A PHENOMENOLOGY OF
THE CHAKRASAMVARA TANTRA
LA EXPERIENCIA BEATIFICA DEL SER: UNA FENOMENOLOGIA DEL
CHAKRASAMVARA TANTRA
Rudolph Bauer rbauer@rsbauer.net
Center for Consciousness Studies and Washington Center for Phenomenological and
Existential Psychotherapy Studies. United States of America
Cómo citar este artículo / Citation: Bauer R. (2020). «The Beatific Experience of Being:
A Phenomenology of The Chakrasamvara Tantra». Revista Científica Arbitrada de la
Fundación MenteClara, Vol. 5 (132).
DOI: https://doi.org/10.32351/rca.v5.132
Copyright: © 2020 RCAFMC. Este artículo de acceso abierto es distribuido bajo los
términos de la licencia Creative Commons Attribution 4.0 International License (CC BY 4.0).
Recibido: 18/12/2019. Aceptado: 11/01/2020 Publicación online: 18/01/2020
Conflicto de intereses: None to declare.
Abstract
This article is a phenomenological elaboration of the Chakrasamvara Tantra. The
Tibetan Chakrasamvara Tantra brings forth a naturalistic understanding of the
process of the Embodiment of Being and the process of the invocation of the Bliss of
Embodied Being. The Chakrasamvara Tantra, beautifully describes the experience of
the Beatific Vision of Being, as well the invocation of the Beatific experience of Being,
the Beatific experience of primordial luminous awareness.
Resumen
Este artículo es una elaboración fenomenológica del Chakrasamvara Tantra. El
tibetano Chakrasamvara Tantra presenta una comprensión naturalista del proceso
de la encarnación del Ser y el proceso de invocación de la bienaventuranza del Ser
Encarnado. El Chakrasamvara Tantra, describe bellamente la experiencia de la visión
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The Beatific Experience of Being: A Phenomenology of The Chakrasamvara Tantra
Rudolph Bauer
beatífica del ser, así como la invocación de la experiencia beatífica del Ser, la
experiencia beatífica de la conciencia luminosa primordial.
Keywords: tantra; Chakrasamvara; beatific vision; luminous awareness
Palabras Claves: tantra; Chakrasamvara; visión beatífica; conciencia luminosa
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The Beatific Experience of Being: A Phenomenology of The Chakrasamvara Tantra
Rudolph Bauer
Introduction
The Chakrasamvara experience of our Beatific Vision and our lived
Beatific experience takes place within our life just as it is, and just as we
are. The Chakrasamvara Tantra describes the foundational experience of
Being and the Univocity of Being through which all hierarchal-ness is
deconstructed.
Within this deconstruction of hierarchy, a subtle
unstructured luminous equality consciousness becomes present. The
Univocity of Being means the complete sameness and complete oneness
of Being. Human beings can bring forth the experience of the non-duality
of equality consciousness within the phenomenological duality of human
beings. This Univocal-ness means there is a difference within form, but
not within essence, not within Being (Gray, 2007).
The qualities of Being are Spaciousness, Luminosity, Energy, and
Knowingness. There are other qualities such a Purity, Compassion, and
Self Manifestation. Our focus is on the Quality of Bliss, Beatific Bliss.
Bliss is an ontological quality of Being. This ontological quality of Being
infuses our personal and collective experience of existence.
The Chakrasamvara Tantra illuminates the Univocity of Being within
phenomenological difference. Univocal-ness is a language description of
the complete oneness and sameness of Being. Within Being and the selfmanifestation of Being, there is a oneness of non-hierarchal existence.
The Univocal-ness is equality consciousness and the equal vision of the
Beatific-ness of the Purity of Being as beings. In theological language God
or Deus is neither above nor below and God is within everything and
everyone as the Divinity of Being. God is a Univocal collective experience
of Being.
In philosophical language Being is. Being is not a being. But Being selfmanifests as all beings and as the Being of all beings. In the language of
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The Beatific Experience of Being: A Phenomenology of The Chakrasamvara Tantra
Rudolph Bauer
Dzogchen all phenomena are the Dharmakaya. All phenomena are the
Purity of the Dharmakaya. All beings are the self-manifestations of the
ground of Being. The ground of Being is the Dharmakaya of Pure
Potentiality. There is no ontological difference within the Oneness of the
field of Being. There is a difference in form, but not within Being. This is
pantheistic experience!
Immanence of Bliss
The Chakrasamvara is a Tantra elaborating within the field of
immanence the inherent Bliss of Being and the Bliss within the
phenomenological manifestation of Being. The Chakrasamvara Tantra
sets forth the immanent path of self- liberation through the experience of
the Bliss of Being. Chakrasamvara is a Tantra focused on the intrinsic
experience of self-liberation in our life, just as it is and just as we are.
The experience of the Bliss of Being is the source of self-liberation.
The Chakrasamvara Tantra is a discourse on and within the field of
immanence. In this field of immanence, there is this foundational
experience of equality consciousness and equal vision. The field of
immanence is the field of Being as Oneness. Within the Chakrasamvara
Tantra there is neither above nor below or better or best in this luminous
field of the plane of immanence. The plane of immanence is the plane of
the field of awareness infinite in its horizons, vast and multidimensional
Oneness. The field of primordial awareness is within the immanence of
the field of Being. Immanence means the essence of Being is within all
phenomena and is within all experience and is completely within the self
-manifestation of world. Immanence means within phenomena within us,
within life is the luminous spacious field of Being. The field of Being is
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embodied within us and within the phenomena of the world. There is no
beyond within the field of immanence.
The Chakrasamvara Tantra elaborates the Univocity of Being and the
naturalistic equality of consciousness of the plane of immanence, the
plane of the luminous field of Being. Being is not a being, but Being selfmanifests as the Being of all beings.
Transcendental Forms of Liberation and Immanent Forms of
Liberation
The foundational transcendental experience of the non-dualistic
experience of self- liberation is simply “I Alone Exist”. The foundational
immanent experience of the non-dualistic experience of self-liberation
within the field of immanence is simply that ‘you and I’ are indivisible
within and as the non-dualistic field of Being. Within the field of
immanence duality exists within non-duality and within non-duality
duality exists. Equality consciousness is the experience of the univocalness of Being within the difference of all the forms of Being. Within the
duality of beings, there is the non-duality of Being. And within the nonduality of Being, there is the duality of beings. Through our own being,
we can experience Being itself. And through the being of another we can
experience Being itself. We live in the sea of Being and we are within the
sea of Being. We are the sea of Being.
The Bliss of Existence is The Bliss of Being
The Chakrasamvara is the tantra of innate Bliss of existing-ness. This
existing-ness goes beyond the formulation of life and death of our
singular incarnations. The Chakrasamvara is the tantra of the innate
Bliss of Existing-ness. This existing-ness goes beyond the formulation of
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life and death of our singular incarnations. The Chakrasamvara is the
Tantra of the embodiment of Bliss that is the very essence of the sphere
of Being. Bliss is the essence of Being. Being is not a being, and Being
manifests within us as infinite manifestations of beings, and these beings
are the Being-ness of Being itself. Within Being there is only oneness, and
the oneness is totally undisturbed by the difference of forms within beings
and between beings. We are Being becoming beings who are alive in time
and beings who become Being in deathlessness. We appear from Being
as beings and we disappear as beings into Being. We re-appear from
Being as beings, and again in time and through time we dis-appear back
into Being. Being becoming beings is life and beings becoming Being is
deathlessness.
Embodiment of Being: Bliss Overcomes Suffering
This Chakrasamvara Tantra is the tantra of the pervasiveness of the
Bliss within our human experience of Being-ness, and this bliss
overcomes suffering. This bliss is both within the realm of good and evil,
and yet beyond the realm of good and evil. This bliss of the Beatific-ness
of ontological Being is the Beatific embodiment of our own Being. We
embody the Bliss of Being. We embody Being and we are embodied by
Being within Being.
The Bliss of embodied human experience is the focus of the
Chakrasamvara Tantra. This beatific experience is the bliss of our
experience of the unfolding of our ongoing embodied continuity of Being.
Our embodiment of Being becomes the medium of the field of Being
unfolding within self-liberation. The body is the medium of the field of
awareness which is the field of Being. The knowing of Being is awareness.
Awareness knows Being and awareness is the knowingness of Being.
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This embodiment is the unfolding bringing forth of the luminous subtle
sphere of luminous channels and luminous chakras of our Being in our
embodiment. The subtle luminous energy field is of central importance
within the Chakrasamvara Tantra. Our embodiment of Being is the
embodiment of light becoming flesh and flesh becoming enlightened. As
we embody the luminous Being of our being, we are simultaneously
embodying the light of Being itself. The light of Being is the light of our
awareness.
Beatific Vision and Beatific Experience
This beatific experience of Being can be experienced by us in every
situation and in every context and in every unfolding event of Being. This
beatific experience of Being unfolds both within pleasure as well as within
pain. This beatific experience of Being unfolds both within beauty and
within terror, within peace and within war, within love and within hate,
within perversity and within purity.
A mantra which expresses this tantric dimension of experiencing Being
is: Om Ah Hum Bodichitta Maha Suka Jnana Dhatu Ah. Bodhicitta
is the Great Compassion. Maha Suka is the Great Bliss which is
Compassion, Jnana is Direct Knowing of Being, Dhatu Ah means Direct
Knowing of Being in every situation. The Beatific-ness of our luminous
embodied experience of pure primordial awareness is the experience of
the flesh of the world to use Merleau Ponty’s language describing
ontological embodiment (Morris, 2018). Human experience is the
intertwining of mind, awareness, embodiment and Being. Human
experience is both ontic and ontological to use Heideggerian language. In
experience, we experience the phenomena of Being, and the Being of the
phenomena (Capobianco, 2014).
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The Beatific Field of Being
Beatific experience means Beatific Knowing-ness, Beatific Being-ness
and Beatific Radiance. The radiance of Being brings forth the unfolding
of the beatific experience of our life just as it is. This beatific vision and
experience of beatific -ness is continuously given and open to us within
every experience and within all experience. This beatific experience is
within the realm of our ongoing continuity of our experience of innate
awareness of the field of Being. This beatific realm of human experience
is not earned or merited. This beatific realm of experience is given to us.
This beatific realm of experience comes with the territory of our
manifested nature of Being. Beatific experience is the very nature of
human awareness, human gnosis and human jnana. Beatific experience
is the Bliss of Being.
The inherent divinity of our human experience, reflects the immanence
of Being within us both as our personal experience and our collective
experience. This Beatific experience of Vision and Bliss is not a
transcendental experience beyond human phenomena and beyond our
mind and beyond our embodiment. This Beatific experience and Beatific
vision is manifested in all the different dimensions of our humanness.
The Beatific experience is experienced and manifested in all the
dimensions or kayas. This is the dimension of ordinary life world of
Being, as well as the dimension of the archetypal manifestations of Being
as well as the dimension of pure potentiality of Being! Beatific experience
happens in each of the dimensions of this multidimensional world of our
existing-ness.
The ongoing continuous experience of the radiance of the Being of self
-illumination is fully experienced within the realm of immanence of Being.
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The ongoing experience of transcendence is hierarchical and dissociative.
The transcendental quest dissociates us, separates us from the
immanence of divinity of appearance and experience. The dissociative
and detachment of the transcendental quest can foreclose for us the
experience of the Being of phenomena. Transcendental method separates
and dissociates our beatific experience of the Being of phenomena from
the realm of pure awareness. Transcendental methodologies are
dissociative and remove us from the immediacy of Beatific Life in our
ordinary life world and the immediacy of archetypal realm within our
ordinary life world.
Transcendental
methodology
dissociates
us
from
our
beatific
experience of external phenomena as well as our inner most phenomena
of awareness.
Awareness is the Gnosis/Jnana of Direct Knowing
When ‘you and I’ become aware of our own awareness, we enter into
direct knowing of gnosis or jnana. We enter into tantra. Tantra is the
unfolding experience of awareness of awareness. In this awareness of
awareness and through this field of awareness, we directly experience
and directly know Being within Being itself. This gnosis, this jnana, this
direct
perception
knows
non-duality,
knows
oneness,
knows
indivisibleness.
Gnosis is the knowing of oneness. Gnosis is the knowing of nonduality and gnosis is the direct knowing of our direct perception of
Luminous Being. Just as our awareness as gnosis knows the non-duality
of Being within beings, our mind knows duality, our mind knows the
duality of phenomena, and the duality within phenomena. Our
awareness knows Being, and our awareness knows the Being of
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phenomena. Our mind knows form, our mind knows the form of beings
and things. Our mind knows phenomena both subtle and gross
phenomena. Our mind knows difference.
So when we integrate our mind into our awareness field, into our
gnosis, into our field of direct knowing of Being, we can know the duality
of phenomena within the non-duality of Being; and we can know nonduality of Being within the duality of beings. This direct knowing of Being
within and through phenomena is the immediate unfolding of selfliberation in our life. The experiencing the Being of phenomena is self
liberation. To experience the Being of phenomena is to experience Bliss.
To experience the Being of our own Being is to experience the Bliss of
Being.
Mind as a Knower of Forms, Awareness as a Knower of Being
We have two ways of knowing. Our mind knows forms, things, both
subtle and gross. Our mind knows dualities, our mind knows me and
you, us and them, this and that. Our mind knows entities and beings,
our mind knows time. Our mind knows difference. Our mind knows
thoughts, our mind knows affects, emotions and feelings. Our mind
knows sensation, our mind knows memory. Our mind knows images of
memory. Our mind knows phenomena. Our mind knows the phenomena
of otherness, our mind knows the dualities of phenomena and the
dualities within phenomena (Bauer, 2019 a).
Our awareness knows Being directly and our awareness knows the
Being-ness of Beings directly. Our awareness knows the Bliss of Being,
the Bliss of Being-ness, the Bliss of Existing. Our awareness knows
timelessness. Our awareness does not know forms. Our awareness does
not know emotions and does not know affective states. Our awareness
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knows spaciousness, our awareness knows luminosity, our awareness
knows energy, our awareness knows awareness within ourselves and
within others. Our awareness knows timelessness, and our awareness
knows timelessness within time. Awareness knows the bliss of Being
within beings.
Bliss is not an affect and Bliss is not an emotion. Bliss is not a affect
of our mind and bliss is not an emotion of our mind. The experience of
bliss is not a function of our mind. Bliss is the experience of the
manifestation of Being as beings, including our own Being. This
manifestation of Being is experienced within the field of our awareness.
Bliss is the experience of our awareness knowing and experiencing Being.
Awareness is the direct knowingness of Being. Bliss is the nature of Being
and Bliss is the experience of Being including our own Being and the
Being of our own innermost awareness. The experience of Bliss is
intrinsic to the experience of Being. Bliss is the innate sense of Being.
Bliss is our sense of the Being of phenomena. Bliss can be the sense of
our experience of the Being of a person. Bliss is the sense of Being. Bliss
is the sense of the Beingness within beings (Bauer, 2019 b).
The forms of a being may have affective, emotional and cognitive
implications for the knowingness of minds. The experience of the forms
of a being have affective, relational, emotional and experiential
implication. The forms of a being have affective and emotional resonance.
Form is a psychological experience. Form is an aesthetic experience.
Form has emotional, relational and emotional implications for our
experience of embodied mind.
The Being of beings has the resonance of the field of Being. The field of
the Being of beings has and is a field of ontological resonance and
attunement. We can experience within our awareness the resonance of
the Being of beings. We can experience within our own awareness the
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resonance of Being itself. We are in resonance with the sphere of Being.
The sphere of Being is the resonance of pure Being.
Resonance of Mind and Resonance of Awareness
There are two ways of resonance. There is resonance of Being and there
is the resonance of our mind’s affective and emotional States. Our mind
of thinking, feeling, sensation, memory and imagination has emotional
and affective states of resonance. Our mind is a series of emotional or
affective states of relational resonance. Our mind has resonance to the
minds of others. The minds of others have resonance to our mind.
Awareness is a relational field of the resonance of Being. There is also
awareness of mind and the experiences of mind. Awareness experiences
the resonance of Being and the dimensions of Being within beings and
within the Being of phenomena. Awareness experiences the Being of
phenomena and the phenomena of Being. Awareness also experiences
the lack of Being and the absence of Being.
One Knower
Although there are two ways of knowing, naturally there is only one
knower and there is the natural intertwining of mind and awareness. The
natural union of mind and awareness brings forth the experience of the
form of phenomena and the Being of the phenomena. Form of phenomena
and the Being of the phenomena are known through the union of mind
and awareness within the one knower. The form of phenomena is known
through the mind and the Being of phenomena is known through
awareness. As we unfold from childhood into adulthood for some the
mind as the knower of form splits from awareness the knower of Being.
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A person who lives in mind only knows the form of phenomena and
such a person may suffer the lack of the sense of presence of Being. For
many, there is the loss of the Bliss of Being. Living in mind alone with a
foreclosure on our awareness of Being, results in the loss of the presence
of Being within our own self and within our experience of the world. As
such a person, we may live without the sense of the Bliss of our Being
and the Bliss of the Being of the world. Without the knowing of awareness
the Bliss of Being is absent.
When we live within the intertwining of mind and awareness, we can
experience affective responses within the context of the Bliss of Being. We
can even feel pain within the context of the bliss of Being. We can feel
hatred within the context of the bliss of Being. We can feel love and
beloved-ness within the context of Being. We can experience shame
within the Bliss of Being. We can experience afflictive emotions within the
Bliss of Being. This is most important to know! Bliss is inclusive of the
vast range of affective and afflictive feelings. The Bliss of Being does not
exclude affective or afflictive experience as some would have you think.
This limiting kind of religious thinking is distorted and dissociative.
We can integrate the mind and the functions of mind into and within
the field of awareness which is the field of Being and the field of Bliss.
The ongoing continuity of experience of Being is the experience of Bliss.
If awareness disappears Bliss disappears. The mind can experience
pleasure and pain but not Bliss. Bliss can infuse the mind and infuse the
experience of the mind. The absence of Being as experience by awareness
will feel like vast emptiness and have its own emotional terror for the
mind. Sometimes for a person, such emptiness of Being, feels like a vast
depression beneath depression.
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Religion Mythologizes and Mystifies
Religion mythologizes and mystifies the naturalistic direct knowing of
awareness. Religion mythologizes and mystifies the direct knowing of
Being. Religion moralizes the natural liberation of living naturally and
immediately within the field of Being. The relentlessly patriarchal and
theocentric context of religion institutionalizes the naturalistic experience
of the Beatific-ness of our life experience of the field of Being. Religion
likes to think it owns Bliss and is itself the source of the Purity of Bliss.
The transcendentalism of religion dissociates the beatific experience
from the immediacy of ordinary life experience. Transcendentalism
dissociates us from both the external phenomena of our being in the
world, and from our experience of our innermost experience of our
innermost sense of Being. This unhappy sequence of detachment can
bring forth the experience that our living experience is unreal and the
world itself is unreal and illusionary. All phenomena are considered by
these transcendental religions as a distraction from the experience of the
Purity of Being. Of course, this way of seeing is a tragic distortion of the
natural experience of the field of Being as the source and as the selfmanifestation of phenomena.
Most of these religious transcendental traditions have dissociated
mind from awareness, so that phenomena that are only known by mind
are dissociated from the sense of Being. When the embodiment of
awareness is foreclosed, the Bliss of Being is absent. In this dissociative
context the Bliss of Being is often foreclosed (Bauer, 2020).
Self-Liberation Through Bliss
Religion mystifies the living within Being as Being by creating
theologies of realization. These theologies of realization of God often
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described as requiring eons and eons of praxis in order for the great event
to happen and take place. Life is waiting and waiting and more waiting.
Waiting for Godot!
Religion and its relentless patriarchal institutionalization and
Patriarchal domination as the One Who knows even implies the
mystification of the power of granting this realization of Being or in their
language the realization of God. This realization of Being is naturally
given in everyone. The nature of Being itself gives the Bliss of Being to all
beings, just as they are. This ontological gift of Being and the Beingness
of Being is not the gift of some aging patriarchal male figure.
It is equally true that human beings have the power of the selfmanifestation of the light of their own awareness. All human beings have
the power of timeless awareness in time. All human beings have the
power of the compassionate transmission of the field of Being into
another person.
Chakrasamvara as A Tantra of the Realm of Immanence
The
Chakrasamvara
Tantra
invokes
the
archetypal
power
of
experiencing the beatific experience within and as the realm of the
immanence of Being. This means we can experience the beatific-ness of
Being within our experience of beings, including our own being. We can
experience all phenomena within the realm of the immanence as Pure
Being. Our own Being is within the realm of immanence, the immanence
of Pure Being. As a Shaivite person of long ago declared “the Bliss of
Samadhi is the Bliss of the World”.
We can experience through all and within all appearances the
indivisibleness between appearance and Being, between being and Being
itself. There is no difference of Being within and between beings. This
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luminous oneness of Being is the unfolding experience of beatific bliss.
There is no ontological difference of Being within the phenomenological
difference of beings. Being is univocal. Being is sameness, complete
sameness within Being and within beings. The luminous oneness of
Being is the unfolding experience of Beatific Bliss.
There is no ontological difference of Being within the phenomenological
difference of beings. Being is univocal. Being is sameness, complete
sameness within all beings. There is a difference within Forms, but not
within Being.
The Givenness of Being and The Givenness of Self Liberation
The experience of the non-duality of our own Being as Being itself is
self- liberating. This is the natural givenness of self- liberation within the
unfolding of our life experience. Our life experience is the selfmanifestation of Being within us as us. Being is the self-manifestation of
our life experience. The experience of the Beingness of my own Being
liberates me from the containment of the various forms of experience. All
my experience is the self-manifestation of Being as my own being. Being
liberates me through the bliss of Being. My Being is Being itself becoming
a being as me. The completeness of Being infuses my experience with
bliss. The potentiality of Being is the potentiality of my own being which
is my own innermost awareness. The bliss of my awareness is the bliss
of Pure Being as a being.
The experience of the Being of my own being can be the experience of
beatific-ness and the experience of my own Being can be my vision of
beatific-ness that is completely within my field of Being. The experience
of Being in and of itself is beatific-ness. The experience of the selfmanifestation of Being becoming my own being is the beatific experience.
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The experience of a being as Being itself is the beatific experience of selfliberation. To experience the Being of your own being and to experience
the Being of another being is the beatific experience of Being. To
experience the purity of Being in and of itself is the pure Beatific vision
of the beatific experience. This does not mean human beings are not
distorted in character and action. The purity of Being is beyond character
and beyond action. To experience the purity of Being is always selfliberating from the containment of the forms of phenomena, the
circumstances of phenomena and the containment of the character of
phenomena. To experience the Being of phenomena is to experience the
purity of phenomena.
To experience Beatific-ness is to experience the bliss of the Being of
phenomena. Bliss is the experience of the Beatific-ness of the Being of
phenomena. Beatific experience is in essence the Bliss of Being. Bliss and
Beatific are completely correlational. The bliss of Being goes beyond right
and wrong, goes beyond good and evil, goes beyond better and best and
even goes beyond truth and falsity. Bliss is within us as our very Being
which is Being itself. Bliss is innate. Bliss is the manifestation of the
ground of Being. The ongoing continuity of experience of the
manifestation of Being is Bliss. Self- liberation happens through the Bliss
of our Being. Just as we are!
The Gaze of Being and the Being of Our Gaze
We can experience the field of Being of phenomena through our gaze.
The gaze of our awareness is the gaze of and through the field of Being.
The light of our gaze experiences the light of phenomena. The light of
phenomena is the light of Being. The light of our gaze experiences the
luminous Being of phenomena. The Being of phenomena and the Being
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of personhood is illuminated through our embodied gaze of our luminous
embodied awareness. Our gaze is the gaze of our Being manifesting the
illumination of the Being of phenomena as well as the character of
phenomena. The gaze is not an objectified seeing of mind alone, but
rather our gaze is the inter-subjective inside to inside self-illumination of
Being of self and the Being of phenomena. The gaze of our Being
illuminates the Being of phenomena. The gaze of our Being is the selfillumination of the light of our Being which is Being itself. The Gaze of
Being is the Bliss of Being.
We gaze not with our eyes alone but we gaze from within the field of
our fully embodied awareness. We gaze through our eyes, we gaze
through our heart- mind continuum and we gaze through our fully
embodied field of Being. The gaze of embodied awareness takes place
within the field of immanence. The gaze of immanence is the gaze of
gnosis, the direct knowing of Being within beings and the knowing of
Being within phenomena.
This is pantheistic experience! This is naturalistic pantheistic
experience of non-dual Being within the duality of beings. This is the
naturalistic pantheistic experience of duality of beings within the nonduality of Being. This is the Bliss of Being as beings.
This experience of the gaze goes beyond the sense of sight as we have
already described. The sense of this bliss filled knowingness permeates
the sense of smell. A person who is embodying the field of Being may
experience exquisite sense of fragrance arising within and around their
body and the bodies of others.
This bliss filled direct knowingness of embodied being permeates the
sense of touch. A person who is embodying the field of Being may
experience the field through touch. This experience of bliss filled tactile-
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ness may both arise from touching and from being touched. Through
tactile experience we touch the field of Being and are touched by and
through the field of embodied Being. To use Merleau Ponty’s metaphor
we touch the flesh of Being. We touch the Being of flesh (Merleau-Ponty,
2013).
This bliss filled sense of direct knowingness fills our sense of sound. A
person who has embodied Being and experiences the Bliss of Being may
feel the permeability of their sense of hearing by sublime sounds and
vibrational states of bliss filled experience.
This bliss full sense of knowing fills our sense of time within
timelessness and our sense of timelessness within time. The sense of time
itself becomes a most bliss full and permeating state.
Taste can be infused with Bliss full experience and energy of Bliss and
so within the embodied field of Being a person can experience Amrita. As
the sense of Amrita arises within us there is the inner sensuous
experience of a sense of the rasa of liquid like taste permeating our
embodiment. The inner chakras are filled with the sense of a taste of
viscous sense of liquid light.
This bliss filled sense of field of Being can metabolize pain. The field of
the bliss of Being can open contracted states of pain, dissolving the
sensations of pain. The bliss filled opening of the field of perception
results in pain no longer so completely dominating and organizing our
sense of Being as self.
This bliss filled sense of Being can metabolize psychological suffering.
The Bliss of Being infuses the sphere of suffering and this infusion
profoundly unbinds us. The sense of Being converges with our sense of
self. Our sense of Being and our sense of self are one. Our sense of self
becomes the Bliss of Being. The sense of self is an onto cosmological
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sense of Being. Our sense of Being is the sense of Bliss. There are many
doorways of this Bliss, and many events of Bliss. The sense of Bliss is
the innate intrinsic sense of our innermost Being becoming. The Bliss of
Being is always becoming and becoming and becoming.
In truth liberation is not a simplistic event. Liberation is not an All
done event! Liberation is not a fixed state! Liberation is infinite in its
becoming, life after life, death after death. Liberation of Being is forever
and ever unfolding and forever and ever becoming and becoming. The
universe is forever and ever unfolding and becoming. Being is becoming!
Infinity is not a fixed state. Infinity is not bound in time or place. The
religious understanding that realization and liberation is a time bound
and time limited event is the form of reification and concretization of that
which can never be reified and never concretized (Muktananda, 1978).
Pure Land of Bliss Tradition
The Chakrasamvara Tantra is deeply reflective of the ancient Pure
Land tradition’s description of the Pure Land of Bliss (Halkias, 2012). Of
course, the Pure Land of Bliss is Sukhavati.
As Ju Mipham in his
commentary on his wonderful text “The Sun Like Instructions of a Sage”
describes how our aspiration to dwell in the Pure Land of Bliss is of the
essence. And secondly, to experience within our awareness the sense of
the Light of Being is also of essence (Cook, 2016).
Many people think that Sukhavati is a pure land realm that only exists
after death. This is not the truth of the realm of Sukhavati. From the
esoteric Dzogchen view, Sukhavati exists both in our ordinary life realm,
and as well as within the Sambogakaya realm while we are living in the
Nirmanakaya realm. After death or after the time bound event of our
dissolving from living within the Nirmanakaya realm, we dissolve into
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Sambogakaya realm which is the Realm of Rapture. This archetypal
dimension is the Bliss of Rapture! The Bliss of Rapture is for everyone.
Absolutely everyone. There is no exclusion of anyone who passes through
the realm of death. We all dissolve into the realm of Rapture. This is the
Pure Land of Bliss that is the nature of Rapture.
The great compassion of Being is infinite in its horizon, vast and
inconceivable. The great compassion of Pure Being is not the concrete
cruel judgmental-ness of the distorted Mind of Patriarchal Power and
Patriarchal Priesthoods. Most religions are encapsulated in patriarchal
institutionalization. The Great compassion is beyond good and evil,
beyond right and wrong, beyond better and best and even, yes even
beyond truth and falsity. The Dakini’s delight within this luminous
understanding.
This esoteric Dzogchen understanding is that the Pure Land of Bliss is
the Buddha field. The Buddha field is not a person. The Buddha field in
actuality is the experience of our non-dual nature of awareness. This
non-dual field of primordial awareness is the source of the different
dimensions of Being as well as actually being the different dimensions of
Being. In becoming aware of awareness, we experience the Pure Land of
Bliss. The Pure Land of Bliss is the Pure Field of the Bliss of the Being of
our ordinary life realm, as well as the Pure Field of the Bliss of the
Archetypal Sambogakaya realm and as well as the Pure Field of the Bliss
of the realm of pure potentiality of the Dharmakaya.
By sense of the Light, Ju Mipham languages the Light of Being’s selfmanifestation as the Buddha Amitabha.
Of course, the Buddha
Amitabha is not a person but the archetypal light of Being manifesting
itself in “us as us”. Ju Mipham says explicitly that entering and dwelling
in this Pure land is not for a later time. He is implying the land of Pure
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Bliss is Now. The Presence of the Pure Land of Bliss is Now, always and
forever Now. You will always exist in nowness.
Ju Mipham further describes how dwelling in this land of Pure Bliss
does not depend on merit and does not depend on our accomplishments
such as being a Bodhisattva. There are no required conditions to enter
the pure land of Bliss. And most of all Being in the Pure Land of Bliss
does not require death. The Pure Land of Bliss is not simply an afterdeath moment or after death realm. The Pure Land of Bliss is here and
now. The Pure Land of Bliss is here and now life after life and death after
death. The Pure Land of Bliss is timeless awareness becoming time.
Timelessness awareness is always manifesting and becoming time forever
and ever.
This pure land of Bliss is the presence of the Pure Field of Being in
“you as you”. You are always in this field of Being, life after life and death
after death. Being is the Pure Land of Bliss. This Pure land of Pure Bliss
is present now as this life. This Pure Land of Pure Bliss is present, as you
dissolve through the doorway of death. From being located in the ordinary
life world of the Nirmanakaya dimension of Pure Being, through the
doorway of dying you move into the Pure Bliss of Sambogakaya
dimension of the Pure Being of great rapture. This Pure Land Realm of
Bliss is described as the Pure Land of Bliss in early Sacred Text of
Mahayana.
You may then dissolve further into the Bliss of Pure Being of
Dharmakaya dimension, the realm of Pure Potentiality of Pure Being.
This is the Pure Realm of Pure Being of Pure Bliss of Potential Space. In
time you may again manifest in the ordinary life world realm, as well as
remaining in the archetypal realm of the Sambogakaya dimension of Pure
Land of Bliss.
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You may wonder as you experience Ju Mipham’s understanding that
the nature of Pure Lands of Bliss is existentially so available and
existentially so present. Why then is the experience of the Bliss of Being
so hidden and so obscured for so many?
Ju Mipham does focus on the power of self-effort as well as the power
of the field of Being to bring forth the Pure Land experience. Self-effort
seems to be in the Dharma of aspiration and attunement to the field of
Being/awareness in the different dimensions of the Kaya’s.
Conclusion
The compassionate power of the field of Being/awareness is the
luminous power of the field within its different dimensions and
manifestations of and as the Kaya’s. The power of the field of Being which
is the power of the Pure Land of Bliss, liberates us naturally. The Pure
Land of Bliss is beyond right and wrong, good and evil, better and best
and even truth and falsity. The Pure Land of Bliss is beyond the truth as
Judgement. The Pure Land of Bliss is the truth of self-revelation and selfillumination. The field of Being reveals itself to us as us. The Pure Land
of Bliss is the field of Being in the self-revelation of its essence.
The Pure Land of Bliss is totally free of patriarchal distortion and the
theocentric confusion of royalty and spirituality. The pure land of Bliss is
totally free of the distorted confusion of the aberrational theocentric
judgement of heaven and hells, of torture and liberation, of rewards and
everlasting punishment by unending torture. The Pure Land of Bliss is
free of the patriarchal relentless love of torture and relentless unending
cruelty for the sake of their “would be” God, who is simply the mirror of
their own mind.
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The Pure Land of Bliss is the nature of Being. The pure land of Bliss is
one voice. The Pure Land of Bliss is equality consciousness. The Pure
land of Bliss is the pure Being of awareness being unborn and undying.
The Pure Land of Bliss is manifest in all circumstance, all context, all
situations and all events of Being. Within every event is the Bliss of the
radiance of Being.
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https://fundacionmenteclara.org.ar/revista/index.php/RCA/article/view/86
Bauer, R. (2019). Ontology of Bliss: A Phenomenology. MenteClara Foundation’s Peerreviewed Journal, Vol.4 (2), 55-70. doi: https://doi.org/10.32351/rca.v4.2.87 See at:
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Bauer, R. (2020). Human Egalitarianism and the Patriarchal Illusion: A Phenomenological
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https://doi.org/10.32351/rca.v5.122 See at:
https://fundacionmenteclara.org.ar/revista/index.php/RCA/article/view/122
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Gray, D. B. (2007). The Cakrasamvara Tantra (The discourse of Śrī Heruka). American
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Revista Científica Arbitrada de la Fundación MenteClara
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Effects of Nursing Education on Awareness of Risk Factors for Colorectal Cancer
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DOI:http://dx.doi.org/10.7314/APJCP.2015.16.14.5763
Effects of Nursing Education on Awareness of Risk Factors for Colorectal Cancer DOI:http://dx.doi.org/10.7314/APJCP.2015.16.14.5763
Effects of Nursing Education on Awareness of Risk Factors for Colorectal Cancer RESEARCH ARTICLE Abstract Background: The objective of this study is to determine the effect of nursing education on awareness of risk
factors for colorectal cancer. Materials and Methods: In this descriptive study, the sample is consisted of 132
volunteer students studying in the 1st and 4th grades of School of Health Nursing Department during the fall
semester of 2014-2015. Data were collected via a questionnaire including information on the socio-demographic
features of the participants and the correlating risk factors of colorectal cancer, prepared by researchers in
view of the literature. The questionnaire was distributed to students and completed during class time. Before
presenting the questionnaires to the respondents, informed consent was obtained from each. The data obtained
were analyzed with a statistical package (SPSS). At first, a Kolmogorov-Smirnow test was performed on the
research data. However, since it was seen that variables did not have a normal distribution, the Wilcoxon
Signed Ranks Test was applied. P values of <0.05 were considered statistically significant. Percentages, means
and standard deviations were also utilized for evaluation. Results: Of the total of 132 students participating in
this study, 85.6% (n=113) were female, and 14.4% (n=19) were male. The average age was 20.5±2.04. 54.5 % of
the students (n=72) were 4th graders and 45.5 % (n=60) were first graders. Total score averages of first graders
on risk awareness was X=12 ± 7.24, and fourth graders was X=16.93 ± 7.71. The difference between these two
scores were found to be statistically significant (Z= -9,333; p=0.000). Conclusions: Nursing education was found
out to have a positive influence on the students’ awareness of risk factors for colorectal cancer. Keywords: Colorectal cancer - awareness of risk factors - nursing education Asian Pac J Cancer Prev, 16 (14), 5763-5766 It was stated that colorectal cancer was the third most
commonly diagnosed cancer with a percentage of 9.7 % in
the world. More than a half of both cancer cases (56.8%)
and deaths from cancer (64.9%) was found to be in the least
developed countries (GLOBOCAN 2012; Tastan et al.,
2013; WHO, 2014; WHO, 2015). New cases are estimated
to double the number as nearly as 70 % in the next two
years. Leading behavioral and dietary risks in about 30%
of cancer deaths are higher body mass index, inadequate
fruit and vegetable intake, physical inactivity, tobacco and
alcohol use. Tobacco use is the most important risk factor
for 20% of global cancer deaths. Abstract More than 60% of total
annual new cases in the world are seen in Africa, Asia
and Central and South America. These regions comprise
the 70% of cancer deaths worldwide. It is expected that
annual cancer cases will rise from 14 million in 2012 to
22 within the next 2 decades (WHO, 2014; WHO, 2015). One of the most reliable surveillance systems in terms of
cancer statistics is in the United States (US). American
Cancer Society estimates that a total of 141,210 people
were diagnosed with colorectal cancer and 49,380 people
died due to colorectal cancer in 2011 in the USA. It is
the third most common cancer in both men and women Effects of Nursing Education on Awareness of Risk Factors for
Colorectal Cancer Funda Akduran, Nursan Cinar* School of Health Sciences, Esentepe Campus, Sakarya University, Sakarya, Turkey *For correspondence: ndede@sakarya.edu.tr Asian Pacific Journal of Cancer Prevention, Vol 16, 2015
5 Asian Pacific Journal of Cancer Prevention, Vol 16, 2015
5763
School of Health Sciences, Esentepe Campus, Sakarya University, Sakarya, Turkey *For correspondence: ndede@sakarya.edu.tr Introduction Opinions of 1st and 4th Grade Student Nurses
on the Risk Factors of Colorectal Cancer
Risk Factors 1st Grade (N:60) 4th Grade (N:72)
(n, %)
(n, %)
Familial history of cancer:
Increases cancer risk
38 (63.3)
65 (90.3)
Involves no risk
7 (11.7)
3 (4.32)
I don’t know
15 (25.0)
4 (5.6)
Familial colorectal cancer
Increases cancer risk
28 (46.7)
64 (88.9)
Involves no risk
12 (20.0)
5 (6.9)
I don’t know
20 (33.3)
3 (4.2)
Race and ethnicity
Increases cancer risk
28 (46.7)
53 (73.6)
Involves no risk
11 (18.3)
6 (8.3)
I don’t know
21 (35.0)
13 (18.1)
Smoking
Increases cancer risk
55 (91.7)
65 (90.3)
Involves no risk
1 (1.7)
1 (1.4)
I don’t know
4 (6.7)
6 (8.3)
Hoookah use
Increases cancer risk
49 (81.7)
63 (87.59
Involves no risk
2 (3.3)
2 (2.8)
I don’t know
9 (15.0)
7 (9.7)
Excess alcohol consumption
Increases cancer risk
51 (85.0)
63 (87.5)
Involves no risk
3 (5.0)
3 (4.2)
I don’t know
6 (10.0)
6 (8.3)
Physical inactivity
Increases cancer risk
37 (61.7)
52 (72.2)
Involves no risk
8 (13.3)
8 (11.1)
I don’t know
15 (25.0)
12 (16.7)
Stress
Increases cancer risk
53 (88.3)
67 (93.1)
Involves no risk
4 (6.7)
2 (2.8)
I don’t know
3 (5.0)
3 (4.2)
Exposure to pelvic radiation
Increases cancer risk
46 (76.7)
65 (90.3)
Involves no risk
1 (1.7)
3 (4.2)
I don’t know
13 (21.7)
4 (5.6)
Obesity
Increases cancer risk
31 (51.7)
57 (79.2)
Involves no risk
8 (13.3)
4 (5.6)
I don’t know
21 (35.0)
11 (15.3)
Unhealthy diet
Increases cancer risk
55 (91.7)
65 (90.3)
Involves no risk
1 (1.7)
3 (4.32)
I don’t know
4 (6.7)
4 (5.6)
Long-term red / processed meat consumption
Increases cancer risk
55 (91.7)
65 (90.3)
Involves no risk
1 (1.7)
3 (4.2)
I don’t know
4 (6.7)
4 (5.6)
Fatty food consumption
Increases cancer risk
43 (71.7)
63 (87.5)
Involves no risk
3 (5.0)
2 (2.8)
I don’t know
14 (23.3)
7 (9.7) Table 1. Opinions of 1st and 4th Grade Student Nurses
on the Risk Factors of Colorectal Cancer As health professionals, nurses have the duty to
protect the health of society as well as performing curative
services. There are few studies on the effects of nursing
education on colorectal cancer risk awareness. Introduction Cancer is major burden worldwide and a leading cause
of mortality (Stubbings et al., 2009; Al-Azri et al., 2014). The incidence of different types of cancer has increased
in the past 20 years and is expected to rise further with an
estimated 13.1 million deaths per annum by 2030 (WHO,
2014). The incidence of cancer in Turkiye is similar to
the world’s in general. Age standardized rate of cancer
in men was 269.7, and 173.3 in women in Turkey, 2009
(per 100000 people). It was announced that colorectal
cancer incidence for men was 21 in 100.000 in Turkiye
(T.R. Ministry of Health, Annual Health Statistics,
2013). According to the 2009 cancer statistics, nearly 98
thousand men and 63 thousand women get cancer every
year in Turkiye. Among the most common 5 cancer types,
colorectal cancer ranks the 4th for men and the 3rd for
women. According to data from the year 2012, among the
top five most commonly diagnosed cancers, colorectal
cancers were ranked the third in men and the second in
women. According to data GLOBOCAN 2012, a total of
14.1 million new cancer cases in the world were seen in
2012 and 8.2 million deaths occurred as a result of cancer. 5763 Funda Akduran and Cinar Nursan assessed; it was seen that for the 1st graders the most
well-known risk factors “smoking”, “unhealthy diets” and
“long-term red meat / processed meat consumption” rated
first with a percentage of 17 %; “stress” rated second with
a percentage of 88.3 % and “excess alcohol consumption”
rated third with a percentage of 85 %. When the least
known risk factors for the same group were examined
“subclinical hypothyroidism” ranked first with 25%,”the and also ranks third as the cause of cancer-related deaths
(Colorectal Cancer Facts &Figures 2013). Since early
stage cancers are less deadly and can be treated better than
late-stage cancers, if cancer awareness is created, early
diagnosis increases the chance of a cure and improves
the quality of life in cancer patients. Therefore, health
professionals’, particularly nurses’ (colorectal) cancer-
related risk awareness should be increased during their
professional training and they should be informed about
early diagnosis and screening programs of cancer (Andsoy
et al., 2014; WHO, 2015 http://www.worldcancerday.org). “subclinical hypothyroidism” ranked first with 25%,”the
Table 1. Introduction Future
research on increasing the awareness of nursing students
on the risk factors of cancer will help to shape training
programs and make effective use of nursing practices
combined with evidence based practices. Based on these
requirements, this study was carried out to determine
the effect of nursing education on colorectal cancer risk
awareness. Materials and Methods Being a descriptive study, its sample was consisted
of 132 volunteering students studying in the 1st and 4th
grades of School of Health Nursing Department during
the fall semester of 2014-2015. Data were collected
via a questionnaire including information on the socio-
demographic features of the participants and a 24-item
questionnaire on the risk factors of colorectal cancers. The
assessment of items on colorectal cancer was performed
by scoring the right answers “1 point”, wrong answers
“-1 point” and “0” for the answer “I don’t know”. The
questionnaire was distributed to students and completed
during class time. Before presenting the questionnaires
to the respondents, informed consent was obtained from
each student. Only once a respondent confirmed that
they understood the purpose of survey were they handed
the questionnaire form. The respondents when required
to answer all the questions and hand the questionnaire
back to the researcher. The data obtained was analyzed
by Statistical Package (SPSS). At first, Kolmogorov-
Smirnow test was performed on the research data. However, since it was seen that variables didn’t have a
normal distribution, Wilcoxon Signed Ranks Test was
applied. P values of <0.05 were considered statistically
significant. Percentage, mean and standard deviation were
also utilized for evaluation. Asian Pacific Journal of Cancer Prevention, Vol 16, 2015
5764 Results A total of 132 students participated in this study. 85.6
% of the participants (n=113) were female, and 14.4 %
(n=19) were male. The average age of the participants
was 20.46±2.04, with a minimum age of 17 years and a
maximum age of 31 years. 54.5 % of the students (n=72)
were 4th graders and 45.5 % (n=60) were first graders. When the risk factors that are least and most well-
known among 1st and 4th grade nursing students were Asian Pacific Journal of Cancer Prevention, Vol 16, 2015
5764 DOI:http://dx.doi.org/10.7314/APJCP.2015.16.14.5763 DOI:http://dx.doi.org/10.7314/APJCP.2015.16.14.5763
Effects of Nursing Education on Awareness of Risk Factors for Colorectal Cancer
nd with 38.3%,
d with 41.7%. enior students
“the presence
elvic radiation
processed meat
nce of another
the third row included “familial colon cancer in the family”
as the most well-known risk factor with a percentage of
88,9%. The least known risk factors for the same group
were found out to be “HIV positive patients” in the first
row with 37.5 % rate, “subclinical hypothyroidism” rated
second with 40.3 % and “taking chemotherapy for prostate
cancer” rated third with 62.5 %. DOI:http://dx.doi.org/10.7314/APJCP.2015.16.14.5763
Effects of Nursing Education on Awareness of Risk Factors for Colorectal Cancer
nd with 38.3%,
d with 41.7%. enior students
“the presence
elvic radiation
processed meat
nce of another
the third row included “familial colon cancer in the family”
as the most well-known risk factor with a percentage of
88,9%. The least known risk factors for the same group
were found out to be “HIV positive patients” in the first
row with 37.5 % rate, “subclinical hypothyroidism” rated
second with 40.3 % and “taking chemotherapy for prostate
cancer” rated third with 62.5 %. presence of chronic diseases” ranked second with 38.3%,
and “HIV-positive patients” ranked third with 41.7%. The most well-known risk factors for Senior students
were; “Stress” ranked first with 93.1% ; “the presence
of cancer in the family”, “smoking”, “pelvic radiation
exposure”, “unhealthy diets”, “red meat / processed meat
consumption in the long term”, “ presence of another
cancer beforehand” ranked second with 90,3% rate, and First grade students’ risk awareness total score average
was found to be X = 12 X = 16.93 ± 7.24 while it was
X=16,93 ± 7.71 for the last year students. The difference
was found to be statistically significant (Z = -9.333; P =
.000). Table 1.1. Results Opinions of 1st and 4th Grade Student
Nurses on the Risk Factors of Colorectal Cancer Table 1.1. Opinions of 1st and 4th Grade Student
Nurses on the Risk Factors of Colorectal Cancer
Risk Factors 1st Grade (N:60) 4th Grade (N:72)
(n. %)
(n. %)
Inadequate fruit/vegetable consumption
Increases cancer risk
35 (58.3)
55 (76.4)
Involves no risk
12 (20.0)
9 (12.5)
I don’t know
13 (21.7)
8 (11.1)
Inadequate cereal consumpt. Increases cancer risk
27 (45.0)
47 (65.3)
Involves no risk
11 (18.3)
10 (13.9)
I don’t know
22 (36.7)
15 (20.8)
Part. After 50 years
Increases cancer risk
33 (55.0)
52 (72.2)
Involves no risk
10 (16.7)
8 (11.1)
I don’t know
17 (28.3)
12 (16.7)
Another type of cancer prev. Increases cancer risk
44 (73.3)
65 (90.3)
Involves no risk
6 (10.0)
3(4.2)
I don’t know
10 (16.7)
4(5.6)
Large intestine polyps
Increases cancer risk
29 (48.3)
55 (76.4)
Involves no risk
7 (11.7)
6 (8.3)
I don’t know
24 (40.0)
11 (15.3)
Inflammatory intestine dis. Increases cancer risk
36 (60.0)
62 (86.1)
Involves no risk
4 (6.7)
4 (5.6)
I don’t know
20 (33.3)
6 (8.3)
Presence of a chronical dis. Increases cancer risk
23 (38.3)
49 (68.1)
Involves no risk
9 (15.0)
8 (11.1)
I don’t know
28 (46.7)
15 (20.8)
Some types of occupations
Increases cancer risk
31 (51.7)
58 (80.6)
Involves no risk
8 (13.3)
2 (2.8)
I don’t know
21 (35.0)
12 (16.7)
Taking radiotherapy for prostate cancer
Increases cancer risk
28 (46.7)
45 (62.5)
Involves no risk
5 (8.3)
8 (11.1)
I don’t know
27 (45.0)
19 (26.4)
HIV positive patients
Increases cancer risk
25 (41.7)
27 (37.5)
Involves no risk
10 (16.7)
15 (20.8)
I don’t know
25 (41.7)
30 (41.7)
Subclinical hypothyroidism
Increases cancer risk
15 (25.0)
29 (40.3)
Involves no risk
9 (15.0)
10 (13.9)
I don’t know
36 (60.0)
33 (45.8)
Table 2. A Comparison of Colorectal Cancer Risk
Factor Awareness Scores of 1st and 4th Grade Nursing
Students Discussion In this study, conducted to determine the effect of
nursing education on awareness of the risk of colorectal
cancer, it was assessed that nursing education positively
affected the students’ awareness of the risk for colorectal
cancer. While first year students emphasized factors
such as smoking, unhealthy diet and alcohol use among
the most common risk factors, senior students reported
factors such as stress, the presence of cancer in the family
and exposure to pelvic radiation as the most important
risk factors. It can be stated that education influences the
awareness of students on risk factors. Tobacco use, alcohol
use, unhealthy diet and physical inactivity, obesity, age
older than 50 years, genetic predisposition, including
hereditary polyposis and nonpolyposis syndromes, are the
main cancer risk factors worldwide (MOH, 2009; NCR,
2009; WHO, 2014). The common other risk factors for
CRC include dietary practices such as high consumption of
fat, red meat, and low consumption of fiber and vegetables
(Umar et al., 2009; Huxley et al., 2009). Meat intake is
associated with the risk of colorectal cancer (Kim et al.,
2011; Woo et al., 2014; Anderson et al., 2015). It is seen
that students in the study group are aware of the fact that
long term red meat consumption increases cancer risk,
because a total of 75 % of them (n=99) have stated this
issue. However, it is observed that there are risk factors
less known also by senior students. The least known risk
factor among the students were found out to be subclinical
hypothyroidism. In a case-control study (Guifang et al.,
2014) performed by Guifang and colleagues on 273
colorectal cancer patients, subclinical hypothyroidism
was found to be an independent risk factor for colorectal
cancer. In conclusion, nursing education positively affects the
students’ awareness of the risk for colorectal cancer, but it
was shown that some risk factors were not known enough
by the students. Nursing students should be informed on
the most common risk factors for colorectal cancer in
accordance with evidence-based studies and they should
be directed to further reading and research on this topic. This study will contribute to new studies on the subject. Limitation: this study was carried out in a particular
university, so it can not be generalized for the whole
university students and geographical regions. Similar
studies among university students in different cultural
groups and different geographical regions can be
performed in the future. Asian Pacific Journal of Cancer Prevention, Vol 16, 2015 Discussion 5765 Asian Pacific Journal of Cancer Prevention, Vol 16, 2015 Funda Akduran and Cinar Nursan Acknowledgements Thanks for the students who participated in this study Thanks for the students who participated in this study References Al-Azri M, AL-Rasbi K, Al-Hinai M,Davidson R ,Al-Maniri
A. Awareness of Risk Factors for Cancer among Omani
adults- A Community Based Study (2014). Asian Pac J
Cancer Prev, 15, 5401-6. Andersen V, Ulla Vogel (2015). Interactions between meat intake
and genetic variation in relation to colorectal cancer. Genes
Nutr, 10, 448. Andsoy II, Gul A (2014). Breast, cervix and colorectal cancer
knowledge among nurses in Turkey. Asian Pac J Cancer
Prev, 15, 2267-72. Colorectal Cancer Facts &Figures 2011-2013 (2013). http://
www.cancer.org/acs/groups/content/@epidemiology. surveilance/documents/document/acspc-028323.pdf GLOBOCAN 2012: Estimated Cancer Incidence, Mortality and
Prevalence Worldwide in 2012. http://globocan.iarc.fr/Pages/
fact_sheets_cancer.aspx Huxley RR, Ansary-Moghaddam AA, Clifton P, et al (2009) The
impact of dietary and life style risks of colorectal cancer: a
quantitative overview of the epidemiology evidence. Int J
Cancer, 125, 171-80. Kim J, Park S, Nam BH (2011). The risk of colorectal cancer
is associated with the frequency of meat consumption in
a population-based cohort in Korea. Asian Pac J Cancer
Prev, 12, 2371-6 Ministry of Health of Jordan (MOH)-(2009) Cancer incidence
in Jordan, report of 2008. Non-Communicable Diseases
Control Section, Amman, Jordan. Mua G, Mub X, Xingc H, et al (2014). Subclinical hypothyroidism
as anindependent risk factor for colorectalneoplasm. Clin Res
Hepatol Gastroenterol, 14. National Cancer Registry (NCR) (2009) Cancer incidence in
Jordan report of 2008. Non-communicable diseases control
section, Amman, Jordan Stubbings S, Robb K, Waller J, et al (2009). Development of a
measurement tool to assess public awareness of cancer. Br
J Cancer, 101, 13-17. Tastan S, Andsoy II, Iyigun E (2013). Evaluation of the
knowledge, behavior and health beliefs of individuals over
50 regarding colorectal cancer screening. Asian Pac J Cancer
Prev, 14, 5157-63 Turkiye Cumhuriyeti, Saglik Bakanligi Saglik Istatistikleri
Yilligi (2013). http://sbu.saglik.gov.tr/Ekutuphane/
kitaplar/sa%C4%9Fl%C4%B1k%20istatistik%20
y%C4%B1ll%C4%B1%C4%9F%C4%B1%202013.pdf. Umar A, Greenwald P (2009) Alarming colorectal cancer
incidence trends: a case for early detection. Cancer
Epidemiol Biomarkers Prev, 18, 1672-3. Woo HD, Park S, Oh K, Kim HJ, Shin HR, Moon HK, Kim J
(2014). Diet and cancer risk in the Korean population: a
meta- analysis. Asian Pac J Cancer Prev, 15, 8509-19. WHO World Health Organization (2014). http://www.who.int/
mediacentre/factsheets/fs297/en/. WHO World Health Organization (2015). http://www.who.int/
cancer/en/ WHO World Health Organization (2015). http://www. worldcancerday.org/ Asian Pacific Journal of Cancer Prevention, Vol 16, 2015
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Supplementary Figure 1 from Analyzing the Pivotal Trial That Compared Sunitinib and IFN-α in Renal Cell Carcinoma, Using a Method That Assesses Tumor Regression and Growth
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0012
.0024
.0012 SigD
p .0000
0
Evaluation #
3
6 erferon)
erferon)
SigDiff
p<=.0
.0012
.0016
g
.0008
.0012
.0000
.0004
700
Evaluation #
3
7 eron)
eron)
SigDi
p<
.0012
.0016
g
.0008
.0012
.0004 SigD
p .0000
0
Evaluation #
3
7 erferon)
erferon)
SigDiff
p<=.05
.0090
.0120
g
.0060
.0090
.0000
.0030
s)
3
500
Evaluation #
3
5.5
8 feron)
feron)
SigDif
p<=
.0090
.0120
g
.0060
.0090
.0030 SigDi
p< SigDi
p< .0000
500
Evaluation #
3
5.5 erferon)
erferon)
SigDiff
p<=.05
p>.05
.0045
.0060
g
.0030
.0045
.0000
.0015
600
Evaluation #
3
6.5
1 eron)
eron)
SigDif
p<=
p>. .0045
.0060
g
.0030
.0045
.0015 .0000
600
Evaluation #
3
6.5 erferon)
erferon)
SigDiff
p<=.05
p>.05
.0075
.0100
g
.0050
.0075
.0000
.0025
600
Evaluation #
3
6.5
1 feron)
feron)
SigDif
p<=
p>.0
.0075
.0100
g
.0050
.0075
.0025 .0000
600
Evaluation #
3
6.5 rferon)
rferon)
SigDiff
p<=.05
p>.05
.0060
.0080
g
.0040
.0060
.0000
.0020
500
Evaluation #
3
5.5
8 eron)
eron)
SigDif
p<=
p>. .0060
.0080
g
.0040
.0060
.0020 SigD
p<
p> .0000
500
Evaluation #
3
5.5
|
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https://europepmc.org/articles/pmc6349209?pdf=render
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English
| null |
The signal pathway for the repressive effect of dipyridamole on myofibroblast transdifferentiation
|
Journal of Cellular and Molecular Medicine
| 2,018
|
cc-by
| 3,471
|
1
|
INTRODUCTION junction formation, and exocytosis. In the present study, the effects
of dipyridamole against renal fibrosis, the late stage CKD, were
investigated in a system without platelet aggregation. In addition,
the mechanism by which dipyridamole exerted its effects was exam-
ined. Renal fibrosis is the common final pathway of various chronic kidney
diseases (CKDs), irrespective of the initial causes of nephropathy. Decline of renal function, glomerular filtration rate, has been exhib-
ited to be highly associated with the progression of tubulointerstitial
fibrosis.1 Fibrosis is considered to occur via a variety of events,
which increase the level of transforming growth factor‐β1 (TGF‐β1),
a profibrotic cytokine, in renal tissue. TGF‐β1 induces the emergence
of myofibroblasts, myofibroblast transdifferentiation, followed by the
accumulation of extracellular matrices such as type I collagen, ie,
fibrosis.2 The myofibroblast is characterized by the expression of
α‐smooth muscle actin (α‐SMA) in the cytoplasm. Thus, α‐SMA is
generally accepted as a marker of fibrosis.3-5 Dipyridamole is in clini-
cal use as an anti‐platelet agent. The reno‐protective effects exerted
by dipyridamole have been demonstrated in animal models6 and
humans with the early stage CKD.7 In almost all of these experi-
ments and studies, the amelioration effects of dipyridamole on pro-
teinuria were indicated to be mediated by the repression of platelet
aggregation which was generally recognized in CKD. S H O R T C O M M U N I C A T I O N S H O R T C O M M U N I C A T I O N 2.1
|
Reagents and cells H89, a selective PKA inhibitor, was purchased from Sigma‐Aldrich
(St Louis, MO, USA). 4‐methylphenyl‐2,4,6‐trimethylphenylsulfone
(ESI‐05), a selective Epac inhibitor, N6‐phenyladenosine‐3′,5′‐cyclic
monophosphate (Phe‐cAMP), a PKA activator, and 8‐bromo‐2′‐O‐
methyladenosine‐3′,5′‐cyclic
monophosphate‐acetoxymethyl
ester
(O‐Me‐cAMP), an Epac activator, were obtained from Biolog Life
Science (Bremen, Germany). NRK49F cells (normal rat kidney fibrob-
lasts) were provided by the RIKEN BRC through the National Bio‐
Resource Project of MEXT, Japan. Dipyridamole increases cAMP levels by inhibiting phosphodi-
esterase in a variety of cells including platelets. The cAMP acts
through three pathways of its downstream: protein kinase A (PKA),
exchange factor directly activated by cAMP (Epac),8 and cyclic
nucleotide‐gated (CNG) ion channels.9 In the Epac pathway, the
increased intracellular cAMP binds to Epac, a guanine nucleotide
exchange factor, followed by activation of the low molecular weight
G‐protein Rap. Epac contributes to numerous pathophysiological pro-
cesses, including proliferation, differentiation, cell adhesion, cell p
p
y
al of Cellular and Molecular Medicine published by John Wiley & Sons Ltd and Foundation for Cellular and Molecular Medicine. - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
This is an open access article under the terms of the Creative Commons Attribution License, which permits use, distribution and reproduction in any medium,
provided the original work is properly cited.
© 2018 The Authors. Journal of Cellular and Molecular Medicine published by John Wiley & Sons Ltd and Foundation for Cellular and Molecular Medicine.
1608 |
wileyonlinelibrary.com/journal/jcmm
J Cell Mol Med. 2019;23:1608–1612. Received: 26 December 2017 |
Revised: 10 October 2018 |
Accepted: 11 October 2018
DOI: 10.1111/jcmm.14006 Received: 26 December 2017 |
Revised: 10 October 2018 |
Accepted: 11 October 2018
DOI: 10.1111/jcmm.14006 Received: 26 December 2017 |
Revised: 10 October 2018 |
Accepted: 11 October 2018 DOI: 10.1111/jcmm.14006 1608 |
wileyonlinelibrary.com/journal/jcmm S H O R T C O M M U N I C A T I O N © 2018 The Authors. Journal of Cellular and Molecular Medicine published by John Wiley & Sons Ltd and Foundation for Ce - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
e under the terms of the Creative Commons Attribution License, which permits use, distribution and reproduction in any mediu
properly cited. g
p
p
y
e Authors. Journal of Cellular and Molecular Medicine published by John Wiley & Sons Ltd and Foundation for Cellular and Mo Qiong Yan | Keisuke Ina
| Seiichi Chiba | Huixing Wei | Shuji Tatsukawa |
Yoshihisa Fujikura Qiong Yan | Keisuke Ina
| Seiichi Chiba | Huixing Wei | Shuji Tatsukawa |
Yoshihisa Fujikura Department of Molecular Anatomy, Faculty of Medicine, Oita University, Yufu, Oita, Japan Correspondence
Keisuke Ina, Department of Molecular Anatomy, Faculty of Medicine, Oita University, Yufu, Oita, Japan. Email: kina@oita-u.ac.jp p
Keisuke Ina, Department of Molecular Anatomy, Faculty of Medicine, Oita University, Yufu, Oita, Japan. Email: kina@oita-u.ac.jp Funding information
This research did not receive any specific grant from funding agencies in the public, commercial, or not-for-profit sectors. addition of 2 ng/ml TGF‐β1. They were exposed to 3 μmol/L dipyri-
damole for 30 minutes before a treatment of TGF‐β1. They were
cultured for 48 hours after TGF‐β1 was added. Then cell lysates
were prepared by adding ice cold protein extraction reagent (modi-
fied RIPA) with proteinase inhibitors. They (10 μg protein) were
applied
by
10%
SDS‐PAGE
electrophoresis
and
blotted
to
a
polyvinylidene difluoride filter membrane. The membranes were
incubated with anti‐α‐SMA, or anti‐GAPDH antibody. The mem-
branes were then incubated with appropriate horseradish peroxi-
dase‐conjugated secondary antibodies. Immunoreactive bands were
visualized by using the ECL system, and the intensity of the bands
was measured by Image Quant TL (GE Healthcare, Buckinghamshire,
UK). were exposed to stimulants and/or inhibitors in the medium with
0.5% FBS. addition of 2 ng/ml TGF‐β1. They were exposed to 3 μmol/L dipyri-
damole for 30 minutes before a treatment of TGF‐β1. They were
cultured for 48 hours after TGF‐β1 was added. Then cell lysates
were prepared by adding ice cold protein extraction reagent (modi-
fied RIPA) with proteinase inhibitors. They (10 μg protein) were
applied
by
10%
SDS‐PAGE
electrophoresis
and
blotted
to
a
polyvinylidene difluoride filter membrane. The membranes were
incubated with anti‐α‐SMA, or anti‐GAPDH antibody. The mem-
branes were then incubated with appropriate horseradish peroxi-
dase‐conjugated secondary antibodies. Immunoreactive bands were
visualized by using the ECL system, and the intensity of the bands
was measured by Image Quant TL (GE Healthcare, Buckinghamshire,
UK). 2.3
|
Immunofluorescence microscopy In order to identify the cell type, a monolayer culture of the cells
was grown on a two‐well Labtek chamber slide (AS ONE, Osaka,
Japan). Cell cultures were divided into three groups: the control, the
2 ng/mL TGF‐β1, and the 2 ng/mL TGF‐β1 + 3 μmol/L dipyridamole
group. After treatments, the cells of each group were fixed in 4%
paraformaldehyde and subjected to indirect immunofluorescence
labelling for α‐SMA. In brief, the cells were permeabilized with 0.5%
Triton X‐100 in PBS for 20 minutes, washed with PBS, and incu-
bated with the primary antibody against α‐SMA (Sigma‐Aldrich, St
Louis, MO, USA; 1:800 dilution) for 2 hours at room temperature
(RT). After washing, they were incubated with FITC‐conjugated goat
anti‐mouse IgG secondary antibody (Caltag Laboratories, Burlingame,
CA, USA; 1:200 dilution) for 1 hour at RT, followed by DAPI nuclear
staining. After staining, the cells were rinsed, observed, and pho-
tographed using an Olympus BX 60 microscope equipped with epi‐
fluorescence optics. As a negative control, the primary antibody was
replaced with mouse nonimmune serum. 2.5 The cell lysates were subjected to RT‐PCR for α‐SMA at 24 hour
after the addition of TGF‐β1. Total RNA was isolated from the cells
using the RNeasy Mini kit (Qiagen, Hilden, Germany) according to
the manufacturer's instructions. cDNA was prepared using the Tran-
scriptor First Strand cDNA Synthesis kit (Roche Diagnostics, Basel,
Switzerland). Quantitative RT‐PCR was performed using the UPL
Probe PCR Master Mix and analysed with a Light Cycler 96 System
(Roche Diagnostics). All gene expression values were normalized
using GAPDH as a housekeeping gene. The primers of α-SMA used in
PCR amplification were from Roche Diagnostics and are as follows:
Forward
Primer
TGCCATGTATGTGGCTATTCA,
Reverse
Primer
ACCAGTTGTACGTCCAGAAGC. 2.2
|
Cell culture NRK49F cells were cultured in D‐MEM supplemented with 10% FBS
(JRH
Biosciences,
Lenexa,
KS,
USA),
100 IU/mL
penicillin
and
100 μg/mL streptomycin in a humidified 5% CO2‐95% atmospheric
air incubator at 37°C. Throughout this study, cells from passages 3
to 8 were used. Five × 104 cells were seeded in 1.5 mL medium
with 10% FBS and cultured for 24 hours. After washing, they were
preincubated in a serum‐free medium for 30 minutes. Then they J Cell Mol Med. 2019;23:1608–1612. 1609 YAN ET AL. YAN ET AL. 2.7
|
Statistics The amount of intracellular cAMP at 1 hour after addition of
dipyridamole was measured by using a cAMP enzyme immunoas-
say kit from Cayman Chemical according to the manufacturer's
instructions. Quantitative
data
were
compared
using
Wilcoxon's
test
or
Student's t test of the software package JMP (SAS Institute, Cary,
NC, USA). P‐values less than 0.05 were considered statistically
significant. FIGURE 2
Contribution of cAMP pathways to suppressive effects of dipyridamole on α‐SMA expression. A, Alteration of cAMP levels
in the cytoplasm yielded by dipyridamole. After incubation the lysates of the cells were subjected to EIA of cAMP. Bar graph shows
relative intracellular cAMP levels. *P < 0.01 vs control. B, Effect of the inhibitor of PKA or Epac pathway on α‐SMA expression. After
incubation with the reagents for 48 hours, the cell lysates were subjected to Western blots for α‐SMA. Representative Western blots and
relative quantification are provided. *P < 0.005 vs control;**P < 0.005 vs TGF‐β1 group; NS not significant vs TGF‐ β1 + dipyridamole
group; ***P < 0.01 vs TGF‐β1 + dipyridamole group. C, Effect of the activator of PKA or Epac pathway on α‐SMA expression. After
incubation with the reagents the cell lysates were subjected to Western blots for α‐SMA. Representative Western blots and relative
quantification of α‐SMA are shown. *P < 0.001 vs control; **P < 0.05; ***P < 0.001 vs TGF‐β1 group. D, Effect of the inhibitor or the
activator of Epac pathway on α‐SMA mRNA expression. The cell lysates were subjected to RT‐PCR. Bar graph shows relative values of
α‐SMA mRNA levels normalized to GAPDH signal. *P < 0.01 vs control; **P < 0.05 vs TGF‐ β1 group; ***P < 0.05 vs
TGF‐β1 + dipyridamole group FIGURE 2
Contribution of cAMP pathways to suppressive effects of dipyridamole on α‐SMA expression. A, Alteration of cAMP levels
in the cytoplasm yielded by dipyridamole. After incubation the lysates of the cells were subjected to EIA of cAMP. Bar graph shows
relative intracellular cAMP levels. *P < 0.01 vs control. B, Effect of the inhibitor of PKA or Epac pathway on α‐SMA expression. After
incubation with the reagents for 48 hours, the cell lysates were subjected to Western blots for α‐SMA. Representative Western blots and
relative quantification are provided. *P < 0.005 vs control;**P < 0.005 vs TGF‐β1 group; NS not significant vs TGF‐ β1 + dipyridamole
group; ***P < 0.01 vs TGF‐β1 + dipyridamole group. 1610 | 1610 | 1610 YAN ET AL. 2.4
|
Western blots The cells were exposed to inhibitors of cAMP pathways, 5 μmol/L
H89 or 3 μmol/L ESI‐05, and activators of cAMP pathways, 30 μmol/
L Phe‐cAMP or 10 μmol/L O‐Me‐cAMP for 1 hour before the 1
Effect of dipyridamole on
of α‐SMA. After incubation with
nts, the cells were subjected to
orescence or Western blots for
Immunofluorecence for α‐SMA
s treated with or without TGF‐β1
sence or absence of
ole. Bar = 30 μm. B, The
ell lysates from three groups
ected to immunoblot analysis
odies against α‐SMA and
The experiments were repeated
s, and one representative blot is
APDH reprobe is shown to
te lane load. The molecular
kD are on the left. Bar graph
tive α‐ SMA band densities
d to GAPDH signal.*P < 0.01 vs
P < 0.05 vs TGF‐β1 group FIGURE 1
Effect of dipyridamole on
expression of α‐SMA. After incubation with
the reagents, the cells were subjected to
immunofluorescence or Western blots for
α‐SMA. A, Immunofluorecence for α‐SMA
in the cells treated with or without TGF‐β1
in the presence or absence of
dipyridamole. Bar = 30 μm. B, The
NRK49F cell lysates from three groups
were subjected to immunoblot analysis
with antibodies against α‐SMA and
GAPDH. The experiments were repeated
three times, and one representative blot is
shown. GAPDH reprobe is shown to
demonstrate lane load. The molecular
weights in kD are on the left. Bar graph
shows relative α‐ SMA band densities
normalized to GAPDH signal.*P < 0.01 vs
control;**P < 0.05 vs TGF‐β1 group FIGURE 1
Effect of dipyridamole on
expression of α‐SMA. After incubation with
the reagents, the cells were subjected to
immunofluorescence or Western blots for
α‐SMA. A, Immunofluorecence for α‐SMA
in the cells treated with or without TGF‐β1
in the presence or absence of
dipyridamole. Bar = 30 μm. B, The
NRK49F cell lysates from three groups
were subjected to immunoblot analysis
with antibodies against α‐SMA and
GAPDH. The experiments were repeated
three times, and one representative blot is
shown. GAPDH reprobe is shown to
demonstrate lane load. The molecular
weights in kD are on the left. Bar graph
shows relative α‐ SMA band densities
normalized to GAPDH signal.*P < 0.01 vs
control;**P < 0.05 vs TGF‐β1 group 2.8 Immunofluorescence for α‐SMA revealed that TGF‐β1 induced, to a
large extent, expression of α‐SMA forming stress fibre (Figure 1A). Dipyridamole repressed TGF‐β1‐induced α‐SMA expression by the
normal range (almost none) as shown by immunofluorescence (Fig-
ure 1A) and Western blots for α‐SMA (Figure 1B). Dipyridamole
suppressed TGF‐β1‐induced myofibroblast transdifferentiation in the
in vitro system without platelets (Figure 1). To our knowledge, this
is the first report that dipyridamole exerted protective effects
against fibrosis corresponding to tubulointerstitial lesions in CKD. Dipyridamole caused the elevation of intracellular cAMP levels (Fig-
ure 2A). To determine which pathway of cAMP was involved in
the repressive effects of dipyridamole against fibrosis, the cells
were exposed to inhibitors or activators of each pathway. H89, a
selective PKA inhibitor, did not influence the suppressive action of
dipyridamole against TGF‐β1‐induced α‐SMA expression (Figure 2B). Also, N6‐Phenyl‐cAMP, a PKA activator, exacerbated TGF‐β1‐stimu-
lated α‐SMA expression (Figure 2C). These results may indicate that
even if PKA had been activated through cAMP levels elevated by
dipyridamole, it would not have suppressed TGF‐β1‐induced α‐SMA
expression. On the other hand, ESI‐05, a selective Epac inhibitor,
reduced the suppressive effect of dipyridamole on α‐SMA expres-
sion
induced
by
TGF‐β1
(Figure 2B,D). Besides,
8‐Br‐2′‐O‐Me‐
cAMP‐AM, an Epac activator, inhibited TGF‐β1‐induced myofibrob-
last transformation (Figure 2C,D). These data indicated that Epac
activation caused by dipyridamole blocked α‐SMA expression stimu-
lated by TGF‐β1. Taken together, the suppressive effects of dipyri-
damole against increased α‐SMA expression were considered to be
exerted via activation of the Epac pathway following elevation of
cAMP levels, while the adverse effect of PKA activation was, if
present, limited. There are some reports concerning the effects of
both pathways in the downstream of cAMP on fibrosis. Generally,
both the PKA and Epac pathways suppressed fibrosis.10 However,
the PKA activator was shown to attenuate fibrosis yielded by
exposure of pulmonary fibroblasts to TGF‐β1, while the Epac In conclusion, dipyridamole suppressed TGF‐β1‐induced α‐SMA
expression via Epac pathway activation. This protective effect of
dipyridamole against fibrosis was not mediated by platelet aggrega-
tion and was directly exerted on fibroblasts. The Epac pathway pro-
vides a new pharmacological approach of dipyridamole for treatment
of fibrosis in CKD. The authors confirm that there are no conflicts of interest. The authors confirm that there are no conflicts of interest. Keisuke Ina
http://orcid.org/0000-0001-8366-917X Keisuke Ina
http://orcid.org/0000-0001-8366-917X 2.7
|
Statistics C, Effect of the activator of PKA or Epac pathway on α‐SMA expression. After
incubation with the reagents the cell lysates were subjected to Western blots for α‐SMA. Representative Western blots and relative
quantification of α‐SMA are shown. *P < 0.001 vs control; **P < 0.05; ***P < 0.001 vs TGF‐β1 group. D, Effect of the inhibitor or the
activator of Epac pathway on α‐SMA mRNA expression. The cell lysates were subjected to RT‐PCR. Bar graph shows relative values of
α‐SMA mRNA levels normalized to GAPDH signal. *P < 0.01 vs control; **P < 0.05 vs TGF‐ β1 group; ***P < 0.05 vs
TGF‐β1 + dipyridamole group YAN ET AL. 1611 FIGURE 3
The diagram of the action
mechanism of dipyridamole. Dipyridamole
inhibits phosphodiesterase, followed by the
elevating level of intracellular cAMP. cAMP
stimulates Epac pathway, leading to
repression of TGF‐β1 signal pathway,
Smads pathway, which induces α‐SMA
expression. Thus, dipyridamole represses
myofibroblast transdifferentiation. PDE,
phosphodiesterase; TF, transcription factor FIGURE 3
The diagram of the action
mechanism of dipyridamole. Dipyridamole
inhibits phosphodiesterase, followed by the
elevating level of intracellular cAMP. cAMP
stimulates Epac pathway, leading to
repression of TGF‐β1 signal pathway,
Smads pathway, which induces α‐SMA
expression. Thus, dipyridamole represses
myofibroblast transdifferentiation. PDE,
phosphodiesterase; TF, transcription factor activator did not affect it.11 In contrast, it was demonstrated that
the PKA activator induced fibrosis by mesangial cells.12 The differ-
ent effects between the results of the present study and the find-
ings of these reports might be because of the difference in the
cells used. The question of which process of the TGF‐β1 signalling
pathways did dipyridamole block via Epac pathway activation will
be resolved in the next paper. AUTHORS CONTRIBUTIONS QY, KI, and YF conceived and supervised the study; QY, KI, and SC
designed experiments; QY, HW, and ST performed experiments; QY,
KI, and SC analysed data; QY, KI, and SC wrote the manuscript; QY,
KI, and YF made the manuscript revisions. ORCID Keisuke Ina
http://orcid.org/0000-0001-8366-917X 1612 | 1612 YAN ET AL. YAN ET AL. REFERENCES 1. Hodgkins KS, Schnaper HW. Tubulointerstitial injury and the pro-
gression of chronic kidney disease. Pediatr Nephrol. 2012;27:901‐
909. 2. Meng XM, Nikolic-Paterson DJ, Lan HY. TGF‐β: the master regulator
of fibrosis Nat Rev Nephrol. 2016;12:325‐338. 2. Meng XM, Nikolic-Paterson DJ, Lan HY. TGF‐β: the master regulator
of fibrosis Nat Rev Nephrol. 2016;12:325‐338. 3. Wipff PJ, Rifkin DB, Meister JJ, Hinz B. Myofibroblast contraction
activates latent TGF‐beta1 from the extracellular matrix. J Cell Biol. 2007;179:1311‐1323. 10. Insel PA, Murray F, Yokoyama U, et al. cAMP and Epac in the regu-
lation of tissue fibrosis. Br J Pharmacol. 2012;166:447‐456. 11. Ayabe S, Kido T, Hori M, et al. Prostaglandin D2 inhibits collagen
secretion from lung fibroblasts by activating the DP receptor. J Phar-
macol Sci. 2013;121:312‐317. 4. Hinz B. Myofibroblast. Exp Eye Res. 2016;142:56‐70. 5. Gillespie SR, Tedesco LJ, Wang L, Bemstein AM. The deubiquitylase
USP10 regulates integrin β1 and β5 and fibrotic wound healing. J Cell
Sci. 2017;130:3481‐3495. 12. Singh LP, Green K, Alexander M, et al. Hexosamines and TGF‐β1
use similar signaling pathways to mediate matrix protein synthesis
in mesangial cells. Am J Physiol Renal Physiol. 2004;286:F409‐
F416. 6. Balakumar P, Varatharajan R, Nyo YH, et al. Fenofibrate and dipyri-
damole treatments in low‐doses either alone or in combination
blunted the development of nephropathy in diabetic rats. Pharmacol
Res. 2014;90:36‐47. 7. Liu XJ, Geng YQ, Xin SN, et al. Antithrombotic drug therapy for IgA
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Med. 2011;50:2503‐2510. How to cite this article: Yan Q, Ina K, Chiba S, Wei H,
Tatsukawa S, Fujikura Y. The signal pathway for the
repressive effect of dipyridamole on myofibroblast
transdifferentiation. J Cell Mol Med. 2019;23:1608–1612. https://doi.org/10.1111/jcmm.14006 8. Rooij JD, Zwartkruis FT, Verheijen MHG, et al. Epac is a Rap 1 gua-
nine‐nucleotide‐exchange factor directly activated by cyclic AMP. Nature. 1998;396:474‐477. 9. Biel M, Michalakis S. Cyclic nucleotide‐gated channels. Handb Exp
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English
| null |
GLIPR1-ΔTM synergizes with docetaxel in cell death and suppresses resistance to docetaxel in prostate cancer cells
|
Molecular cancer
| 2,015
|
cc-by
| 10,661
|
* Correspondence: timthomp@mdanderson.org
†Equal contributors
1Department of Genitourinary Medical Oncology – Research, Unit 18-3, The
University of Texas MD Anderson Cancer Center, 1515 Holcombe Boulevard,
Houston, TX, USA
Full list of author information is available at the end of the article Abstract Background: Docetaxel is the first chemotherapy agent approved for treatment of metastatic castration-resistant
prostate cancer (mCRPC). The limited survival benefit associated with the quick emergence of resistance and systemic
toxicity diminished its efficacy. JNK-mediated apoptosis is one of the mechanisms of docetaxel activity whereas
ERK1/2-c-Myc-CXCR4 signaling is implicated in the development of resistance and induction of migration. The aim
of this study was to evaluate the hypothesis that the combination treatment with docetaxel and GLIPR1-ΔTM will
synergistically induce greater cell death and inhibit the emergence of resistance and development of metastatic
potential in prostate cancer (PCa) cells. Methods: The synergistic effects of the docetaxel and GLIPR1-ΔTM were evaluated with DNA fragmentation, DAPI
staining and MTS using paired t-test and isobologram study. The effects of the drugs on JNK and ERK1/2-c-Myc-CXCR4
signaling were evaluated with Western blot, DNA fragmentation, and MTS assays using the JNK inhibitor SP600125, and
CXCR4 siRNA. The results of docetaxel and GLIPR1-ΔTM combination on migration were examined with scratch assay
using the CXCR4 inhibitor AMD3100 while our hypothesis was examined in vivo using VCaP orthotopic xenograft model. Results: We found that GLIPR1-ΔΤΜ synergized with docetaxel to induce apoptosis in VCaP and PC-3 PCa cells through
induction of JNK signaling and concomitant inhibition of ERK1/2-c-Myc-CXCR4 signaling. We showed that JNK activation
mediates the apoptotic effects of the drug combination and that CXCR4 knockdown increases its efficacy. We also found
that the addition of GLIPR1-ΔΤΜ to docetaxel decreases the migration of VCaP and PC-3 cells. The combination
treatment with docetaxel and GLIPR1-ΔTM inhibited tumor growth and decreased metastatic potential in VCaP
xenografts more than single agents did. Conclusions: Our data suggested that addition of GLIPR1-ΔTM treatment in PCa cells increases the efficacy of
docetaxel and may inhibit the emergence of drug resistance; potentially permitting a decrease of docetaxel dose for
patients with mCRPC eliminating its systemic toxicities. Keywords: Prostate cancer, GLIPR1-ΔTM, Docetaxel, JNK, ERK1/2, c-Myc, CXCR4, Combination treatmen * Correspondence: timthomp@mdanderson.org
†Equal contributors
1Department of Genitourinary Medical Oncology – Research, Unit 18-3, The
University of Texas MD Anderson Cancer Center, 1515 Holcombe Boulevard,
Houston, TX, USA
Full list of author information is available at the end of the article © 2015 Karanika et al. This is an Open Access article distributed under the terms of the Creative Commons Attribution
License (http://creativecommons.org/licenses/by/4.0), which permits unrestricted use, distribution, and reproduction in
any medium, provided the original work is properly credited. GLIPR1-ΔTM synergizes with docetaxel in
cell death and suppresses resistance to
docetaxel in prostate cancer cells Styliani Karanika1†, Theodoros Karantanos1†, Shinji Kurosaka2†, Jianxiang Wang1, Takahiro Hirayama2, Guang Yang1,
Sanghee Park1, Alexei A. Golstov3, Ryuta Tanimoto4, Likun Li1 and Timothy C. Thompson1* RESEARCH
Open Access
GLIPR1-ΔTM synergizes with docetaxel in
cell death and suppresses resistance to
docetaxel in prostate cancer cells
Styliani Karanika1†, Theodoros Karantanos1†, Shinji Kurosaka2†, Jianxiang Wang1, Takahiro Hirayama2, Guang Yang1,
Sanghee Park1, Alexei A. Golstov3, Ryuta Tanimoto4, Likun Li1 and Timothy C. Thompson1*
Abstract
Karanika et al. Molecular Cancer (2015) 14:122
DOI 10.1186/s12943-015-0395-0 RESEARCH
Open Access
GLIPR1-ΔTM synergizes with docetaxel in
cell death and suppresses resistance to
docetaxel in prostate cancer cells
Styliani Karanika1†, Theodoros Karantanos1†, Shinji Kurosaka2†, Jianxiang Wang1, Takahiro Hirayama2, Guang Yang1,
Sanghee Park1, Alexei A. Golstov3, Ryuta Tanimoto4, Likun Li1 and Timothy C. Thompson1*
Abstract
Karanika et al. Molecular Cancer (2015) 14:122
DOI 10.1186/s12943-015-0395-0 Karanika et al. Molecular Cancer (2015) 14:122
DOI 10.1186/s12943-015-0395-0 Background signaling [17]. The same report showed that CXCR4 can,
in turn, activate ERK1/2; these signaling activities establish
a positive feedback resistance loop in response to doce-
taxel [17]. Overall, these findings support the concept that
activation of ERK1/2-c-Myc-CXCR4 pathway can promote
the development of resistance to docetaxel and potentially
inhibit the JNK apoptotic signaling. The survival of patients with metastatic castration-
resistant prostate cancer (mCRPC) remains poor despite
the introduction of novel antiandrogens such as enzaluta-
mide and abiraterone [1, 2]. Taxanes, in particular docetaxel
and cabazitaxel, are the only chemotherapy agents that have
been shown to increase survival in mCRPC patients
[3, 4] and recent evidence suggests that these agents
are particularly effective in patients with high Gleason
score primary disease [5]. Recently, cabazitaxel was shown to be effective in patients
who progressed under abiraterone and enzalutamide after
failure of docetaxel suggesting that taxanes may still be a
reasonable therapeutic approach for these patients [18]. The combination of docetaxel with a novel agent may be
the most reasonable approach to increase the apoptotic
effects of docetaxel and delay or inhibit the development of
resistance. Such combination therapy also has the potential
to reduce effective doses of docetaxel, thereby decreasing
the incidence of docetaxel side effects such as myelo-
suppression [19]. Numerous studies failed to show
improvement of docetaxel efficacy when it was com-
bined with other targeted agents such as dasatinib and
zibotentan [20, 21]. Despite the long period of docetaxel use, the exact
mechanism(s) of its function is not well-understood. Docetaxel is believed to stabilize microtubules by arresting
their de-polymerization, leading to disruption of normal
mitosis, G2/M arrest, and inhibition of cell proliferation
[6]. This agent inhibits Bcl-2 and Bcl-xL activity through
decreased gene expression and posttranslational phos-
phorylation, promoting apoptosis in PCa cells [6–8]. In
melanoma cells, docetaxel induces apoptosis through
activation of the c-Jun NH2-terminal kinase (JNK)
pathway, but it also activates the ERK1/2 (Extracellular
signal-regulated kinase 1/2) signaling which seems to
inhibit its apoptotic effects [9]. In addition, docetaxel
increases reactive oxygen species (ROS) production,
which promotes JNK activation in androgen receptor
(AR)- negative PCa cells [10]. Collectively, these data
suggest that docetaxel promotes cancer cell death
through apoptosis mediated by JNK activation. The gene encoding the human glioma pathogenesis-
related protein 1 (GLIPR1), a p53 target, is downregulated
in PCa due to methylation of its promoter [22, 23]. Li et al. Abstract The Creative Commons Public Domain Dedication waiver
(http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated Page 2 of 13 Karanika et al. Molecular Cancer (2015) 14:122 Background demonstrated that GLIPR1 upregulation leads to accumula-
tion of ROS and subsequent activation of the JNK pathway
and downregulation of Bcl-2 [24]. GLIPR1 was also found
to be associated with destablizing phosphorylation of β-
catenin and c-Myc, leading to their degradation [25]. Our
group recently showed that GLIPR1-ΔTM is selectively
taken up by PCa cells; activates apoptosis through ROS
accumulation; and downregulates c-Myc [26]. Collectively,
these results indicate that GLIPR1-ΔTM may be a good
candidate for combination therapy with docetaxel, since it
promotes PCa specific cell death through JNK activation,
whereas it downregulates c-Myc signaling which has been
extensively associated with the emergence of resistance to
docetaxel through ERK1/2-c-Myc-CXCR4 signaling. Even when mCRPC initially responds to treatment with
docetaxel, the disease eventually becomes resistant, which
can be attributed to numerous molecular mechanisms
according to recent studies in different types of cancer. Mhaidat et al. demonstrated that in melanoma cells
treated with docetaxel, activation of PKCδ is associated
with proapoptotic responses through JNK activation, as
mentioned above, while activation of PKCε enhances pro-
survival signaling through ERK1/2 activation [11]. These
results indicate that under docetaxel treatment, one
pathway downstream of PKC may lead to apoptosis
and another associated with ERK signaling may lead
to cell survival and resistance to docetaxel. Of note,
multiple recent reports demonstrated opposed effects and
negative crosstalk between JNK and ERK1/2 signaling
[12–15], suggesting that ERK1/2 activation by doce-
taxel may inhibit its JNK-mediated apoptotic effects. Leonetti et al. found that treatment combining docetaxel
with antisense oligodeoxynucleotides against Bcl-2 and
c-Myc led to lower PC-3 cell survival in vitro, and
had higher antitumor efficacy in PC-3 xenografts, than did
docetaxel alone, suggesting that Bcl-2 and c-Myc upregu-
lation may promote resistance to docetaxel as well [16]. Finally, a recent report showed that docetaxel induces the
activation of ERK, which stabilizes c-Myc protein, and
stimulates CXCR4 (C-X-C chemokine receptor type 4) In the current study, we report that GLIPR1-ΔΤΜ
increases the sensitivity of PCa cells to docetaxel in a syn-
ergistic way through additive induction of JNK-mediated
apoptosis in VCaP and PC-3 cells and concurrent inhib-
ition of ERK1/2-c-Myc-CXCR4-mediated development of
resistance. The addition of GLIPR1-ΔTM to docetaxel was
found to decrease the migration of PCa cells while this
combination additively decreased tumor growth and
metastatic potential in VCaP xenografts. GLIPR1-ΔΤΜ and docetaxel synergistically decreased
survival of VCaP and PC-3 cells in vitro To test the hypothesis that GLIPR1-ΔTM sensitizes PCa
cells to docetaxel, we used VCaP cells and PC-3 cells. Both cell lines were derived from bone metastases of Page 3 of 13 Karanika et al. Molecular Cancer (2015) 14:122 Karanika et al. Molecular Cancer (2015) 14:122 Docetaxel significantly decreased survival of normal
prostate cells (RWPE-1) even at the lowest (0.5nM) concen-
tration (p < 0.0001) (Fig. 1a). At 2.5 μg/ml GLIPR1-ΔΤΜ
resulted in significantly decreased survival of VCaP
cells (p = 0.002), and at 10 μg/ml resulted in significantly
decreased survival of PC-3 cells (p = 0.0005) compared to
control treatment (Fig. 1b). The IC50 was 34.8 μg/ml for
VCaP cells and 154 μg/ml for PC-3 cells. Interestingly,
only 160 μg/ml GLIPR1-ΔTM decreased survival of
normal prostate cells (RWPE-1) (p = 0.002) (Fig. 1b),
which is consistent with our previous results [25] showing
that GLIPR1-ΔTM is selectively taken up by cancerous
cells, promoting their apoptosis, while normal prostate
cells are not sensitive to this agent. PCa. VCaP cells were derived from a patient with mCRPC,
while PC-3 cells are androgen receptor-negative metastatic
PCa cells. We also included RWPE-1 cells, which are
epithelial cells derived from the peripheral zone of an
histologically normal adult human prostate and transfected
with a single copy of human papillomavirus 18 [26]. The
three cell lines were treated for 48 h with various concen-
trations of docetaxel (0.5, 1, 2, 5, 10, 20, 50, 75, and 100nM)
and GLIPR1-ΔΤΜ (1, 2, 5, 10, 20, 40, 80,and 160 μg/ml) in
different serum concentrations (0.1 % for PC-3 cells and
0.5 % for VCaP and RWPE-1 cells), and MTS assay was
performed to evaluate the dose response and the IC50 for
each single-agent treatment. At a concentration of 0.5nM,
docetaxel resulted in significantly lower survival of both
PCa cell lines (p = 0.004 for VCaP cells, p = 0.03 for PC-3
cells) than did the control treatment (Fig. 1a). The IC50
was 69.8nM for VCaP cells and 70.5nM for PC-3 cells. To investigate the potential synergy of docetaxel and
GLIPR1-ΔTM in inducing anti-cancer effects, we treated
VCaP and PC-3 cells with various combinations of the Fig. 1 GLIPR1-ΔTM reduced VCaP and PC-3 cells’ survival synergistically with docetaxel. a. Docetaxel dose–response curves of VCaP, PC-3, and
RWPE-1 cells treated for 48 h, determined using MTS assay. At 0.5nM, docetaxel significantly decreased cell survival in the three cell lines. GLIPR1-ΔΤΜ and docetaxel synergistically decreased
survival of VCaP and PC-3 cells in vitro The
IC50 was 69.8nM for VCaP cells and 70.5nM for PC-3 cells. b. GLIPR1-ΔTM dose–response curves of VCaP, PC-3, and RWPE-1 cells treated for 48 h,
determined using MTS assay. At 2.5 μg/ml and 10 μg/ml, GLIPR1-ΔTM significantly decreased survival of VCaP and PC-3 cells, respectively. Only
160 μg/ml decreased survival of RWPE-1 cells. The IC50 was 34.8 μg/ml for VCaP cells and 154 μg/ml for PC-3 cells. c. The addition of 10 μg/ml
GLIPR1-ΔTM increased the efficacies of all doses of docetaxel in inhibiting VCaP cells’ survival, based on MTS assay. d. The addition of 10 μg/ml
GLIPR1-ΔTM increased the efficacies of 0.5, 1, and 2nM docetaxel in inhibiting PC-3 cells’ survival as determined by MTS assay, and the addition of
80 μg/ml GLIPR1-ΔTM increased the efficacies of 10, 20, and 50nM docetaxel. e. Isobologram analysis showed that GLIPR1-ΔTM and docetaxel
synergistically induced cell death in VCaP cells. f. Isobologram analysis showed that GLIPR1-ΔTM and docetaxel induced cell death synergistically
in PC-3 cells. The results are presented as the mean ± standard error from at least three independent experiments Fig. 1 GLIPR1-ΔTM reduced VCaP and PC-3 cells’ survival synergistically with docetaxel. a. Docetaxel dose–response curves of VCaP, PC-3, and
RWPE-1 cells treated for 48 h, determined using MTS assay. At 0.5nM, docetaxel significantly decreased cell survival in the three cell lines. The
IC50 was 69.8nM for VCaP cells and 70.5nM for PC-3 cells. b. GLIPR1-ΔTM dose–response curves of VCaP, PC-3, and RWPE-1 cells treated for 48 h,
determined using MTS assay. At 2.5 μg/ml and 10 μg/ml, GLIPR1-ΔTM significantly decreased survival of VCaP and PC-3 cells, respectively. Only
160 μg/ml decreased survival of RWPE-1 cells. The IC50 was 34.8 μg/ml for VCaP cells and 154 μg/ml for PC-3 cells. c. The addition of 10 μg/ml
GLIPR1-ΔTM increased the efficacies of all doses of docetaxel in inhibiting VCaP cells’ survival, based on MTS assay. d. The addition of 10 μg/ml
GLIPR1-ΔTM increased the efficacies of 0.5, 1, and 2nM docetaxel in inhibiting PC-3 cells’ survival as determined by MTS assay, and the addition of
80 μg/ml GLIPR1-ΔTM increased the efficacies of 10, 20, and 50nM docetaxel. e. Isobologram analysis showed that GLIPR1-ΔTM and docetaxel
synergistically induced cell death in VCaP cells. f. Isobologram analysis showed that GLIPR1-ΔTM and docetaxel induced cell death synergistically
in PC-3 cells. GLIPR1-ΔTM increased the apoptotic effect of docetaxel
in VCaP and PC-3 cells Given the known apoptotic effects of GLIPR1-ΔTM
and docetaxel in PCa cells, we hypothesized that the
decreased survival of PCa cells treated with combina-
tions of these two agents is mainly due to increased
apoptosis. To test this hypothesis, we used DAPI
staining and DNA fragmentation assay to examine
apoptosis
in
VCaP
and
PC-3
cells. We
included
RWPE-1 cells as a control. VCaP and RWPE-1 cells
were treated with 0.5 % serum-containing medium for
24 h, and PC-3 cells were treated with 0.1 % serum-
containing medium for 24 h. Then, cells were treated
with various concentrations of GLIPR1-ΔTM (0, 10,
20, and 40 μg/ml) for 1 h followed by addition of
various concentrations of docetaxel (0, 0.5, 1, 2, 5,
and 10nM). Forty-eight hours later, DAPI staining was
evaluated. At 10 μg/ml, GLIPR1-ΔTM in combination
with all docetaxel concentrations significantly increased
the percentage of apoptotic VCaP cells (p < 0.001) (Fig. 2a). In PC-3 cells, 10 μg/ml GLIPR1-ΔTM significantly
increased the apoptotic effects of 0.5nM (p = 0.014) and
10nM (p = 0.033) docetaxel, while 20 μg/ml GLIPR1-ΔTM
significantly increased the apoptosis induced by 1nM
docetaxel (p = 0.016) and 40 μg/ml GLIPR1-ΔΤΜ increased
the apoptotic effect of 2nM docetaxel (p = 0.0095) (Fig. 2b). In RWPE-1 cells, GLIPR1-ΔTM did not increase the
apoptosis induced by any dose of docetaxel, which is
consistent with the results of the cell survival assay and
our previous data showing that GLIPR1-ΔTM selectively
induces apoptosis in PCa cells but not in normal prostate
cells. In RWPE-1 cells, 1nM docetaxel induced apoptosis
(p = 0.0025) (Fig. 2c). We next investigated the effect of the combination of
1nM docetaxel and 10 μg/ml GLIPR1-ΔTM on JNK and
ERK1/2-c-Myc-CXCR4 signaling at 24 h for VCaP cells
and 48 h for PC-3 cells. In order to evaluate the role of
JNK signaling in apoptosis and ERK1/2-c-Myc-CXCR4
loop, we included the JNK inhibitor SP600125 in these
experiments, a known agent which acts through inhibiting
JNK phosphorylation [27]. VCaP and PC-3 cells were
treated with 0.5 % or 0.1 % serum-containing medium, re-
spectively, for 24 h. Then, cells were treated with 10 μg/ml
GLIPR1-ΔTM for 1 h followed by addition of 1nM doce-
taxel with or without 1 μM SP600125 for 24 or 48 h. Western blot experiments were conducted at least three
times and our results reflect at least three independ-
ent experiments. Combination treatment with docetaxel and GLIPR1-ΔTM
induced JNK signaling and inhibited the docetaxel-induced
ERK1/2-c-Myc-CXCR4 signaling resistance loop, increasing
apoptosis through maximal JNK activation We have previously demonstrated that endogenous
GLIPR1 activates JNK signaling [22] and docetaxel was
also found to induce JNK signaling and subsequent
apoptosis in melanoma cells [9]. Initially, we hypothesized
that the greater apoptotic effect of the combination of these
two agents is mediated by JNK activation and inhibition of
ERK1/2-c-Myc-CXCR4 signaling by GLIPR1-ΔTM. To
test this hypothesis, we initially examined the effect of com-
bination treatment on JNK and ERK1/2-c-Myc-CXCR4
signaling. To select the right time-point for this evaluation
during treatment using the lowest effective doses, we
examined survival of VCaP and PC-3 cells treated
with 1, 2, or 5nM docetaxel or 10, 20, or 40 μg/ml
GLIPR1-ΔTM. The time-response curves were different
in VCaP and PC-3 cells. In particular, 1nM docetaxel and
10 μg/ml GLIPR1-ΔTM significantly decreased the
survival of VCaP cells at 24 h (p = 0.03 for docetaxel
and p = 0.001 for GLIPR1-ΔTM) (Fig. 3a) and the sur-
vival of PC-3 cells at 48 h (p < 0.001 for docetaxel
and p = 0.007 for GLIPR1-ΔTM) (Fig. 3b). GLIPR1-ΔΤΜ and docetaxel synergistically decreased
survival of VCaP and PC-3 cells in vitro The results are presented as the mean ± standard error from at least three independent experiments Page 4 of 13 Karanika et al. Molecular Cancer (2015) 14:122 two agents: 0.5, 1, 2, 5, 10, 20, 50, and 75nM docetaxel
in both cell lines; 0, 10, 20, and 40 μg/ml GLIPR1-ΔTM in
VCaP cells; and 0, 10, 20, 40, and 80 μg/ml GLIPR1-ΔTM
in PC-3 cells. At 10 μg/ml, GLIPR1-ΔTM significantly
increased the efficacy of docetaxel in VCaP cells at all
docetaxel doses (Fig. 1c) and significantly increased the
efficacy of docetaxel at 0.5, 1, and 2nM docetaxel in PC-3
cells (Fig. 1d). At 80 μg/ml, GLIPR1-ΔTM signifi-
cantly increased the efficacy of higher doses of docetaxel
(10, 20, and 50nM) (Fig. 1d). for 10nM docetaxel) (Fig. 2d). In PC-3 cells, 10 μg/ml
GLIPR1-ΔTM enhanced the apoptotic effects of all doses
of docetaxel (p = 0.001 for 0.5nM docetaxel; p < 0.001 for 1,
2, 5, and 10nM docetaxel) (Fig. 2e). GLIPR1-ΔTM did not
increase the apoptotic effects of any docetaxel doses in
RWPE-1 cells, in which 0.5nM docetaxel induced apoptosis
(p = 0.0094) (Fig. 2f). Collectively, these results demon-
strated that GLIPR1-ΔTM enhanced the apoptotic activity
of docetaxel in VCaP and PC-3 PCa cells without substan-
tially affecting normal prostate cells. for 10nM docetaxel) (Fig. 2d). In PC-3 cells, 10 μg/ml
GLIPR1-ΔTM enhanced the apoptotic effects of all doses
of docetaxel (p = 0.001 for 0.5nM docetaxel; p < 0.001 for 1,
2, 5, and 10nM docetaxel) (Fig. 2e). GLIPR1-ΔTM did not
increase the apoptotic effects of any docetaxel doses in
RWPE-1 cells, in which 0.5nM docetaxel induced apoptosis
(p = 0.0094) (Fig. 2f). Collectively, these results demon-
strated that GLIPR1-ΔTM enhanced the apoptotic activity
of docetaxel in VCaP and PC-3 PCa cells without substan-
tially affecting normal prostate cells. To evaluate whether the effects of combination treat-
ments on survival were super-additive (synergistic), 50 %
of maximum efficacy was used to determine the fixed
ratio, and multiple combination doses with the same
efficacy were included. Isobologram analysis showed
that the effects were synergistic (Fig. 1e, f). Combination treatment with docetaxel and GLIPR1-ΔTM
induced JNK signaling and inhibited the docetaxel-induced
ERK1/2-c-Myc-CXCR4 signaling resistance loop, increasing
apoptosis through maximal JNK activation GLIPR1-ΔTM increased the apoptotic effect of docetaxel
in VCaP and PC-3 cells GLIPR1-ΔΤΜ did not
increase the apoptotic effect of any docetaxel dose in RWPE-1 cells, while 0.5nM docetaxel significantly increased the percentage of apoptotic cells,
based on DNA fragmentation. The results are presented as the mean ± standard error from at least three independent experiments Fig. 2 GLIPR1-ΔTM increased the apoptotic effect of docetaxel in VCaP and PC-3 cells. a. The addition of 10 μg/ml GLIPR1-ΔΤΜ increased the
apoptotic effects of all docetaxel’s doses in VCaP cells, measured by DAPI staining. b. The addition of 10 μg/ml GLIPR1-ΔΤΜ increased the
apoptotic effects of all docetaxel doses in PC-3 cells, measured by DAPI staining. c. GLIPR1-ΔΤΜ did not increase the apoptotic effect of any
docetaxel dose in RWPE-1 cells, while 1nM docetaxel significantly increased the percentage of apoptotic cells, based on DAPI staining. d. The addition
of 10 μg/ml GLIPR1-ΔΤΜ increased the apoptotic effects of all docetaxel doses in VCaP cells, measured by DNA fragmentation. e. The addition of
10 μg/ml GLIPR1-ΔΤΜ increased the apoptotic effects of all docetaxel doses in PC-3 cells, measured by DNA fragmentation. f. GLIPR1-ΔΤΜ did not
increase the apoptotic effect of any docetaxel dose in RWPE-1 cells, while 0.5nM docetaxel significantly increased the percentage of apoptotic cells,
based on DNA fragmentation. The results are presented as the mean ± standard error from at least three independent experiments the combination of docetaxel and GLIPR1-ΔTM was sig-
nificantly increased when SP600125 was added (p < 0.001
for both cell lines) according to MTS assay. Additionally,
in PC-3 cells, we also found that the addition of SP600125
increased the survival when added to docetaxel (p = 0.048)
which is consistent with the JNK-mediated apoptotic
effect of docetaxel. Through DNA fragmentation assay,
we found that the addition of SP600125 decreased the
apoptotic effect of docetaxel (p < 0.001 for VCaP and
PC-3 cells), GLIPR1-ΔTM (p < 0.001 for VCaP cells
and p = 0.002 for PC-3 cells) and combination therapy
(p < 0.001 for VCaP and PC-3 cells). Collectively, these
data suggested that docetaxel and GLIPR1-ΔΤΜ com-
bination treatment synergistically increased apoptosis
by maximal activation of JNK, together with suppres-
sion of ERK1/2 signaling, which further increased JNK
signaling through a derepression mechanism. Finally, the when used as single agents (Fig. 4a, b). GLIPR1-ΔTM increased the apoptotic effect of docetaxel
in VCaP and PC-3 cells The quantitative data are presented
as supplementary data (Additional file 1: Figure S1). Representative blots are presented in the Fig. 4. Combin-
ation treatment increased JNK phosphorylation in VCaP
and PC-3 cells more than docetaxel or GLIPR1-ΔTM did According to DNA fragmentation assay, 10 μg/ml
GLIPR1-ΔTM in combination with all docetaxel doses
increased apoptosis in VCaP cells (p = 0.0014 for 0.5, 1, and
2nM docetaxel; p = 0.0028 for 5nM docetaxel; p = 0.0012 Page 5 of 13 Page 5 of 13 Karanika et al. Molecular Cancer (2015) 14:122 Fig. 2 GLIPR1-ΔTM increased the apoptotic effect of docetaxel in VCaP and PC-3 cells. a. The addition of 10 μg/ml GLIPR1-ΔΤΜ increased the
apoptotic effects of all docetaxel’s doses in VCaP cells, measured by DAPI staining. b. The addition of 10 μg/ml GLIPR1-ΔΤΜ increased the
apoptotic effects of all docetaxel doses in PC-3 cells, measured by DAPI staining. c. GLIPR1-ΔΤΜ did not increase the apoptotic effect of any
docetaxel dose in RWPE-1 cells, while 1nM docetaxel significantly increased the percentage of apoptotic cells, based on DAPI staining. d. The addition
of 10 μg/ml GLIPR1-ΔΤΜ increased the apoptotic effects of all docetaxel doses in VCaP cells, measured by DNA fragmentation. e. The addition of
10 μg/ml GLIPR1-ΔΤΜ increased the apoptotic effects of all docetaxel doses in PC-3 cells, measured by DNA fragmentation. f. GLIPR1-ΔΤΜ did not
increase the apoptotic effect of any docetaxel dose in RWPE-1 cells, while 0.5nM docetaxel significantly increased the percentage of apoptotic cells,
based on DNA fragmentation. The results are presented as the mean ± standard error from at least three independent experiments Fig. 2 GLIPR1-ΔTM increased the apoptotic effect of docetaxel in VCaP and PC-3 cells. a. The addition of 10 μg/ml GLIPR1-ΔΤΜ increased the
apoptotic effects of all docetaxel’s doses in VCaP cells, measured by DAPI staining. b. The addition of 10 μg/ml GLIPR1-ΔΤΜ increased the
apoptotic effects of all docetaxel doses in PC-3 cells, measured by DAPI staining. c. GLIPR1-ΔΤΜ did not increase the apoptotic effect of any
docetaxel dose in RWPE-1 cells, while 1nM docetaxel significantly increased the percentage of apoptotic cells, based on DAPI staining. d. The addition
of 10 μg/ml GLIPR1-ΔΤΜ increased the apoptotic effects of all docetaxel doses in VCaP cells, measured by DNA fragmentation. e. The addition of
10 μg/ml GLIPR1-ΔΤΜ increased the apoptotic effects of all docetaxel doses in PC-3 cells, measured by DNA fragmentation. f. GLIPR1-ΔTM increased the apoptotic effect of docetaxel
in VCaP and PC-3 cells Based on our
Western blot data, docetaxel alone increased the ERK1/2
phosphorylation (modestly in VCaP cells), and c-Myc and
CXCR4 protein levels whereas the combination treatment
reduced ERK1/2 phosphorylation and c-Myc and CXCR4
protein levels in both cell lines. In contrast, the
addition of SP600125 to the combination treatment
increased ERK1/2 phosphorylation and protein levels
of c-Myc and CXCR4 (Fig. 4a, b). To further test our hypothesis that JNK mediates the
apoptotic effects of docetaxel and GLIPR1-ΔΤΜ com-
bination treatment, we treated VCaP and PC-3 cells with
DMSO, docetaxel, GLIPR1-ΔΤΜ or combination treat-
ment with or without JNK inhibitor, SP600125, and per-
formed MTS and DNA fragmentation assays to evaluate
survival and apoptosis, respectively. We found that the
percentage of survived VCaP and PC-3 cells treated with Karanika et al. Molecular Cancer (2015) 14:122 Page 6 of 13 Fig. 3 Time-dependent curves of docetaxel and GLIPR1-ΔTM efficacies in VCaP and PC-3 cells treated with 1, 2, or 5nM docetaxel or 10, 20, or
40 μg/ml GLIPR1-ΔTM. a,b. 1nM docetaxel and 10 μg/ml GLIPR1-ΔΤΜ significantly decreased survival of VCaP cells at 24 h (p = 0.03 for docetaxel
and p = 0.001 for GLIPR1-ΔTM). c,d. Time-dependent curves of docetaxel and GLIPR1-ΔTM efficacies in PC-3 cells treated with 1, 2, or 5nM
docetaxel or 10, 20, or 40 μg/ml GLIPR1-ΔTM showed that 1nM docetaxel and 10 μg/ml GLIPR1-ΔΤΜ significantly decreased survival of these
cells at 48 h (p < 0.001 for docetaxel and p = 0.007 for GLIPR1-ΔTM). The results are presented as the mean ± standard error from at least three
independent experiments Fig. 3 Time-dependent curves of docetaxel and GLIPR1-ΔTM efficacies in VCaP and PC-3 cells treated with 1, 2, or 5nM docetaxel or 10, 20, or
40 μg/ml GLIPR1-ΔTM. a,b. 1nM docetaxel and 10 μg/ml GLIPR1-ΔΤΜ significantly decreased survival of VCaP cells at 24 h (p = 0.03 for docetaxel
and p = 0.001 for GLIPR1-ΔTM). c,d. Time-dependent curves of docetaxel and GLIPR1-ΔTM efficacies in PC-3 cells treated with 1, 2, or 5nM
docetaxel or 10, 20, or 40 μg/ml GLIPR1-ΔTM showed that 1nM docetaxel and 10 μg/ml GLIPR1-ΔΤΜ significantly decreased survival of these
cells at 48 h (p < 0.001 for docetaxel and p = 0.007 for GLIPR1-ΔTM). GLIPR1-ΔTM increased the apoptotic effect of docetaxel
in VCaP and PC-3 cells The results are presented as the mean ± standard error from at least three
independent experiments docetaxel (p < 0.001), GLIPR1-ΔΤΜ (p < 0.001) and com-
bination (p = 0.041) (Fig. 5b) in VCaP cells. According to
DNA fragmentation assay, we found that knockdown of
CXCR4 increased the apoptotic effect of docetaxel
(p < 0.001), GLIPR1-ΔΤΜ (p < 0.001) and combination
(p = 0.01) in VCaP cells (Fig. 5c). In PC-3 cells, we found
that CXCR4 downregulation reduced the survival of
cells treated with docetaxel (p < 0.001), GLIPR1-ΔΤΜ
(p < 0.001) and combination (p < 0.001) (Fig. 5d). According
to DNA fragmentation assay, we found that CXCR4
knockdown increased the apoptotic effect of docetaxel
(p < 0.001), GLIPR1-ΔΤΜ (p < 0.001) and combination
(p < 0.001) in PC-3 cells (Fig. 5e). These data suggested
that CXCR4 downregulation further potentiated the apop-
totic effect of each single agent and their combination as
well, when was combined with them, confirming that the
inhibition
of
the
ERK1/2-c-Myc-CXCR4
resistance
pathway led to increased apoptosis. In our proposed
combination treatment, GLIPR1-ΔΤΜ worked as the
key molecule which reduced CXCR4 levels through
suppression of ERK1/2-c-Myc, and consequently maximally
increased JNK-induced apoptotic signaling stimulated by
docetaxel through ERK1/2 downregulation and JNK dere-
pression. Given the known role of CXCR4 as an inducer of
migration and metastasis in PCa [28], and based on our re-
sults that GLIPR1-ΔTM inhibited the docetaxel-induced
ERK1/2-c-Myc-CXCR4 signaling, we evaluated the hypoth-
esis that the combination of GLIPR1-ΔΤΜ and docetaxel ERK1/2-c-Myc-CXCR4 docetaxel-induced resistance loop
[17], was downregulated by the drug combination which
led to reduced migration activity. CXCR4 knockdown potentiated the apoptotic effects of
docetaxel and the combination treatment with docetaxel
and GLIPR1-ΔTM decreased the migration of VCaP and
PC-3 cells We showed that the addition of GLIPR1-ΔTM decreased
the docetaxel-mediated ERK1/2-c-Myc-CXCR4 induc-
tion in VCaP and PC-3 cells. GLIPR1-ΔΤΜ was ex-
pected to further activate the apoptosis and inhibited the
development of resistance through this pathway. We
evaluated the effects of the CXCR4 downregulation on
docetaxel and GLIPR1-ΔTM treatment in terms of
apoptosis and survival of VCaP and PC-3 cells. Thus, we
treated VCaP and PC-3 cells with CXCR4si7 and
CXCR4si8 siRNAs for 48 h and found that the most
effective siRNA in terms of downregulation of CXCR4 is
the CXCR4si7. Consequently, we treated VCaP and PC-
3 cells with CXCR4si7 for 24 h and then treated them
with GLIPR1-ΔΤΜ and docetaxel for 24 and 48 h as
described above. Western blot experiments were con-
ducted three times and the quantitative data are presented
as supplementary data (Additional file 1: Figure S1). We
evaluated the survival with MTS assay and apoptosis with
DNA fragmentation assay. We found that the treatment
with CXCR4si reduced the survival of cells treated with Page 7 of 13 Karanika et al. Molecular Cancer (2015) 14:122 Fig. 4 GLIPR1-ΔΤΜ synergized with docetaxel in activating JNK/c-Jun through JNK phosphorylation, whereas addition of GLIPR1-ΔΤΜ to
docetaxel reduced ERK1/2 signaling. a,b. VCaP and PC-3 cells were treated with 1nM docetaxel, 10 μg/ml GLIPR1-ΔTM, or both and then, we
added JNK inhibitor (SP600125) 1 μΜ to single agents or to their combination. Total treatment administration lasted for 24 h (VCaP cells) or
48 h (PC-3 cells), and the effects on JNK and ERK1/2 signaling were evaluated via western blot. JNK phosphorylation was increased synergistically
with the combination of docetaxel and GLIPR1-ΔΤΜ, a pathway that leads to apoptosis; whereas ERK1/2 phosphorylation, which results in drug
resistance and migration through c-Myc-CXCR4, was reduced by administration of this combination. These activities were reversed by the JNK
inhibitor, SP600125. Western blot experiments were conducted three times and the quantitative data are presented as supplementary data. c,d. Under the same conditions and treatments in both cell lines, we performed MTS and DNA fragmentation assay to evaluate the percentage of
survived cells and cell apoptosis, respectively. CXCR4 knockdown potentiated the apoptotic effects of
docetaxel and the combination treatment with docetaxel
and GLIPR1-ΔTM decreased the migration of VCaP and
PC-3 cells We found that, in both cell lines, the combination treatment of docetaxel and GLIPR1-ΔΤΜ resulted
in statistically significant decrease in the percentage of survived cells and increase of apoptotic cells (VCaP: p < 0.001 compared to both single
agents in MTS assay, p = 0.02 compared to GLIPR1-ΔΤΜ and p < 0.001 compared to docetaxel according to DNA fragmentation assay, PC-3:
p = 0.001 compared to both single agents in MTS assay, p < 0.001 compared to both single agents according to DNA fragmentation assay) but this
observation was reversed significantly when we added the JNK inhibitor (SP600125) to the combination docetaxel and GLIPR1-ΔΤΜ (p < 0.001 for both
cells lines according to both techniques). The results are presented as the mean ± standard error from at least three independent experiments. e. Signaling effects of the combination treatment of docetaxel and GLIPR1-ΔΤΜ. Docetaxel induces JNK phosphorylation (apoptosis pathway); whereas
it concomitantly induces ERK1/2 phoshorylation (drug resistance and migration pathway). JNK and ERK1/2 pathways can demonstrate reciprocal
inhibition. GLIPR-ΔΤΜ induces JNK signaling but inhibits the ERK1/2-c-Myc-CXCR4 resistance loop. Thus, docetaxel and GLIPR1-ΔΤΜ combination
treatment leads to JNK pathway dominance over the ERK1/2 pathway, and apoptosis dominates over drug resistance and invasion/migration Fig. 4 GLIPR1-ΔΤΜ synergized with docetaxel in activating JNK/c-Jun through JNK phosphorylation, whereas addition of GLIPR1-ΔΤΜ to Fig. 4 GLIPR1-ΔΤΜ synergized with docetaxel in activating JNK/c-Jun through JNK phosphorylation, whereas addition of GLIPR1-ΔΤΜ to
docetaxel reduced ERK1/2 signaling. a,b. VCaP and PC-3 cells were treated with 1nM docetaxel, 10 μg/ml GLIPR1-ΔTM, or both and then, we
added JNK inhibitor (SP600125) 1 μΜ to single agents or to their combination. Total treatment administration lasted for 24 h (VCaP cells) or
48 h (PC-3 cells), and the effects on JNK and ERK1/2 signaling were evaluated via western blot. JNK phosphorylation was increased synergistically
with the combination of docetaxel and GLIPR1-ΔΤΜ, a pathway that leads to apoptosis; whereas ERK1/2 phosphorylation, which results in drug
resistance and migration through c-Myc-CXCR4, was reduced by administration of this combination. These activities were reversed by the JNK
inhibitor, SP600125. Western blot experiments were conducted three times and the quantitative data are presented as supplementary data. c,d. Under the same conditions and treatments in both cell lines, we performed MTS and DNA fragmentation assay to evaluate the percentage of
survived cells and cell apoptosis, respectively. CXCR4 knockdown potentiated the apoptotic effects of
docetaxel and the combination treatment with docetaxel
and GLIPR1-ΔTM decreased the migration of VCaP and
PC-3 cells We found that, in both cell lines, the combination treatment of docetaxel and GLIPR1-ΔΤΜ resulted
in statistically significant decrease in the percentage of survived cells and increase of apoptotic cells (VCaP: p < 0.001 compared to both single
agents in MTS assay, p = 0.02 compared to GLIPR1-ΔΤΜ and p < 0.001 compared to docetaxel according to DNA fragmentation assay, PC-3:
p = 0.001 compared to both single agents in MTS assay, p < 0.001 compared to both single agents according to DNA fragmentation assay) but this
observation was reversed significantly when we added the JNK inhibitor (SP600125) to the combination docetaxel and GLIPR1-ΔΤΜ (p < 0.001 for both
cells lines according to both techniques). The results are presented as the mean ± standard error from at least three independent experiments. e. Signaling effects of the combination treatment of docetaxel and GLIPR1-ΔΤΜ. Docetaxel induces JNK phosphorylation (apoptosis pathway); whereas
it concomitantly induces ERK1/2 phoshorylation (drug resistance and migration pathway). JNK and ERK1/2 pathways can demonstrate reciprocal
inhibition. GLIPR-ΔΤΜ induces JNK signaling but inhibits the ERK1/2-c-Myc-CXCR4 resistance loop. Thus, docetaxel and GLIPR1-ΔΤΜ combination
treatment leads to JNK pathway dominance over the ERK1/2 pathway, and apoptosis dominates over drug resistance and invasion/migration can inhibit migration of VCaP and PC-3 cells more than
docetaxel alone. We treated VCaP and PC-3 cells with
0.5 % or 0.1 % serum-containing medium, respectively,
followed by 1nM docetaxel, with or without the addition of
10 μg/ml GLIPR1-ΔΤΜ hour before the initiation of doce-
taxel treatment. After 24 h cell migration was assessed by scratch assay. As a positive control, we used 25 μg/ml
AMD3100, a CXCR4 inhibitor, as previously described [29]. The addition of GLIPR1-ΔΤΜ to docetaxel signifi-
cantly decreased the number of migrated VCaP cells
(p < 0.001) (Fig. 5f) and PC-3 cells (p < 0.001) than
docetaxel alone did (Fig. 5g). Karanika et al. Molecular Cancer (2015) 14:122 Page 8 of 13 Fig. 5 CXCR4si increased the sensitivity of VCaP and PC-3 cells to docetaxel and reduced cell migration trend when combined with docetaxel. a. Western blot in VCaP and PC-3 cells to evaluate the efficacy of CXCR4si7 and CXCR4si8 siRNAs. The results are presented as the mean ± standard
error from three independent experiments. Quantitative data of western blots on 2 different CXCR4siRNAs for validation and determination of their
effect size are provided in Supplementary Data. b. CXCR4 knockdown potentiated the apoptotic effects of
docetaxel and the combination treatment with docetaxel
and GLIPR1-ΔTM decreased the migration of VCaP and
PC-3 cells CXCR4 knockdown decreased the survival of VCaP cells when was combined with GLIPR1-ΔTM
(p < 0.001), docetaxel (p < 0.001) and combination (p = 0.004) than the CXCR4 knockdown alone did according to MTS assay. c. CXCR4 knockdown
increased the apoptosis of VCaP when was combined with GLIPR1-ΔTM (p < 0.001), docetaxel (p < 0.001) and combination (p = 0.041) than the CXCR4
knockdown did according to DNA fragmentation assay. The results are presented as the mean ± standard error from at least three independent
experiments. d. CXCR4 knockdown decreased the survival of PC-3 cells when was combined with GLIPR1-ΔTM (p < 0.001), docetaxel (p < 0.001) and
combination (p = 0.01) than the CXCR4 knockdown alone did according to MTS assay. e. CXCR4 knockdown increased the apoptosis of PC-3 cells
when combined with GLIPR1-ΔTM (p < 0.001), docetaxel (p < 0.001) and combination (p < 0.001) than the CXCR4 knockdone alone did. The results are
presented as the mean ± standard error from at least three independent experiments. f. Migration of VCaP cells was evaluated by scratch assay after
24 h of treatment with 1nM docetaxel with or without the addition of 10 μg/ml GLIPR1-ΔΤΜ or 25 μg/ml AMD3100, a known CXCR4 inhibitor. The
addition of GLIPR1-ΔTM significantly decreased the number of migrated cells (p < 0.001). g. Migration of PC-3 cells was evaluated by scratch assay after
24 h of treatment with 1nM docetaxel with or without the addition of 10 μg/ml GLIPR1-ΔΤΜ or 25 μg/ml AMD3100. The addition of GLIPR1-ΔTM
significantly decreased the number of migrated cells (p < 0.001). The migration assay experiments were conducted twice and the presented results
are the averages of these two independent experiments CXCR4 knockdown potentiated the apoptotic effects of
docetaxel and the combination treatment with docetaxel
and GLIPR1-ΔTM decreased the migration of VCaP and
PC-3 cells CXCR4 knockdown decreased the survival of VCaP cells when was combined with GLIPR1-ΔTM
(p < 0.001), docetaxel (p < 0.001) and combination (p = 0.004) than the CXCR4 knockdown alone did according to MTS assay. c. CXCR4 knockdown
increased the apoptosis of VCaP when was combined with GLIPR1-ΔTM (p < 0.001), docetaxel (p < 0.001) and combination (p = 0.041) than the CXCR4
knockdown did according to DNA fragmentation assay. The results are presented as the mean ± standard error from at least three independent
experiments. d. CXCR4 knockdown decreased the survival of PC-3 cells when was combined with GLIPR1-ΔTM (p < 0.001), docetaxel (p < 0.001) and
combination (p = 0.01) than the CXCR4 knockdown alone did according to MTS assay. e. CXCR4 knockdown increased the apoptosis of PC-3 cells
when combined with GLIPR1-ΔTM (p < 0.001), docetaxel (p < 0.001) and combination (p < 0.001) than the CXCR4 knockdone alone did. The results are
presented as the mean ± standard error from at least three independent experiments. f. Migration of VCaP cells was evaluated by scratch assay after
24 h of treatment with 1nM docetaxel with or without the addition of 10 μg/ml GLIPR1-ΔΤΜ or 25 μg/ml AMD3100, a known CXCR4 inhibitor. The
addition of GLIPR1-ΔTM significantly decreased the number of migrated cells (p < 0.001). g. Migration of PC-3 cells was evaluated by scratch assay after
24 h of treatment with 1nM docetaxel with or without the addition of 10 μg/ml GLIPR1-ΔΤΜ or 25 μg/ml AMD3100. The addition of GLIPR1-ΔTM
significantly decreased the number of migrated cells (p < 0.001). The migration assay experiments were conducted twice and the presented results
are the averages of these two independent experiments Fig. 5 CXCR4si increased the sensitivity of VCaP and PC-3 cells to docetaxel and reduced cell migration trend when combined with docetaxel. Fig. 5 CXCR4si increased the sensitivity of VCaP and PC-3 cells to docetaxel and reduced cell migration trend when combined with docetaxel. a. Western blot in VCaP and PC-3 cells to evaluate the efficacy of CXCR4si7 and CXCR4si8 siRNAs. The results are presented as the mean ± standard
error from three independent experiments. Quantitative data of western blots on 2 different CXCR4siRNAs for validation and determination of their
effect size are provided in Supplementary Data. b. Combination treatment with docetaxel and GLIPR-ΔΤΜ
inhibited growth and metastasis of VCaP othotopic
xenografts IVIS signal (photons/second) than GLIPR1-ΔTM alone
did (p = 0.012) but docetaxel alone did not (p = 0.16)
(Fig. 6a). However, the tumors that were treated with com-
bination therapy had significantly lower wet weight than
the tumors in the mice treated with docetaxel alone (p =
0.028) or GLIPR1-ΔTM alone (p = 0.0025) did (Fig. 6b). We collected lymph node samples from all mice and
evaluated them for the presence of metastatic PCa cells as
evidenced by cytokeratin 18 staining. Neither of the two To validate the efficacy of the combination of GLIPR1-
ΔTM and docetaxel in vivo, we treated nude mice bearing
VCaP orthotopic tumors with PBS (control), docetaxel
alone, GLIPR1-ΔTM alone, or the combination of these
two agents. Three weeks after the initiation of treat-
ment, combination treatment significantly decreased the Page 9 of 13 Karanika et al. Molecular Cancer (2015) 14:122 Fig. 6 Docetaxel GLIPR1-ΔΤΜ combination treatment inhibited growth and metastasis in VCaP orthotopic xenografts. a. Nude mice bearing
VCaP xenografts were treated with docetaxel, GLIPR1-ΔΤΜ, or both. Combination treatment significantly decreased the IVIS signal (photons/s)
than GLIPR1-ΔΤΜ alone did (p = 0.012) but docetaxel alone did not (p = 0.16). b. Combination treatment decreased significantly the wet weight
of VCaP xenografts rather thad GLIPR1-ΔΤΜ alone (p = 0.0025) and docetaxel alone (p = 0.028) did. c. Mouse lymph node tissues were stained for
cytokeratin 18 to evaluate the presence of metastatic VCaP cells. The combination of docetaxel and GLIPR1-ΔΤΜ resulted in a lower incidence of
LN metastasis than control treatment did (p = 0.04), whereas single-agent treatments did not result in a significant reduction Fig. 6 Docetaxel GLIPR1-ΔΤΜ combination treatment inhibited growth and metastasis in VCaP orthotopic xenografts. a. Nude mice bearing
VCaP xenografts were treated with docetaxel, GLIPR1-ΔΤΜ, or both. Combination treatment significantly decreased the IVIS signal (photons/s)
than GLIPR1-ΔΤΜ alone did (p = 0.012) but docetaxel alone did not (p = 0.16). b. Combination treatment decreased significantly the wet weight
of VCaP xenografts rather thad GLIPR1-ΔΤΜ alone (p = 0.0025) and docetaxel alone (p = 0.028) did. c. Mouse lymph node tissues were stained for
cytokeratin 18 to evaluate the presence of metastatic VCaP cells. Combination treatment with docetaxel and GLIPR-ΔΤΜ
inhibited growth and metastasis of VCaP othotopic
xenografts The combination of docetaxel and GLIPR1-ΔΤΜ resulted in a lower incidence of
LN metastasis than control treatment did (p = 0.04), whereas single-agent treatments did not result in a significant reduction agents significantly altered the emergence of metastasis,
but combination therapy decreased the incidence of me-
tastasis than control treatment did (p = 0.04) (Fig. 6c). ERK1/2-c-Myc-CXCR4 resistance loop and consequently
to suppress the inhibitory effects of ERK1/2 on JNK
signaling, driving JNK signaling. Thus, the efficacy of the
combination of these two agents is suggested to be
mediated through synergistic apoptotic activity driven by
dominant JNK signaling and downregulation of ERK1/
2-c-Myc-CXCR4-mediated drug resistance and migration. Cell viability assay Cell viability was analyzed using an MTS CellTiter 96
Aqueous One Solution Cell Proliferation Assay (Promega,
Madison, WI) according to the manufacturer’s instructions
as previously described [30]. After appropriate cell treat-
ment (96-well assay plate) 20 μl of CellTiter 96® Aqueous
One Solution Reagent were added into each well. The plate
was intubated for 2 h at 37 °C in a humidified 5 % CO2
chamber. The absorbance at 490 nm was recorded using
the 96-well plate reader. Discussion In the present study we tested our hypothesis that
GLIPR1-ΔΤΜ can synergize with docetaxel (one of the
two chemotherapy agents approved for the treatment of
mCRPC) and whether the combination treatment can
lead to greater cell death than treatment with docetaxel
alone does. We showed that the combination of these two
agents had synergistic effects on decreasing cell survival of
VCaP and PC-3 cells. Apoptosis was the main mechanism
for cell death, as demonstrated with DAPI staining and
DNA fragmentation assay. Of note, the combination
treatment appeared to lead to additive induction of JNK
signaling since GLIPR1-ΔΤΜ was found to inhibit the We further tested our hypothesis regarding the JNK
hyperactivation via JNK inhibitor administration using
two biological assays to assess the effect on survival and
apoptosis and western blot to monitor the signaling
changes. We found that the addition of the inhibitor to
the combination treatment resulted in increased survival
and reduced apoptosis compared to combination treat-
ment alone in both PCa cell lines; whereas on Western
blots we observed a marked reduction in JNK phosphor-
ylation together with a concomitant increase in ERK1/2 Karanika et al. Molecular Cancer (2015) 14:122 Page 10 of 13 Page 10 of 13 phosphorylation, and c-Myc and CXCR4 protein levels
compared to combination treatment without inhibitor. We further tested the effect of CXCR4 downregulation
on combination treatment to determine its role as a
central component of the ERK1/2-c-Myc-stimulated
resistance loop. In support of our hypothesis, we found
that CXCR4 knockdown combined with the combination
treatment further enhanced apoptosis and reduced the
survival of the cells. This finding demonstrates the
opposing biological effects of GLIPR1-ΔΤΜ on c-Myc-
CXCR4-mediated drug resistance and migration [17, 28]. In consideration of this mechanism we tested our hypoth-
esis via migration assay and found that docetaxel and
GLIPR1-ΔΤΜ combination treatment resulted in signifi-
cantly reduced numbers of migrated cells than docetaxel
alone did, mimicking the result of docetaxel combined
with CXCR4 inhibitor and supporting our hypothesis for a
role for GLIPR1-ΔΤΜ suppression of PCa cell migration. Conclusions The results of our study demonstrated that docetaxel and
GLIPR1-ΔΤΜ combination treatment leads to increased
JNK-mediated apoptosis compared to single agent treat-
ment. These activities are accompanied by inhibition of
ERK1/2-c-Myc-CXCR4 signaling, which results in de-
repression
of
JNK
signaling,
leading
to
maximal
JNK-mediated apoptotic effects. In addition docetaxel
and GLIPR1-ΔΤΜ combination treatment may suppress
migration through downregulation of the ERK1/2-c-Myc-
CXCR4 drug resistance pathway and reduces metastatic
potential in vivo. Based on our results, its conceivable that
GLIPR1-ΔΤΜ (which is currently progressing toward
clinical trials) or therapy agents that act through similar
mechanisms may be used together with reduced dosage of
docetaxel with potentially greater therapeutic efficacy than
docetaxel alone, and with probably fewer adverse effects. It is also conceivable that docetaxel and GLIPR1-ΔΤΜ
combination treatment could possibly result in delay in
developing docetaxel resistance. Further preclinical and
clinical studies will be needed to develop GLIPR1-ΔΤΜ
therapy through clinical trials and to evaluate the safety
and efficacy of this combination in patients with mCRPC. Purification of recombinant GLIPR1-ΔΤΜ Purification of recombinant GLIPR1-ΔΤΜ
GLIPR1-ΔTM coding sequence was obtained from
normal
prostate
tissue
by
RT-PCR
using
specific
primers (forward: 5′CCCAAGCTTGCAAATATTTTG
CCAGAT3′, reverse: 5ATAGT TTAGCGGCCGCTCT
GTTACGTGGATATAT3′). The PCR product was digested
with restriction enzymes Hinlll and NotI and inserted
into pSectag/ Hygro2 Hinlll and NotI sites to generate
pSec-GLIPR1-ΔTM as previously described [24, 26]. Conditioned medium from 293 Freestyle cells transfected
with pSec-GLIPR1-ΔTM was collected and centrifuged,
and GLIPR1-ΔTM was purified using Ni-NTA agarose. To test our treatment combination effectiveness in vivo,
we treated nude mice bearing VCaP orthotopic xenografts
with docetaxel, GLIPR1-ΔΤΜ, or both for 3 weeks. Combination treatment decreased IVIS signal than
GLIPR1-ΔΤΜ did and decreased significantly tumor
weight than both single-agent treatments did. The
finding that the incidence of lymph node metastasis
was significantly lower in animals treated with the
combination treatment than in control-treated animals
is consistent with our in vitro data and may be re-
lated
to
the
inhibition
of
the
docetaxel-induced
ERK1/2-CXCR4-c-Myc axis by GLIPR1-ΔTM. Cell lines and reagents The non-tumorigenic RWPE-1 cells (from the American
Type Culture Collection) were grown in complete
keratinocyte serum-free medium. PC-3 and VCaP prostate
cancer cells were grown as described previously [26]. All
cell lines were validated by short tandem repeat DNA
fingerprinting with the AmpFlSTR Identifier Kit (Applied
Biosystems, Inc., Foster City, CA) at the Characterized
Cell Line Core Facility of The University of Texas MD
Anderson Cancer Center. Docetaxel and AMD3100, a
CXCR4 inhibitor, were purchased from Sigma-Aldrich
(St. Louis, MO). SP600125, a JNK inhibitor, was purchased
from Santa Cruz. Isobologram analysis
h
ff
f d The effects of drug combinations were categorized as
additive, synergistic, or antagonistic by isobologram
analysis as previously described [31], and IC50 was
used to determine the fixed ratio. A graph of equally
effective dose pairs (isoboles) for a single effect level
is presented. Specifically, a particular effect level of
50 % of the maximum is selected, and doses of docetaxel
and GLIPR1-ΔTM (each alone) that give this effect are
plotted as axial points in a Cartesian plot. The straight
line connecting axial and vertical axes is the locus of
points (dose pairs) that will produce this effect in a
simply additive combination. This line of additivity
allows a comparison with the actual dose pair that
produces this effect level experimentally. An actual
dose pair below the straight line attains this effect
with lesser quantities and is super-additive (synergistic),
while the dose pair denoted above the straight line
means greater quantities are required and is therefore
sub-additive. Western blot analysis temperature to rehydrate for 15 min. The DAPI stock
solution
was
diluted
to
3
μM
in
staining buffer
(100 mM Tris, pH 7.4, 150 mM NaCl, 1 mM CaCl2,
0.5 mM MgCl2, 0.1 % Nonidet P-40). After adding
the solution the cell suspension was centrifuged and
the supernatant was discarded. 1 mL of DAPI diluted in
staining buffer was added and the cells were intubated for
15 min at room temperature. The cells’ staining was
analyzed by flow cytometry. For evaluation of JNK and ERK1/2-c-Myc-CXCR4 sig-
naling, PC-3 cells were treated for 24 h with RPMI-1640
medium containing 0.1 % serum and VCaP cells were
treated for 24 h with Dulbecco modified Eagle medium
(DMEM) containing 0.5 % serum. Then, cells were
treated with 10 μg/ml GLIPR1-ΔΤΜ for 1 h followed by
the addition of 1nM docetaxel with or without 1μΜ
SP600125 and lysates were collected 24 h later (VCaP
cells) and 48 h later (PC-3 cells). Antibodies against
GLIPR1-ΔΤΜ (Myc-tag), phospho-JNK, JNK, phospho-
ERK1/2, ERK1/2, c-Myc, and CXCR4 were all purchased
from Cell Signaling Technology (Danvers, MA), and anti-
body against GAPDH was purchased from Santa Cruz. When indicated, densitometric analysis was performed
and quantification of integrated density was assessed using
the NIS-Elements-AR software program (version 3.0;
Nikon) followed by GAPDH normalization. Tumor induction in mice, treatment protocols, and
immunohistochemical analysis VCaP cells were transduced with lentivirus stably ex-
pressing luciferase. Aliquots of 2 × 106 VCaP-luciferase
cells in 25 μl of PBS were injected directly into the right
lobe of the dorsolateral prostate in athymic nude male
mice (Taconic Farms, Hudson, NY) to induce orthotopic
tumors. The tumors were allowed to grow for 14 days
before treatment. Mice were treated with 10 mg/kg
docetaxel intraperitonealy weekly, 20 μg of GLIPR1-ΔTM
intraperitonealy three times per week, or both. The
control group was treated with PBS. Tumor size was
monitored by measuring the luminescence signal using the
IVIS 200 imaging system (PerkinElmer, Wellesley, MA). After 3 weeks of treatment, tumor-bearing mice were sacri-
ficed, and the tumors were collected and weighed. Lymph
nodes were also collected, and antibody to cytokeratin 18
(DAKO, Carpinteria, CA; catalog no. M701029-2) was used
for immunostaining on formalin-fixed paraffin-embedded
lymph node tissues. All tissue sections were processed by
using an avidin–biotin peroxidase complex kit (Vector
Laboratories, Burlingame, CA) as previously described [32]. DNA fragmentation assay
DNA f
i DNA fragmentation assay was performed using a Cell
Death Detection ELISA Kit (Roche, Mannheim, Germany)
according to manufacturer’s protocol as previously
described [26]. The assay is a photometric enzyme-
immunoassay for the qualitative and quantitative in vitro
determination of cytoplasmic histone-associated DNA
fragments (mono- and oligonucleosomes) after induced
cell death. Apoptosis analysis Apoptotic nuclear morphology was evaluated with fluor-
escence microscopy after 4′,6-diamidino-2-phenylindole
(DAPI) staining (2 μg/ml). DNA fragmentation analysis
was
performed
using
Cell
Death
Detection
ELISA
(Roche Applied Science, Indianapolis, IN) according to
the manufacturer’s instructions. After the appropriate
treatment, a cell suspension of 2 × 105 cells was collected,
the cells were pelleted by centrifugation and the super-
natant was discarded. 1 mL of PBS was added and the full
volume of re-suspended cells was transferred to 4 mL of
absolute ethanol at −20 °C by pipetting the cell suspension
slowly into the ethanol while vortexing at top speed. The
cells were intubated in ethanol at −20 °C for 5–15°min. The ethanol was discarded and 5 mL of PBS at room Page 11 of 13 Karanika et al. Molecular Cancer (2015) 14:122 Scratch assay
PC 3
ll (1 PC-3 cells (1 × 105) and VCaP cells (2 × 105) were seeded
in six-well plates and incubated overnight to achieve
confluency. Next day, PC-3 cells were treated for 24 h
with RPMI-1640 medium containing 0.1 % serum, and
VCaP cells were treated for 24 h with DMEM containing
0.5 % serum. Then, the cell layer in each well was
scratched using a plastic pipette tip, and cells were
treated with 10 μg/ml GLIPR1-ΔΤΜ for 1 h followed by
the addition of 1nM docetaxel for 24 h. Cells were visu-
alized under a microscope and photographed for the
evaluation of migration. RNA interference Knockdown of CXCR4 was achieved by transient trans-
fection of VCaP cells with a pool of CXCR4-specific
siRNA (Invitrogen), and a pool of non-targeting siRNA
(NCsi) (Invitrogen), as control, by using Lipofectamine
RNAiMax transfection reagent (Invitrogen). VCaP cells
were seeded at a density of 1.0 × 106 in six-well plates. Cells were transfected with 20nM CXCR4si or NCsi the
following day. 24 h later cells were treated with DMSO
or 1 and 2nM of docetaxel in Dulbecco modified Eagle
medium (DMEM) containing 0.5 % serum. Page 12 of 13 Page 12 of 13 Karanika et al. Molecular Cancer (2015) 14:122 Statistical analysis 2. Scher HI, Fizazi K, Saad F, Taplin ME, Sternberg CN, Miller K, et al. Increased
survival with enzalutamide in prostate cancer after chemotherapy. N Engl J
Med. 2012;367:1187–97. The results are presented as the mean ± standard error
from at least three independent experiments. Comparisons
of groups were appropriately analyzed using the Student-t
test and the Mann–Whitney U test. P values less than 0.05
were considered statistically significant and all tests were
two-tailed. Fisher analysis was used to compare the
incidences of lymph node metastasis in animal tissues. The isobologram study was used for the determination of
synergy as described above. 3. Tannock IF, de Wit R, Berry WR, Horti J, Pluzanska A, Chi KN, et al. Docetaxel
plus prednisone or mitoxantrone plus prednisone for advanced prostate
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cabazitaxel or mitoxantrone for metastatic castration-resistant prostate
cancer progressing after docetaxel treatment: a randomised open-label trial. Lancet. 2010;376(9747):1147–54. 5. van Soest RJ, de Morrée ES, Shen L, Tannock IF, Eisenberger MA, de Wit R. Initial Biopsy Gleason Score as a Predictive Marker for Survival Benefit in
Patients with Castration-resistant Prostate Cancer Treated with Docetaxel:
Data from the TAX327 Study. Eur Urol. 2014;66(2):330–6. 6. Pienta KJ. Preclinical mechanisms of action of docetaxel and docetaxel
combinations in prostate cancer. Semin Oncol. 2001;28(4 Suppl 15):3–7. 6. Pienta KJ. Preclinical mechanisms of action of docetaxel and docetaxel
combinations in prostate cancer. Semin Oncol. 2001;28(4 Suppl 15):3–7. 7. Haldar S, Basu A, Croce CM. Bcl2 is the guardian of microtubule integrity. Cancer Res. 1997;57(2):229–33. Abbreviations 11. Mhaidat NM, Thorne RF, Zhang XD, Hersey P. Regulation of docetaxel-induced
apoptosis of human melanoma cells by different isoforms of protein kinase C. Mol Cancer Res. 2007;5(10):1073–81. JNK: c- Jun NH2-terminal kinase; ROS: Reactive oxygen species; AR:
Androgen receptor; mCRPC: Metastatic castrate resistant prostate cancer;
GLIPR1: Gene encoding the human glioma pathogenesis-related protein 1;
ERK1/2: Extracellular signal-regulated kinase1/2; CXCR4: C-X-C chemokine
receptor type 4. 12. Xia Z, Dickens M, Raingeaud J, Davis RJ, Greenberg ME. Opposing effects of
ERK and JNK-p38 MAP kinases on apoptosis. Science. 1995;270(5240):1326–31. 13. Shen YH, Godlewski J, Zhu J, Sathyanarayana P, Leaner V, Birrer MJ. Cross-
talk between JNK/SAPK and ERK/MAPK pathways: sustained activation of
JNK blocks ERK activation by mitogenic factors. J Biol Chem. 2003;278(29):26715–21. Epub 2003 May 8. 1.
Ryan CJ, Smith MR, de Bono JS, Molina A, Logothetis CJ, de Souza P, et al.
Abiraterone in metastatic prostate cancer without previous chemotherapy.
N Engl J Med. 2013;368:138–48. Funding This work was supported in part by National Cancer Institute grant R0150588 (to
T.C.T.); National Cancer Institute grant P50140388, the Prostate Cancer Specialized
Program of Research Excellence at The University of Texas MD Anderson Cancer
Center; the NIH through MD Anderson’s Cancer Center Support Grant, CA16672;
DOD grant PC093932; and Tony’s Prostate Cancer Research Foundation. 18. Pezaro CJ, Omlin AG, Altavilla A, Lorente D, Ferraldeschi R, Bianchini D, et al. Activity of Cabazitaxel in Castration-resistant Prostate Cancer Progressing
After Docetaxel and Next-generation Endocrine Agents. Eur Urol. 2014;66(3):459–65. Additional file combinations in prostate cancer. Semin Oncol. 2001;28(4 Suppl 15):3–7. 7. Haldar S, Basu A, Croce CM. Bcl2 is the guardian of microtubule integrity. Cancer Res. 1997;57(2):229–33. Additional file 1: Figure S1. Quantitative Data of Westerns Blots
(relevant to Fig. 4a, b). A. VCaP cells densitomentry data B. PC-3 cells
densitometry data. Figure S2 Quantitative data of Western Blots on 2
different CXCR4siRNAs for validation and determination of their effect
size (relevant to Fig. 5a). A. CXCR4si7 is statistically significant in inhibiting
CXCR4 protein expression than NCsi is (p < 0.001) and CXCR4si8 is (p = 0.002)
in VCaP cells. B. CXCR4si7 is statistically significant in inhibiting CXCR4 protein
expression than NCsi is (p < 0.001) and CXCR4si8 is (p = 0.01) in PC-3 cells. 8. Haldar S, Chintapalli J, Croce CM. Taxol induces bcl-2 phosphorylation and
death of prostate cancer cells. Cancer Res. 1996;56(6):1253–5. 8. Haldar S, Chintapalli J, Croce CM. Taxol induces bcl-2 phosphorylation and
death of prostate cancer cells. Cancer Res. 1996;56(6):1253–5. 9. Mhaidat NM, Zhang XD, Jiang CC, Hersey P. Docetaxel-induced apoptosis of
human melanoma is mediated by activation of c-Jun NH2-terminal kinase and
inhibited by the mitogen-activated protein kinase extracellular signal-regulated
kinase 1/2 pathway. Clin Cancer Res. 2007;13(4):1308–14. 10. Rabi T, Bishayee A. d -Limonene sensitizes docetaxel-induced cytotoxicity in
human prostate cancer cells: Generation of reactive oxygen species and
induction of apoptosis. J Carcinog. 2009;8:9. Competing interests The data included in this manuscript are relevant to intellectual property that
has been licensed by Baylor College of Medicine to Progression Therapeutics,
Inc., a private biotechnology start-up company. T.C. Thompson is an inventor of
record on patents that are included in this licensing agreement. 14. Monick MM, Powers LS, Gross TJ, Flaherty DM, Barrett CW, Hunninghake
GW. Active ERK contributes to protein translation by preventing
JNK-dependent inhibition of protein phosphatase 1. J Immunol. 2006;177(3):1636–45. Author details
1 19. Sinibaldi VJ. Docetaxel treatment in the elderly patient with hormone
refractory prostate cancer. Clin Interv Aging. 2007;2(4):555–60. 1Department of Genitourinary Medical Oncology – Research, Unit 18-3, The
University of Texas MD Anderson Cancer Center, 1515 Holcombe Boulevard,
Houston, TX, USA. 2Department of Urology, Kitasato University School of
Medicine, Sagamihara, Kanagawa, Japan. 3Department of Thoracic & Cardio
Surgery, The University of Texas MD Anderson Cancer Center, Houston, TX,
USA. 4Department of Urology, Thomas Jefferson University Hospital,
Philadelphia, PA, USA. 20. Araujo JC, Trudel GC, Saad F, Armstrong AJ, Yu EY, Bellmunt J, et al. Docetaxel
and dasatinib or placebo in men with metastatic castration-resistant prostate
cancer (READY): a randomised, double-blind phase 3 trial. Lancet Oncol. 2013;14(13):1307–16. Epub 2013 Nov 8. 21. Fizazi KS, Higano CS, Nelson JB, Gleave M, Miller K, Morris T, et al. Phase III,
randomized, placebo-controlled study of docetaxel in combination with
zibotentan in patients with metastatic castration-resistant prostate cancer. J Clin Oncol. 2013;31(14):1740–7. Received: 27 February 2015 Accepted: 29 May 2015 Received: 27 February 2015 Accepted: 29 May 2015 22. Ren C, Li L, Yang G, Timme TL, Goltsov A, Ren C, et al. RTVP-1, a tumor
suppressor inactivated by methylation in prostate cancer. Cancer Res. 2004;64(3):969–76. Authors’ contributions 15. Nordström E, Fisone G, Kristensson K. Opposing effects of ERK and p38-JNK
MAP kinase pathways on formation of prions in GT1-1 cells. FASEB J. 2009;23(2):613–22. TCT, SKA, TK and SKU conceived and designed the study. TCT, SKA and TK
wrote the paper. SKA, TK, SKU, and JW performed MTS, DNA fragmentation
and isobologram studies. TK and SKA performed Western blot analysis. TK,
SKA and LL performed scratch assay. GY performed cytokeratin staining. TH,
SP, AG and RT designed and conducted the xenograft model experiment. All
authors contributed, read and approved the final manuscript. TCT, SKA, TK and SKU conceived and designed the study. TCT, SKA and TK
wrote the paper. SKA, TK, SKU, and JW performed MTS, DNA fragmentation
and isobologram studies. TK and SKA performed Western blot analysis. TK, TCT, SKA, TK and SKU conceived and designed the study. TCT, SKA and TK
wrote the paper. SKA, TK, SKU, and JW performed MTS, DNA fragmentation
and isobologram studies. TK and SKA performed Western blot analysis. TK,
SKA and LL performed scratch assay. GY performed cytokeratin staining. TH,
SP, AG and RT designed and conducted the xenograft model experiment. All
authors contributed, read and approved the final manuscript. 16. Leonetti C, Biroccio A, D’Angelo C, Semple SC, Scarsella M, Zupi G. Therapeutic integration of c-myc and bcl-2 antisense molecules with
docetaxel in a preclinical model of hormone-refractory prostate cancer. Prostate. 2007;67(13):1475–85. SKA and LL performed scratch assay. GY performed cytokeratin staining. TH,
SP, AG and RT designed and conducted the xenograft model experiment. All
authors contributed, read and approved the final manuscript. 17. Hatano K, Yamaguchi S, Nimura K, Murakami K, Nagahara A, Fujita K, et al. Residual prostate cancer cells after docetaxel therapy increase the
tumorigenic potential via constitutive signaling of CXCR4, ERK1/2 and
c-Myc. Mol Cancer Res. 2013;11(9):1088–100. Karanika et al. Molecular Cancer (2015) 14:122 References 1. Ryan CJ, Smith MR, de Bono JS, Molina A, Logothetis CJ, de Souza P, et al. Abiraterone in metastatic prostate cancer without previous chemotherapy
N Engl J Med. 2013;368:138–48. 23. Ren C, Li L, Goltsov AA, Timme TL, Tahir SA, Wang J, et al. mRTVP-1,
a novel p53 target gene with proapoptotic activities. Mol Cell Biol. 2002;22(10):3345–57. Page 13 of 13 Page 13 of 13 Karanika et al. Molecular Cancer (2015) 14:122 Karanika et al. Molecular Cancer (2015) 14:122 24. Li L, Abdel Fattah E, Cao G, Ren C, Yang G, Goltsov AA, et al. Glioma
pathogenesis-related protein 1 exerts tumor suppressor activities through
proapoptotic reactive oxygen species-c-Jun-NH2 kinase signaling. Cancer Res. 2008;68(2):434–43. 25. Li L, Ren C, Yang G, Fattah EA, Goltsov AA, Kim SM, et al. GLIPR1 suppresses
prostate cancer development through targeted oncoprotein destruction. Cancer Res. 2011;71(24):7694–704. 26. Karantanos T, Tanimoto R, Edamura K, Hirayama T, Yang G, Golstov AA, et al. Systemic GLIPR1-ΔTM protein as a novel therapeutic approach for prostate
cancer. Int J Cancer. 2014;134(8):2003–13. 27. Bennett BL, Sasaki DT, Murray BW, O’Leary EC, Sakata ST, Xu W, et al. SP600125, an anthrapyrazolone inhibitor of Jun N-terminal kinase. Proc Natl
Acad Sci U S A. 2001;98(24):13681–6. 28. Singh S, Singh UP, Grizzle WE, Lillard Jr JW. CXCL12-CXCR4 interactions
modulate prostate cancer cell migration, metalloproteinase expression and
invasion. Lab Invest. 2004;84(12):1666–76. 29. Domanska UM, Timmer-Bosscha H, Nagengast WB, Oude Munnink TH,
Kruizinga RC, Ananias HJ, et al. CXCR4 inhibition with AMD3100 sensitizes
prostate cancer to docetaxel chemotherapy. Neoplasia. 2012;14(8):709–18. 30. Tabata K, Kurosaka S, Watanabe M, Edamura K, Satoh T, Yang G, et al. Tumor
growth and metastasis suppression by Glipr1 gene-modified macrophages
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32. Yang G, Goltsov AA, Ren C, Kurosaka S, Edamura K, Logothetis R, et al. Caveolin-1 upregulation contributes to c-Myc-induced high-grade prostatic
intraepithelial neoplasia and prostate cancer. Mol Cancer Res. 2012;10(2):218–29. Submit your next manuscript to BioMed Central
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An AAV9 coding for frataxin clearly improved the symptoms and prolonged the life of Friedreich ataxia mouse models
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Received 30 July 2014; accepted 30 July 2014
1Centre de Recherche du Centre Hospitalier Universitaire de Québec and Department of Molecular Medecine, Faculty of Medecine, Laval University, Québec, Canada; 2Fred N.
Eshelman Distinguished Professor of Gene Therapy Vice Chair, Division of Molecular Pharmaceutics, UNC Eshelman School of Pharmacy, Chapel Hill, North Carolina, USA; 3Centre de
recherche, Institut universitaire de cardiologie et de pneumologie de Québec, Québec, Canada. Correspondence: JP Tremblay (JacquesP.Tremblay@crchul.ulaval.ca) An AAV9 coding for frataxin clearly improved the symptoms and
prolonged the life of Friedreich ataxia mouse models Catherine Gérard1, Xiao Xiao2, Mohammed Filali1, Zoé Coulombe1, Marie Arsenault3, Jacques Couet3, Juan Li2, Marie-Claude Drolet3,
Pierre Chapdelaine1, Amina Chikh1 and Jacques P Tremblay1 Friedreich ataxia (FRDA) is a genetic disease due to increased repeats of the GAA trinucleotide in intron 1 of the frataxin gene. This
mutation leads to a reduced expression of frataxin. We have produced an adeno-associated virus (AAV)9 coding for human frataxin
(AAV9-hFXN). This AAV was delivered by intraperitoneal (IP) injection to young conditionally knockout mice in which the frataxin
gene had been knocked-out in some tissues during embryogenesis by breeding them with mice expressing the Cre recombinase
gene under the muscle creatine kinase (MCK) or the neuron-specific enolase (NSE) promoter. In the first part of the study, different
doses of virus were tested from 6 × 1011 v.p. to 6 × 109 v.p. in NSE-cre mice and all leading to an increase in life spent of the mice. The
higher and the lower dose were also tested in MCK-cre mice. A single administration of the AAV9-hFXN at 6 × 1011 v.p. more than
doubled the life of these mice. In fact the MCK-cre mice treated with the AAV9-hFXN were sacrificed for further molecular investi-
gations at the age of 29 weeks without apparent symptoms. Echography analysis of the heart function clearly indicated that the
cardiac systolic function was better preserved in the mice that received 6 × 1011 v.p. of AAV9-hFXN. The human frataxin protein was
detected by ELISA in the heart, brain, muscles, kidney, and liver with the higher dose of virus in both mouse models. Thus, gene
therapy with an AAV9-hFXN is a potential treatment of FRDA. hods & Clinical Development (2014) 1, 14044; doi:10.1038/mtm.2014.44; published online 8 October 2014 Molecular Therapy — Methods & Clinical Development (2014) 1, 14044; doi:10.1038/mtm.2014.44; published INTRODUCTION designated as NSE-cre. These mice reproduced important progres-
sive pathophysiological and biochemical features of the human dis-
ease: cardiac hypertrophy without skeletal muscle involvement. The
NSE mice also express large sensory neuron dysfunctions without
alteration of the small sensory and motor neurons. Friedreich ataxia (FRDA) is an autosomal recessive neurodegen-
erative and cardiac disease, caused by a trinucleotide (GAA) repeat
expansion in the first intron of the frataxin gene located in chromo-
some 9.1 The mutation in the intron 1 of the frataxin gene leads to
a reduced expression of the frataxin gene without changing the
protein. The mechanism of this pathology has been reviewed by
Pandolfo et al.2,3 Neurons and cardiomyocytes are particularly sensi-
tive to the reduction of frataxin.4–6 Thus, neurological and cardiac
symptoms appear in or before the second decade of life.7–11 There
are also some systemic involvements, such as diabetes mellitus and
scoliosis. Cardiomyopathy and associated arrhythmias lead to early
death.9,12 In the present article, we tested different quantity of virus
from 6 × 109 virus particles (v.p.) to 6 × 1011 v.p. The injection of
the virus clearly prolonged the life of the treated mice for all
the quantity tested. Also, the administration of 6 × 1011 v.p. of an
adeno-associated virus (AAV)9 coding for the human frataxin to
the MCK-cre and to the NSE-cre not only increased the expres-
sion of the frataxin protein in these mouse models of FRDA but
clearly reduced their heart hypertrophy and improved their heart
function. We are thus proposing that an AAV coding for frataxin
could be a treatment for FRDA. Mice homozygous for a conditional frataxin allele (Frda exon
4 located between 2 LoxP, named FrdaL3/L3) have been crossed by
Puccio et al.13 with mice heterozygous for the deletion of Frda exon
4 (Frda L-/L3) that also carried a tissue-specific Cre transgene under
the control of the muscle creatine kinase (MCK) or the neuron-
specific enolase (NSE) promoter. The MCK promoter induced a
knockout of the exon 4 in the heart and the striated muscle and
the resulting mice were called MCK-cre. The NSE promoter lead
to a knockout of the Frda exon 4 not only in the brain but also in
the heart, muscles, kidney, and liver and the resulting mice were Citation: Molecular Therapy — Methods & Clinical Development (2014) 1, 14044; doi:10.1038/mtm.2014.44
© 2014 The American Society of Gene & Cell Therapy All rights reserved 2329-0501/14 Citation: Molecular Therapy — Methods & Clinical Development (2014) 1, 14044; doi:10.1038/mtm.2014.44
© 2014 The American Society of Gene & Cell Therapy All rights reserved 2329-0501/14 www.nature.com/mtm An AAV9 coding for frataxin
C Gérard et al. In the other
organs of these NSE-cre mice, most of the time two bands were
observed indicating that the frataxin gene was not floxed in all cells. The floxed frataxin allele was more abundant in the brain than in the
muscle, liver, and kidneys. These results indicated that NSE-cre mice Effects of AAV9-FXN treatment on body weight. The growth curve of
the NSE-cre was followed for the treated and not treated mice. The
NSE-cre curve was significantly lower than that of the L3/L3 mice
(Figure 1). When these mice received the AAV9-hFXN at 5–9 days,
their growth curves were improved compared to the NSE-cre mice
that did not receive the treatment. This was observed for all the viral
doses tested. However, they did not reach the body weight of the
L3/L3 mice for male (Figure 1a) and female mice (Figure 1b). Only
the males receiving 6 × 1011 v.p. (d1/10) seem to follow the curve of
the L3/L3 but there were only three mice in this group. Table 1
Animal score
Score
Characteristics
Action
0
Lively and active animal
None. Smooth coat
No lack of comfort
Observe once per week. 1
Mouse moves normally but
often on the tip of their toes. Wet food into the cage. May have the back lightly
curved. Observe daily. 2
Mouse moves normally but
on the tip of their toes. Wet food into the cage. Mouse mostly lively. Observe twice a day. Hair slightly spiky. Back curved. Could have a abnormal
breathing but not difficult. 3
Mouse has difficulties to
walk and moves less. Wet food into the cage. Back curved and hair very
spiky. Observe twice a day. Difficulties to eat. Could have an abnormal
and difficult breathing. Should be sacrificed
within 4 hours. 4
Mouse does not move or
moves with pain. Should be sacrificed
immediately. Very spiky hair. Could have lifeless, sunk or
closed eyes. Difficulties to eat. Could have a breathing
insufficiency. Figure 1
Evolution of neuron-specific enolase (NSE)-cre mouse weight. The body weight of the different groups of mice was followed until their
sacrifice. In a, the male mice: L3/L3 (n = 26), NSE-cre mice treated with
the AAV9-hFXN at 6 × 1011 v.p. (named AAV9-hFXN; n = 12), at 3 × 1011 v.p. (named d1/2; n = 0), at 6 × 1010 v.p. (named d1/10; n = 3), at 3 × 1010 v.p. An AAV9 coding for frataxin
C Gérard et al. (named d1/20; n = 2), at 1.2 × 1010 v.p. (named d1/50; n = 5), at 6 × 109 v.p. (named d1/100; n = 3) and the untreated mice (named no treatment; n
= 33). In b, the female mice: L3/L3 (n = 20), NSE-cre mice treated with the
AAV9-hFXN at 6 × 1011 v.p. (n = 17), at 3 × 1011 v.p. (n = 3), at 6 × 1010 v.p. (n
= 2), at 3 × 1010 v.p. (n = 3), at 1.2 × 1010 v.p. (n = 3), at 6 × 109 v.p. (n = 4) and
the untreated mice (n = 33). The untreated NSE-cre had the lowest body
weight. The growth curve of the NSE-cre mice was clearly improved by
the AAV9-hFXN treatment for both sex groups. 0
5
10
15
20
25
30
35
40
0
50
100
150
200
250
0
50
100
150
Age in days
Age in days
200
250
Male body weight (g)
L3/L3
AAV9-hFXN
d1/2
d1/10
d1/20
d1/50
d1/100
No treatment
L3/L3
AAV9-hFXN
d1/2
d1/10
d1/20
d1/50
d1/100
No treatment
0
5
10
15
20
25
Female body weight (g)
a
b 0
5
10
15
20
25
30
35
40
0
50
100
150
200
250
Age in days
Male body weight (g)
L3/L3
AAV9-hFXN
d1/2
d1/10
d1/20
d1/50
d1/100
No treatment
a
b a 0
50
100
150
Age in days
Age in days
200
250
L3/L3
AAV9-hFXN
d1/2
d1/10
d1/20
d1/50
d1/100
No treatment
0
5
10
15
20
25
Female body weight (g)
b b Figure 1
Evolution of neuron-specific enolase (NSE)-cre mouse weight. The body weight of the different groups of mice was followed until their
sacrifice. In a, the male mice: L3/L3 (n = 26), NSE-cre mice treated with
the AAV9-hFXN at 6 × 1011 v.p. (named AAV9-hFXN; n = 12), at 3 × 1011 v.p. (named d1/2; n = 0), at 6 × 1010 v.p. (named d1/10; n = 3), at 3 × 1010 v.p. (named d1/20; n = 2), at 1.2 × 1010 v.p. (named d1/50; n = 5), at 6 × 109 v.p. (named d1/100; n = 3) and the untreated mice (named no treatment; n
= 33). In b, the female mice: L3/L3 (n = 20), NSE-cre mice treated with the
AAV9-hFXN at 6 × 1011 v.p. (n = 17), at 3 × 1011 v.p. An AAV9 coding for frataxin
C Gérard et al. 2 have a complete KO of the frataxin gene in the heart and a partial
KO in the other organs investigated. have a complete KO of the frataxin gene in the heart and a partial
KO in the other organs investigated. the liver, the heart, the kidneys, and the brain. For the MCK-cre
mice, a delta allele band was observed only in the muscle and in
the heart corresponding with the specificity of the MCK promoter
(Supplementary Figure S1b on the left). Sometimes, a very light
delta band (L-) appeared in the brain of some animals. For the NSE-
cre mice, a delta band was observed in all the investigated tissues
(the brain, the liver, the heart, the skeletal muscles, and the kidney)
(Supplementary Figure S1b on the right). PART 1: study on the NSE-cre mice PART 1: study on the NSE-cre mice PART 1: study on the NSE-cre mice Behavior of the experimental mice without the AAV9-hFXN treatment. The NSE-cre were initially normally active but had signs of kyphosis
and they walked on the tip of their toes (score 1, Table 1). After weaning,
they showed a rapid degeneration of their physical condition. They
progressively became more curved, their fur appeared ruffled (bent
back, bristly hairs) and finally their general activity decreased. At the
end of their life, they lost progressively some body weight and had
difficulties to move, to walk, to breathe and to feed themselves (score
3 and 4, Table 1). They had to be sacrificed due to ethical concerns
around 35 ± 18 days (mean ± SEM) (Figure 1). The expression of the frataxin gene was also investigated by
RT-PCR in several tissues. The upper 332 bp band corresponded to the
unfloxed frataxin mouse mRNA (Supplementary Figure S1c, left side). A second band was observed under 332 bp. As indicated by sequenc-
ing this lower band (designated as floxed band) corresponded to the
mouse frataxin mRNA deleted of exon 4. For the MCK-cre mice, the
unfloxed frataxin band was observed in liver, kidney, and brain and
the floxed band was observed only in muscles and heart.l In the NSE-cre mice, the floxing of the conditional frataxin gene
was different (Supplementary Figure S1c right side). For all these
mice, we observed only the floxed mRNA in the heart. RESULTSi Confirmation of the frataxin gene knockout in the experimental
mice PCR amplifications of the genomic DNA of various tissues were
made to verify the KO of the frataxin gene (Supplementary Figure
S1). The delta allele (L-) resulted in a 263 bp band due to exon 4 exci-
sion. Different organs were analyzed: the muscle (Tibialis anterior), An AAV9 coding for frataxin
C Gérard et al. An AAV9 coding for frataxin
C Gérard et al. (n = 3), at 6 × 1010 v.p. (n
= 2), at 3 × 1010 v.p. (n = 3), at 1.2 × 1010 v.p. (n = 3), at 6 × 109 v.p. (n = 4) and
the untreated mice (n = 33). The untreated NSE-cre had the lowest body
weight. The growth curve of the NSE-cre mice was clearly improved by
the AAV9-hFXN treatment for both sex groups. Molecular Therapy — Methods & Clinical Development (2014) 14044 © 2014 The American Society of Gene & Cell Therapy An AAV9 coding for frataxin
C Gérard et al. 3 intensity remained strong with the different quantities of virus. The
human frataxin was not observed in the brain for the three lower
doses of virus, probably because the limit of detection was reached. intensity remained strong with the different quantities of virus. The
human frataxin was not observed in the brain for the three lower
doses of virus, probably because the limit of detection was reached. Detection of human frataxin after the AAV9-hFXN treatment. An
AAV9 coding for the human frataxin (AAV9-hFXN) was injected
IP in NSE-cre mice between 5 and 9 days of age. Their organs
were collected at the time of the sacrifice. A PCR for the human
frataxin was made on genomic DNA to detect the presence of the
human frataxin transgene. This transgene was detected in all the
investigated tissues (i.e., brain, heart, muscle, kidney, and liver) for
6 × 1011 v.p. injected (Figure 2a on the left). Dilutions 1/10 and 1/20
were also tested in the same conditions. The human frataxin band
was observed in muscle, liver, and heart for these dilutions. The
intensity of the band decreased with the dilutions, but the strongest
band was always detected in the heart. RT-PCR also produced
similar results (Figure 2a on the right). For an injection of 6 × 1011
v.p., human frataxin expression was observed in all tissues tested,
with the strongest band in the heart and the intensity of the bands
were decreasing with the dilutions of the virus. Effects of AAV9-hFXN treatment on mouse survival. A score from 0
to 4 was created to estimate the NSE-cre health (0 corresponding to
no symptoms and 4 a state of health requiring immediate sacrifice;
cf Supplementary Information). An AAV9 coding for frataxin
C Gérard et al. (b) Finally, an ELISA test (Dipstick) was made to detect the human FXN
protein in skeletal muscle (M), liver (L), heart (H), kidney (K), and brain (B). The human frataxin protein was estimated in these tissues in NSE-cre mice
treated with AAV9-hFXN at 6 × 1011 v.p. (n = 9), at 3 × 1011 v.p. (n = 4), at 6 × 1010 v.p. (n = 3), at 3 × 1010 v.p. (n = 3), at 1.2 × 1010 v.p. (n = 3), at 6 × 109 v.p. (n =
3). The presence of human frataxin was strong with the highest dose of virus and decreased in the tissues with the dilutions except for the heart where
the frataxin was still strong at the lowest viral dose. 0
1
2
3
4
5
6
7
8
9
10
M
L
H
K
B
Dipstick semi quantification
AAV9-hFXN
d1/2
d1/10
d1/20
d1/50
d1/100
hFXN
Ctrl
hFXN (407 pb) cDNA
AAV-hFXN
d/10
d1/20
hFXN (407 pb) gDNA
M
L
H
K
B
M
L
H
K
B
a
b hFXN (407 pb) cDNA
AAV-hFXN
d/10
d1/20
hFXN (407 pb) gDNA
M
L
H
K
B
M
L
H
K
B
a a b 0
1
2
3
4
5
6
7
8
9
10
M
L
H
K
B
Dipstick semi quantification
AAV9-hFXN
d1/2
d1/10
d1/20
d1/50
d1/100
hFXN
Ctrl
b Figure 2
Detection of the hFXN transgene in various tissues of neuron-specific enolase (NSE)-cre. (a) on the left: The human frataxin (hFXN) transgene
was detected by polymerase chain reaction (PCR) in the DNA of muscles (M), L (liver), heart (H), kidney (K), and brain (B) of mice injected with AAV-hFXN
at 6 × 1011 v.p. (named AAV-hFXN) and in 6 × 1010 v.p. (named d1/10) and in 3 × 1010 v.p. (named d1/20). a, on the right: The expression of the human
frataxin transgene (hFXN) was then detected by RT-PCR in all these tissues. (b) Finally, an ELISA test (Dipstick) was made to detect the human FXN
protein in skeletal muscle (M), liver (L), heart (H), kidney (K), and brain (B). The human frataxin protein was estimated in these tissues in NSE-cre mice
treated with AAV9-hFXN at 6 × 1011 v.p. (n = 9), at 3 × 1011 v.p. (n = 4), at 6 × 1010 v.p. (n = 3), at 3 × 1010 v.p. An AAV9 coding for frataxin
C Gérard et al. The NSE-cre mice were evaluated
every day after the weaning (21 days) because of the great variability
of the progression of the disease and mortality. When the mice were
treated with the AAV9-hFXN, the score was around 1.5 at 21 days,
while the average score was 2.0 for the untreated NSE-cre. However,
the score of the treated NSE-cre mice decreased (i.e., they were less
sick) over the following 3 days while the score of the untreated mice
increased. The scores were significantly different between the two
groups between 21 and 40 days. The time between the injection
and the first score of 0 (i.e., no symptom) was also estimated. In
average, 20 ± 5.8 days after the viral injection for 6 × 1011 v.p. and
15.7 ± 2.6 days for 6 × 109 v.p., all the symptoms of the disease had
disappeared (Figure 3a). Some mice reached a 0 score but were
later scored at 0.5 or 1. For the estimation of the time where no
symptoms were detected, we considered the first time the mouse
score reached 0. However, these NSE mice have later developed Finally, the presence of human frataxin protein was investigated
using a specific dipstick test. No human frataxin was detected in
L3/L3 mice and in model mice that were injected with saline rather
than with the AAV9-hFXN (data not shown). However, the hFXN
was detected in all tissues from both mouse models injected with
6 × 1011 v.p of AAV9-hFXN (Figure 2b). With the dilution, the intensity
of the band diminished in all organs except for the heart where the Molecular Therapy — Methods & Clinical Development (2014) 14044
© 2014 The American Society of Gene & Cell Therapy
Figure 2
Detection of the hFXN transgene in various tissues of neuron-specific enolase (NSE)-cre. (a) on the left: The human frataxin (hFXN) transgene
was detected by polymerase chain reaction (PCR) in the DNA of muscles (M), L (liver), heart (H), kidney (K), and brain (B) of mice injected with AAV-hFXN
at 6 × 1011 v.p. (named AAV-hFXN) and in 6 × 1010 v.p. (named d1/10) and in 3 × 1010 v.p. (named d1/20). a, on the right: The expression of the human
frataxin transgene (hFXN) was then detected by RT-PCR in all these tissues. An AAV9 coding for frataxin
C Gérard et al. 0.0
0.5
1.0
1.5
2.0
2.5
3.0
L3/L3
AAV9-hFXN
d1/2
d1/10
d1/20
d1/50
d1/100 No treatment
% Heart to body weight
a
b
0.00
0.05
0.10
0.15
0.20
L3/L3
AAV9-hFXN
d1/2
d1/10
d1/20
d1/50
d1/100 No treatment
Heart weightening
†
†
†
†
†
†
†
*
*
* a
b
Survival depending on AAV doses
0
5
10
15
20
25
30
AAV9-hFXN
d1/2
d1/10
d1/20
d1/50
d1/100
Days after injection
to be asymptomatic 0.0
0.5
1.0
1.5
2.0
2.5
3.0
L3/L3
AAV9-hFXN
d1/2
d1/10
d1/20
d1/50
d1/100 No treatment
% Heart to body weight
a
b
0.00
0.05
0.10
0.15
0.20
L3/L3
AAV9-hFXN
d1/2
d1/10
d1/20
d1/50
d1/100 No treatment
Heart weightening
†
†
†
†
†
†
†
*
*
* 3 0
a
b
0.00
0.05
0.10
0.15
0.20
L3/L3
AAV9-hFXN
d1/2
d1/10
d1/20
d1/50
d1/100 No treatment
Heart weightening
*
*
* a 0.0
0.5
1.0
1.5
2.0
2.5
3.0
L3/L3
AAV9-hFXN
d1/2
d1/10
d1/20
d1/50
d1/100 No treatment
% Heart to body weight
†
†
†
†
†
†
† b b
0
40
80
120
160
200
AAV9-hFXN
d1/2
d1/10
d1/20
d1/50
d1/100 No treatment
Age in days
†
†
†
†
†
† Figure 4
AAV-hFXN treatment reduced heart hypertrophy in neuron-
specific enolase (NSE)-cre mice. The weight of the mouse heart treated or
not with the AAV9-hFXN was measured (a) and expressed at sacrifice as
a percentage of the whole body weight (b). The groups were composed
of L3/L3 (n = 20), NSE-cre treated with AAV9-hFXN at 6 × 1011 v.p. (named
AAV9-hFXN; n = 11), at 3 × 1011 v.p. (named d1/2; n = 5), at 6 × 1010 v.p. (named d1/10; n = 4), at 3 × 1010 v.p. (named d1/20; n = 5), at 1.2 × 1010 v.p. (named d1/50; n = 8), at 6 × 109 v.p. (named d1/100; n = 6) and untreated
mice (n = 27). The weight of the heart was significantly different from the
control L3/L3 and from the untreated mice for the three lowest quantity
of virus (*P < 0.05; d1/20, d1/50, and d1/100) (a). The normalized weight
was similar to that of L3/L3 for all the treated mice and significantly
different (†P ≤ 0.0001) from that of the nontreated NSE-cre mice (b). Figure 3
Improved life survival of the neuron-specific enolase (NSE)-cre
mice treated with AAV9-frataxin. An AAV9 coding for frataxin
C Gérard et al. (a) A score was created to evaluate daily
the health of the NSE-cre mice. The score goes from 0, which corresponds
to a normal phenotype, to 4, where the signs of discomfort (loss of
weight, difficulties to walk or to feed) led to the sacrifice of the mice. The
score started after weaning, at 21 days. The delay between the injection
and a score of zero (no symptoms) was determined for all doses of AAV9-
hFXN at 6 × 1011 v.p. (named AAV9-hFXN; n = 14), at 3 × 1011 v.p. (named
d1/2; n = 7), at 6 × 1010 v.p. (named d1/10; n = 5), at 3 × 1010 v.p. (named
d1/20; n = 5), at 1.2 × 1010 v.p. (named d1/50; n = 8), at 6 × 109 v.p. (named
d1/100; n = 6). (b) The survival was also estimated for all these groups. The injection of AAV9-hFXN clearly improved the general health of the
NSE-cre mice for all viral doses (†P ≤ 0.0001): AAV9-hFXN at 6 × 1011 v.p. (n = 18), at 3 × 1011 v.p. (n = 5), at 6 × 1010 v.p. (n = 4), at 3 × 1010 v.p. (n =
5), at 1.2 × 1010 v.p. (n = 8), at 6 × 109 v.p. (n = 6) when compared to the
untreated mice (n = 58). body weight (Figure 4b). This percentage was 0.57 ± 0.11 for L3/
L3 mice. The effect of the treatment was strong for all the NSE-cre
treated mice, the percentage passing from 1.91 ± 0.61 (not treated)
to 0.81 ± 0.23 with the AAV9-hFXN treatment 6 × 1011 v.p. All the
treated mice were significantly different from the nontreated mice
and not significantly different from the L3/L3 mice. nervous system symptoms, their score rapidly increased and they
had to be sacrificed for ethical concerns. The survival of the mice was also evaluated after the AAV9-hFXN
injection. It is important to note that some mice were sacrificed
voluntary to investigate cardiac parameters while other had to be
sacrificed for ethical concerns. For treated NSE-cre mice injected
with 6 × 1011 v.p., 6 mice from the 18 mice in that group were vol-
untary sacrificed at 96 and 122 days. An AAV9 coding for frataxin
C Gérard et al. (named
d1/2; n = 7), at 6 × 1010 v.p. (named d1/10; n = 5), at 3 × 1010 v.p. (named
d1/20; n = 5), at 1.2 × 1010 v.p. (named d1/50; n = 8), at 6 × 109 v.p. (named
d1/100; n = 6). (b) The survival was also estimated for all these groups. The injection of AAV9-hFXN clearly improved the general health of the
NSE-cre mice for all viral doses (†P ≤ 0.0001): AAV9-hFXN at 6 × 1011 v.p. (n = 18), at 3 × 1011 v.p. (n = 5), at 6 × 1010 v.p. (n = 4), at 3 × 1010 v.p. (n =
5), at 1.2 × 1010 v.p. (n = 8), at 6 × 109 v.p. (n = 6) when compared to the
untreated mice (n = 58). a
b
Survival depending on AAV doses
0
40
80
120
160
200
AAV9-hFXN
d1/2
d1/10
d1/20
d1/50
d1/100 No treatment
Age in days
†
†
†
†
†
†
0
5
10
15
20
25
30
AAV9-hFXN
d1/2
d1/10
d1/20
d1/50
d1/100
Days after injection
to be asymptomatic 4 Figure 4
AAV-hFXN treatment reduced heart hypertrophy in neuron-
specific enolase (NSE)-cre mice. The weight of the mouse heart treated or
not with the AAV9-hFXN was measured (a) and expressed at sacrifice as
a percentage of the whole body weight (b). The groups were composed
of L3/L3 (n = 20), NSE-cre treated with AAV9-hFXN at 6 × 1011 v.p. (named
AAV9-hFXN; n = 11), at 3 × 1011 v.p. (named d1/2; n = 5), at 6 × 1010 v.p. (named d1/10; n = 4), at 3 × 1010 v.p. (named d1/20; n = 5), at 1.2 × 1010 v.p. (named d1/50; n = 8), at 6 × 109 v.p. (named d1/100; n = 6) and untreated
mice (n = 27). The weight of the heart was significantly different from the
control L3/L3 and from the untreated mice for the three lowest quantity
of virus (*P < 0.05; d1/20, d1/50, and d1/100) (a). The normalized weight
was similar to that of L3/L3 for all the treated mice and significantly
different (†P ≤ 0.0001) from that of the nontreated NSE-cre mice (b). An AAV9 coding for frataxin
C Gérard et al. (n = 6) when compared to the
untreated mice (n
58)
a
b
Survival depending on AAV doses
0
40
80
120
160
200
AAV9-hFXN
d1/2
d1/10
d1/20
d1/50
d1/100 No treatment
Age in days
†
†
†
†
†
†
0
5
10
15
20
25
30
AAV9-hFXN
d1/2
d1/10
d1/20
d1/50
d1/100
Days after injection
to be asymptomatic
Figure 4
AAV-hFXN treatment reduced heart hypertrophy in neuron-
specific enolase (NSE)-cre mice. The weight of the mouse heart treated or
not with the AAV9-hFXN was measured (a) and expressed at sacrifice as
a percentage of the whole body weight (b). The groups were composed
of L3/L3 (n = 20), NSE-cre treated with AAV9-hFXN at 6 × 1011 v.p. (named
AAV9-hFXN; n = 11), at 3 × 1011 v.p. (named d1/2; n = 5), at 6 × 1010 v.p. (named d1/10; n = 4), at 3 × 1010 v.p. (named d1/20; n = 5), at 1.2 × 1010 v.p. (named d1/50; n = 8), at 6 × 109 v.p. (named d1/100; n = 6) and untreated
mice (n = 27). The weight of the heart was significantly different from the
control L3/L3 and from the untreated mice for the three lowest quantity
of virus (*P < 0.05; d1/20, d1/50, and d1/100) (a). The normalized weight
was similar to that of L3/L3 for all the treated mice and significantly
different (†P ≤ 0.0001) from that of the nontreated NSE-cre mice (b). 0.0
0.5
1.0
1.5
2.0
2.5
3.0
L3/L3
AAV9-hFXN
d1/2
d1/10
d1/20
d1/50
d1/100 No treatment
% Heart to body weight
a
b
0.00
0.05
0.10
0.15
0.20
L3/L3
AAV9-hFXN
d1/2
d1/10
d1/20
d1/50
d1/100 No treatment
Heart weightening
†
†
†
†
†
†
†
*
*
* C Gérard et al. Figure 3
Improved life survival of the neuron-specific enolase (NSE)-cre
mice treated with AAV9-frataxin. (a) A score was created to evaluate daily
the health of the NSE-cre mice. The score goes from 0, which corresponds
to a normal phenotype, to 4, where the signs of discomfort (loss of
weight, difficulties to walk or to feed) led to the sacrifice of the mice. The
score started after weaning, at 21 days. The delay between the injection
and a score of zero (no symptoms) was determined for all doses of AAV9-
hFXN at 6 × 1011 v.p. (named AAV9-hFXN; n = 14), at 3 × 1011 v.p. Molecular Therapy — Methods & Clinical Development (2014) 14044 An AAV9 coding for frataxin
C Gérard et al. (n = 3), at 1.2 × 1010 v.p. (n = 3), at 6 × 109 v.p. (n =
3). The presence of human frataxin was strong with the highest dose of virus and decreased in the tissues with the dilutions except for the heart where
the frataxin was still strong at the lowest viral dose. Molecular Therapy — Methods & Clinical Development (2014) 14044 © 2014 The American Society of Gene & Cell Therapy An AAV9 coding for frataxin
C Gérard et al. An AAV9 coding for frataxin
C Gérard et al. body weight (Figure 4b). This percentage was 0.57 ± 0.11 for L3/
L3 mice. The effect of the treatment was strong for all the NSE-cre
treated mice the percentage passing from 1 91±0 61 (not treated)
Figure 3
Improved life survival of the neuron-specific enolase (NSE)-cre
mice treated with AAV9-frataxin. (a) A score was created to evaluate daily
the health of the NSE-cre mice. The score goes from 0, which corresponds
to a normal phenotype, to 4, where the signs of discomfort (loss of
weight, difficulties to walk or to feed) led to the sacrifice of the mice. The
score started after weaning, at 21 days. The delay between the injection
and a score of zero (no symptoms) was determined for all doses of AAV9-
hFXN at 6 × 1011 v.p. (named AAV9-hFXN; n = 14), at 3 × 1011 v.p. (named
d1/2; n = 7), at 6 × 1010 v.p. (named d1/10; n = 5), at 3 × 1010 v.p. (named
d1/20; n = 5), at 1.2 × 1010 v.p. (named d1/50; n = 8), at 6 × 109 v.p. (named
d1/100; n = 6). (b) The survival was also estimated for all these groups. The injection of AAV9-hFXN clearly improved the general health of the
NSE-cre mice for all viral doses (†P ≤ 0.0001): AAV9-hFXN at 6 × 1011 v.p. (n = 18), at 3 × 1011 v.p. (n = 5), at 6 × 1010 v.p. (n = 4), at 3 × 1010 v.p. (n =
5), at 1.2 × 1010 v.p. (n = 8), at 6 × 109 v.p. An AAV9 coding for frataxin
C Gérard et al. of AAV9-hFXN PART 3: behavior study and echocardiography on NSE-cre and
MCK-cre injected with 6 × 1011 v.p. of AAV9-hFXN PART 3: behavior study and echocardiography on NSE-cre and
MCK-cre injected with 6 × 1011 v.p. of AAV9-hFXN Behavior and echocardiography tests were also made on untreated
mice and mice treated with the highest dose of 6 × 1011 v.p. of AAV9-
hFXN because human frataxin was detected in the mouse brain
only at that dose. 0
5
10
15
20
25
30
35
Female body weight (g)
0
50
100
150
200
250
Age in days
Age in days
L3/L3
AAV9-hFXN
d1/100
No treatment
b b Effects of AAV9-hFXN treatment on behavior. The following behavior
parameters were analyzed: distance traveled, immobile time, rear
duration, and episode immobile (Figure 8a–d). The behavior of the
MCK-cre mice was not different from that of L3/L3 mice (Figure 8). On the contrary, the NSE-cre mice were clearly different from the L3/
L3 for all these parameters. These mice were less active (Figure 8a,c). However, after the injection with the AAV9-hFXN, the NSE-cre mice
(NSE-cre-AAV) got back to normal activities (Figure 8a–d). The NSE-
cre treated mice appeared quite normal and were clearly different
from the NSE mutants that did not receive the AAV9-FXN treatment. Other more specific tests were also made on these mice but
no significant effects were observed between the treated and
untreated mice (data not shown). Figure 5
Evolution of muscle creatine kinase (MCK)-cre mouse weight. In a, the growth curves of the male mice: L3/L3 mice (n = 26), MCK-cre
untreated (no treatment; n = 67) and MCK-cre mice treated with the
AAV9-hFXN at 6 × 1011 v.p. (AAV9-hFXN; n = 8) as well as at 6 × 109 v.p. (d1/100; n = 2). In b, the growth curves of the female mice: L3/L3 mice
(n = 20), MCK-cre untreated (n = 47) and MCK-cre mice treated with the
AAV9-hFXN at 6 × 1011 v.p. (n = 7) as well as at 6 × 109 v.p. (n = 3). There was
no difference between the L3/L3 and the different MCK-cre mice groups. Effects
of
AAV9-hFXN
treatment
on
cardiac
function. Echocardiography examination was also made on these mice
(Figure 9). An AAV9 coding for frataxin
C Gérard et al. Despite the voluntary sacrifice
of some mice for the two highest quantities of virus injected, the
average survival of the NSE-cre mice was significantly increased
from 35 ± 18 days (untreated) to 103 ± 32 and 135 ± 40 with the
injection of 6 × 1011 v.p. and 3 × 1011 v.p. of AAV9-hFXN respectively
(Figure 3b). All the quantities of virus led to a significant increase
of the survival compared to the untreated mice. The survival was
doubled with v.p. dilutions from 1/100 to 1/20. The 6 × 1011 v.p dose
of virus increased the survival by roughly threefolds. PART 2: study on the MCK-cre micei PART 2: study on the MCK-cre micei The results obtained in the first part with the NSE-cre mice showed
a strong presence of human frataxin protein in the heart of the
treated mice with a single injection of 6 × 109 v.p. For the study of
the MCK-cre mice, we thus decided to focus only on the highest and
lowest doses of virus because the major health problem of the MCK-
cre is due to the deletion of frataxin in heart. Effects of AAV9-FXN treatment on body weight. The MCK-cre mice
followed the same body weight growth curve as the L3/L3 mice. The growth curve of these MCK-cre mice was not modified by the
administration of AAV9-hFXN at 6 × 1011 v.p. and 6 × 109 v.p. (d1/100)
(Figure 5a,b). Effects of AAV9-hFXN treatment on cardiac function. At the time
of sacrifice, the weight of the heart of the mice treated or not with
the different doses of AAV9-hFXN was measured (Figure 4a). There
was no significant heart weight difference between the L3/L3, the
NSE-cre, and the treated NSE-cre mice with 6 × 1011 v.p. to 6 × 1010
v.p. (d1/10). However, because of the difference in body weight,
we also expressed the heart weight as a percentage of the total Detection of human frataxin after the AAV9-hFXN treatment. The presence of the virus was detected by PCR in genomic DNA
(Figure 6a on the left) and by RT-PCR (Figure 6a on the right)
following a treatment with 6 × 1011 v.p. As for NSE-cre mice, the
strongest band was observed for the heart tissue. An AAV9 coding for frataxin
C Gérard et al. The injection of AAV9-hFXN ameliorated significantly
the stroke volume (a), the cardiac output (b) and the systolic (c) and
diastolic (d) diameters of the MCK-cre mice (Figure 9, on the left). The
relative wall thickness, the fractional shortening and the fractional
ejection were also ameliorated in the MCK-cre treated mice
(Supplementary Figures S2 and S3). The injection of AAV9-hFXN
had no effect on the stroke volume and the cardiac output of NSE-
cre mice. However, the treatment restored the diastolic and systolic
diameters of the heart of NSE-cre mice (Figure 9c,d, on the right). human frataxin protein was also detected with the dipstick method
(Figure 6b). Following the injection of 6 × 1011 v.p. of AAV9-hFXN, the
presence of frataxin was observed in all tissues tested, the stronger
bands being in muscle, liver, and heart. Following the administration
of 6 × 109 v.p., the human frataxin protein was still observed in all
the organs except in the brain where no protein was detected. However, the frataxin concentrations were lower than following the
administration of the higher quantity of virus. An AAV9 coding for frataxin
C Gérard et al. The presence of Molecular Therapy — Methods & Clinical Development (2014) 14044 © 2014 The American Society of Gene & Cell Therapy An AAV9 coding for frataxin
C Gérard et al. 5 Figure 5
Evolution of muscle creatine kinase (MCK)-cre mouse weight. In a, the growth curves of the male mice: L3/L3 mice (n = 26), MCK-cre
untreated (no treatment; n = 67) and MCK-cre mice treated with the
AAV9-hFXN at 6 × 1011 v.p. (AAV9-hFXN; n = 8) as well as at 6 × 109 v.p. (d1/100; n = 2). In b, the growth curves of the female mice: L3/L3 mice
(n = 20), MCK-cre untreated (n = 47) and MCK-cre mice treated with the
AAV9-hFXN at 6 × 1011 v.p. (n = 7) as well as at 6 × 109 v.p. (n = 3). There was
no difference between the L3/L3 and the different MCK-cre mice groups. 0
5
10
15
20
25
30
35
Male body weight (g)
L3/L3
AAV9-hFXN
d1/100
No treatment
0
5
10
15
20
25
30
35
Female body weight (g)
0
50
100
150
200
250
Age in days
0
50
100
150
200
250
Age in days
L3/L3
AAV9-hFXN
d1/100
No treatment
a
b doses of AAV9-hFXN reduced heart weight. The heart weight was
expressed as a percentage of the total body weight. This percentage
was higher for the untreated mice than for the control L3/L3 mice
(Figure 7c). It was however significantly decreased with both doses
of virus. doses of AAV9-hFXN reduced heart weight. The heart weight was
expressed as a percentage of the total body weight. This percentage
was higher for the untreated mice than for the control L3/L3 mice
(Figure 7c). It was however significantly decreased with both doses
of virus. 0
5
10
15
20
25
30
35
Male body weight (g)
L3/L3
AAV9-hFXN
d1/100
No treatment
0
5
10
15
20
25
30
35
Female body weight (g)
0
50
100
150
200
250
Age in days
0
50
100
150
200
250
Age in days
L3/L3
AAV9-hFXN
d1/100
No treatment
a
b 0
5
10
15
20
25
30
35
Male body weight (g)
L3/L3
AAV9-hFXN
d1/100
No treatment
0
50
100
150
200
250
Age in days
a
b a PART 3: behavior study and echocardiography on NSE-cre and
MCK-cre injected with 6 × 1011 v.p. Molecular Therapy — Methods & Clinical Development (2014) 14044 © 2014 The American Society of Gene & Cell Therapy DISCUSSION
FRDA i d For the MCK-cre mice, among the 14 mice treated with
6 × 1011 v.p. AAV9-hFXN, only 4 died between 80 and 116 days, 10
were sacrificed for cardiac analysis (4 mice at 203 days, 4 mice at 251
days, and 2 mice at 253 days). Perdomini et al.14 also increased sig-
nificantly the survival of the MCK-cre mice through an intravenous
injection of 5.4 × 1013 vg/kg of AAVrh10 (this corresponds to about
5 × 1011 v.p. per young mouse) coding for for the human frataxin. The viral dose injected per mouse or rat was around 1011 g.c. ou v.p. per animal in many publications.14,16,17 Bish et al.17 also tested various
dilutions of the AAV vector (2.5 × 1011, 2.5 × 1010, and 2.5 × 109 viral
particules. They found that the expression in heart was diminished
with the dilution contrarily to our results with the NSE-cre where
the frataxin protein stayed at high quantity for all the dilution of
virus tested in heart (Figure 2b). Our study clearly showed that with
a quantity of 6 × 1011 v.p., the frataxin protein was detected in the
brain of mice but with only 6 × 109 v.p., the heart function was still
improved as well as the survival of the mice. This suggests that the
quantity of virus injected could be adjusted to the targeting organ,
with a lower quantity for the heart and a higher quantity to reach
the brain. The MCK-cre mice were used for this study because they have more
specific cardiac symptoms of FRDA compared to the NSE-cre mice,
which lack of frataxin in almost every organ. The NSE-cre mice were
however useful because of its severe early onset symptoms, which
permitted to detect rapidly clear differences following an effective
treatment with the AAV9-hFXN. This absence of frataxin expression starts during the embryo-
logical development of the conditional KO mice bred with a mouse
expressing the Cre gene. Our results confirmed the previous report
that the NSE-cre mice have a lower than normal weight and develop
progressive neurological symptoms and hunched stance.13 The age of death of the untreated MCK-cre mice was similar in
all research groups (76 ± 10 days)13 and 65 ± 10 days14 versus 71 ± 20
days for us. DISCUSSION
FRDA i d Effects of AAV9-hFXN treatment on survival and cardiac function. The MCK-cre mice had no behavioral difference with the L3/L3 mice
when they were young. Indeed, their behavior and body weight
gain were similar to those of L3/L3 mice. However, the mouse health
regressed suddenly after 50 days. They had periods of difficulty to
breathe, to walk and within 24–48 hours they had to be sacrificed
due to ethical concerns. The age of sacrifice varied between 71 ± 20
days (mean ± SEM) (Figure 7a). 10 MCK-Cre mice treated with
6 × 1011 v.p. of AAV9-hFXN were voluntary sacrificed at 203 or 251
days. For MCK-cre mice, the survival went from 71 ± 20 days without
treatment to 194 ± 67 days following a 6 × 1011 v.p. AAV treatment
(Figure 7a). Both doses of AAV9-hFXN (i.e., 6 × 1011 v.p. and 6 × 109
v.p.) significantly improved the survival of these mice. The weight of
the heart was also measured as well as the body weight. The heart
weight of MCK-cre was significantly higher than that of control L3/
L3 mouse heart, due to a clear cardiac hypertrophy (Figure 7b). Both FRDA is due to a reduced expression of frataxin following an expan-
sion of a trinucleotide (GAA) repeat in intron 1.1 Frataxin is a mito-
chondrial protein and its reduction leads in turn to a mitochondrial
miss-function (for a review of the pathological mechanism, see
Pandolfo et al.3). There is increased oxidative stress and accumula-
tion of iron in the mitochondria. These changes, particularly the
increased oxidative stress, lead to cell death, including neurons and
cardiomyocytes. This progressive cell death results in several neuro-
logical and cardiac symptoms. The transgenic NSE-cre and MCK-cre mouse models were devel-
oped by Dr Puccio.13 The MCK-cre model of FRDA has floxed frataxin
gene in the heart and the muscles in which the Cre recombinase
is expressed. We have detected no expression of mouse frataxin in
these tissues. However, for the NSE-cre mice, there was a complete
knockout of the mouse frataxin gene only in the heart and a partial
KO in the muscle, liver, kidney, and brain. Our results in the MCK-
cre and the NSE-cre confirmed the previously published results.13 © 2014 The American Society of Gene & Cell Therapy An AAV9 coding for frataxin
C Gérard et al. C Gérard et al. DISCUSSION
FRDA i d Figure 6
Detection of the hFXN transgene in various tissues of muscle creatine kinase (MCK)-cre. (a) The human frataxin (hFXN) transgene was detected
by polymerase chain reaction (PCR) not only in the DNA of muscles (M), L (liver), heart (H), kidney (K), and brain (B) of the mice injected with AAV9-hFXN
at 6 × 1011 v.p. (on the left) but also the expression of human frataxin (on the right). (b) Finally, an ELISA test (Dipstick) was made to detect the human
FXN protein in the tissues of MCK-cre mice treated with AAV9-hFXN at 6 × 1011 v.p. (named AAV9-hFXN; n = 8) and at 6 × 109 v.p. (named d1/100; n = 4). The presence of human frataxin was strongest with the highest viral doses and decreased in all tissues with the dilution. a
b
hFXN
Ctrl
0
1
2
3
4
5
6
7
8
9
10
M
L
H
K
B
Dipstick semi-semi quantification
AAV9-hFXN
d1/100
AAV-hFXN
hFXN (407 pb) gDNA
hFXN (407 pb) cDNA
M
L
H
K
B
M
L
H
K
B 6 a
b
hFXN
Ctrl
0
1
2
3
4
5
6
7
8
9
10
M
L
H
K
B
Dipstick semi-semi quantification
AAV9-hFXN
d1/100
AAV-hFXN
hFXN (407 pb) gDNA
hFXN (407 pb) cDNA
M
L
H
K
B
M
L
H
K
B b M Figure 6
Detection of the hFXN transgene in various tissues of muscle creatine kinase (MCK)-cre. (a) The human frataxin (hFXN) transgene was detected
by polymerase chain reaction (PCR) not only in the DNA of muscles (M), L (liver), heart (H), kidney (K), and brain (B) of the mice injected with AAV9-hFXN
at 6 × 1011 v.p. (on the left) but also the expression of human frataxin (on the right). (b) Finally, an ELISA test (Dipstick) was made to detect the human
FXN protein in the tissues of MCK-cre mice treated with AAV9-hFXN at 6 × 1011 v.p. (named AAV9-hFXN; n = 8) and at 6 × 109 v.p. (named d1/100; n = 4). The presence of human frataxin was strongest with the highest viral doses and decreased in all tissues with the dilution. The lower AAV dose (6 × 109 v.p.) increased significantly the survival
of NSE-cre mice. The longer survival was obtained for the three
highest viral doses even if some mice were voluntarily sacrificed for
experiments. Molecular Therapy — Methods & Clinical Development (2014) 14044 © 2014 The American Society of Gene & Cell Therapy DISCUSSION
FRDA i d The weight of the mouse
heart treated or not with the AAV9-hFXN was measured at the time of sacrifice (b) and expressed as a percentage of the whole body weight (c). The
heart weight of the MCK-cre was higher than that of the L3/L3; this hypertrophy was prevented by the AAV9-hFXN treatment. The normalized heart
weights of the untreated MCK-cre mice were higher than that of the wt mice. The treatment with AAV9-hFXN ameliorated the percentage compared
to the control and the lowest quantity led to the same value than the control L3/L3. The *** indicate significant difference at P less than 0.0001. P ≤
0.05*; P ≤ 0.001**; P ≤ 0.0001***. chamber dimension and a reduction in left ventricular fractional
shortening,19 which were also observed in our study. In our stud-
ies, the average age of the untreated MCK-cre mice tested for echo-
cardiography was 70 days (59–71 days for the 11 mice). However,
one mouse was evaluated at 131 days corresponding to a late stage
since the untreated mice lived an average of 71 days. volume ejected by the left ventricle during the systole while the car-
diac output corresponds to this volume multiplied by the heart fre-
quency to obtain the ejected volume per minute. The stroke volume
of the MCK-cre mice is about only haft of that of normal mice. Thus
the MCK-cre mice have cardiac insufficiency. The fractional shorten-
ing, the stroke volume and the cardiac output were all significantly
improved in the MCK-cre mice treated with AAV9-hFXN.f The percentage of fractional ejection was significantly reduced
from 51% for the wt mice to 32% for the MCK-cre mice, a symp-
tom similar to that of the FRDA patients. The AAV9-hFXN treatment
permitted to increase the fractional ejection to 43% without com-
pletely restoring the function (Supplementary Figure S3). The same
observation was made for the stroke volume, which was reduced
in FRDA patient. The stroke volume of wt mice was 0.042 ml, this
decreased to 0.02 ml in MCK-cre mice. The treatment of these mice
when they were only 5–9 days old with AAV9-hFXN prevented the
reduction of the stroke volume. Thus, these treated MCK-cre mice
had an average stroke volume of 0.034 ml. The fractional heart
shortening is reduced in the MCK-cre mice. This means that the
left ventricle in diastole and in systole varies less during the cardiac
cycle. DISCUSSION
FRDA i d Thus, the average age of sacrifice of the treated mice was significantly
igher than that of the untreated mice for both MCK-cre groups treated at the higher (n = 14) and the lower (n = 5) viral doses. The weight of the mouse
eart treated or not with the AAV9-hFXN was measured at the time of sacrifice (b) and expressed as a percentage of the whole body weight (c). The
eart weight of the MCK-cre was higher than that of the L3/L3; this hypertrophy was prevented by the AAV9-hFXN treatment. The normalized heart
weights of the untreated MCK-cre mice were higher than that of the wt mice. The treatment with AAV9-hFXN ameliorated the percentage compared
o the control and the lowest quantity led to the same value than the control L3/L3. The *** indicate significant difference at P less than 0.0001. P ≤
.05*; P ≤ 0.001**; P ≤ 0.0001***. 0
50
100
150
200
250
No treatment
AAV9-hFXN
d1/100
Age in days
Survival depending on AAV doses
a
b
c
0.00
0.05
0.10
0.15
0.20
0.25
L3/L3
AAV9-hFXN
d1/100
No treatment
Heart weightening
L3/L3
AAV9-hFXN
d1/100
No treatment
0.0
0.2
0.4
0.6
0.8
1.0
1.2
1.4
% Heart to body weight
*
***
**
***
**
*
**
***
*** 0
50
100
150
200
250
No treatment
AAV9-hFXN
d1/100
Age in days
Survival depending on AAV doses
a
***
*** Survival depending on AAV doses a b
0.00
0.05
0.10
0.15
0.20
0.25
L3/L3
AAV9-hFXN
d1/100
No treatment
Heart weightening
**
*
** b c
L3/L3
AAV9-hFXN
d1/100
No treatment
0.0
0.2
0.4
0.6
0.8
1.0
1.2
1.4
% Heart to body weight
*
***
**
*** c Figure 7
Improved life survival of the muscle creatine kinase (MCK)-cre mice treated with AAV9-frataxin. (a) Without treatment, the MCK-cre had to be
sacrificed at an average age of 71 ± 20 days (no treatment; n = 37). However, the MCK-cre injected intraperitoneally (i.p.) with 6 × 1011 v.p. or 6 × 109 v.p. of AAV9-hFXN were voluntary sacrificed after 180 days for further investigation. Thus, the average age of sacrifice of the treated mice was significantly
higher than that of the untreated mice for both MCK-cre groups treated at the higher (n = 14) and the lower (n = 5) viral doses. DISCUSSION
FRDA i d In the case of the NSE-cre mice, the age of death was
a little higher in our results 35 ± 18 days than in those of Dr Puccio
(24 ± 9 days)13 and Dr Payne groups (28 ± 2 days).15 The difference in
mouse survival could be due to the difference in the mouse hous-
ing (the accessibility to the food and after the weaning, a wild type
female remained in the cage with the sick mice to help them to
make a nest and to take care of themselves). Both mutants are thus very severe models of the disease and
have a short life expectancy without treatment. Our results clearly
demonstrated that the IP administration of an AAV9 vector cod-
ing for human frataxin significantly increased up to two times the
life expectancy of both NSE-cre and MCK-cre mice with high and
low quantity of virus. Vyas et al.15 also increased by around 50% the
survival of the NSE-cre mice by intrainjection of Tat-frataxin protein
twice a week with a maximum of 88 days of survival. In our study,
among the 18 NSE-cre mice treated with 6 × 1011 v.p. AAV9-hFXN,
only one died at 46 days, the other ones lived more than 74 days
and five were sacrificed for the cardiac analysis at 96 and 121 days. In Friedreich’s patient, a hypertrophic cardiomyopathy was
observed due to a thickening of the ventricular walls.18 In general,
the global systolic function is preserved but at the end of their life,
the ejection fraction is reduced. The MCK-cre and NSE-cre model
reproduce the cardiomyopathy as well as the biochemical features
observed in FRDA patients.13–15 In the MCK model, after 6 weeks, this
cardiomyopathy is characterized by an increased in left ventricular
end-distolic chamber dimensions and left ventricular end-systolic An AAV9 coding for frataxin
C Gérard et al. 7 gure 7
Improved life survival of the muscle creatine kinase (MCK)-cre mice treated with AAV9-frataxin. (a) Without treatment, the MCK-cre had to be
acrificed at an average age of 71 ± 20 days (no treatment; n = 37). However, the MCK-cre injected intraperitoneally (i.p.) with 6 × 1011 v.p. or 6 × 109 v.p. f AAV9-hFXN were voluntary sacrificed after 180 days for further investigation. © 2014 The American Society of Gene & Cell Therapy Molecular Therapy — Methods & Clinical Development (2014) 14044 DISCUSSION
FRDA i d The reason for this reduced variation is that the ventricle is
contracting less during the systole. The stroke volume is the blood For the NSE-cre mice, less difference were observed compared to
the wt mice. In our study, the stroke volume as well as the cardiac
output was significantly lower for the NSE-cre mice while the ejec-
tion fraction and the fractional shortening was similar between the
wt and the NSE mice (Figure 8 and Supplementary Figures S2 and
S3). The same conclusion was made by Vyas et al.15 study by com-
paring wt and NSE-cre mice. They used Tat-frataxin protein to treat
the disease, and even though the survival of the treated mice was
increased, these cardiac parameters were not significantly amelio-
rated, and this was also the case in our study for the stroke volume
and the cardiac output. However, it should be noted that although the AAV9-hFXN was
detected as well as the protein in the brain of our mice injected with
6 × 1011 v.p., the mice did develop nervous symptoms (abnormal leg An AAV9 coding for frataxin
C Gérard et al. C Gérard et al. Figure 8
Cage activity. The activity was estimated for the different groups of mice (L3/L3, n = 11; muscle creatine kinase (MCK)-cre, n = 15; MCK-cre
treated with 6 × 1011 v.p. of AAV9-hFXN, n = 7; neuron-specific enolase (NSE)-cre, n = 4 and NSE-cre treated with 6 × 1011 v.p. of AAV9-hFXN, n = 5) as the
distance traveled in meters (a), the mean rear duration in seconds (b), the duration of immobility in seconds (c), and the number of immobile episodes
(d). The injection of AAV9-hFXN significantly improved the distance traveled (a) and the mean rear duration (b) of the NSE-cre treated mice. The ***
indicate significant difference at P less than 0.0001. P ≤ 0.05*; P ≤ 0.001**; P ≤ 0.0001***. DISCUSSION
FRDA i d 0.0
0.5
1.0
1.5
2.0
2.5
3.0
3.5
4.0
Distance traveled (m)
0
0
20
40
60
80
100
120
Time immobile (s)
2
4
6
8
10
12
14
Episode immobile (s)
0
1
2
3
4
5
6
7
8
9
Mean rear duration (s)
*
*
*
*
*
*
a
b
c
d
L3/L3
MCK-cre MCK-cre-AAV
NSE-cre-AAV
NSE-cre
L3/L3
MCK-cre MCK-cre-AAV
NSE-cre-AAV
NSE-cre
L3/L3
MCK-cre MCK-cre-AAV
NSE-cre-AAV
NSE-cre
L3/L3
MCK-cre MCK-cre-AAV
NSE-cre-AAV
NSE-cre 8 0
20
40
60
80
100
120
Time immobile (s)
*
c
L3/L3
MCK-cre MCK-cre-AAV
NSE-cre-AAV
NSE-cre 0.0
0.5
1.0
1.5
2.0
2.5
3.0
3.5
4.0
Distance traveled (m)
*
*
a
L3/L3
MCK-cre MCK-cre-AAV
NSE-cre-AAV
NSE-cre c a 0
1
2
3
4
5
6
7
8
9
Mean rear duration (s)
*
*
b
L3/L3
MCK-cre MCK-cre-AAV
NSE-cre-AAV
NSE-cre 0
2
4
6
8
10
12
14
Episode immobile (s)
*
d
L3/L3
MCK-cre MCK-cre-AAV
NSE-cre-AAV
NSE-cre b d Figure 8
Cage activity. The activity was estimated for the different groups of mice (L3/L3, n = 11; muscle creatine kinase (MCK)-cre, n = 15; MCK-cre
treated with 6 × 1011 v.p. of AAV9-hFXN, n = 7; neuron-specific enolase (NSE)-cre, n = 4 and NSE-cre treated with 6 × 1011 v.p. of AAV9-hFXN, n = 5) as the
distance traveled in meters (a), the mean rear duration in seconds (b), the duration of immobility in seconds (c), and the number of immobile episodes
(d). The injection of AAV9-hFXN significantly improved the distance traveled (a) and the mean rear duration (b) of the NSE-cre treated mice. The ***
indicate significant difference at P less than 0.0001. P ≤ 0.05*; P ≤ 0.001**; P ≤ 0.0001***. movement when they were hold up by the tail (see Supplementary
Video S1). These symptoms are potentially the consequence of
insufficient expression of frataxin in the brain of these mice start-
ing during early embryogenesis. It is reported that the NSE mice
have spongiform degeneration as in brain cortex and the deletion
of frataxin in other organs like the liver should explain the short
lifetime.13,20 The mode of administration as well as the serotype of the AAV
used are both very important for the diffusion and the expression
in the organism. To treat specifically the heart, some experiments
where made with a direct injection of AAV in the thoracic cham-
ber or directly into the pericardia tissue. DISCUSSION
FRDA i d Piras et al.16 showed that
the AAV9 were detected in heart and in lung but the expression
was only observed in the heart. Another article from Bish et al.17
compared different AAV serotypes 1–9 injected intrapericardially. They found that AAV9 led to the higher expression in heart. They
also shown that even through following intrapericardiac injection,
the presence of the virus was detected in all other tissues it was a
strongly expressed only in the heart.f The recent article from Dr. Puccio’s group showed that the intra-
venous injection of an AAVrh10-hFXN in 3 weeks old MCK mice also
increased the survival and preserved of the heart’s activity. The virus
was particularly present in the heart, the liver, and the dorsal root
ganglia but the expression was lower in skeletal muscles.14 Piras et
al.16 indicated that AAV9 can deliver a shRNA with good efficacy to
the heart while Aschauer et al.21 indicated that it can infect neurons
very effectively. Our genomic analysis indicated that the AAV9-hFXN
injection resulted in strong presence of the human frataxin transgene
in muscle, heart, and brain. The expression of human frataxin in the
different organs parallels the intensity of bands in the genomic result. Nevertheless, the presence of human frataxin protein was also strong
in liver in our mice. This strong expression of frataxin in the liver
was also observed in a recent article from Puccio’s group14 by using
a AAVrh10 to deliver the human frataxin to mice. Compared to this
study, we demonstrated that an IP injection of an AAV9 led not only
to a high detection of frataxin in heart, in liver (which was observed in
Puccio’s group) but also in skeletal muscle. In view to all the results obtained and with the different modes of
injection described previously, we conclude that a simple IP injec-
tion is as effective as a venous or a direct cardiac injection to obtain a
significant effect in the heart and in the brain, at least with the AAV9
serotype. Therefore, our results suggest that the administration of
an AAV9 coding for human frataxin may be able to increase the
expression of frataxin in the brain and the heart of FRDA patients. The increased expression of the frataxin may reduce or prevent the
development of nervous system and cardiac symptoms. Molecular Therapy — Methods & Clinical Development (2014) 14044 © 2014 The American Society of Gene & Cell Therapy DISCUSSION
FRDA i d The exposition to an AAV has been shown to induce an immune
response.22–24 Thus, many humans have preformed antibodies to
AAV and this has led to the failure of the early clinical trials conducted
with AAV2.25 However, a recent clinical trial for hemophilia B using an An AAV9 coding for frataxin
C Gérard et al. C Gérard et al. Figure 9
AAV9-frataxin treatment improved heart function of muscle creatine kinase (MCK)-cre mice. Stroke volume (a), cardiac output (b), systolic
(c), and diastolic (d) diameters were evaluated by echocardiography under isoflurane anesthesia. All these parameters were improved in the MCK-cre
that received 6 × 1011 v.p. of AAV9-hFXN compared to untreated MCK-cre mice. In neuron-specific enolase (NSE)-cre mice, only the systolic and diastolic
diameters were enhanced. The *** indicate significant difference at P less than 0.0001. P ≤ 0.05*; P ≤ 0.001**; P ≤ 0.0001***. L3/L3
NSE-cre
NSE-cre-AAV
0
5
10
15
20
Cardiac
output (ml/min)
L3/L3
MCK-cre
MCK-cre-AAV
0
5
10
15
20
Cardiac
output (ml/min)
L3/L3
NSE-cre
0.00
0.01
0.02
0.03
0.04
0.05
Stroke
volume (ml)
L3/L3
MCK-cre
MCK-cre-AAV
0.00
0.01
0.02
0.03
0. 04
0.05
Stroke
volume (ml)
L3/L3
NSE-cre
NSE-cre-AAV
0.00
0.20
0.40
Systolic
diameter (mm)
L3/L3
MCK-cre
MCK-cre-AAV
0.00
0.10
0.20
0.30
0.40
0.50
Systolic
diameter (mm)
L3/L3
NSE-cre
NSE-cre-AAV
0.00
0.20
0.40
0.60
Diastolic
diameter (mm)
L3/L3
MCK-cre
MCK-cre-AAV
0.00
0.20
0.40
0.60
Diastolic
diameter (mm)
***
*
*
**
***
*
**
**
*
***
*
**
NSE-cre-AAV
*
**
**
**
a
b
c
d 9 L3/L3
NSE-cre
0.00
0.01
0.02
0.03
0.04
0.05
Stroke
volume (ml)
**
NSE-cre-AAV
* L3/L3
MCK-cre
MCK-cre-AAV
0.00
0.01
0.02
0.03
0. 04
0.05
Stroke
volume (ml)
***
*
**
a a L3/L3
MCK-cre
MCK-cre-AAV
0
5
10
15
20
Cardiac
output (ml/min)
***
*
**
b b L3/L3
NSE-cre
NSE-cre-AAV
0
5
10
15
20
Cardiac
output (ml/min)
**
** L3/L3
MCK-cre
MCK-cre-AAV
0.00
0.10
0.20
0.30
0.40
0.50
Systolic
diameter (mm)
***
*
*
c c L3/L3
NSE-cre
NSE-cre-AAV
0.00
0.20
0.40
Systolic
diameter (mm)
* L3/L3
MCK-cre
MCK-cre-AAV
0.00
0.20
0.40
0.60
Diastolic
diameter (mm)
**
d d L3/L3
NSE-cre
NSE-cre-AAV
0.00
0.20
0.40
0.60
Diastolic
diameter (mm)
** Figure 9
AAV9-frataxin treatment improved heart function of muscle creatine kinase (MCK)-cre mice. Stroke volume (a), cardiac output (b), systolic
(c), and diastolic (d) diameters were evaluated by echocardiography under isoflurane anesthesia. DISCUSSION
FRDA i d All these parameters were improved in the MCK-cre
that received 6 × 1011 v.p. of AAV9-hFXN compared to untreated MCK-cre mice. In neuron-specific enolase (NSE)-cre mice, only the systolic and diastolic
diameters were enhanced. The *** indicate significant difference at P less than 0.0001. P ≤ 0.05*; P ≤ 0.001**; P ≤ 0.0001***. ACTGAAGCTTATCAAGCATCTTTTCCGGAATAG 3′. The forward primer
also contained the Kozak sequence GCCACC before the start codon
ATG and the reverse primer had two stop codons at the end of the
coding sequence. The vectors were then packaged in AAV9 capsid
using the adenovirus-free, triple plasmid DNA transfection method
and purified twice with CsCl gradient (1). AAV vector genome (v.g.)
copies/ml were titrated by a standard dot-blot assay. AAV8 has been very successful because most humans do not have
pre-formed antibodies to this serotype of the virus.26 Puccio et al.14
detected no immune reaction in mice after one intra-venous injec-
tion of AAVrh10-hFXN. Although an immune response will probably
develop in the FRDA patients following the systemic delivery of an
AAV8, AAV9, or AAVrh10 coding for frataxin, this will not be a prob-
lem since no readministration of the virus will be required. The main
problem facing this potential therapy is that the large-scale produc-
tion of AAV vector under GMP conditions remains difficult. ACTGAAGCTTATCAAGCATCTTTTCCGGAATAG 3′. The forward primer
also contained the Kozak sequence GCCACC before the start codon
ATG and the reverse primer had two stop codons at the end of the
coding sequence. The vectors were then packaged in AAV9 capsid
using the adenovirus-free, triple plasmid DNA transfection method
and purified twice with CsCl gradient (1). AAV vector genome (v.g.)
copies/ml were titrated by a standard dot-blot assay. AAV8 has been very successful because most humans do not have
pre-formed antibodies to this serotype of the virus.26 Puccio et al.14
detected no immune reaction in mice after one intra-venous injec-
tion of AAVrh10-hFXN. Although an immune response will probably
develop in the FRDA patients following the systemic delivery of an
AAV8, AAV9, or AAVrh10 coding for frataxin, this will not be a prob-
lem since no readministration of the virus will be required. The main
problem facing this potential therapy is that the large-scale produc-
tion of AAV vector under GMP conditions remains difficult. Reproduction of the mutant mice Supplementary Figure S1a summarizes the different mouse geno-
types (Puccio 2001). DISCUSSION
FRDA i d Mice homozygous for a conditional allele of
Frda (FrdaL3/L3) and heterozygous FrdaL3/L:NSE-cre (NSE-cre), which
carried a tissue-specific Cre transgene under the control of the neu-
ron-specific enolase (NSE), were gifts from Dr M Payne laboratory
(Indiana University School of Medicine) following the permission
of Dr Puccio (Institut de Génétique et de Biologie Moléculaire et
Cellulaire, Illkirch, France) who generated these mice.13 These mice
were bred in our animal facility to produce FrdaL-/L-:NSE-Cre (NSE-
cre). In these mice, both conditional knockout frataxin genes are © 2014 The American Society of Gene & Cell Therapy Molecular Therapy — Methods & Clinical Development (2014) 14044 MATERIALS AND METHODS AAV vector construction and viral vector production The AAV vector plasmids were made and packaged in AAV9
capsids as previously described.27–29 Specifically, the AAV vec-
tor plasmid dsAAV-CB-hFrataxin (AAV9-hFXN) was derived from
plasmid dsAAV-CB-GFP30 by replacing the GFP gene with the
human frataxin coding sequence, which was polymerase chain
reaction (PCR) amplified with the following primers: Forward: 5′
TAGTGCTAGCCACCATGTGGACTCTCGGGCGCCG 3′ and reverse: 5′ Molecular Therapy — Methods & Clinical Development (2014) 14044 © 2014 The American Society of Gene & Cell Therapy An AAV9 coding for frataxin
C Gérard et al. Table 2
Polymerase chain reaction parameters
Gene name
Primer sequences
Tm
Nb of cycles
Enzyme
Delta FXN allele (Fw) (Rev)
5′-CTG TTT ACC ATG GCT GAG ATC TC-3′
62,5
35
Terra
5′-GTA GCT GGC TGG GAA ATG AA-3′
mFXN (Fw) (Rev)
5′-CTG CGT GGT GCA TTT GAG GAA C-3′
62
35
Taq 360
5′-CAT GCA GAG ACA CGC CGT CAT GA-3′
hFXN (Fw) (Rev)
5′-AAC GTG GCC TCA ACC AGA TTT G-3′
62
30
Taq 360
5′-TAA GGC TTT AGT GAG CTC TGC G-3′
m β-actin (Fw) (Rev)
5′-ATA CGC TGC GCT GGT CGT C-3′
58
30
Taq 360
5′-AGG ATG GCG TGA GGG AGA GC-3′ An AAV9 coding for frataxin
C Gérard et al. 10 knocked out in the neurons and in other tissues expressing the Cre
gene. Two hemizygous males B6.FVB(129S4)-Tg(Ckmm-cre)5Khn/J
were also purchased from the Jackson laboratory (stock # 006475)
and used to generate FrdaL-/L-:MCK-cre (MCK-cre). In these mice,
both conditional KO frataxin genes are knocked in skeletal muscle
fibers and in cardiac cells. For the experiments, FrdaL3/L3 mice were
used as control mice in many experiments. All the experiences were
approved by the animal care committee of the Centre Hospitalier
de l’Université Laval. knocked out in the neurons and in other tissues expressing the Cre
gene. Two hemizygous males B6.FVB(129S4)-Tg(Ckmm-cre)5Khn/J
were also purchased from the Jackson laboratory (stock # 006475)
and used to generate FrdaL-/L-:MCK-cre (MCK-cre). In these mice,
both conditional KO frataxin genes are knocked in skeletal muscle
fibers and in cardiac cells. For the experiments, FrdaL3/L3 mice were
used as control mice in many experiments. All the experiences were
approved by the animal care committee of the Centre Hospitalier
de l’Université Laval. The weight of the mice was evaluated after weaning and until their
death. RT-PCR The total RNA was extracted using the Trizol reagent from a part of
the different tissues. First-strand cDNAs were synthesized using 1 µg
total RNA with the oligo (dt) primer and Superscript III reverse tran-
scriptase. PCR was performed with 2 µl of the cDNA solution using the
primers specific for β-actin (reference gene), human frataxin (hFXN),
and mouse frataxin (mFXN). The PCR parameters are presented in
Table 2. PCR products were then separated by electrophoresis in 1%
agarose gels and were stained with RedSafe (Chembio, St Albans,
Herts AL2 3UG). A picture of the gel was obtained with the GelDoc
program (BioRad, Mississauga, Ontario, Canada) under UV light. DNA extraction DNA was extracted from different tissues (muscle, liver, heart, kid-
ney, and brain). Briefly, a part of the recovered tissue was incubated
with 50 µl of proteinase K (10 mg/ml) in a lysis buffer at 56 °C until
the solution became clear. Digested tissues were then mixed with
500 µl of a solution of phenol/chloroform/isoamyl alcohol (25:24:1)
and centrifuged 3 minutes at 13,000 rpm. The upper solution was
recovered and mixed with the same volume of chloroform and cen-
trifuged again. The upper solution was recovered and 50 µl of 5 mol/l
sodium chloride was added before the addition of 1 ml of 100% etha-
nol. After a 8-minute centrifugation at 13,000 rpm, the pellets were
washed in 70% alcohol before another centrifugation. The pellets
were then dried before the suspension of the DNA in sterile water. PCR was performed with 50 ng of the genomic DNA solution using
primers specific for delta and human frataxin (hFXN). The annealing
temperatures and the PCR parameters are presented in the Table 2. Two mouse models were used in this study: the MCK-cre and NSE-
cre mice. Homozygous conditional knockout mice FrdaL3/L3 were
bred with heterozygote mice FrdaL3/+ also expressing the Cre gene
under the MCK promoter. Some of the offsprings were homozygous
for the conditional KO frataxin gene and also had the MCK-cre gene. Therefore these mice had both frataxin genes KO in their skeletal
muscles and heart starting during embryogenesis. These mice are
designated as “MCK-cre” mutants. MCK-cre mice (injected or not
with saline) were used as untreated controls. Similarly, homozygous
conditional knockout mice FrdaL3/L3 were bred with heterozygote
mice FrdaL3/+ also expressing the Cre gene under the NSE promoter. Some of the offsprings were homozygous for the conditional KO
frataxin gene and also had the NSE-cre gene. The mice were named
“NSE-cre”. MATERIALS AND METHODS An estimation of the mouse behavior was done each week for
the MCK-cre and twice a day for the NSE-cre mice because of the sever-
ity of their disease. Their health was scored from 0 (normal behavior)
to 4 (severe cardiac or respiratory insufficiency (Table 1) requiring
immediate sacrifice due to ethical concern. At the time of euthanasia,
the body and heart weight was measured. Different tissues (Tibialis
anterior muscle, the liver, the kidneys, the heart, and the brain) were
recovered and directly frozen in liquid nitrogen for analyzes. The FrdaL3/L3 mice have the completed mouse frataxin gene but
there is LoxP site on each side of the exon 4. When these mice
were bred with mice expressing the Cre gene, mice without exon
4 were obtained because the Cre enzyme had cut both LoxP sites
and deleted exon 4. This frataxin allele deleted of exon 4 is called
the delta allele (L-). The deletion of exon 4 led to a nonfunctional
frataxin gene. Molecular Therapy — Methods & Clinical Development (2014) 14044 © 2014 The American Society of Gene & Cell Therapy Administration of AAV9-hFXN A genotype analysis was made in 4 days old mice using the tail tip. The MCK-cre or NSE-cre mice were then injected with a single intra-
peritoneal (IP) injection of viral particles in 60 µl of saline between 5
and 9 days. Control mice were injected with saline. A point of surgi-
cal glue was applied to the skin just after removing the needle to
keep the liquid inside the mice. In the first part of the study, different
quantities of viral particles were injected in NSE-cre mice: 6 × 1011,
3 × 1011 (d1/2), 6 × 1010 (d1/10), 3 × 1010 (d1/20), 1.2 × 1010 (d1/50),
and 6 × 109 (d1/100) v.p. For the second part of the study, only the
highest and lowest doses were tested (6 × 1011 and 6 × 109 viral par-
ticles) on MCK-cre mice. In the third part, only the higher quantity of
virus was used in NSE-cre and MCK-cre mice for more specific evalu-
ations, such as echocardiography. ACKNOWLEDGMENTS This work has been supported by grants from the Canadian Association for Familial
Ataxia, by the Association Française contre les Ataxies Familiales and from the Canadian
Institute of Health Research. 29. Xiao, X, Li, J and Samulski, RJ (1998). Production of high-titer recombinant adeno-
associated virus vectors in the absence of helper adenovirus. J Virol 72: 2224–2232. 30. Wang, Z, Zhu, T, Rehman, KK, Bertera, S, Zhang, J, Chen, C et al. (2006). Widespread and
stable pancreatic gene transfer by adeno-associated virus vectors via different routes. Diabetes 55: 875–884. The authors declare no conflict of interest. The authors declare no conflict of interest. 28. Wang, Z, Ma, HI, Li, J, Sun, L, Zhang, J and Xiao, X (2003). Rapid and highly efficient
transduction by double-stranded adeno-associated virus vectors in vitro and in vivo. Gene Ther 10: 2105–2111. Quantification of the frataxin protein by ELISA The human frataxin protein in various mouse tissues was quanti-
fied using the Dipstick Array of Abcam (cat # ab109881, Cambridge,
MA). This is an immunologic sandwich assay using two monoclonal
antibodies specific for two antigens present in the mature form of
frataxin. One antibody is immobilized on the nitrocellulose mem-
brane of the dipstick in a thin line perpendicular to the length of
the dipstick while the other is gold-conjugated with gives the red
signal proportional to the level of frataxin. To compare and to pool
the different organs and mice, a range from 1 to 10 was established
to “semi-quantify” the density of the frataxin band. 14. Perdomini, M, Belbellaa, B, Monassier, L, Reutenauer, L, Messaddeq, N, Cartier, N et al. (2014). Prevention and reversal of severe mitochondrial cardiomyopathy by gene
therapy in a mouse model of Friedreich’s ataxia. Nat Med 20: 542–547. 15. Vyas, PM, Tomamichel, WJ, Pride, PM, Babbey, CM, Wang, Q, Mercier, J et al. (2012). A
TAT-frataxin fusion protein increases lifespan and cardiac function in a conditional
Friedreich’s ataxia mouse model. Hum Mol Genet 21: 1230–1247. Friedreich’s ataxia mouse model. Hum Mol Genet 21: 1230–1247. 16. Piras, BA, O’Connor, DM and French, BA (2013). Systemic delivery of shRNA by AAV9
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AAV6, AAV7, and AAV8 in the mouse and rat. Hum Gene Ther 19: 1359–1368. AAV6, AAV7, and AAV8 in the mouse and rat. Hum Gene Ther 19: 1359–1 18. Weidemann, F, Eyskens, B, Mertens, L, Di Salvo, G, Strotmann, J, Buyse, G et al. (2003). Quantification of regional right and left ventricular function by ultrasonic strain rate and
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formed on the mice under 1.5% inhaled isoflurane anesthesia using
L17-7 and S12 probes with a HD11XE echograph (Philips Medical
Imaging, Andover, MA). Statistical analyses The experimental values were presented as means ± SD. Statistical
analysis was performed using the StatView statistical package
(StatView 5; SAS Institute, Cary, NC). Comparisons of different vari-
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third party material in this article are included in the article’s Creative Commons license,
unless indicated otherwise in the credit line; if the material is not included under the
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reproduce the material. To view a copy of this license, visit http://creativecommons.org/
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mitochondrial iron-sulphur protein deficiency in Friedreich ataxia. Nat Genet 17: 215–217. This work is licensed. under a Creative Commons Attribution-
NonCommercial-ShareAlike 3.0 Unported License. The images or other
third party material in this article are included in the article’s Creative Commons license,
unless indicated otherwise in the credit line; if the material is not included under the
Creative Commons license, users will need to obtain permission from the license holder to
reproduce the material. To view a copy of this license, visit http://creativecommons.org/
licenses/by-nc-sa/3.0/ 6. Rötig, A, de Lonlay, P, Chretien, D, Foury, F, Koenig, M, Sidi, D et al. (1997). Aconitase and
mitochondrial iron-sulphur protein deficiency in Friedreich ataxia. Nat Genet 17: 215–217. 7. Babady, NE, Carelle, N, Wells, RD, Rouault, TA, Hirano, M, Lynch, DR et al. (2007). Advancements in the pathophysiology of Friedreich’s Ataxia and new prospects for
treatments. Mol Genet Metab 92: 23–35. 7. Babady, NE, Carelle, N, Wells, RD, Rouault, TA, Hirano, M, Lynch, DR et al. (2007). Advancements in the pathophysiology of Friedreich’s Ataxia and new prospects for
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and Coenzyme Q10 therapy. Biofactors 18: 163–171. Molecular Therapy — Methods & Clinical Development (2014) 14044 CONFLICT OF INTEREST 27. Rabinowitz, JE, Rolling, F, Li, C, Conrath, H, Xiao, W, Xiao, X et al. (2002). Cross-packaging
of a single adeno-associated virus (AAV) type 2 vector genome into multiple AAV
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International Relations and/as Thread-work: A Dialogue on Threads, War, and Conflict
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Thread 1. Reflections on curating, exhibiting and making Thread 1. Reflections on curating, exhibiting and making Abstract This intervention reflects on the opportunities for textile art, and its exhibition and making, to
inform our study of conflict, violence, and resistance in International Relations. In a dialogue
drawing on the Threads, War and Conflict exhibition at the Byre Theatre, St Andrews, this
piece grounds our understanding of violence and its resistance through engagement with
materials displayed at and promoting the exhibition. Our discussion of the exhibition and its
associated events draws on metaphors of thread-work to explore the contributions of textile to
international relations and the possibilities that textiles’ material, affective and transgressive
politics hold. Keywords: textiles; textile exhibition; visual IR; curation; IR methodology; arpilleras Keywords: textiles; textile exhibition; visual IR; curation; IR methodology; arpilleras From 3-29 April 2019, the exhibition Threads, war and conflict brought a selection of
conflict textiles from around the world to St Andrews, Scotland.1 Hosted by the University
of St Andrews’ School of International Relations in collaboration with the Byre Theatre,
the exhibition and its associated events programme aimed to explore war, conflict and its
many layers of hope and suffering. Featuring a selection of textiles from the Conflict Textiles
collection,2 including arpilleras3 and protest banners, the exhibition was curated around key
topics addressed in the School of International Relations including resistance, the ethics of
warfare, and migration and displacement. The process of curating the exhibition and its
associated events unfolded organically, drawing together students, academics, Scottish
cultural institutions and interested members of the public. Not only did this process create
space for conversations around the diverse topics of war and conflict addressed with(in)
the textiles, but it also provided rich opportunities for collaborative teaching, research
and engagement. These opportunities resulted in several collaborative outcomes from the
exhibition, including an international academic-practitioner workshop at the Byre Theatre,
and a collective textile made by students and lecturers from Scottish Higher Education
Institutions across a series of workshops, which will now join the Conflict Textiles collection. The conversations and collaborations inaugurated in St Andrews continue within this
dialogue and, indeed, in the Special Issue as a whole. This creative opening more specifically
takes the form of a dialogue between Selena Jamalullail, a School of International Relations
student who served as exhibition tour guide and participated in the collective textile
workshops associated with the exhibition, and Roberta Bacic, curator of the Conflict Textiles
collection. International Relations and/as thread-work: a dialogue on
Threads, war and conflict Authors: Selena Jamalullail
, Independent Researcher, UK, Roberta Bacic
,
Conflict Textiles, UK, Lydia C. Cole
, University of York, UK, Laura Mills
, University of
St Andrews, UK Selena Jamalullail is an independent researcher interested in the intersection between art
exhibitions and global discourse on politics. She attended the University of St Andrews
during 2016-2020 and achieved a Joint Honours degree in Art History and International
Relations. While a student, she participated in the Threads, War and Conflict exhibition at
the Byre Theatre (St Andrews) as an exhibition tour guide. Curator Roberta Bacic is a Chilean Human Rights advocate and researcher living in Northern
Ireland. Since 2007 she has curated more than 150 international exhibitions of arpilleras in
museums, universities, art galleries, embassies and community spaces worldwide. Over time,
these exhibitions have expanded from Chilean arpilleras focused on the Pinochet dictatorship,
to include quilts and other textile narratives of loss, resistance, testimony, protest and healing
from around the world. The use of textile language in contested spaces has been at the centre
of her curatorial work. In 2019 she curated, with assistance of Breege Doherty, Threads, War
and Conflict, commissioned by Lydia Cole at University of St Andrews. Lydia Cole is an Associate Lecturer at the University of York. Her most recent research has
engaged with arts and global politics, with a focus on grassroots arts for change in Bosnia
and Herzegovina. In 2019, she was Associate Lecturer at the University of St Andrews, where
she commissioned and co-curated Threads, war and conflict, as well as coordinated and led
its associated events programme. The exhibition featured arpilleras and textile banners from
the Conflict Textiles collection. Laura Mills is a Lecturer in International Relations at the University of St Andrews. She
was a member of the Threads, war and conflict curatorial team, including staff co-lead
of the Master’s student workshops resulting in a collective textile for the Conflict Textiles
collection. Her research explores how everyday life and culture are co-constitutive of global
politics through examinations of cultural diplomacy, war, militarism, security, aesthetics and
creative methods. Her first monograph, Post-9/11 US cultural diplomacy: the impossibility of
cosmopolitanism, is forthcoming with Routledge New International Relations Series. Contemporary Voices, Unravelling the Threads of War and Conflict, December 2021 Abstract Lydia Cole and Laura Mills, two members of the Threads, war and conflict team,
tied together the threads of their conversation. This approach enables insights from a cross-
section of those engaged in the exhibition to be woven together in order to reveal and unpick
how curating the (hi)stories of conflict textiles can produce alternative ways of knowing and
doing International Relations (IR). Contemporary Voices, Unravelling the Threads of War and Conflict, December 2021 2 Over a year since the exhibition, this dialogue reflects back, beginning with a discussion
of the textile workshops, then moving to explore the exhibition, its curation and its pieces. In this way, this reflective dialogue unravels the threads of war and conflict examined in
the exhibition and its associated events. Throughout, the dialogue draws upon the language
associated with thread-work to explore the tactile, emotional, interactive, non-linear, symbolic,
transgressive and politically powerful qualities of the exhibition, its featured textiles, and the
textile-making it enables. It does so by engaging with material artefacts of the exhibition –
the collective textile workshops poster, the events programme bookmark, and the textiles
themselves – to demonstrate how they produce these material effects for arpilleristas and
makers, for exhibition curators and visitors, and for students and researchers of IR. Unravelling and (re)connecting in Threads, war and conflictl Selena: Focusing on Threads, war and conflict, I’d like to initiate a dialogue with you
about the opportunities that textile art exhibitions offer to inform our study of conflict and
violence; particularly how they offer alternative narratives in IR through stitching stories
of resistance. Specifically, I’d like to focus on how textiles and weaving offer a discursive
method, a different language. Looking now at the poster for the Master’s Textiles Workshops
(see Figures 1 and 2), I am interested in approaching our discussion from the exhibition’s
outcomes and tracing back to the beginning of Threads, war and conflict. Figures 1 and 2: Poster for Responding to Threads, war and conflict: letters to arpilleristas, Master’s
Textiles Workshops, University of St Andrews, 2019. Images: Conflict Textiles and Laura Mills. Figures 1 and 2: Poster for Responding to Threads, war and conflict: letters to arpilleristas, Master’s
Textiles Workshops, University of St Andrews, 2019. Images: Conflict Textiles and Laura Mills. Figures 1 and 2: Poster for Responding to Threads, war and conflict: letters to arpilleristas, Master’s
Textiles Workshops, University of St Andrews, 2019. Images: Conflict Textiles and Laura Mills. Contemporary Voices, Unravelling the Threads of War and Conflict, December 2021 3 Roberta: I find it very original the way you are going to deconstruct from the outcome, and
to see how much was predictable or not predictable because the plan will not always turn out
as we expect it. S: Yes, I am interested in seeing how there are changes and unexpected events, which always
arise when events are realised. This poster documents the workshops that accompanied
the exhibition, in which a group of students came together for three workshops to create a
collective textile inspired by the exhibition. Local textile artist Sheila Mortlock provided
materials and some techniques, but we could use our own creativity, ideas and exhibition
inspiration to influence our works. R: You had to relate to the exhibition. You had the space from where to connect and from
where to be creative, but you were given a framework. S: It was inspiring to see the diversity of pieces in the exhibition and how they related to one
another. We all participated in creating the collective textile but through the making of our
own individual pieces, through our interpretation of the workshops’ prompt, as well as our
own understandings and meanings of resistance, violence and political conflict. Unravelling and (re)connecting in Threads, war and conflictl The content
of the arpilleras that resulted from these workshops was just as diverse as the pieces in the
exhibition. How do you go about drawing these various threads, or pieces, together within
the exhibition itself? R: What is important is the relationship of the curatorial line. The title of the exhibition
determines the way you choose which pieces to display. It relates to the way you relate to the
topic. Each piece is not chosen at random but in fluent connection to the issues that you want
to portray. S: Do you feel that textiles and exhibitions become a form of expression? Does approaching
the study of IR through these lenses – through looking at those creating these works – offer
students, exhibition visitors and other viewers a new perspective? R: I don’t know how much of a new perspective it is. Sewing has always been there, and the
reflection you do while sewing is there, but it hasn’t been incorporated as a discourse or a
language that could give you information on content, feeling and experience. In the last few
years, there has been a resurgence of this kind of discourse, and a recognition that we have
multiple capacities to express – because what happens to us touches us in so many ways. The
textile gives you this incredible capacity to work through your emotions. So, it is not this line
from beginning to middle to end; you go around instead. Some textiles get special attention
because they deal with memory, resistance and narratives. They can do many things when
you learn to talk through them but also when you learn to read through them. So, it is not
only to be able to express it, but also to decipher it. You will not always be able to respond Contemporary Voices, Unravelling the Threads of War and Conflict, December 2021 with sewing but very often you will need to be able to read other forms of communication in
the sewing. S: Definitely. As someone who was involved with sharing the exhibition with others, you
realise how you can perceive a story from its visual depiction. It requires participation to
understand the piece: coming up close to it, inspecting, discussing with others. In these
workshops, it took a long time to put together something not only visual but also deliver
something tangible. Unravelling and (re)connecting in Threads, war and conflictl The engagement with the pieces was really key. R: I think what is also important is that the narrative is intertwined with the technique with
which you are going to tell this story. You are using a needle. You are taking action. I think
for many of the arpilleristas, the idea that they could take action in front of a state that would
not listen to them, would not do things for them, would deny the events, the sole exercise of
being part of the dynamic process of acting gives a power to the discourse. S: And that contributes to the understanding of its subjects and themes as active Threads of resistance: the textile language of Chilean arpilleras
S: This segues into our first textile piece (see Figure 3). Figure 3: Anonymous (c1980) ¡Adiós Pinochet! / Goodbye Pinochet!. Arpillera, Chile. Photo Colin
Peck, © Conflict Textiles Threads of resistance: the textile language of Chilean arpilleras
S: This segues into our first textile piece (see Figure 3). Threads of resistance: the textile language of Chilean arpilleras
S: This segues into our first textile piece (see Figure 3). Figure 3: Anonymous (c1980) ¡Adiós Pinochet! / Goodbye Pinochet!. Arpillera, Chile. Photo Colin
Peck, © Conflict Textiles Contemporary Voices, Unravelling the Threads of War and Conflict, December 2021 5 R: ‘Goodbye Pinochet!’ R: ‘Goodbye Pinochet!’ S: I remember this piece dearly. It has such a specific place in history that you can trace
within it. Can you explain a little bit more about this piece? R: This is an example of a Chilean arpillera: three-dimensional textiles from Latin America,
of Chilean origin, which became a medium primarily for women to denounce the human
rights abuses and repression of the Pinochet dictatorship in Chile, 1973-1990. In this particular
piece, there are many readings and layers. There is a cultural landscape. You can see we have
the mountains which guide us to understand we are in Chile because it is the Andes – that
determines where you are physically. The other element important here is the sun. In spite of
all these difficulties, the sun is there for the people. As a symbol, it has a political connotation:
the sun rises for everybody, it makes no distinction. These kinds of textile – the arpilleras
– also incorporated specific elements that we can read and decode. We have the electricity
cables and you can see people tapping into the electricity, highlighting the disparity of access
to these resources. So that locates us immediately in the shanty town where people are taking
action, living daily life in conditions of poverty. – also incorporated specific elements that we can read and decode. We have the electricity
cables and you can see people tapping into the electricity, highlighting the disparity of access
to these resources. So that locates us immediately in the shanty town where people are taking
action, living daily life in conditions of poverty. Another important element is the simplicity of the stitch and the materials. It requires that
you understand and are able to read those twists in the language, that those scraps of material
hold meaning. The grey material you see on the ground is from school uniforms. The blanket
stitch on the border marks this as a picture, a picture that you want people to look at. But
the message is very clear. What makes this so interesting is that this is very tactile but on
the other hand the discourse is very direct. It is not sophisticated. Threads of resistance: the textile language of Chilean arpilleras
S: This segues into our first textile piece (see Figure 3). It is an example of direct
language and demands: out the tyrant! They are not making aggressive accusations, they are
saying: “Just go, goodbye Pinochet”. They are not speaking about revenge because they don’t
believe that they have the time or the energy for that, but they find that their actions could
aid the removal of Pinochet. I find it very powerful that this piece has been able to be in the
most incredible spaces. It was in the Victoria and Albert Museum in the Disobedient objects
exhibition for a few months.4 Thinking about the textile through the lens of a disobedient
object, against the idea that women should be silent and at home, we also see a message of
transgression: to go beyond what is expected of you or demanded from you, you can live it
and relive it in your own context. S: When I remember these pieces, I recall how some of them were done in secret, hidden
away or smuggled elsewhere. R: They were smuggled, as well as bought, by volunteers and people of good faith who
wanted to support the women and the movement and wanted to contribute to denouncing
what was going on in the country, which was being hidden by the economic success in the
beginning through statistics. This didn’t mean that life was good for these women. Because Contemporary Voices, Unravelling the Threads of War and Conflict, December 2021 6 they didn’t count. If you keep them hidden and silent, then if one person earns one thousand
and the other nothing, you still have a good average of five hundred and that makes it okay. S: I see these pieces as forms of resistance. In this piece, they are not proposing violence, but
it is still a form and subject of expression that was suppressed. To be able to do these pieces
is a reflection of them trying to assert their own voice and identity. I remember this piece,
La cueca sola (see Figure 4). The creator, Violeta Morales, was well known, a prominent
activist. The dance that the textile piece depicts was also a form of resistance. How can we
interpret this resistance in the form of textiles and stitching? Figure 4: Morales, V. (1989) La cueca sola / Dancing cueca alone. Arpillera, Chile. Photo: Martin
Melaugh, © Conflict Textiles Figure 4: Morales, V. Threads of resistance: the textile language of Chilean arpilleras
S: This segues into our first textile piece (see Figure 3). (1989) La cueca sola / Dancing cueca alone. Arpillera, Chile. Photo: Martin
Melaugh, © Conflict Textiles R: In the case of Violeta Morales, she was a very active woman. She used all the mediums she
had at hand to denounce torture in Chile. That was her fundamental denunciation because
her brother had been disappeared and the people she had interviewed, who came out of the
prison where her brother had been, were talking about torture. She used the arpillera, she
used marches, she used singing, she used dancing. She was extremely purposed, acted very
strongly, and became part of a performance group that undertook these actions in public
space outdoors, not only indoors like this textile that she made. They would have danced in
the streets of Santiago, knowing and wanting to be arrested, to denounce what was going Contemporary Voices, Unravelling the Threads of War and Conflict, December 2021 7 on to the people in the streets as they were oblivious. What they wanted was to occupy the
streets and to bring into public knowledge what was going on in parts of Santiago most
affected by the dictatorship. S: Did the production of these arpilleras see a spike at the time? Their creators had lost
their husbands, brothers and other family members who were disappeared. Left behind, they
chose to create these arpilleras. Is it because of these circumstances that we see so many of
these textile pieces from Chile? R: They were not popular in Chile. You couldn’t have them; you couldn’t show them because
they were considered subversive. What happened is the dissemination of arpilleras with the
production of many more occurring thanks to the international solidarity movement that
decided to support the women because they also needed to earn a living. Women had no
jobs; their husbands had disappeared or their sons couldn’t do it. Through these networks,
they also got a bit of income. So, it becomes a denunciation, but also a way of earning their
life. Many groups, like Amnesty or Caritas, and international organisations in the UK would
have acquired arpilleras and sold them amongst solidarity movements in England with three
intentions. First, to help the women financially. Second, to spread the news of what was going
on, using them almost like a newspaper. Third, to create networks of support internally in
the country and externally acting together. Threads of resistance: the textile language of Chilean arpilleras
S: This segues into our first textile piece (see Figure 3). It was those networks, especially in the UK, that
helped to gain asylum for Chileans who were in prison. The only way to be released was if
they were able to go somewhere as refugees. The arpilleras were just one of the voices among
other expressions. The power of this was in the possibility of commercialising, discussing,
exhibiting them, and creating these networks of solidarity. S: Do you think that because of the conditions – that they had to create the arpilleras with
scrap material, needle and thread – the arpillera was a particularly accessible medium for
these women to create and engage with these networks, and then earn a living? R: Well, one of the prides of the arpillerista is not to buy material. The use of these scrap
materials is symbolic. They are scraps of your own or a loved one’s clothes. Violeta Morales
once gave an interview where she said they were so poor that they would cut pieces of their
blouses. It is the opposite of the concept of a quilt-maker, who would have so much material
and would always pick the one that fits best. They did with what they could, and they were
proud of themselves to be able to produce these with very little. Threads of anti-militarism: from the local to the global S: These two arpilleras come from the particular context of the Pinochet regime. This next
one, Digital death, is much more contemporary (see Figure 5) and was made in Ireland. Do
you see crossovers with how the arpillera is used? Is this creator also trying to do the same
thing or is it completely different when it comes to materials and style? Contemporary Voices, Unravelling the Threads of War and Conflict, December 2021 Figure 5: Stockdale, D. (2014) Digital
death. Arpillera, Republic of Ireland. Photo: Martin Melaugh, © Conflict
Textiles
R: It is not. I am very happy
that you chose this one for our
discussion. Deborah Stockdale is a
textile artist who has made quilts
and has expressed herself for forty
years with textile art. She had done
pieces that were about different
issues, even social issues, but she
hadn’t positioned herself like how
an arpillerista does. When she
found the arpilleras, she found
another way to stitch about what
was going on in the world. To use
a language very comfortable for
her to tell uncomfortable stories. It
was as if she thought: “If the Chilean women can do it, I can also do it. I can create what I
need to create.” an women can do it, I can also do it. I can create what I Figure 5: Stockdale, D. (2014) Digital
death. Arpillera, Republic of Ireland. Photo: Martin Melaugh, © Conflict
Textiles was as if she thought: “If the Chilean women can do it, I can also do it. I can create what I
need to create.” This piece is very symbolic in the sense that its genesis was in my home, in a discussion with
two friends involved in a movement for the abolition of war, about the use of this violence,
that can be done so comfortably from home, from computers. We now have the possibility
for one person in one country to decide who the target is going to be and where. That you
can destroy whole villages because you want to destroy one person. This piece is in response
to that. Stitching is like your own handwriting. Though you and I might have the same pen,
it will come out differently. Here, Deborah is reflecting, responding and engaging with the
arpillera language with her own kind of perspective and through her own research. S: Yes, her own mark. Threads of anti-militarism: from the local to the global For me, this piece is more explicit than those previously discussed,
but is also as emotionally impactful on the viewer. How do you think this piece represents
conflict and violence differently? R: For me it is a reflection, it comes from a deep conversation, trying to embrace the
consequences of war through technology and being “so sophisticated”. For those who suffer
the bombing on the ground, it is not going to be so sophisticated. You are going to be destroyed
and you won’t even know where this comes from, you won’t even be able to respond. The
other textiles we have discussed were explicit in different ways – wanting Pinochet to go. Contemporary Voices, Unravelling the Threads of War and Conflict, December 2021 Here, we have an image of this man comfortable in his office, listening to whatever he is
listening to, the drone targeting the village and people afraid because they can hear the
drone. I can relate this very much to the carpets made in Afghanistan that depicted the plane
bombings in a time when there were no mobile phones or cameras to take photographs of
these bombs. They were woven as a kind of picture and could even be used in court as a kind
of testimony to demonstrate who had come to bomb them. Yet, Digital death is quite a composed piece. It reflects the people and action from a distance. Unfortunately, from the textile we don’t see the colours of the image of the girl. It is very
blue in real life. This is important because this represents a 2014 art installation called
#NotABugSplat.5 The installation is of a massive photograph of a girl who lost both her parents
and two young siblings in a drone attack. The artist collective who created the installation
placed it on the land in the heavily bombed Khyber Pakhtunkhwa region of Pakistan so that
when a drone flew overhead, they could see this girl as a remembrance of the survivors and
innocent victims. It is full of different materials, and to make this piece, Deborah researched
a lot, even down to the proportions and sizes of the characters and objects. S: The next textile also speaks to the role of technology in today’s conflict. It’s no ******
computer game!! (see Figure 6) is striking for its colours. Threads of anti-militarism: from the local to the global It has a silk fabric that immediately
gave me the impression it was more contemporary, but its subject also reflects our distance
from conflict in the world. Figure 6: Campbell, T. and Campbell, I. (2012) It’s no ******* computer game!! Banner, Wales. Photo:
Lydia Cole, © Conflict Textiles Figure 6: Campbell, T. and Campbell, I. (2012) It’s no ******* computer game!! Banner, Wales. Photo:
Lydia Cole, © Conflict Textiles Contemporary Voices, Unravelling the Threads of War and Conflict, December 2021 Contemporary Voices, Unravelling the Threads of War and Conflict, December 20 10 R: The difference lies in the purpose of the textile. This one is a banner, so it can be used to
march and denounce, while the other is a picture. I find this a very powerful piece and Thalia
and Ian Campbell have been very active members of so many movements in the UK which
have denounced militarism. S: To me this is interesting because today we are so used to seeing posters, images, photographs
and videos. This was made in 2012, so it is fairly recent compared to the Chilean arpilleras. What do you think is the difference in understanding of the message when it is displayed on
something that has taken a lot of time to make, like this banner, as opposed to a poster for a
protest? R: I think some people learn better by reading, others by hearing. I think you have to use all
the systems that you can, and you have to try to engage people from all their senses and their
abilities. I don’t think one alone is better than the other. It is the different uses of expression. I think it is the effectiveness and the right moment to use it in the right place. It is not very
easy to go with a big banner to a small meeting. You need space and time, and you need to
locate the pieces in the context in which they can be appreciated. S: What do you think it offers the creators of such pieces, since it takes much more time for
them to create a textile such as this versus making something on the computer in a matter of
minutes to print? R: I think it is your own way of contributing to a cause or to express yourself. Threads of anti-militarism: from the local to the global Sometimes you
can take many photos and you don’t like any, you don’t feel any represents what you wanted to
say. This is the long-standing purpose from beginning to completion. In textiles, you only see
the pieces that are completed. You have to have the momentum for that. Making is a process,
you must have a trigger, you must have internal space, physical space, an environment of
support, in a way that at least lets you do it. Threads’ emotional, tactile and intimate politics S: This next piece, My daughter’s wedding, was created in a workshop (see Figure 7). It is
made by a mother who depicts her daughter’s wedding that she could not attend because her
documents were revoked. The piece can be connected to the increased hostility surrounding
immigration in Europe. 11 Contemporary Voices, Unravelling the Threads of War and Conflict, December 2021 Figure 7: Mansouri, F. (2017) LA BODA DE
MI HIJA / My daughter’s wedding. Arpillera,
Catalonia, Spain. Photo: Ricard Díez, ©
Conflict Textiles R: Yes, it was made in a workshop in
Catalonia. It also demonstrates how
sometimes you can be deceived by
the image, the colours and everything,
depicting something so beautiful, but
you have to be careful what you read
because behind the scenes there might
be something different happening. S: What role do you see emotion
playing in this particular piece and in
the wider significance of textile-making? R: I think the emotional is always present in the tactile element of the textile. Don’t forget that
there are two things you have to do every day of your life: dress yourself and eat. Textile is
thus something quotidian that will appear in everything. Interestingly enough, I was talking
to an artist yesterday about the times that we are living in. Issues related to the environment
and Covid-19 are showing us the importance of reusing and repurposing materials. That we
can’t continue polluting, using disposable throwaway items, paper napkins and all of that. I think we will also see a recurrence of textile work. I have begun organising exhibitions
online in response. We have been encouraging people in lockdown and/or staying at home to
engage and use what they have at hand. So, it is also an opportunity to reflect on how we can
express our emotions and our actions by using what we have on hand. I usually say: ‘No list,
just bring scraps of materials and you will find you have more than you need’. S: If you completely rely on what you have and don’t search for any fancy materials, you
realise that it is hard to distinguish which periods these textiles are from. Materials are
materials. R: This piece as well has so much volume and texture. Connections, collaborations and curating in Threads, war and conflicti Connections, collaborations and curating in Threads, war and conflict
S: This brings me to our final piece: the bookmark outlining the exhibition programme (see
Figure 8). Why did the organisers choose to do a bookmark to represent the programme? S: This brings me to our final piece: the bookmark outlining the exhibition programme (see
Figure 8). Why did the organisers choose to do a bookmark to represent the programme? Figure 8: Bookmark with the
Threads, war and conflict
programme. University of
St Andrews, 2019. R: Conflict Textiles have been featured on bookmarks for a while. A bookmark is usable. It is not just for the opening of the event. The beautiful
thing is you can keep it over the years, a reminder. On the other hand, it’s
a nice exercise to write the programme with brief enough information to
make you want to know more. If you look at the bookmark, you can see a
stitch that details each activity. S: Yes, the visuality of the logo and stitches marking each event becomes a
powerful thread itself. Can you speak a little bit to the time of curating and
creating this programme? What was that process like? La Cueca Sola / Dancing Cueca Alone, 1989
© Conflict Textiles http://cain.ulster.ac.uk/conflicttextiles
The University of St Andrews is a charity
registered in Scotland, No: SC013532. 3rd-29th April: ‘Threads, War and
Conflict’ at The Byre Theatre
29th March-29th April: ‘Threads,
War and Conflict: Satellite Exhibition’
at University of St Andrews Library
12th, 19th, 26th April: Masters
Workshops, ‘Responding to Threads,
War and Conflict: Letters to Arpilleristas’
(by invitation only)
9th March: ‘Threads, War and Conflict:
An Exhibition of Women’s Conflict Textiles
from Around the World’ at the Red Box,
Verdant Works, 2-3.30pm
3rd April: Exhibition Launch at the
Studio, The Byre Theatre, 4.15-5.45pm
8th April: ‘Visualising War and the
Expressive Arts’ with School of Classics,
1.30-6.30pm
22nd April: ‘Knowing Through
Needlework? Conflict Textiles and
the Study of War and Violence
in International Politics’ with
Dr Berit Bliesemann de Guevara
(Aberystwyth University),
Arts Lecture Theatre, 5-7pm
24th April: Threads, War
and Conflict Conference
(by invitation only)
26th April: Creative Evening at
Studio, The Byre Theatre, 6-9pm Figure 8: Bookmark with the
Threads, war and conflict
programme. University of
St Andrews, 2019. Figure 8: Bookmark with the
Threads, war and conflict
programme. University of
St Andrews, 2019. Threads’ emotional, tactile and intimate politics When choosing pieces with Lydia
for Threads, war and conflict, we had to find pieces that appealed to our curatorial line,
with its common thread of everyday experiences of war and conflict, and its layers of hope
and suffering. This included textiles about bombs, lack of free movement and hunger. It is
important that we can weave these textiles together to show what is happening. Contemporary Voices, Unravelling the Threads of War and Conflict, December 2021 12 S: I agree. I love this textile for how three-dimensional it is. It goes to show that you can
really think out of the box and get creative when it comes to sewing and needlework. It also
speaks to it as a form of language. This is also so interesting, as some of the makers did not
have prior experience in textile-making or thread-work. In that sense, textile language is not
two-dimensional; it has many variations. R: I always say that the little mistakes you have in sewing are like spelling mistakes. The more
practice you have, the less spelling mistakes you have. It is another skill, another language,
another technique. Sometimes we are told that we have to be proficient in everything. But if
we give it patience, time, a little dedication and value, you discover things within yourself. The value of the textile lies in more than just its looks. Not everything in life is beautiful
either. Some pieces appeal to you because of their modesty! S: I definitely find that the mistakes we identify in the textile are probably the most interesting
because they remind you that someone hand-made them. This also tells a story. S: I definitely find that the mistakes we identify in the textile are probably the most interesting
because they remind you that someone hand-made them. This also tells a story. Connections, collaborations and curating in Threads, war and conflicti R: Conflict Textiles have been featured on bookmarks for a while. A bookmark is usable. It is not just for the opening of the event. The beautiful
thing is you can keep it over the years, a reminder. On the other hand, it’s
a nice exercise to write the programme with brief enough information to
make you want to know more. If you look at the bookmark, you can see a
stitch that details each activity. S: Yes, the visuality of the logo and stitches marking each event becomes a
powerful thread itself. Can you speak a little bit to the time of curating and
creating this programme? What was that process like? R: Well, it was quite organic. So, it wasn’t an exhibition that came ready made from Northern
Ireland. We went physically, myself and Breege, Assistant Curator of Conflict Textiles, to
St Andrews and spent two full days with the organisers, giving them space and time to talk
about what they expected, and what they wanted to do with the exhibition. That is what
started it, involving everyone with the role of curation, helping each other, collaborating and Contemporary Voices, Unravelling the Threads of War and Conflict, December 2021 13 building. Then adding ideas about what would be significant for the kind of topics they were
developing in their lectures, connected to the students that were there at the time, because it
is very versatile material – at once so ordinary yet so sophisticated – that can speak to people
across different backgrounds, experiences and perspectives. S: Yes, we had some researchers and academics, but we also had Master’s students and the
general public. R: This connection of different voices was extremely good, and we agreed from the beginning
to have a satellite exhibition in the University library, so that people could know that even
though it was an arpillera exhibition with materials that were very simple, it had given space
for lots of research, scholarship and interpretation. Everybody has to live their lives, there is
no more or less important life. It is how you can engage with what you do in daily life. Connections, collaborations and curating in Threads, war and conflicti So that
was the idea, and also to space them in a way that the exhibitions in some way, for me, are
an excuse for all the activities that take place during the time – to have the conversations, the
workshops, the visits, the challenges, and keep the momentum from beginning to end, and
that the end is never a conclusion but only the last step of this part of the process. Conclusion: tying threads This dialogue has traced the Threads, war and conflict exhibition in reverse – from outcome
to opening – to unravel the possibilities of International Relations and/as thread-work. Framing itself around material artefacts of the exhibition – the collective textile workshops
poster, selected textiles featured in the exhibition and the events programme bookmark – the
dialogue weaves together the various threads of their material effects. The discussion of the
collective textile workshops and exhibition events has placed emphasis on the collaborative
participation within the exhibition. This was particularly borne out in the textile workshops
in which students and academics across Scottish Higher Education Institutions produced
textile responses to the exhibition. Participants engaged as arpilleristas, responding to
themes of home, loss and resistance to violence within the resulting textiles. From the
beginning, participants knew that the textile would form part of a broader collaborative
textile to be archived within the Conflict Textiles collection. This mode of collective making
not only generated renewed understandings of the arpilleras themselves, but also generated
further insights into loss and resistance to violence in global contexts. In this way, through
this interactivity, an affective and tactile politics emerges as a powerful creative site for
“knowing” and “doing” IR. Focusing on five textiles that were featured in the exhibition has both highlighted the diversity
of the textiles and elucidated the exhibition’s central themes of resistance, the ethics of warfare,
and migration and displacement. The textiles selected for discussion here stand out because
they all work to transgress conventional assumptions of embroidered works, prompting us
to consider instead the political potency of arpilleras in terms of their narratives, symbols,
usage and intended audiences. Indeed, visitors to the exhibition remarked on the way that
these seemingly everyday objects, nevertheless, seemed to speak loudly of resistance to
violence. The reflection on the exhibition’s bookmark further highlights the intertwining
connections of voices, people and events within the exhibition and its curation. As Roberta
remarks, the organising team at St Andrews cultivated this connection throughout by creating
opportunities for the sharing of stories through conversation and making (see Cole, 2019). In
each of these forms of interactivity – collaborative making, engaged looking and connective
curating – the affective and tactile politics of engaging with conflict textiles were placed at
the fore. S: Do you have a final take-away from the St Andrews exhibition at the Byre Theatre? S: Do you have a final take-away from the St Andrews exhibition at the Byre Theatre? R: I would say it was a very well-lived exhibition. All the times we spent together were
extremely enjoyable and, I would say, smooth, even in the most difficult moments. There
was always a warm atmosphere of being involved; we were all in the same boat. That is
something that sewing gives you; there is not this competitive element that is so often
pervasive in academia. Here, everybody helps the other, it comes naturally. We were all there
to accomplish this, and I valued very much when, for the opening, we also had a textile artist
who had worked with me in Liverpool. She had come from a very remote part of the end
of Scotland, to be here after ten years of not being involved with arpilleras. So, we brought
together new and old voices. We renewed commitments. And after St Andrews, she came to
the launch of my exhibition here in March and contributed a doll that she had made twenty-
five years ago. There is a sense here that textile triggers emotions. It triggers an exploration
of memory, both of what has happened and been happening. Although in this moment you
may not be sewing, it brings to mind memories of when you have before. For example, you
may have told the stories of losing relatives you love through the language of textile, using a
piece of cloth from the T-shirt of your father. Experiencing the textiles through an exhibition
can bring all this to mind. That triggering of emotions and experiences was extremely well
achieved by this exhibition. I also think Lydia had a very good team, knowing exactly what
she was after, but also flexible, not just working toward the final goal. Each exhibition is owned
by the collective that organises, prepares and lives it, and then has it there as a testimony for
the future, because in our archive it is there forever. Our exhibitions are always an invitation
to participate, not just to be a spectator. Contemporary Voices, Unravelling the Threads of War and Conflict, December 2021 14 Conclusion: tying threads Originally made in Chile to document violence and
resistance during the Pinochet dictatorship, the form has since been taken up in other
contexts including Peru, Colombia, Zimbabwe and Northern Ireland. 4 For further information on Disobedient objects at the Victoria and Albert Museum,
London, see: https://cain.ulster.ac.uk/conflicttextiles/search-quilts2/fullevent1/?id=129
(Accessed: 23 February 2021). 5 For further information on the #NotABugSplat project and installation, see https://
notabugsplat.com/ (Accessed: 2 August 2021). 5 For further information on the #NotABugSplat project and installation, see https://
notabugsplat.com/ (Accessed: 2 August 2021). Bibliography
#NotABugSplat collective (2014) ‘A giant art installation targets predator drone operators’,
#NotABugSplat [Online]. Available at: https://notabugsplat.com/ (Accessed: 18 June 2021). Andrä, C., Bliesemann de Guevara, B., Cole, L. and House, D. (2020) ‘Knowing through
needlework: curating the difficult knowledge of conflict textiles’, Critical Military Studies, 6
(3-4), pp. 341-359. Cole, L. (2019) Threads, war and conflict and its associated programme [Online]. Available
at:
https://cain.ulster.ac.uk/conflicttextiles/mediafiles/1321_Threads-War-and-Conflict-
Photo-Essay-compressed-240619.pdf (Accessed: 18 June 2021). Conclusion: tying threads In crafting space for connection and creation where this politics makes itself felt,
conflict textiles emerge as a powerful creative site for “knowing” and “doing” IR differently. Throughout the dialogue, we have revealed the wider communities of care which emerge
through the textiles, as well as in their curating. Collaboration between the Threads team (as
temporary custodians) and the Conflict Textiles permanent curatorial team helped to curate
an exhibition whose legacies of collectivity, creativity and care of/for makers, curators,
spectators and IR scholars continue to make themselves felt. In this way, curating the (hi)
stories of conflict textiles contributes to alternative forms of IR knowledge production. Engaging with conflict textiles demands the unravelling and weaving together of their Contemporary Voices, Unravelling the Threads of War and Conflict, December 2021 15 multiple narrative threads. Acting with these stories of loss, violence and its resistance, we
argue that curating can form part of a process of embodied connection to stories of war
and conflict that reach far beyond the academy. In this dialogue, we follow others (Andrä,
Bliesemann de Guevara, Cole and House, 2020) in urging for future research into textile art
as a language and methodology for the study of conflict, violence and resistance in IR. The
exhibition and this dialogue present an alternative language for our study of IR, one that
invites a more organic, emotional and tactile participation in politics based on the humble
scraps of material we can all find at home. 1 For further information on Threads, war and conflict, see https://cain.ulster.ac.uk/
conflicttextiles/search-quilts2/fullevent1/?id=196 (Accessed: 2 August 2021). 1 For further information on Threads, war and conflict, see https://cain.ulster.ac.uk/
conflicttextiles/search-quilts2/fullevent1/?id=196 (Accessed: 2 August 2021). 2 For further information on the Conflict Textiles collection, see https://cain.ulster.ac.uk/
conflicttextiles/ (Accessed: 2 August 2021). 2 For further information on the Conflict Textiles collection, see https://cain.ulster.ac.uk/
conflicttextiles/ (Accessed: 2 August 2021). 2 For further information on the Conflict Textiles collection, see https://cain.ulster.ac.uk/
conflicttextiles/ (Accessed: 2 August 2021). 3 The term arpillera refers to stitched “textile pictures” (Andrä, Bliesemann de Guevara,
Cole and House, 2020, p. 342). Originally made in Chile to document violence and
resistance during the Pinochet dictatorship, the form has since been taken up in other
contexts including Peru, Colombia, Zimbabwe and Northern Ireland. 3 The term arpillera refers to stitched “textile pictures” (Andrä, Bliesemann de Guevara,
Cole and House, 2020, p. 342). Bibliography g
p y
#NotABugSplat collective (2014) ‘A giant art installation targets predator drone operators’,
#NotABugSplat [Online]. Available at: https://notabugsplat.com/ (Accessed: 18 June 2021). g
p y
#NotABugSplat collective (2014) ‘A giant art installation targets predator drone operators’,
#NotABugSplat [Online]. Available at: https://notabugsplat.com/ (Accessed: 18 June 2021). #NotABugSplat collective (2014) ‘A giant art installation targets predator drone operators’,
#NotABugSplat [Online]. Available at: https://notabugsplat.com/ (Accessed: 18 June 2021). Andrä, C., Bliesemann de Guevara, B., Cole, L. and House, D. (2020) ‘Knowing through
needlework: curating the difficult knowledge of conflict textiles’, Critical Military Studies, 6
(3-4), pp. 341-359. Andrä, C., Bliesemann de Guevara, B., Cole, L. and House, D. (2020) ‘Knowing through
needlework: curating the difficult knowledge of conflict textiles’, Critical Military Studies, 6
(3-4), pp. 341-359. Andrä, C., Bliesemann de Guevara, B., Cole, L. and House, D. (2020) ‘Knowing through
needlework: curating the difficult knowledge of conflict textiles’, Critical Military Studies, 6
(3-4), pp. 341-359. Cole, L. (2019) Threads, war and conflict and its associated programme [Online]. Available
at:
https://cain.ulster.ac.uk/conflicttextiles/mediafiles/1321_Threads-War-and-Conflict-
Photo-Essay-compressed-240619.pdf (Accessed: 18 June 2021). Contemporary Voices, Unravelling the Threads of War and Conflict, December 2021 16 Images Figures 1 and 2: University of St Andrews (2019) Master’s workshops: responding to Threads,
war and conflict: letters to arpilleristas [Poster]. Available at: https://cain.ulster.ac.uk/
conflicttextiles/mediafiles/1269_Masters-Workshops-Poster-final-240219.pdf (Accessed: 2
August 2021). Figure 3: Anonymous (c1980) ¡Adiós Pinochet! / Goodbye Pinochet. [Arpillera, Chile],
Conflict Textiles [Online]. Available at: https://cain.ulster.ac.uk/conflicttextiles/search-
quilts2/fulltextiles1/?id=32 (Accessed: 2 August 2021). Figure 4: Morales, V. (1989) La cueca sola / Dancing cueca alone [Arpillera, Chile], Conflict
Textiles [Online]. Available at: https://cain.ulster.ac.uk/conflicttextiles/search-quilts2/
fulltextiles1/?id=414 (Accessed: 2 August 2021). Figure 5: Stockdale, D. (2014) Digital death [Arpillera, Republic of Ireland], Conflict
Textiles [Online]. Available at: https://cain.ulster.ac.uk/conflicttextiles/search-quilts2/
fulltextiles1/?id=279 (Accessed: 2 August 2021). Figure 6: Campbell, T. and Campbell, I. (2012) It’s no ******* computer game!! [Banner,
Wales], Conflict Textiles [Online]. Available at: https://cain.ulster.ac.uk/conflicttextiles/
search-quilts2/fulltextiles1/?id=373 (Accessed: 2 August 2021). Figure 7: Mansouri, F. (2017) LA BODA DE MI HIJA / My daughter’s wedding [Arpillera,
Catalonia/Spain], Conflict Textiles [Online]. Available at: https://cain.ulster.ac.uk/
conflicttextiles/search-quilts2/fulltextiles1/?id=410 (Accessed: 2 August 2021). Figure 8: University of St Andrews (2019) Threads, war and conflict programme [Bookmark]. Available at: https://cain.ulster.ac.uk/conflicttextiles/mediafiles/1280_Threads-War-Conflict-
bookmarks-0319-DU37413.pdf (Accessed: 2 August 2021) Figure 8: University of St Andrews (2019) Threads, war and conflict programme [Bookmark]. Available at: https://cain.ulster.ac.uk/conflicttextiles/mediafiles/1280_Threads-War-Conflict-
bookmarks-0319-DU37413.pdf (Accessed: 2 August 2021) Contemporary Voices, Unravelling the Threads of War and Conflict, December 2021 17
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Sorbose resistant mutants in Neurospora crassa
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Fungal genetics reports
| 1,963
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Sorbose resistant mutants in Neurospora crassa
Sorbose resistant mutants in Neurospora crassa
W. Klingmüller
F. Kaudewitz Follow this and additional works at: https://newprairiepress.org/fgr This work is licensed under a Creative Commons Attribution-Share Alike 4.0 License. Fungal Genetics Reports
Fungal Genetics Reports Fungal Genetics Reports
Fungal Genetics Reports Volume 4 Volume 4 Article 7 Recommended Citation
Recommended Citation Klingmüller, W., and F. Kaudewitz (1963) "Sorbose resistant mutants in Neurospora crassa," Fungal
Genetics Reports: Vol. 4, Article 7. https://doi.org/10.4148/1941-4765.2151 This Research Note is brought to you for free and open access by New Prairie Press. It has been accepted for
inclusion in Fungal Genetics Reports by an authorized administrator of New Prairie Press. For more information,
please contact cads@k-state.edu. his research note is available in Fungal Genetics Reports: https://newprairiepress.org/fgr/vol4/iss1/7 Klingmiiller,
W.
and
F.
Kaudewitz.
Sorbose
resistant
mutants
in
Neurospora
crossa. and
Pxockman,
Nature
193,
556,
1962). By treating
conidia
with
nitrous
acid,
mutants
have
been
produced
that
are
not
blocked~iingm~ller,
Erwin-E!aur-
Gedochtnisvorlesungen
III,
1963,
Ak CI d emie-Verlog-Berlin,
in press). Such
sorbose
resistant
mutants
(S-)
hove
been
induced
in strain
F68,
which
is adenine-deficient
(4
S-
mutants
isolated
so far),
as well
as in
strain
74-OR
23-
IA
de
Serres,
from
which
F 68
originated
(IO
S-
mutants
isolated
so far). By
crossing
the
S-
mutants
to
tester
strains,
they
could
be shown
to
be
of
chromosomol
origin. The
4 mutants
induced
in strain
F 68
map
in the
left
arm
of
linkage
group
VI,
close
to
the
yellow
marker. One
of
the
mutants
induced
in
the
wild
type
maps
in
linkage
group
1. The
latter
is intermediate
in
sorbose
resistance
between
the
wild
type
and
the
4 former
S-
mutants. There
are
also
mutants
induced
in an
S-
strain
by
further
treatment
with
nitrous
acid,
which
are
more
resistant
than
the
four
S-
mutants. By germinating
wild
type
conidia
in
liquid
medium
free
of
sorbose
for
up
to
9 hours,
and
then
pouring
in sorbose-containing
agar
medium
it could
be
shown
that
sorbose
blocks
germination
0s well
cx
early
stages
of
growth. Thus
there
is no
preferential
phase
of
development
at
which
the
sorbose
block
seems
to
act. General
growth
characteristics
of
the
mutants
as compared
to
wild
type
ore:
The
mutants
germinate
and
grow
(colonial)
on
solid
fructose,
sucrose,
and
glucose
media
in spite
of added
sorbose. The
wild
type
does
not
germinate
and
grow
on
fructore/sorbose
media,
grows
only
very
weakly
on
sucrose/sorbose
media,
but
grows
well
on
glucose/sorbose
media
(all
sugars
filter-sterilized). Germination
of
the
wild
type
and
of
two
S-
mutants
on
media
containing
different
sugars
as carbon
source
is given
in
table
I. Table
I:
Germination
percentage
of wild
type
and
2 sorbose-resistant
mutants
of
Neurospora
on
agar
media
with
different
Carbohydrates. All
media
con-
taining
0. I%
sorbose,
Fries’
minimal
plus
1.5%
ogar. Cultures
were
checked
after
5 days;
glucose
cultures
after
3 days. Table
I:
Germination
percentage
of wild
type
and
2 sorbose-resistant
mutants
of
Neurospora
on
agar
media
with
different
Carbohydrates. All
media
con-
taining
0. I%
sorbose,
Fries’
minimal
plus
1.5%
ogar. Cultures
were
checked
after
5 days;
glucose
cultures
after
3 days. Abstract
Abstract Sorbose resistant mutants in Neurospora crassa Klingmiiller,
W. and
F. Kaudewitz. Sorbose
Growth
of
Neurospora
on
filter-sterilized
sucrose
resistant
mutants
in
Neurospora
crossa. media
is blocked
by
sorbose
(De
Serres,
Kblmork
and
Pxockman,
Nature
193,
556,
1962). By treating
conidia
with
nitrous
acid,
mutants
have
been
produced
that
are
not
blocked~iingm~ller,
Erwin-E!aur-
Gedochtnisvorlesungen
III,
1963,
Ak CI d emie-Verlog-Berlin,
in press). Klingmiiller,
W.
and
F.
Kaudewitz.
Sorbose
resistant
mutants
in
Neurospora
crossa. Carbohydrate
Strains
added
74
A
Sl/25
Y
0
34.0
41.4
sucrose,
0.01%
15.0
49.7
67.5
maltose,
0.01%
22.9
69.0
86.6
glucose,
0.01%
86.5
99.0
64.7
iructose,
0.01%
0.7
89.5
68.4
‘mannose,
0.01%
87.4
100.0
85.0
galactose,
0.01%
16. I
80.0
84.5
xylose,
0.01%
95.0
96.5
74.5
glycerol,
0.5%
2.8
100.0
64.5
arch
for
the
step(s)
in
sugar
metabolism
at which
sorbose
acts
in
the
wild
type
is under
way.--
nstitut
fur
Erbbiologie,
Berlin-Dahlem,
Ehrenbergstr. 26. Carbohydrate
Strains
added
74
A
Sl/25
Y
0
34.0
41.4
sucrose,
0.01%
15.0
49.7
67.5
maltose,
0.01%
22.9
69.0
86.6
glucose,
0.01%
86.5
99.0
64.7
iructose,
0.01%
0.7
89.5
68.4
‘mannose,
0.01%
87.4
100.0
85.0
galactose,
0.01%
16. I
80.0
84.5
xylose,
0.01%
95.0
96.5
74.5
glycerol,
0.5%
2.8
100.0
64.5 A search
for
the
step(s)
in
sugar
metabolism
at which
sorbose
acts
in
the
wild
type
is under
way.--
Max-Planck-Institut
fur
Erbbiologie,
Berlin-Dahlem,
Ehrenbergstr. 26. A search
for
the
step(s)
in
sugar
metabolism
at which
sorbose
acts
in
the
wild
type
is under
way.--
Max-Planck-Institut
fur
Erbbiologie,
Berlin-Dahlem,
Ehrenbergstr. 26. A search
for
the
step(s)
in
sugar
metabolism
at which
sorbose
acts
in
the
wild
type
is under
way.--
Max-Planck-Institut
fur
Erbbiologie,
Berlin-Dahlem,
Ehrenbergstr. 26.
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English
| null |
Resistance to <i>Orobanche crenata</i> Forsk. in lentil (<i>Lens culinaris</i> Medik.): exploring some potential altered physiological and biochemical defense mechanisms
|
Journal of plant interactions
| 2,021
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cc-by
| 10,241
|
Journal of Plant Interactions Journal of Plant Interactions ISSN: (Print) (Online) Journal homepage: https://www.tandfonline.com/loi/tjpi20 Youness En-nahli, Hicham El Arroussi, Shiv Kumar, Outmane Bouhlal, Rachid
Mentag, Kamal Hejjaoui, Ahmed Douaik, Zouhaier Abbes, Nour Eddine Es-
Safi & Moez Amri Youness En-nahli, Hicham El Arroussi, Shiv Kumar, Outmane Bouhlal, Rachid
Mentag, Kamal Hejjaoui, Ahmed Douaik, Zouhaier Abbes, Nour Eddine Es-
Safi & Moez Amri To cite this article: Youness En-nahli, Hicham El Arroussi, Shiv Kumar, Outmane Bouhlal, Rachid
Mentag, Kamal Hejjaoui, Ahmed Douaik, Zouhaier Abbes, Nour Eddine Es-Safi & Moez Amri
(2021) Resistance to Orobanchecrenata Forsk. in lentil (Lensculinaris Medik.): exploring some
potential altered physiological and biochemical defense mechanisms, Journal of Plant Interactions,
16:1, 321-331, DOI: 10.1080/17429145.2021.1949498 To link to this article: https://doi.org/10.1080/17429145.2021.1949498 To link to this article: https://doi.org/10.1080/17429145.2021.1949498 © 2021 The Author(s). Published by Informa
UK Limited, trading as Taylor & Francis
Group
Published online: 19 Jul 2021. Submit your article to this journal
Article views: 548
View related articles
View Crossmark data 1. Introduction (Singh and Singh 2014). It is an important staple food crop
particularly among the poor populations and smallholder
farmers (Çarman 1996). As other legumes crops, lentil is
considered as a pivotal component for sustainable agricul-
ture due to its ability to fix nitrogen in the soil, which
makes practical to use it in rotation with cereals (Shah
et al. 2003). Morocco is the second major producer of lentil
in Africa with more than 40,000 ha cultivated area (Taha
et al. 2018), and total annual production of 30,670 tons
(Idrissi et al. 2020). It account about 14% of the total legume
cultivated area in the country. In Morocco, Lentil is mainly
cultivated under rainfed conditions in the dry areas where
drought is the major abiotic constraints limiting the crop
production and productivity due to low and irregular rainfall
(Idrissi et al. 2020). Attack by the parasitic weed O. crenata
seems to be the most important biotic stress limiting the (Singh and Singh 2014). It is an important staple food crop
particularly among the poor populations and smallholder
farmers (Çarman 1996). As other legumes crops, lentil is
considered as a pivotal component for sustainable agricul-
ture due to its ability to fix nitrogen in the soil, which
makes practical to use it in rotation with cereals (Shah
et al. 2003). Morocco is the second major producer of lentil
in Africa with more than 40,000 ha cultivated area (Taha
et al. 2018), and total annual production of 30,670 tons
(Idrissi et al. 2020). It account about 14% of the total legume
cultivated area in the country. In Morocco, Lentil is mainly
cultivated under rainfed conditions in the dry areas where
drought is the major abiotic constraints limiting the crop
production and productivity due to low and irregular rainfall
(Idrissi et al. 2020). Attack by the parasitic weed O. crenata
seems to be the most important biotic stress limiting the Lentil (Lens culinaris Medik.) is the third-most important
cool-season grain legume in the world after chickpea and
pea. It is widely grown as a rainfed crop on 3.85 million hec-
tares area and accounted for 6% of the total global pulses
production with 3.59 million tonnes and average yield of
0.93 tn ha−1 (Sehgal et al. 2021). Full Terms & Conditions of access and use can be found at
https://www.tandfonline.com/action/journalInformation?journalCode=tjpi20 Full Terms & Conditions of access and use can be found at
https://www.tandfonline.com/action/journalInformation?journalCode=tjpi20 JOURNAL OF PLANT INTERACTIONS
2021, VOL. 16, NO. 1, 321–331
https://doi.org/10.1080/17429145.2021.1949498 JOURNAL OF PLANT INTERACTIONS
2021, VOL. 16, NO. 1, 321–331
https://doi.org/10.1080/17429145.2021.1949498 ABSTRACT Management of broomrape (Orobanche crenata Fosk.) that causes important damages on lentil
production becomes a veritable concern in the Mediterranean region. Eighty lentil accessions were
evaluated for resistance to O. crenata under field and controlled conditions. Both genotypes
ILL6415 and ILL7723 expressed the highest resistance level under field and pot experiment with
low Orobanche infestation and relatively high seed yield (50.1 g m−2). Such resistance was
associated with physiological and biochemical changes in metabolites profiling. In total, 109 and
115 metabolites were identified in the lipophilic phase of both ILL6415 and ILL7723, respectively,
against only 92 metabolites recorded for susceptible check Zaaria. Significant differences were
observed in metabolite concentrations (fatty acids, sterols alkanes) between roots and shoots of
susceptible and resistant infested plants. Accumulation of α-linolenic acid and arachidic acid was
more pronounced in the resistant genotypes ILL6415, ILL7723 which could be associated with
resistance pathways involved in the resistance to O. crenata. KEYWORDS
Orobanche crenata; Lens
culinaris Medik; resistance;
metabolomics © 2021 The Author(s). Published by Informa UK Limited, trading as Taylor & Francis Group
This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use,
distribution, and reproduction in any medium, provided the original work is properly cited.
CONTACT Moez Amri
moez.amri@um6p.ma PLANT-PLANT INTERACTIONS Resistance to Orobanche crenata Forsk. in lentil (Lens culinaris Medik.): exploring
some potential altered physiological and biochemical defense mechanisms Resistance to Orobanche crenata Forsk. in lentil (Lens culinaris Medik.): exploring
some potential altered physiological and biochemical defense mechanisms Youness En-nahlia,b,c, Hicham El Arroussid, Shiv Kumar
c, Outmane Bouhlalc, Rachid Mentage, Kamal Hejjaouic,
Ahmed Douaik
e, Zouhaier Abbes
f, Nour Eddine Es-Safib and Moez Amri
a Youness En-nahlia,b,c, Hicham El Arroussid, Shiv Kumar
c, Outmane Bouhlalc, Rachid Mentage, Kamal Hejjaouic,
Ahmed Douaik
e, Zouhaier Abbes
f, Nour Eddine Es-Safib and Moez Amri
a aAfrican Integrated Plant and Soil Research Group (AiPlaS), University Mohammed VI Polytechnic (UM6P), Ben Guerir, Morocco; bMaterials
Science Center (MSC), Mohammed V University in Rabat, LPCMIO, Ecole Normale Supérieure, Rabat, Morocco; cInternational Center for
Agricultural Research in the Dry Areas (ICARDA), Rabat, Morocco; dMoroccan Foundation for Advanced Science, Innovation and Research
(MAScIR), Rabat, Morocco; eNational Institute of Agricultural Research (INRA), Rabat, Morocco; fField Crop Laboratory, National Institute for
Agricultural Research of Tunisia (INRAT), Carthage University, Tunis, Tunisia © 2021 The Author(s). Published by Informa UK Limited, trading as Taylor & Francis Group
This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use,
distribution, and reproduction in any medium, provided the original work is properly cited.
p ARTICLE HISTORY
Received 17 May 2021
Accepted 25 June 2021 KEYWORDS
Orobanche crenata; Lens
culinaris Medik; resistance;
metabolomics PI = OIN∗OSV/100 Several control methods have been tested but none of
them resulted in complete and successful control of the para-
site (Abbes et al. 2019). Breeding for resistance is considered
as the most economically feasible and environment friendly
control method (Amri et al. 2019). This strategy has shown
promising success and many resistance sources were ident-
ified in faba bean, Chickpea, sunflower and tomato (Kharrat
et al. 2010; Nefzi et al. 2016; Amri et al. 2019; Bai et al. 2020;
Cvejić et al. 2020). However, breeding for resistance to
broomrape remains complicated because of the limited
source of the resistance and the low heritability of the
genes and QTLs associated with that resistance (Pérez-De-
Luque et al. 2005; Amri et al. 2021). Indeed, a better under-
standing and development of solid knowledge about the
resistance mechanisms involved and the interaction between
the host and the parasite will help to improve the resistance
level and develop new breeding material (Pérez-De-Luque
et al. 2007; Trabelsi et al. 2017; Abbes et al. 2020). Lentil is
poorly competitive with O. crenata, which can cause com-
plete yield loss under high infested conditions. Unfortu-
nately, studies on lentil resistance to O. crenata and the
interaction between host and parasite are still insufficient. A recent scientific report showed that the metabolomics
profile of the parasite is different from that of the host,
which means that the parasite may have a self-regulating in
metabolism (Amir 2016; Clermont et al. 2019). Some other
studies reported that environmental stresses cause changes
in primary and secondary plant metabolisms which depend
on plant resistance strategies (Hasanuzzaman et al. 2013). OIN: Percentage of lentil plants showing at least one
emerged shoots of orobanche per row. OSV: level of damage (1–9 scale) caused by the parasite on
lentil growth and seed production (Abbes et al. 2007). 2.2. Pot experiment Lentil genotypes used to identify the resistance levels under field
conditions during cropping seasons 2017–2018 and 2018/2019. 1. Introduction The major production
regions are South Asia and China (44.3%), North America
(41%), Central and West
Asia and North
Africa –
CWANA (6.7%), Sub-Saharan Africa (3.5%) and Australia
(2.5%) (Kumar et al. 2013). Lentil has been cultivated for
more than 10,000 years for its important agronomic and
socioeconomic roles worldwide (Erskine et al. 2011). With
high protein level and an important amount of carbo-
hydrates, fibers, minerals and antioxidant compounds, lentil
is considered as one of the most nutritious legume crop Y. EN-NAHLI ET AL. 322 production and the development of the crop especialy in
Zaair region which is the most important production area
in the country. In fact, O. crenata is an holoparasitic plants
completely dependent on the host for its nutritional require-
ments. Its is considered as a serious threat that causes impor-
tant damages and yield losses on many legume crops in the
Mediterranean region and Sub-Sahan Africa (Amri et al. 2021). During the last decades, attack by this parasite has
burden lentil production and productivity in Morocco
(Kumar et al. 2015; Abu-Irmaileh and Labrada 2017;
Idrissi et al. 2020). The continuous spread of this threat
and important damages that causes on lentil and other
host crops often force farmers to give up growing these
crops (Amri et al. 2019). Recent assessment conducted in
Morocco reported 51% estimated infested legumes cultivated
areas with an average yield loss of 30–40% (Abu-Irmaileh
and Labrada 2017). were planted end of November according to an alpha lattice
design with two replications. For each genotype, 30 seeds
were planted in 1 m row with 30 cm inter-row spacing. The local cv. Bakria which is reported to be moderately sus-
ceptible to O. crenata was used as check. Hand weeding was
done when necessary and neither herbicide nor fertilizer
were applied. The following parameters were recorded
before and at crop maturity, Number of days to flowering
(D2F), days to Orobanche emergence (D2OE), Orobanche
incidence (OIN), Orobanche severity (OSV), Emerged Oro-
banche number per plant (EON), Emerged Orobanche dry
weight per plant (EODW), biological yield g m−2 (BY) and
seed yield g m−2 (SY), the harvest index (HI) and parasitism
index (PI). The PI was calculated according to the following
formula: Table 1. Lentil genotypes used to identify the resistance levels under field
conditions during cropping seasons 2017–2018 and 2018/2019.
Region
Country of origin/Entry IG number
Americas
MEX (5645-ILL351, 502), ARG (4605, 268), CAN (4738),
CHL (468, 361), URY (4778), ICA (10952, 10912),
Europe
ESP (4926, 5628-ILL915, 5653), FRA (6528), ITA (5418)
DEU (4881), POL (705), UKR (82), UNK (4345, 6415),
RUS (4830, 597, 4819), CZE (4409), YUG (2230-
ILL624), GRC (304), HRV (4915),
North and Sub-
Saharan Africa
ETH (5639-ILL207), DZA (4781), MAR (7726, Chakkouf,
Bakria, Zaaria), SDN (1861),
Asia
IND (4164), IRN (223, 257), AFG (213), JOR (5384, 5562,
5244), LBN (5626-ILL840, 840, 191), PSE (4606), NPL
(3485, 3487), PAK (6350), SYR (6870, 6848, 490), TUR
(590, 71), ARM (619),
Others
LIRL-22-107, LIRL-21-187, 6002, 6021, 8009, 9951,
88527, 6025, LIRL-22-109, 9850, 8090, 7213,
LC960254, 8195, 7982, 7984, 7685, 7701, 6783,
7668, 8622, 7934, 6015, 8068, 7723, 7532 2.2. Pot experiment Out of the 80 tested genotypes, five lines selected for their
resistance to O. crenata were subjected to a confirmation
pot experiment under controlled conditions with two Oro-
banche treatments (infested and non-infested). The five
selected lines all with two released varieties (Bakria and
Zaaria) were planted in 2 l pots. Infested pots were inocu-
lated with O. crenata seeds (collected during previous sea-
sons on faba bean plants) at a density of 20 mg.kg−1 soil. Four replications were considered for each genotype/treat-
ment and planting was performed mid-November with 3–4
seeds per pot. Pots were watered when necessary to keep
plants at good soil moisture. After emergence, the number
of lentil plants was reduced to only one plant per pot. At
the end of the experiment, the 56 days aged plants were
uprooted from pots. The host root system all with
O. crenata attachments were washed carefully and the fol-
lowing parameters were determined. O. crenata attachments
were counted and classified according to their development
stage (Abbes et al. 2011) to underground/non-emerged Oro-
banche tubercles (NEO) and emerged Orobanche shoots
(EON) per plant. Lentil shoot (SDW) and root (RDW) dry
weight were also determined for the same plants. g
In this study, we aimed to evaluate the response of a lentil
germplasm collection to O. crenata parasitism under field
and controlled conditions and investigate the potential meta-
bolic differences between identified susceptible and resistant
genotypes. Table 1. Lentil genotypes used to identify the resistance levels under field
conditions during cropping seasons 2017–2018 and 2018/2019. Region
Country of origin/Entry IG number
Americas
MEX (5645-ILL351, 502), ARG (4605, 268), CAN (4738),
CHL (468, 361), URY (4778), ICA (10952, 10912),
Europe
ESP (4926, 5628-ILL915, 5653), FRA (6528), ITA (5418)
DEU (4881), POL (705), UKR (82), UNK (4345, 6415),
RUS (4830, 597, 4819), CZE (4409), YUG (2230-
ILL624), GRC (304), HRV (4915),
North and Sub-
Saharan Africa
ETH (5639-ILL207), DZA (4781), MAR (7726, Chakkouf,
Bakria, Zaaria), SDN (1861),
Asia
IND (4164), IRN (223, 257), AFG (213), JOR (5384, 5562,
5244), LBN (5626-ILL840, 840, 191), PSE (4606), NPL
(3485, 3487), PAK (6350), SYR (6870, 6848, 490), TUR
(590, 71), ARM (619),
Others
LIRL-22-107, LIRL-21-187, 6002, 6021, 8009, 9951,
88527, 6025, LIRL-22-109, 9850, 8090, 7213,
LC960254, 8195, 7982, 7984, 7685, 7701, 6783,
7668, 8622, 7934, 6015, 8068, 7723, 7532 Table 1. 2.1. Plant material and field trials In total, 80 lentil genotypes were subjected to field evaluation
and screening for resistance to O. crenata (Table 1). Germ-
plasm was provided by the International Center of Agricul-
tural Research in dry areas (ICARDA) genebank. The trial
was conducted during two consecutive cropping seasons
2017/2019 in a high O. crenata infested sick plot at ICARDA
Merchouch research station – Morocco. Different genotypes JOURNAL OF PLANT INTERACTIONS 323 screening and evaluation showed significant differences
(P ≤0.05) between the tested genotypes for D2F, D2OE,
PI, BY, SY and HI. No significant differences were recorded
for EON and EODW. The cropping season showed signifi-
cant effect on D2F, D2OE, EON, EODW, SY and HI and
no significant effect on PI and BY. Except for PI, the inter-
action genotype*cropping season was significant for all
other parameters (Table 2). Out of the 80 tested accessions,
only five accessions showed a good resistance level to
O. crenata. 2.3. Metabolites analyses Untargeted metabolomics profiling was performed using gas
chromatography–mass spectrometry (GC–MS). The method
used in this study for organic extraction and transesterifica-
tion from shoots and roots of both infested and non-infested
plant is sited by (Mutale-joan et al. 2020) with some modifi-
cations. Samples were grinded in liquid nitrogen then
300 mg from each sample dissolved in 4 mL chloroform/
methanol mixture (2/1, v/v). 10 µL of internal standard
Dodecane (Sigmaaldrich; Density, 0.75 g/mL) were added
into the mixture, which were placed to a heat block (Labet
International, Edison, USA) pre-set at 85°C and left for 2 h. After the mixture was placed to an ultra-sound bath (Branson
ultrasonic Sonifier 450, Danbury, USA), the sonication was
carried for 60 min. One milliliter of H2O was added to the
vials and the mixtures were thoroughly vortexed. Then the
organic phase was transferred into a new vial and the chloro-
form was evaporated under a stream of nitrogen gas. For acid
transesterification, 500 µL of methanol/sulfuric acid (6%, v/v)
was added to dried organic material, then the mixture was
heated, sonicated and dried as described above. 750 µL of
chloroform and 250 µL of distilled water were added for
phase separation. The organic phase was collected and con-
served at −20°C for further analysis. The gas chromatography
(GC) (Agilent 7890A Series) coupled to mass spectrometry
(MS) was used for the identification of apolaire compounds. 2.1. Plant material and field trials A volume of 4 μL of each tested samples were injected into
the 123-BD11 column (15 m × 320 μm × 0.1 μm) by 1/4 split
mode using helium as carrier gas at 3 mL.min−1. Briefly, the
temperature was set at 230 and 150°C in the ion source and
the MS transfert line, respectively. The oven temperature
was set to started at 30°C and to reach 360°C at the end. The identification of metabolite was carried by the compari-
son of their mass spectra (MS) with NIST 2014 MS Library. The correlation matrix (Figure 1) shows that traits related
to lentil productivity such as SY and HI were negatively cor-
related with traits related to O. crenata infestation level D2OE
(r = −0.20**), PI (r = −0.37**) and EON (r = −0.34**). Inter-
estingly negative correlations were found also between SY and
HI (r = −0.42**) and D2F (r = −0.56**) (Figure 1). However, a
high positive correlation was found between D2F and D2OE,
D2OE and EODW, SY and BY, BY and D2OE, EON and PI
(Correlation coefficients varied between 0.17 and 0.68, p ≤
0.001). The correlations between different traits were
confirmed at a higher dimension using PCA which was
used to select the best resistant genotypes. Five genotypes
(ILL6415, ILL1861, LIRL21187, ILL7723, and ILL4830)
were
identified
with
a
good
level
of
resistance
to
O. crenata under field conditions. PCA revealed that the first three principal components
(PC) explained 81% of the total original variation. The first
PC, which explained 38.8% of the total variation, showed
negative correlation with PI (r = −0.63) and positive corre-
lation with BY (r = 0.57), SY (r = 0.89) and HI (r = 0.85). This PC corresponds to the list of genotypes with, high PI
and low BY and SY such as ILL5645 and ILL82. The second
PC, which described 24.6% of the total variability, is charac-
terized with a positive correlation with EON (r = 0.76) and
EODW (r = 0.76) and opposed the genotypes with high
EON and EODW such as ILL5418 and ILL705 to those with
low number such as ILL6415 and ILL7723. The third PC
explained 17.6% of the total data variability and it is positively
correlated with D2F (r = 0.62) and EODW (r = 0.64) which
corresponds to genotypes with high D2F and D2OE (Figure
2). 2.4. Statistical analysis Statistical analyses were done using SPSS software and R script. Analysis of variance (ANOVA) for field data was done consid-
ering a linear mixed model with blocks and repetitions as ran-
dom factors and seasons and genotypes as fixed factors. Person
correlation coefficients between all morphological traits were
computed and tested for their statistical significance using
prcomp function and Mix-Omics package. PCA and heatmap
was generated using R studio, visualization of corrplot and
ggplot packages, integrated into the R sofware. One way
anova and Duncan’s test was studied using SPSS software. A cluster analysis, using all collected data was performed
to cluster the different studied genotypes based on their
resistance level. Four groups were identified (Figure 2). The first cluster contains 46 genotypes that presented a
high susceptibility to O. crenata with high PI values ranging
from 5.53 to 9 and low HI and seed production levels (SY ≤
36.5 g m−2). The second cluster with only six genotypes,
showed a moderate susceptibility to O. crenata expressed
by high D2OE, a PI varying from 6.9 to 8.75, moderate
emerged Orobanche number and dry weight. The level of
seed production for the genotypes in this cluster varied
from 6.22 to 39.1 g m−2 with a maximum HI of 0.12. Cluster
three consisted of 22 genotypes showing intermediate values
for the remaining morphological traits. Only six genotypes 3. Results
3.1. Field screening for resistance to O. crenata in
lentil 3. Results
3.1. Field screening for resistance to O. crenata in
lentil Results showed a high variability within the lentil germplasm
collection in the response to O. crenata parasitism. Field Table 2. Analysis of variance of morphological traits of lentil genotypes under O.crenata infestation conditions. D2F
D2OE
PI
EON
EODW
BY
SY
HI
Genotypes (G)
19.9**
3.2**
1.9**
1.2ns
1.1ns
1.4*
2.3**
2.6**
Cropping Season (CS)
197.5**
386.5**
0.8ns
103.8**
60.3**
0ns
10.31**
69.1**
G*CS
6**
2.5**
0.8ns
1.67**
1.4*
1.5**
2**
2.3**
D2F: Days to flowering, D2OE: Day to Orobanche emergence, IP: Parasitism index, EON: Emerged Orobanche number, EODW: Emerged Orobanche dry weight, BY:
Biological yield, SY: Seed yield, HI: Harvest index;** significant at the 0.01 level;* significant at the 0.05 level, nsnot significant. 2F: Days to flowering, D2OE: Day to Orobanche emergence, IP: Parasitism index, EON: Emerged Orobanche number, EODW: Emerged O
Biological yield, SY: Seed yield, HI: Harvest index;** significant at the 0.01 level;* significant at the 0.05 level, nsnot significant. 324
Y. EN-NAHLI ET AL. Y. EN-NAHLI ET AL. Y. EN-NAHLI ET AL. 324 Figure 1. Correlation analysis among morphological parameters of lentil in response to O.crenata infection under field conditions during the cropping season
2017–2018 and 2018–2019. D2F: Days to flowering; D2OE: Days to Orobanche emergence; IP: Parasitism index; EON: Emerged Orobanche number; EODW
Emerged Orobanche dry weight; BY: Biological yield; SY: Seed yield; HI: Harvest index. ***Correlation is significant at the 0.001 level; ** Correlation is significan
at the 0.01 level; * Correlation is significant at the 0.05 level. Figure 1. Correlation analysis among morphological parameters of lentil in response to O.crenata infection under field conditions during the cropping seasons
2017–2018 and 2018–2019. D2F: Days to flowering; D2OE: Days to Orobanche emergence; IP: Parasitism index; EON: Emerged Orobanche number; EODW:
Emerged Orobanche dry weight; BY: Biological yield; SY: Seed yield; HI: Harvest index. ***Correlation is significant at the 0.001 level; ** Correlation is significant
at the 0.01 level; * Correlation is significant at the 0.05 level. Figure 2. Biplot of the first two dimensions of the principal component analysis (PCA) for the 80 genotypes based on their morphological traits under O. creneta
infection in field condition. 3.2. Pot experiment and confirmation of the
resistance under controlled conditions Five genotypes from cluster 4, ILL1861, ILL4830, ILL4615,
ILL7723 and LIRL21187, were selected to be subjected to a
confirmation experiment and evaluation of the impact of
the parasite on host development under controlled con-
ditions. Result showed a highly significant difference
between the genotypes (p < 0.001) under both infested and
free Orobanche conditions. Compared to non-infested con-
trol plants, biomass production (shoots and roots) was sig-
nificantly decreased by O. crenata for all the tested
genotypes except ILL6415 (Figure 3(A)). However,
no
significant
differences
were
observed
between the studied genotypes for the average number of
TON (p > 0.05) that varied from 3.5 to 7.2, and the NEO
(p > 0.05) wish varied from 3.2 to 5.9. Only EON showed sig-
nificant differences between genotypes (p ≤0.05) wish varied
from 0.4 to 0.7 (Table 4). The metabolites concentration found in the shoot and the
root of infested and non-infested genotypes were used to
perform a PCA and to build heat-maps to identify the pat-
tern between the samples and gain clear details about the
metabolic changes (Figures 4 and 5). The PC1 and PC2 of
the shoot metabolites explain 78% and 17.6% of the total var-
iance respectively. For both genotypes ILL6415 and ILL7723,
the non-infested and infested pant functions were close to
each other. Instead, PC1 and PC2 separate the function of
the non-infested and infested Zaaria (Figure 4(B)). Differ-
ently to the shoot, PC1 and PC 2 explain 36.3% and 25.3%
of the total root metabolite variations. The PC plot separates
markedly the functions of non-infested root of ILL6415,
ILL7723 and Zaaria from the infested root functions (Figure
5(B)). Out of 19 abundant and identified metabolites
detected, only linolenic acid, arachidic acid and abietic acid
are markedly accumulated in the shoot of the resistant
infested genotypes ILL6415. Four metabolite levels including
stigmasterol, methyl 2-hydroxytetracosanoate, lignoceric
acid and stigmastan-3,5-diene decreased compared with
the non infested plants. On the other hand, the metabolite
concentrations do not show significant changes between
the treatments in the shoot of the resistant genotype
ILL7723. While linolenic acid, g-sitosterol and melissic acid
exhibit increased concentrations in the shoot of the infested Significant differences were observed between tested gen-
otypes under both treatments (infested and non-infested) (p
< 0.001) for the SDW (Table 5). Also, results showed that
O. crenata significantly affected the RDW (p ≤0.05). 3. Results
3.1. Field screening for resistance to O. crenata in
lentil Conversely to
resistant genotypes, results showed an increase of the num-
ber of metabolites in the infested roots of the susceptible
check Zaaria (31 peaks) against only 13 observed in non-
infested plants. The annotated metabolites in the shoot
and the root belong to several biochemical groups such
as fatty acid, sterol, alkane, alcene, organic compounds
and others (Figure 4(C) and Figure 5(C)). with the highest resistance level were grouped in the fourth
cluster. This group was characterized by relatively the lowest
PI ranging from 2.77 and 5.87. The best recorded SY were
observed for the genotypes of this cluster such as ILL7723,
ILL4615, ILL1861and LIRL21187. Genotypes from cluster
four showed the best resistance level against O. crenata infec-
tation and relatively high seed production (Table 3). with the highest resistance level were grouped in the fourth
cluster. This group was characterized by relatively the lowest
PI ranging from 2.77 and 5.87. The best recorded SY were
observed for the genotypes of this cluster such as ILL7723,
ILL4615, ILL1861and LIRL21187. Genotypes from cluster
four showed the best resistance level against O. crenata infec-
tation and relatively high seed production (Table 3). 3.2. Pot experiment and confirmation of the
resistance under controlled conditions The
genotypes*treatment interaction was highly significant for
SDW (p < 0.001) and not significant for RDW (p > 0.05). Compared to non infested plants, an important decrease of
SDW (90%) was observed for genotypes Bakria, Zaaria and
ILL4830. Moderate to low SDW decreases were observed
for the genotypes ILL6415 (53.8%) and ILL7723 (66%). The same genotypes showed a relatively low RDW decrease
with respectively 19.2% and 22.2% against a maximum of
72% recorded for Zaaria and ILL4830. 3. Results
3.1. Field screening for resistance to O. crenata in
lentil D2F: Days to flowering; D2OE: Days to Orobanche emergence; IP: Parasitism index; EON: Emerged Orobanche number; EODW:
Emerged Orobanche dry weight; BY: Biological yield; SY: Seed yield; HI: Harvest index; contrib: variables contribution to the PCA Cluster analysis based on Eucli-
dean distance using the Ward method was performed to cluster the different studied genotypes based on their resistance level. Figure 2. Biplot of the first two dimensions of the principal component analysis (PCA) for the 80 genotypes based on their morphological traits under O. creneta
infection in field condition. D2F: Days to flowering; D2OE: Days to Orobanche emergence; IP: Parasitism index; EON: Emerged Orobanche number; EODW:
Emerged Orobanche dry weight; BY: Biological yield; SY: Seed yield; HI: Harvest index; contrib: variables contribution to the PCA Cluster analysis based on Eucli-
dean distance using the Ward method was performed to cluster the different studied genotypes based on their resistance level. JOURNAL OF PLANT INTERACTIONS 325 Table 3. Mean, maximum and minimum of morphological traits of the four clusters grouping the 80 lentil genotypes under O. crenata infection. Cluster 1
Cluster 2
Cluster 3
Cluster 4
Min
max
mean
Min
max
mean
Min
max
mean
Min
Max
mean
D2F
80.7
103.0
89.9
72.4
211.0
73.7
73.0
92.0
83.2
85.0
101.0
90.9
D2OE
92.0
113.3
100.2
90.5
105.3
93.2
87.5
170.8
97.2
101.0
117
107.2
IP
5.5
9
8.1
6.9
8.5
7.0
5.1
8.0
7.3
2.8
5.9
5.1
EON
0.1
3.8
1.6
1.6
6.1
2.6
0.2
2.8
1.8
0.4
3.07
1.5
EODW
0.1
2.41
1.1
1.4
3.2
1.6
0.3
2.1
1.2
0.2
1.84
1.0
BY (g.m−2)
98.2
431.3
243.6
211
452.5
294.6
170.8
532.3
250.4
365.8
723.7
396.3
SY (g.m−2)
0.7
36.5
10.2
6.2
39.1
34.3
7.7
64
32.0
30.4
103.8
46.7
HI
0.0
0.1
0.03
0.02
0.1
0.04
0.1
0.2
0.1
0.1
0.2
0.1
D2F: Days to flowering, D2OE: Day to Orobanche emergence, IP: Parasitism index, EON: Emerged Orobanche number, EODW: Emerged Orobanche dry weight, BY:
Biological yield, SY: Seed yield, HI: Harvest index maximum and minimum of morphological traits of the four clusters grouping the 80 lentil genotypes under O. crenata infection. Cluster 1
Cluster 2
Cluster 3
Cluster 4 (Zaaria). 3. Results
3.1. Field screening for resistance to O. crenata in
lentil For the resistant genotype ILL6415, a total of
109 metabolites were identified in the lipophilic phase of
both infested and non-infested plants, in which 59 were
observed only in non-infested plants and 54 metabolites
were found in the infested plants. For the genotype
ILL7723, 115 metabolites were detected in which 66 were
annotated in the non-infested plants and 49 in the infested
plants. For the susceptible check Zaaria, 92 metabolites in
total were recorded including 48 metabolites in non-
infested plants, and 44 in the infested plants. Results
showed that compared to non infested plants the number
of identified metabolites decreased in shoots of infested
plants. In total, 33, 33 and 13 metabolites were recorded
in the infested shoots of ILL6415, ILL7723 and Zaaria,
respectively against 38, 45 and 35 recorded in the non-
infested shoots. Similar decreases were observed in the
infested roots for both resistant genotypes ILL6415 (17
peaks), ILL7723 (16 peaks) respectively against 21 metab-
olites recorded in the non-infested roots. Conversely to
resistant genotypes, results showed an increase of the num-
ber of metabolites in the infested roots of the susceptible
check Zaaria (31 peaks) against only 13 observed in non-
infested plants. The annotated metabolites in the shoot
and the root belong to several biochemical groups such
as fatty acid, sterol, alkane, alcene, organic compounds
and others (Figure 4(C) and Figure 5(C)). (Zaaria). For the resistant genotype ILL6415, a total of
109 metabolites were identified in the lipophilic phase of
both infested and non-infested plants, in which 59 were
observed only in non-infested plants and 54 metabolites
were found in the infested plants. For the genotype
ILL7723, 115 metabolites were detected in which 66 were
annotated in the non-infested plants and 49 in the infested
plants. For the susceptible check Zaaria, 92 metabolites in
total were recorded including 48 metabolites in non-
infested plants, and 44 in the infested plants. Results
showed that compared to non infested plants the number
of identified metabolites decreased in shoots of infested
plants. In total, 33, 33 and 13 metabolites were recorded
in the infested shoots of ILL6415, ILL7723 and Zaaria,
respectively against 38, 45 and 35 recorded in the non-
infested shoots. Similar decreases were observed in the
infested roots for both resistant genotypes ILL6415 (17
peaks), ILL7723 (16 peaks) respectively against 21 metab-
olites recorded in the non-infested roots. 3.3. Qualitative untargeted metabolomic analysis To investigate the impact of O. crenata parasitism on the
metabolomic profile of susceptible and resistant lentil gen-
otypes and to gain more information and knowledge about
the chemical and biochemical mechanisms involved in the
resistance mechanisms, a metabolic profiles analysis was
performed using GC–MS for three lentil genotypes charac-
terized by different resistance levels; two resistant geno-
types (ILL6415, ILL 7723) and one susceptible genotype 326
Y. EN-NAHLI ET AL. 326
Y. EN-NAHLI ET AL. Figure 3. Growth variation between infected and no-infected plants for the five selected genotypes and the susceptible checks (A) GC–MS chromatograms of th
shoot of the resistant genotype (ILL6415), (B): non-infected (C): Infected. Figure 3. Growth variation between infected and no-infected plants for the five selected genotypes and the susceptible checks (A) GC–MS chromatograms of the
shoot of the resistant genotype (ILL6415), (B): non-infected (C): Infected. l
t d
t
d th
tibl
h
k (A) GC MS h
t
f th Figure 3. Growth variation between infected and no-infected plants for the five selected genotypes and the susceptible checks (A) GC–MS chromatograms of the
shoot of the resistant genotype (ILL6415), (B): non-infected (C): Infected. Table 4. The attachment number of O. crenata in selected lentil genotypes and
the checks cultivars. arachidic acid significantly increased in the infested root of
ILL6415, when a significant reduction of palmitic acid,
oleic acid, lignoceric acid and methyl 2-hydroxy-tetraco-
sanoate were found in the same infested roots. Stearic acid,
telfairic acid and montanic acid were more abundant in
the infested root of ILL7723 than the non-infested root, for
the same genotype only melissic acid and palmitoloic acid
were reduced in the infested root compared to the non-
infested root. For the susceptible genotype Zaaria, tricosa-
noic acid and pentacosanoic acid were significantly accumu-
lated in the infested root (Figure 5(A)). Table 4. The attachment number of O. crenata in selected lentil genotypes and
the checks cultivars. 3.3. Qualitative untargeted metabolomic analysis Total Orobanche
Number per Plant
(TON)
Emerged
Orobanche Shoots
(EON)
Non-Emerged
Orobanche
Tubercles (NEO)
ILL 6415
4.1 ± 0.8 b
0.4 ± 0.2 b
3.3 ± 1.0 a
ILL1861
7.1 ± 0.8 a
0.6 ± 0.3 a
5.1 ± 1.4 a
LIRL21187
5.1 ± 1.9 ab
0.7 ± 0.3 ab
3.9 ± 2.3 a
ILL7723
5.8 ± 2.5 a
0.7 ± 0.4 a
3.8 ± 2.4 a
ILL4830
7.2 ± 3.4 ab
0.4 ± 0.2 ab
5.9 ± 2.9 a
Zaaaria
4.3 ± 1.8 ab
0.6 ± 0.3 ab
3.2 ± 1.5 a
Bakria
3.5 ± 1.8 b
0.6 ± 0.3 b
2.8 ± 0.9 a
Total
4.8 ± 2.0
0.6 ± 0.1
3.7 ± 1.8
Data are means ± SE. Means with the same letters within a column are not sig-
nificantly different at p > 0.05. TON: Total Orobanche number, EON: emerged
Orobanche number, NEO: underground Orobanche number. Data are means ± SE. Means with the same letters within a column are not sig-
nificantly different at p > 0.05. TON: Total Orobanche number, EON: emerged
Orobanche number, NEO: underground Orobanche number. Data are means ± SE. Means with the same letters within a column are not sig-
nificantly different at p > 0.05. TON: Total Orobanche number, EON: emerged
Orobanche number, NEO: underground Orobanche number. 4.1. Field evaluation susceptible genotypes Zaaria compared with the non-
infested plants (Figure 4(A)). The holoparasitic weed O.crenata is known for its devastat-
ing effect on productivity of many crop species, especially
legume crops such as faba bean, chickpea, grass pea and lentil Moreover, concentrations of g-sitosterol, stigmastan-3,5-
diene, telfairic acid, docosanoic acid, stigmasterol and JOURNAL OF PLANT INTERACTIONS 327 Table 5. Mean ± standard error (SE) of shoot (SDW) and root dry weight (RDW) of the different infested and non-infested genotypes under controlled conditions. Shoot dry weight (SDW) (g)
Root dry weight (RDW) (g)
non-infected
infected
decreases (%)
non-infected
infected
decreases (%)
ILL 6415
2.7 ± 0.8 bc
1.2 ± 0 .0 d
53.8
1.0 ± 1.3 a
0.8 ± 0.9 ab
19.2
ILL1861
2.7 ± 0.8 cd
0.4 ± 0.0 bcd
84
1.2 ± 0.8 a
1.1 ± 0.2 a
66
LIRL21187
3.5 ± 1.4 ab
0.9 ± 0.0 d
73
0.6 ± 0.3 a
0.4 ± 0.1 ab
29.4
ILL7723
1.7 ± 0.3 bcd
0.6 ± 0.2 ab
66
0.7 ± 0.6 a
0.5 ± 0.0 ab
22.2
ILL4830
2.4 ± 0.5 bcd
0.2 ± 0.1 d
90
0.7 ± 0.5 a
0.2 ± 0.0 b
66.1
Bakria
5.0 ± 1.6 a
0.5 ± 0.1 abc
90
0.9 ± 0.2 a
0.4 ± 0.2 ab
48.9
Zaaria
2.7 ± 1.3 bc
0.2 ± 0.0 cd
90
0.5 ± 0.2 a
0.1 ± 0.0 b
72.0
Data are means ± SE Means with the same letters within a column are not significantly different at p > 0.05 Figure 4. Heat map and principal component analysis (PCA) of metabolite levels detected in infested and non-infested lentil genotypes (centered and scaled) of
shoot metabolites (A and B). Metabolite concentrations were row normalized to highlight differences among treatments. Relative abundance ranges from blue
(lower than the average percentage value) to red (higher than the average percentage value). The Compounds identified in the different apolar extracts derived
from infested and non-infested shoot were grouped in structurally related families (C). Figure 4. Heat map and principal component analysis (PCA) of metabolite levels detected in infested and non-infested lentil genotypes (centered and scaled) of
shoot metabolites (A and B). Metabolite concentrations were row normalized to highlight differences among treatments. Relative abundance ranges from blue
(lower than the average percentage value) to red (higher than the average percentage value). 4.1. Field evaluation 2019), is associated
with genes that are highly affected by the environmental con-
ditions (Yaish et al. 2011). It is tightly controlled by some
complex genetic and metabolic pathways such as salicylic
acid and gibberellin pathways as well as some other phyto-
hormones involved in plant growth (Dezar et al. 2011; Jing
et al. 2020). The root parasitic plants are metabolically
dependent on their hosts (Clermont et al. 2019), which
suggest that the early metabolism adjustments associated
with early flowering will stimulate the release of germination
stimulants in the rhizosphere of the host root system result-
ing in an early attachment and development of the parasite
on the host plant. such early infestation results with an
early parasitism impact affecting the host metabolism and
thus its physiological and phenological behavior which
explain the correlation found in the current study between
D2F, D2OE and SY (Amri et al. 2021). Parasitism Index
was positively correlated with EON and EODW, which yield through the prolongation of reproductive phase as well
as seed filling period (Sundaram et al. 2019), is associated
with genes that are highly affected by the environmental con-
ditions (Yaish et al. 2011). It is tightly controlled by some
complex genetic and metabolic pathways such as salicylic
acid and gibberellin pathways as well as some other phyto-
hormones involved in plant growth (Dezar et al. 2011; Jing
et al. 2020). The root parasitic plants are metabolically
dependent on their hosts (Clermont et al. 2019), which
suggest that the early metabolism adjustments associated
with early flowering will stimulate the release of germination
stimulants in the rhizosphere of the host root system result-
ing in an early attachment and development of the parasite
on the host plant. such early infestation results with an
early parasitism impact affecting the host metabolism and
thus its physiological and phenological behavior which
explain the correlation found in the current study between
D2F, D2OE and SY (Amri et al. 2021). Parasitism Index
was positively correlated with EON and EODW, which The score plot, the biplot and cluster analysis are graphical
representations used for a better visualization of PCA results,
and allow the identification of genotypes with the desirable
characteristics. In general, whatever the genotypes are located
close to the trait that’s mean a higher value for the correspond-
ing trait. 4.1. Field evaluation The Compounds identified in the different apolar extracts derived
from infested and non-infested shoot were grouped in structurally related families (C). (Amri et al. 2012; Millán et al. 2015; Nefzi et al. 2016; Abdal-
lah et al. 2020). In our study, we evaluated the performance
of a lentil germplasm collection under O. crenata open field
infested conditions. The 80 tested genotypes showed signifi-
cant differences in their response to O. crenata parasitism,
this variation could be associated with the genetic variation
within the population. Out of the 80 tested genotypes,
ILL4615,
ILL7723,
ILL1861,
ILL4830,
ILL9850
and LIRL21187 showed a good resistance level. Similar results
were reported in previous studies, using different lentil
populations
and
studying
their
behavior
against
the
O. crenata parasitism (Ennami et al. 2017; Mbasani-Mansi
et al. 2019). Regarding our results, early flowering was posi-
tively correlated to D2OE (r = 0.68***) and negatively corre-
lated with SY (r = −0.20***). The early flowering, which has
been described to have a positive effect on plant potential Y. EN 328 Y. EN-NAHLI ET AL. gure 5. Heat map and principal component analysis (PCA) of metabolite levels detected in infested and non-infested lentil genotypes (centered and scaled) of
ot metabolites. Metabolite concentrations were row normalized to highlight differences among treatments. Relative abundance ranges from blue (lower than
e average percentage value) to red (higher than the average percentage value). The Compounds identified in the different apolar extracts derived from infested
d non-infested roots were grouped in structurally related families (C). Figure 5. Heat map and principal component analysis (PCA) of metabolite levels detected in infested and non-infested lentil genotypes (centered and scaled) of
root metabolites. Metabolite concentrations were row normalized to highlight differences among treatments. Relative abundance ranges from blue (lower than
the average percentage value) to red (higher than the average percentage value). The Compounds identified in the different apolar extracts derived from infested
and non-infested roots were grouped in structurally related families (C). reflects the severe negative effect of O. crenata parasitism
on lentil growth and seed production. Similar results were
reported in previous studies performed on faba bean
(Abbes et al. 2011; Trabelsi et al. 2015; Trabelsi et al. 2016), lentil (Ennami et al. 2017), chickpea (Nefzi et al. 2016) and grass pea (Abdallah et al. 2020). yield through the prolongation of reproductive phase as well
as seed filling period (Sundaram et al. 4.3. Qualitative untargeted metabolomic analysis In this part of the study, the two resistant genotypes ILL 6415
and ILL7723 with the susceptible genotype Zaaria were
selected to conduct a qualitative metabolomic analysis to
explore the biochemical mechanisms involved in the resist-
ance against O. crenata. The principal components analysis
(PCA) is commonly used in non-targeted metabolomics
studies to perform metabolite correlation networks (Arbona
et al. 2013). Based on PCA for shoot metabolites performed
for
both
resistant
genotypes
ILL6415
and
ILL7723
and
compared
to
the
control
samples
Orobanche
parasitism was found to have a less effect on metabolites
changes compared to the susceptible genotype Zaaria (Figure
4(B)). However, the parasitism was found to have a markedly
effect on metabolites change in the root metabolite for all
genotypes
compared
to
their
respective
non-
infested control plants (Figure 5(B)). The changes in metabo-
lomic profile was reported also by Clermont et al. (2019)
between the facultative parasite T. versicolor and the obligate
holoparasite
P. aegyptiaca
with
the
host
species
M. Truncatula and A. thaliana, respectively. Similarly,
other authors reported that the parasitism by P. aegyptiaca
and O. foetida has affected respectively tomato (Amir
2016) and faba bean (Trabelsi et al. 2017; Abbes et al. 2020) metabolites when compared to non infested plants. 5. Conclusion The broomrape O. crenata is one of the major problems
limiting the production and the development of lentil in
Morocco and many other countries in the region. Identifi-
cation and development of resistant germplasm remains
the best option to control this parasite. In this study, poten-
tial sources of resistance were identified out of 80 genotypes
screened and evaluated under high O. crenata infested field
and controlled conditions. Both genotypes ILL6415 and
ILL7723 showed the highest level of resistance to the cre-
nate broomrape. Such resistance was associated with com-
plex physiological and biochemical mechanisms such as
an increase of some specific metabolite biosynthesis that
contribute in improving the host immunity and fight
against the parasite. These mechanisms, if combined with
other potential physical and/or chemical mechanisms,
through classical breeding
and/or genetic
engineering
approches, could help in improving the resistance to
O. crenata in lentil. The results demonstrated that O. crenata parasitism may
modify the shoot and the root metabolites of the host plants,
especially for susceptible genotypes. Indeed, out of the
detected metabolites, the increase of α-linolenic acid in the
shoot of the resistant genotype could be related to a specific
biochemical pathway of resistance, this essential fatty acid is
an important component of the cell membrane that maintain
the membrane integrity and functionality, prevents the
membrane
rigidification
under
stress
conditions
and
enhance the production of ROS via the activation of Ca2
+-ATPase (Delavault et al. 2017; Jia et al. 2020). Besides, α-
linolenic acid is a precursor of jasmonic acid (JA) synthesis,
a key rules in mediating resistant responses of plants under
biotic and abiotic stresses by eliciting the production of alka-
loid, terpenoid, coumarins, phytoalexins and taxane com-
pound that are widely known by their functional value to
plant
under
stress
and
regulating
plant
growth
and 4.2. Pot experiment The pot experiments were conducted under controlled con-
ditions to confirm field results and assess the underground
infestation which was difficult to consider under field con-
ditions. Data related to EON, NEO SDW and RDW recorded
for different tested genotypes showed that the growth and
biomass production have decreased in infested plants for
all the genotypes compared to the non-infested plants. These results showed that out of the five tested genotypes,
only two genotypes ILL6415 and ILL7723 showed good
resistance level under controlled conditions which confirm
the results observed under open field conditions. Such resist-
ance was expressed by the lowest shoot and root dry weight
reduction and a low number of total O. crenata shoots and
tubercules. similar results were reported in previous studies
performed on faba bean and lentil (Ennami et al. 2017;
Abdallah et al. 2020) who reported a large variation in infes-
tation intensity under pots conditions and field trials. 4.1. Field evaluation The genotypes ILL4605, ILL4830, LIR22107, ILL6415
and ILL7723 clustered together in cluster 4 showed the lowest
PI levels and the highest SY and BY. The same genotypes are
located to the negative side of PC2 which means they have low
values of EON and EODW. On the other hand, genotypes
such as ILL82, ILL304, ILL5385 clustered together in cluster
1, showed the highest PI and lowest SY and BY, and presented
as the most susceptible genotypes to O. crenata. JOURNAL OF PLANT INTERACTIONS 329 development (Delavault et al. 2017). However, the accumu-
lation of arachidic acid in the shoot and the root of the resist-
ant genotype ILL6415 may serve as a defensive agent to fight
the parasite attack, because several phytohormones and sec-
ondary metabolites are derived from this compound (Schar-
enberg et al. 2019). This long-chain fatty acid could be
related to the wax, cutin and suberin production pathways,
which help the plant to reduce water loss and protect the
plant surface (Mutale-joan et al. 2020). Similar accumulation
in α-linolenic acid and arachidic acid were reported by Jia
et al. (2020) in drought-tolerant Populus simoniicv and
drought-susceptible P. deltoides under drought conditions
stress. Otherwise, clear difference was observed in root sterol
content between the resistant and susceptible genotypes and
between infested and non-infested plants. Wang et al. (2012)
suggested that plant cells involve mechanical defense using
sterols to make a physical barrier against the nutrient
efflux to prevent nutrient and loss against bacterial and
pathogens attack. In contrast to previous studies that focused
more on polar metabolite variations including starch, amino
acid and some secondary metabolite in response to parasit-
ism in different plants (Abbes et al. 2009; Amir 2016; Cler-
mont et al. 2019), the current study put the light-on fatty
acids and sterols as important metabolites that can serve as
regulatory pathways to conduct defense mechanisms in lentil
and support the suggestion of the ability of the host plant to
regulate phloem composition depending onthe host–parasite
interaction (Jokinen and Irving 2019). Further, much
remains unknown about the host–parasite biochemical
interactions and a lot of work is still needed in exploring
novel metabolic pathways and associated gene expression,
genomic and proteomic analysis. 4.2. Pot experiment References Abbes Z, Bouallegue A, Trabelsi I, Trabelsi N, Taamalli A, Amri M,
Mhadhbi H, Kharrat M. 2020. Investigation of some biochemical
mechanisms involved in the resistance of faba bean (Vicia faba L.)
varieties to Orobanche spp. Plant Prot Sci. 56(4):317–328. doi:10. 17221/103/2019-PPS. Shiv Kumar Holds a Ph.D. in Plant Breeding from the GB Pant Univer-
sity of Agriculture and Technology, Pantnagar, India. His area of exper-
tise includes crop improvement through resistance breeding, widening
the genetic base through pre-breeding, and development of genetic and
genomic resources in food legumes. He is leading ICARDA’s Food
legumes program which aims to deliver improved germplasm of lentil,
kabuli chickpea, faba bean and grass pea to national partners in South
Asia, Sub-Saharan Africa, West Asia, and North Africa. He works on
developing short duration climate smart varieties of lentil and grass
pea with high iron and zinc content for sustainable intensification of
cereal based cropping systems. Abbes Z, Kharrat M, Delavault P, Chaïbi W, Simier P. 2009. Nitrogen
and carbon relationships between the parasitic weed Orobanche foe-
tida and susceptible and tolerant faba bean lines. Plant Physiol
Biochem. 47(2):153–159. doi:10.1016/j.plaphy.2008.10.004. Abbes Z, Kharrat M, Delavault P, Simier P, Chaïbi W. 2007. Field evalu-
ation of the resistance of some faba bean (Vicia faba L.) genotypes to
the parasitic weed Orobanche foetida poiret. Crop Prot. 26
(12):1777–1784. doi:10.1016/j.cropro.2007.03.012. Outmane Bouhlal is a Ph.D. candidate at the International Center for
Agricultural Research in the Dry Areas (ICARDA) and the University
of El-Jadida - Morocco. He is working on nutritional quality and
drought tolerance in barley. Abbes Z, Sellami F, Amri M, Kharrat M. 2011. Variation in the resist-
ance of some faba bean genotypes to Orobanche crenata. Pak J Bot. 43(4):2017–2021. Abbes Z, Trabelsi I, Kharrat M, Amri M. 2019. Intercropping with fenu-
greek (trigonella foenum-graecum) enhanced seed yield and reduced
Orobanche foetida infestation in faba bean (Vicia faba). Biol Agric
Hortic. 35(4):238–247. doi:10.1080/01448765.2019.1616614. Rachid Mentag holds a PhD in plant biotechnology from University
Laval – Canada. He has expertise in plant biotechnology and molecular
biology, Plant pathology and Plant-pathogen interaction. Actually, he is
working as senior research scientist at INRA-Morocco with research
focus on host genetic diversity of food legume crops including faba
bean, lentil and chickpea. He has expertise on parasitic weeds manage-
ment in legume crops with more focus on parasite-host interaction and
host specificity. Disclosure statement No potential conflict of interest was reported by the author(s). Author contribution YE, RM, MA., designed the research. YE, KH, HE, MA: per-
formed the experiments. YE, KH, OB, RM, AD, ZA, NES,
MA, contributed materials/analysis tools. YE, MA, wrote
the paper. YE, HE, AD, ZA, NES, SK, RM, MA, revised the
paper. All authors approved the final manuscript. YE, RM, MA., designed the research. YE, KH, HE, MA: per-
formed the experiments. YE, KH, OB, RM, AD, ZA, NES,
MA, contributed materials/analysis tools. YE, MA, wrote
the paper. YE, HE, AD, ZA, NES, SK, RM, MA, revised the
paper. All authors approved the final manuscript. Nour Eddine Es-Safiholds a PhD in organic chemistry from
Mohammed V University in Rabat, Morocco. He undertook postdoc-
toral at INRA-France. He is currently working at Mohammed V Uni-
versity, Rabat-Morocco. His research focuses on natural products and
their structural elucidation, biological activities, and role in food
technology. Moez Amri holds a PhD in biological sciences and Plant breeding and
HDR in Agricultural Science from the University of Carthage – Tunisia. He is an international scientist skilled in plant breeding with proven
record in genetic enhancement of food legume crops as and their inte-
gration into the cropping systems for healthy soils and better nutritious
food. His area of expertise includes crop improvement in particular
food legumes breeding and development of superior high yielding
germplasm with resistance to major biotic and abiotic stresses. He is
also conducting research activities on parasitic weeds management in
field crops with more focus on genetic resistance and parasite-host
interaction. ORCID Shiv Kumar
http://orcid.org/0000-0001-8407-3562
Ahmed Douaik
http://orcid.org/0000-0001-7374-4674
Zouhaier Abbes
http://orcid.org/0000-0003-4419-4639
Moez Amri
http://orcid.org/0000-0002-4707-0618 Hicham El Arroussi, Senior Scientist, R&D Manager of physiology and
biotechnology of microalgae at Moroccan Fondation for Advanced
Science, Innovation and Research (MAScIR). Affiliate professor at
Mohammed VI Polytechnic University (UM6P). He has expertise on
natural resources, microalgae production and valorization in different
applications such as applied environment, agriculture and bioenergy. Moez Amri
http://orcid.org/0000-0002-4707-0618 Acknowlegements This work was undertaken as part of research activities of
crop improvement program at Mohammed VI Polytechnic
University
(UM6P)
with
contribution
from
ICARDA
and Moroccan Foundation for Advanced Science, Inno-
vation and Research (MAScIR). Y. EN-NAHLI ET AL. 330 Higher Institute of Sciences and Technology of Environment, Borj
Cedria and National Institute of Agricultural Research of Tunisia. Notes on contributors Youness EN-Nahli is a Ph.D. candidate at African Integrated Plant and
Soil Research Group (AiPlaS), University Mohammed VI Polytechnic
(UM6P) – Morocco, the International Center for Agricultural Research
in the Dry Areas (ICARDA) and Mohammed V University - Rabat. He
is conducting his research activities on screening and evaluation of len-
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English
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Cannabinoid CB2 receptors in the mouse brain: relevance for Alzheimer’s disease
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© The Author(s). 2018 Open Access This article is distributed under the terms of the Creative Commons Attribution 4.0
International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and
reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to
the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver
(http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated. López et al. Journal of Neuroinflammation (2018) 15:158
https://doi.org/10.1186/s12974-018-1174-9 López et al. Journal of Neuroinflammation (2018) 15:158
https://doi.org/10.1186/s12974-018-1174-9 RESEARCH
Open Access
Cannabinoid CB2 receptors in the mouse
brain: relevance for Alzheimer’s disease
Alicia López1,2, Noelia Aparicio1,3, M. Ruth Pazos1,3, M. Teresa Grande3, M. Asunción Barreda-Manso1,3,
Irene Benito-Cuesta3, Carmen Vázquez1, Mario Amores1, Gonzalo Ruiz-Pérez3, Elena García-García1,
Margaret Beatka4,5, Rosa M. Tolón1,3, Bonnie N. Dittel4, Cecilia J. Hillard5 and Julián Romero1,3* Cannabinoid CB2 receptors in the mouse
brain: relevance for Alzheimer’s disease Alicia López1,2, Noelia Aparicio1,3, M. Ruth Pazos1,3, M. Teresa Grande3, M. Asunción Barreda-Manso1,3,
Irene Benito-Cuesta3, Carmen Vázquez1, Mario Amores1, Gonzalo Ruiz-Pérez3, Elena García-García1,
Margaret Beatka4,5, Rosa M. Tolón1,3, Bonnie N. Dittel4, Cecilia J. Hillard5 and Julián Romero1,3* Abstract Background: Because of their low levels of expression and the inadequacy of current research tools, CB2 cannabinoid
receptors (CB2R) have been difficult to study, particularly in the brain. This receptor is especially relevant in the context
of neuroinflammation, so novel tools are needed to unveil its pathophysiological role(s). Methods: We have generated a transgenic mouse model in which the expression of enhanced green fluorescent
protein (EGFP) is under the control of the cnr2 gene promoter through the insertion of an Internal Ribosomal Entry Site
followed by the EGFP coding region immediately 3′ of the cnr2 gene and crossed these mice with mice expressing five
familial Alzheimer’s disease (AD) mutations (5xFAD). Results: Expression of EGFP in control mice was below the level of detection in all regions of the central nervous system
(CNS) that we examined. CB2R-dependent-EGFP expression was detected in the CNS of 3-month-old AD mice in areas of
intense inflammation and amyloid deposition; expression was coincident with the appearance of plaques in the cortex,
hippocampus, brain stem, and thalamus. The expression of EGFP increased as a function of plaque formation and
subsequent microgliosis and was restricted to microglial cells located in close proximity to neuritic plaques. AD mice
with CB2R deletion exhibited decreased neuritic plaques with no changes in IL1β expression. Conclusions: Using a novel reporter mouse line, we found no evidence for CB2R expression in the healthy CNS but
clear up-regulation in the context of amyloid-triggered neuroinflammation. Data from CB2R null mice indicate that they
play a complex role in the response to plaque formation. Keywords: Cannabinoid CB2 receptor, Transgenic mice, Enhanced green fluorescent protein, Amyloid,
Neuroinflammation, Microglia Keywords: Cannabinoid CB2 receptor, Transgenic mice, Enhanced green fluorescent protein, Amyloid,
Neuroinflammation, Microglia Background nervous system (CNS) [12, 18]. According to these
early data, the abundance of CB2R message in human
blood cells was highest in B-lymphocytes, followed by
natural killer cells, macrophages, and cluster of differ-
entiation (CD)8 and CD4 T-lymphocytes [12]. It has been long appreciated that cannabinoids such as Δ9-
tetrahydrocannabinol (THC) exert effects on the immune
system [40]. A primary target for the cannabinoids to alter
immune
system
function,
the
cannabinoid
receptor,
subtype 2 (CB2R), was identified molecularly in 1993
[23]. Autoradiographic and in situ hybridization studies
indicated a high level of expression of the CB2R in
cellular elements of the immune system but these
methods did not detect CB2R expression in the central The presence of CB2Rs in the CNS has been the subject
of intense debate during the last decade. Some reports
[13, 35] showed the expression of CB2Rs in neuronal
elements of the uninjured brain, based primarily on im-
munohistochemical approaches. Other studies, however,
limited the presence of CB2R in the CNS to glial cells and,
specifically, to microglia [6]. Seminal studies by Cabral
and colleagues suggested that CB2R could be expressed by
microglial cells and that the expression level varied as a
function
of
cell
activation
[9]. Subsequent
studies * Correspondence: j.romero.prof@ufv.es
1Laboratorio de Apoyo a la Investigación, Hospital Universitario Fundación
Alcorcón, C/ Budapest 1, 28922 Alcorcón, Madrid, Spain
3Faculty of Experimental Sciences, Universidad Francisco de Vitoria, 28223
Pozuelo de Alarcón, Madrid, Spain
Full list of author information is available at the end of the article Methods Generation of CB2
EGFP/f/f and CB2
−/−mice Generation of CB2
EGFP/f/f and CB2
/ mice
Mice were generated at Genoway facilities (Lyon, France). A targeting strategy was designed consisting in the inser-
tion of an enhanced Green Fluorescent Protein (EGFP)
reporter gene, preceded by an Internal Ribosomal Entry
Site (IRES) sequence in the 3′ untranslated region (UTR)
of the cnr2 mouse gene. This approach results in the
expression of the reporter gene under the control of the
endogenous mouse cnr2 promoter and transcript from the
same bicistronic mRNA as the CB2R protein. Further, the
entire exon 3, including the 3′ UTR and knocked-in
reporter, is flanked by loxP sites, allowing the conditional
inactivation of the cnr2 gene in cells expressing Cre
recombinase (Fig. 1a). However, concerns regarding the lack of specificity
of antibodies against the CB2R protein have been
raised [3] (Additional file 1), which call into question
some of these results. It is clear that additional tools
are needed to unambiguously demonstrate the cellular
expression of CB2R throughout the body, but most
particularly within the CNS. We here introduce a
novel transgenic model designed to unveil the func-
tional distribution of cannabinoid CB2R and present
data regarding the expression of these receptors in
the mouse, with special attention to the CNS. Fur-
thermore, we used this new mouse model to analyze Three isolated sequences encompassing the murine
cnr2 gene regions surrounding the targeted exon 3 were
used for the construction of the targeting vector. These
sequences
included
(i)
a
3462
bp-sized
fragment a
b
30 kda
36 kda
c
d
e
Fig. 1 Generation of a novel mouse model. a Genomic structure of the construct employed for the generation of CB2
EGFP/f/f and CB2
−/−mice. Hatched
rectangles represent cnr2 coding sequences, gray rectangles indicate non-coding exon portions, solid lines represent chromosome sequences. The
neomycin-positive selection cassette (Neo) IRES sequence and reporter gene (EGFP) are indicated. loxP sites are represented by blue triangles and FRT
sites by double red triangles. The initiation (ATG) and Stop (Stop) codons are indicated. For the generation of knock-in mice (CB2
EGFP/f/f), recombined
mice were bred with ubiquitous FLP-recombinase expressing mice, enabling the deletion of the FRT-flanked region. b For the generation of knock-out
mice (CB2
−/−), recombined mice were bred with ubiquitous Cre-recombinase expressing mice, resulting in the deletion of the loxP-flanked region. López et al. Journal of Neuroinflammation (2018) 15:158 Page 2 of 11 the changes in the brain expression pattern of this re-
ceptor in the context of AD. confirmed this hypothesis [19, 31]. Regarding human sam-
ples, we found expression of CB2R was restricted to peri-
vascular microglia in control brains [24] but that CB2R
protein were dramatically increased in different patho-
logical conditions. Observations made in Alzheimer’s dis-
ease (AD), multiple sclerosis, Down’s syndrome, and
immunodeficiency virus-induced encephalitis confirmed
that the presence of CB2R is greatly enhanced in areas of
neuroinflammation, predominantly in microglial cells (see
[6], for a review). Immunofluorescence and neuritic plaque staining Immunofluorescence and neuritic plaque staining
Mice (N = 4–6 mice per group) were deeply anesthetized
and transcardially perfused with cold PBS (pH 7.4)
followed by freshly prepared cold 4% paraformaldehyde in
PBS (pH 7.4). Tissue samples were collected and post-
fixed in the same fixative overnight. Afterwards, tissues
were dehydrated by sequential transfer to 10 and 30% su-
crose solutions. Finally, tissues were cryoprotected with
Tissue-Tek and frozen in dry ice. Thirty-micrometer-
thick sections were obtained in a cryostat and pre-
served in cryoprotectant solution until use. Homozygous mice identified by PCR were further
verified by Southern blot analysis (Fig. 1c). All mice used
in this study were fourth- or fifth-generation offspring
from intercrosses of C57BL/6J mice. Mice were housed
and bred in the animal facilities of Universidad Rey Juan
Carlos (Alcorcón, Madrid, Spain) or the Medical College
of Wisconsin (Milwaukee, WI, USA). Experimental pro-
tocols met the European and Spanish regulations for
protection of experimental animals (86/609/EEC and RD
1201/2005 and 53/2013) or were approved by the Insti-
tutional Animal Care and Use Committee of the Medical
College of Wisconsin. Male mice were used in all experi-
ments included in the present report with the exception
of flow cytometry experiments (see below). se ved
c yop otecta t so ut o
u t
use. Floating tissue sections were washed with Tris Buffer
Saline (TBS) before overnight incubation at 4 °C with the
primary antibodies used for identification of the cellular
types. For EGFP identification, overnight incubation with
an anti-GFP antibody (1:1500; Abcam) was followed by in-
cubation with an Alexa 488 anti-chicken antibody conju-
gate (Invitrogen) carried out at 37 °C for 2 h, rendering
green fluorescence. Afterwards, sections were incubated
with a rabbit polyclonal anti-ionized calcium-binding
adaptor molecule 1 (Iba1) (1:1000 dilution, Wako, Osaka,
Japan), diluted in TBS containing 1% bovine serum albu-
min (BSA; Sigma, St. Louis, USA) and 1% Triton x-100
(Sigma). After the incubation, sections were washed in
TBS followed by incubation with an Alexa 546 anti-rabbit
antibody conjugate (Invitrogen, Eugene, OR, USA) at 37 °
C for 2 h, rendering red fluorescence. Immunofluorescence and neuritic plaque staining Additional tissue
sections were incubated with mouse monoclonal anti-
GFAP-Cy3 antibody (1:1500 dilution, Sigma) in the same
buffer for 2 h at 37 °C or with mouse monoclonal anti-
neuron-specific nuclear protein (NeuN) antibody (1:
1000 dilution, Merck Millipore, Darmstadt, Germany)
followed by incubation with Alexa 594 anti-mouse anti-
body conjugate (Invitrogen) as described above. Generation of CB2
EGFP/f/f/5xFAD and CB2
−/−/5xFAD mice
Mice co-expressing five familial Alzheimer’s disease muta-
tions (5xFAD) were purchased from Jackson Laboratories
(Bar Harbor, ME, USA; [25]) on the C57BL/6J background
and were mated with CB2
EGFP/f/f and CB2
−/−mice and
backcrossed for at least five generations to generate
CB2
EGFP/f/f/5xFAD
and
CB2
−/−/5xFAD mice. Animals
employed in the present experiments were 3 to 6 months
old; this period was chosen based on previously published
data [25, 36] in order to allow for the appearance of
amyloid deposits. In order to study amyloid plaque deposits, a subset of
CB2
EGFP/f/f/5xFAD mice received an i.p. dose of 10 mg/
kg of methoxy-XO4 (a Congo Red derivative known to
selectively stain amyloid plaques; Tocris Bioscience; [4])
24 h prior to sacrifice. Brains were processed and sec-
tions were obtained and preserved for immunostaining
as described above. Methods c
Representative Southern blot showing the expected wild-type (WT) and recombined (Rec) hybridization signals at 9302 and 5794 bp, respectively, in
embryonic stem cells from non-transfected (right column) and successfully transfected clones (left column). d Representative Western blot showing
EGFP expression in spleen tissue homogenates from CB2
EGFP/f/f (left lane) and CB2
−/−mice (right lane). e The basal expression level of CB2 receptor
mRNA is not modified as a consequence of the insertion of the genetic construct used for the generation of the knock-in mice (CB2
EGFP/f/f), as revealed
by qRT-PCR in spleen samples and comparison with WT mice a b b a e c d 30 kda
36 kda
d c e Fig. 1 Generation of a novel mouse model. a Genomic structure of the construct employed for the generation of CB2
EGFP/f/f and CB2
−/−mice. Hatched
rectangles represent cnr2 coding sequences, gray rectangles indicate non-coding exon portions, solid lines represent chromosome sequences. The
neomycin-positive selection cassette (Neo) IRES sequence and reporter gene (EGFP) are indicated. loxP sites are represented by blue triangles and FRT
sites by double red triangles. The initiation (ATG) and Stop (Stop) codons are indicated. For the generation of knock-in mice (CB2
EGFP/f/f), recombined
mice were bred with ubiquitous FLP-recombinase expressing mice, enabling the deletion of the FRT-flanked region. b For the generation of knock-out
mice (CB2
−/−), recombined mice were bred with ubiquitous Cre-recombinase expressing mice, resulting in the deletion of the loxP-flanked region. c
Representative Southern blot showing the expected wild-type (WT) and recombined (Rec) hybridization signals at 9302 and 5794 bp, respectively, in
embryonic stem cells from non-transfected (right column) and successfully transfected clones (left column). d Representative Western blot showing
EGFP expression in spleen tissue homogenates from CB2
EGFP/f/f (left lane) and CB2
−/−mice (right lane). e The basal expression level of CB2 receptor
mRNA is not modified as a consequence of the insertion of the genetic construct used for the generation of the knock-in mice (CB2
EGFP/f/f), as revealed
by qRT-PCR in spleen samples and comparison with WT mice López et al. Journal of Neuroinflammation (2018) 15:158 Page 3 of 11 containing exon 2 and downstream intronic sequences, (ii)
a 2980 bp-sized fragment containing the coding part of
exon 3 and upstream intronic sequences, and (iii) a
3657 bp-sized fragment containing the non-coding part of
exon 3 and downstream sequences. Methods The linearized targeting
construct was transfected into C57BL/6J embryonic stem
cells. Homologous recombinant cells were identified by
Southern analysis and five clones were used to generate
chimeric mice. Chimeras were bred with C57BL/6J Flp-
and Cre-deleter females, in order to generate Neo-excised
EGFP reporter knock-in (CB2
EGFP/f/f) mice (Fig. 1a) and
constitutive knock-out (CB2
−/−) mice (Fig. 1b), respectively. Homozygous mice identified by PCR were further
verified by Southern blot analysis (Fig. 1c). All mice used
in this study were fourth- or fifth-generation offspring
from intercrosses of C57BL/6J mice. Mice were housed
and bred in the animal facilities of Universidad Rey Juan
Carlos (Alcorcón, Madrid, Spain) or the Medical College
of Wisconsin (Milwaukee, WI, USA). Experimental pro-
tocols met the European and Spanish regulations for
protection of experimental animals (86/609/EEC and RD
1201/2005 and 53/2013) or were approved by the Insti-
tutional Animal Care and Use Committee of the Medical
College of Wisconsin. Male mice were used in all experi-
ments included in the present report with the exception
of flow cytometry experiments (see below). software
to
generate
the
geometric
mean
of
eGFP
expression in each immune cell population. containing exon 2 and downstream intronic sequences, (ii)
a 2980 bp-sized fragment containing the coding part of
exon 3 and upstream intronic sequences, and (iii) a
3657 bp-sized fragment containing the non-coding part of
exon 3 and downstream sequences. The linearized targeting
construct was transfected into C57BL/6J embryonic stem
cells. Homologous recombinant cells were identified by
Southern analysis and five clones were used to generate
chimeric mice. Chimeras were bred with C57BL/6J Flp-
and Cre-deleter females, in order to generate Neo-excised
EGFP reporter knock-in (CB2
EGFP/f/f) mice (Fig. 1a) and
constitutive knock-out (CB2
−/−) mice (Fig. 1b), respectively. Flow cytometry Single cell suspensions were prepared from the spleens of
wild type, CB2
EGFP/f/f, and CB2
EGFP/f/+ mice of both sexes
as described previously [27]. Cells were incubated with
combinations of anti-mouse fluorescently-conjugated
antibodies as follows: anti-B220 PE, anti-CD4 APC-
eFluor780, anti-CD8 eFluor450, anti-CD11b eFluor450,
anti-CD11c PE, anti-Ly6C APC, anti-Ly6G APC/Cy7,
and anti-NK1.1 APC. Flow cytometry was used to identify
B cells (B220+CD4−CD8−), CD4 T cells (CD4+NK1.1−),
CD8 T cells (CD8+ NK1.1−), NKT cells (CD4+NK1.1+), NK
cells (CD4−NK1.1+), macrophages (CD11b+Ly6C+/−Ly6G−),
dendritic cells (CD11b+CD11chi), and granulocytes (CD
11b+Ly6C+Ly6G+). Sample acquisition was performed on a
BD Biosciences LSR II, and data was analyzed using FlowJo Sections were mounted in aqueous solution (Vectashield,
Vector Laboratories, Burlingame, CA, USA), coverslipped,
and sealed. Slides were studied and photographed with up-
right microscopes (Nikon 90i, Nikon, Tokyo, Japan; and
Axioimager M2, Zeiss, Oberkochen, Germany) and using a
DXM1200F camera and C1 and LSM710 confocal systems
[36]. Image analysis was carried out as described [36] with
Metamorph (Molecular Devices, Sunnyvale, CA, USA) and
ImageJ software (Research Services Branch, National Insti-
tute of Mental Health, Bethesda, MD, USA). López et al. Journal of Neuroinflammation (2018) 15:158 Page 4 of 11 Page 4 of 11 Page 4 of 11 López et al. Journal of Neuroinflammation (2018) 15:158 Western blotting from mouse brain. The transcript amounts were cal-
culated using the second derivate maximum mode of
the LC-software version 4.0. The specific transcript
quantities were normalized to the transcript amounts
of the reference gene 18S. All further calculations and
statistical analyses were carried out with these values
referred to as relative expression ratios. g
Protein fractions were collected from a Tri-pure extrac-
tion of hippocampal and spleen tissues, according to the
manufacturer’s instructions (Roche). Lysates (20 μg/lane
or 10 μg/lane for hippocampal and spleen protein sam-
ples respectively) were separated by SDS-PAGE and
transferred
onto
PVDF
membranes
(BioRad). After
blocking in Tris-Tween buffered saline (TTBS; 10 mM
Tris pH 7.5, 150 mM NaCl, 0.1% Tween 20 plus 5%
nonfat dried milk), they were incubated overnight at
4 °C, as appropriate, with anti-GFP (1:500, Abcam,
Cambridge, UK). Membranes were incubated with
corresponding horseradish peroxidase-conjugated sec-
ondary antibody (1:8000) and were developed using a
chemiluminescent
reagent
(ECL
detection
reagent
GE
Healthcare,
Buckinghamshire,
UK). Developed
signals were recorded on X-ray film (Agfa) for densi-
tometric analysis (ImageJ, NIH, MD, USA). N = 4–6
mice per group were used for protein quantification
by Western blot. Statistics Results are expressed as mean ± SEM. Statistical analysis
were made using student’s t test for comparisons between
two groups, analysis of variance (ANOVA), and two-way
ANOVA with Tukey’s post-test for multiple comparisons. A p value < 0.05 was considered as statistically signifi-
cant (see Additional file 3: Table S1). Data were ana-
lyzed with Graph Pad Prism software version 6.0 (San
Diego, CA, USA). ELISA Aβ1-42 p
p
To characterize the newly generated CB2
EGFP/f/f mice, we
performed Western blotting on spleen samples. A single
band corresponding to the EGFP molecular weight was
evident in CB2
EGFP/f/f mice and was undetectable in spleen
samples from CB2
−/−mice (Fig. 1d). We determined
whether the strategy for the generation of the knock-in
mice modified the expression levels of CB2R gene. Our results show that no changes were evident in
CB2R
mRNA
expression
levels
between
WT and
CB2
EGFP/f/f mice in spleen (Fig. 1e; p = 0.474), thus
ruling out a putative impact of the transgene on basal
expression of the receptor. β
Human ELISA kits (Invitrogen, Camarillo, CA, USA)
were used for the quantification of Aβ1-42 in the brain
soluble fractions, following the instructions provided by
the manufacturer. Levels were normalized to the total
amount of protein. Results Basal expression of EGFP in CB2
EGFP/f/f mouse spleen is
coincident with previously described CB2 receptor
patterns of expression in immune cells Real-time quantitative PCR for CB2 and IL1β Journal of Neuroinflammation (2018) 15:158 Page 5 of 11 a
b
c
d
e
f
Fig. 2 EGFP presence and distribution in CB2
EGFP/f/ spleens determined using flow cytometry (a–c) and immunofluorescence (d–f). a–c Determination
of cell-specific expression of EGFP in splenocytes harvested from WT (a), CB2
EGFP/f/+ (b), and CB2
EGFP/f/f (c) mice. The numbers next to the histograms
are the mean fluorescence intensity (MFI). d–f CB2-dependent-EGFP expression in B-lymphocytes in the spleen of CB2
EGFP/f/f. EGFP expression was
evident in follicles of the white pulp. Scale bars, 100μm (d–g) a c b
c b a c f d e d e Fig. 2 EGFP presence and distribution in CB2
EGFP/f/ spleens determined using flow cytometry (a–c) and immunofluorescence (d–f). a–c Determination
of cell-specific expression of EGFP in splenocytes harvested from WT (a), CB2
EGFP/f/+ (b), and CB2
EGFP/f/f (c) mice. The numbers next to the histograms
are the mean fluorescence intensity (MFI). d–f CB2-dependent-EGFP expression in B-lymphocytes in the spleen of CB2
EGFP/f/f. EGFP expression was
evident in follicles of the white pulp. Scale bars, 100μm (d–g) contrast, intense EGFP signal could be seen in brain
regions of CB2
EGFP/f/f/5xFAD mice known to be rich in
beta-amyloid neuritic plaques, such as hippocampus
(Fig. 3b). Other regions such as cortex, thalamus, and
brain
stem also exhibited EGFP signal (data not
shown), in concordance with the previously reported
distribution
of
neuritic
plaques
[25]. EGFP+
cells
exhibited an ameboid shape and were mostly found in
clusters (Fig. 3c), suggesting they could be activated
microglial cells. No signal could be observed in the
hippocampus of CB2
−/−/5xFAD mice (Fig. 3d) or in any
other brain region examined (data not shown). pattern than the lymphocytes (Fig. 2). Given that the
spleen contains numerous macrophage and dendritic
cell populations, it is likely that CB2R, and thus EGFP,
will be differentially expressed among them [7, 15]. Finally, of the myeloid subset, granulocytes exhibited the
highest amount of EGFP expression. These data are
consistent with the published reports of CB2R distribution
among these cell types [12] indicating that the CB2
EGFP/f/f
mouse is an excellent tool by which to determine steady
state CB2R expression in various spleen cell populations
using EGFP fluorescence. g
y
g
mouse is an excellent tool by which to determine steady
state CB2R expression in various spleen cell populations
using EGFP fluorescence. Real-time quantitative PCR for CB2 and IL1β ea t
e qua t tat e
C
o CB2 a d
β
Total RNA was isolated using Tripure Isolation Reagent
(Roche, Mannheim, Germany) according to the protocol of
the supplier. RNA was dissolved in RNase-free water and
quantified by absorption at 260 nm. Aliquots were sub-
jected to 1% denaturing agarose gel electrophoresis and
GelRed Nucleic Acid Gel Stain (Biotium, Fremont, CA,
USA) staining to verify the quantity and quality of RNA. Single-stranded complementary DNA (cDNA) was synthe-
sized from 1 mg of total RNA using LightCycler Taqman
Master (Roche Diagnostics). PCR primers and TaqMan
probes were designed by Tib Molbiol (Berlin, Germany)
(see Additional file 2: Figure S1). For normalization, 18S
primers and probe number 55 from Universal ProbeLi-
brary (Roche) were utilized. Gene expression was quanti-
fied using LightCycler FastStart DNA Master HybProbe
and LightCycler Taqman Master (Roche) and Quantimix
Easy Probes kit (Biotools, Madrid, Spain) in a LightCycler
thermocycler (Roche). The concentration of primers and
probes were 0.5 and 0.2 μM, respectively. PCR assays were
performed using 2 μl of the cDNA reaction. All assays were
carried out twice as independent PCR runs for each cDNA
sample. Mean values were used for further calculation. A
negative (no template) control was measured in each of
the PCR runs. Standard curves were calculated for quanti-
fication purposes using fivefold serial dilutions of cDNA p
p
We used flow cytometry to identify and quantify the
EGFP expression of splenocyte cell populations from
wild type, CB2
EGFP/f/+, and CB2
EGFP/f/f mice (Fig. 2a–c). Using wild type mice, we found that background EGFP
immunofluorescence
was
low
in
all
immune
cell
populations examined (Fig. 2a). EGFP expression levels
in splenic immune cells were compared in heterozygous
(Fig. 2b) and homozygous (Fig. 2c) CB2
EGFP/f/f mice. In all
immune cell populations investigated, the homozygous
CB2
EGFP/f/f mice exhibited approximately double the mean
fluorescence intensity (MFI) of the heterozygous mice. EGFP expression was highest in the B cell population,
which is consistent with reports that B cells have the
highest CB2 receptor expression among these cell types
[12]. Among the T cell populations, CD4 T cells and
NK T cells expressed a similar low level of EGFP
expression, while CD8 T cells expressed ~ threefold
higher levels (Fig. 2). NK cells expressed negligible
levels of EGFP (Fig. 2). Monocytes/macrophages and
dendritic cells expressed EGFP in a broader expression López et al. Basal expression of EGFP in CB2
EGFP/f/f mice is Basal expression of EGFP in CB2
EGFP/f/f mice is Real-time quantitative PCR for CB2 and IL1β We analyzed the expression of EGFP in spleens of
CB2
EGFP/f/f mice by immunofluorescence and found
discrete
cell
populations
showing
detectable
signal. EGFP+ B cells were detected, limited to the marginal
zone of the white pulp follicles, mostly located in the
follicular corona (Fig. 2d–f). g
As shown in Fig. 3e, EGFP immunoreactivity above
background could be observed as early as 3 months
of age in the CB2
EGFP/f/f/5xFAD mice, and EGFP-
labeled cells increased in density with age in these
mice (Fig. 3e–h). EGFP+ were found in clusters throughout
the brain parenchyma and their distribution and increased
density with age paralleled that of neuritic plaques,
identified using methoxy-XO4, a dye for amyloid deposits
(Fig. 3i–l). Interestingly, no EGFP signal could be observed
in regions not exhibiting neuritic plaques (asterisks in
Fig. 3g–k). The
number
of
EGFP+
cells
was
dramatically increased at 4 and 6 months of age,
which also paralleled the increase in the appearance of
amyloid deposits (Fig. 3h: F3,18 = 58.46, p < 0.0001;
Fig. 3l: F3,23 = 64.70, p < 0.0001). undetectable in the CNS but is induced as a consequence
of amyloid deposition undetectable in the CNS but is induced as a consequence
of amyloid deposition In the CNS, microscopic analysis of the brain and spinal
cord of 3-, 4-, or 6-month-old CB2
EGFP/f/f mice showed no
detectable EGFP immunoreactivity above background in
glial or neuronal elements of any region examined, which
included
hippocampus
(Fig. 3a),
cortex,
cerebellum,
thalamus, brain stem, and spinal cord (not shown). In Page 6 of 11 López et al. Journal of Neuroinflammation (2018) 15:158 a
b
c
d
e
f
g
i
j
k
h
l
Fig. 3 In vivo EGFP induction in the context of AD, as revealed by immunofluorescence. a Un-manipulated, healthy CB2
EGFP/f/f mice showed no significant
EGFP signal in hippocampus (a). b, c EGFP signal could be noticed in the brain of CB2
EGFP/f/f/5xFAD mice; these cells showed ameboid shape. d No EGFP
signal could be observed in any brain region of CB2
−/−/5xFAD mice, including those enriched in amyloid plaques such as hippocampus. e–l EGFP signal in
CB2
EGFP/f/f/5xFAD mice increased with age and paralleled that of amyloid deposits. EGFP was evident in brain samples of CB2
EGFP/f/f/5xFAD mice starting at
3 months of age (e) and progressively increasing with age (4 months, f, and 6 months, g) and matched with the pattern of distribution of
amyloid-enriched plaques stained with methoxy-XO4 in those same samples (figure i–k). Note that neighboring brain regions devoid of
amyloid deposits exhibited a complete absence of EGFP signal (asterisks in g, k). h, l Densitometric quantification of EGFP+ cells (h) and
amyloid plaques (k) shows a parallel increase in neuritic plaques and EGFP expression. Data are expressed as mean ± SEM. *p < 0.05 vs
CB2
EGFP/f/f mice, # vs CB2
EGFP/f/f/5xFAD-3mo mice, and “a” vs CB2
EGFP/f/f/5xFAD-4mo mice. N = 5 for immunofluorescence labeling. Scale
bars, 10 μm (c) and 50 μm. DG (dentate gyrus); SBC (subiculum); CA1 (CA1 region of Ammon’s horn) c a b d b c h g f e f g e l k i j j i k Fig. 3 In vivo EGFP induction in the context of AD, as revealed by immunofluorescence. a Un-manipulated, healthy CB2
EGFP/f/f mice showed no significant
EGFP signal in hippocampus (a). b, c EGFP signal could be noticed in the brain of CB2
EGFP/f/f/5xFAD mice; these cells showed ameboid shape. undetectable in the CNS but is induced as a consequence
of amyloid deposition d No EGFP
signal could be observed in any brain region of CB2
−/−/5xFAD mice, including those enriched in amyloid plaques such as hippocampus. e–l EGFP signal in
CB2
EGFP/f/f/5xFAD mice increased with age and paralleled that of amyloid deposits. EGFP was evident in brain samples of CB2
EGFP/f/f/5xFAD mice starting at
3 months of age (e) and progressively increasing with age (4 months, f, and 6 months, g) and matched with the pattern of distribution of
amyloid-enriched plaques stained with methoxy-XO4 in those same samples (figure i–k). Note that neighboring brain regions devoid of
amyloid deposits exhibited a complete absence of EGFP signal (asterisks in g, k). h, l Densitometric quantification of EGFP+ cells (h) and
amyloid plaques (k) shows a parallel increase in neuritic plaques and EGFP expression. Data are expressed as mean ± SEM. *p < 0.05 vs
CB2
EGFP/f/f mice, # vs CB2
EGFP/f/f/5xFAD-3mo mice, and “a” vs CB2
EGFP/f/f/5xFAD-4mo mice. N = 5 for immunofluorescence labeling. Scale
bars, 10 μm (c) and 50 μm. DG (dentate gyrus); SBC (subiculum); CA1 (CA1 region of Ammon’s horn) CB2R induction is limited to plaque-associated microglial
cells
EGFP+ cells were located in association with neuritic
plaques (as revealed by staining with methoxy-XO4) and
exhibited morphological features of microglia (Fig. 4). Co-
localization studies with Iba-1, a commonly used marker of
cells of myeloid lineage, were carried out. Low magnifica-
tion (a to d) images showed a match in the pattern of distri-
bution among EGFP+ and Iba1+ cells in the subiculum of
6-month-old CB2
EGFP/f/f/5xFAD mice; in addition, our data
show that CB2-dependent EGFP expression takes place selectively in Iba1+ cells located in the vicinity of neuritic
plaques (Fig. 4e–l). Microglial cells not associated with
these pathological structures showed no EGFP staining (see
Fig. 5a–d). For example, note the microglial cell at the
arrow in Fig. 5b is neither EGFP positive nor associated
with a plaque. Differences in the morphological features of
EGFP+ and EGFP−microglial cells were evident, with
EGFP+ cells exhibiting an ameboid-like shape (Fig. 5a
and b), typical of activated microglia, while EGFP−cells
showed a highly ramified morphology, characteristic of
quiescent, non-activated, microglia (arrow in Fig. 5b). EGFP+ cells were located in association with neuritic
plaques (as revealed by staining with methoxy-XO4) and
exhibited morphological features of microglia (Fig. 4). Co-
localization studies with Iba-1, a commonly used marker of
cells of myeloid lineage, were carried out. Discussion We have established a novel transgenic mouse model
(CB2
EGFP/f/f) that allows for identification of cells that are
actively transcribing the cnr2 gene. The use of an IRES
allows for coupling of EGFP expression to cnr2 gene
transcription without loss or modification of the CB2
protein, which is a different approach from another
reporter mouse line in which the cnr2 gene is replaced by
EGFP, resulting in a CB2R knock out [29, 30]. The present
reporter mice are expected to provide crucial information
on the distribution, expression, and pathophysiological
roles of the CB2R, while maintaining its appropriate
cellular expression. By crossing these mice with 5xFAD
mice, we have expanded our knowledge regarding the
relevance of CB2R in amyloid pathology. The main
conclusions of this study are that, if CB2R are expressed
by neurons or glia in the CNS of healthy, un-manipulated
mice, they are expressed at very low turnover rates undetectable in the CNS but is induced as a consequence
of amyloid deposition Low magnifica-
tion (a to d) images showed a match in the pattern of distri-
bution among EGFP+ and Iba1+ cells in the subiculum of
6-month-old CB2
EGFP/f/f/5xFAD mice; in addition, our data
show that CB2-dependent EGFP expression takes place Page 7 of 11 López et al. Journal of Neuroinflammation (2018) 15:158 a
b
c
d
e
f
g
h
i
j
k
l
Fig. 4 Restricted EGFP expression in microglial cells located in peri-plaque areas of the CB2
EGFP/f/f/5xFAD mouse hippocampus. a–l Low-magnification
photographs of EGFP+ microglial cells (a, b) in close association to beta-amyloid neuritic plaques (c, d). Medium- (e–h) and high-magnification (i–l)
photographs of EGFP+ microglial cells. Detailed co-localization immunofluorescent analysis reveals a complete overlap between EGFP+ cells and Iba1+
cells, indicative of their macrophage/microglia nature, and a selective association to amyloid-enriched plaques (stained with methoxy-XO4). Scale bars,
100 μm (a–d), 25 μm (e–h), and 25 μm (i–l). SBC (subiculum) d b c a h e g i j Fig. 4 Restricted EGFP expression in microglial cells located in peri-plaque areas of the CB2
EGFP/f/f/5xFAD mouse hippocampus. a–l Low-magnification
photographs of EGFP+ microglial cells (a, b) in close association to beta-amyloid neuritic plaques (c, d). Medium- (e–h) and high-magnification (i–l)
photographs of EGFP+ microglial cells. Detailed co-localization immunofluorescent analysis reveals a complete overlap between EGFP+ cells and Iba1+
cells, indicative of their macrophage/microglia nature, and a selective association to amyloid-enriched plaques (stained with methoxy-XO4). Scale bars,
100 μm (a–d), 25 μm (e–h), and 25 μm (i–l). SBC (subiculum) Furthermore, we also studied whether other cell types in
the CNS, such as neurons or astrocytes expressed EGFP
in CB2
EGFP/f/f/5xFAD mice. To that end, co-localization
studies with a neuronal marker (NeuN; Fig. 5e–h) or with
a marker of astrocytes (GFAP; Fig. 5i–l) were carried out. Our data indicate that neither of these cell types express
EGFP; thus, cnr2-dependent EGFP expression is limited to
microglial cells in CB2
EGFP/f/f/5xFAD mice. (Fig. 6c: F1,23 = 0.03775, p = 0.8476). Finally, a significant
increase in interleukin-1 beta (IL1β) was observed as a
consequence of the amyloid pathology (Fig. 6d: F1,23 =
49.12, p < 0.0001) but CB2R genotype had no effect
(F1,33 = 0.2229, p = 0.6400). Changes associated with CB2R deletion include decreases
in plaque deposition and no changes in gliosis or IL1β
expression Second,
under chronic neuroinflammatory stimuli (such as those
derived from the deposition of the amyloid peptide in the
brain parenchyma), the expression of CB2R is induced in
microglial cells, and this induction takes place specifically
in activated microglial cells surrounding neuritic plaques. These data confirm and expand previously published lit-
erature and support the contention that the presence of
CB2R may be a diagnostic marker of neuroinflammation
in the context of AD [5, 6] and other pathological condi-
tions with a neuroinflammatory component [19, 20]. 5xFAD mice brain tissues showed that cnr2-dependent
EGFP expression is present in microglial (Iba1+) cells
located in the vicinity of amyloid-enriched neuritic pla-
ques (as revealed with methoxy-XO4 in vivo staining). There was a remarkable lack of detectable EGFP expres-
sion in non-plaque areas. These data strongly support the
hypothesis that CB2R gene expression is increased primar-
ily in microglia that surround neuritic plaques. The time-course of the appearance of neuritic plaques
in the subiculum of CB2
EGFP/f/f/5xFAD mice closely
matched that previously described [25, 36]. Importantly,
EGFP was detectable in plaque-associated microglia at
3 months of age, corresponding to the age when amyloid
deposits are first present in the brain parenchyma. These
data are indicative of the need to reach a threshold of
inflammatory stimuli in the cellular milieu before the
induction of CB2R expression takes place in the CNS. The present data suggest that threshold is reached coin-
cident with appearance of the amyloid deposits. This
suggests (i) that the induction of the expression of CB2
receptors takes place after a period of sustained inflam-
mation and (ii) that CB2 receptors may be postulated as
early markers of AD pathology. In this sense, it is im-
portant to note that disease-linked symptoms in 5xFAD
mice are not evident before 6 months of age; thus, the As previously suggested by us and by others [5, 19, 26],
the expression of CB2R is induced under neuroinflamma-
tory conditions in the human brain, being restricted to
microglial cells closely associated to foci of neuroinflam-
mation. Data obtained from samples of humans affected
by several neurodegenerative conditions with accompany-
ing neuroinflammation (i.e., AD, MS, HIV-encephalitis)
revealed a consistent pattern of CB2R induction in micro-
glia [6]. Our present data expand and confirm these obser-
vations. Changes associated with CB2R deletion include decreases
in plaque deposition and no changes in gliosis or IL1β
expression We analyzed the impact of cnr2 gene deletion on plaque
formation, soluble amyloid levels and neuroinflammation
(Fig. 6). We found a small but significant decrease in hippo-
campal neuritic plaque density (measured by staining with
methoxy-XO4; Fig. 6a: p < 0.0338) in the CB2
−/−mice that
was not paralleled by changes in soluble levels of Aβ1-42 in
the hippocampus (measured by ELISA; Fig. 6b: p < 0.6413). Hippocampal microgliosis was assessed by counting Iba1+
cells in tissue sections. As expected, the 5xFAD mice
exhibited a significant increase in Iba1+ cells (Fig. 6c:
F1,23 = 85.84, p < 0.0001); however, there was no difference
in this measure between the wild type and CB2
−/−mice Page 8 of 11 López et al. Journal of Neuroinflammation (2018) 15:158 a
b
c
d
e
f
g
h
i
j
k
l
Fig. 5 EGFP expression is limited to plaque-associated microglial cells but is absent in neurons and astrocytes in CB2
EGFP/f/f/5xFAD mice. a–c Z-stack
showing that EGFP expression (a) was evident in microglial cells (b) located in close association to amyloid-enriched neuritic plaques, as revealed by
methoxy-XO4 (c). However, microglial cells not linked with these pathological structures (arrow in b) showed reduced EGFP signal. d Orthogonal view
in Z axis of the cluster of microglial EGFP+ cells shown in (a–c). Note the intimate contact established by microglial processes into the neuritic plaque. e–l Neurons (NeuN+ cells; e–h) nor astrocytes (GFAP+ cells; i–l) showed no EGFP signal. Scale bars, 25 μm c g i Fig. 5 EGFP expression is limited to plaque-associated microglial cells but is absent in neurons and astrocytes in CB2
EGFP/f/f/5xFAD mice. a–c Z-stack
showing that EGFP expression (a) was evident in microglial cells (b) located in close association to amyloid-enriched neuritic plaques, as revealed by
methoxy-XO4 (c). However, microglial cells not linked with these pathological structures (arrow in b) showed reduced EGFP signal. d Orthogonal view
in Z axis of the cluster of microglial EGFP+ cells shown in (a–c). Note the intimate contact established by microglial processes into the neuritic plaque. e–l Neurons (NeuN+ cells; e–h) nor astrocytes (GFAP+ cells; i–l) showed no EGFP signal. Scale bars, 25 μm because no specific EGFP signaling could be detected in
any region of the mouse brain or spinal cord. Changes associated with CB2R deletion include decreases
in plaque deposition and no changes in gliosis or IL1β
expression We used a well-known mouse model of amyloid
pathology (5xFAD) to calibrate the impact that the ap-
pearance of neuritic plaques in the brain parenchyma has
on the expression of CB2R. The analysis of CB2
EGFP/f/f/ López et al. Journal of Neuroinflammation (2018) 15:158 Page 9 of 11 Fig. 6 Consequences of CB2 deletion in the context of AD. The genetic inactivation of CB2 in CB2
−/−/5xFAD mice led to a significant decrease in
plaque density in hippocampus (a), without any changes in soluble amyloid production (b), or microgliosis (c). No changes were observed in the
expression of IL1β as a consequence of gene deletion (d) in CB2
−/−/5xFAD mice as compared to those in CB2
EGFP/f/f/5xFAD mice. Data are expressed
as mean ± SEM. *p < 0.05. Student’s t-test (a, b) and two-way ANOVA followed by Tukey’s post hoc test (c, d). N = 5 for immunofluorescence labeling
measurements and N = 6 for experiments on soluble amyloid quantification and IL1β expression Fig. 6 Consequences of CB2 deletion in the context of AD. The genetic inactivation of CB2 in CB2
−/−/5xFAD mice led to a significant decrease in
plaque density in hippocampus (a), without any changes in soluble amyloid production (b), or microgliosis (c). No changes were observed in the
expression of IL1β as a consequence of gene deletion (d) in CB2
−/−/5xFAD mice as compared to those in CB2
EGFP/f/f/5xFAD mice. Data are expressed
as mean ± SEM. *p < 0.05. Student’s t-test (a, b) and two-way ANOVA followed by Tukey’s post hoc test (c, d). N = 5 for immunofluorescence labeling
measurements and N = 6 for experiments on soluble amyloid quantification and IL1β expression Surprisingly in light of earlier studies, CB2
−/−/5xFAD
mice exhibited a small but significant decrease in
neuritic plaque density in hippocampus compared to
wild type 5xFAD mice that was not accompanied by a
decrease in soluble Aβ1-42 levels, reduced microgliosis,
or changes in IL1β expression. We do not have a
conclusive explanation for this observation, though it is
suggestive of a role for CB2R in microglial functions related
to amyloid removal such as, for instance, phagocytosis [33]. In addition, conflicting results have been reported by
several groups regarding the consequences of CB2 deletion
on microgliosis, with both decreased and unchanged
microgliosis being reported [2, 16, 30]. Competing interests Competing interests In summary, the present findings confirm and expand
previous data showing the selective induction of CB2R in
neuritic plaque-associated microglia and postulate these
receptors as diagnostic and therapeutic targets in AD. The newly developed transgenic mouse model will be in-
strumental for elucidating their role(s) in neuroinflam-
matory conditions. The authors declare that they have no competing interests. Author details
1 1Laboratorio de Apoyo a la Investigación, Hospital Universitario Fundación
Alcorcón, C/ Budapest 1, 28922 Alcorcón, Madrid, Spain. 2Universidad Rey
Juan Carlos, Móstoles, Spain. 3Faculty of Experimental Sciences, Universidad
Francisco de Vitoria, 28223 Pozuelo de Alarcón, Madrid, Spain. 4Blood
Research Institute, BloodCenter of Wisconsin, Milwaukee, WI 53226, USA. 5Department of Pharmacology and Neuroscience Research Center, Medical
College of Wisconsin, Milwaukee, WI 53226, USA. 1Laboratorio de Apoyo a la Investigación, Hospital Universitario Fundación
Alcorcón, C/ Budapest 1, 28922 Alcorcón, Madrid, Spain. 2Universidad Rey
Juan Carlos, Móstoles, Spain. 3Faculty of Experimental Sciences, Universidad
Francisco de Vitoria, 28223 Pozuelo de Alarcón, Madrid, Spain. 4Blood
Research Institute, BloodCenter of Wisconsin, Milwaukee, WI 53226, USA. Changes associated with CB2R deletion include decreases
in plaque deposition and no changes in gliosis or IL1β
expression Further experiments
are needed to clarify the reasons for these discrepancies
regarding the impact of CB2R deletion on the formation of
amyloid-enriched plaques. induction of the cnr2 gene expression is previous to
phenotypic changes due to amyloid pathology, indicating
that CB2R may provide diagnostic and therapeutic tar-
gets for the treatment of early stage AD [28]. CB2R functions in microglia as well as in other types of
immune cells have been studied [8, 20]. In the context of
AD neuroinflammation, there is evidence that CB2R ago-
nists induce anti-inflammatory actions [1, 10, 21, 22, 26,
34], promote microglial migration and proliferation [37],
and enhance amyloid removal [33, 38]. Furthermore, there
is evidence that the activation of CB2R also decreases the
production of amyloid peptides in a mouse model of AD
[2], though conflicting results have been reported [29]. These effects make microglial CB2R interesting targets in
amyloid-induced neuroinflammation as microglia play
critical roles in the progression of the disease by modulat-
ing, for instance, amyloid removal, cytokine production or
exosome-mediated peptide degradation [14]. Several recent studies indicate that CB2R agonists
affect neuronal function [11, 32, 39]. In particular, CB2R Page 10 of 11 López et al. Journal of Neuroinflammation (2018) 15:158 Page 10 of 11 Page 10 of 11 agonists have been reported to affect hippocampal plas-
ticity, effects that are lost in CB2
−/−mice. These results
are difficult to reconcile in light of the lack of detectable
EGFP in the hippocampus of the present transgenic
mice and in another reporter model [29]. It is possible
that the turnover of the CB2R in neurons is slower than
the turnover of EGFP protein or the detectable amount
of EGFP expression may be lower than the CB2R
expression
levels
required
to
achieve
a
functional
response in vivo. Alternatively, it is possible that CB2R
expression is upregulated by the processes involved in
the preparation of tissues for study ex vivo. Availability of data and materials The datasets used and/or analyzed during the current study are available
from the corresponding author on a reasonable request. Received: 11 January 2018 Accepted: 23 April 2018 Additional file 2: Figure S1. Sequences of the primers employed in the
present studies. (DOCX 13 kb) Additional file 2: Figure S1. Sequences of the primers employed in the
present studies. (DOCX 13 kb) Funding This work was supported by the Ministerio de Economía y Competitividad
(SAF2013/42797-R and SAF2016/75959-R, JR), Ministerio de Educación of
Spain (PR2009-0169, JR), Comunidad de Madrid (S2010/BMD-2308, JR),
Universidad Francisco de Vitoria (2017, JR), and the Research Component of
the Advancing a Healthier Wisconsin Endowment at the Medical College of
Wisconsin (CJH), the National Institute on Drug Abuse (DA041212, CJH), and
the National Multiple Sclerosis Society (RG 4432-A-5, BND). Our data are discordant compared to those reported
in the Allen Mouse Brain Atlas [17]. Information pro-
vided by this platform reveals low but detectable levels
of CB2-mRNA in olfactory and cortical subplate areas,
as shown by single cell in situ hybridization (ISH). How-
ever, neither CB2
EGFP/f/f nor CB2
EGFP/f/f/5xFAD mice
showed specific EGFP signal in either of these regions. We do not have an explanation for this discrepancy
other than the mentioned mismatch between detection
limits, in this case referred to single cell-ISH (Allen
Atlas) and EGFP immunostaining (present data). Ethics approval
l Experimental protocols met the European and Spanish regulations for
protection of experimental animals (86/609/EEC and RD 1201/2005 and 53/
2013) or were approved by the Institutional Animal Care and Use Committee
of the Medical College of Wisconsin. Publisher’s Note
S
i
N
i Springer Nature remains neutral with regard to jurisdictional claims in
published maps and institutional affiliations. References Additional file 3: Table S1. Statistical analysis of the data provided in
the manuscript. (DOCX 17 kb) Additional file 3: Table S1. Statistical analysis of the data provided in
the manuscript. (DOCX 17 kb) Additional file 3: Table S1. Statistical analysis of the data provided in
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predoctoral fellowships from the Ministerio de Economía y Competitividad. N.A. and G.R-P. are recipients of predoctoral fellowships from Universidad
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C
d
d CJH and JR conceived and designed the experiments. AL, NA, MRP, MTG,
MABM, IBC, CV, MA, GRP, EGG, MB, RMT, BND, and JR performed the
experiments. RMT, BND, CJH, and JR analyzed the data. BND, CJH, and JR
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antibodies in spleen samples (with high CB2 expression levels in normal
conditions) harvested from CB2EGFP mice (lines 1, 2, and 3) and CB2KO
mice (lines 4, 5, and 6). GFP and beta-actin immunodetection was
employed as internal controls. (PPTX 6471 kb) 5Department of Pharmacology and Neuroscience Research Center, Medical
College of Wisconsin, Milwaukee, WI 53226, USA. Received: 11 January 2018 Accepted: 23 April 2018 Received: 11 January 2018 Accepted: 23 April 2018 López et al. Journal of Neuroinflammation (2018) 15:158 7. Borges da Silva H, Fonseca R, Pereira RM, Cassado Ados A, Álvarez JM,
D’Império Lima MR. Splenic macrophage subsets and their function during
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Morrow CD, Franklin CL, Gelger TL, Salzman NH, Fodor A, Dittel BN. Gut
microbial dysbiosis due to helicobacter drives an increase in marginal zone
B cells in the absence of IL-10 signaling in macrophages. J Immunol. 2015;
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Pletnikova O, Cho E, Sayyida N, Hiatt A, Troncoso J, Davies P, Dannals RF,
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amyloidosis: immunohistochemical analysis and suitability as a PET
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journal.pone.0129618. eCollection 2015 9. Carlisle SJ, Marciano-Cabral F, Staab A, Ludwick C, Cabral GA. Differential
expression of the CB2 cannabinoid receptor by rodent macrophages and
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Nicotera P, Alferink J, Zimmer A. Cannabinoid receptor 2 deficiency results
in reduced neuroinflammation in an Alzheimer’s disease mouse model. Neurobiol Ag. 2015b;36:710–9. 12. Galiègue S, Mary S, Marchand J, Dussossoy D, Carrière D, Carayon P,
Bouaboula M, Shire D, Le Fur G, Casellas P. López et al. Journal of Neuroinflammation (2018) 15:158 Expression of central and
peripheral cannabinoid receptors in human immune tissues and leukocyte
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astrocytes, and astrocytomas. Glia. 2010;58:1017–30. 32. Stempel AV, Stumpf A, Zhang HY, Özdögan T, Pannasch U, Theis AK, Otte
DM, Wojtalla A, Racz I, Ponomarenko A, Xi ZX, Zimmer A, Schimtz D. Cannabinoid type 2 receptors mediate a cell type-specific plasticity in the
hippocampus. Neuron. 2016;90:795–809. 13. Gong JP, Onaivi ES, Ishiguro H, Liu QR, Tagliaferro PA, Brusco A, Uhl GR. Cannabinoid CB2 receptors: immunohistochemical localization in rat brain. Brain Res. 2006;1071:10–23. 33. Tolón RM, Núñez E, Pazos MR, Benito C, Castillo AI, Martínez-Orgado JA,
Romero J. The activation of cannabinoid CB2 receptors stimulates in situ
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1283:148–54. 14. Heneka MT, Golenbock DT, Latz E. Innate immunity in Alzheimer’s disease. Nat Immunol. 2015;16:229–36. 15. Hey YY, O’Neill HC. Murine spleen contains a diversity of myeloid and dendritic
cells distinct in antigen presenting function. J Cell Mol Med. 2012;16:2611–9. 34. Van der Stelt M, Mazzola C, Esposito G, Matias I, Petrosino S, De Filippis D,
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Friedman R, Davies P. CB2 receptor deficiency increases amyloid pathology
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N, Makriyannis A, Piomelli D, Davison JS, Marnett LJ, Di Marzo V, Pittman QJ,
Patel KD, Sharkey KA. Identification and functional characterization of
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Villaescusa B, Ruiz-Valdepeñas L, Fernández-Sánchez FJ, Cravatt BF, Hillard
CJ, Romero J. Endocannabinoid regulation of amyloid-induced
neuroinflammation. Neurobiol Ag. 2015;36:3008–19. 19. Maresz K, Carrier EJ, Ponomarev ED, Hillard CJ, Dittel BN. López et al. Journal of Neuroinflammation (2018) 15:158 Modulation of the
cannabinoid CB2 receptor in microglial cells in response to inflammatory
stimuli. J Neurochem. 2005;95:437–45. 37. Walter L, Franklin A, Witting A, Wade C, Xie Y, Kunos G, Mackie K, Stella N. Nonpsychotropic cannabinoid receptors regulate microglial cell migration. J
Neurosci. 2003;23:1398–405. 20. Maresz K, Pryce G, Ponomarev ED, Marsicano G, Croxford JL, Shriver LP,
Ledent C, Cheng X, Carrier EJ, Mann MK, Giovannoni G, Pertwee RG,
Yamamura T, Buckley NE, Hillard CJ, Lutz B, Baker D, Dittel BN. Direct
supression of CNS autoimmune inflammation via the cannabinoid receptor
CB1 on neurons and CB2 on autoreactive T cells. Nat Med. 2007;13:492–7. 38. Wu J, Bie B, Yang H, Xu JJ, Brown DL, Naguib M. Activation of the CB2
receptor system reverses amyloid-induced memory deficiency. Neurobiol
Ag. 2013;34:791–804. 39. Zhang HY, Gao M, Liu QR, Bi GH, Li X, Gardner EL, Wu J, Xi ZX. Cannabinoid
CB2 receptors modulate midbrain dopamine neuronal activity and
dopamine-related behavior in mice. Proc Natl Acad Sci U S A. 2014;111:
E5007–15. 21. Martín-Moreno AM, Reigada D, Ramírez G, Mechoulam R, Innamorato N,
Cuadrado A, de Ceballos ML. Cannabidiol and other cannabinoids reduce
microglial activation in vitro and in vivo: relevance to Alzheimer’s disease. Mol Pharmacol. 2011;79:964–73. 40. Zimmerman AM, Titishov N, Mechoulam R, Zimmerman S. Effect of
stereospecific cannabinoids on the immune system. Adv Exp Med Biol. 1991;288:71–80. 22. Martín-Moreno AM, Brera B, Spuch C, Carro E, García-García L, Delgado M,
Pozo MA, Innamorato NG, Cuadrado A, de Ceballos ML. Prolonged oral
cannabinoid administration prevents neuroinflammation, lowers beta-
amyloid levels and improves cognitive performance in Tg APP2576 mice. J
Neuroinflamm. 2012;9:8. 23. Munro S, Thomas KL, Abu-Shaar M. Molecular characterization of a
peripheral receptor for cannabinoids. Nature. 1993;365:61–5. 24. Nuñez E, Benito C, Pazos MR, Barbachano A, Fajardo O, González S, Tolón
RM, Romero J. Cannabinoid CB2 receptors are expressed by perivascular
microglial cells in the human brain: an immunohistochemical study. Synapse. 2004;53:208–13. 25. Oakley H, Cole SL, Logan S, Maus E, Shao P, Craft J, Guillozet-Bongaarts A,
Ohno M, Disterhoft J, Van Eldik L, Berry R, Vassar R. Intraneuronal beta-
amyloid aggregates, neurodegeneration, and neuron loss in transgenic
mice with five familial Alzheimer’s disease mutations: potential factors in
amyloid plaque formation. J Neurosci. 2006;26:10129–40. 26. Ramírez BG, Blázquez C, Gómez del Pulgar T, Guzmán M, de Ceballos ML. Prevention of Alzheimer's disease pathology by cannabinoids:
neuroprotection mediated by blockade of microglial activation. López et al. Journal of Neuroinflammation (2018) 15:158 Abbreviations 5xFAD: Mice co-expressing five familial Alzheimer’s disease mutations;
AD: Alzheimer’s disease; BSA: Bovine serum albumin; CB2R: Cannabinoid
receptor, subtype 2; CD4: Cluster of differentiation 4; CNS: Central nervous
system; EGFP: Enhanced green fluorescent protein; ELISA: Enzyme-linked
immunosorbent assay; GFAP: Glial fibrillary acidic protein; i.p.: Intraperitoneal;
Iba1: Ionized calcium-binding adaptor molecule 1; IL1β: Interleukin-1 beta;
IRES: Internal Ribosomal Entry Site; ISH: In situ hybridization; NeuN: Neuron-
specific nuclear protein; PBS: Phosphate buffered saline; PVDF: Polyvinylidene
fluoride; qRT-PCR: Quantitative real-time polymerase chain reaction; SDS-
PAGE: Sodium dodecyl sulfate polyacrylamide gel electrophoresis; THC: Δ9-
tetrahydrocannabinol; TTBS: Tris-Tween buffer saline; UTR: Untranslated
region 3. Atwood BK, Mackie K. CB2: a cannabinoid receptor with an identity crisis. Br
J Pharmacol. 2010;160:467–79. 4. Bacskai BJ, Klunk WE, Mathis CA, Hyman BT. Imaging amyloid-β deposits in
vivo. J Cereb Blood Flow Metab. 2002;22:1035-1041. 5. Benito C, Nunez E, Tolon RM, Carrier EJ, Rabano A, Hillard CJ, Romero J. Cannabinoid CB2 receptors and fatty acid amide hydrolase are selectively
overexpressed in neuritic plaque-associated glia in Alzheimer’s disease
brains. J Neurosci. 2003;23:11136–41. 6. Benito C, Tolon RM, Pazos MR, Nuñez E, Castillo AI, Romero J. Cannabinoid CB2
receptors in human brain inflammation. Br J Pharmacol. 2008;153:277–85. Page 11 of 11 López et al. Journal of Neuroinflammation (2018) 15:158 J Neurosci. 2005;23:1904–13.
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Potential of Egg shell powder as replacement of Lime in soil stabilization
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I.
INTRODUCTION Improvement of soil properties is necessary in the modern
scenario as soils with the required properties are not
readily available for construction activities. There have
been a lot of issues reported when structures were
constructed on weak and soft soils like problems of shear
failure, excessive settlement, differential settlement etc. The alternatives left with us are making the soil at site
suitable for the expected load by improving its properties
or adopting a deep foundation. Adoption of deep
foundation is not at all an economically viable solution. Hence improvement of soil properties and in-situ
treatment of soil are gaining importance these days. Soil
stabilization is an economically feasible solution to one of
the major construction problems. Researchers all over the
world have studied various materials which can be used in
conjunction with soil to improve soil properties. (Basha,
2005) studied the stabilization of soil with Rice husk ash
and cement. (Brooks, 2009) conducted stabilization
studies on stabilization using fly ash and rice husk ash. (Kamon, 1991 ) conducted researches on stabilization of
soil using lime and industrial wastes. (Paul, 2014)
conducted studies on soil stabilization using egg shell
powder and quarry dust. (Anoop S P, 2017) conducted
studies on improving soil using lime and elephant dung Anoop S P1, Hizana Beegom1, Jwoleena P Johnson1, Midhula J1, Tharis Muhammed T
N1, Prasanth S2 Keywords—
Lime,
Soil stabilization,
Egg
shell,
improvement, Geotechnical, replacement Keywords—
Lime,
Soil stabilization,
Egg
shell,
improvement, Geotechnical, replacement [Vol-4, Issue-8, Aug- 2017]
ISSN: 2349-6495(P) | 2456-1908(O) [Vol-4, Issue-8, Aug- 2017]
ISSN: 2349-6495(P) | 2456-1908(O) International Journal of Advanced Engineering Research and Science (IJAERS)
https://dx.doi.org/10.22161/ijaers.4.8.15 Anoop S P1, Hizana Beegom1, Jwoleena P Johnson1, Midhula J1, Tharis Muhammed T
N1, Prasanth S2 1Under graduate students in Civil Engineering, UKF College of Engineering & Technology, Kollam, Kerala, India
2Assistant Professor in Civil Engineering, UKF College of Engineering, Kollam, Kerala, India 1Under graduate students in Civil Engineering, UKF College of Engineering & Technology, Kollam, Kerala, India
2Assistant Professor in Civil Engineering, UKF College of Engineering, Kollam, Kerala, India Abstract— This paper presents a study on the properties
of soil stabilized by using lime and egg shell powder. Tests were conducted to assess the potential of egg shell
powder in replacing lime, which can make the overall
stabilization process economical and eco-friendly. Results
obtained show that all the treated mixes gave much better
strength than untreated soil. Egg shell powder was
introduced in quantities of 0.5%, 1%, 1.5% and 2% of the
weight of soil. Tests were conducted replacing up to 50%
of the lime used for stabilization. It was observed that
25% replacement of lime by egg shell powder gave better
strength properties and can be adopted for practical
purposes. strips. Of all the various studies conducted around the
world, the most commonly used and effective stabilizer
was found to be lime. Lime is a not an industrial waste or
a by-product, the manufacture of lime requires heating in
the order of 750° C, which contribute to the fact that
stabilization of large areas of soil with lime alone will
increase the cost required for stabilization. In this study
an attempt is made to replace lime with egg shell powder
and to find out the extent up to which lime can be
replaced by egg shell powder without compromising on
the strength. Egg shell powder is an ideal material to replace lime in
the stabilization process due to its similar chemical
composition. The chief ingredient in egg shell powder is
calcium carbonate as in the case of lime. Egg shells are
disposed from hotels, restaurants etc in huge quantities
and they are currently facing disposal problems. Use of
egg shell powder in soil stabilization reduces the disposal
problems
associated
with
egg
shell
generations. Moreover, powdering of egg shell can be done easily. Egg
shell powder generation does not involve generation of
CO2 as in the case of lime where heating is done up to
750°C. Hence use of egg shell powder in soil stabilization
will make the overall stabilization process economical,
sustainable and eco-friendly. Potential of Egg shell powder as replacement of
Lime in soil stabilization Anoop S P1, Hizana Beegom1, Jwoleena P Johnson1, Midhula J1, Tharis Muhammed T
N1, Prasanth S2 [Vol-4, Issue-8, Aug- 2017]
ISSN: 2349-6495(P) | 2456-1908(O) Table.1: Mixes used in this study
Mix designation
Details
C
Untreated soil
C + 4L
Clay + 4% weight of soil replaced by
lime
C+3.5L+0.5ESP
Clay + 3.5% lime replacement and
0.5% weight replaced by egg shell
powder
C+3L+1 ESP
Clay + 3% lime replacement and 1%
weight replaced by egg shell powder
C+2.5L+1.5ESP
Clay + 2.5% lime replacement and
1.5% weight replaced by egg shell
powder
C+2L+2 ESP
Clay + 2% lime replacement and 2%
weight replaced by egg shell powder Table.1: Mixes used in this study
Mix designation
Details
C
Untreated soil
C + 4L
Clay + 4% weight of soil replaced by
lime
C+3.5L+0.5ESP
Clay + 3.5% lime replacement and
0.5% weight replaced by egg shell
powder
C+3L+1 ESP
Clay + 3% lime replacement and 1%
weight replaced by egg shell powder
C+2.5L+1.5ESP
Clay + 2.5% lime replacement and
1.5% weight replaced by egg shell
powder
C+2L+2 ESP
Clay + 2% lime replacement and 2%
weight replaced by egg shell powder Fig.2: Variation of atterberg limits with Egg shell powder
0
5
10
15
20
25
30
35
40
0
1
2
3
Atterberg limits (%)
Egg shell powder (%)
Liquid limit
Plastic limit Fig.2: Variation of atterberg limits with Egg shell powder Compaction tests showed an increase in the dry density
upto 25% replacement of lime by egg shell powder. Above 25% replacement of lime by egg shell powder, dry
density started to decrease. Egg shell powder is not that
compatible a material as lime and hence when added in
large quantities to replace lime, soil properties could not
be improved. The variations in dry density on the addition
of egg shell powder to lime modified mix is shown in Fig
3. Compaction tests showed an increase in the dry density
upto 25% replacement of lime by egg shell powder. Above 25% replacement of lime by egg shell powder, dry
density started to decrease. Egg shell powder is not that
compatible a material as lime and hence when added in
large quantities to replace lime, soil properties could not
be improved. The variations in dry density on the addition
of egg shell powder to lime modified mix is shown in Fig
3. [Vol-4, Issue-8, Aug- 2017]
ISSN: 2349-6495(P) | 2456-1908(O) International Journal of Advanced Engineering Research and Scienc
https://dx.doi.org/10.22161/ijaers.4.8.15
Fig.1: Egg shell powder
T
re
co
0
st
li
so
in International Journal of Advanced Engineering Research and Science (IJAERS)
https://dx.doi.org/10.22161/ijaers.4.8.15 Fig.1: Egg shell powder IV. RESULTS AND DISCUSSIONS
The soil mixes mentioned above were tested and the
results obtained are summarized in table 2. Unconfined
compressive strength of in situ soil was found to be only
0.45 kg/cm2 which indicate the necessity for soil
stabilization. When the soil was mixed with optimum
lime content, there was a drastic change in the strength of
soil sample. The strength almost doubled upon
introduction of lime. Table.2: Results of experimental tests on untreated and
modified soil mixes Table.2: Results of experimental tests on untreated and
modified soil mixes
Sample
Liqu
id
limit
(%)
Plasti
c
limit
(%)
OM
C
(%)
γd
(g/cc
)
Mean
UCC
(kg/c
m2)
Untreated soil
24
11
18
1.76
0.45
C+ 4L
30
12.41
20
1.8
0.88
C+3.5L+0.5ESP
33
12.71
20
1.83
0.85
C+3L+1ESP
34
13.08
22
1.87
0.92
C+2.5L+1.5ESP
35
13.1
22
1.77
0.81
C+2L+2ESP
35
13.01
22
1.77
0.68 Fig.1: Egg shell powder Fig.1: Egg shell powder The materials mentioned above were mixed in various
proportions for studying its effect on the soil stabilization
process. First of all, the untreated soil was tested and its
strength was obtained to understand whether there is need
for stabilization. To this untreated soil mix, optimum lime
content calculated as per ASTM D 6276 standards was
added. The optimum lime content was found to be 4% of
the weight of soil. Then egg shell powder was introduced
as a replacement to lime in the stabilization process. The
proportions of lime and egg shell powder were varied
keeping the total replacement amount a constant. The
various mixes used in this study are mentioned in table 1. There were not much variations in the atterberg limits of
the soil sample on addition of egg shell powder. Egg shell
powder was not found to alter the flow and consistency
behavior of the soil sample. The variation of atterberg
limits with the addition of egg shell powder is shown
graphically in Fig 2. II.
MATERIALS AND MIXES The materials used for this study consist of Soil, Lime
and Egg shell powder. Soft clayey soil from Chathanoor
area of Kollam district in Kerala was used for the study. Lime was purchased from the local markets and Egg
shells were collected from hotels and restaurants in
Parippally. The egg shells, thus collected were crushed
and made into powder form. This was then sieved through
75 micron IS sieve so as to bring it to the size range of
fine grained soil. The egg shell powder used for the study
is shown in Fig 1 Page | 86 Page | 86 www.ijaers.com REFERENCES [1] Amu, O. O., A. B. Fajobi, and B. O. Oke. "Effect of
eggshell powder on the stabilizing potential of lime
on an expansive clay soil." Journal of Applied
Sciences 5.8 (2005): 1474-1478. [1] Amu, O. O., A. B. Fajobi, and B. O. Oke. "Effect of
eggshell powder on the stabilizing potential of lime
on an expansive clay soil." Journal of Applied
Sciences 5.8 (2005): 1474-1478. [2] Bowles, Joseph E. "Physical and geotechnical
properties of soils." (1979). [2] Bowles, Joseph E. "Physical and geotechnical
properties of soils." (1979). [3] Petry, Thomas M., and Dallas N. Little. "Review of
stabilization of clays and expansive soils in
pavements and lightly loaded structures—history,
practice, and future." Journal of Materials in Civil
Engineering 14.6 (2002): 447-460. [3] Petry, Thomas M., and Dallas N. Little. "Review of
stabilization of clays and expansive soils in
pavements and lightly loaded structures—history,
practice, and future." Journal of Materials in Civil
Engineering 14.6 (2002): 447-460. Fig.3: Variation of dry density of soil on adding egg shell
powder All the soil mixes were tested for their unconfined
compressive strength. The results show that there is an
increase in unconfined compressive strength upto 25%
replacement of lime by egg shell powder. Above this
level of replacement, the strength was found to decline. Addition of small dosages of egg shell powder improved
the strength of lime modified mix. As the replacement
percentage increased, the strength started to fall as shown
in figure 4. This may be due to the fact that egg shell
powder is not an efficient material as lime and increasing
egg shell powder will reduce the total lime content. Addition of small dosages of egg shell powder increased
the rate of pozzolanic reaction occurring and hence gave a
higher strength. All the modified mixes gave much better
strength than untreated soil as shown in Fig 4. Fig.4: Variation of UCC with Egg shell powder
0
0.2
0.4
0.6
0.8
1
0
1
2
3
unconfined compressive
strength
Egg shell powder (%)
Modified
soil
Untreated
soil Fig.4: Variation of UCC with Egg shell powder III.
TESTS CONDUCTED Experimental tests were conducted on untreated soil as
well on lime and egg shell powder modified mixes in
order to study the effect of addition of egg shell powder. The various tests conducted were atterberg limits,
compaction and unconfined compression test. All these
tests were carried out as per IS 2720 standards. Experimental tests were conducted on untreated soil as
well on lime and egg shell powder modified mixes in
order to study the effect of addition of egg shell powder. The various tests conducted were atterberg limits,
compaction and unconfined compression test. All these
tests were carried out as per IS 2720 standards. 3. Page | 87 Page | 87 www.ijaers.com International Journal of Advanced Engineering Research and Science (IJAERS) [Vol-4, Issue-8, Aug- 2017]
https://dx.doi.org/10.22161/ijaers.4.8.15 ISSN: 2349-6495(P) | 2456-1908(O)
Fig.3: Variation of dry density of soil on adding egg shell
powder
REFERENCES
[1] Amu, O. O., A. B. Fajobi, and B. O. Oke. "Effect of
eggshell powder on the stabilizing potential of lime
on an expansive clay soil." Journal of Applied
Sciences 5.8 (2005): 1474-1478. [2] Bowles, Joseph E. "Physical and geotechnical
properties of soils." (1979). [3] Petry, Thomas M., and Dallas N. Little. "Review of
stabilization of clays and expansive soils in
pavements and lightly loaded structures—history,
practice, and future." Journal of Materials in Civil
Engineering 14.6 (2002): 447-460. 1
1.2
1.4
1.6
1.8
2
0
1
2
3
Max Dry Density (g/cc)
Egg shell powder (%) International Journal of Advanced Engineering Research and Science (IJAERS)
https://dx.doi.org/10.22161/ijaers.4.8.15
Fig.3: Variation of dry density of soil on adding egg shell
powder
[1] Amu, O. eggshell
on an e
Sciences
[2] Bowles,
propertie
[3] Petry, Th
stabilizat
pavemen
practice,
Engineer
1
1.2
1.4
1.6
1.8
2
0
1
2
3
Max Dry Density (g/cc)
Egg shell powder (%) International Journal of Advanced Engineering Research and Science (IJAERS
https://dx.doi.org/10.22161/ijaers.4.8.15
Fig.3: Variation of dry density of soil on adding egg shell
powder
[1] Amu,
eggsh
on a
Scien
[2] Bowl
prope
[3] Petry
stabil
pavem
practi
Engin
1
1.2
1.4
1.6
1.8
2
0
1
2
3
Max Dry Density (g/cc)
Egg shell powder (%) International Journal of Advanced Engineering Research and Science (IJAERS)
https://dx.doi.org/10.22161/ijaers.4.8.15 V.
CONCLUSIONS Egg shell powder was found to be a very good alternative
in replacing the costly lime used for soil stabilization. The
use of egg shell powder in soil stabilization will reduce
the disposal problems of egg shell as well as make the
stabilization process economically and sustainable. From
the study, it was seen that egg shell powder can replace
upto 25% of the lime used for stabilization process. This
replacement also increased the strength of treated soil. Thus it can be concluded that egg shell powder is an ideal
material to replace lime in the soil stabilization process
owing to its similar chemical compositions and properties Page | 88 Page | 88 www.ijaers.com
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English
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Inferring soil salinity in a drip irrigation system from multi-configuration EMI measurements using Adaptive Markov Chain Monte Carlo
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cc-by
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Hydrol. Earth Syst. Sci., 21, 5375–5383, 2017
https://doi.org/10.5194/hess-21-5375-2017
© Author(s) 2017. This work is distributed under
the Creative Commons Attribution 3.0 License. Hydrol. Earth Syst. Sci., 21, 5375–5383, 2017
https://doi.org/10.5194/hess-21-5375-2017
© Author(s) 2017. This work is distributed under
the Creative Commons Attribution 3.0 License. 4Brandenburg University of Technology, Research Center Landscape Development and Mining Landscapes,
03046 Cottbus Germany 5Agrosphere (IBG-3), Institute of Bio- and Geosciences, Forschungszentrum Jülich, GmbH, 52425 Jülich, German
anow at: Department of Civil Engineering, International Islamic University, Islamabad 44000, Pakistan 5Agrosphere (IBG-3), Institute of Bio- and Geosciences, Forschungszentrum Jülich, GmbH, 52425 Jülich, Germany
anow at: Department of Civil Engineering, International Islamic University, Islamabad 44000, Pakistan Correspondence to: Khan Zaib Jadoon (khanzaib.jadoon@iiu.edu.pk) Received: 12 June 2016 – Discussion started: 8 August 2016
Revised: 16 July 2017 – Accepted: 23 July 2017 – Published: 26 October 2017 Abstract. A substantial interpretation of electromagnetic in-
duction (EMI) measurements requires quantifying optimal
model parameters and uncertainty of a nonlinear inverse
problem. For this purpose, an adaptive Bayesian Markov
chain Monte Carlo (MCMC) algorithm is used to assess
multi-orientation and multi-offset EMI measurements in an
agriculture field with non-saline and saline soil. In MCMC
the posterior distribution is computed using Bayes’ rule. The
electromagnetic forward model based on the full solution of
Maxwell’s equations was used to simulate the apparent elec-
trical conductivity measured with the configurations of EMI
instrument, the CMD Mini-Explorer. Uncertainty in the pa-
rameters for the three-layered earth model are investigated
by using synthetic data. Our results show that in the scenario
of non-saline soil, the parameters of layer thickness as com-
pared to layers electrical conductivity are not very informa-
tive and are therefore difficult to resolve. Application of the
proposed MCMC-based inversion to field measurements in a
drip irrigation system demonstrates that the parameters of the
model can be well estimated for the saline soil as compared
to the non-saline soil, and provides useful insight about pa-
rameter uncertainty for the assessment of the model outputs. 1
Introduction Electromagnetic induction (EMI) with low frequency is a
powerful tool to map the hydrological processes in the va-
dose zone due to the sensitivity to water content and soil
salinity (Robinson et al., 2009). The use of EMI is largely
motivated by the need for robust and compact system de-
sign, ease of use, rapid acquisition, and capability to provide
a large set of georeferenced measurements, which can be as-
sociated with the spatial variability of subsurface at the field
scale (Corwin, 2008). The EMI instrument is used to measure
soil apparent electrical conductivity (ECa), providing distri-
bution of averaged electrical conductivity over a particular
depth range. The depth of investigation of ECa depends on
the coil spacing, the coil orientation, and the frequency of
the energizing field. Mester et al. (2011) reported that in the
low induction number condition, the coil orientation, offset,
and frequency have major, moderate and minor effects on the
penetration depth, respectively. Soil moisture, salinity, and
texture cannot be directly observed with EMI measurements. However, in non-saline soils, cation exchange capacity, and
soil moisture and texture are factors responsible for ECa vari-
ations (Rhoades et al., 1976; Sudduth et al., 2003), whereas Khan Zaib Jadoon1,a, Muhammad Umer Altaf2,3, Matthew Francis McCabe2, Ibrahim Hoteit3, Nisar Muhammad1,
Davood Moghadas4, and Lutz Weihermüller5 Khan Zaib Jadoon1,a, Muhammad Umer Altaf2,3, Matthew Francis McCabe2, Ibrahim Hoteit3, Nisar Muhammad1,
Davood Moghadas4, and Lutz Weihermüller5 Khan Zaib Jadoon1,a, Muhammad Umer Altaf2,3, Matthew Francis McCabe2, Ibrahim Hote
Davood Moghadas4, and Lutz Weihermüller5 1Department of the Civil Engineering, COMSATS Institute of Information Technology, Abbottabad 22060, Pakistan
2Water Desalination and Reuse Center, King Abdullah University of Science and Technology (KAUST),
Thuwal, 23955-6900, Saudi Arabia 3Earth Science and Engineering, King Abdullah University of Science and Technology (KAUST),
Thuwal, 23955-6900, Saudi Arabia 4Brandenburg University of Technology, Research Center Landscape Development and Mining Landscapes,
03046 Cottbus, Germany
5 4Brandenburg University of Technology, Research Center Landscape Development and Mining Landscapes,
03046 Cottbus, Germany
5 K. Z. Jadoon et al.: Diffusive extinction depth and soil moisture gradients 5376 in saline soil, the ECa measurement is generally dominated
by the soil salinity, and the reason is the accumulation of
more salt concentration in the topsoil due to the loss of water
through evaporation (Corwin and Lesch, 2005a, b; Ershadi
et al., 2014). The success of EMI measurements to assess soil
salinity depends on the establishment of site-specific petro-
physical relationships to relate ECa with the soil salinity esti-
mated by electrical conductivity of the saturated paste extract
(ECe) (Cook and Walker, 1992). three-layer model via a Bayesian Markov chain Monte Carlo
(MCMC) approach. They showed that combining multiple
configuration EMI measurements significantly reduced total
error, was best able to capture the shallow interface, and re-
duced regions of uncertainty at depth. Conventional estimation of a single best-fit model with lin-
ear uncertainty does not usually trace ambiguity in the mod-
els, and may lead to a misguiding or imprecise interpreta-
tion. In this work, an adaptive Bayesian MCMC algorithm
was used for inverting multi-orientation and multi-offset EMI
measurements, in which the parameter posterior distribution
represents the complete solution of the Bayesian inversion
problem, including prediction of optimal parameter values
and the associated uncertainty. Synthetic scenarios are first
analyzed for a three-layered earth model to evaluate the un-
certainty in model parameters for saline and non-saline soil
using the characteristics of the CMD Mini-Explorer EMI sys-
tem. Field measurements of the CMD Mini-Explorer are then
used to quantify parameter uncertainties in the three-layered
earth model and soil salinity distributions in an agricultural
field irrigated with drip irrigation system. Several inversion algorithms have been developed for EMI
measurements to improve the resolution of subsurface fea-
tures and the assessment of soil properties (Hendrickx et al.,
2002; Santos et al., 2010; Triantafilis and Monteiro Santos,
2013). The majority of these inversion algorithms solve a 1-
D earth model for electromagnetic wave propagation. The
model of McNeill (1980) has been extensively used for low
induction number and Maxwell’s equations have been uti-
lized for high-conductive soil (ECa > 100 mS m−1) where
the low induction number assumption is not valid. For ex-
ample, Li et al. (2013) used Geonics EM38 to measure ECa
in a rice paddy and inverted these using the McNeill (1980)
forward model to estimate the variation of soil salinity in a
field condition. 2
Materials and methods EMI systems are sensitive to the field-specific calibration
procedure, which limits the accuracy of ECa measurements. In inversion modeling, however, precise measurement of ECa
is a prerequisite to characterize subsurface soil properties. For decades, the development and use of quantitative EMI
inversions were mainly hampered by the lack of efficient cal-
ibration methods; von Hebel et al. (2014) used electrical re-
sistivity tomography to calibrate EMI measurements before
inversion to estimate three-dimensional images of subsurface
electrical conductivity. Recently, Jadoon et al. (2015) cali-
brated EMI measurements via vertical electrical conductivity
profile measured by capacitance sensors in different pits and
later performed inversion for calibrated multi-configuration
EMI measurements to estimate the effect of soil salinity dis-
tribution in an acacia tree farm. K. Z. Jadoon et al.: Diffusive extinction depth and soil moisture gradients They reported that the yield reduced by 33 %
in an irregularly shaped patch of strong saline topsoil. 2.1
Electromagnetic forward model Forward EMI response for a given layered earth model is
usually calculated by the McNeill (1980) model, which is
generated using the cumulative electrical conductivity distri-
bution over a certain depth range, and is valid under condi-
tion of low induction number. The alternative method used to
calculate the forward EMI response is to solve the Maxwell
equation for the magnetic field measured over a horizon-
tal layered medium (Keller and Frischknecht, 1966; Ander-
son, 1979). Preliminary analysis indicated that the electro-
magnetic forward model, which is based on high induction
number assumption, returned more reliable apparent electri-
cal conductivity values than the standard sensitivity curves
of McNeill (1980). Furthermore, increased computational
power made it possible to characterize the subsurface by
utilizing forward models based on the Maxwell equation
(Santos et al., 2010). The effective depth of exploration is
independent of ECa in a low induction number condition,
whereas in high induction number condition an inverse re-
lationship was found between the depth of exploration and
ECa (Callegary et al., 2007). For a combination of a vertical
and horizontal dipole source–receiver with an offset ρ over
a multilayered earth, the electromagnetic forward model can
be written as EMI inversion algorithms are generally robust and provide
useful estimates of subsurface properties in terms of opti-
mal model parameters. Analysis of uncertainty in model pa-
rameters is however often left unaddressed. Parameter un-
certainty can be associated with measurement errors (acqui-
sition geometry, instrumental calibration and human error),
modeling errors (assumptions in the electromagnetic forward
model and petrophysical relationships), prior assumptions
or constraints, parametrization, and estimation methods. Pa-
rameter uncertainty analysis can serve two main purposes:
to identify the model parameters of dominant importance,
and to provide confidence in the estimated model parame-
ters (Scharnagl et al., 2011). For instance, Minsley (2011)
used synthetic data considering the characteristics of the
shallow ground-based EMI system, geophex GEM-2 (Huang
and Won, 2003), to quantify the parameter uncertainty of a ECHCP
a
(x,ρ) = −4ρ
ωµ0
Im
∞
Z
0
R0J0(ρλ)λ2dλ
,
(1) (1) www.hydrol-earth-syst-sci.net/21/5375/2017/ www.hydrol-earth-syst-sci.net/21/5375/2017/ Hydrol. Earth Syst. Sci., 21, 5375–5383, 2017 K. Z. 2.1
Electromagnetic forward model (7) ϵ = y −M(α). (7) Assuming the components of the observational noise to be
independent and Gaussian of mean zero and variance σ 2, the
likelihood function can then be decomposed as Assuming the components of the observational noise to be
independent and Gaussian of mean zero and variance σ 2, the
likelihood function can then be decomposed as 2.2
Bayesian inference Bayesian inference is used to express the uncertainties in the
system parameters based on a suitable likelihood function
and a prior. Given a set of unknown parameters, the so-called
posterior distribution of the model parameters, which is the
distribution of the parameters conditioned on available ob-
servations, is calculated as the product of the prior distribu-
tion and the likelihood function (Arulampalam et al., 2002;
Sivia, 2006). Bayesian inversion has gained a lot of interest
in recent years and has been applied in different applications,
including climate, ocean and geophysical modeling (Malin-
verno, 2002; Zedler et al., 2012; Olson et al., 2012; Altaf
et al., 2014; Sraj et al., 2014). p({yi}n
i=1|α) =
n
Y
i=1
1
√
2πσ 2 exp
−(yi −Mi(α))2
2σ 2
. (8) (8) Here we consider σ 2 as an additional unknown (hyper) pa-
rameter and try to estimate its distribution as part of the in-
ference process. The (joint) posterior distribution is then ex-
pressed as Here we consider σ 2 as an additional unknown (hyper) pa-
rameter and try to estimate its distribution as part of the in-
ference process. The (joint) posterior distribution is then ex-
pressed as p(α,σ 2|{yi}n
i=1) ∝
n
Y
i=1
1
√
2πσ 2
exp
−(yi −Mi(α))2
2σ 2
p(α)p(σ 2). (9) Suppose a set of observations ({yi}n
i=1) is available and
assume a certain model to predict the data. Let α be the set of
unknown parameters in the model; then according to Bayes’
rule, (9) The choice of the prior is a key step in the inference pro-
cess. Here, an informative uniform prior for all five (three
conductivities and two thickness) parameters is considered,
with αk in the range [αmax
k
αmin
k
]; i.e., p(α|{yi}n
i=1) ∝p({yi}n
i=1|α) p(α),
(5) (5) where p(α) is the prior distribution of α that represents the a
priori knowledge about α (i.e., before considering the data). where p(α) is the prior distribution of α that represents the a
priori knowledge about α (i.e., before considering the data). The p({yi}n
i=1|α) denotes the likelihood function: the proba-
bility of predicting the data given α. The p(α|{yi}n
i=1) is the
posterior probability: the probability of recovering α given
the data ({yi}n
i=1). where p(α) is the prior distribution of α that represents the a
priori knowledge about α (i.e., before considering the data). 2.1
Electromagnetic forward model Jadoon et al.: Diffusive extinction depth and soil moisture gradients 5377 10
1
10
2
1.5
1.0
0.5
0
Depth (m)
Conductivity (
)
10
1
10
2
10
3
10
4
1.5
1.0
0.5
0
Depth (m)
Conductivity (
)
15 mS m– 1
25
40
1800
1000
80
mS m– 1
mS m– 1
mS m– 1
mS m– 1
mS m– 1
mS m– 1
mS m–1
(a)
(b)
Figure 1. Three-layer synthetic earth model of electrical conductiv-
ity for (a) non-saline soil and (b) saline soil in the top horizon. ECVCP
a
(x,ρ) = −4
ωµ0
Im
∞
Z
0
R0J1(ρλ)λdλ
. (2) (2) In these expressions, ECVCP
a
and ECHCP
a
represent appar-
ent electrical conductivity – measured in vertical and hori-
zontal coplanar mode, µ0 represents permeability of the free
space, λ indicates the radial wave number, J0 and J1 cor-
respond to the zero-order and first-order Bessel functions,
x is the depth of layer, ω is the angular frequency, and Im
the quadrature component. The reflection factor R0 is ob-
tained recursively, starting from the lowest layer N +1, with
RN+1 = 0: Rn(hn,σn) =
0n−0n+1
0n+0n+1 + Rn+1 exp(−20n+1hn+1)
1 + 0n−0n+1
0n+0n+1 Rn+1 exp(−20n+1hn+1)
,
(3)
0n =
q
λ2 + ωµ0jσn,
(4) (3) 0n =
q
λ2 + ωµ0jσn, (4) Figure 1. Three-layer synthetic earth model of electrical conductiv-
ity for (a) non-saline soil and (b) saline soil in the top horizon. where σ0 = 0, hn is the height, and σn is the electrical con-
ductivity for the nth layer. This is based on the assumption
that each layer is uniform with infinite horizontal extent. EMI
measurements were carried out under high induction number
conditions (ECa > 100 mS m−1) utilizing the full solution of
Maxwell’s equation to model the forward EMI response. where σ0 = 0, hn is the height, and σn is the electrical con-
ductivity for the nth layer. This is based on the assumption
that each layer is uniform with infinite horizontal extent. EMI
measurements were carried out under high induction number
conditions (ECa > 100 mS m−1) utilizing the full solution of
Maxwell’s equation to model the forward EMI response. Let ϵ be a random variable representing the discrepancy be-
tween our model M(α) and the observations, which we refer
to as the observational noise: ϵ = y −M(α). 2.2
Bayesian inference The p({yi}n
i=1|α) denotes the likelihood function: the proba-
bility of predicting the data given α. The p(α|{yi}n
i=1) is the
posterior probability: the probability of recovering α given
the data ({yi}n
i=1). p(αk) =
(
1
αmax
k
−αmin
k
for αmin
k
< αk ≤αmax
k
,
0
otherwise. (10) The p({yi}n
i=1|α) denotes the likelihood function: the proba-
bility of predicting the data given α. The p(α|{yi}n
i=1) is the
posterior probability: the probability of recovering α given
the data ({yi}n
i=1). (10) For the noise variance σ 2, we consider a Jeffreys prior
(Sivia, 2006): Let us consider the forward model M, for the evaluation of
the observations y as a function of the parameters such that p(αk) =
( 1
σ 2
for σ 2 > 0,
0
otherwise. (11) (11) y = M(α). (6) www.hydrol-earth-syst-sci.net/21/5375/2017/ Hydrol. Earth Syst. Sci., 21, 5375–5383, 2017 K. Z. Jadoon et al.: Diffusive extinction depth and soil moisture gradients K. Z. Jadoon et al.: Diffusive extinction depth and soil moisture gradien 5378 10
15
20
25
30
35
40
V 32
V 71
V 118
H 32
H 71
H 118
CMD Mini−Explorer confgurations
EC (mS m– 1)
a
Observed
Modeled
Range
(a)
0
400
800
1200
1600
2000
V 32
V 71
V 118
H 32
H 71
H 118
CMD Mini−Explorer configurations
EC (mS m– 1)
a
Observed
Modeled
Range
(b)
Figure 2. Observed electrical conductivity obtained from the forward response of the six different configuration of CMD Mini-Explorer
(red star), estimated (modeled) earth electrical conductivity (blue asterisk) and the range of ECa simulated by MCMC for (a) non-saline and
(b) saline soil scenarios. 10
15
20
25
30
35
40
V 32
V 71
V 118
H 32
H 71
H 118
CMD Mini−Explorer confgurations
EC (mS m– 1)
a
Observed
Modeled
Range
(a) 0
400
800
1200
1600
2000
V 32
V 71
V 118
H 32
H 71
H 118
CMD Mini−Explorer configurations
EC (mS m– 1)
a
Observed
Modeled
Range
(b) 32
V 71
V 118
H 32
H 71
H 1
CMD Mini−Explorer configurations Figure 2. Observed electrical conductivity obtained from the forward response of the six different configuration of CMD Mini-Explorer
(red star), estimated (modeled) earth electrical conductivity (blue asterisk) and the range of ECa simulated by MCMC for (a) non-saline and
(b) saline soil scenarios. Figure 3. 2.3
Synthetic and field measurements Two sets of experimental setups were considered to test the
MCMC approach and to evaluate the estimated model pa-
rameters and associated uncertainties using synthetic data for
CMD Mini-Explorer configurations. Figure 1a and b show a
three-layer earth model setups of low and high conductiv-
ity for non-saline soil and saline soil salinity, respectively. In
both setups, thicknesses for the three-layer earth model were
conceptualized by a plow horizon (0.25 m thick), with an in-
termediate subsoil layer (0.50 m thick) and underlying con-
solidated layer up to 1.5 m depth. The plowing horizon gener-
ally has less soil moisture as compared to the deeper horizon
because of evaporation and infiltration processes. The sce-
nario of non-saline soil therefore used a plowing horizon with
low electrical conductivity of 15 mS m−1 as compared to the
intermediate and consolidated soil layers (Fig. 1a). In the
saline soil scenario, salt accumulates on the surface of soil
due to evaporation of water. As a result, the electrical conduc-
tivity of plowing horizon is considered higher 1800 mS m−1
as compared to the deeper layers (Fig. 1b). In the agricul-
tural field, the increase in the soil salinity is generally due to
the use of poor water quality or the excessive use of fertiliz-
ers. The forward response of both scenarios was calculated
in HCP and VCP via Eqs. (1) and (2), respectively, for EMI
configuration setups using the characteristics of CMD Mini-
Explorer of three receiver coils respectively placed at 0.32,
0.71 and 1.18 m distance from the receiver. Figure 3. Summary of the MCMC simulation for the synthetic
three-layer earth model of non-saline soil. (a) True (red line) and es-
timated parameter (blue dashed line) for the vertical electrical con-
ductivity profile, and the gray background with the 95 % confidence
interval of kernel distribution estimation (KDE). Panels (b–f) show
the KDE of the marginalized posterior distributions for the three
layer conductivities (σ1, σ2, and σ3) and the two layer thicknesses
(h1 and h2). The most commonly used computational strategy to nu-
merically solve a multidimensional parameters Bayesian in-
ference problem is the Markov chain Monte Carlo (MCMC)
method. We have applied an adaptive Metropolis MCMC al-
gorithm to sample the posterior distribution, as described in
details in Haario et al. 2.2
Bayesian inference Summary of the MCMC simulation for the synthetic
three-layer earth model of non-saline soil. (a) True (red line) and es-
timated parameter (blue dashed line) for the vertical electrical con-
ductivity profile, and the gray background with the 95 % confidence
interval of kernel distribution estimation (KDE). Panels (b–f) show
the KDE of the marginalized posterior distributions for the three
layer conductivities (σ1, σ2, and σ3) and the two layer thicknesses
(h1 and h2). www.hydrol-earth-syst-sci.net/21/5375/2017/ 3.1
Synthetic data Figure 2a and b depict the observed, estimated (modeled) and
range of ECa as they result from the chain of MCMC simu-
lation for six configurations of the synthetic case with saline
and non-saline soil. The x axis represents VCP and HCP with
three coil spacing (ρ32, ρ71, ρ118). In a non-saline sce-
nario, the layer electrical conductivity increases with depth
(Fig. 1a), and this is reflected in the observed and modeled
ECa in the VCP and HCP with increasing trend for larger
spacing (Fig. 2a). The ECa value for the VCP and HCP with
maximum spacing of 1.8 m between transmitter and receiver
corresponds to deeper horizon; in the case of saline soil sce-
nario the layer conductivity decreases (Fig. 1b) and as a result
ECa values in VCP and HCP configuration exhibit a decreas-
ing trend (Fig. 2b). The electromagnetic forward model is
sensitive to high electrical conductive soil, so the modeled
ECa values for the saline soil scenario match well with the
observed as compared to the non-saline scenario. The mis-
match between the observed and modeled ECa values for
non-saline soil is due to the weak sensitivity of the forward
electromagnetic model to the low electrical conductivity. Figure 4. Summary of the MCMC simulation for the synthetic
three-layer earth model of saline soil. (a) True (red line) and es-
timated parameter (blue dashed line) for the vertical electrical con-
ductivity profile, and the gray background with the 95 % confidence
interval of kernel distribution estimation (KDE). Panels (b–f) show
the KDE of the marginalized posterior distributions for the three
layer conductivities (σ1, σ2, and σ3) and the two layer thicknesses
(h1 and h2). Figure 3a shows the true parameter values (red line) with
the estimated parameters using MCMC (blue dashed line)
for the non-saline soil scenario. The MCMC samples were
used to obtain the marginalized posterior distributions based
on kernel density estimation (KDE) (Parzen, 1962). The
95 % confidence interval of the KDE for each parameter is
shown by the shaded gray background (Fig. 3a). The re-
sulting marginalized posterior probability density functions
(PDFs) of the three conductivities and two thicknesses are
shown in Fig. 3b–f. The estimated parameters (Fig. 3b–f)
show a single peak, corresponding to the best parameter val-
ues. The electrical conductivities of the three model layers
(σ1, σ2, and σ3) are reasonably well estimated as compared
to the layer thicknesses. 3.1
Synthetic data Different uniform prior distributions
were also tested for the layer thicknesses, but the MCMC so-
lution converged close to the prior instead of the true layer
thicknesses. The topography of the objective function was
too flat in this case to allow consequent changes in the direc-
tion of layer thicknesses. This suggests that the electromag-
netic model is not sensitive to the layer thicknesses for the
low-conductive soil layer. the observed data. All the results presented below are based
on 104 MCMC samples. Parameter range for h1 and h2 was
fixed between 0.05 and 0.6 m in each scenario. In the non-
saline scenario, parameter range for σ1, σ2, and σ3 was con-
sidered between 5 and 100 mS m−1 and the saline soil sce-
nario range was fixed between 5 and 3000 mS m−1. A uni-
form prior distribution function was considered in both sce-
narios. Field measurements were also carried out in a farm, where
Acacia trees were irrigated with saline groundwater. The
farm is located at a distance of 6 km from the Red Sea coast
at Al-Qadeimah, Makkah province, Saudi Arabia. EMI mea-
surements were collected at an interval of 2 m over a 40 m
long transect, along which three Acacia trees were irrigated
using drip irrigation. At each location, EMI measurements
using CMD Mini-Explorer system gives six different val-
ues of apparent electrical conductivity (using two coil ori-
entations and three offsets); each responds to different depth
ranges. Ten pits were dug along the same transect and in each
pit the bulk electrical conductivity σb profile was measured
at 15 locations within a depth range of 0.05–1.5 m via 5TE
capacitance sensors (Decagon Devices, Pullman, USA). EMI
and 5TE measurements were performed 8 h after the drip ir-
rigation system was stopped, so that the soil moisture is not
concentrated below the drippers and to give enough time to
reduce the soil moisture impact due to evaporation, root wa-
ter uptake, and infiltration (Jadoon et al., 2015). Figure 4 illustrates the true and estimated depth profile of
electrical conductivity for saline scenario, and the KDE of
the marginalized posterior distributions for the three layer
conductivities (σ1, σ2, and σ3) and the two layer thicknesses
(h1 and h2). The shaded gray background shows the 95 % of
the KDE for each parameter (Fig. 4a). The vertical electrical
conductivity profile is well recovered by MCMC. K. Z. Jadoon et al.: Diffusive extinction depth and soil moisture gradients K. Z. Jadoon et al.: Diffusive extinction depth and soil moisture gradients 5379 Figure 4. Summary of the MCMC simulation for the synthetic
three-layer earth model of saline soil. (a) True (red line) and es-
timated parameter (blue dashed line) for the vertical electrical con-
ductivity profile, and the gray background with the 95 % confidence
interval of kernel distribution estimation (KDE). Panels (b–f) show
the KDE of the marginalized posterior distributions for the three
layer conductivities (σ1, σ2, and σ3) and the two layer thicknesses
(h1 and h2). 2.3
Synthetic and field measurements (2001) and Roberts and Rosenthal
(2009) In both scenarios, six configurations, three for each HCP
and VCP with different spacings, were taken as an output
for forward models. Let α = (σ1,σ2,σ3,h1,h2)T be a vector
of model parameters. σ1, σ2, and σ3 are layer conductivities,
and h1 and h2 thicknesses. Bayesian inference was used to
estimate these five parameters that minimize the errors be-
tween observed and modeled HCP and VCP. An adaptive
MCMC method was used to sample the posterior distribu-
tions and consequently update α distributions according to Hydrol. Earth Syst. Sci., 21, 5375–5383, 2017 www.hydrol-earth-syst-sci.net/21/5375/2017/ 3.1
Synthetic data The elec-
trical conductivity of the top two layers are well estimated as
compared to the consolidated layer with low electrical con-
ductivity. Furthermore, for the six tested configurations of www.hydrol-earth-syst-sci.net/21/5375/2017/ Hydrol. Earth Syst. Sci., 21, 5375–5383, 2017 K. Z. Jadoon et al.: Diffusive extinction depth and soil moisture gradients K. Z. Jadoon et al.: Diffusive extinction depth and soil moisture gradients 5380 Figure 5. (a) Electrical conductivity (mS m−1) measured by the 5TE capacitance sensors from 10 soil pits along transect and the location of
the soil pits is indicated by black triangles (Jadoon et al., 2015); (b) the soil electrical conductivity obtained by using Markov chain Monte
Carlo simulation for multi-configuration electromagnetic induction measurements. Figure 5. (a) Electrical conductivity (mS m−1) measured by the 5TE capacitance sensors from 10 soil pits along transect and the location of
the soil pits is indicated by black triangles (Jadoon et al., 2015); (b) the soil electrical conductivity obtained by using Markov chain Monte
Carlo simulation for multi-configuration electromagnetic induction measurements. 0
20
40
60
80
100
H 32
H 71
H 118
V 32
V 71
V 118
CMD Mini−Explorer conf igurations
EC (mS m– 1)
a
Measured
Modeled
Range
(a)
0
400
800
1200
1600
2000
2400
V 32
V 71
V 118
H 32
H 71
H 118
CMD Mini−Explorer configurations
EC (mS m– 1)
a
Measured
Modeled
Range
(b)
Figure 6. Measured six different configuration of CMD Mini-Explorer (red star), estimated (modeled) earth electrical conductivity (blue
asterisk) and the range of ECa simulated by MCMC for (a) non-saline soil at pit 4 and (b) saline soil at pit 9 location. 0
400
800
1200
1600
2000
2400
V 32
V 71
V 118
H 32
H 71
H 118
CMD Mini−Explorer configurations
EC (mS m– 1)
a
Measured
Modeled
Range
(b) 0
20
40
60
80
100
H 32
H 71
H 118
V 32
V 71
V 118
CMD Mini−Explorer conf igurations
EC (mS m– 1)
a
Measured
Modeled
Range
(a) Figure 6. Measured six different configuration of CMD Mini-Explorer (red star), estimated (modeled) earth electrical conductivity (blue
asterisk) and the range of ECa simulated by MCMC for (a) non-saline soil at pit 4 and (b) saline soil at pit 9 location. reduction of soil moisture impact due to root water uptake,
evaporation and infiltration (Jadoon et al., 2015). 3.1
Synthetic data CMD Mini-Explorer, the HCP and VCP configuration with
spacing 1.18 m are mostly sensitive to the consolidated layer
while the remaining four configurations are more sensitive to
the upper horizon. A large range of the parameter space was
explored by MCMC (Fig. 4b–e), illustrating the sensitivity of
the electromagnetic model to the considered parameters. Figure 5 shows the soil electrical conductivity measured
in ten pits along a transect and the modeled soil elec-
trical conductivity as estimated by the MCMC using the
multi-configuration EM induction measurements. Pit loca-
tions along the transect are indicated by black triangle and
cubic interpolation of 150 5TE sensor measurements were
used to construct the two-dimensional profile of measured
soil electrical conductivity σ (Fig. 5a). The groundwater used
to irrigate the acacia trees has an electrical conductivity of
4200 mS m−1. The three patterns of high electrical conduc-
tivity is due to the infiltration front and soil salinity near
the three acacia trees. In total, 21 multi-configuration EMI
measurements were performed along a transect and cali-
brated with in situ measurements collected using capacitance
sensors (Jadoon et al., 2015). The three-layer earth model
was considered for Bayesian inference of the five param-
eters (σ1,σ2,σ3,h1,h2) and their uncertainty based on the
15 000 MCMC samples. For all MCMC simulations, the pa-
rameter search space was set relatively large, with the range
of low and high values of electrical conductivity of soil;
0 < σ1 < 3000 mS m−1, 0 < σ2 < 3000 mS m−1, 0 < σ3 <
3000 mS m−1, 0.05 < h1 < 0.6 m, and 0.05 < h1 < 0.6 m. In
the depth section of soil electrical conductivity resulting from
the EMI MCMC simulations, the effect of infiltration pat- K. Z. Jadoon et al.: Diffusive extinction depth and soil moisture gradients Spatial distribution of soil salinity (ECe) obtained using
Bayesian inversion of multi-configuration EMI measurements along
a transect. Depth (m)
Position (m)
0
10
20
30
40
0
0.5
1
1.5
ECe
(dS m– 1)
0
200
400 terns and the soil salinity due to the drip irrigation near the
three acacia trees is clear (Fig. 5b). The estimated soil elec-
trical conductivity values by MCMC are in a good agreement
with the sensor measurements performed in pits (Fig. 5a). p
p
g
Figure 6a and b show the measured, estimated (modeled)
and range of ECa as they result from the MCMC chain for the
six multi-configurations of CMD Mini-Explorer for saline
and non-saline soil. Three coil spacings for each VCP and
HCP are represented on the x axis. EMI measurement is
shown for non-saline and saline soil at locations 4 and 9 of
the pit (Fig. 5a), respectively. The soil was completely dry
for non-saline soil as no irrigation was applied, whereas in
the case of saline soil the moisture in the soil varied be-
tween 0.005 and 0.19 at the time of EMI and sensor mea-
surements. In non-saline soil, the measured six ECa values
range between 5 and 60 mS m−1 and the modeled ECa be-
tween 23 and 38 mS m−1 (Fig. 6a). The range of ECa esti-
mated from the last 10 000 MCMC samples is in the range of
0–75 mS m−1. As observed in the synthetic non-saline soil
scenario, the electromagnetic forward model was not sensi-
tive to the low electrical conductive soil. Similarly, the fit be-
tween the measured and modeled ECa is not in good agree-
ment with the real measurements (Fig. 6a). Furthermore, the
misfit may be due to the large search parameter space in the
MCMC simulations. In the case of saline soil, the electrical
conductivity of the top 50 cm soil is high due to the saline
infiltration and soil salinity. This effect can be seen in the de-
creasing trend of the measured ECa for the VCP and HCP Figure 9. Spatial distribution of soil salinity (ECe) obtained using
Bayesian inversion of multi-configuration EMI measurements along
a transect. measurements with larger coil spacing (Fig. 6b). The mea-
sured and modeled ECa are in good agrement and this is due
to the high sensitivity of the electromagnetic forward model
to high electrical conductive soil. K. Z. Jadoon et al.: Diffusive extinction depth and soil moisture gradients (b–f) The KDE of the marginalized posterior dis-
tributions for the three layer conductivities (σ1, σ2, and σ3) and two
layer thicknesses (h1 and h2). Depth (m)
Position (m)
0
10
20
30
40
0
0.5
1
1.5
ECe
(dS m– 1)
0
200
400
Figure 9. Spatial distribution of soil salinity (ECe) obtained using
Bayesian inversion of multi-configuration EMI measurements along
a transect. Figure 7. Summary of the MCMC simulation for three-layer earth
model by considering CMD Mini-Explorer measurement over a
non-saline soil. (a) True (red line) and estimated parameter (blue
dashed line) for the vertical electrical conductivity profile, and the
gray background with the 95 % confidence interval of kernel distri-
bution estimation (KDE). (b–f) The KDE of the marginalized pos-
terior distributions for the three layer conductivities (σ1, σ2, and σ3)
and two layer thicknesses (h1 and h2). Figure 8. Summary of the MCMC simulation for three-layer earth
model by considering CMD Mini-Explorer measurement over a
saline soil. (a) True (red line) and estimated parameter (blue dashed
line) for the vertical electrical conductivity profile, and the gray
background with the 95 % confidence interval of kernel distribution
estimation (KDE). (b–f) The KDE of the marginalized posterior dis-
tributions for the three layer conductivities (σ1, σ2, and σ3) and two
layer thicknesses (h1 and h2). Figure 7. Summary of the MCMC simulation for three-layer earth
model by considering CMD Mini-Explorer measurement over a
non-saline soil. (a) True (red line) and estimated parameter (blue
dashed line) for the vertical electrical conductivity profile, and the
gray background with the 95 % confidence interval of kernel distri-
bution estimation (KDE). (b–f) The KDE of the marginalized pos-
terior distributions for the three layer conductivities (σ1, σ2, and σ3)
and two layer thicknesses (h1 and h2). Figure 8. Summary of the MCMC simulation for three-layer earth
model by considering CMD Mini-Explorer measurement over a
saline soil. (a) True (red line) and estimated parameter (blue dashed
line) for the vertical electrical conductivity profile, and the gray
background with the 95 % confidence interval of kernel distribution
estimation (KDE). (b–f) The KDE of the marginalized posterior dis-
tributions for the three layer conductivities (σ1, σ2, and σ3) and two
layer thicknesses (h1 and h2). Depth (m)
Position (m)
0
10
20
30
40
0
0.5
1
1.5
ECe
(dS m– 1)
0
200
400
Figure 9. 3.2
Experimental data Measurements were carried out in a farm, where acacia trees
were irrigated with saline groundwater. The farm is located
at a distance of 6 km from the Red Sea coast at Al-Qadeimah,
Makkah province, Saudi Arabia. EMI measurements were
collected at an intervals over a 40 m long transect, along
which three acacia trees were irrigated using drip irrigation. At each location, EMI measurements using the CMD Mini-
Explorer system provides six different values of apparent
electrical conductivity (using two coil orientations and three
offsets); each responds to different depth ranges. Ten pits
were dug along the same transect and in each pit the verti-
cal σb profile was measured at 15 locations within a depth
range of 0.05–1.5 m via 5TE capacitance sensors (Decagon
Devices, Pullman, USA). 5TE and EMI measurements were
carried out on the same day 8 h after the drip irrigation sys-
tem was stopped, so that the soil moisture concentration be-
low the drippers is avoided, and enough time is given for the www.hydrol-earth-syst-sci.net/21/5375/2017/ Hydrol. Earth Syst. Sci., 21, 5375–5383, 2017 www.hydrol-earth-syst-sci.net/21/5375/2017/ K. Z. Jadoon et al.: Diffusive extinction depth and soil moisture gradients 5381 Figure 7. Summary of the MCMC simulation for three-layer earth
model by considering CMD Mini-Explorer measurement over a
non-saline soil. (a) True (red line) and estimated parameter (blue
dashed line) for the vertical electrical conductivity profile, and the
gray background with the 95 % confidence interval of kernel distri-
bution estimation (KDE). (b–f) The KDE of the marginalized pos-
terior distributions for the three layer conductivities (σ1, σ2, and σ3)
and two layer thicknesses (h1 and h2). Figure 8. Summary of the MCMC simulation for three-layer earth
model by considering CMD Mini-Explorer measurement over a
saline soil. (a) True (red line) and estimated parameter (blue dashed
line) for the vertical electrical conductivity profile, and the gray
background with the 95 % confidence interval of kernel distribution
estimation (KDE). (b–f) The KDE of the marginalized posterior dis-
tributions for the three layer conductivities (σ1, σ2, and σ3) and two
layer thicknesses (h1 and h2). Figure 7. Summary of the MCMC simulation for three-layer earth
model by considering CMD Mini-Explorer measurement over a
non-saline soil. (a) True (red line) and estimated parameter (blue
dashed line) for the vertical electrical conductivity profile, and the
gray background with the 95 % confidence interval of kernel distri-
bution estimation (KDE). (b–f) The KDE of the marginalized pos-
terior distributions for the three layer conductivities (σ1, σ2, and σ3)
and two layer thicknesses (h1 and h2). terns and the soil salinity due to the drip irrigation near the
three acacia trees is clear (Fig. 5b). The estimated soil elec-
trical conductivity values by MCMC are in a good agreement
with the sensor measurements performed in pits (Fig. 5a). Figure 6a and b show the measured, estimated (modeled)
and range of ECa as they result from the MCMC chain for the
six multi-configurations of CMD Mini-Explorer for saline
and non-saline soil. Three coil spacings for each VCP and
HCP are represented on the x axis. EMI measurement is
shown for non-saline and saline soil at locations 4 and 9 of
the pit (Fig. 5a), respectively. The soil was completely dry
Figure 8. Summary of the MCMC simulation for three-layer earth
model by considering CMD Mini-Explorer measurement over a
saline soil. (a) True (red line) and estimated parameter (blue dashed
line) for the vertical electrical conductivity profile, and the gray
background with the 95 % confidence interval of kernel distribution
estimation (KDE). K. Z. Jadoon et al.: Diffusive extinction depth and soil moisture gradients 5382 separation Hρ118 and Vρ118 is behind the overestimation
of the soil electrical conductivity. The marginalized poste-
rior PDFs of the three conductivities and two thicknesses are
shown in Fig. 7b–f. The PDFs of the parameters (Fig. 7b–f)
exhibit a single peak, corresponding to the best parameters. The peak of the σ3 is flat between 30 and 38 mS m−1 and it
seems that the topography of the objective function does not
change within this range of conductivity in each iteration of
the MCMC simulation. (σ1, σ2, and σ3) and two layer thicknesses (h1 and h2) using
MCMC. Such analysis helps to provide insight about param-
eter estimates and uncertainties. The experimental results showed that the MCMC simula-
tions can improve the reliability of the electromagnetic for-
ward model to estimate the subsurface electrical conductiv-
ity profiles. Analysis shows that the electromagnetic forward
model is less sensitive to the non-saline soil as compared to
the saline soil. The proposed approach is flexible and can be
implemented for various low-frequency ground-based EMI
systems and can provide subsurface electrical conductivity
distribution and uncertainty of model parameters. Future re-
search will focus on implementing the Bayesian inference
approach on time-lapse EMI measurements in different agri-
cultural fields to monitor the soil dynamics, and estimate the
model parameters and their uncertainties. Figure 8 plots the vertical profile of electrical conductivity
for the saline soil measured by capacitance sensors (red line),
the value of the MCMC estimated parameters (blue dashed
line), and the KDE of the marginalized posterior distributions
for the three layer conductivities and the two layer thick-
nesses. CMD Mini-Explorer measurements at pit 9 for saline
soil was used for the analysis. The shaded area in Fig. 8a indi-
cates the 95 % KDE distribution limits. The whole measured
vertical profile of soil electrical conductivity falls within the
shaded area, suggesting that the electrical conductivity is
well estimated. The marginalized posterior PDFs of the three
conductivities and two thicknesses, as shown in Fig. 8b–f,
exhibit a single peak for all parameters except the layer thick-
ness h2 which is flat, suggesting that the data were not infor-
mative to refine our prior knowledge about h2. The posterior
PDFs of the first two conductivities (σ1 and σ2) and layer
thickness h1 exhibit a clear Gaussian shape with an obvious
maximum a posteriori (MAP) estimate. References Altaf, M. U., Butler, T., Mayo, T., Luo, X., Dawson, C., Heemink,
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Figure 9 shows the spatial distribution of the soil salin-
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English
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Improving Sexual Function by Using Focal Vibrations in Men with Spinal Cord Injury: Encouraging Findings from a Feasibility Study
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Journal of clinical medicine
| 2,019
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cc-by
| 8,185
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Received: 23 March 2019; Accepted: 10 May 2019; Published: 11 May 2019 Abstract: Erectile dysfunction (ED) is a frequent and disabling condition in patients with spinal cord
injury (SCI). Spasticity can negatively affect sexual intercourse, as it may interfere with positioning,
mobility, and muscle activation and strength, leading to ED. The aim of our study was to evaluate the
feasibility and efficacy of muscle vibration (MV) applied to the pelvic muscles in improving ED in
men with SCI. Ten adult men with traumatic SCI were submitted to 15 sessions of MV, applied on
the perineum and the suprapubic and sacrococcygeal areas, using a pneumatic vibrator. MV was
performed three times a week for five consecutive weeks, each session lasting 30 min. Muscle tone
and sexual function were assessed before and after MV using the Modified Ashworth Scale (MAS)
and International Index of Erectile Function (IIEF). We assessed the cremasteric and bulbocavernosus
reflexes, as well as the electrophysiological bulbocavernosus reflex (eBCR) and pudendal nerve
somatosensory-evoked potential (PSEP). MV was safe and well tolerated. All the patients reported an
improvement in MAS and IIEF, with better reflexive responses, and a significant increase in eBCR and
PSEP amplitude. In conclusion, MV of the pelvic floor is a promising method to reduce segmental
spasticity and improve ED in men with incomplete SCI. However, our findings require confirmation
through a randomized clinical trial with a larger sample size and longer trial period to examine
long-term after effects. Keywords: sexual dysfunction; spinal cord injury; focal muscles vibrations; international index of
erectile function Journal of
Clinical Medicine Journal of
Clinical Medicine Journal of
Clinical Medicine Journal of
Clinical Medicine J. Clin. Med. 2019, 8, 658; doi:10.3390/jcm8050658 www.mdpi.com/journal/jcm Improving Sexual Function by Using Focal Vibrations
in Men with Spinal Cord Injury: Encouraging
Findings from a Feasibility Study Rocco Salvatore Calabrò 1,*, Antonino Naro 1, Massimo Pullia 1, Bruno Porcari 1, Michele Torri
Gianluca La Rosa 1, Alfredo Manuli 1, Luana Billeri 1, Placido Bramanti 1 and Fabrizio Quattri Rocco Salvatore Calabrò 1,*, Antonino Naro 1, Massimo Pullia 1, Bruno Porcari 1, Michele Torrisi 1,
Gianluca La Rosa 1, Alfredo Manuli 1, Luana Billeri 1, Placido Bramanti 1 and Fabrizio Quattrini 2 1
Department of Robotic Neurorehabilitation, IRCCS Centro Neurolesi Bonino Pulejo, 98124 Messina, Italy;
g.naro11@alice.it (A.N.); massimo.pullia@irccsme.it (M.P.); bruno.porcari@irccsme.it (B.P.);
michele.torrisi@irccsme.it (M.T.); gianluca.larosa@irccsme.it (G.L.R.); alfredo.manuli@irccsme.it (A.M.);
luana.billeri@irccsme.it (L.B.); dino.brama@gmail.com (P.B.) 1
Department of Robotic Neurorehabilitation, IRCCS Centro Neurolesi Bonino Pulejo, 98124 Messina, Italy;
g.naro11@alice.it (A.N.); massimo.pullia@irccsme.it (M.P.); bruno.porcari@irccsme.it (B.P.);
michele.torrisi@irccsme.it (M.T.); gianluca.larosa@irccsme.it (G.L.R.); alfredo.manuli@irccsme.it (A.M.);
luana.billeri@irccsme.it (L.B.); dino.brama@gmail.com (P.B.) *
Correspondence: salbro77@tiscali.it; Tel.: +3909060128166 *
Correspondence: salbro77@tiscali.it; Tel.: +3909060128166 1. Introduction Ove
there is one penile tumescence pathway (lumbar and sacral spinal segment pelvic plexus cavern
nerve penis) and three penile detumescence pathways (1: lumbar spinal segment superior plexu
cavernous nerve penis; 2: lumbar spinal segment paravertebral sympathetic chain
pelvic/cavernous nerve penis; 3: lumbar spinal segment paravertebral sympathetic chain
Figure 1. Diagram of the nervous pathways regulating erection. Reflexogenic erection depends
on a circuitry made of the dorsal nerve of the penis/pudendal nerve, which conveys sensory input,
a parasympathetic center in the sacral spinal cord, and the pelvic plexus/cavernous nerve, which
convoys efferent output to the penis. Sensory input reaches the brain via ascending spinal pathways. The brain can initiate psychogenic erection by various stimuli received by or generated within the brain. It also controls lumbar sympathetic and sacral parasympathetic outflow to the penis. Overall, there
is one penile tumescence pathway (lumbar and sacral spinal segment →pelvic plexus →cavernous
nerve →penis) and three penile detumescence pathways (1: lumbar spinal segment →superior
plexus →cavernous nerve →penis; 2: lumbar spinal segment →paravertebral sympathetic chain
→pelvic/cavernous nerve →penis; 3: lumbar spinal segment →paravertebral sympathetic chain →
pudendal nerve →penis). + and −indicate penile tumescence or detumescence effect, respectively. Figure 1. Diagram of the nervous pathways regulating erection. Reflexogenic erection depends o
circuitry made of the dorsal nerve of the penis/pudendal nerve, which conveys sensory inpu
parasympathetic center in the sacral spinal cord, and the pelvic plexus/cavernous nerve, wh
convoys efferent output to the penis. Sensory input reaches the brain via ascending spinal pathwa
The brain can initiate psychogenic erection by various stimuli received by or generated within
brain. It also controls lumbar sympathetic and sacral parasympathetic outflow to the penis. Over
there is one penile tumescence pathway (lumbar and sacral spinal segment pelvic plexus caverno
nerve penis) and three penile detumescence pathways (1: lumbar spinal segment superior plexus
cavernous nerve penis; 2: lumbar spinal segment paravertebral sympathetic chain
pelvic/cavernous nerve penis; 3: lumbar spinal segment paravertebral sympathetic chain
Figure 1. Diagram of the nervous pathways regulating erection. Reflexogenic erection depends
on a circuitry made of the dorsal nerve of the penis/pudendal nerve, which conveys sensory input,
a parasympathetic center in the sacral spinal cord, and the pelvic plexus/cavernous nerve, which
convoys efferent output to the penis. Sensory input reaches the brain via ascending spinal pathways. 1. Introduction Spinal cord injury (SCI) can severely impair erection, ejaculation, and perception of orgasm, with
a consequent change in patients’ sexual behavior [1,2]. About 20% of patients with complete SCI
complain of severe erectile dysfunction (ED), i.e., the inability to achieve or maintain an erection
sufficient for satisfactory sexual performance [1–3]. ED severity varies in men with incomplete SCI,
depending on the location and degree of damage of the neural pathways subtending erection [1–3]. Erection is a neurovascular event characterized by the tumescence of the cavernous bodies that
rely upon integration of neural and humoral mechanisms at various levels of the nervous system. It requires the participation of autonomic and somatic (i.e., the dorsal nerve of the penis) nerves and
the integration of numerous spinal and supraspinal sites, including the medial preoptic area of the J. Clin. Med. 2019, 8, 658; doi:10.3390/jcm8050658 www.mdpi.com/journal/jcm 2 of 12
2 of J. Clin. Med. 2019, 8, 658
J. Clin. Med. 2019, 8, hypothalamus, and septal region (Figure 1). The penis receives innervation from sacral parasympathetic
(pelvic), thoracolumbar sympathetic (hypogastric and lumbar chain), and somatic (pudendal) nerves. The major excitatory input to the penis is provided by the parasympathetic nervous system (S2–S4),
responsible for vasodilatation of the penile vasculature and erection. The sympathetic nervous system
(T10–L2) seems to play a pivotal role in the detumescence of the penis [4]. hypothalamus, and septal region (Figure 1). The penis receives innervation from sac
parasympathetic (pelvic), thoracolumbar sympathetic (hypogastric and lumbar chain), and soma
(pudendal) nerves. The major excitatory input to the penis is provided by the parasympathe
nervous system (S2–S4), responsible for vasodilatation of the penile vasculature and erection. T
sympathetic nervous system (T10–L2) seems to play a pivotal role in the detumescence of the penis [4 Figure 1. Diagram of the nervous pathways regulating erection. Reflexogenic erection depends
circuitry made of the dorsal nerve of the penis/pudendal nerve, which conveys sensory inpu
parasympathetic center in the sacral spinal cord, and the pelvic plexus/cavernous nerve, wh
convoys efferent output to the penis. Sensory input reaches the brain via ascending spinal pathw
The brain can initiate psychogenic erection by various stimuli received by or generated within
brain. It also controls lumbar sympathetic and sacral parasympathetic outflow to the penis. J. Clin. Med. 2019, 8, 658 J. Clin. Med. 2019, 8, 658 3 of 12 Most of the patients with SCI require specific, multidisciplinary management for ED, including
pharmacological and surgical approaches, counseling, and rehabilitation with physical therapy
treatment [4,8,9]. For instance, the oral administration of PDE-5 inhibitors represents one of the best
choices in men with SCI, if the basic mechanisms responsible for erection, including both normal
vasculature and S2–S4 reflex arc, are preserved [10]. Injectable and intra-urethral agents are relegated to
second line therapy after oral PDE-5 inhibitors are ineffective, although the local delivery of medications
(i.e., PGE1 and papaverine) remains useful in about 25%–30% of ED patients. Penile prosthesis offers a
valid therapeutic alternative for patients who fail vasoactive drugs and vacuum-constrictive devices
and who are not candidates for vascular reconstruction procedures [4]. However, such approaches
may be unacceptable to the patient, unavailable, or inapplicable [4,8,9]. Growing research is focusing on instrumental approaches to manage ED. It is worth noting
that among the problems facing patients with SCI, spasticity significantly contributes to ED [11–14]. Spasticity develops gradually over several months after SCI, is strictly associated with hyperreflexia
and excessive muscle spasms, and involves also pelvic floor muscles [11–14]. Thus, spasticity may
affect: (1) positioning and mobility that are necessary for sexual intercourse, and (2) activation, strength,
time of force development, and control of the pelvic floor muscles that are involved in erectile and
ejaculation functions, with spasms during penetration [11–14]. Therefore, the reduction of spasticity
may be a therapeutic option to improve ED. A useful tool to reduce segmental spasticity is represented by muscle vibration (MV), as suggested
by reports on patients with stroke, multiple sclerosis, and cerebral palsy [15–18]. Vibrations have
been already used to manage different pelvic floor dysfunctions due to diverse pathologies, but only
employing whole body vibration (not addressing ED) or penile vibration used for ejaculation [19–27]. There is converging evidence that MV provides the central nervous system with strong proprioceptive
inputs (preferentially through Ia afferents) that reach the somatomotor cortices. This may help to
modify the corticospinal excitability, to favor intracortical inhibitory systems, and to induce better
muscle synergy pattern by acting on the excitability of spinal motoneurons and interneurons. MV may
directly act at the spinal level, reducing abnormalities of the spinal excitability (as the activation of
primary Ia spindle afferents result in inhibition of the monosynaptic reflex) and restoring abnormal
reciprocal and presynaptic inhibition mechanisms [15–18]. 2.1. Study Population We screened SCI outpatients visiting the Behavioral and Robotic Neurorehabilitation Unit of our
institute between January and June 2018 for patients complaining of ED. Ten patients with neurogenic
ED were enrolled in this open label pilot study, according to the following inclusion criteria: (1) age
18–65 years; (2) diagnosis of incomplete SCI, with American Spinal Injury Association (ASIA) level
C-D, no involvement of sacral spinal segment and SCI occurred at least six months before the study
enrollment (i.e., chronic phase); (3) an International Index of Erectile Function (IIEF) score <18 (that is,
severe, moderate, or mild-to-moderate ED) [28–30]; (4) to be sexually active and fully continent before
SCI; and (5) withdrawal from previous treatment (for at least three months before the study inclusion),
such as erectogenic aids, nutraceutics, antispastics, and psychoactive drugs. J. Clin. Med. 2019, 8, 658 Altogether, these effects lead to a reduction
in spasticity [15–18]. Hypothesizing that the MV-induced reduction of pelvic floor spasticity may improve ED,
we evaluated the feasibility and efficacy of low-amplitude/high-frequency MV delivered to specific
muscles of the pelvic floor and sacral area in improving ED in males with incomplete SCI. 1. Introduction The brain can initiate psychogenic erection by various stimuli received by or generated within the brain. It also controls lumbar sympathetic and sacral parasympathetic outflow to the penis. Overall, there
is one penile tumescence pathway (lumbar and sacral spinal segment →pelvic plexus →cavernous
nerve →penis) and three penile detumescence pathways (1: lumbar spinal segment →superior
plexus →cavernous nerve →penis; 2: lumbar spinal segment →paravertebral sympathetic chain
→pelvic/cavernous nerve →penis; 3: lumbar spinal segment →paravertebral sympathetic chain →
pudendal nerve →penis). + and −indicate penile tumescence or detumescence effect, respectively. pudendal nerve penis). + and − indicate penile tumescence or detumescence effect, respectively. SCI may cause structural changes within the pelvic floor, neuropathic pain, spasticity, a
problems with bladder and bowel continence with the consequent shame of unwanted sme
Altogether, these concerns can worsen ED significantly. Changes in body image representati
SCI may cause structural changes within the pelvic floor, neuropathic pain, spasticity, and problems
with bladder and bowel continence with the consequent shame of unwanted smells. Altogether, these
concerns can worsen ED significantly. Changes in body image representation, depression, anxiety,
and fatigue also contribute to worsen ED [5,6]. g
,
g
y
g
y
g
p
depression, anxiety, and fatigue also contribute to worsen ED [5,6]. Whether achieved, reflexogenic, psychogenic, or mixed, erection is often short lasting a
non-sufficient to maintain satisfactory sexual relations [5,6]. Frequency and quality of sexual activ
inevitably decline after SCI. This obviously represents a serious concern in people with SCI, as sex
activity is an important factor in quality of life and self-esteem [5,6]. Diminished or absent sexual activ
Whether achieved, reflexogenic, psychogenic, or mixed, erection is often short lasting and
non-sufficient to maintain satisfactory sexual relations [5,6]. Frequency and quality of sexual activity
inevitably decline after SCI. This obviously represents a serious concern in people with SCI, as sexual
activity is an important factor in quality of life and self-esteem [5,6]. Diminished or absent sexual
activity does not mean absent sexuality, as the need for sexual expression and intimacy remains [7]. 2.2. Intervention The patients were assessed at baseline using clinical and electrophysiological tests. MV was
performed three times a week for five consecutive weeks, each session lasting 30 min. The stimulation 4 of 12
ineum. J. Clin. Med. 2019, 8, 658
2.2. Intervent
a Velcro strap, and
(Fi
2 3) was delivered to the perineum, suprapubic, and sacrococcygeal areas using a pneumatic vibrator
powered by compressed air (Vibraplus, @-Circle; San Pietro in Casale, Bologna, Italy). The device is
equipped with cup-like probes of 2 cm2 fixed to the suprapubic and sacrococcygeal areas by a Velcro strap,
and a pen-like probe held by the therapist who carried out MV over the perineum. (Figures 2 and 3). performed three times a week for five consecutive weeks, each session lasting 30 min. The
stimulation was delivered to the perineum, suprapubic, and sacrococcygeal areas using a pneumatic
vibrator powered by compressed air (Vibraplus, @-Circle; San Pietro in Casale, Bologna, Italy). The
device is equipped with cup-like probes of 2 cm2 fixed to the suprapubic and sacrococcygeal areas by
a Velcro strap, and a pen-like probe held by the therapist who carried out MV over the perineum. (Figures 2 3) pped with cup-like probes of 2 cm fixed to the suprapubic and sacrococcygeal areas by a Velcro str
a pen-like probe held by the therapist who carried out MV over the perineum. (Figures 2 and 3)
device is equipped with cup-like probes of 2 cm2 fixed to the suprapubic and sacrococcygeal areas by
a Velcro strap, and a pen-like probe held by the therapist who carried out MV over the perineum. (Figures 2,3). Figure 2. Placement of the suprapubic and perineum probes prior to body fixation by Velcro-straps. Figure 3. Placement of the probes and pudendal nerve somatosensory-evoked potential (PSEP)
setup. Figure 2. Placement of the suprapubic and perineum probes prior to body fixation by Velcro-straps. Figure 2. Placement of the suprapubic and perineum probes prior to body fixation by Velcro-straps. Figure 3 Placement of the probes and pudendal nerve somatosensory-evoked potential (PSEP)
Figure 3. Placement of the probes and pudendal nerve somatosensory-evoked potential (PSEP) setup. Figure 2. Placement of the suprapubic and perineum probes prior to body fixation by Velcro-straps. Figure 2. Placement of the suprapubic and perineum probes prior to body fixation by Velcro-straps. Figure 2. Placement of the suprapubic and perineum probes prior to body fixation by Velcro-straps. Figure 2. 2.2. Intervention Placement of the suprapubic and perineum probes prior to body fixation by Velcro-straps. Figure 2. Placement of the suprapubic and perineum probes prior to body fixation by Velcro-straps. g
p
p
p
p
p
y
y
p Figure 3. Placement of the probes and pudendal nerve somatosensory-evoked potential (PSEP)
setup. Figure 3 Placement of the probes and pudendal nerve somatosensory evoked potential (PSEP)
Figure 3. Placement of the probes and pudendal nerve somatosensory-evoked potential (PSEP) setup. Figure 3 Placement of the probes and pudendal ner e somatosensory e oked potential (PSEP)
Figure 3. Placement of the probes and pudendal nerve somatosensory-evoked potential (PSEP) setup. Figure 3. Placement of the probes and pudendal nerve somatosensory evoked potential (PSEP)
setup. Vibration stimuli were delivered at a frequency (f) of 150 Hz, with an amplitude (A) (i.e., of the
peak-to-peak sinusoidal displacement of the underneath structures; on average 4 ± 0.5 mm) sufficient
to evoke a progressive contraction of the perineal muscles in each of the participants, as assessed by
the therapist who carried out the MV. The resulting intensity of stimulation was calculated by the
formula (2πf) 2A. 2.3. Outcome Measures Changes in IIEF (the primary end-point) were used to estimate the effectiveness of MV in
improving ED. The IIEF [28–30] consists of 15 questions aimed at highlighting ED and its effects on the 5 of 12 J. Clin. Med. 2019, 8, 658 sex life in the 4 weeks preceding the test. The questionnaire evaluates 5 different fields of male sexuality
within the different cultures. A: Erectile Function (Q1–5; 15, score 1–30), B: Orgasmic Function (Q9, 10;
score 0–10), C: Sexual Desire (Q11, 12; score 2–10), D: Intercourse Satisfaction (Q6–8; score 0–15), and E:
overall Satisfaction (Q13, 14, score 2–10). The total score ranges from 5–75, and is interpreted as follows:
<10 severe, 11–16 moderate, 17–21 mild-to-moderate, 22–25 mild ED, and 26–30 no dysfunction. The secondary end-points consisted in the improvement in pelvic floor muscle Modified Ashworth
Scale (MAS), pelvic floor pain rated on a Visual Analogue Scale (VAS), groin and penile sensation,
cremasteric and bulbocavernosus (BCR) reflexes, electrophysiological bulbocavernosus reflex (eBCR),
and pudendal nerve somatosensory-evoked potential (PSEP). MAS measures resistance during passive soft-tissue stretching and is used as a simple measure
of spasticity (score 0: no tone–4: complete rigidity). VAS is a measurement instrument that tries to
measure a characteristic (such as pain) or attitude that is believed to range across a continuum of values
and cannot easily be directly measured (score 0: no pain–10: worst pain). Before MAS and VAS administration, the patient underwent a complete physical examination,
including general appearance, secondary sexual characteristics, cardiovascular system (blood pressure,
peripheral pulses), genitourinary system, penis inspection (circumcision, deformity, plaques, phimosis,
hypoesthesia), testes examination (size and consistency), rectal examination (sphincter tone and
prostate examination), and groin and penile sensation (using Semmes–Weinstein monofilament sensory
testing). To this end, the penis was sectored in six parts: the right and left halves of the shaft, the glans,
the scrotum, and the left and right groin. The patient was blindfolded and each region was stimulated
3 times at random intervals. If all of the stimuli were experienced all 3 times correctly in all of the
sectors, we concluded the patient had sensation. The peripheral and central neural pathways underlying exteroceptive stimulation of the genital
regions, the sacral spinal reflex mechanisms, the pudendal somatosensory and somatomotor pathways
were studied using clinical (cremasteric reflex, BCR) and electrophysiological tests (eBCR, PSEP). 2.3. Outcome Measures The cremasteric reflex is a superficial reflex found in human males that is related to emission and
psychogenic erection (whereas BCR is more related to reflex erection). It is elicited when the inner part
of the thigh is stroked. This action stimulates sensory fibers of the ilioinguinal nerve, consequently
activating the motor fibers originating in the thoracolumbar segment (i.e., L1–L2) of the genital branch
of the genitofemoral nerve, which causes the cremaster muscle to contract and elevate the testis. Like other superficial reflexes, it is simply graded as present or absent. The absence of cremasteric
reflex suggests an upper motor neuron lesion above L1–L2. The BCR consists of the contraction of the bulbocavernosus muscle in response to squeezing the
glans penis (or clitoris), and is mediated through the pudendal nerve. In case of a complete lesion,
the presence of BCR is indicative of intact S2–S4 spinal reflex arcs and loss of supraspinal inhibition,
determining an upper motor neuron lesion; its absence indicates a lower motor neuron lesion. The BCR
further helps distinguish conus medullaris from cauda equina syndromes [31]. The eBCR was recorded from the bulbocavernosus muscles using concentric needle electrodes
and elicited by delivering brief electric shocks (square-wave of 200 µs pulse-width) through a bipolar
direct-current electric stimulator (Nihon Kohden; Tokyo, Japan), equipped with ring-electrodes (placed
one at the corona and one approximately 3 cm proximal to the corona). In this way, it is possible
to explore the neural pathway involving the dorsal nerve of the penis-pudendal nerve and Onuf’s
nucleus (S2–S4), through which pelvic muscles can dramatically increase penile rigidity of an erect
penis. The stimulation intensity was seven times the individual’s sensory threshold, which is sufficient
to ensure a steady reflex response [31,32]. The scanning time was 5 ms/division, bandwidth range
was 10 Hz to 2 kHz, and persistence time was 100 ms. Electrode impedance was kept always <5 kΩ. We measured the latency (calculated based on the beginning of the stimulus and the start of reflex
response) and peak-to-peak amplitude of eBCR. Latency reflects the integrity of the entire afferent
and efferent arcs of the BCR. Amplitude reflects the increased or reduced excitability of the medullaris
neurons in the epiconus. This may be useful to demonstrate an association of upper and lower motor J. Clin. Med. 2.4. Statistical Analysis First, the Kolmogorov–Smirnov test and Shapiro–Wilk test were used to assess the normality of
distribution and the homogeneity of variance of the data, respectively (all p > 0.2). A one-way ANOVA
was used to analyze the differences in clinical and electrophysiological parameters over time. A value
of p ≤0.05 was considered statistically significant. A Bonferroni correction for multiple comparison
was applied. The comparison of eBCR and PSEP parameters was performed using a Kruskal–Wallis
rank. The datasets used and/or analyzed during the current study are available from the corresponding
author on reasonable request. 2.3. Outcome Measures 2019, 8, 658 6 of 12 neuron lesions in the lower sacral segments, which may be sometime difficult to demonstrate clinically. eBCR response was rated as abnormal if the latency exceeded 3 times the standard deviations from the
mean (about 40 ms). The integrity of the sensory pathway from penis to brain cortex (including dorsal nerve of penis,
pudendal nerve, sacral/lumbar spinal cord) was assessed by measuring PSEP latency and amplitude. The former reflects the integrity of the entire afferent pathway from penis to cortex. The latter is
a general marker of increased or reduced cortical excitability. The PSEP responses were recorded
by using the same stimulation setup as per eBCR test (Figure 3) [33]. The recording was done with
surface electrodes placed in the midline of the scalp, 2 cm behind the vertex region. A reference
electrode was placed in the midline of the forehead at the Fz region according to the 10–20 International
System (Figure 3). The intensity of the stimulus was three times the individual’s sensory threshold. The frequency of the square wave was 5 pulses/s and was averaged across 200 waves, obtaining a P41
wave. The scanning time was set to 0.2 ms/division, and the relevant persistence time was 100 ms,
with a bandwidth ranging from 10 Hz to 5 kHz. Electrode impedance was kept always <5 kΩ. Emotional status was evaluated by the Hamilton Depression Rating Scale (HDRS), a 17–21-item
scale measuring the severity of depressive and somatization symptoms, where a score of ≥15 is
generally regarded as indicative of a diagnosis of depression. All patients were assessed at baseline (T0), after the treatment (T1), and three months after the
end of the MV protocol (T4). 2.5. Ethical Approval All procedures performed in studies involving human participants were in accordance with the
ethical standards of the institutional and/or national research committee and with the 1964 Helsinki
declaration and its later amendments or comparable ethical standards. The Local Ethics Committee
approved the present study (IRCCSME ID: 32/2017). Informed consent was obtained from all individual
participants included in the study. 3. Results All patients enrolled in the study were affected by incomplete SCI (ASIA C-D). The patients had
some sensory and motor preservation (C) or useful motor function (D). Specifically, a patient would be
an ASIA C if more than half of the muscles evaluated had a grade of less than 3/5 on the Muscle Research
Council scale. If not, the person would be an ASIA D. All patients complained of mild/moderate to
severe ED, as per IIEF score, with regard to erectile and orgasmic functions. None of the patients
complained of significant depressive symptoms (HDRS < 15). Further, four of them complained of
urinary incontinence. All patients presented with weak or absent BCR, absent monolateral or bilateral
cremasteric reflex, lack or presence of sensation, mild-to-moderate spasticity (MAS 1–2) and mild pain
(VAS 1–3) of pelvic floor muscles, marked reduction of eBCR and PSEP amplitude and a clear increase
of PSEP latency. eBCR latency was within the normal range. The clinical-demographic characteristics
of the samples are reported in Table 1. J. Clin. Med. 2019, 8, 658 7 of 12 Table 1. Clinical-demographic characteristic of the sample at baseline. Table 1. Clinical-demographic characteristic of the sample at baseline. Legend: SCI—spinal cord injury; ASIA—American Spinal Injury Association; * urinary incontinence; BCR—bulbocavernosus reflex; eBCR—electrophysiological bulbocavernosus reflex;
MAS—Modified Ashworth Scale; VAS—visual Analogue Scale; IIEF—International Index of Erectile Function; PSEP—pudendal nerve somatosensory-evoked potential. J. Clin. Med. 2019, 8, 658 J. Clin. Med. 2019, 8, 658 8 of 12 All patients well tolerated MV, and completed the protocol without any adverse event. All participants showed a significant improvement in IIEF total score (F(2,18) = 88, p <0.0001), erectile
(F(2,18) = 65, p < 0.0001) and orgasmic function (F(2,18) = 78, p < 0.0001) (Figure 4). All significant
changes were present at both T1 and T4 compared to baseline (T0) (Figure 4). J. Clin. Med. 2019, 8, x FOR PEER REVIEW
10 of 14
All patients well tolerated MV, and completed the protocol without any adverse event. All
participants showed a significant improvement in IIEF total score (F(2,18) = 88, p <0.0001), erectile (F(2,18)
= 65 p < 0 0001) and orgasmic function (F(2 18) = 78 p < 0 0001) (Figure 4) All significant changes were MAS and subjective pain assessment (VAS) significantly decreased (F(2,18) = 49 p < 0.0001,
and F(2,18) = 12 p < 0.0001, respectively). All patients with weak BCR and cremasteric reflex showed
a better clinical response. The patients were labeled as “with preserved sensation” if all the stimuli
provided to the six groin and penile sectors with the monofilament were experienced all three times
correctly. Even though six-out-of-ten patients did not get “preserved sensation”, they experienced
sensory stimuli all three times correctly in 3/4-out-of-six sectors, on average. 65, p < 0.0001) and orgasmic function (F(2,18) 78, p < 0.0001) (Figure 4). All significant changes were
present at both T1 and T4 compared to baseline (T0) (Figure 4). MAS and subjective pain assessment (VAS) significantly decreased (F(2,18) = 49 p < 0.0001, and
F(2,18) = 12 p < 0.0001, respectively). All patients with weak BCR and cremasteric reflex showed a
better clinical response. The patients were labeled as “with preserved sensation” if all the stimuli
provided to the six groin and penile sectors with the monofilament were experienced all three times
correctly. Even though six-out-of-ten patients did not get “preserved sensation”, they experienced
ti
li ll th
ti
tl
i
3/4
t
f i
t Concerning the electrophysiological measures, we found a significant increase in eBCR (F(2,18) = 7.8,
p = 0.004) and PSEP amplitude (F(2,18) = 9, p = 0.002). The latency of eBCR and PSEP did not vary. All these changes were significant at both T1 and T4 compared to the baseline (T0) (Figure 4). 3. Results Age (y)
dd (m)
SCI Level
ASIA Level
BCR
eBCR
Cremasteric
Reflex
Sensory
Preservation
PSEP
MAS
VAS
IIEF
amp (µV)
lat (ms)
lat (ms)
amp (µV)
Total
A
B
65
8
T12–L1
D
no
5
34
present/asymmetric
yes
48
3
2
2
16
2
1
38
10
L1–L2
D
weak
6
35
present/asymmetric
no
/
0
1
0
18
6
2
62
12
T9–D12
C
no
6
34
absent
no
44
1
1
2
17 *
5
2
26
14
T10–L1
C
yes
11
34
present/asymmetric
yes
41
3
2
2
18
8
3
45
6
L1–L2
D
no
6
36
present/asymmetric
yes
43
4
2
3
13 *
9
0
48
10
L1–L3
C
no
8
33
absent
no
39
2
1
0
16 *
9
1
45
4
L1–L3
C
weak
11
36
present/asymmetric
no
38
1
1
2
14
12
2
22
13
T12–L2
C
no
4
34
absent
no
/
0
1
1
14
5
3
39
3
T12–L1
D
no
5
34
present/asymmetric
yes
36
3
3
3
11
6
3
48
12
T8–D10
C
weak
8
34
absent
no
42
1
1
0
18 *
7
0
Legend: SCI—spinal cord injury; ASIA—American Spinal Injury Association; * urinary incontinence; BCR—bulbocavernosus reflex; eBCR—electrophysiological bulbocavernosus reflex;
MAS—Modified Ashworth Scale; VAS—visual Analogue Scale; IIEF—International Index of Erectile Function; PSEP—pudendal nerve somatosensory-evoked potential. 4. Discussion To the best of our knowledge, this is the first attempt to improve ED by means of focal MV to
pelvic muscles in men with SCI, since previous works applied whole body vibration to potentiate weak
pelvic floor muscles and reduce urinary incontinence [19–27]. The most significant finding of our feasibility study consisted of the fact that the patients reported
an improvement in erection during sexual activity, inter-course completion, and reaching ejaculation
and orgasm (as per IIEF). A reduction in pelvic floor muscle spasticity and pain (as per MAS and VAS),
and better reflexive responses were also found, besides a significant amplitude increase in eBCR and
PSEP. Clinical changes lasted up to three months. It is likely that the improvement in ED depended on MV-induced reduction of spasticity. However,
spasticity of the muscles targeted by MV (including the bulbocavernosus, ischiocavernosus, external
sphincter, and superficial transverse perineal) can regularly enhance the rigidity of erections and the
veno-occlusive mechanism [34–36]. It is hypothesizable that MV may potentiate the mechanisms of reciprocal innervation through
the presynaptic inhibition at segmental level, consequently improving muscle synergies and
counterbalancing the segmental hyperreflexia [37–41], as suggested by the increase in eBCR amplitude. MV after effects may also depend on supraspinal mechanisms. In fact, focal MV can modify
sensorimotor cortex excitability [42–44], as suggested by the PSEP amplitude increase. This may in turn
contribute to reduce segmental hyper-excitability by harnessing the abovementioned mechanisms of
reciprocal innervation. Studies employing transcranial magnetic stimulation demonstrated that focal
MV increases or decreases motor evoked potential amplitude and short intracortical inhibition strength
in the vibrated muscles, while opposite changes occur in the neighboring muscles [33,45–47]. In this
way, pelvic MV may contribute to regulate the contraction and excitability dynamics of the pelvic floor
muscles involved in erection. Sensory inputs from penile skin, prepuce and glans conveyed by the
dorsal penis nerve may also contribute to improve erection [22,25], given that we vibrated the lower
trunk muscles, which partially contribute to sexual function dynamics. In addition, the improvement
in erection may depend on the effects of MV on the specific properties of the muscles and surrounding
connectivity tissues (including viscoelasticity), as well as on vessel vasodilatation. Vibrations can
stimulate the release of neurotransmitters and nitric oxide (NO) from the parasympathetic and
non-adrenergic non-cholinergic fibers of cavernous nerve terminals of the pudendal nerve, thus
evoking a reflexogenic erection [3,8,9,15,25]. 4. Discussion To summarize, MV may contribute to reduce segmental spasticity and improve muscle synergies,
thus improving erection, through both bottom-up (i.e., sensory inputs resetting sensorimotor
hyperexcitability) and top-down mechanisms (re-afferent descending volleys from sensorimotor
cortex to spinal centers). As additional findings, patients reported some improvement in genital sensation, even though
this did not reach statistical significance. Further assessment is mandatory to verify whether MV
may represent a non-surgical modality to improve sensation in neurological patients [23]. Moreover,
four patients reported urinary continence improvement. As we did not specifically address this issue,
we can only speculate that the contemporary use of pen- and cup-like probes to stimulate the perineum
and the lower trunk muscles allowed the deep floor muscles to be reached, which provide support for
pelvic organs, urinary continence, and intestinal emptying. J. Clin. Med. 2019, 8, 658 sensory stimuli all three times correctly in 3/4-out-of-six sectors, on average. Concerning the electrophysiological measures, we found a significant increase in eBCR (F(2,18) = 7.8, p
= 0.004) and PSEP amplitude (F(2,18) = 9, p = 0.002). The latency of eBCR and PSEP did not vary. All
these changes were significant at both T1 and T4 compared to the baseline (T0) (Figure 4). g
g
p
g
these changes were significant at both T1 and T4 compared to the baseline (T0) (Figure 4). Figure 4. Clinical and electrophysiological aftereffects of pelvic muscle vibration at T0 (baseline), T1
(post-treatment) and T4 (3 months after the end of the treatment). Significance (*) was tested between
T1 and T0 and T4 and T0 (***p < 0.001). Vertical bars indicate s.d. IIEF—International Index of Erectile
Function (A—erectile function, B—orgasmic function); eBCR—electrophysiological bulbocavernosus
Figure 4. Clinical and electrophysiological aftereffects of pelvic muscle vibration at T0 (baseline),
T1 (post-treatment) and T4 (3 months after the end of the treatment). Significance (*) was tested between
T1 and T0 and T4 and T0 (*** p < 0.001). Vertical bars indicate s.d. IIEF—International Index of Erectile
Function (A—erectile function, B—orgasmic function); eBCR—electrophysiological bulbocavernosus
reflex; MAS—Modified Ashworth Scale; VAS—visual Analogue Scale for pain esteem; PSEP—pudendal
nerve somatosensory-evoked potential. Figure 4. Clinical and electrophysiological aftereffects of pelvic muscle vibration at T0 (baseline), T1
(post-treatment) and T4 (3 months after the end of the treatment). Significance (*) was tested between
T1 and T0 and T4 and T0 (***p < 0.001). Vertical bars indicate s.d. IIEF—International Index of Erectile
Function (A—erectile function, B—orgasmic function); eBCR—electrophysiological bulbocavernosus
Figure 4. Clinical and electrophysiological aftereffects of pelvic muscle vibration at T0 (baseline),
T1 (post-treatment) and T4 (3 months after the end of the treatment). Significance (*) was tested between
T1 and T0 and T4 and T0 (*** p < 0.001). Vertical bars indicate s.d. IIEF—International Index of Erectile
Function (A—erectile function, B—orgasmic function); eBCR—electrophysiological bulbocavernosus
reflex; MAS—Modified Ashworth Scale; VAS—visual Analogue Scale for pain esteem; PSEP—pudendal
nerve somatosensory-evoked potential. J. Clin. Med. 2019, 8, 658 9 of 12 5. Limitations and Conclusions There are some limitations in the study to acknowledge. First, the small sample size does not let us
generalize our results. However, this is a feasibility study intended to prove the safety and the potential
efficacy of MV in improving ED following SCI. Further studies with a larger sample size, including
females, should be conducted to confirm the benefits of MV. Second, since improvement in erection
may be ascribed to psychogenic arousal and not solely to reflexogenic mechanisms, the effectiveness of
MV needs to be confirmed by comparing real and sham MV. Third, as the patients were followed only J. Clin. Med. 2019, 8, 658 10 of 12 up to three months after the end of the treatment, studies with a longer follow-up period are needed to
establish whether and to what extent the MV after effects last. Last, since patients’ inclusion criteria
may have influenced MV outcomes, we enrolled only men with incomplete SCI. It would be interesting
to use this protocol also in individuals with complete SCI and in those with lesions involving the sacral
spinal segments. p
g
Notably, we excluded from this study patients taking erectogenic aids, nutraceutics, antispastics,
and psychoactive drugs. This was necessary to maintain a homogeneous group and avoid
confounding effects due to these drugs. Antispastic and erectogenic aids naturally interfere with the
neurophysiological and vasculogenic mechanisms triggered by MV. For instance, baclofen can itself
cause ED, probably by over-stimulating the central and spinal inhibitory mechanisms overseeing
erectile function [9,48]; PDE-5 inhibitors may interfere with MV due to the common effect on NO
release from nerve terminals and endothelial cells in the corpus cavernosum. Many nutraceutics
target bodily vasculogenic and metabolic mechanisms, potentially altering the erectile processes when
coupled with MV. Side effects of some psychoactive drugs may impact erection, biasing MV effects [49]. Thus, other studies are necessary to better clarify the neurophysiological basis of MV effects concerning
ED treatment, also by testing MV-drug interaction and NO blood levels. y
g
g
In conclusion, pelvic floor MV seems promising to improve ED in men with incomplete SCI. Given that we designed a pilot study, larger sample randomized clinical trials, including additional
neurophysiological measures, are necessary to confirm MV as an add-on treatment to the conventional
ED pharmacological, rehabilitative, and counseling approaches. Author Contributions: “Conceptualization, R.S.C. and A.N.; methodology, R.S.C. and A.N.; software, G.L.R.;
validation, B.P., M.T. 5. Limitations and Conclusions and M.P.; formal analysis, A.N.; investigation, L.B.; resources, A.M.; data curation, A.M
and L.B.; writing—original draft preparation, A.N.; writing—review and editing, R.S.C.; visualization, R.S.C.;
supervision, P.B. and F.Q.; project administration, F.Q.; funding acquisition, P.B.”, please turn to the CRediT
taxonomy for the term explanation. Authorship must be limited to those who have contributed substantially to
the work reported. Conflicts of Interest: The authors declare that they have no competing interests. Author Contributions: “Conceptualization, R.S.C. and A.N.; methodology, R.S.C. and A.N.; software, G.L.R.;
validation, B.P., M.T. and M.P.; formal analysis, A.N.; investigation, L.B.; resources, A.M.; data curation, A.M
and L.B.; writing—original draft preparation, A.N.; writing—review and editing, R.S.C.; visualization, R.S.C.;
supervision, P.B. and F.Q.; project administration, F.Q.; funding acquisition, P.B.”, please turn to the CRediT
taxonomy for the term explanation. Authorship must be limited to those who have contributed substantially to
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training in treating stress urinary incontinence after prostate cancer surgery: A randomised controlled trial. Physiotherapy 2018. [CrossRef] 27. Rodrigues, M.P.; Paiva, L.L.; Ramos, J.G.; Ferla, L. Vibratory perineal stimulation for the treatment of female
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potentials by muscle vibration: the role of vibration frequency. Muscle Nerve 1999, 22, 1544–1558. [CrossRef]
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48. Saval, A.; Chiodo, A.E. Sexual dysfunction associated with intrathecal baclofen use: A report of two cases. J. Spin. Cord Med. 2008, 31, 103–105. [CrossRef] 48. Saval, A.; Chiodo, A.E. Sexual dysfunction associated with intrathecal baclofen use: A report of two cases. J. Spin. Cord Med. 2008, 31, 103–105. [CrossRef] 49. Gitlin, M. Sexual dysfunction with psychotropic drugs. Expert Opin. Pharmacother. 2003, 4, 2259–2269. [CrossRef] © 2019 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access
article distributed under the terms and conditions of the Creative Commons Attribution
(CC BY) license (http://creativecommons.org/licenses/by/4.0/).
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Lipid Nanoparticle Encapsulating mRNAs Encoding Human OX40L/IL-23/IL-36gamma mRNA-2752
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Definitions
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Qeios · Definition, February 2, 2020 Open Peer Review on Qeios Lipid Nanoparticle Encapsulating mRNAs
Encoding Human OX40L/IL-23/IL-
36gamma mRNA-2752 National Cancer Institute Qeios ID: 8212U4 · https://doi.org/10.32388/8212U4 Source National Cancer Institute. Lipid Nanoparticle Encapsulating mRNAs Encoding Human
OX40L/IL-23/IL-36gamma mRNA-2752. NCI Thesaurus. Code C157247. A lipid nanoparticle encapsulating mRNAs encoding for the human co-stimulatory protein
tumor necrosis factor ligand superfamily member 4 (TNFSF4; OX40 Ligand; OX40L), the
pro-inflammatory cytokines interleukin-23 (IL-23) and interleukin-36gamma (IL-
36gamma), with potential immunomodulatory and anti-tumor activities. Upon
intratumoral (IT) injection of the lipid nanoparticle encapsulated mRNAs encoding human
OX40L/IL-23/IL-36gamma mRNA-2752, the lipid nanoparticle binds to the plasma
membrane of cells and releases the mRNAs into the cell. The OX40L mRNA is then
translated by the cellular protein translation machinery to produce OX40L protein, which
is then expressed on the plasma membrane of the cells that internalized the OX40L
mRNA. OX40L binds to and activates signaling pathways downstream of its cognate
receptor tumor necrosis factor receptor superfamily member 4 (TNFRSF4; OX40), which
is expressed on activated T-cells. OX40L/OX40 binding promotes increased cytokine
production, which can induce proliferation of memory and effector T-lymphocytes
against the nearby tumor cells. The co-administration of IL-23 and IL-36gamma further
stimulates anti-tumor immune responses. Altogether, this may enhance T-cell mediated
anti-tumor immune responses thereby killing of the tumor cells. OX40L, a cell surface
glycoprotein and member of the tumor necrosis factor (TNF) ligand superfamily,
provides a co-stimulatory signal for the proliferation and survival of activated T-cells. IL-
36gamma activates innate immune cells and promotes T-helper 1 (Th1) responses,
whereas IL-23 has been implicated in Th1/Th17 immunity as well as in the modulation of
antigen-presenting cells (APCs). Qeios ID: 8212U4 · https://doi.org/10.32388/8212U4 1/1
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Depressão Pós-parto para além do Diagnóstico: Representações Sociais e Subjetividade
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Revista Subjetividades
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Resumo Este artigo tem como objetivo apresentar reflexões teóricas acerca dos processos subjetivos de uma mulher diagnosticada com depressão
pós-parto. Ele se insere em uma busca por romper com a visão reducionista da depressão pós-parto, calcada no modelo biomédico, que
a reduz a seus aspectos biológicos-sintomatológicos, resgatando as dimensões sociais, histórico-políticas e singulares, frequentemente
preteridas, presentes em sua construção. Para isto, utilizou-se da teoria da subjetividade de González Rey, em uma perspectiva histórico-
cultural, em um diálogo com a teoria das representações sociais e autores críticos ao modelo biomédico, como Foucault e Illich. O controle
por normas exercido na biopolítica, assim como o controle pelo diagnóstico resultante da medicalização da vida, configuram-se enquanto
elementos importantes para refletir acerca da produção subjetiva da depressão pós-parto. Foi feito um estudo de caso, a partir de uma
perspectiva qualitativa de base construtivo-interpretativa. No processo de construção de informação, discutimos que a depressão pós-parto
expressa a disparidade entre a maternidade idealizada socialmente e aquela subjetivamente produzida de forma singular. Assim, a depressão
pós-parto é uma produção subjetiva complexa que, para além de apenas aspectos biológicos e hormonais, é configurada pela subjetividade
individual da puérpera em questão, e pela subjetividade social marcada pelo discurso médico e a medicalização da vida, que padronizam as
experiências socialmente aceitáveis de maternidade e patologizam as demais, gerando frequentes quadros de frustração e culpa. Ademais,
argumentamos que os modelos de assistência atualmente prestados, que partem de protocolos rígidos e que têm a norma como referência,
não oportunizam uma reflexão crítica que viabilize o desenvolvimento de recursos subjetivos frente a essa experiência. Desse modo,
defende-se a necessidade de espaços que acolham as experiências das puérperas de maneira a oportunizar a reflexão crítica acerca dos
aspectos envolvidos na construção subjetiva singular da depressão pós-parto; viabilizando, assim, o desenvolvimento de recursos subjetivos. Palavras-chave: depressão pós-parto; maternidade; subjetividade; representações sociais. Daniel Magalhães Goulart (Lattes) (OrcID) Professor Adjunto do curso de Psicologia do Centro Universitário de Brasília (UniCEUB). Mestre em Educação pela Universidade de Brasília. Membro do
grupo de pesquisa “A subjetividade na saúde e na educação”, coordenado pelo Dr. González Rey, na Universidade de Brasília. e-ISSN: 2359-0777
SUBJETIVIDADES
Subjetividades Relatos de Pesquisa Rafaella Pinheiro Cesario (Lattes) (OrcID) Rafaella Pinheiro Cesario (Lattes) (OrcID) Rafaella Pinheiro Cesario (Lattes) (OrcID)
Graduanda em psicologia pelo Centro Universitário de Brasília (UniCEUB). Membro do grupo de pesquisa “A subjetividade na saúde e na educação”, coordenado
pelo Dr. González Rey em 2015. Pesquisadora-bolsista da Iniciação Científica 2015-2016 com foco nos processos subjetivos envolvidos na depressão pós-parto. (
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Graduanda em psicologia pelo Centro Universitário de Brasília (UniCEUB). Membro do grupo de pesquisa “A subjetividade na saúde e na educação”, coordenado
pelo Dr. González Rey em 2015. Pesquisadora-bolsista da Iniciação Científica 2015-2016 com foco nos processos subjetivos envolvidos na depressão pós-parto. D
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) (O ID) DEPRESSÃO PÓS-PARTO PARA ALÉM DO DIAGNÓSTICO: REPRESENTAÇÕES
SOCIAIS E SUBJETIVIDADE Postpartum Depression beyond Diagnosis: Social Representations and Subjectivity
Depresión Post-parto para allá del Diagnóstico: Representaciones Sociales y Subjetivas
Dépression Post-partum au-delà du Diagnostic: Des Représentations Sociales et de la
Subjectivité Abstract This article aims to present theoretical reflections about the subjective processes of a woman diagnosed with postpartum depression. It
is part of a quest to break with the reductionist vision of postpartum depression, based on the biomedical model, which reduces it to its
biological and symptomatological aspects, rescuing the social, historical-political and singular dimensions, often overlooked, present in
its construction. For this, González Rey’s theory of subjectivity was used in a historical-cultural perspective, in a dialogue with the theory Rafaella Pinheiro Cesario e Daniel Magalhães Goulart of social representations and authors critical to the biomedical model, such as Foucault and Illich. The control by norms exerted in the
biopolitics, as well as the control by the diagnosis resulting from the medicalization of the life, are configured as important elements to
reflect about the subjective production of the postpartum depression. A case study was carried out from a qualitative perspective with
constructive-interpretative basis. In the process of information construction, we argue that postpartum depression expresses the disparity
between socially idealized and subjectively produced motherhood. Thus, postpartum depression is a complex subjective production that, in
addition to only biological and hormonal aspects, is shaped by the individual subjectivity of the puerperal woman in question, and by the
social subjectivity marked by the medical discourse and the medicalization of life, which standardize the socially acceptable experiences
of maternity and pathologize the others, generating frequent frustrations and guilts. In addition, we argue that the assistance models
currently provided, which depart from rigid protocols and that have the norm as a reference, do not offer a critical reflection that enables
the development of subjective resources in front of this experience. Thus, we defend the need for spaces that welcome the experiences of
puerperal women in a way that allows the critical reflection on the aspects involved in the singular subjective construction of postpartum
depression; thus enabling the development of subjective resources. Keywords: postpartum depression; maternity; subjectivity; social representations. Resumen Este artículo objetiva presentar reflexiones teóricas acerca de los procesos subjetivos de una mujer diagnosticada con depresión post-parto. Está
basado en una búsqueda por romper la visión reduccionista de la depresión post-parto, calcada en el modelo biomédico, que la reduce a sus
aspectos biológicos-sintomatológicos, rescatando las dimensiones sociales, histórico-políticas y singulares, frecuentemente ignoradas, presente
en su construcción. Para eso, fue utilizada la teoría de la subjetividad de González Rey, en una perspectiva histórico-cultural, en un dialogo con
la teoría de las representaciones sociales y autores críticos al modelo biomédico, como Foucault e Illich. El control por reglas ejercido en la
biopolítica, así como el control por el diagnostico resultante de la medicalización de la vida, se configuran mientras elementos importantes para
reflexionar acerca de la producción subjetiva de la depresión post-parto. Fue hecho un estudio de caso, a partir de una perspectiva cualitativa de
base constructivo-interpretativo. En el proceso de construcción de información, discutimos que la depresión post-parto expresa la divergencia
entre maternidad idealizada socialmente y aquella subjetivamente producida de forma singular. Así, la depresión post-parto es una producción
subjetiva compleja que, para allá de solo aspectos biológicos y hormonales, es configurada por la subjetividad individual de la puérpera en
cuestión, y por la subjetividad social marcada por el discurso médico y la medicalización de la vida, que estandarizan las experiencias maternales
socialmente aceptables y ‘patologizan’ las demás, generando frecuentes cuadros de frustración y culpa. Además, argumentamos que los modelos
de asistencia actualmente presentados, que parten de protocolos rígidos y que tienen la norma como referencia, no dan la oportunidad para una
reflexión crítica que viabilice el desarrollo de recursos subjetivos ante esa experiencia. De este modo, se defiende la necesidad de espacios que
reciban las experiencias de las puérperas de manera a dar oportunidad a la reflexión crítica acerca de los aspectos envueltos en la construcción
subjetiva singular de la depresión post-parto, viabilizando, así, el desarrollo de recursos subjetivos. Palabras clave: depresión post-parto; maternidad; subjetividad; representaciones sociales. Revista Subjetividades, Fortaleza, 18(1): 79-91, abril, 2018 Résumé Cet article a le but de présenter des réflexions théoriques sur les processus subjectifs d’une femme touchée par la dépression post-partum. Le présent travail cherche rompre avec la vision réductionbiniste de la dépression post-partum, laquelle est basé dans le modèle biomédical,
ce qui la réduit aux aspects biologiques et symptomatiques. Donc, on essaye de récupérer les dimensions sociales, historiques, politiques et
singuliers, lesquels sont fréquemment négligées. Pour ceci, on a utilisé la théorie de la subjectivité de González Rey, dans une perspective
historique-culturel, dans un dialogue avec la théorie des représentations sociales et aussi avec des auteurs critiques au modèle biomédical,
comme Foucault et Illich. Le contrôle par normes exercé dans la bio-politique, et le contrôle par le diagnostic qui résulte dans la médicalisation
de la vie, constituent des éléments importants à réfléchir sur la production subjective de la dépression post-partum. Une étude de cas a été
faite, à partir d’une perspective qualitative de base constructive et interprétative. Dans le processus de construction d’information, on
discute que la dépression post-partum expresse la disparité entre la maternité socialement idéalisée et celle qui a été produite subjectivement
de façon singulier. Ainsi, la dépression post-partum est production subjective complexe qui, au-delà des aspects biologiques et hormonaux,
elle est configurée par la subjectivité individuelle de la femme qui a récemment accouché et par la subjectivité sociale marquée par le
discours médical et par la médicalisation de la vie. Ceux-ci normalisent l’expérience socialement acceptable de la maternité et transforme
des autres en pathologies, ce qui gèrent des images fréquents de frustration et de culpabilité. En outre, on soutient que les modèles de l’aides
actuellement fournies ne donne pas des possibilités de réflexions critiques qui permettent le développement des capacités subjectives face à
cette expérience, car ils sont crées par des protocoles rigides qu’ont les normes comme références. Ainsi, on défend le besoin d’espaces qui Revista Subjetividades, Fortaleza, 18(1): 79-91, abril, 2018 80 Depressão Pós-parto para além do Diagnóstico: Representações Sociais e Subjetividade accueillent les expériences des femmes puerpérales d’une manière qui soit possible faire des réflexions critiques sur les aspects impliqués
dans la construction subjective singulière de la dépression post-partum; ce qui permet, donc, le développement de ressources subjectives. Mots-clés: dépression du post-partum; maternité; subjectivité; représentations sociales. Résumé A depressão pós-parto é uma categoria médica que delimita e normatiza um fenômeno que atinge cerca de 10 a 15%
das puérperas com base em seus sintomas, tais como: estado de morbidez, irritabilidade, choro frequente, baixa energia e
motivação, falta de prazer e de interesse sexual, sentimento de desamparo e culpa, perda de concentração, bem como ideias
de morte ou suicídio ocorrendo por um período mínimo de duas semanas (Beck, 2002; Chandran, Tharyan, Muliyil &
Abraham, 2002; Lobato, Moraes &Reichenheim, 2011; Rodrigues & Schiavo, 2011; Schardosim & Heldt, 2011). Contudo,
a qualidade da experiência desse processo se configura como única; extrapolando, portanto, tal representação social de base
sintomatológica, que não dá visibilidade à dimensão emocional, singular e político-social presentes na mesma; ocultando,
assim, por detrás do diagnóstico, o sujeito que vivencia o fenômeno.ll No intuito de refletir sobre esse tema, foi feito um estudo de caso, a partir do qual foram tecidas reflexões utilizando a teoria
da subjetividade em uma perspectiva cultural-histórica, que se orienta à geração de inteligibilidade sobre a complexidade
das produções simbólico-emocionais nas condições da cultura (González Rey, 2004, 2005, 2015, 2016). Utilizou-se também
contribuições da teoria das representações sociais, que permite enfocar a maneira como o conhecimento e as produções
simbólicas acerca de determinados fenômenos são partilhados, constituindo a realidade comum, transformando ideias em
práticas, de modo a intervir nos processos de subjetivação (Moscovici, 2003). Ambas as propostas teóricas contribuem para
avançar em uma visão complexa acerca da depressão pós-parto, abrindo possibilidades para se refletir sobre suas dimensões
singulares e político-sociais, frequentemente ignoradas.l Articulada a essa reflexão teórica, a noção de biopolítica, com seus dispositivos de poder, saber e cuidado de si,
teorizados por Foucault (1980, 2004), é discutida em suas formas de controle e práticas. Além disso, aliado às formas de
controle efetivadas pela biopolítica de Foucault, encontra-se o processo de medicalização da vida, e o consequente controle
por meio do diagnóstico, dos quais fala Illich (1975), que se fazem presentes nas representações sociais dominantes e na
delimitação do que é saudável e do que é patológico. Desse modo, tais contribuições teóricas se fazem importantes, uma vez
que desempenham destacado papel nos processos de subjetivação da depressão pós-parto. Résumé Assim, defende-se a hipótese de que a depressão pós-parto é uma produção subjetiva complexa que, para além de apenas
aspectos biológicos e hormonais, é configurada pela subjetividade individual da puérpera em questão, e pela subjetividade
social marcada pelo discurso médico e a medicalização da vida, que padronizam as experiências socialmente aceitáveis de
maternidade e patologizam as demais, oportunizando sentimentos de frustração e culpa que caracterizam a representação
social dominante da depressão pós-parto.l O presente trabalho também reflete acerca da importância de uma rede de apoio que viabilize um espaço dialógico de
apoio singularizado, tornando viável, por meio deste, uma reflexão crítica – o que implica um resgate dasdimensão simbólico-
emocional, do espaço social e das representações e normas implicadas nessa produção, favorecendo o desenvolvimento de
um novo modo de vivenciar a maternidade. Revista Subjetividades, Fortaleza, 18(1): 79-91, abril, 2018 Teoria da Subjetividade e Representações Sociais: Uma Complexa Aproximação Moscovici (2003) define as representações sociais enquanto forma característica de conhecimento de nossa época, que
corresponde, por um lado, a uma substância simbólica e, por outro, à prática que tal substância produz. Dessa maneira, as
representações sociais são “um sistema de valores, ideias e práticas” (Moscovici, 2003, p. 21) que desempenham uma dupla
função. Primeiramente, de estabelecer uma ordem, permitindo que as pessoas se orientem a partir delas em seu mundo
material e social. Em segundo lugar, elas possibilitam a comunicação entre os membros de uma comunidade ao fornecer-
lhes um código que nomeie e classifique os fenômenos de seu mundo (Moscovici, 2003). Uma aproximação teórico-epistemológica entre teoria da subjetividade e a teoria das representações sociais se faz possível
mediante a interpretação desenvolvida por González Rey (2008, 2015) das representações sociais enquanto produções simbólicas
produzidas e configuradas socialmente, mas que não prescindem dos processos emocionais que se articulam complexamente
no nível do sujeito individual. Vale ressaltar que a teoria da subjetividade avança teoricamente nessa explicação, pois a
subjetividade social vai além do conceito de representações sociais, visto que integra o indivíduo como parte indissociável
desse processo, dado que considera não somente os processos simbólicos abordados pela teoria das representações sociais Revista Subjetividades, Fortaleza, 18(1): 79-91, abril, 2018 81 Rafaella Pinheiro Cesario e Daniel Magalhães Goulart (Moscovici, 2003), mas a unidade dos processos simbólicos com os processos emocionais, que se articulam no caráter dinâmico
e criador da subjetividade humana. Nesse sentido, para o autor, as representações sociais figuram como uma produção subjetiva
social, que, como tal, se organizam simultaneamente nas práticas sociais e individuais (González Rey, 2003), de modo que as
representações sociais não são vistas como causas lineares de comportamentos, mas como um sistema complexo que é fonte
de sentidos subjetivos para qualquer atividade (González Rey, 2015), caracterizando a relação entre as práticas instituídas e as
concepções, saberes e normas que instituem essa prática (Machado, Almeida & Saraiva, 2009). Nessa ótica, faz-se importante discutir as representações sociais dominantes da maternidade, uma vez que são
concebidas como fontes de produções subjetivas associadas a determinado ideal, que termina por ser amplamente influente
na experiência da puérpera. Esse processo leva, frequentemente, à normalização que se impõe desde fora, gerando uma
dissociação entre a norma e a vivência singular desse processo, prejudicando a criação de parâmetros singulares de acordo
com a própria experiência da pessoa. Teoria da Subjetividade e Representações Sociais: Uma Complexa Aproximação p
p
p
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A representação social da depressão pós-parto é fortemente marcada pelo modelo biomédico, que se baseia em uma
rígida dicotomia entre o normal e o patológico. Nesse processo, aquilo que diverge da norma, ou da representação social
hegemônica, passa a ser compreendido como inatural a partir do pressuposto de uma única maneira “saudável” de vivenciar
a experiência da maternidade (Arrais, 2005). O normal configura-se, por outro lado, a partir de um ponto de vista estatístico
quantitativo e também em um protótipo qualitativo ideal a ser atingido (Canguilhem, 2002). Nessa ótica, ignora-se todo o
aspecto cultural, social e singular presentes na produção da “doença”, como também a capacidade do indivíduo de criar seus
próprios parâmetros em consonância com sua própria experiência. A teoria da subjetividade em uma perspectiva cultural-histórica adquire valor heurístico na discussão desse tema
ao enfatizar o resgate do sujeito no cerne desse processo, permitindo teorizar sobre seu papel como constituinte e
constituído por essas representações sociais, abrindo novas possibilidades de existência perante as exigências exercidas
pela representação idealizada de maternidade. Inspirado por contribuições teóricas da psicologia soviética, tais como Vygotsky (1987, 2001) e Bozhovich (1968), bem
como por diversas inovações conceituais dessa psicologia a partir da década de 1970 (Abuljanova, 1980; Chudnovsky, 1988;
Lomov, 1978, 1984), González Rey elabora o conceito subjetividade enquanto sistema simbólico-emocional, que expressa
a mobilidade e diversidade da experiência dos indivíduos e dos grupos sociais; representando, portanto, uma produção
humana ontologicamente diferenciada sobre a experiência vivida (González Rey, 2007, 2015, 2016). Inspirado por contribuições teóricas da psicologia soviética, tais como Vygotsky (1987, 2001) e Bozhovich (1968), bem
como por diversas inovações conceituais dessa psicologia a partir da década de 1970 (Abuljanova, 1980; Chudnovsky, 1988;
Lomov, 1978, 1984), González Rey elabora o conceito subjetividade enquanto sistema simbólico-emocional, que expressa
a mobilidade e diversidade da experiência dos indivíduos e dos grupos sociais; representando, portanto, uma produção
humana ontologicamente diferenciada sobre a experiência vivida (González Rey, 2007, 2015, 2016). A subjetividade expressa, enquanto “fenômeno complexo produzido de forma simultânea no nível social e individual”
(González Rey, 2003, p. 202), por meio dos sentidos subjetivos, os diversos aspectos “objetivos” da vida social imbricados
em sua formação (González Rey, 2005). Os sentidos subjetivos representam unidades simbólico-emocionais (González Rey,
2009) produzidas em nossa experiência, em um fluxo inconsciente e dinâmico, expressando a qualidade da relação do sujeito
em determinado momento da vida social (González Rey, 2005). Revista Subjetividades, Fortaleza, 18(1): 79-91, abril, 2018 Revista Subjetividades, Fortaleza, 18(1): 79-91, abril, 2018 Teoria da Subjetividade e Representações Sociais: Uma Complexa Aproximação Essa definição, contudo, é contestada por González Rey, que define saúde como uma produçãos imbólica, cultural e Revista Subjetividades, Fortaleza, 18(1): 79-91, abril, 2018 82 Depressão Pós-parto para além do Diagnóstico: Representações Sociais e Subjetividade historicamente organizada, por meio de processos institucionais e de práticas sociais imbricadas nos posicionamentos frente
a essa importante dimensão da vida humana, tanto por parte das pessoas, como das sociedades (González Rey, 2004; Costa
& Goulart, 2015). Assim, a categoria diagnóstica “depressão pós-parto” não pode ser dissociada da medicalização da vida,
do controle exercido pela norma e pelo diagnóstico, assim como os aspectos subjetivos individuais que se fazem presentes
na configuração subjetiva dessa experiência (Goulart & González Rey, 2016; Goulart, 2017). A partir de tal perspectiva, a
saúde é vista não como produto, mas como processo que não corresponde a um estado de normalidade (González Rey, 2011). historicamente organizada, por meio de processos institucionais e de práticas sociais imbricadas nos posicionamentos frente
a essa importante dimensão da vida humana, tanto por parte das pessoas, como das sociedades (González Rey, 2004; Costa
& Goulart, 2015). Assim, a categoria diagnóstica “depressão pós-parto” não pode ser dissociada da medicalização da vida,
do controle exercido pela norma e pelo diagnóstico, assim como os aspectos subjetivos individuais que se fazem presentes
na configuração subjetiva dessa experiência (Goulart & González Rey, 2016; Goulart, 2017). A partir de tal perspectiva, a
saúde é vista não como produto, mas como processo que não corresponde a um estado de normalidade (González Rey, 2011). A dicotomia normal-patológico expressa uma concepção de mundo como externo ao sujeito, como se não estivéssemos
implicados nele de maneira orgânica por meio do nosso funcionamento (González Rey, 2004). O normal deixa de ser
a capacidade do indivíduo de produzir suas próprias normas na sua relação concreta com seu meio de acordo com
suas possibilidades e limitações - processo que Canguilhem (2002) denomina normatividade biológica - para ser uma
normatividade social, marcadamente externa ao sujeito. ,
j
Ao estabelecer a dicotomia saúde/doença e normal/patológico, o sujeito se depara com uma perspectiva rígida e arbitrária
de vivenciar suas experiências, em que qualquer maneira que divirja da norma é marginalizada à esfera do patológico, não
levando em consideração a implicação do sujeito em seus processos - o que pode levar à mortificação do eu (Goffman,
2001). Teoria da Subjetividade e Representações Sociais: Uma Complexa Aproximação Ademais, algumas características tidas como sintomas são eleitas e totalizadas, tornando-se definidoras do sujeito que
passa a ser considerado doente (Moysés, 2001). Vale ressaltar que o conceito de normalidade é histórico e cultural, somente
adquirindo sentido por meio dos discursos e representações ali presentes. Portanto, a condição de doença, do patológico,
depende em si de seu contexto – é a partir da cultura que se denomina a norma. Considerando o explícito acima, a perspectiva aqui adotada permite alternativas teóricas e epistemológicas para
compreender de forma complexa a configuração subjetiva da depressão pós-parto, uma vez que, de acordo com Morin (1983,
p. 35), “o que me interessa é o fenômeno multidimensional (...) Tudo o que é humano é ao mesmo tempo físico, sociológico,
econômico, histórico, demográfico; interessa, pois, que esses aspectos não sejam separados”. E conhecer um fenômeno, ou
condição social, somente se faz possível por meio do “sistema disperso de suas consequências sobre a constituição subjetiva
daqueles que a compartilham” (González Rey, 2005, p.14). Tal compreensão permite avançar em configurações subjetivas
singulares do processo da maternidade, para além de suas normatizações sintomáticas e de seu divórcio com as dimensões
sociais e culturais que o constituem, viabilizando investigar o tema de forma complexa. Revista Subjetividades, Fortaleza, 18(1): 79-91, abril, 2018 Teoria da Subjetividade e Representações Sociais: Uma Complexa Aproximação Tais unidades se organizam em configurações subjetivasque,
por sua vez, expressam formações simbólico-emocionais relativamente estáveis em relação a processos, acontecimentos e
figuras significativos para a pessoa, ou grupo social. Tais conceitos se revelam importantes, pois permitem refletir acerca da
produção singular da puérpera em permanente tensão com aspectos sociais dessa produção. A subjetividade é composta por níveis integrantes e inalienáveis expressos pela subjetividade individual e social, uma
vez que o caráter relacional e institucional da vida humana resulta na configuração subjetiva dos sujeitos, assim como dos
espaços sociais onde essas relações se configuram (González Rey, 2003). A subjetividade social expressa produções simbólico-
emocionais configuradas nos diferentes espaços sociais, permitindo que grupos, instituições e culturas se identifiquem
pelos seus aspectos subjetivos convergentes. A subjetividade social se apresenta nas representações sociais, nas normas,
nas crenças, na moral que caracteriza os mais diversos espaços sociais em que vivemos. Esses são os mesmos elementos
presentes na subjetividade individual, com a diferença de que a produção de sentido nesse nível é configurada pelos aspectos
singulares de indivíduos concretos (González Rey, 2005). Encontra-se aí o valor heurístico da teoria da subjetividade: ao
enfatizar a qualidade recursiva entre o social e individual, bem como o caráter gerador e ativo da subjetividade, inaugura
uma nova concepção da categoria sujeito. Rompe-se com uma perspectiva individualizada de sujeito, de modo que ele passa
a ser concebido a partir de sua relação com o social. Nesse sentido, o indivíduo é um momento da experiência social, pois os
espaços sociais geram formas de subjetivação que se concretizam nos diferentes sujeitos a partir de suas produções, sempre
em tensão com suas produções subjetivas individuais. Desse modo, a relação recursiva entre essas duas faces da subjetividade não se dá de forma linear e causal, pois a
subjetividade implica uma produção humana que evidencia uma alternativa às imposições da realidade (González Rey, 2009). A subjetividade individual é sempre atravessada pela subjetividade social, entretanto, os sentidos subjetivos produzidos
dependem dos modos que essa relação adquire (González Rey, 2003). Ser saudável, na ótica biomédica, é visto como não ter sintomas, instaurando a dicotomia saúde/doença e individual/
social. A Norma, o Poder e o Diagnóstico: Um Olhar Histórico 83 Rafaella Pinheiro Cesario e Daniel Magalhães Goulart Essa incursão histórica nos auxilia a compreender o processo pelo qual as práticas e representações sociais referentes à
maternidade foram construídas, assim como a patologização daquilo que diverge do socialmente almejado, evidenciando a
relação indissociável entre as produções singulares com seu contexto histórico, político e cultural. Ariés (1978), em A História Social da Criança e da Família, destaca que, até o século XVI, não há registros, icônicos nem
escritos, que fizessem referência à criança, demonstrando que o conceito de infância e de maternidade, tal qual conhecemos,
é uma construção social recente. A noção atual de família, consequentemente de maternidade, foi sendo concebida
concomitantemente ao surgimento do conceito de infância, que, por sua vez, acompanhava mudanças sociais e econômicas
(Ariés, 1978). A reflexão de Ariés explicita como as mudanças de conceito de família modificaram sua ontologia e práticas
sociais. Por exemplo, de acordo com um tenente da polícia parisiense de 1780, das 21 mil crianças que nasceram em Paris,
apenas mil foram amamentadas pelas mães, tendo mais de 19 mil delas partido para longe de suas mães para serem amamentadas. Tal atitude atribui-se, com frequência, à alta taxa de mortalidade infantil da época, que contribuía para um distanciamento em
relação aos filhos. Essa prática social expressa uma representação social da maternidade, englobando aí suas obrigações,
distintas das atuais (Badinter, 1985), evidenciando que mudanças nas tendências sociais que compõe a subjetividade social
geram novas representações, que delimitam o que é socialmente aceito enquanto experiência da maternidade.i
É A crítica de Rousseau (2004) sobre a prática de mandar os filhos para serem amamentados presente em Émile ilustrou
o início de uma nova representação social da maternidade ao endossá-la e ao associar uma boa mãe àquela que se sacrifica
em nome da maternidade. Foi através dessa mudança na representação de maternidade que se instaurou a “injunção
obrigatória do amor materno” (Badinter, 1985), o que teve implicação na maneira como os indivíduos e grupos sociais
vivenciam a experiência da maternidade. Assim, a noção de “instinto materno” pode ser vista como desdobramento de um dispositivo biopolítico que extrapola
o âmbito da ciência, tornando-se a representação social dominante e normatizante acerca da maternidade. A Norma, o Poder e o Diagnóstico: Um Olhar Histórico Isto é expresso
na própria definição do dicionário Aurélio em sua edição de 1867, que define a maternidade como: “(...) força biológica
que atua, em geral, de modo inconsciente, mas com finalidade precisa, e independentemente de qualquer aprendizado (...)
Tendência natural; aptidão inata” (Arrais, 2005, p. 41). Tal definição, ainda que contestada (Badinter, 1985), exemplifica
como essa visão foi naturalizada, impregnando o senso comum e resultando na imposição arbitrária de uma experiência
determinada, a priori, de uma vivência singular. Pode-se observar que, ao longo do tempo, expressando fatores sociais, econômicos e políticos, houve diversas mudanças
acerca da representação social do ideal de maternidade a ser vivenciado. Tais práticas sociais “tomam corpo e tomam o próprio
corpo em esquemas de comportamento, em conjuntos técnicos, em instituições que, atuando de forma articulada, operacionalizam
a transmissão e a difusão de modos específicos de subjetivação” (Vasconcelos et. al., 2011, p. 10). A representação social da
depressão pós-parto refere-se a um conjunto de sintomas que antagonizam a representação social dominante da maternidade,
relacionada a um amor instintivo, realização e felicidades plenas, naturalizando a maternidade como instinto materno.i As experiências que se distanciam desse amor instintivo se configuram como forma anormal, adoecida, de vivenciar
a maternidade (Arrais, 2005), visando localizar no indivíduo a sede do problema, o desvio do instituído, ignorando toda a
dimensão social, cultural e política dessa produção. Desse modo, a concepção de um sujeito individualizado, ponto central
da sociedade capitalista (Furtado, 2007), dicotomiza com suas produções singulares da dimensão social inexoravelmente
presente em tais produções. Cabe, assim, à psicologia, à medicina, à família, entre outras instituições, o papel de agentes do
poder disciplinar, que prezam pelo retorno à “normalidade”. Dessa forma, a dicotomia entre o ideal de maternidade e a experiência adoecida de maternidade, expressa pela depressão
pós-parto, sustenta uma representação social dominante e práticas sociais que ignoram as diversas formas possíveis de vivenciar
essa experiência, a depender da produção subjetiva de cada puérpera (Arrais, 2005). Nesse contexto, o tratamento e cuidado
prestados a puérperas diagnosticadas com depressão pós-parto busca a eliminação dos sintomas e retorno à “normalidade”
sem se atentar para as produções subjetivas que a levaram a ser enquadrada em tal diagnóstico. Os protocolos rígidos e
inflexíveis tampouco proporcionam um espaço dialógico que oportunize à puérpera refletir sobre os próprios processos e
gerar seus próprios caminhos singulares de produção de saúde. A Norma, o Poder e o Diagnóstico: Um Olhar Histórico A partir da perspectiva adotada, é importante fazer uma incursão histórica de modo a enfatizar a maneira como tal
constituição histórica se faz presente nas produções sociais e individuais associadas à produção da depressão pós-parto. A partir do século XVIII, como desdobramento da Revolução Industrial Inglesa e da nova ordem econômica e política
por ela instaurada, o capitalismo, instaurou-se também uma nova forma de normatização, uma vez que a saúde individual
e o rendimento passaram a ser considerados indispensáveis ao bom funcionamento da engrenagem social (Foucault,
1980). Assim, institui-se um processo de normalização e controle, por meio de diversos dispositivos, que resultam em um
importante elemento na produção de subjetividades, tanto individuais quanto sociais, bem como das representações sociais
de maternidade, e, consequentemente, na produção da depressão pós-parto.i Nesse contexto, “a medicina passou a ser uma oficina de reparos e manutenção, destinada a conservar em funcionamento o
homem usado como produto não humano” (Illich, 1975). Não só a medicina, mas a psicologia e também a própria família, passam
a se encarregar da normalidade, reduzindo a complexidade e amplitude de formas de vivenciar fenômenos sociais à dicotomia
normal/patológico. Essa apropriação dos discursos por parte da medicina implica não somente em uma produção de saber, mas
em uma produção de poder, que cria espaços sociais de subjetivação engendrados por normas, discursos e práticas (Foucault,
1980, 2004). De acordo com Canguilhem (2002), o doente é doente por aceitar apenas uma norma. A norma em si não é o
problema, e sim o fato de que diz respeito a valores morais naturalizados. A normatização da maternidade acarreta no consequente
exílio daquilo que difere desse ideal na esfera do patológico, ignorandoa multiplicidade e singularidade dos processos subjetivos. Assim, a depressão pós-parto é, historicamente, produzida nessa relação de poder que termina por delimitar modos de
viver e de existir no mundo (Vasconcelos, Zago, Machado & Ross, 2011). A consequente imposição da representação social
hegemônica naturalizada gera processos de normatização que produzem intenso sofrimento àquelas que divergem desse
ideal. A medicina e a psicologia passam a ocupar, na nossa sociedade moderna, um lugar social de dispositivos disciplinares
que enxergam os fenômenos que divergem da norma através da lente da anormalidade, buscando corrigir tal patologia
reintegrando-os à norma por meio de seus cuidados (Foucault, 2004). Desse modo, dificulta-se a possibilidade de gerar
sentidos subjetivos relacionados à valorização da realidade existencial de cada uma. Revista Subjetividades, Fortaleza, 18(1): 79-91, abril, 2018 A Norma, o Poder e o Diagnóstico: Um Olhar Histórico Percebe-se, portanto, um duplo processo de normalização,
que se configura a partir da norma e da captura dos processos de singularização, consolidando o discurso biomédico como
dispositivo disciplinar que desempenha um importante papel nos processos de subjetivação individuais e sociais. A redução de fenômenos complexos a uma dimensão biológica desdobra-se na medicalização da maternidade,
produzindo consequências, tais como o controle social pelo diagnóstico, que leva as puérperas a portarem-se como objeto
pelo qual o médico é responsável, e perdendo, assim, sua autonomia e liberdade, o que Illich denomina de iatrogenêse social
(Illich, 1975). Ao normatizar e prescrever uma maneira padronizada de vivenciar a maternidade, a experiência vivida que
sobrepuja a normatizada é diagnosticada, tornando a puérpera objeto de conhecimento e tratamento médico, que tem sempre
como referencial a norma. Retira-se, assim, a puérpera de seu lugar de sujeito de sua experiência – o que, em consonância
com o discurso capitalista-individualizante, localiza exclusivamente no indivíduo o problema e alimenta, desse modo, a Revista Subjetividades, Fortaleza, 18(1): 79-91, abril, 2018 84 Depressão Pós-parto para além do Diagnóstico: Representações Sociais e Subjetividade culpa sentida. Ademais, a posição de paciente, objeto do saber médico, que nada sabe sobre si, minimiza a possibilidade de
que desenvolva por si, a partir dos sentidos subjetivos que emergirem, seu próprio modo de vivenciar a maternidade. culpa sentida. Ademais, a posição de paciente, objeto do saber médico, que nada sabe sobre si, minimiza a possibilidade de
que desenvolva por si, a partir dos sentidos subjetivos que emergirem, seu próprio modo de vivenciar a maternidade. Apesar dos saberes e poderes que sustentam essa dicotomia e que pretendem domar a subjetivação, tornando-a
homogênea, as experiências singulares lhe extrapolam, perfazendo uma história de resistência (Cardoso, 2005) e demandando
novos olhares para contemplar o fenômeno. Exalta-se a necessidade de resgatar a possibilidade de vivenciar a experiência
da maternidade de diversas maneiras de acordo com a subjetividade (individual e social), interesses, valores, necessidades
e possibilidades de cada mulher. Fica, assim, expressa a importância de criar novas zonas de sentido, ou seja, formas de inteligibilidade acerca da realidade
produzidas na pesquisa e que não esgotam a questão, mas abrem possibilidades de aprofundamento na construção teórica
(González Rey, 2007), a partir de uma visão complexa, explorando como os aspectos psicossociais, históricos, políticos, culturais
e singulares se articulam na experiência da pessoa. Método A presente pesquisa teve como base a epistemologia qualitativa (González Rey, 1997, 2005), que defende o caráter
construtivo-interpretativo do conhecimento, a legitimidade do singular na pesquisa científica e o conhecimento como
processo de comunicação. Tal baliza epistemológica propõe a metodologia construtiva-interpretativa como referencial,
cujo objetivo é a construção de modelos teóricos compreensivos referentes ao fenômeno pesquisado, e não uma
apropriação linear de uma realidade.i Nessa perspectiva, a pesquisa científica visa à abertura de novas zonas de sentido sobre o fenômeno estudado, sem
buscar esgotá-lo em todas suas possibilidades (González Rey, 2005). Consequentemente, o singular se torna fonte legítima
de informações que contribuem para o modelo teórico resultante da pesquisa. De acordo com esse referencial, a produção
subjetiva da participante em relação à depressão pós-parto não se dá de forma direta e explicitamente relacionada a
esse fenômeno, mas encontra-se “dispersa na produção total da pessoa” (González Rey, 2005, p. 32), necessitando de
interpretações e construções, de forma a articulá-las e produzir construções teóricas acerca do fenômeno. i Este artigo foi aprovado como parte de um projeto de iniciação científica, coordenado pelo professor Fernando González
Rey e aprovado pelo Comitê de Ética em Pesquisa por meio do Parecer nº. 1.372.682. A pesquisa se desenvolveu com uma participante, com a qual se teve encontros pessoalmente e virtualmente no decorrer
de quatro meses. O contato foi feito por meio de indicação de uma pessoa conhecida em comum, de modo que a escolha da
participante se deu por ela ter se disponibilizado a participar do estudo. C. é uma mulher de 42 anos, nascida em uma cidade do interior de Minas Gerais, mas que vive em Brasília desde os seis
anos de idade. Vive com o marido, com quem é casada há 11 anos, e sua filha de sete anos. Sua família de origem é composta
por um pai, uma mãe e quatro irmãos, com quem ela mantém contato frequente. Ela é formada em Administração de
Empresas e atualmente é servidora pública. Cinco anos antes da gravidez, C. havia sido diagnosticada com depressão, bem
como com síndrome do pânico. Durante esse período, teve acompanhamento médico e psicológico, apresentando melhora
gradual após tais intervenções. Somente a partir da gravidez, mais especificamente após o parto, C. voltou a vivenciar
situações de intenso sofrimento psíquico. A Norma, o Poder e o Diagnóstico: Um Olhar Histórico O estudo de caso permite tal imersão profunda e complexa resgatando os
sentidos subjetivos emergidos na singularidade dessa experiência. Desse modo, o presente estudo propõe investigar de que
modo as representações sociais da maternidade e do próprio diagnóstico de depressão pós-parto, bem como os elementos
singulares da história de vida da puérpera, articulam-se na produção subjetiva da depressão pós-parto da participante.i Pretende-se, assim, contribuir para a desmistificação da representação social da depressão pós-parto como modo
patológico de vivenciar a maternidade, assim como dar subsídios para uma atenção integral à puérpera, voltando um olhar
complexo a esse fenômeno complexo. A partir disso, dar legitimidade à singularidade dessa vivência, resgatando a puérpera
como sujeito de sua experiência e devolvendo a ela a possibilidade de desenvolver por si, a partir dos sentidos subjetivos
que emergirem de seu próprio modo de vivenciar a maternidade. Revista Subjetividades, Fortaleza, 18(1): 79-91, abril, 2018 Construção da Informação No primeiro encontro da participante com a primeira autora deste texto, foi perguntado como, na concepção dela, havia
se iniciado seu processo depressivo. Diante de tal questionamento, ela respondeu: Um dia, meu marido viajou, e aí tive uma crise de referência mesmo (...) Tipo, bom, eu achava isso (seu modo de pensar e agir
na vida) correto, aí eu comecei assim: será que isso é correto mesmo? Aí eu passei a questionar tudo que eu acreditava, pra
ver se era isso que eu queria pra ela (bebê). E eu comecei a pensar umas coisas muito doidas. Assim, eu ficava em pânico de
influenciar a formação do que uma pessoa pensa. Parecia que eu não sentia... É muito poder, sabe? Aquilo me assustou muito. Tem isso, de se cobrar, mas mais que isso, o que ficou pra mim foi: quem eu sou? Quem eu sou para, agora, influenciar uma
coisinha que não tem nada escrito? Quem eu sou? O que eu acredito de verdade? Quais são os meus valores? E era tudo... Quais são meus valores? E, quando eu me fiz essa pergunta, eu me desestruturei. Ela disse ainda: “Eu não sei se esse negócio de ser mãe te muda de posição na vida, que aí de repente você tem que
dar conta do outro. Aí você fala, poxa, será que eu dou conta de mim? Aí tive uma crise de referência mesmo”. Tais trechos
expressam claramente a insegurança de C. em relação a ser mãe. No entanto, as associações feitas entre ser mãe e questões
mais gerais de sua pessoa podem ser consideradas como indicador de sentidos subjetivos relacionados à insegurança e baixa
autoestima em relação à sua constituição como pessoa. Os trechos acima citados também são entendidos como indicadores
de que a representação social dominante, da mãe como a principal figura responsável pelos filhos, se faz presente na produção
subjetiva de C. com relação à maternidade, configurando um ideal que ela se cobra atingir. Além disso, em ambas as falas,
estão presentes questões de gênero, que delimitam os papéis do que é considerado feminino, incluindo nesse escopo a
mulher/mãe como principal figura responsável pelos filhos. Essa concepção tradicional de gênero se desdobra na assunção
de que a formação da filha é estritamente sua responsabilidade; desconsiderando, nesse processo, por exemplo, os papéis
desempenhados pelo pai da criança – seu marido. Método Além da dinâmica conversacional, foi utilizado o “complemento de frase”, instrumento que apresenta indutores curtos a
serem preenchidos pelo sujeito (González Rey, 2005) com o intuito de estabelecer outra via de acesso aos sentidos subjetivos
e à experiência singular da participante. Pelo fato de os indutores serem bastante curtos, é possível utilizar uma ampla gama
deles, abordando diferentes temáticas, favorecendo expressões sobre diversas esferas da vida do participante. Método i Após completar oito anos de matrimônio e ter se estabelecido financeiramente, tendo “viajado o que queria viajar, passeado
o que queria passear”, C. decidiu ter filhos. Foi uma decisão conjunta com seu parceiro, de modo que, poucos meses depois do
planejamento, engravidou. Antes da gravidez, não se encontrava em depressão, tampouco apresentava sintomas da síndrome
do pânico, tão frequentes outrora. Estes somente foram deflagrados no sexto mês de gravidez, agravando-se no pós-parto.i A construção do cenário de pesquisa, definido como a “criação de um clima de comunicação e de participação que
facilita o envolvimento por parte das pessoas” (González Rey, 2005, p. 84), iniciou-se pelo contato virtual que explicava o
tema da pesquisa, o que resultou no interesse de contribuir por parte da participante, que demonstrava desejo de dividir sua Revista Subjetividades, Fortaleza, 18(1): 79-91, abril, 2018 85 Rafaella Pinheiro Cesario e Daniel Magalhães Goulart experiência. Os encontros presenciais ocorreram na casa da participante, o que proporcionou a ela conforto e liberdade por
estar em um ambiente familiar, permitindo paulatinamente o estabelecimento de um vínculo por meio do diálogo. experiência. Os encontros presenciais ocorreram na casa da participante, o que proporcionou a ela conforto e liberdade por
estar em um ambiente familiar, permitindo paulatinamente o estabelecimento de um vínculo por meio do diálogo. De acordo com a metodologia construtivo-interpretativa, os instrumentos caracterizam-se pela criação de recursos
relacionais por parte do pesquisador, cujo objetivo é provocar a expressão do participante. Conforme expressa González
Rey (2005, p. 42), o instrumento expressa uma “via legítima para estimular a reflexão e a construção do sujeito a partir de
perspectivas diversas”, resultando no tecido de informações a partir do qual o pesquisador constrói novos questionamentos
e instrumentos para avançar no modelo teórico em desenvolvimento. Para tanto, foi utilizado como instrumento a “dinâmica conversacional” (González Rey, 2005), que consiste em instigar
o participante, por meio do diálogo, criando assim um “tecido de informação” significativo para a construção dos sentidos
subjetivos relacionados ao fenômeno estudado. Ao longo desse processo, tanto os participantes como o pesquisador, integram
suas experiências, suas dúvidas, suas tensões, suas emoções no processo, o que facilita a emergência de sentidos subjetivos ao
longo das conversações, que vão tomando formas distintas, nas quais a riqueza da informação se expressa numa multiplicidade
de formas diferentes que vão se organizando em representações teóricas construídas pelo pesquisador (González Rey, 2005). Revista Subjetividades, Fortaleza, 18(1): 79-91, abril, 2018 Construção da Informação Esse aspecto nos leva a questionar a qualidade das relações pessoais que
C. estabelece em sua vida, bem como a existência de uma rede social de apoio.i Ao abordar o tema do momento de nascimento da filha C. diz: Outra coisa, a coisa do amor... Essa questão também, a gravidez e a maternidade é muito romanceada, né? Nossa! A mulher
grávida fica numa aura! Não, “e aí, quando você olha a carinha, você se apaixona, não sei o que”. Eu olhei a carinha e eu
falei uhm... Você tem um instinto de “meu Deus, tá chorando, tenho que dar comida!”, um instinto de defesa. Mas eu ficava
cobrando, assim, “eu tenho que sentir aquele amor”, né, que quando você olha já transforma. Eu não senti aquele amor. Assim,
no meu caso, nem sei o que eu tava sentindo. Aí assim, “não tô amando esse bebê. Meu Deus, não tô amando esse bebê, que
nem todo mundo ama”. Que culpa! Não tô amando, tô cuidando, mas... Revista Subjetividades, Fortaleza, 18(1): 79-91, abril, 2018 86 Depressão Pós-parto para além do Diagnóstico: Representações Sociais e Subjetividade A culpa relatada por C. pode ser entendida como indicador da dissociação entre sua produção subjetiva individual e
a idealização do que é ser mãe, ambas atravessadas pela representação social hegemônica da maternidade, que ela própria
cultiva. É marcante como C. não se posiciona ativamente a partir de sua vivência singular, mas se submete a esse ideal, que
passa a cobrar de si mesma. As representações sociais hegemônicas acerca da maternidade ilustram somente uma de suas inúmeras facetas,
reduzindo-a, assim, à maneira romanceada que é retratada e a “injunção obrigatória do amor materno” (Badinter, 1985). Ao se deparar com uma maneira distinta de vivenciar a maternidade, C. se viu fragilizada e sem confiança para assumir a
forma singularizada que estava vivenciando a maternidade. A posição de submissão de C. em relação à tal representação
social hegemônica é indicador de uma produção de sentidos subjetivos associada à insegurança que sente em si mesma
enquanto pessoa, reforçando e naturalizando esse ideal de maternidade socialmente construído. Nesse processo, ela se vê sem
condições para emergir enquanto sujeito de sua experiência, não conseguindo abrir um campo de subjetivação alternativo à
normatização social, que poderia lhe permitir um caminho de desenvolvimento subjetivo singularizado (González Rey, 2005). Ao longo dos encontros, C. relatou diversas situações que frustraram suas expectativas, distanciando-a do ideal materno. Construção da Informação A primeira experiência na qual se sentiu frustrada foi a gravidez. A gravidez - que, de acordo com o relato da participante,
“é muito romanceada. Dizem que a mulher grávida fica numa aura (...) É tudo lindo” - foi uma experiência de bastante
desconforto, sendo distinta do que ela imaginava: “engravidei, passei muito mal na gravidez, enjoei muito, não passou,
fiquei com várias manchas, me questionando se dava conta... Não tinha nada a ver com aquela aura”. É interessante perceber
que, apesar de C. por vezes racionalmente criticar essa representação “romanceada” da maternidade, tal crítica é dissonante
da sua produção subjetiva de cobrar-se e culpar-se por não se adequar à norma social (Canguilhem, 2002), o que sugere que
essa crítica expressa valores carentes de sentido subjetivo, representando apenas uma posição racional despersonalizada
assumida perante as representações sociais dominantes presentes na subjetividade social (González Rey, 2005). A discrepância entre sua vivência e sua expectativa levou C. a se questionar não somente acerca de sua capacidade
para ser mãe, mas acerca de si mesma, levando-a a se “desestruturar completamente”. C. buscou, então, “um médico para
me ajudar”. É interessante que a primeira reação de C. ao se sentir desorganizada subjetivamente tenha sido buscar a ajuda
especializada de um médico, e não o apoio de pessoas afetivamente próximas a ela. Tal ação pode ser interpretada como uma
expressão do monopólio radical da medicina (Illich, 1975), uma vez que, ao vivenciar a maternidade de forma distinta da
idealizada, C. a concebe como uma forma doente de experimentá-la, que requer, portanto, tratamento e cura. É interessante perceber que, mais do que buscar diferentes formas de compreender a sua própria experiência e, a partir
de então, fomentar recursos subjetivos que a poderiam ajudar nesse momento, C. parece se submeter à lógica patologizante
do modelo biomédico (Arrais, 2005; Illich, 1975), buscando se livrar daquilo que a está distanciando da normalidade. Os
diagnósticos dados e relatados à participante, bem como as perguntas feitas, exacerbaram o pânico que já estava sentindo:
“Eu fui aos médicos e eles perguntavam se a televisão estava conversando comigo, aí eu ficava com medo de assistir
televisão. Eu sabia que isso era coisa de doido, e eu falava: ‘vai que a televisão conversa comigo!’”. A fala anterior é mais um indicador da insegurança de C. em si mesma, que, nesse processo, foi se generalizando e
tomando corpo em diversas dimensões de sua vida. Revista Subjetividades, Fortaleza, 18(1): 79-91, abril, 2018 Construção da Informação vive um intenso conflito entre o que idealizava para esse momento e as condições
concretas nas quais ele se deu. Algo a ser destacado é que, para além da frustração e culpa oriundas da impossibilidade de ter
um parto normal, não foi proporcionado a C. um espaço dialógico, por parte da equipe profissional que a atendeu, no qual seu
sofrimento fosse acolhido e fosse possível construir, mediante a constituição de relações de confiança e vínculo, um espaço
para ela se expressar. Tal espaço relacional estaria afinado a um tratamento que parta da experiência concreta da puérpera, e
não de um protocolo padronizado definido de forma apriorística – o que não parece ter acontecido com C. ii filme de terror”. Percebe-se, portanto, que C. vive um intenso conflito entre o que idealizava para esse momento e as condições
concretas nas quais ele se deu. Algo a ser destacado é que, para além da frustração e culpa oriundas da impossibilidade de ter
um parto normal, não foi proporcionado a C. um espaço dialógico, por parte da equipe profissional que a atendeu, no qual seu
sofrimento fosse acolhido e fosse possível construir, mediante a constituição de relações de confiança e vínculo, um espaço
para ela se expressar. Tal espaço relacional estaria afinado a um tratamento que parta da experiência concreta da puérpera, e
não de um protocolo padronizado definido de forma apriorística – o que não parece ter acontecido com C. ii A postura da equipe profissional expressa precisamente a rigidez das intervenções profissionais aprisionadas ao referencial
da normalidade (Foucault, 1980). “E as enfermeiras disseram assim: não fica nervosa, senão seu leite vai secar”, aumentando
ainda mais a pressão já sentida por C. em alcançar certo ideal de mãe. Nesse caso, faz-se necessário questionar a atenção que
lhe foi prestada, que operou por meio de uma violência invisível e sutil, legitimada pela subjetividade social da instituição
na qual é praticada, agravando seu quadro de sofrimento ao invés de apoiá-la e auxiliá-la a gerar novos recursos subjetivos. Dito e feito, meu leite secou. Com cinco dias, ela tentava mamar e eu chorava e chorava. Aí, chamei uma dessas enfermeiras
que ajudam com o aleitamento e ela disse que eu não tinha leite. E aquilo ali me fez muito mal, assim, porque eu me
senti muito mal. Construção da Informação E ela teve que tomar leite de soja e ficou com o peitinho crescido, por causa do hormônio da soja. E uma culpa, uma culpa... A culpa que C. refere sentir em sua experiência como mãe passa a representar, a partir de sua produção subjetiva, um
fracasso total como pessoa. Nesse processo, ela ocupa cada vez mais o lugar de objeto de saber médico, ao qual ela deve
estar submetida via prescrições e proscrições que, teoricamente, irão possibilitar o retorno a um “estado de normalidade”
(Illich, 1975). Assim, muito mais do que possibilitar novos caminhos de desenvolvimento para C., as práticas em torno do
diagnóstico de depressão pós-parto culminaram na intensificação de seu sofrimento, visto que reforçaram sua condição de
passividade, insegurança e medo no processo de sua maternidade. Construção da Informação Essa coisa do aleitamento e aquela carteirinha do ministério da saúde: “o que fazer para seu filho crescer
emocionalmente saudável? Amamente exclusivamente no peito por até seis meses. O que fazer para seu filho ter uma dentição
saudável? Amamente”... É tudo muito sofrido, e eu fazia de tudo para ter o leite, e a sensação é essa, de desconexão total com
o mundo. Eu tinha a sensação de ficar doida. Acumulava com a falta de sono e a mudança, que é muito brusca. Essa foi a terceira experiência que culminou no amplo sentimento de fracasso e culpa por parte de C. Sua fala é
indicador de que, nesse caso, as práticas sociais hegemônicas relacionadas ao aleitamento, como determinados usos da
Cartilha do Ministério da Saúde, podem também intensificar a idealização de ser mãe, conforme viemos discutindo (Cadoná
& Strey, 2014). Entretanto, é importante ressaltar que tais práticas somente têm um efeito tão profundo sobre a experiência
de C. em função de sua produção subjetiva individual. É precisamente esse o caráter paradoxal da biopolítica que Foucault
(2004) discute: a proteção da vida por meio do controle de corpos, como nas campanhas de saúde a nível populacional, pode
não somente favorecer a vida, mas limitá-la ao ponto de morte. Assim, aspectos destrutivos e impeditivos relativos à vida
continuam sendo parte integral da biopolítica, embora justificado pela perspectiva de sua proteção. Outro aspecto que parece ter contribuído para a posição submissa de C. está relacionado à sua trajetória de vida familiar. Ao falar sobre sua família, C. relata, “minha família era bem tradicional... A gente ia à igreja todo domingo, e o que a bíblia
pregava era o certo e o que era esperado de nós”. A pouca flexibilidade e espaço para questionamento perante as normas
da igreja repercute, no caso de C., em um posicionamento passivo que, a partir das construções interpretativas anteriores,
podemos articular à naturalização e submissão às diversas normas e representações hegemônicas presentes na subjetividade
social. Nesse processo, quando C. não corresponde aos ideais cultivados, ela se sente imersa em culpa, como relatado abaixo: E uma culpa, uma culpa. Porque ela sempre foi miudinha. Ela era pequeninha e magrinha, e aí, meu Deus, era tudo por minha
causa, porque ela não tinha mamado no peito e porque eu tinha tomado remédio. Porque ela não crescia. Aí, leite de vaca não deu
certo. Construção da Informação Esta é uma evidência de como o processo de sofrimento de C. durante
a gravidez e o pós-parto não é uma patologia limitada a seu déficit enquanto mãe, ou a esse momento específico, mas uma
trajetória subjetiva inserida em um caminho de vida em que ela foi minando suas possibilidades de ação. i É possível identificar, por meio dos relatos de C., que dois processos simultâneos (seu sofrimento por não se adequar
ao almejado e o diagnóstico que rotula sua experiência como forma “doente”de vivenciar a maternidade (Arrais, 2005)
intensificam seu processo de tornar-se refém do descompasso entre ideal e real, sem condições de se posicionar ativamente
a partir da sua própria experiência. Além de aumentar o medo e a impotência que a participante já estava sentindo,
exemplificando a iatrogênese social discutida por Illich (1987), os diagnósticos foram vivenciados como processos externos
a ela. Isto sinaliza a falta de um espaço dialógico que favorecesse a apropriação de sua condição singular e reflexões conjuntas
com implicação emocional sobre seu próprio processo, o que poderia oportunizar a emergência de sentidos subjetivos que
a permitissem desenvolver recursos frente aos imprevistos de sua experiência (González Rey, Goulart & Bezerra, 2016). Outro aspecto interessante e amplamente articulado às construções interpretativas realizadas até aqui, é que, ao falar
sobre sua vivência, C. utilizava termos técnicos oriundos do jargão médico: “E aí, não sei se a depressão veio junto da
dissociação, despersonalização e fragmentação de personalidade, essas coisas que eu tive”. O uso de tais categorias para
falar de si mesma pode ser compreendido como indicador da carência de apropriação singularizada desse processo por parte
de C., bem como a produção de sentidos subjetivos relacionados à naturalização do discurso biomédico. Mais além, o uso
das categorias demonstra a naturalização da ótica médica enquanto única forma legitima de conceber sua vivência. i A segunda experiência que divergiu das expectativas de C., tendo resultado na intensificação do sentimento de culpa, foi
resultado de sua expectativa frustrada de ter um parto normal: “tentei normal e não consegui. A bolsa estourou. Eu era toda
bicho-grilo, vegetariana... Mas não consegui fazer parto normal. A filmagem do meu parto é eu em pânico, chorando. É um 87 Revista Subjetividades, Fortaleza, 18(1): 79-91, abril, 2018 Rafaella Pinheiro Cesario e Daniel Magalhães Goulart filme de terror”. Percebe-se, portanto, que C. Revista Subjetividades, Fortaleza, 18(1): 79-91, abril, 2018 Considerações Finais Com este artigo buscamos resgatar as dimensões históricas, políticas e sociais imbricados na produção da depressão pós-
parto, de modo a romper com a visão reducionista, calcada no modelo biomédico, que se tem acerca do fenômeno. Também
refletimos sobre a importância de novas estratégias de assistência por meio da oferta de espaços dialógicos que, não partindo
de um ideal biomédico a priori, acolham a experiência vivida pela puérpera, contemplando os aspectos da subjetividade
individual e da subjetividade social implicados na vivência de uma maternidade que é reconhecida como depressão pós-parto. Revista Subjetividades, Fortaleza, 18(1): 79-91, abril, 2018 88 Depressão Pós-parto para além do Diagnóstico: Representações Sociais e Subjetividade Desse modo, oportuniza-se condições que favoreçam a emergência do sujeito que vivencia tal experiência, supostamente
patológica, de forma a criar condições para uma reflexão crítica e viabilizar possibilidades de compreensão mais amplas e
complexas. Esse processo pode fomentar o desenvolvimento de recursos subjetivos que favoreçam formas singularizadas
de vivenciar a maternidade. O estudo de caso sugere que o que é denominado amiúde enquanto “depressão pós-parto” é uma produção subjetiva
resultante da relação que se estabelece entre a subjetividade social, a partir da qual as representações sociais dominantes
sobre maternidade normatizam e favorecem a idealização desse processo, e a subjetividade individual, que muitas vezes
se limita a tais modelos normatizados. Assim, observou-se que a depressão pós-parto expressa a dissonância entre o ideal
socialmente preconizado e a experiência singularmente vivenciada. No caso de C., a falta de espaços relacionais dialógicos, que marca tanto o âmbito das relações afetivas privadas como
a esfera do apoio profissional, acaba por dificultar a produção de recursos subjetivos para lidar de maneira saudável com
essa experiência, culminando na aceitação acrítica dos ideais cultivados socialmente. A medicalização da vida e a dicotomia
normal-patológico relegam à esfera do patológico as experiências que extrapolam aquelas preconizadas pelas normas e
representações sociais dominantes de maternidade. Partindo do referencial da normalidade, e reduzindo a depressão pós-
parto a aspectos biológicos, a assistência prestada tem como objetivo a eliminação de sintomas, sem se preocupar, no
entanto, com a trama subjetiva complexa que constitui esse fenômeno. As construções teóricas produzidas neste artigo não pretendem ser conclusivas no sentido de esgotarem outras
possibilidades interpretativas sobre o fenômeno designado como depressão pós-parto. Considerações Finais Nesse sentido, ressaltamos a
condição irrevogavelmente parcial e provisória do conhecimento científico, sempre limitado às condições contextuais de
sua produção, e também permanentemente voltado à sua própria superação e à possibilidade de construção de novas formas
de entendimento e ação no mundo. Referências Abuljanova, K. (1980). El sujeito de la actividad psíquica. Cidade do México: Roca. Arrais, A. (2005). As configurações subjetivas da depressão pós-parto: Para além da padronização patologizante. Tese de
Doutorado, Programa de Pós graduação em Psicologia Clínica e Cultura, Universidade de Brasília, Brasília. Arrais, A. (2005). As configurações subjetivas da depressão pós-parto: Para além da padronização patologizante. Tese de
Doutorado, Programa de Pós graduação em Psicologia Clínica e Cultura, Universidade de Brasília, Brasília. Ariés, P. (1978). História Social da Criança e da Família. Rio de Janeiro: Editora Zabar. Ariés, P. (1978). História Social da Criança e da Família. Rio de Janeiro: Editora Zabar. Badinter, E. (1985).Um amor conquistado: O mito do amor materno. Rio de Janeiro: Nova Fronteira. Beck, C. T. (2002). Revision of the postpartum depression predictors inventory. Journal Obstetric Gynecology Neonatal
Nursing, 31(4), 394-402. Bozhovich, L. I. (1968). La personalidad y su formación en la edad infantile. Habana, Cuba: Pueblo y Educación. Cadoná, E., & Strey, M. (2014). A produção da maternidade nos discursos de incentivo à amamentação. Estudos Feministas,
Florianópolis, 22(2), 304. Canguilhem, G. (2002). O normal e o patológico. Rio de Janeiro: Forense Universitária. Canguilhem, G. (2002). O normal e o patológico. Rio de Janeiro: Forense Universitária. Chandran, M., Tharyan, P., Muliyil, J., & Abraham, S. (2002). Post-partum depression in a cohort of women from rural area
of Tamil Nadu, India: Incidence and risk factors. The British Journal of Psychiatry,181(6), 499-504. Cardoso, H. R., Jr. (2005). Para que serve uma subjetividade? Foucault, tempo e corpo. Psicologia: Reflexão e Crítica, 78(3),
343-349. DOI: 10.1590/S0102-79722005000300008 Costa, J. M., & Goulart, D. M. (2015). A saúde humana como produção subjetiva: Aproximando clínica e cultura. Psicologia
& Sociedade, 27(1), 240-242. 89
Revista Subjetividades, Fortaleza, 18(1): 79-91, abril, 2018
Chudnovsky, V. E. (1988). Problema subjectivnosti v svete sobremennyx zadach psikjologii vospitaniya. Vorpocy 89 Rafaella Pinheiro Cesario e Daniel Magalhães Goulart psikjologii, 4, 15-24. psikjologii, 4, 15-24. Foucault, M. (1980). A microfísica do poder. Rio de Janeiro: Edições Graal. Foucault, M. (1980). A microfísica do poder. Rio de Janeiro: Edições Graal. Foucault, M. (2004). Naissance de la biopolitique. Paris: Gallimard - Seuil. Foucault, M. (2004). Naissance de la biopolitique. Paris: Gallimard - Seuil. . Naissance de la biopolitique. Paris: Gallimard - Seuil. Furtado, O. (2007). O psiquismo e a subjetividade social. In A. M. M. Bock, M. G. M. Gonçalvez & O. Recebido em: 22/12/2016
Revisado em: 07/11/2017
Aceito em: 05/12/2017 Referências Furtado (Orgs.),
Psicologia sócio-histórica: Uma perspectiva crítica em psicologia (3a ed., pp. 75-93). São Paulo: Cortez. Goffman, E. (2001). Manicômios, prisões e conventos. São Paulo: Editora Perspectiva. González Rey, F. (1997). Epistemologia cualitativa: Sus implicaciones metodológicas. Psicologia Revista, (5), 13-32. González Rey, F. (2003). Sujeito e subjetividade: Uma aproximação histórico-cultural. São Paulo: Thomson Learning. González Rey, F. (2004). Personalidade, saúde e modo de vida. São Paulo: Thomson. González Rey, F. (2005). Pesquisa qualitativa e subjetiva: Os processos de construção da informação. São Paulo: Thomson. González Rey, F. (2007). Psicoterapia, subjetividade e pós-modernidade. Uma aproximação histórico-cultural. São Paulo:
Thomson Learning. González Rey, F. (2008). Subjetividad social, sujeto y representaciones sociales. Diversitas, 4(2), 225-243. González Rey, F. (2009). Epistemología y ontología: Un debate necesario para la psicología hoy. Diversitas, 5(2), 205-224. González Rey, F. (2011). Subjetividade e saúde: Superando a clínica da patologia. São Paulo: Cortez. González Rey, F. (2015). A new path for the discussion of social representations: Advancing the topic of subjectivity from a
cultural-historical standpoint. Theory & Psychology, 25(4), 494-512. González Rey, F. (2016). Advancing the topics of social reality, culture, and subjectivity from a cultural-historical standpoint:
Moments, paths, and contradictions. Journal of Theoretical and Philosophical Psychology, 36(3), 175-189. González Rey, F., Goulart, D. M., & Bezerra, M. S. (2016). Ação profissional e subjetividade: Para além do conceito de
intervenção profissional na psicologia. Revista Educação (PUCRS. Online), 39(supl.), 54-65. Goulart, D. M. (2017). Educação, saúde mental e desenvolvimento subjetivo: Da patologização da vida à ética do sujeito. Tese de Doutorado, Programa de Pós-Graduação em Educação, Universidade de Brasília, Brasília. Goulart, D. M., & González Rey, F. (2016). Mental health care and educational actions: From institutional
exclusion to subjective development. European Journal of Psychotherapy & Counselling, 18(4), 367-383. DOI:
10.1080/13642537.2016.1260617 Illich, I. (1975). A expropriação da saúde: Nêmesis da medicina. Rio de Janeiro: Editora Nova Fronteira. Lobato, G., Moraes, C., & Rreichenheim, M. E. (2011). Magnitude da depressão pós-parto no Brasil: Uma revisão sistemática. Revista Brasileira de Saúde Materno Infantil, 11(4), 369-379. Lomov, B. F. (1978). Kategorii obtscheniya i deyatelnosti v psykjologii. Voprocy Filosofii, 8, 34–47 Machado, A. M., Almeida, I., & Saraiva, L. F. O. (2009). Rupturas necessárias para uma prática inclusiva. In A. Anache
& I. R. Silva (Eds). Educação inclusiva: Experiência profissionais em psicologia (pp.21-36). Brasília: Conselho
Federal de Psicologia. Referências 90
Revista Subjetividades, Fortaleza, 18(1): 79-91, abril, 2018 Revista Subjetividades, Fortaleza, 18(1): 79-91, abril, 2018 90 Depressão Pós-parto para além do Diagnóstico: Representações Sociais e Subjetividade Morin, E. (1983). O problema epistemológico da complexidade. Lisboa: Europa-America. Morin, E. (1983). O problema epistemológico da complexidade. Lisboa: Europa-America. Moscovici, S. (2003). Representações sociais: Investigações em psicologia social. Petrópolis: Vozes. Moysés, M. A. A. (2001). A institucionalização invisível – crianças que não aprendem na escola. Campinas: FAPESP/
Mercado de Letras. Rodrigues, O. M. P. R., & Schiavo, R. A. (2011). Stress na gestação e no puerpério: Uma correlação com a depressão pós-
parto. Revista Brasileira de Ginecologia e Obstetrícia, 33(9), 252-257. Rousseau, J. J. (2004). Emílio ou da Educação. São Paulo: Martins Fontes. Schardosim, J. M., & Heldt, E. P. S. (2011). Escalas de rastreamento para depressão pós-parto: Uma revisão sistemática. Revista Gaúcha de Enfermagem, 32(1), 159-166. Vasconcelos, M., Zago, L. F., Machado, D. O., & Ross, C. R. (2011). Os limbos felizes da não-identidade: Tensões e
implicações. Revista Mal-Estar e Subjetividade, 11(3), 1217-1264. Vygotsky, L. S. (1987). Thinking and speech. In R. Rieber & A. Carton (Eds.), The collected works of L. S. Vygotsky (Vol. 1, pp. 43–287). New York: Plenum. Vygotsky, L. S. (2001). Psicologia pedagógica. São Paulo: Martins Fontes. Vygotsky, L. S. (2001). Psicologia pedagógica. São Paulo: Martins Fontes. Endereço para correspondência Rafaella Pinheiro Cesario
Email: rafapcesario@gmail.com Daniel Magalhães Goulart
Email: danielgoulartbr@gmail.com Revista Subjetividades, Fortaleza, 18(1): 79-91, abril, 2018 91
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Statin therapy in multimorbid older patients with polypharmacy- a cross-sectional analysis of the Swiss OPERAM trial population
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Frontiers in cardiovascular medicine
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Statin therapy in multimorbid
older patients with polypharmacy-
a cross-sectional analysis of the
Swiss OPERAM trial population EDITED BY
Lars Norgren,
Örebro University, Sweden
REVIEWED BY
Sree Kondapally,
St George’s University Hospitals NHS
Foundation Trust, United Kingdom
Valeria Conti,
University of Salerno, Italy
*CORRESPONDENCE
Nicolas Rodondi
nicolas.rodondi@insel.ch
RECEIVED 07 June 2023
ACCEPTED 04 September 2023
PUBLISHED 21 September 2023
CITATION
Adam L, Baretella O, Feller M, Blum MR,
Papazoglou DD, Boland B, Aujesky D, Baggio S
and Rodondi N (2023) Statin therapy in
multimorbid older patients with polypharmacy-
a cross-sectional analysis of the Swiss OPERAM
trial population. F
t C
di
M d 10 1236547 EDITED BY
Lars Norgren,
Örebro University, Sweden
REVIEWED BY
Sree Kondapally,
St George’s University Hospitals NHS
Foundation Trust, United Kingdom
Valeria Conti,
University of Salerno, Italy
*CORRESPONDENCE
Nicolas Rodondi
nicolas.rodondi@insel.ch
RECEIVED 07 June 2023
ACCEPTED 04 September 2023
PUBLISHED 21 September 2023
CITATION
Adam L, Baretella O, Feller M, Blum MR,
Papazoglou DD, Boland B, Aujesky D, Baggio
and Rodondi N (2023) Statin therapy in
multimorbid older patients with polypharmac
a cross-sectional analysis of the Swiss OPERA
trial population. F
C
di
M d 10 1236547 EDITED BY
Lars Norgren,
Örebro University, Sweden
REVIEWED BY
Sree Kondapally,
St George’s University Hospitals NHS
Foundation Trust, United Kingdom
Valeria Conti,
University of Salerno, Italy 1Institute of Primary Health Care (BIHAM), University of Bern, Bern, Switzerland, 2Department of General
Internal Medicine, Inselspital, Bern University Hospital, University of Bern, Bern, Switzerland, 3Division of
Angiology, Gefässzentrum, Kantonsspital Baden, Baden, Switzerland, 4Geriatric Medicine, Cliniques
Universitaires Saint-Luc, Brussels, Belgium, 5Health Science Research Institute, UCLouvain, Louvain,
Belgium, 6Population Health Laboratory (#PopHealthLab), University of Fribourg, Fribourg, Switzerland Adam L, Baretella O, Feller M, Blum MR,
Papazoglou DD, Boland B, Aujesky D, Baggio S
and Rodondi N (2023) Statin therapy in
multimorbid older patients with polypharmacy-
a cross-sectional analysis of the Swiss OPERAM
trial population. Background: Statin therapy in multimorbid older individuals with polypharmacy is
controversial, particularly in primary prevention of cardiovascular disease. Thereby,
physicians must weigh potential benefits against potential side effects, drug-drug
interactions, and limited life expectancy. Aim: To assess the prevalence and determinants of potentially inappropriate statin
therapy in multimorbid older patients. Front. Cardiovasc. Med. 10:1236547. Front. Cardiovasc. Med. 10:1236547. doi: 10.3389/fcvm.2023.1236547 Front. Cardiovasc. Med. 10:1236547. doi: 10.3389/fcvm.2023.1236547 Methods: We conducted a cross-sectional analysis of patients aged ≥70 years with
multimorbidity and polypharmacy in the Swiss study center of OPERAM, a cluster-
randomized trial on pharmacotherapy optimization to reduce drug-related
hospital admissions. TYPE Original Research
PUBLISHED 21 September 2023
DOI 10.3389/fcvm.2023.1236547 Frontiers in Cardiovascular Medicine KEYWORDS
polypharmacy, multimorbidity, cardiovascular prevention, statin, -guideline adherence polypharmacy, multimorbidity, cardiovascular prevention, statin, -guideline adherence Statin therapy in multimorbid
older patients with polypharmacy-
a cross-sectional analysis of the
Swiss OPERAM trial population We assessed potential underuse (no statin but formal
indication) and potential overuse (statin but no formal indication, including
predicted >60% one-year mortality based on the Walter Score) based on current
guidelines for patients in secondary and primary cardiovascular prevention. We
assessed the association of potential statin overuse and underuse with six
patient
characteristics
(age,
gender,
number
of
diagnoses,
number
of
medications, mental impairment, being housebound) in LASSO-selection analyses. Results: Of 715 multimorbid older adults (79.7 ± 6.5 years, 39.9% women), 337
(47%) were on statin. Statin therapy was appropriate in 474 (66.3%), underused in
130 (18.2%), and overused in 111 (15.5%) patients. In participants in secondary
cardiovascular prevention (n = 437), being female (odds ratio [OR] 2.65, 95%
confidence interval [CI] 1.67–4.22) was significantly associated with potential
underuse while being housebound (OR 3.53, 95%CI 1.32–9.46) and taking ≥10
medications (OR 1.95,95%CI 1.05–3.67) were associated with potential overuse. In participants in primary cardiovascular prevention (n = 278), 28.1% were
potentially under- (9%) or overusing (19%) a statin, with no identified risk factor. Conclusion: A third of hospitalized multimorbid older patients with polypharmacy
potentially (either) overused or underused statin therapy. Among patients in
secondary cardiovascular prevention, women were at risk for potential statin
underuse. Housebound patients and those taking ≥10 medications were at risk
for potential overuse of a statin. Physicians should carefully evaluate the
indication for statin prescription in multimorbid older patients with polypharmacy. © 2023 Adam, Baretella, Feller, Blum,
Papazoglou, Boland, Aujesky, Baggio and
Rodondi. This is an open-access article
distributed under the terms of the Creative
Commons Attribution License (CC BY). The use,
distribution or reproduction in other forums is
permitted, provided the original author(s) and
the copyright owner(s) are credited and that the
original publication in this journal is cited, in
accordance with accepted academic practice. No use, distribution or reproduction is
permitted which does not comply with these
terms. polypharmacy, multimorbidity, cardiovascular prevention, statin, -guideline adherence Frontiers in Cardiovascular Medicine 01 frontiersin.org Adam et al. 10.3389/fcvm.2023.1236547 Avoidable hospital admissions in Multimorbid older people) to
assess the prevalence and determinants of potentially inappropriate
statin therapy in multimorbid older hospitalized patients. Avoidable hospital admissions in Multimorbid older people) to
assess the prevalence and determinants of potentially inappropriate
statin therapy in multimorbid older hospitalized patients. Introduction As people age, they are increasingly likely to suffer from more
than one disease (multimorbidity): 60% of adults >65 suffer from
more than three chronic diseases (1). These multimorbid patients
may take different drugs to treat each disease (polypharmacy)
(2), some of which may be inappropriate (3). Multimorbid
patients are also at risk of underusing drugs (4). Both under-
and overuse (inappropriate prescribing) may lead to avoidable
hospital admissions and reduce the patient’s quality of life (5–7). Therefore, polypharmacy among the multimorbid older patients
must be managed carefully to meet the needs of the aging
population. Multimorbidity, older age, and polypharmacy are
associated with cardiovascular risk factors and disease (8): more
than 50% of multimorbid patients have cardiovascular disease
(CVD)
(9)
and
are
often
prescribed
statins
to
reduce
cardiovascular events (CVE) and mortality in primary and
secondary prevention (10, 11). Methods We included participants from the Swiss study center (Bern
University
Hospital)
of
the
cluster-randomized
controlled
OPERAM trial with detailed information on statin use, related
factors and lipid values. A detailed protocol of OPERAM and its
main results were published elsewhere (3, 23). We included only
Swiss participants as the adjudication algorithm was based on
local guidelines. Since the OPERAM trial studied a systematic
drug review vs. usual care, we chose a cross-sectional study
design at hospital admission, prior to the drug review, in order
to receive the most accurate real life reflection. Statins are effective for secondary prevention of CVD even in
old patients, with data until 82 years (12), but guidelines still
suggest
physicians
consider
individual
factors
that
could
influence their decision to start, change, or end statin therapy in
older patients (13, 14). A small randomized controlled trial even
showed that stopping statins in patients with life-limiting disease
was safe, had no significant effect on mortality, and slightly
increased quality of life (15, 16). Study population The OPERAM trial included multimorbid (more than three
diagnosed
chronic
diseases)
patients
≥70
years
old
with
polypharmacy (five or more chronic medications). Patients were
excluded from this analysis if they were missing information
essential for assessing appropriateness of the statin therapy (e.g.,
missing lipid values for primary prevention). For primary prevention of atherosclerotic CVD, the current
European Society of Cardiology and American Heart Association
(AHA)
guidelines
recommend
statins
to
match
individual
cardiovascular risk, setting the minimum bar at ≥5 to <10% 10-
year risk of fatal and non-fatal atherosclerotic CVD (ASCVD)
(17–19). Cardiovascular risk can be calculated with tools like the
PROCAM-SCORE or SCORE2 (20, 21), which include age,
gender,
and
known
modifiable
cardiovascular
risk
factors. Among older adults, the evidence of benefits of statins for
primary prevention is less clear. The recent ESC guidelines for
elderly recommend risk-factor treatment in older patients (≥70
years) with very high-risk for CVD (≥15% 10-year risk of CVD
according to SCORE-OP2,) and apparently healthy older high-
risk
patients
(7.5%–15%
10-year
CVD
risk,
Class
IIa
recommendation) but there is insufficient evidence for low-
density lipoprotein cholesterol (LDL-C) targets (22). The AHA
guidelines neither suggest nor discourage statin prescription as
primary prevention for this group of patients and they encourage
physicians to individualize their recommendations, taking into
account life expectancy, patient preferences, co-morbidities, and
other factors (evidence level E) (13, 18, 19). Outcomes: statin therapy appropriateness Patients were classed according to ICD-10 coded diagnoses at
baseline (Table 1) into patients with and without ASCVD. We
classed patients with an ICD-10 code for ASCVD into secondary
prevention and patients without ASCVD into primary prevention. Clinical ASCVD were defined as acute coronary syndromes,
history of myocardial infarction, stable or unstable angina,
coronary or other arterial revascularization, stroke, TIA, or
peripheral arterial disease presumed to be of atherosclerotic
origin, which occurred before study inclusion (24), and visceral
atherosclerotic manifestations (Supplementary Table S2). Clinical ASCVD were defined as acute coronary syndromes,
history of myocardial infarction, stable or unstable angina,
coronary or other arterial revascularization, stroke, TIA, or
peripheral arterial disease presumed to be of atherosclerotic
origin, which occurred before study inclusion (24), and visceral
atherosclerotic manifestations (Supplementary Table S2). (
pp
y
)
Patients who took a statin in accordance to current guidelines
were classed as receiving appropriate statin therapy. Patients who
took a statin without formal indication (overuse) or who did not
receive statin therapy when statins were formally indicated
(underuse) were classed as receiving “inappropriate statin therapy”. To assess appropriateness for patients in primary prevention, we
calculated the PROCAM-Score, adapted for Switzerland (25), as it is
the most used risk score in Switzerland (26). We collected lipid
profiles either during index hospitalization (hospitalization at the
time of inclusion in the OPERAM trial) or from the patient’s
general practitioner (GP) whenever possible, preferably collected
before lipid-lowering therapy initiation. If those values were
unavailable, we used the last available lipid profile, either from
their GP or from the OPERAM baseline visit. For patients with
available lipid-values that were taken during statin therapy for Patients who took a statin in accordance to current guidelines
were classed as receiving appropriate statin therapy. Patients who
took a statin without formal indication (overuse) or who did not
receive statin therapy when statins were formally indicated
(underuse) were classed as receiving “inappropriate statin therapy”. To assess appropriateness for patients in primary prevention, we
calculated the PROCAM-Score, adapted for Switzerland (25), as it is
the most used risk score in Switzerland (26). We collected lipid
profiles either during index hospitalization (hospitalization at the
time of inclusion in the OPERAM trial) or from the patient’s
general practitioner (GP) whenever possible, preferably collected
before lipid-lowering therapy initiation. Frontiers in Cardiovascular Medicine Outcomes: statin therapy appropriateness If those values were
unavailable, we used the last available lipid profile, either from
their GP or from the OPERAM baseline visit. For patients with
available lipid-values that were taken during statin therapy for Based on current evidence, physicians should carefully consider
whether to prescribe drug treatment in multimorbid older patients
with polypharmacy since data have shown that such patients are at
risk for inappropriate prescription (underuse and overuse) (3). To
date, there is little data on whether statins are appropriately
prescribed to multimorbid older patients with polypharmacy, and
risk factors associated with statin under- and over prescription. To overcome this research gap, we conducted a cross-sectional
analysis of the OPERAM trial (OPtimising thERapy to prevent Frontiers in Cardiovascular Medicine frontiersin.org 02 Adam et al. 10.3389/fcvm.2023.1236547 TABLE 1 Baseline characteristics. TABLE 1 Baseline characteristics. All patients (n = 715)
Primary prevention (n = 278)*
Secondary prevention (n = 437)**
Age [years] [means and sd]
79.7 ± 6.5
79.4 ± 6.6
79.9 ± 6.5
Sex [n and %]
Men
429 (60.0)
148 (53.2)
281 (64.3)
Women
286 (40.0)
130 (46.8)
156 (35.7)
Smoking [n and %]
64 (9.0)
24 (8.6)
40 (9.2)
Hypertension [n and %]
552 (77.2)
211 (75.9)
341 (78.0)
Family history of myocardial infarction [n and %]
13 (8.2)
3 (5.4)
10 (9.8)
Diabetes [n and %]
235 (32.9)
80 (28.8)
155 (35.5)
No of medications [n and %]
≥10
399 (55.8)
139 (50.0)
260 (59.5)
No. of diagnoses [n and %]
3–10
101 (14.1)
60 (21.6)
41 (9.4)
≥10
614 (85.9)
218 (78.4)
396 (90.6)
Walter score >6 (scale 0–20) [n and %]
194 (27.1)
89 (32.0)
105 (24.0)
Housebound [n and %]
36 (5.0)
15 (5.4)
21 (4.81)
Dementia [n and %]
76 (10.6)
31 (11.5)
45 (10.3)
Statin users [n and %]
377 (52.7)
82 (29.5)
295 (67.5)
Sd: standard deviations. *No diagnosis of cardiovascular disease (CVD) prior to study inclusion. **With diagnosis of CVD prior to study inclusion. being housebound [defined as inability to leave the house
unassisted
e.g.,
for
(primary)
care
visits],
≥5–9
chronic
medications vs. ≥10 chronic medicationsco-morbidities (into
≥10 and <10 chronic diagnoses), and whether they suffered from
dementia/cognitive impairment according to ICD-10 code. All
these factors potentially influence the likelihood medication will
be prescribed inappropriately (31). Predictors We considered all patients with a diagnosis of cardiovascular
ischemic disease to be patients who needed secondary prevention
for cardiovascular events. Thus, all patients with cardiovascular
disease were considered to be underusing a statin if they were
not taking a statin. For all patients, we calculated the Walter
Score to determine individual 1-year mortality risk (28); we
considered a score >6 (>60% 1-year mortality) to be potentially
life limiting. Since current evidence suggests that statin therapy
offers no benefit when prescribed for primary prevention to
patients with a life-limiting disease, we classed all patients whose
Walter Score was >6 as potentially being overusing statins if they
were using statins at baseline (Figure 1) (15, 29). Outcomes: statin therapy appropriateness primary prevention, we estimated the possible LDL-C value prior to
statin initiation using the mean reduction values by the statin taken
(27) in order to be able to better estimate the cardiovascular risk. Frontiers in Cardiovascular Medicine Statistical analyses We stratified patients according to their indication for statin
use, i.e., primary and secondary cardiovascular prevention. We first calculated descriptive statistics for all variables
(percentages and n for categorical variables; means and standard
deviations for continuous variables). We also calculated descriptive
statistics for participants we included and excluded. Comparisons
between included and excluded participants were performed using
χ2 tests for categorical variables and t-tests for continuous variables. Second,
we
assessed
the
bivariate
associations
between
potential over- and underuse of a statin with risk factors (i.e., age
sex,
houseboundedness,
co-morbidities
and
cognitive
impairment) using logistic regression models, with potential
underuse and overuse as two separate outcomes. We reported
odd ratios (OR) with 95% confidence intervals (CI). We calculated individual risk for cardiovascular events within the
next 10 years based on the patient’s AGLA Score (PROCAM Score
adapted for Switzerland) (25). Because several guidelines make no
clear recommendation for primary prevention in patients aged >75
years (18, 19, 22, 30), we calculated cardiovascular risk scores for
those patients as if they were 75 years old. Additionally, the Walter
Score was used to estimate individual life expectancy (above) and
two medical doctors (LA, OB) independently reviewed the patients’
chart to determine if they were on appropriate statin therapy. If the
two reviewers disagreed, they consulted a third reviewer (MF). Figure 1 shows the study flow chart for adjudication, which we
developed based on current guidelines. Third, we selected the variables with the strongest association
with potential statin underuse and overuse using least absolute
shrinkage and selection operator (LASSO) regression analyses. We chose this method because of the small numbers of patients
in some subgroups. We used multiple logistic regression models
with LASSO selection, with underuse and overuse as two
separate outcomes. We also reported ORs with 95% CIs. We used Stata Version 16.0 (StataCorp. 2019. Stata Statistical
Software: Release 16. College Station, TX: StataCorp LLC.). The following predictors were included into our analysis: age
(classed into three categories: 70–75, 76–85 and >85 years), sex, Frontiers in Cardiovascular Medicine 03 frontiersin.org Adam et al. 10.3389/fcvm.2023.1236547 FIGURE 1
Adjudication algorithm according to AGLA score (25). Legend: abbreviations: ASCVD, LDL-C. FIGURE 1
Adjudication algorithm according to AGLA score (25). Legend: abbreviations: ASCVD, LDL-C. Frontiers in Cardiovascular Medicine Results All patients
(n = 715)
Primary
prevention
(n = 278)
Secondary
prevention
(n = 437)
Appropriate
474 (66.3%)
200 (71.9%)
274 (62.7%)
Potential underuse*
130 (18.2%)
25 (9.0%)
105 (24.0%)
Potential overuse**
111 (15.5%)
53 (19.1%)
58 (13.3%)
LDL > 4.9 mmol/L
33 (62.3%) Results Of the 437 patients in secondary prevention, 274 (62.7%) were
using a statin appropriately, 105 (24%) patients were underusing a
statin, while 58 (13.3%) patients were considered to be potentially
overusing a statin as their predicted mortality risk was >60% based
on their Walter Score (≥6 points) (Table 2). The Swiss OPERAM study center included 822 hospitalized
multimorbid
patients
≥70
years
with
polypharmacy
(≥5
medications); 17 patients (2.1%) withdrew their consent; and 90
patients
(10.9%)
were
excluded
because
their
available
information did not allow us to adjudicate the appropriateness of
statin therapy. We thus included 715 patients in our analysis (see
the study flow chart in the Supplementary Figure S1). Included
patients had a mean age of 79.7 years [±6.5 years standard
deviation (SD)]; 60% were male (Table 1). In the secondary
prevention group (n = 437), 295 patients (67.5%) used a statin
and 105 (24%) patients had a Walter score >6, 68 (23%) of those
using a statin (Supplementary Table S3). In the primary
prevention group (n = 278), 82 patients (29.5%) used statins and
89 (32%) patients had a Walter Score >6. In secondary prevention, statin underuse was significantly
associated with being very old (>85 years; OR 2.40; 95% CI 1.26–
4.57) and female (OR 2.79; 95% CI1.78–4.38) in bivariate models
(Table 3). We confirmed the association between underuse and
being female with LASSO regression (OR 2.65; 95%CI 1.67–4.22). Potential overuse was associated with being housebound (OR
3.58; 95% CI 1.38–9.28) and taking ≥10 medications (1.94; 95%
CI 1.05–3.57) in bivariate analyses, which was confirmed after
LASSO regression (OR 3.53 (1.32–9.46) and 1.95 (1.05–3.67))
(Table 4). In secondary prevention, statin underuse was significantly
associated with being very old (>85 years; OR 2.40; 95% CI 1.26–
4.57) and female (OR 2.79; 95% CI1.78–4.38) in bivariate models
(Table 3). We confirmed the association between underuse and
being female with LASSO regression (OR 2.65; 95%CI 1.67–4.22). Potential overuse was associated with being housebound (OR
3.58; 95% CI 1.38–9.28) and taking ≥10 medications (1.94; 95%
CI 1.05–3.57) in bivariate analyses, which was confirmed after
LASSO regression (OR 3.53 (1.32–9.46) and 1.95 (1.05–3.67))
(Table 4). Additional baseline characteristics of included patients are
presented in Table 1 and comparisons of the baseline characteristics
of patients we included and patients we excluded because we could
not properly adjudicate them in Supplementary Table S1. TABLE 2 Appropriateness of statin prescribing. TABLE 2 Appropriateness of statin prescribing. ot properly adjudicate them in Supplementary Table S1. LASSO: least absolute shrinkage and selection operator. **No subjects in this subgroup, removed. frontiersin.org ot properly adjudicate them in Supplementary Table S1. not properly adjudicate them in Supplementary Table S1 In the 278 patients in primary prevention, we determined
estimated risk for CVE at 10-years was low (<10%) in 95
patients, intermediate (10%–20%) in 53 patients, and high
(>20%) in 40 patients (Supplementary Table S3). Patients with a
Walter Score >6 (n = 89) were classified as potential Statin-
overusers without further risk calculation. p
*Potential underuse: lack of statin therapy despite formal indication (Figure 1). **Potential overuse: statin use without formal indication or if Walter Score >6
(predicted one year mortality >60%). Appropriateness of statin therapy in secondary cardiovascular
prevention: Frontiers in Cardiovascular Medicine 04 frontiersin.org Adam et al. 10.3389/fcvm.2023.1236547 Potential underuse
Potential underuse
Bivariable analysesa
LASSO selectionb
Primary prevention
Secondary prevention
Primary prevention
Secondary prevention
p. underuse, n = 25
p. underuse, n = 105
p. underuse, n = 25
p. underuse, n = 105
Age (years)
70–75
1 (Reference)
1 (Reference)
1 (Reference)
1 (Reference)
76–84
0.86 (0.35–2.09)
1.58 (0.89–2.80)
*
1.32 (0.74–2.40)
>85
0.41 (0.11–1.56)
2.40 (1.26–4.57)
*
1.86 (0.94–3.70)
Women
1.80 (0.78–4.16)
2.79 (1.78–4.38)
*
2.65 (1.67–4.22)
Housebound
**
0.32 (0.07–1.40)
**
0.29 (0.06–1.31)
≥10 diagnoses
0.86 (0.32–2.26)
1.94 (0.79–4.76)
*
1.81 (0.71–4.60)
≥10 medications
0.53 (0.22–1.25)
0.84 (0.54–1.30)
*
0.72 (0.45–1.16)
Dementia
0.31 (0.04–2.37)
1.49 (0.76–2.92)
*
1.23 (0.60–2.50) LASSO: least absolute shrinkage and selection operator. TABLE 4 Associations between potential statin overuse and study variables. TABLE 4 Associations between potential statin overuse and study variables. TABLE 4 Associations between potential statin overuse and study variables. Potential overuse
Potential overuse
Bivariable analysesa
LASSO selectionb
Primary prevention
Secondary prevention
Primary prevention
Secondary prevention
p. overuse, n = 53
p. overuse, n = 58
p.overuse, n = 53
p.overuse, n = 58
Age (years)
70–75
1 (Reference)
1 (Reference)
1 (Reference)
1 (Reference)
76- 84
1.31 (0.67–2.57)
0.83 (0.43–1.59)
*
*
>85
0.55 (0.21–1.43)
1.04 (0.48–2.23)
*
*
Women
0.70 (0.38–1.28)
0.43 (0.22–0.83)
*
0.38 (0.19–0.76)
Housebound
1.07 (0.29–3.92)
3.58 (1.38–9.28)
*
3.53 (1.32–9.46)
≥10 diagnoses
0.56 (0.28–1.10)
**
*
**
≥10 medications
1.39 (0.76–2.54)
1.94 (1.05–3.57)
*
1.95 (1.05–3.67)
Dementia
1.02 (0.40–2.63)
0.61 (0.21–1.77)
*
*
LASSO: least absolute shrinkage and selection operator. Bold values denote the significant results. aSimple logistic regressions. Odds ratios and 95% confidence intervals are reported. bMultivariable logistic regressions with LASSO selection. Odds ratios and 95% confidence intervals are reported. *Dropped after Lasso selection. **No subjects in this subgroup, removed. Limitations Housebound patients in secondary prevention were at risk for
overuse (defined as having a Walter Score >6) of a statin (OR
3.53), a finding that aligns with a Japanese study of eldery,
housebound patient amongst whom potentially inappropriate
prescribing was highly prevalent (42). This might be due to the
fact that preventive medical visits are associated with a high
effort by these patients and his/her proxies (42). A further
factor could be that stopping an established statin therapy is
currently a matter of discussion and doctors might be especially
hesitant to stop a statin in a patient with established ASCVD
despite advanced chronic illness and a high 1-year mortality
risk (Walter Score > 6) (16). However, Kutner et al. found that
stopping statins in patients with limited life expectancy was safe
and
slightly
improved
quality
of
life
(15). In
primary
prevention, we found no pre-defined risk factor associated with
higher risk of inappropriate statin therapy (neither potential
underuse nor potential overuse), perhaps because it was more
difficult to assess cardiovascular risk and define the necessity
for statin therapy in the primary prevention group. Though
older people are at higher cardiovascular risk, few RCTs have
studied the potential benefits of statin therapy for primary
prevention in the elderly. A recent meta-analysis of 28 RCTs
that
analyzed
the
benefits
of
statin
therapy
in
186,854
individuals (but only 8% aged >70 years) found that statin
therapy benefited to patients over 70, but provided little
evidence on patients in primary prevention (43). An age-
stratified analysis of the JUPITER-trial and HOPE III study
showed that taking Rosuvastatin would benefit patients >70
years regarding a composite outcome (pooled estimate HR 0.74)
of nonfatal MI, stroke or cardiovascular death (44) but included
only few patients >80 years. On the other hand, deprescribing
statins in older patients is common in primary prevention in
the very older people because clinicians might weigh the
potential of side effects in frail patients higher than the
potential long-term benefit (45). Appropriateness of statin therapy in primary
cardiovascular prevention
Discussion Among 715 multimorbid older (≥70 years) hospitalized
patients, potentially inappropriate statin therapy was common
(33.7%) due to potential underuse with (15.5%) and potential
overuse (18.2%). Female gender was significantly associated with
potential underuse in secondary prevention (OR 2.65). Being
housebound (OR 3.53) and taking ≥10 medications (OR 1.95)
were associated with potential overuse in secondary prevention. No specific risk factors were identified for potential over- or
underuse in primary prevention. Of the 278 patients in primary prevention, 200 (71.9%) were on
appropriate statin therapy when they were included in the OPERAM
trial, based on our prespecified criteria (Figure 1); 25 (9%) had
intermediate to high cardiovascular risk but did not take a statin so
we considered them as potentially underusing a statin, while 53
patients (19.1%) were potentially overusing statin (Table 2); 23 of
these potential overusers (43.4%) had a Walter Score >6. No factor among patients in primary prevention predicted a
significantly
higher
risk
for
potential
under—or
overuse
(Tables 3, 4) in bivariate analyses. We confirmed this finding
with LASSO regressions. (Tables 3, 4). Though the benefits of statins for primary prevention in the
older patients remain controversial, statin therapy in secondary
prevention in older patients is supported by evidence (22). Frontiers in Cardiovascular Medicine 05 frontiersin.org Adam et al. Adam et al. 10.3389/fcvm.2023.1236547 10.3389/fcvm.2023.1236547 Despite the evidence, this cross-sectional study found that 24% of
patients in secondary prevention were potentially underusing
statins. In secondary prevention, women, particularly, were at
risk of underuse (OR 2.65), a finding that aligns with previous
studies (32–34). (16). In general, evidence towards statin therapy in older
people in primary prevention is limited, as shown by the
discrepancies in different guidelines concerning statin therapy
in the elderly (46). Especially for multimorbid older patients
guidelines
or
recommendations
concerning
(deprescribing)
statins are lacking (47). Statin use is clearly established for prevention of further
cardiovascular events in secondary prevention, in both men and
women (35). On average, women live longer than men and are
therefore more likely to suffer from CVE (36). CVD is the main
cause of death for women in developed countries (37, 38), but
health care systems may not adequately consider women’s
cardiovascular risk (38). Though men and women have the same
main cardiovascular risk factors, women may present differently
in clinical exams, have different symptoms, and tests may not
work as well for women as men (39, 40). Limitations In an international survey
using case vignettes, GPs recommended to stop statins for
primary prevention especially in frail patients, those with
evident side effects and patients with limited life expectancy We were limited in our ability to estimate cardiovascular risk in
primary prevention, so we used the PROCAM Score adapted for
Switzerland, approved for maximally 75-year-old, to determine
cardiovascular risk at 10 years and had two medical doctors
independently judge the patient’s clinical situation on a case-by-
case basis (including knowledge of patient’s preferences; this data
was collected during the OPERAM trial) as current guidelines
suggest
(18). Our
study
was also
limited
because
it
was
conducted at only one center. Though we tried to assess the
statin indication for each individual patient, we did not know
why treating physicians decided to prescribe or withhold a statin. Appropriateness of statin therapy in primary
cardiovascular prevention
Discussion Our findings align well
with a population-based Italian study of older patients with
polypharmacy, in which women were more likely to discontinue
statin therapy (41). Our finding of ASCVD prevalence (61%) aligns with previous
studies of this older multimorbid population (8). We found statin
therapy was prescribed to 52.5% in the entire patient cohort,
(29.5% of patients in primary prevention and 67.5% of patients
in secondary prevention). A 2011–2015 UK cohort study of
statin prescription in old patients (>80 years) in primary
prevention yielded similar results (30%) (45). Other studies from
the UK and the US found that between 63% and 80% of the
older population are taking statins (45, 32). Strengths This is a cross-sectional analysis from the understudied, but
especially
in
Western
countries
growing
population
of
multimorbid older patients with polypharmacy. Assessing risk-
factors for statin under- or overuse in this specific population of
multimorbid eldery has not yet been done to our knowledge
(48). We accounted for patient’s specific risk factors as well as
patients’ individual life expectancy in a standardized way. Statins
are among the most prescribed drugs for the prevention of first
or
recurrent
cardiovascular
events
(49),
which
are
highly
prevalent in multimorbid older patients. This study provides
evidence for risk factors that are associated with under- or
overuse of a statin, alerting the clinician to frequently adapt and
reassess statin therapy according to her/his patient’s current
situation and need. frontiersin.org Conclusion A third of multimorbid older patients with polypharmacy
either
potentially
overused
or
underused
statins. Among
participants in secondary cardiovascular prevention, women were
at highest risk for potential underuse while housebound patients Frontiers in Cardiovascular Medicine 06 frontiersin.org Adam et al. 10.3389/fcvm.2023.1236547 Swiss government. This project was also partially funded by the
Swiss National Scientific Foundation (SNSF 320030_188549) and
by a grant from the Swiss National Science Foundation to study
the
usefulness
of
statins
among
older
adults
in
primary
prevention (IICT 33IC30-193052 to Nicolas Rodondi). The
funder of the study had no role in study design, data collection,
data analysis, data interpretation or writing of the report. LA
work was supported through a “Young Talents in Clinical
Research” Grant from the Gottfried and Julia Bangerter-Rhyner
Foundation (YTCR_22/17). OB obtained a Protected Research
Time (PRT) Grant from the University of Bern. were at risk for potential overuse of a statin. Physicians should
carefully evaluate their need for statin prescriptions in this
understudied population and adapt prescriptions as needed. Supplementary material The Supplementary Material for this article can be found
online at: https://www.frontiersin.org/articles/10.3389/fcvm.2023. 1236547/full#supplementary-material Data availability statement The raw data supporting the conclusions of this article will be
made available by the authors, without undue reservation. 4. Kuijpers MA, van Marum RJ, Egberts AC, Jansen PA, Group OS. Relationship
between polypharmacy and underprescribing. Br J Clin Pharmacol. (2008) 65
(1):130–3. doi: 10.1111/j.1365-2125.2007.02961.x Acknowledgment The studies involving humans were approved by Kantonale
Ethikkomission Bern (KEK Nr. 2016-01200). The studies were
conducted
in
accordance
with
the
local
legislation
and
institutional
requirements. The
participants
provided
their
informed consent to participate in the OPERAM-trial. We thank Kali Tal for her editorial assistance. Author contributions The authors declare that the research was conducted in the
absence of any commercial or financial relationships that could
be construed as a potential conflict of interest. LA, MF, MB, BB, DA; NR contributed to conception and
design of the study. LA, OB, DP organized the database. LA, MF,
MB, DP, SB performed the statistical analysis. LA wrote the first
draft of the manuscript. All authors contributed to the article
and approved the submitted version. 8. Aubert CE, Streit S, Da Costa BR, Collet TH, Cornuz J, Gaspoz JM, et al.
Polypharmacy and specific comorbidities in university primary care settings. Eur
J Intern Med. (2016) 35:35–42. doi: 10.1016/j.ejim.2016.05.022 Funding This work is part of the project “OPERAM: OPtimising
thERapy
to
prevent
Avoidable
hospital
admissions
in
the
Multimorbid
elderly”
supported
by
the
European
Union’s
Horizon 2020 research and innovation program under the grant
agreement No 634238, and by the Swiss State Secretariat for
Education, Research and
Innovation (SERI)
under contract
number
15.0137. The
opinions
expressed
and
arguments
employed herein are those of the authors and do not necessarily
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(2014) 36(3):570–80. doi: 10.1007/s11096-014-9940-y Publisher’s note All claims expressed in this article are solely those of the
authors and do not necessarily represent those of their affiliated
organizations, or those of the publisher, the editors and the
reviewers. Any product that may be evaluated in this article, or
claim that may be made by its manufacturer, is not guaranteed
or endorsed by the publisher. 5. Jin H, Tang C, Wei Q, Chen L, Sun Q, Ma G, et al. Age-related
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2261-14-127 2. Dalleur O, Boland B, De Groot A, Vaes B, Boeckxstaens P, Azermai M, et al.
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English
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From Building Information Modelling to Digital Twins: Digital Representation for a Circular Economy
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Springer eBooks
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A. Koutamanis (✉)
Delft University of Technology, Delft, the Netherlands
e-mail: a.koutamanis@tudelft.nl © The Author(s) 2024
C. De Wolf et al. (eds.), A Circular Built Environment in the Digital Age, Circular
Economy and Sustainability, https://doi.org/10.1007/978-3-031-39675-5_1 Chapter 1
From Building Information Modelling
to Digital Twins: Digital Representation
for a Circular Economy Alexander Koutamanis Abstract Building information modelling (BIM) has ushered in the era of symbolic
building representation: building elements and spaces are described not by graphical
elements but by discrete symbols, each with properties and relations that explicitly
integrate all information. Digital twinning promises even more: a digital replica in
complete sync with the building and its behaviour. Such technologies have obvious
appeal for circularity because they accommodate the rich information it requires and
link circularity goals to other activities in AECO (architecture, engineering, con-
struction and operation of buildings). Present implementations of BIM may fall short of the promise, and digital
twinning may be hard to achieve, but they remain crucial not only for circularity
but for all AECO disciplines. To realise the potential of such representations,
information should be treated not as a product of integration but as the integrator
of all activities. Similarly, digitalisation should be at the core of business models and
deployment plans, not an additional or even optional layer at a high cost. This calls
for a coherent approach that includes the full capture of building information,
supports the detailed exploration of circular operations, uses the results to constrain
decisions and actions and does so throughout the life cycle. Keywords Information · Digitalisation · Representation · Building information
modelling (BIM) · Digital twinning 1.1
Building Information Modelling and Digital Twinning Rhetoric has three modes of persuasion: pathos, ethos and logos. Circularity is
derived from pathos: appeals to emotions and ideals, expressing beliefs about the
environment and materiality. It is reinforced by ethos: arguments from authorities
and other credible sources, such as scientists and industry leaders. When it comes to 3 3 4 A. Koutamanis A. Koutamanis A. Koutamanis 4 implementing circularity, however, it is the logos that matters most: the reasoning
that underlies business models, material flow calculations, feasibility assessments,
implementation requirements, deployment plans, etc. Information is the basic
resource for making such analyses and projections reliable and transparent: valid,
meaningful data that describe past and future states of the world, providing input to
and accommodating output from decision processes. This chapter focuses on the critical, fundamental role of information in the
context of circularity. It explains the two most relevant general-purpose technolo-
gies, building information modelling (BIM) and digital twinning, and links them to
passports and logbooks proposed specifically for circularity. It then moves on to
current and proposed uses of the technologies in AECO (architecture, engineering,
construction and operation of buildings), including with respect to circularity, and
concludes with guidelines for developing circularity business models and practical
applications. 1.1.1
BIM BIM is a frequently misrepresented and therefore misunderstood technology. Many
poor definitions describe not the phenomenon itself but its applications and effects
(Sacks et al. 2018), often from the perspective of existing analogue practices. The
production of drawings and other conventional documents to incrementally improve
efficiency or reduce errors takes up a disproportionate amount of the BIM literature
but does not explain how BIM is structured and how its structure helps to achieve
certain objectives. Instead, it makes BIM appear as a mere step in AECO
computerisation. The truth is more revolutionary: BIM marks the transition to
symbolic representation (Koutamanis 2022). While earlier technologies like
computer-aided design (CAD) focused on the graphic implementation mechanisms
of building representations, BIM makes explicit the symbols described by these
mechanisms. Symbolic representation is already the norm in many computer applications. In a
digital text, the capital ‘A’ is not a group of three strokes, as in handwriting, but the
Unicode symbol U+0041, explicitly entered through a keyboard and stored as such,
regardless of how it appears on the screen. Any change to the symbol does not come
from changing the three strokes but from changing the properties of the symbol
(e.g. a different font or size) or switching to a different symbol (e.g. U+1D434 for the
mathematical capital ‘A’). Symbolic representation underlies a lot of machine
intelligence. In digital texts, knowing each letter allows computers to recognise
words and sentences and subsequently understand grammar and syntax. Similarly, in BIM, a window is not the group of line segments one sees in a
graphic view like a floor plan but a symbol explicitly entered in a specific location of
a wall. One can reposition the window in the wall, but changing its type or even its
size may require switching to a different symbol. The interfaces of BIM software
tend to depart from facsimiles of analogue drawing, which confuse users into 5 1
From Building Information Modelling to Digital Twins. . . 5 Fig. 1.1 Symbols, properties and connections Fig. 1.1 Symbols, properties and connections thinking that they are drawing and obscure the symbolic structure of the model. We
should think of BIM models not as 2D or 3D drawings with additional data but as
graphs of interconnected symbols. In fact, connections are between specific symbol
properties (Fig. 1.1.1
BIM 1.1): the co-termination of two walls links the endpoints of their
axes, while the orientation of a wall is inherited by the windows it hosts. External constraints, such as the maximum height of a roof in planning regula-
tions, are also linked to relevant symbol properties, while other constraints affect
relations between two symbols, such as when windows are not allowed in certain
wall parts. As a result, all primary information resides in the properties and relations
of the symbols in a model. This allows for the derivation of further information
through functions, e.g. calculations of fire resistance on the basis of the material
composition of a building component. It also supports the production of various
views of the model, including conventional drawings. As for machine intelligence,
the potential is already evident in the behaviours of symbols: a window sticks to the
hosting wall, and the shape of a room follows the bounding building elements. Integration, a key selling point of BIM, comes from this symbolic structure. With
all information residing in symbols, there are no multiple representations from
different disciplines that must be combined to obtain a full description. Instead, all
actors have access to different symbols, properties and relations in a model, in
adjustable worksets that give them specific rights and responsibilities. This integra-
tion of information and its dynamic relation to authorship and custodianship also
mean that information processing and AECO activities can be accommodated in
BIM. The same holds for continuity through phases and stages: a symbolic repre-
sentation can contain the entire history of a building. 6 A. Koutamanis A. Koutamanis BIM is often called ‘object-oriented’. This is misleading because the term has a
different meaning in computer science but also because we should not equate
symbols with real things. In English, the letter ‘a’ corresponds to five different
sounds (phonemes). Knowing how to pronounce the letter depends on the context
(the word). When considering representations in building, the correspondence
between symbols and things can be even fuzzier. A window may be considered a
discrete component, but a wall is an assemblage with variable composition and
indeterminate form. Its material layers often continue into other walls, forming
construction networks that are not captured by wall symbols in BIM. A main reason
for this is geometric bias: continuous walls are segmented into separate symbols by
the geometry of their axes. 1.1.1
BIM Despite such fuzziness and resulting ambiguities, the symbolic representation
underlying BIM remains the obvious choice for AECO computerisation, with a
potential similar to that of the Latin alphabet or the Hindu-Arabic numerals. The
graph of symbols and their relations is a transparent, consistent and efficient foun-
dation for any application. The capacity for integration and continuity means that
information efforts can be consolidated into a single representation that caters for all
aspects, goals and disciplines. 1.1.2
Digital Twinning While the use of BIM has yet to reach a satisfactory level or achieve significant
efficiencies, AECO has already adopted a new buzzword: digital twinning. In
contrast to BIM, digital twinning has yet to consolidate into a recognisable technol-
ogy. Quite frequently, any virtual model seems to qualify as a digital twin, purely on
the basis of intent. However, a digital twin is more than a model: it is a digital replica
of something physical. It describes the form, behaviour and performance of the
thing, including uses, users and direct context – all that is required for precise and
accurate analyses and forecasts of future states of the physical twin. Information in a digital twin is dynamic and reciprocal: sensors in the physical
twin that monitor temperature, light, sound, occupancy, vibration, etc., send their
data to the digital twin, where they become attached to relevant properties of the
appropriate symbols. The products of the digital twin travel in the reverse direction,
guiding actuators in operational adaptations, e.g. the functioning of heating systems,
and informing users through displays (Fig. 1.2). In other words, the twins are
connected in both directions in near real time and are capable of communication
and synchronisation (Chen 2017; Liu et al. 2018). Consequently, we can distinguish
between representations (static models, as in BIM), shadows (representations which
are updated by data from the physical things) and twins (full two-way synchronisa-
tion) (Fuller et al. 2020; Sepasgozar 2021). Digital twins of buildings are invariably based on BIM (Boje et al. 2020; Sacks
et al. 2020; Begić and Galić 2021; Mêda et al. 2021; Shahat et al. 2021; Tagliabue
et al. 2021; Alibrandi 2022; Shaharuddin et al. 2022). At the same time, it is stressed 1
From Building Information Modelling to Digital Twins. . . 7
Fig. 1.2 Connections between symbols in a digital twin and things in a physical twin 1
From Building Information Modelling to Digital Twins. . . 1
From Building Information Modelling to Digital Twins. . . 7 Fig. 1.2 Connections between symbols in a digital twin and things in a physical twin that digital twinning is more than BIM, as it includes sociotechnical and process
aspects, especially in use (Boje et al. 2020; Davila Delgado and Oyedele 2021;
Sepasgozar 2021). This makes it significantly more demanding than as-built BIM in
terms of reliability, precision and completeness. 1.1.3
Passports and Logbooks BIM and digital twinning are general-purpose technologies. There are also stand-
alone information technologies specifically developed for circularity in AECO. These are referred to by terms such as building or material passport or logbook. Chapter 5 by Honic et al. in this book describes the potential of such technologies
and relevant life cycle and standardisation challenges in detail. Therefore, from the
perspective of this chapter, it suffices to emphasise that BIM, as an integrated
information environment, is more than a useful source of data (Durmišević 2018;
Bertin et al. 2020). There is a significant overlap between BIM and material or
building passports (Charef and Emmitt 2021), even when the latter are based on
other sources for product composition breakdown. The advantage of BIM is that it makes materials situated and connected to life
cycle processes (Honic et al. 2019). This supports design for deconstruction and
disassembly (Minunno et al. 2018; Xing et al. 2020; Marzouk and Elmaraghy 2021;
O’Grady et al. 2021) and other circularity goals. Translating manufacturers’ disas-
sembly instructions into simulations in BIM improves legibility and completeness,
especially concerning resources that may be available or required. It also verifies the
disassembly procedures and validates designs with respect to them. Including the
location of a component among its metaproperties in a passport does not offer the
same advantages. In conclusion, passports and logbooks are amenable to the integrating power of
BIM and digital twins, which can accommodate product information (Kebede et al. 2022), life cycle energy data (Shah et al. 2023) and other key information in their
properties and relations. In BIM, information collections such as material passports
can become views of the model, similarly to bills of quantities. Linking their goals
and constraints to all activities in design, construction and operation through BIM
returns connections to information sources that help make material flow registration
and analysis realistic and reliable (Miatto et al. 2022). 1.1.2
Digital Twinning Furthermore, it is questionable
whether BIM can accommodate and process the big data produced by sensors in
the built environment. Rather than a foundation, BIM is a predecessor to digital
twinning, based on the same symbolic approach to representation (Boje et al. 2020;
Koutamanis et al. 2021). More than on BIM, digital twinning relies on the Internet of Things (IoT): the
networks that connect sensors, actuators and displays in a building, making it
‘smart’, i.e. automating certain operations, such as opening doors and regulating
ventilation systems. In addition to such local automation, the IoT also collects data
from all sources to capture the history and the overall conditions in a building. This
improves local operations by connecting them to global goals and constraints. The
IoT is not just an enabler but a necessity because digital twinning presupposes a
building heavily populated by IoT for bidirectional communication and synchroni-
sation, including feedback to users and operators (Farsi et al. 2020; Fuller et al. 2020;
Lu et al. 2020; Sepasgozar 2021). The collection of data for digital twinning could be
much more extensive than in most smart buildings, resulting in a lack of suitable
physical twins and possibly rendering digital twinning a pipe dream. Alternatively,
one could tolerate low-fidelity solutions as early deployment stages and encourage
incremental development (Mêda et al. 2021). However, experience with BIM matu-
rity levels suggests that such tolerance is self-defeating because it provides alibis for
not taking the trouble to use the technology properly while continuing processes that
actually undermine it. The degree of validation and verification required in digital
twinning makes any attempt to pass off static models as twins as misguided as
calling 2D drawings BIM. A. Koutamanis A. Koutamanis 8 8 1.2
BIM in the Built Environment There is general agreement that digital uptake in AECO is slow and limited, even
though investment in digitisation may not be that low (Turk 2021; Koutamanis
2022). Nevertheless, BIM was received with unprecedented willingness and opti-
mism as a solution to major inefficiencies and malperformances (Sacks et al. 2018;
Ernstsen et al. 2021), but rapid adoption was not accompanied by a scope wide and
coherent enough to effect fundamental changes. There are persistent complaints
about BIM costs, complexity and social and organisational aspects that contrast with
its arguably unrealistic promotion (Miettinen and Paavola 2014; Oesterreich and
Teuteberg 2019) and put smaller enterprises at a disadvantage (Dainty et al. 2017;
Murguia et al. 2023). BIM is commonly deployed in hybrid situations, where it 1
From Building Information Modelling to Digital Twins. . . 9 1 overlaps with other technologies (Davies 2017). This conflicts with the holistic
character of BIM and reduces its potential. As AECO remains attached to existing,
document-based practices, BIM is generally restricted to office use and the produc-
tion of such documents. Out of the office, the reliance of AECO on low-cost human
labour does little to promote digitalisation. Even in office use, BIM has not always facilitated innovation. Its emphasis on
integration and interoperability is not linked to models of labour division and
specialisation (Turk 2020). It is also questionable that complex assemblages such
as buildings can be broken down into hierarchical ontologies by merely observing
real-world buildings and following pre-existing, paper-based standards (Koutamanis
et al. 2021). Unfortunately, such limitations are seldom experienced, as most
applications and models tend to remain selective, partial and restricted to specific
tasks, such as clash detection between load-bearing structures and building services. g
g
BIM has yet to make its presence felt beyond design and construction, in the
costly and resource-intensive use stage (Gao and Pishdad-Bozorgi 2019; Abideen
et al. 2022; Benn and Stoy 2022; Durdyev et al. 2022; Matos et al. 2022; Pinti et al. 2022; Tsay et al. 2022). Making and especially maintaining as-is models appears to
be beyond the scope or capacities of most organisations, which are already
overwhelmed by the amount of existing information and the multiplicity of channels
through which they exchange information. 1.3
BIM and Digital Twinning for a Circular Economy BIM, while not perfect, remains preferable to its predecessors and indicative of the
symbolic direction building representations are taking. Implemented properly, it
offers information integration and continuity, unambiguous interpretation by both
humans and machines and full and reliable support of complex analyses. This
supports goals such as circularity and the information-intensive processes they
require. At the same time, present limitations in BIM create interest in technological
advances. Digital twinning promises the additional capacity to accommodate and
process all states of the physical twin, past and present (Rafael Sacks et al. 2020). This helps transform static evaluations into dynamic life cycle processes, combining,
e.g. end-of-life assessment with adaptable planning (Chen et al. 2021). This transi-
tion from static to dynamic is demanding but seems justified by feasibility evalua-
tions, which confirm a significant potential for improved life cycle assessment and
control (Tagliabue et al. 2021). Neither BIM nor digital twinning are goals for AECO; they are means towards
domain-specific performances. Moreover, circularity may be viewed as an imposed,
external societal constraint. As with any such constraint, it may conflict with
established practices and be poorly served by existing tools, which are attuned to
other priorities. To remove such obstacles, the general capacities of digital twinning,
BIM and digitalisation should be taken for granted, and attention should be on 10 A. Koutamanis A. Koutamanis A. Koutamanis specific, critical issues (Çetin et al. 2021). General intentions, such as reducing
inefficiencies, improving communication, optimising design performance or just
providing visualisations (Wong and Fan 2013; Akinade et al. 2017; Minunno et al. 2018; Charef and Emmitt 2021), can be relevant but do not amount to a specific,
coherent approach. 1.3.1
Registration of Relevant Information The first step in a coherent approach to circularity with BIM or digital twins is to
learn to rely on symbolic representation. Any full model or twin can easily cover
circularity information needs without additional investment, but in practice repre-
sentations can be selective or opportunistic and hence incomplete or inconsistent. Deferring the information burden to any particular goal and its stakeholders (as with
passports) is not a viable option. Instead, all AECO stakeholders should insist on
joint, permanent working environments, not disconnected repositories or documen-
tation for different phases. There can be no half-hearted BIM or digital twin
deployment: economising on investment means severely limited potential and low
returns. The first reason why a digital solution cannot be made for circularity solely is
cost: the value of what it supports can hardly be justified by the returns, certainly in
the perception of most AECO stakeholders with different priorities. General-purpose
solutions such as BIM are clearly preferable because they support most such
priorities. If circular goals can be added to them, then circularity stakeholders
can reap the benefits, while others are stimulated to include circularity in their
considerations. The perennial question in AECO is not so much who makes a BIM model but
who maintains it, especially in the life cycle of a building. If this does not happen
collaboratively by conjoining the core processes of all actors, and preferably auto-
matically, there is little hope for success. Collaborative solutions also lower the
participation threshold for smaller enterprises and offer enticing benefits in terms of
digital support and room for fruitful specialisation. In return, the enterprises con-
tribute to the completeness and up-to-dateness of information simply by using it. The second reason for a lack of digital solutions for circularity is selectivity: any
information solution motivated primarily or exclusively by circularity inevitably
remains restricted to circularity factors and aspects. It may even suffer from
inattentional blindness, which causes omissions of important data simply because
we concentrate on other matters (Chabris and Simons 2010). One can naturally work
with conscious concentration towards a full, inclusive solution, but then the results
would amount to something akin to BIM or digital twins, i.e. a comprehensive
solution that could only justify costs and improve returns by being open to other
goals and priorities, too. 1
From Building Information Modelling to Digital Twins. . . 11 1.3.2
Exploration of Circular Operations The second step towards circularity with BIM or digital twins is to utilise their
capacities for exploring deconstruction and disassembly (Akanbi et al. 2019; van den
Berg et al. 2021). In the same way that we simulate construction processes, we can
also simulate the expected maintenance, refurbishment, renovation and deconstruc-
tion processes with the accuracy and precision required for feasibility, effectiveness
and efficiency. This provides direct support for construction-related circularity goals
(narrow and regenerate through efficiency improvement) and a useful background
for others (slow and close through reliable life cycle projections). It also stresses the
necessity of detail and realism. For deconstruction in particular, we should acknowl-
edge that it is not a mere reversal of construction. As Van den Berg explains in
Chap. 11 in the relevant chapter in this volume, information is a key issue in
organising reverse logistics. As-is representations are essential for the identification
and harvesting of reusable resources from existing buildings because as-built models
(i.e. construction documentation) are neither sufficient nor reliable enough. Closing
loops requires certainty about the state of components and materials, as well as about
their physical context, which has changed from an accommodating construction site
to a finished, functioning building. This calls for solutions that are full and realistic,
including all details of deconstruction in space and time, e.g. how cranes and
scaffolds would function in the existing building. Van den Berg (Chap. 11) describes
a number of focused explorations and demonstrations that must graduate from
opportunistic demonstrations of potential to standard facilities in BIM and digital
twinning. 1.3.3
Constraining Design, Construction and Operation 1.3.4
Life Cycle Registration and Guidance The final step is an extension of the previous three: use 4D symbolic representations
to monitor the detailed history of a building, preferably in near-real time. As symbol
properties and relations can register the activities and effects of maintenance,
refurbishment, etc., material flows are measured and managed not by questionable
proxies but with primary, precise and accurate data (Minunno et al. 2018; Chen and
Huang 2020; Marzouk and Elmaraghy 2021). Up-to-date information is essential for
the planning of circularity operations: narrowing, slowing, closing and regenerating
can be based not just on initial assumptions and projections but on constantly
refinable and dynamic decision frameworks that include permanent validation and
verification facilities for making sense of the existing building conditions for decon-
struction (Van den Berg, Chap. 11). The bidirectional relation between digital twins
and buildings is clearly advantageous in this respect, as it covers not only monitoring
but also adaptations in the behaviour of the physical twins, e.g. adjusting the heating
and ventilation of a building in order to reduce the extent of material ageing in
specific components. 1.3.3
Constraining Design, Construction and Operation Based on the second step, we should explicitly describe circularity dependencies and
constraints in properties and relations of symbols (e.g. constraints on interfacing
between components for effective deconstruction). Relations are of particular impor-
tance in this respect because they link interfacing between components to symbol
behaviours. They can ensure that the building design and construction allow for
deconstruction (Sanchez et al. 2021), e.g. avoid additions that spoil interfaces
designed for disassembly, such as equalising layers of in situ concrete over demount-
able floor slabs. If symbols refuse to accept such additions to their properties or
relations, similarly to a door not accepting positioning outside a wall, the scope for
human error becomes much smaller. This is particularly important in the use phase,
where changes are only too frequently improvised, in both refurbishment and
maintenance. The representation can also anticipate circularity operations, such as
the replacement of some components when they fall below a certain performance
level, by including among the symbol triggers that adjust the timing of loops. A. Koutamanis A. Koutamanis 12 1.4
Current Applications of BIM and Digital Twinning
to Circularity Judging the efficacy of a technology or approach requires realistic applications that
can be analysed with respect to both means and ends. However, most publications on
circularity and digital twinning, as well as many on circularity and BIM, are
programmatic or aspirational. They focus on aspects such as technology and plat-
form development, enablers and challenges (Copeland and Bilec 2020; Fuller et al. 2020; Ganiyu et al. 2020; Rafael Sacks et al. 2020; Davila Delgado and Oyedele
2021; Sepasgozar 2021; Shahat et al. 2021; Ammar et al. 2022; Charef 2022). Actual
case studies are thin on the ground and mostly presented as plans or untested
prototypes. The best examples illustrate that highly specific subjects and goals are
beneficial for both the setup of a digital twin and analyses in it (Funari et al. 2021). Laboratory case studies, however limited, represent useful steps forward, especially
for learning and testing (Rocca et al. 2020; Marzouk and Elmaraghy 2021). The narrow scope of digital twinning case studies is inherent to any early stage. With the sensitising of architects, engineers, authorities and clients to environmental
issues and the life cycles of materials, ambition and attention inevitably become
dispersed over a wide range of subjects and possibilities, from key applications in
AECO to promising digital technologies (Hillebrandt et al. 2019; Çetin et al. 2021),
arguably at the cost of coherence, consistency and effectivity. There is no uniform
solution that applies to all aspects and goals. Each component, material or building
has different potential, not just generically but in every instance and situation. 13 1
From Building Information Modelling to Digital Twins. . . 1
From Building Information Modelling to Digital Twins. . . However, even advanced and convincing cases with a narrow and well-defined
scope, such as bridge maintenance, still fall short of a full digital twin (Mahmoodian
et al. 2022). Other studies are hampered by the small samples available, as longitu-
dinal or long-term data are required for consistent and reliable results (Rita et al. 2022). This is particularly true of attempts to go beyond the microscale of materials
and elements and extend to the macroscales of neighbourhoods and cities, so as to
identify and promote synergies (Bejtullahu and Morishita-Steffen 2021). Such
extensions inevitably shift attention from new designs to the existing stock. Existing
buildings, especially historical ones, involve knowledge not easy to codify in
systems developed for today. So, it is not only information we are lacking, it is
also decision-making and design tools (Durmišević 2018; Bianchini et al. 2021). g
g
(
)
One of the key problems with case analysis is that evaluation tends to be weak,
based on opinion rather than objective criteria. Information collected through ques-
tionnaires, interviews and similar means (Charef and Emmitt 2021; Çetin et al. 2022)
should not be taken at face value. It contains opinions, subjective estimates and
uncorroborated reported results that indicate belief or strategic support for potential
rather than tangible, verifiable results. As time-use studies demonstrate, personal
estimates can be heavily biased by goals and emotions: stressed people overestimate
how they spend their time and produce sums of more than 24 hours per day
(Robinson and Godbey 1999). This calls for yet another use of BIM and digital
twins: the collection of reliable, comprehensive and consistent data, which can be
processed through generally accepted methods towards case analyses and bench-
marks. Without such objective information processing, it is impossible to arrive at
clear evidence that not only convinces but also shows what can be improved
and how. 1.5
Business Models for BIM and Digital Twinning
in a Circular Built Environment 1.5
Business Models for BIM and Digital Twinning
in a Circular Built Environment Business models address organisational aspects, such as who, what, when and how
in key tasks that contribute towards delivering desired results and outcomes. Infor-
mation is of critical significance here, especially in product-as-service, bundling,
dematerialisation, life extension and similar models that depend on fine-tuning or
combinations (Charter and McLanaghan 2018; McCausland 2022). These require
transitions from production-driven to customer-centred approaches and changes in
collaboration patterns and supply chain structures (Qi et al. 2022; Wang et al. 2022;
Xiang et al. 2022). Whether the business model follows an innovation or a resource
strategy (Bocken and Ritala 2022), rich information is a prerequisite for reliability
and feasibility (Shah et al. 2023). Projected states and indicators must be substan-
tiated and monitored, so that lessons learned are fed back to related decisions. The same organisational aspects and their goals are critical for the utilisation of
information technologies. Despite the key role of information, the digitalisation of 14 A. Koutamanis A. Koutamanis products and processes is not always included in digital twinning business
models, which often retain legacy conditions and practices (Deckert et al. 2022). Digitalisation is still treated as external to core processes: a layer to be superimposed
when needed. Consequently, the business case for digitalisation and information is
hampered by investment and operation costs that are deemed too high, despite the
promise of substantial efficiency improvement. In AECO, digitalisation has yet to develop into a connecting tissue between all
stakeholders and actors, as in other economic areas (Floridi 2014). Attachment to
analogue practices and their information carriers remains too strong, regardless of
changes in the objectives of projects, enterprises or society. This contrasts sharply
not only with other industries but even more with daily life. The same AECO
practitioners who are reluctant to fully embrace integrated digital information solu-
tions in their professional activities make extensive use of social media, e-commerce,
e-banking, etc., in their private lives. The result is that AECO computerisation is
characterised by isolated islands, not the networks necessary for business value. BIM, digital twinning and all other forms of digital information are treated as the
product of integration rather than the integrator that enables better collaboration and
performance (Davila Delgado and Oyedele 2021). p
g
y
This does not imply lack of attempts at new business models that build on
digitalisation. 1
From Building Information Modelling to Digital Twins. . . 15 Such arguments sound autocratic but nevertheless produce clear solutions in a
notoriously fragmented and backward-looking industry like AECO. Judging from
the half-hearted commitment and relatively low investment in computerisation,
business models involving BIM or digital twinning need to include the technologies
in their core and give them the primary role of integrator. Developing add-on
business models for digitalisation on top of circularity models is self-defeating
because it makes information technologies an option, moreover an expensive one,
with tenuous connections to goals and values. So long as stakeholders are under the
impression that circularity in the built environment is feasible without a radical
digital reform of practically all processes, there is little hope for wide and effective
deployment. Digitalisation should be specified according to general principles, rather than
specific objectives such as circularity, so as to ensure inclusiveness and complete-
ness. This provides the necessary context for explaining how different aspects can
support each other in the business model, e.g. how maintenance activities contribute
to the fine-tuning of timely deconstruction, thereby alleviating the burden of fact-
finding in circularity monitoring and assessment. Conversely, circularity constraints
guide maintenance towards not only timely replacement but also higher performance
in the building. 1.5
Business Models for BIM and Digital Twinning
in a Circular Built Environment On the contrary, there are many proposals from which we can learn. Looking at business models related to digital twinning (as the most demanding
case) across application areas, industries and countries (Kumar et al. 2022), certain
characteristics emerge: This does not imply lack of attempts at new business models that build on
digitalisation. On the contrary, there are many proposals from which we can learn. Looking at business models related to digital twinning (as the most demanding
case) across application areas, industries and countries (Kumar et al. 2022), certain
characteristics emerge: •
The emphasis is on potential (rather than effectiveness), particularly for compet-
itiveness, which requires venturing beyond legacy solutions and comfort zones. •
Control applications appear to offer easier deployment than production applica-
tions, but in both cases the main promise is value co-creation through support for
decision-making and management of operations and services (West et al. 2021). •
Differences between industries are largely due to legacy practices and industry
structures (Morelli et al. 2022). There appears to be no uniform solution for
universal transformation. •
Importance is attached to platforms, autonomous stakeholders operating on them
and networks emerging from the interaction between stakeholders and platforms
(Rocca et al. 2020). •
Importance is attached to platforms, autonomous stakeholders operating on them
and networks emerging from the interaction between stakeholders and platforms
(Rocca et al. 2020). In summary, digital twinning seems not easily attainable in practice, especially
for subjects like buildings, which undergo many, often invisible changes in their
protracted lifespans and require a high level of detail to capture both contexts and
user experiences. Some therefore argue that the business case should be motivated by a clear goal
such as the reduction of energy consumption. This guides the development of
business value towards measurable results while serving wider societal goals like
sustainability and improving the lives of users and consumers. They also stress that
data strategies should be imposed top-down, as part of business value, rather than left
to the willingness or ability of stakeholders and actors (Apte and Spanos 2021). 1
From Building Information Modelling to Digital Twins. . . 1.6
Discussion One thing we no longer need to justify or defend is digitalisation. Everyone is aware
of its importance and pervasiveness. The fact that information is key to digitalisation
is sometimes less obvious, let alone that information is the integrator of human
interactions. Goals like circularity are not only highly demanding in information,
they also require radical changes in all related industries. These characteristics make
circularity clearly dependent on the digital transformation of the whole of AECO, in
the same way that digitalisation has transformed communications, entertainment,
social contacts, etc. While such transformation is feasible, the problem with
digitalisation in AECO is not lack of potential but low priority. So long as it is
seen as a mere means to basic tasks, it cannot deliver its full promise. In turn, this
reduces willingness to invest in digitalisation and hence the performance of digital
solutions. To break this vicious circle, brave plans are necessary. Circularity has to assume
fully integrated digital information for the built environment and include it in the
core of its processes as the connecting tissue between aspects, stakeholders and
actors. In other words, the first, critical step is that AECO commits to BIM and
applies it to all aspects and tasks. This ensures reliable and effective support for
circularity, as well as a wide scope for it, for two key reasons. Firstly, being
successful with just a few components or materials does not justify the circularity
claims and investments – for circularity to be truly effective, it must apply widely to
the built environment. Secondly, to achieve that, circularity must be present in all 16 A. Koutamanis A. Koutamanis aspects, become embraced by the corresponding disciplines and made part of their
goals and methods. Keeping it separate, as an additional layer, turns it into an
afterthought and an option. This information environment cannot be initiated by any single aspect or goal. Circularity may endorse it, but it is the whole of AECO that must sustain it
throughout the life cycle. This sounds like a tall order, but thankfully BIM, properly
and consistently applied, is a good starting point. Its limitations are not trivial but not
such that they preclude effectiveness and efficiency in any discipline or the collab-
oration between disciplines. What AECO needs is more experience with working in
such an environment – experience that can be invaluable in further transitions, e.g. 1.6
Discussion to
the enticing prospect of digital twinning. 1.7
Key Takeaways •
BIM has considerable potential to integrate information processing, thus provid-
ing comprehensive and situated information that covers most circularity needs. •
BIM has considerable potential to integrate information processing, thus provid-
ing comprehensive and situated information that covers most circularity needs. g
p
y
•
BIM seamlessly links circularity to other activities in design, construction and
operation. •
BIM seamlessly links circularity to other activities in design, construction and
operation. •
Digital twinning promises even more: digital replicas in full synchronisation with
the physical twin and its past, present and future states. •
The successful deployment of powerful technologies such as BIM and digital
twinning requires significant investment, commitment and consistency. •
The successful deployment of powerful technologies such as BIM and digital
twinning requires significant investment, commitment and consistency. 1
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Turk Ž (2020) Interoperability in construction – mission impossible? DIBE 4:100018. https://doi. org/10.1016/j.dibe.2020.100018 Turk Ž (2021) Structured analysis of ICT adoption in the european construction industry. Int J
Constr Manag 1–7. https://doi.org/10.1080/15623599.2021.1925396 van den Berg M, Voordijk H, Adriaanse A (2021) BIM uses for deconstruction: an activity-
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app11093750 Wong K, Fan Q (2013) Building information modelling (BIM) for sustainable building design
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From Building Information Modelling to Digital Twins. . . https://doi.org/10.3390/su122410329 Alexander Koutamanis studied architecture in Greece and received his PhD from Delft University
of Technology, where he is associate professor of computational design. He has also worked as a
designer and consultant in practice. His research interests include representation, recognition,
information, interaction, affordances, briefing and decision support. Recent publications include
an open textbook on building information management, an edited volume on construction and
demolition waste recycling (including a chapter on BIM) and journal papers on dimensions and
potential in BIM. Open Access This chapter is licensed under the terms of the Creative Commons Attribution 4.0
International License
which permits use, sharing,
adaptation, distribution and reproduction in any medium or format, as long as you give appropriate
credit to the original author(s) and the source, provide a link to the Creative Commons license and
(http://creativecommons.org/licenses/by/4.0/),
indicate if changes were made. The images or other third party material in this chapter are included in the chapter’s Creative
Commons license, unless indicated otherwise in a credit line to the material. If material is not
included in the chapter’s Creative Commons license and your intended use is not permitted by
statutory regulation or exceeds the permitted use, you will need to obtain permission directly from
the copyright holder.
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Radikaloperation eines primären Lungenkarzinoms<sup>1</sup>)
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Deutsche medizinische Wochenschrift/Deutsche Medizinische Wochenschrift
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Radikaloperation eines primären Lungen-
karzinoms.1) Operation am 13. September 1912. Morphium-Skopolamin-
Narkose. Chloroform-Aether. Ueberdruck mit Apparat von Tiegel. Lagerung auf die linke Seite. Kissen unter die linke Brustseite. Um-
schneidung und wasserdichte Uebernähung der thermokauterisierten
Granulationsfläche (in Höhe der siebenten Rippe), die von'der voraus
gegangenen Operation von Herrn Dr. Sauer herrührte. E
i
i Von Prof. J. Rotter in Berlin. Unter den Operationen an der Lunge haben die Pneumo-
tomien, die Eröffnungen von Höhlen der Lunge, bereits ein sehr
umfangreiches Material in die Literatur geliefert. Die Ent-
fernung von Te i 1 e n der Lungensubstanz ist indessen bisher
nur in einer recht bescheidenen Anzahl von Fällen ausgeführt
worden, insbesondere ist die Amputation von ganzen Lappen
der Lunge - soweit ich die Literatur übersehe - bisher so selten
mitgeteilt worden, daß es heutzutage noch erwünscht erscheint,
derartige Einzelfälle zu publizieren. g g
g
p
Exstirpation
des Tumors: Da
Fig. 1. die Haut von der
zehnten
bis
zur
siebenten
Rippe
mit der von der
Neubildung durch-
wachsenen Brust-
wand (im Bereiche
des Röntgenschat-
tens)
verwachsen
ist,
muß
sie
in
dieser Ausdehnung
geopfert
werden. Es wird der Haut-
schnitt
oben
in
dem
Interkostal. raum zwischen der
sechsten und sie-
benten Rippe geführt, aber weil das Messer in der Brustwandnoch in
die Neubildung gelangt, muß der nächst höhere Interkostalraum zwischen
der sechsten und fünften Rippe zur DurchtrennungderBrustwand be-
nutzt werden, und zwar in einer Länge von etwa17cm, medianwärte
bis zum Rippenknorpel und hinten bis nahe ai{den Rippenwinkel. E
d i d
Lä
d
S h itt
di f i Pl
höhl Fig. 1. Heruntergeladen von: NYU. Urheberrechtlich geschützt. g
p
Ich hatte Gelegenheit, im verflossenen Jahre mehr als
den ganzen rechten Unterlappen der Lunge zu amputieren, und
zwar, was wieder besonders selten bisher vorgekommen ist,
wegen eines primären Karzinoms der Lunge. Krankengeschichte. H. G., 51 Jahre alt, Beamter. l
i d
d
f ll
d g
A n a m n e s e. Als Kind Lungen- und Brustfellentzündung. Vor
einem Jahre zwischen dritter bis fünfter Rippe Druckgefühl und später
Schmerzen daselbst, besonders bei Bewegungen und beim Husten. Seit
Februar 1912 traten heftige Schmerzen auf der rechten Brustseite auf,
weshalb er das Hedwig.Krankenhaus aufsuchte. Auf der Inneren Ab. teilung wurde folgendes bei dem mittelgroßen Manne festgestellt: Mittlerer
Ernihrungs- und Kräftezustand. Begründet von Dr- Paul Börner Begründet von Dr- Paul Börner VERLAG:
GEORG THIEME
LEIPZIG
Rabensteinplatz 2 HERAUSGEBER:
Gek San.-Rat Prof. Dr. Schwalbe
Berlin - Charlottenburg, Schlüterstr. 53 Aus dem St. Hedwig-Krankenhaus in Berlin. Aus dem St. Hedwig-Krankenhaus in Berlin. 1) Vorgetragen in der Sitzung der Berliner Gesellschaft für Chirurgie
am 23. Juni 1913. Radikaloperation eines primären Lungen-
karzinoms.1) Rechts hinten unten neben der Wirbelsäule ist die
Pleura und Lunge gesund, weiter nach vorn besteht Dämpfung und
aufgehobene Atmung bis hinauf zur sechsten Rippe und nach vorn bis
nahe zu den Rippenknorpeln. Status: Mittlerer Ernährungs- und Kräftezustand. Temperatur
normal. Rechte Brustseite deutlich eingezogen. Die Atmung bleibt
gegen die linke Seite zurück. In der vorderen Axillarlinie in Höhe der
sechsten und siebenten Rippe eine kleinfingerlange, 1/2 cm tiefe, querver. laufende Granulationsfläche, die von der Operation des Herrn Dr. Sauer herrührte. Rechts hinten unten neben der Wirbelsäule ist die
Pleura und Lunge gesund, weiter nach vorn besteht Dämpfung und
aufgehobene Atmung bis hinauf zur sechsten Rippe und nach vorn bis
nahe zu den Rippenknorpeln. Oben, median und unten war jetzt der von der Neubildung
durchwachsene Teil der Brustwand umschnitten. Nun wurde noch
hinten die Brustwand von unten ñach oben - in der Gegend der Anguli
costarum -. durchschnitten, und zwar im Bereiche der
zehnten,
neunten, achten, siebenten und sechsten Rippe. Oben, median und unten war jetzt der von der Neubildung
durchwachsene Teil der Brustwand umschnitten. Nun wurde noch
hinten die Brustwand von unten ñach oben - in der Gegend der Anguli
costarum -. durchschnitten, und zwar im Bereiche der
zehnten,
neunten, achten, siebenten und sechsten Rippe. Oben, median und unten war jetzt der von der Neubildung
durchwachsene Teil der Brustwand umschnitten. Nun wurde noch
hinten die Brustwand von unten ñach oben - in der Gegend der Anguli
costarum -. durchschnitten, und zwar im Bereiche der
zehnten,
neunten, achten, siebenten und sechsten Rippe. Dèr rings umschnittene Brustwandlappen konnte mit der an ihn
festgewachsenen Lunge noch nicht aus der Thoraxhöhle hervorgezogen
werden, weil die Neubildung weitgehend auch in das Zwerchfell hinein-
gewachsen und an dieses fixiert war. Es mußte jetzt die Lunge im Gesunden von dem Tumor abgetrennt
werden, was sich am bequemsten an der kollabierten Lunge ausführen
läßt. Deshalb wurde von jetzt ab der Ueberdruck weggelassen, ohne daß
bei dem gut narkotisierten Patienten unbequeme Pneuniothoraxsym-
ptome aufgetreten wären. Ich trug dann die kollabierte Lunge oberhalb
des Tumors im Gesunden quer herüber ab, in einer Linie, welche in Höhe Das Röntgenbild (Nr. 1 ergab bei der Aufnahme von vorn nach
hinten einen Schatten, der das Dreieck zwischen Lebersehatten, seit-
licher Rippenwandlinie bis hinauf zur sechsten Rippe (in der Axillar. linie) ausfühlte. Zwischen diesem Schatten und dem Herzschatten ober-
halb der Leber besteht eine zweiquerfingerbreite Zone von heller (luf t-
haltiger) Lunge. (S. Fig. Radikaloperation eines primären Lungen-
karzinoms.1) Zwischen dritter und fünfter rechter
Rippeund zwischen der vorderen und mittleren Axillarlinie findet sich
eine etwa kleinhandtellergroße geringe Niveaudifferenz - im Vergleich
zur korrespondierenden Stelle der linken Seite - und bei der Palpation
hat man den Eindruck einer geringen Infiltration. Bei Druck auf diese
Gegend äußert der Patient eine ziemlich lebhafte Schmerzempfindung,
die sich den Interkostalnerven entlang ausbreitet. Es wurde in der ganzen Länge des Schnittes die freie Pleurahöhle
eröffnet, ohne daß (unter Ueberdruck) dabei unangenehme Erscheinungen
auftraten. Die eingeführte Hand stellte fest, daß wenig unter der sechsten
Rippe der in eine harte Masse verwandelte untere Lungenlappen mit der
seitlichen Thoraxwand fest verwachsen war, daß aber median - in der
Gegend der Rippenknorpel und des Mediastinums - und hinten in der
Gegend der Anguli costarum die Lunge bis hinab zum Zwerchfell frei,
ohne Adhäsionen war. Nach oben zu im Bereiche des Mittel- und Ober-
lappens bestanden keinerlei Verwachsungen. Die Pleurahöhle wurde pro-
visorisch mit Gazetüchern tamponiert. Hierauf wurde die Brustwand
median von oben nach unten, vom sechsten Rippenknorpel hinab bis
an den Rippenbogen, durchschnitten. Nach unten zu reichte die mit
der Brustwand verwachsene Neubildung zwischen der Mamillarlinie
und der Axillarlinie bis nahe an den Rippenbogen". Es mußte daher
unten die Haut und die Brustwand nahe und parallel dem Rippenbogen
durchtrennt werden, wobei der knöcherne Teil der zehnten Rippe mit
entfernt wurde. Nachdem der Patient sich für einige Wochen einer Badekur unter-
worfen hatte, gelangte er in Wittenberge in die Behandlung des Herrn
Dr. Sauer, der am 30. Juli 1912 eine Operation vornahm. Dabei
wurden Stücke aus der neunten, achten und siebenten Rippe reseziert
und festgestellt, daß nicht, wie vorher angenommen worden war, ein ent-
zündlicher Prozeß, sondern eine Neubildung vorlag, welche die Brustwand
durchwachsen hatte. Die mikroskopische Untersuchung zeigte ein
Karzinom, das von der Lunge seinen Ausgang genommen hatte. Herr
Dr. Sauer hat in Ermangelung eines Ueberdruckapparates den Patienten
dem St. Hedwigs-Krankenhaus überwiesen, wo er am 10. September 1912
aufgenommen wurde. Status: Mittlerer Ernährungs- und Kräftezustand. Temperatur
normal. Rechte Brustseite deutlich eingezogen. Die Atmung bleibt
gegen die linke Seite zurück. In der vorderen Axillarlinie in Höhe der
sechsten und siebenten Rippe eine kleinfingerlange, 1/2 cm tiefe, querver. laufende Granulationsfläche, die von der Operation des Herrn Dr. Sauer herrührte. Nr. 35 Nr. 35 BERLIN,
DEN 28. FtUGUST 1913 39. JFIHROFINO Diagnose. Auf Grund dieses Befundes und des mikroskopischen
Präparates von Herrn Dr. Sauer wurde die Diagnose auf ein Karzinom Aus dem St. Hedwig-Krankenhaus in Berlin. des rechten unteren Lungenlappens gestellt, das sich lateral auf die Brust-
wand ausgebreitet, dagegen medianwärts, nach dem Hilus zu, die Lunge
noch frei gelassen habe und sich für eine Exstirpation vielleicht eignen
könne. Deutsche MedizinIsche Wochenschrifi Begründet von Dr- Paul Börner Radikaloperation eines primären Lungen-
karzinoms.1) Ende Oktober hatte
sich die Granulationsfläche auf der Oberfläche der Leber und im Bereiche
des freiliegenden Mediastinums erheblich verkleinert. Letzteres bewegte
sich bei ruhiger Atmung ein wenig, indessen machte es beim Husten noch
starke Exkursionen. Oberhalb der Leber folgte in der Tiefe der Granu-
lationshöhle ein schmaler Streifen von der hinteren Thoraxwand und dar-
über die granulierende Resektionsfläche der Lunge in der Höhe des
sechsten bis zum dritten Rippenknorpel. Am medianen Ende derseJben
war ein großer offener Bronchus zu sehen, der Hauptbronchus des unteren
( resezierten) Lungenlappens, aus dem besonders beim Husten die
Luft unter scharfem Geräusch ausströmte. Die übrigen hei der Operation
durchschnittenen Bronchi hatten sich geschlossen. pp
gg
Versorgung der Wundhöhle. Im Bereich der Leberoberfläche
wurde hinter die Reste des Zwerchfells seitlich und vorn das Peritoneum
mit der Serosa der Leber vernäht und darüber die Haut mit Nähten in der
Richtung von vorn nach hinten zusammengezogen, so weit es möglich
war. Der größte Teil der Leberoberfläche blieb infolge des großen Haut-
defektes unbedeckt. Des weiteren stand die Aufgabe vor uns, die große
Höhle des oberen Thoraxraumes einigermaßen zu decken. Infolge des
ausgedehnten Verlustes an Haut war es unmöglich, den oberen Haut-
rand in Höhe der fünften Rippe mit dem unteren Rand der zurück-
gelassenen - kollabierten - Lunge zu vernähen. Um das zu erreichen,
blieb nichts anderes übrig, als von der restierenden oberen Rippenwand
noch ein großes Stück im Bereich der fünften, vierten und dritten Rippe
mit der großen Rippenschere zu exstirpieren. Danach gelang es, den
oberen Hautrand an den unteren Rand der zurückgebliebenen kollabierten
Lunge ohne Spannung anzunähen. Indessen legte sich die Haut nur
auf dem unteren Ende der Lunge auf, während weiter oben zwischen
Lunge und Haut und Brustwand bis hinauf zur Kuppel der Thoraxhöhle
noch ein großer Hohlraum, gewiß von Kindskopfgröße, übrig blieb. Um das Sekret aus diesem Raume abzuleiteu, wurde ein Drainrohr einge-
führt. Zwischen diesem durch die Haut abgedeckten oberen Thoraxraum
und der Leberoberfläche blieb ein großer, offener Wundraum übrig, der
unten von der Leberoberfläche, oben von der an die Lunge angenähten
Haut und der Resektionsfläche der Lunge und nach innen von dem Herz-
beutel und dem (bis zum unteren Rand des Hilus freiliegenden) Media-
stinum gebildet wurde. Radikaloperation eines primären Lungen-
karzinoms.1) Nur die auf-
gepackte Gaze wurde gewechselt. des unteren Randes des Lungenhilus horizontal nach außen verlief. In dieser Linie wurde mittels Desehamps das gesunde Lungengewebe in
größeren Portionen umstochen und (mit Katgut) fest abgebunden, was
ganz ohne Blutung gelang. Die Bronchien und Gefäße wurden nicht be-
sonders herauspräpariert. Der Hauptbronchus für den unteren Lungen-
lappen wurde, wie später die Sektion zeigte, 4-5 cm von der Bifur-
kation entfernt, an der Stelle, wo er vom rechten Hauptbronchus
abgeht, abgebunden. In den ersten Wochen post operationem klagte Patient viel über
Schlingbeschwerden und Schmerzen den Oesophagus entlang bis hinab
zum Magen. Dadurch wurde die Nahrungsaufnahme recht erschwert. Später verloren sieh diese Beschwerden. Der Magen vermochte noch
lange Zeit keine größeren Mengen von Nahrung aufzunehmen, weil das
Gefühl von Druck und Völle, Neigung zum Erbrechen nach stärkerer
Füllung des Magens sich einstellte. g
g
Nun hing das Präparat noch am Zwerchfell. Es zeigte sich, daß
der Tumor in großer Ausdehnung mit dem Zwerchfell verwachsen war
und daß die Neubildung das Zwerchfell medianwärts bis dicht an den
Herzbeutel in Form einer harten Platte durchwachsen hatte. Es mußte
deshalb fast das ganze rechte Zwerchfell ausgeschnitten werden, median
bis dicht an den Herzbeutel, vorn und lateral einschließlich des Rippen-
ansatzes. Hinten blieb noch ein zweiquerfingerbreiter Streifen übrig. Etwa 14 Tage post operationem stellten sich eigenartige Anfälle von
Atemnot ein, die mit Schmerzen im Rücken und in der rechten Schulter
verbunden waren und einige Minuten bis eine Viertelstunde dauerten. Sie konnten meist mit Morphium schnell beseitigt werden und traten
täglich ein bis mehrere Male auf. Trotzdem erholte sich der Patient
zusehends und machte einen gegen alle Erwartungen günstigen Eindruck. Damit war die Exstirpation der Neubildung beendet. Wir standen
jetzt vor einer riesigen Wundhöhle : man sah u n t e n die ganze freiliegende
Oberfläche des rechten Leberlappen, m e d i a n den Herzbeutel und über
diesem das Mediastinum bis zum Ililus der Lunge, und weiter oben
den kollabierten oberen und den größten Teil des mittleren Lungenlappens,
welche - weil kollabiert - als wenig voluminöse Masse neben der Wirbel-
sï.ule lagen. Davor dehnte sich ein gewaltiger Hohlraum bis hinauf zur
Lungenspitze aus, der vorn begrenzt wurde durch die Thoraxwand der
fünf oberen Rippen. Zu dieser Höhle führte ein kolossaler Defekt der
Brustwand im Bereich der sechsten bis zehnten Rippe, wo nicht bloß
die Rippen, sondern auch die Haut weggenommen worden waren. Die Wundheilung machte gute Fortschritte. Radikaloperation eines primären Lungen-
karzinoms.1) Wir wurden sehr
angenehm überrascht davon, daß
das Drainrohr gar keinen Eiter
ableitete und daß sich in diesem Oberhalb der granulierenden Resektionsfläche der Lunge setzte
sieh in Höhe des dritten Rippenknorpels die Thoraxhaut an,
die
bei
der Operation auf den untersten Band der zurückgelassenen Lungen-
pleura aufgenäht worden war und die den oberen Thoraxraum abschloß. Ich hatte angenommen daß sich in Fig. 2. Fig. 2. Die eigentliche Wundhöhle im Bereiche des Mediastinums der Leber-
oberfläche, der hinteren Thoraxwand und des unteren Randes der Mittel-
lappen der Lunge hatte sich allmählich infolge der Vernarbungsschrump-
fung wesentlich verkleinert und der gewaltige Tailleneinschnitt bedeutend
abgeflacht. Aber trotzdem sahen wir doch noch eine recht große Granu-
lationsfläche vor uns. Deshalb, und um den offenen Bronchus zum Ver-
schluß zu bringen, wurde am 3. November eine Nachoperation
(unter Lokalanästhesie) ausgeführt. In der Gegend des M. pectoralis
major wurde ein vierquerfingerbreiter Hautlappen mit medianem Stiel
gebildet und so heruntergeklappt, daß die Granulationsfläche der Lunge,
des Mediastinums und der hinteren Brustwand bedeckt wurde. Der
Lappen heilte an. G
E d N
b
k
d
P i
d
B
l
d g
p
Postoperativer Verlauf. Als der Patient nach dieser über zwei
Stunden andauernden Operation in das Bett gefahren wurde, waren wir
der Ueberzeugung, daß er wahrscheinlich noch am selben Tage sterben
würde. Zu unserer Freude erholte er sich aber sehr schnell von dem
kolossalen Eingriff: der Puls war um 120. Am ersten und zweiten Tage
bestand etwas blutiger Auswurf. Beim Husten stellte sich stets infolge
Mediastinalflatterns große Atemnot ein. Dieserhalb und weil er über
heftige Schmerzen klagte, wurde ihm sehr reichlich Morphium verabfolgt,
das ausgezeichnete Dienste leistete, weil der Hustenreiz und damit
das Mediastinaiflattern herabgesetzt wurde. So gestaltete sich bereits
am zweiten Tage das Befinden ganz zufriedenstellend. Puls zwischen
100 und 120 Schlägen. Temperatur in der ersten Zeit um 38° herum. Am fiiniten Tage post operationem wurde die in die Schürze ge-
stopfte Gaze gezogen, wobei ein heftiger Hustenanfall und hochgradiges
Mediastinaflattern auftrat. Unter der Schürze stellte sich eine lebhafte
Blutung an der Lungenwundfläche ein. Die Situation erschien überaus
bedenklich. Es mußte eine leichte (Inhalations.) Narkose ausgeführt Postoperativer Verlauf. Als der Patient nach dieser über zwei
Stunden andauernden Operation in das Bett gefahren wurde, waren wir
der Ueberzeugung, daß er wahrscheinlich noch am selben Tage sterben
würde. Zu unserer Freude erholte er sich aber sehr schnell von dem
kolossalen Eingriff: der Puls war um 120. Radikaloperation eines primären Lungen-
karzinoms.1) 1.) Das Röntgenbild (Nr. 1 ergab bei der Aufnahme von vorn nach
hinten einen Schatten, der das Dreieck zwischen Lebersehatten, seit-
licher Rippenwandlinie bis hinauf zur sechsten Rippe (in der Axillar. linie) ausfühlte. Zwischen diesem Schatten und dem Herzschatten ober-
halb der Leber besteht eine zweiquerfingerbreite Zone von heller (luf t-
haltiger) Lunge. (S. Fig. 1.) pp
Dèr rings umschnittene Brustwandlappen konnte mit der an ihn
festgewachsenen Lunge noch nicht aus der Thoraxhöhle hervorgezogen
werden, weil die Neubildung weitgehend auch in das Zwerchfell hinein-
gewachsen und an dieses fixiert war. Dèr rings umschnittene Brustwandlappen konnte mit der an ihn
festgewachsenen Lunge noch nicht aus der Thoraxhöhle hervorgezogen
werden, weil die Neubildung weitgehend auch in das Zwerchfell hinein-
gewachsen und an dieses fixiert war. g
Es mußte jetzt die Lunge im Gesunden von dem Tumor abgetrennt
werden, was sich am bequemsten an der kollabierten Lunge ausführen
läßt. Deshalb wurde von jetzt ab der Ueberdruck weggelassen, ohne daß
bei dem gut narkotisierten Patienten unbequeme Pneuniothoraxsym-
ptome aufgetreten wären. Ich trug dann die kollabierte Lunge oberhalb
des Tumors im Gesunden quer herüber ab, in einer Linie, welche in Höhe g
Es mußte jetzt die Lunge im Gesunden von dem Tumor abgetrennt
werden, was sich am bequemsten an der kollabierten Lunge ausführen
läßt. Deshalb wurde von jetzt ab der Ueberdruck weggelassen, ohne daß
bei dem gut narkotisierten Patienten unbequeme Pneuniothoraxsym-
ptome aufgetreten wären. Ich trug dann die kollabierte Lunge oberhalb
des Tumors im Gesunden quer herüber ab, in einer Linie, welche in Höhe Diagnose. Auf Grund dieses Befundes und des mikroskopischen
Präparates von Herrn Dr. Sauer wurde die Diagnose auf ein Karzinom Diagnose. Auf Grund dieses Befundes und des mikroskopischen
Präparates von Herrn Dr. Sauer wurde die Diagnose auf ein Karzinom 209 DEUTSCHE MEDIZIMSC11E WOCHENSORRIFT. Nr. 35 Nr. 35 1666 werden, um den Hustenreiz zu beschwichtigen und die blutende Stelle
in der Lungenwundfläche mit Kremallierenzangen fassen und ligieren
zu können. Auch diesen Eingriff vertrug der Patient gut. Von neum
wurde eine Schürzentamponade angelegt, die dann trotz der starken
Durchtränkung mit Sekret etwa zehn Tage liegen blieb. Nur die auf-
gepackte Gaze wurde gewechselt. werden, um den Hustenreiz zu beschwichtigen und die blutende Stelle
in der Lungenwundfläche mit Kremallierenzangen fassen und ligieren
zu können. Auch diesen Eingriff vertrug der Patient gut. Von neum
wurde eine Schürzentamponade angelegt, die dann trotz der starken
Durchtränkung mit Sekret etwa zehn Tage liegen blieb. Radikaloperation eines primären Lungen-
karzinoms.1) Es entstand dabei ein ungemein tiefer Einschnitt
in das Thoraxprofil, der hinten bis an die Rippenwinkel reichte und unten
von der Leberoberfläche und o b e n von der auf die Lunge aufgenähten
Haut gebildet wurde. Auf diese gewaltige Wundfläche wurde eine
Jodoformgazeschürze gelegt und diese mit einer großen Menge steriler
Gaze ausgestopft
und mittels Ref tpf lasterstreifen, welche die linke
Lunge nicht komprimierten, fixiert. Ueber das Ganze wurde schließlich
ein locker angelegter Bindenverband gelegt. Das Verhalten des Media-
stinums war, so lange die Narkose tief war, sehr günstig, indem es
durch die Atmung der gesunden (linken) Lunge nur wenig hin und her
bewegt wurde. Am Schluß der Operation aber, als etwas Husten auftrat,
geriet es mit fürchterlichen Exkursionen ins Flattern". Wir mußten
mit großen Gazetüchern gegenstützen, um besonders die starke Verschie-
bung nach der kranken Seite zu verhüten. Es trat starke Zyanose dabei
auf, aber glücklicherweise kein bedrohlicher Kollaps. P
t
ti
V l
f
Al d
P i
h di
b
i Heruntergeladen von: NYU. Urheberrechtlich geschützt. Oberhalb der granulierende
sieh in Höhe des dritten Rippenk
der Operation auf den untersten
pleura aufgenäht worden war und
Ich hatte angenommen, daß sich in
diesem durch ein Gummirohr drai-
nierten Raume ein Empyem eut-
wickeln würde. Wir wurden sehr
angenehm überrascht davon, daß
das Drainrohr gar keinen Eiter
ableitete und daß sich in diesem
großen Hohlraum infolge Resorp-
tion der darin enthaltenen Luft
die
Lunge wieder
ausgedehnt
hatte (Fig. 2) und den Hohlraum
bis auf eine taubeneigroße Höhle
oben an der Lungenspitze voll-
kommen ausfüllte. Offenbar hatte
sich das Drainrohr verstopft, und
so war der große Luftraum von
der Außenwelt luftdicht
abge-
schlossen
worden. Das Allge-
meinbefinden hatte sich so ge-
bessert, daß der Patient Mitte
Oktober das Bett verlassen und
etwas umhergehen konnte. Oberhalb der granulierenden Resektionsfläche der Lunge setzte
sieh in Höhe des dritten Rippenknorpels die Thoraxhaut an,
die
bei
der Operation auf den untersten Band der zurückgelassenen Lungen-
pleura aufgenäht worden war und die den oberen Thoraxraum abschloß. Ich hatte angenommen, daß sich in
diesem durch ein Gummirohr drai-
Fig. 2. nierten Raume ein Empyem eut-
wickeln würde. Radikaloperation eines primären Lungen-
karzinoms.1) W
d
M ll
(R
k) (5) d
h
Ob l
i Von älteren Fällen erwähnt G arr è in seinem Handbuch Lungen-
chirurige 1912 sieben tödlich verlaufene Fälle und noch drei erfolgreiche
von Tuffier, Lowson und Doyen. W
d
M ll
(R
k) (5) d
h
Ob l
i y
Wurde von Müller (Rostock) (5) der rechte Oberlappen mit
Glück amputiert, die Brusthöhle geschlossen bis auf eine Stelle, wo ein
Tampon auf den Hilusstumpf eingeführt wurde. Der Patient starb drei
Wochen post operationem an tuberkulöser Meningitis
d di
li k Wurde von Müller (Rostock) (5) der rechte Oberlappen mit
Glück amputiert, die Brusthöhle geschlossen bis auf eine Stelle, wo ein
Tampon auf den Hilusstumpf eingeführt wurde. Der Patient starb drei
Wochen post operationem an tuberkulöser Meningitis p
p
g
Von Macewen (6) wurde die
ganze
linke Lunge,
in
der
eine große Kaverne pneumotomiert worden und von der nicht mehr viel
Parenchym übrig geblieben war, subtotal aus dem verwachsenen Pleura-
raum ausgelöst und entfernt. Die ganze Lungenhöhle wurde tamponiert. Der Patient befand sich 16 Jahre nach der Operation noch gesund. Von Macewen (6) wurde die
ganze
linke Lunge,
in
der
eine große Kaverne pneumotomiert worden und von der nicht mehr viel
Parenchym übrig geblieben war, subtotal aus dem verwachsenen Pleura-
raum ausgelöst und entfernt. Die ganze Lungenhöhle wurde tamponiert. Der Patient befand sich 16 Jahre nach der Operation noch gesund. b) W
i
h
R b) Wegen traumatiseher Ruptur
hat S au erbru ch neuerdings (persönliche Mitteilung) den linken Unter-
lappen aus der freien Pleurahöhle amputiert. Der Hilus ließ sich mit
Lungengewebe übernähen. Die Thoraxhöhle wurde geschlossen und
eine glatte Heilung erzielt. b) Wegen traumatiseher Ruptur
hat S au erbru ch neuerdings (persönliche Mitteilung) den linken Unter-
lappen aus der freien Pleurahöhle amputiert. Der Hilus ließ sich mit
Lungengewebe übernähen. Die Thoraxhöhle wurde geschlossen und
eine glatte Heilung erzielt. Nachdem
die Krankengeschichte des Falles mitgeteilt
worden ist, will ich Ihnen das von mir gesammelte, in der
Literatur niedergelegte Material, das die E n t fern u ng y o n
Teilen der Liingensubstanz betrifft, kurz mitteilen. Am häufigsten sind Lungenamputationen wegen
) B
hi k
i
füh
d
I h k e) Bronchiektasien ausgeführt worden. Ich konnte im
ganzen 16 Fälle zusammenstellen. Die meisten dieser Opera-
tionen sind bei
h
Pl
höhl
d I. Radikaloperation eines primären Lungen-
karzinoms.1) Am ersten und zweiten Tage
bestand etwas blutiger Auswurf. Beim Husten stellte sich stets infolge
Mediastinalflatterns große Atemnot ein. Dieserhalb und weil er über
heftige Schmerzen klagte, wurde ihm sehr reichlich Morphium verabfolgt,
das ausgezeichnete Dienste leistete, weil der Hustenreiz und damit
das Mediastinaiflattern herabgesetzt wurde. So gestaltete sich bereits
am zweiten Tage das Befinden ganz zufriedenstellend. Puls zwischen
100 und 120 Schlägen. Temperatur in der ersten Zeit um 38° herum. Am fiiniten Tage post operationem wurde die in die Schürze ge-
stopfte Gaze gezogen, wobei ein heftiger Hustenanfall und hochgradiges
Mediastinaflattern auftrat. Unter der Schürze stellte sich eine lebhafte
Blutung an der Lungenwundfläche ein. Die Situation erschien überaus Gegen Ende November konnte der Patient das Bett verlassen und
allmählich auf dem Korridor spazieren gehen. Ende November konnte festgestellt werden, daß aus dem offenen
Bronchus doch noch Luft neben den Lappen unter Geräusch hervordrang. Das Mediastinum war durch den aufgewachsenen Hautlappen besser
fixiert, infolge Narbenschrumpfung etwas nach rechts disloziert und
bewegte sich beim ruhigen Atmen nur ganz wenig, aber beim Husten
doch immer noch recht stark. An der gesunden linken Lunge ließ sich sowohl perkutorisch als
auch am Röntgenbilde ein bedeutendes vikariierendes Emphysem fest-
stellen. Die Lunge reichte bis zur elften Rippe herunter und hatte das
Zwerchfell nach abwärts gedrückt. Die linke Thoraxseite arbeitete auch
beim ruhigen Atmen mit den Hilf smuskeln am Halse, und das linke Zwerch- Ende November konnte festgestellt werden, daß aus dem offenen
Bronchus doch noch Luft neben den Lappen unter Geräusch hervordrang. Das Mediastinum war durch den aufgewachsenen Hautlappen besser
fixiert, infolge Narbenschrumpfung etwas nach rechts disloziert und
bewegte sich beim ruhigen Atmen nur ganz wenig, aber beim Husten
doch immer noch recht stark. A d
d
li k
L
li ß i h
hl
k
i
h l An der gesunden linken Lunge ließ sich sowohl perkutorisch als
auch am Röntgenbilde ein bedeutendes vikariierendes Emphysem fest-
stellen. Die Lunge reichte bis zur elften Rippe herunter und hatte das
Zwerchfell nach abwärts gedrückt. Die linke Thoraxseite arbeitete auch
beim ruhigen Atmen mit den Hilf smuskeln am Halse, und das linke Zwerch- An der gesunden linken Lunge ließ sich sowohl perkutorisch als
auch am Röntgenbilde ein bedeutendes vikariierendes Emphysem fest-
stellen. Die Lunge reichte bis zur elften Rippe herunter und hatte das
Zwerchfell nach abwärts gedrückt. Radikaloperation eines primären Lungen-
karzinoms.1) Dezember ein Ende bereitete. Am 2. Dezember 1912 trat eine heftige Angina auf mit Temperaturen
bis über 390, die sich in Form eines schweren Katarrhes rasch auf die
Luftwege der gesunden Lunge fortsetzte und ihm bei dem dauernden
heftigen Hustenreiz die größte Atemnot bereitete und seinem Leben
unter den Symptomen der Erstickung am 9. Dezember ein Ende bereitete. g
Während bei den bisher besprochenen Fä]len bei ver-
wachsener Pleurahöhle operiert wurde, sind
b i i
ih
ll
b i f i
l
h hl Während bei den bisher besprochenen Fä]len bei ver-
wachsener Pleurahöhle operiert wurde, sind
B. bei einer Reihe von Fällen bei freier Pleurahöhle, wo
also die Gefahr des akuten Pneumothorax übernommen werden
muß, kleinere Teile der Lunge entfernt worden. B. bei einer Reihe von Fällen bei freier Pleurahöhle, wo
also die Gefahr des akuten Pneumothorax übernommen werden
muß, kleinere Teile der Lunge entfernt worden. Präparat (Dr. Rheindorf): Im exstirpierten rechten unteren
Lungenlappen findet sich eine haselnußgroße Höhle, die in einer derben,
grauweißlichen, fast homogenen Tumormasse liegt. Die Oberfläche
der Höhlenwand ist hockerig, uneben und ihre Begrenzung gegen das
Lungengewebe unscharf. Präparat (Dr. Rheindorf): Im exstirpierten rechten unteren
Lungenlappen findet sich eine haselnußgroße Höhle, die in einer derben,
grauweißlichen, fast homogenen Tumormasse liegt. Die Oberfläche
der Höhlenwand ist hockerig, uneben und ihre Begrenzung gegen das
Lungengewebe unscharf. Gerulanos (10) hat in seiner Arbeit vier Fälle (Sedillot, Krön-
1cm
(faustgroßer Tumor), Müller (3 : 9 cm großer Tumor) und König)
erwähnt, wo bei der Entfernung von Brustwandtumoren kleinere, mit
letzterem verwachsene Teile der Lunge exzidiert wurden. Der Lungen-
defekt konnte in diesen vier Fällen, da größere Bronchien nicht verletzt
waren, übernäht und versenkt und die Pleurahöhle und Thoraxwand
wieder geschlossen werden. Alle diese Fälle haben den Eingriff gut
überstanden. Mikroskopisch handelt es sich um ein Karzinom mit klar an-
gedeuteter Verhornung. Typische Hornperlen fehlen. Das Wachstum
erfolgt in großen Zapfen, in denen auch Andeutung von Drilsenbildung
vorhanden ist. Einige Zapfen zeigen zentral starke Detritusbildung. Vermutlich ist der Ausgangspunkt eine bronchiektatische oder phthisische
Höhle. In der Wand konnten tuberkulöse Veränderungen nicht nach-
gewiesen werden. An der linken Lunge hatte der Patient Zeichen einer
geheilten Tuberkulose. Mikroskopisch handelt es sich um ein Karzinom mit klar an-
gedeuteter Verhornung. Typische Hornperlen fehlen. Das Wachstum
erfolgt in großen Zapfen, in denen auch Andeutung von Drilsenbildung
vorhanden ist. Einige Zapfen zeigen zentral starke Detritusbildung. Vermutlich ist der Ausgangspunkt eine bronchiektatische oder phthisische
Höhle. Radikaloperation eines primären Lungen-
karzinoms.1) Die linke Thoraxseite arbeitete auch
beim ruhigen Atmen mit den Hilf smuskeln am Halse, und das linke Zwerch- 1667 DEUTSCHE MEDIZINISCHE WOCHENSOHEIFT. 28. August 1913. erzielt worden sein. Man kann kaum Zweifel und die Frage unterdrücken,
ob hier nicht vielleicht bei der mikroskopischen Untersuchung, auf welche
die Diagnose sich stützt, ein Irrtum vorgekommen sein könnte. erzielt worden sein. Man kann kaum Zweifel und die Frage unterdrücken,
ob hier nicht vielleicht bei der mikroskopischen Untersuchung, auf welche
die Diagnose sich stützt, ein Irrtum vorgekommen sein könnte. erzielt worden sein. Man kann kaum Zweifel und die Frage unterdrücken,
ob hier nicht vielleicht bei der mikroskopischen Untersuchung, auf welche
die Diagnose sich stützt, ein Irrtum vorgekommen sein könnte. erzielt worden sein. Man kann kaum Zweifel und die Frage unterdrücken,
ob hier nicht vielleicht bei der mikroskopischen Untersuchung, auf welche
die Diagnose sich stützt, ein Irrtum vorgekommen sein könnte. fell verschob sich so tief nach abwärts, daß die Bauchwand stark vorge-
wölbt wurde und die Leber, welche des Gegenhalters der Rippenwand
beraubt war, sich bei jedem Atemzug stark nach rechts vorwölbte. Beim
Husten waren diese Phänomene in hohem Grade ausgesprochen. Bedenkt
man weiter, daß bei heftigerem Exspirieren auch noch eine gewisse, wenn
auch kleine Menge Luft durch die Bronchusfistel entwich, so begreift man,
daß der Patient selbst für die ruhige Atmung große Muskelkraft ver-
geuden mußte. So kam es, daß er oft über Atemnot klagte und diese
schon bei leichten Anstrengungen, wenn er z. B. etwas langer sprach,
fühlte. Man hatte den Eindruck, daß er des Lebens nicht recht froh
werden konnte. g
g
e) Fünf Fälle gelangten zur
Operation,
weil
größere
Bronchusfisteln im Anschluß an eine Pneumotomie, die
wegen Lungenabszeß ausgeführt war, nicht heilen wollten,
und zwar ein Fall von F. Krause (7), drei Fälle von Garrè (8) und
ein Fall von Perthes (9). Die Autoren haben die Bronchusfistel dadurch
zum Verschluß gebracht, daß sie die Wand der Lungenhöhle, auf deren
Grund der Bronchus ausmündete, anfrischten, also eine mehr oder weniger
dicke Schicht Lungengewebe abtrugen, und die angefrischten Flächen
miteinander vernähten, worauf in allen diesen Fällen der gewünschte Er-
folg erzielt wurde. Am 2. Dezember 1912 trat eine heftige Angina auf mit Temperaturen
bis über 390, die sich in Form eines schweren Katarrhes rasch auf die
Luftwege der gesunden Lunge fortsetzte und ihm bei dem dauernden
heftigen Hustenreiz die größte Atemnot bereitete und seinem Leben
unter den Symptomen der Erstickung am 9. Radikaloperation eines primären Lungen-
karzinoms.1) Beginnen wir mit der Entfernung von kleineren
Teilen der Lunge und betrachten hier wieder geordnet jene
Fälle, bei denen die Operation bei verwachsener oder freier
Pleurahöhle ausgeführt worden ist. A B i
h
Pl
höhl
h b
b i verwachsener Pleurahöhle vorgenommen
worden,
nämlich bei sechs Fällen, und zwar:
Ei F ll
G
è (11)
h il
i F ll
H id
h i (12) verwachsener Pleurahöhle vorgenommen
worden,
nämlich bei sechs Fällen, und zwar:
Ei F ll
G
è (11)
h il
i F ll
H id
h i (12) Ein Fall von Garrè (11) geheilt, ein Fall von Heidenhain (12)
geheilt, ein Fall von Körte (13) geheilt, ein Fall von Lenhartz (14)
geheilt, ein Fall von Quervain (14) geheilt, ein Fall von Gluck (16)
geheilt. B i f i
h
Pl
höhl A. Bei verwachsener Pleurahöhle
haben
a)
bei
Lungen- Aktinomykose
K
ki (1)
d J d i
ki (2)
hd
i
hö i
F A. Bei verwachsener Pleurahöhle
haben
a)
bei
Lungen- Aktinomykose
K
ki (1)
d J d i
ki (2)
hd
i
h
i
F Karewski (1) und Jadwinski (2), nachdem ein gehöriges Fenster
in der Thoraxwand gebildet worden war, die erkrankten Lungenpartien
mittels Thermokauter und Schere und scharfem Löffel entfernt, wobei
eine nahezu faustgroße, respektive hühnereigroße Höhle in der Lunge
gebildet wurde. In beiden Fällen ist eine Dauerheilung erzielt worden. b) B i i
bl
L
k
i
i Karewski (1) und Jadwinski (2), nachdem ein gehöriges Fenster
in der Thoraxwand gebildet worden war, die erkrankten Lungenpartien
mittels Thermokauter und Schere und scharfem Löffel entfernt, wobei
eine nahezu faustgroße, respektive hühnereigroße Höhle in der Lunge
gebildet wurde. In beiden Fällen ist eine Dauerheilung erzielt worden. b) B i i
bl
L
k
i
i Bei freier unverwachsener Pleurahöhle
wurde
operiert: p
Ein Fall von Garrè (11) mit glücklichem Ausgang, ein Fall von
Friedrich (17) Amputation des linken Unterlappens. Bronehienver-
sorgung nach seiner Methode und Uebernähung mit Lungengewebe. Verschluß des Thoraxfensters bis au.f Tamponöffnung. Am fünften
Tage post operationem Mediastinalemphysem und Tod. Die Sektion
vermochte die Stelle des undichten Bronchus nicht festzustellen. Zwei
Fälle von Willy Meyer (18), die beide am Schluß der Operation starben,
und zwar, wie er angibt, infolge von Vaguslähmung und Kohlensäure-
vergiftung (letztere, weil die Uoberdruekmaske zu selten geliiftet worden
war). Am häufigsten sind Lungenamputationen wegen
) B
hi kt
i
füh t
d
I h k Radikaloperation eines primären Lungen-
karzinoms.1) In der Wand konnten tuberkulöse Veränderungen nicht nach-
gewiesen werden. An der linken Lunge hatte der Patient Zeichen einer
geheilten Tuberkulose. II. Gehen wir nunmehr zu den Fällen über, bei denen
ganze Lungenlappen und mehr amputiert worden sind. Ich konnte folgendes Material aus der Literatur sammeln,
das zunächst
A
h d
A
d
k
k
d Sektionsbefund
(Dr. Rheindorf):
Defekt der
vierten
bis
neunten Rippe und des rechten Zwerchfells, wie die Krankengeschichte
angibt. Rechts Leberkonvexität in Höhe der siebenten, der linken in
Höhe der sechsten Rippe. Herz ganz nach rechts hinübergezogen. Der
Herzbeutel ohne Verwachsungen. Die rechte Lunge, von welcher
der untere Lappen fehlt, ist mit dem Rest
der
rechten
oberei
Thoraxwand und der Haut fest verwachsen und emphysematös. An
ihrer Spitze zwischen Pleura pulmonalis und costalis eine hiihnerei-
große Höhle, die mit einer gelblich - rötlichen Flüssigkeit gefüllt ist. Am Lungenhilus findet man einen strohhalmdicken, blind endenden
Bronchus,
der
7 cm lang ist und weiter unten einen zweiten, gut
bleistiftdicken, 4 cm langen Bronchus, der mit einer strohhalmdicken
Oeffnung frei unter dem deckenden Hautlappen endigt. Die Oeff-
nung hatte sich durch die Vernrbungsprozesse so weit verengert. Die linke Lunge sehr voiuminös, Alveolen groß und lufthaitig. Die
Bronchien sehr weit und mit schleimig-eitriger Flüssigkeit
gefüllt. In der Spitze mehrere kleine, schiefrige Indurationen und ein hanfkorn
großer Kalkherd. An der Pleura im Oberlappen und Unterlappen je ein
hanfkorngroßer, derber, flacher Knoten, der sich mikroskopisch als
Krebsmetastase erwies. Herz etwas über faustgroß, braun, schlaff. Klappen intakt. Rechter Ventrikel weit, dilatiert. Muskulatur bis
0,6 cm dick. Milz klein - Leber gestaut. Heruntergeladen von: NYU. Urheberrechtlich geschützt. A. nach der Art der Lungenerkrankung geordnet
folgen soll. Die Operation wurde ausgeführt:
)
L
b k l A. nach der Art der Lungenerkrankung geordnet
folgen soll. Die Operation wurde ausgeführt:
)
L
b k l a) wegen Lungentuberkulose:
V
äl
Fäll
äh
G
è i Von älteren Fällen erwähnt G arr è in seinem Handbuch Lungen-
chirurige 1912 sieben tödlich verlaufene Fälle und noch drei erfolgreiche
von Tuffier, Lowson und Doyen. W
d
M ll
(R
k) (5) d
h
Ob l
i Von älteren Fällen erwähnt G arr è in seinem Handbuch Lungen-
chirurige 1912 sieben tödlich verlaufene Fälle und noch drei erfolgreiche
von Tuffier, Lowson und Doyen. Radikaloperation eines primären Lungen-
karzinoms.1) EinFall von
11m mel 1 (21 ), Exstirpation der ganzen rechten Lunge:
die gesamte rechte Lunge des 48 Jahre alten Mannes war zu einem zwei-
faustgroßen Tumor, der mit der Umgebung vielfach verklebt war, ver-
wandelt und der Pleuraraum mit einem blutig-serosen Exsudat gefüllt. Der Tumor und die gesamte Pleura sind mit Krebsknötchen durchsetzt. Der Hilus wird mit starken Klemmen gefaßt, die nach Abtragung
der Lunge liegen bleiben. Die Pleurahöhle wird tamponiert. Die ersten
Tage Wohlbefinden. Tod am sechsten Tage post operationem unter Sym-
ptomen von Sepsis, die vom nekrotischen Hilusstumpf ausging. jst die Versorgung der durchschnittenen größe-
ren Bronchi von großer Wichtigkeit für eine gewisse Gruppe
der Lungenlappenamputation. Wenn die Wundhöhle oder der
Hilusstumpf nach der Operation tamponiert worden ist, wie es
bei den Bronchiektasien die Regel ist, dann zieht das Aufgehen
der Bronehusligatum keine Gefahren nach sich, weil die aus dem
Bronchus ausströmende Luft frei nach außen entweichen kann. Wenn aber die Pleurahöhle nach der Amputation des Lungen-
lappens wieder geschlossen wird, dann folgt dem Aufgehen
des ligierten Bronchus der Spannungspneumothorax, der in
einem Falle von F r j e d r i e h den unglücklichen Ausgang ver-
schuldete. Endlich vermag das Mediastinalemphysem das
Leben des Patienten zu bedrohen. Friedrich hat diese Korn-
plikation bei einem
seiner Fälle erleben müssen Heruntergeladen von: NYU. Urheberrechtlich geschützt. Ein Fall von S au e rbr uch (22) : Unter Druckdifferenz Exstirpation
des linken karzinomatösen Unterlappens aus der freien Pleurahöhle. Am Hilus blieben etwa 6 cm von der Lungenwurzel stehen, mit welcher
der Hilusstumpf unter Deckung aller Bronchien übernTht werden konnte. Eine besondere Versorgung des Bronchus war deshalb nicht notwendig. Die Neubildung ließ sich radikal entfernen bis auf den Teil, wo sie am
Perikard und Zwerchfell adhiLrent war. Dort mußte etwas vom Tumor
zurückgelassen werden. Der Hilusstumpf wurde in die Pleura eingenäht,
nachdem die Lunge unter Druckdifferenz aufgebläht worden war, darüber
wurden die Weichteile der Thoraxwand geschlossen. Es war wegen Bronchektasien der linke Unterlappen nach Ab-
klemmung des Hilus mittels einer Zange amputiert, die Hilusgefäße
isoliert unterbunden und der Hauptbronchus nach seiner eigenen Methode
versorgt und der Stumpf mit Lungengewebe übernäht worden. Das
Thoraxfenster wurde dann soweit geschlossen, daß der stumpf noch tam-
poniert werden konnte. Nach fünf Tage langem ausgezeichneten Wund-
verlauf
trat
plötzlich
Mediastinalemphysem auf und führte zum
Tode. Die Sektion zeigte, daß der Verschluß des Hauptbronchus nicht
nachgelassen hatte. Radikaloperation eines primären Lungen-
karzinoms.1) g g
Ich habe nur drei Fälle auffinden können; der meinige ist also
der vierte. i
ll
lf i h
l Ein Fall von Helferich - Gerulanos (20):
Exstirpation
des
Mittel- und Unterlappens der rechten Lunge. Es handelte sich um ein
Sarkom der Thoraxwand rechterseits, das so weit in die unteren
beiden Lungenlappen hineingewachsen war, daß die Entfernung beider
nötig wurde. Der Hilus wurde mit Umstechungen abgebundèn und über
ihm noch
vorhandenes Lungengewebe vernüht. Die Thoraxwand
mußte wegen der großen Ausdehnung der G eschwulst von der dritten Rippe
bis zum Zwerchfell und von den Rippenknorpeln bis zu den Anguli costarum
entfernt werden. Der gewaltige Defekt der Brustwand konnte nicht
gedeckt werden, weshalb die große Höhle mit Tamponade versorgt wurde. Der 15 Jahre alte Patient war am Schluß der 1
Stunden dauernden
Operation kollabiert, erholte sich in den folgenden Stunden etwas, starb
aber etwa 20 Stunden nach der Operation unter den Symptomen von Kurz-
atmigkeit und beschleunigtem Puls. Ein Fall von Helferich - Gerulanos (20):
Exstirpation
des
Mittel- und Unterlappens der rechten Lunge. Es handelte sich um ein
Sarkom der Thoraxwand rechterseits, das so weit in die unteren
beiden Lungenlappen hineingewachsen war, daß die Entfernung beider
nötig wurde. Der Hilus wurde mit Umstechungen abgebundèn und über
ihm noch
vorhandenes Lungengewebe vernüht. Die Thoraxwand
mußte wegen der großen Ausdehnung der G eschwulst von der dritten Rippe
bis zum Zwerchfell und von den Rippenknorpeln bis zu den Anguli costarum
entfernt werden. Der gewaltige Defekt der Brustwand konnte nicht
gedeckt werden, weshalb die große Höhle mit Tamponade versorgt wurde. Der 15 Jahre alte Patient war am Schluß der 1
Stunden dauernden
Operation kollabiert, erholte sich in den folgenden Stunden etwas, starb
aber etwa 20 Stunden nach der Operation unter den Symptomen von Kurz-
atmigkeit und beschleunigtem Puls. Die Blutstillung hat bei Abtragung der Lungenlappen
in keinem der vorliegenden Fälle Schwierigkeiten bereitet, und
Nachblutungen sind während des Wundverlaufs nicht be-
obachtet worden. Nur bei meinem Falle entstand beim ersten
Wechsel der Tamponade aus mehreren Stellen der Lungen-
wundfläche infolge eines sehr heftigen Hustenanfalles eine Blu-
tung,
die
in leichter Narkose durch Ligatur rasch gestilit
werden konnte. Einer Wiederholung derselben wurde dann
dadurch vorgebeugt, daß die Schürzentamponade sehr lang
( gegen zwölf Tage) liegen gelassen wurde. Radikaloperation eines primären Lungen-
karzinoms.1) A ß
di
hi
i t i t
h Fäll
h b i h
h b) Bei inoperablen Lungenkarzinonien
hat Lenhartz (3) in drei und Küttner (4) in zwei Fällen Erweichungs-
höhlen eröffnet und einen Teil der Geschwulstmasse mit dem scharfen
Löffel entfernt. Außerdem wurde von Lenhartz in zwei weiteren Fällen
versucht, in das nicht erweichte, inoperable Karainom vorzudringen und
Teile desselben zu entfernen. Keiner von diesen Fällen ist im Anschluß
an die Operation gestorben, doch sind sie, weil der Tumor nur teilweise
entfernt worden war, einige Zeit nach der Operation zugrunde gegangen. Nur; ein Fall von Lenhartz, bei dem eine große Erweichungshöhle
eröffnet worden war, deren Wandungen später öfter mit Röntgenstrahlen
bestrahlt wurden, ist allmählich geheilt und hat sich zwei Jahre später
noch in blühender Gesundheit befunden. Obwohl von der Höhlenwand
des erweichten Karzinoms nichts entfernt worden ist, soll durch die Rönt-
genbestrahlung eine vollkommene Heilung dieses ausgedehnten Tumors Außer diesen hier registrierten zehn Fällen habe ich noch
weitere sechs Fälle erwähnt gefunden, aber so kurz, daß ein
genaueres Urteil über diese nicht gewonnen werden konnte: Rovsing (19) verlor zwei Fälle anscheinend am akuten Pneumo-
thorax, Friedrich einen Fall (aus der Greifswalder Zeit) an Bronchus-
insuffizienz und Spannungpneumothorax, Sauer bruch (nach persön- 209 * DEIJTSCTT1 MEDIZINISCHE WOOHENSOJIRIFT. 1668 Nr. 35 Nr. 35 licher Mitteilung) einen Fall am Schluß der Operation an unklaren TJr-
sachen, vielleicht infolge der Narkose. Ueber je einen Fall von Murphy
und Kiimmell konnte ich Näheres nicht finden. d) R
h
l
h b
N
bild
d
L Dagegen sind einige Fälle, bei denen nach dem Operation
die Thoraxhöhle ganz geschlossen wurde (zwei Fälle von S au e r -
b ru e h , die traumatische Ruptur und das Karzinom der Lunge,
ferner der Fall Müllers) ohne Symptome von Infektion glatt
geheilt, obwohl Exsudate ex vacuo resombiert werden mußten. Zu erwähnen ist hier auch mein Fall insofern, als die durch
Haut abgeschlossene obere Thoraxhöhle - die mit einem
Drainrohr versehen war - so aseptisch geblieben ist, daß sich
die darin lagernden beiden oberen Lungenlappen nach Re-
sorption der Luft ausdehnten und die ganze Höhle schwand bis
auf einen taubeneigroßen Raum, der mit trüb-seröser Flüssig-
keit gefüllt war, wie die Sektion zeigte. d) Recht selten haben Neubildungen der Lunge zu
Radikaloperationen, zur Entfernung von ganzen Lungenlappen,
Anlaß gegeben. d) Recht selten haben Neubildungen der Lunge zu
Radikaloperationen, zur Entfernung von ganzen Lungenlappen,
Anlaß gegeben. Radikaloperation eines primären Lungen-
karzinoms.1) Ein genaues Absuchen der übrigen Bronchi ver-
m3chte nicht die Stelle aufzufinden, aus der die Luft ausgeströmt war. Vielleicht hat die quetschende Hilusklemme an einem Bronchus einen
kleinen, schwer sichtbaren Defekt gesetzt. i
i h
d
d
h
h i
hi Glatter Verlauf. Der Hohlraum an Steile des amputierten Lungen-
lappens füllte sich durch Bildung eines Exsudats ex vacuo und nach
dessen Resorption
durch
kompensatorische
Blähung
des
zurück-
gebliebenen Oberlappens und Hinaufrücken des Zwerchfells. i
i
i k
h
h
h
d
li ik
l Die Patientin konnte nach sechs Wochen aus der Klinik entlassen
werden. Ei F ll
R
b
füh li h
i
il
E b
i Die Patientin konnte nach sechs Wochen aus der Klinik entlassen
werden. Ei F ll
R
b
f h li h
i
il
E b
i Ein Fall von Rotter oben ausführlich mitgeteilt. Er besitzt
große Aehnlichkeit mit dem Fall Helferich- Gerulanos, weil von der
Thoraxwand so viel entfernt werden mußte, daß eine Deckung des De-
fektes nicht möglich war. B
ü li h d
A
d h
f Bezüglich der Ausdehnung
des
entfernten
Lungenabschnittes ist zu bemerken, daß unter diesen eben
mitgeteilten 18 Fällen 14 mal nur ein Lungenlappen, und zwar
13 mal der lJnterlappen und 1 mal (Müller, Rostock)
der
rechte Oberlappen entfernt worden Ist und daß viermal mehr
als ein Lappen fortgenommen wurde, nämlich von Helferich-
erulanos der rechte Unter- und Mittellappen, von Macewen
und von G luck fast die ganze Lunge (aus der verwachsenen
Pleurahöhle wegen Tuberkulose resp. Bronchiektasie) und end-
]ich von Kümmell die ganze, zu einem zweifaustgroßen Tumor
geschrumpfte karzinomatöse Lunge. N
h
ll
i di R
lt t
di b i d Die sichere Versorgung der durchschnittenen Bronchi ge-
hört augenblicklich noch zu den schwierigsten Aufgaben bei
den vorliegenden Operationen. Experimentell ist die Frage
schon eingehend bearbeitet, aber unsere klinischen Erfahrungen
sind noch recht gering. b
h h
i
i
ll
i
l
d Sauerbruch hat in zwei Fällen (ein Pal] von Ruptur der Lunge
und ein Fall von Karzinom der Lunge) mittels der Unterbindung des
Bronchus und der Uebemnähung des Stumpfes (also nach der Methode
von Garre) glatten Verlauf erzielt. Eine weitere Gefahr droht dem Patieñten bei der L ungen-
operation durch die Vagusreflexe, die während der Mani-
pulation am Hilus auftreten können. DEUTSCHE MEDIZINISCHE WOCHENSCHTRIFT. Im Falle Helferich- Gerulanos wurde ein Sarkom der Thorax-
wand und der untere mittlere Lappen der rechten Lunge entfernt, wobei
von den Rippen nur die erste, zweite und dritte und zehnte, elfte und
zwölfte zuriickblieben. Der riesige Defekt ließ sich nicht decken, und
die ganze unverwachsene Pleurahöhle mußte tamponiert werden. Der
15 Jahre alte Knabe starb nach G e r u 1 a n o s infolge des fortbestehenden
Pneumothorax bei normal beweglichem Mediastinum 20 Stunden nach
der Operation. Gerulanos huit es für fraglich, ob ein Patient unter
den gegebenen anatomischen Verhiiltnissen imstande sei,
weiter zu leben, wo der volle atmosphärische Luftdruck auf
da unverlinderte, weiche, versehiebliche Mediastinum lind
auf die schlaffen Hohlvenen und den rechten Vorhof lastet
und die Resfirations- und Zirkulationsverhiiltnisse in einer
so tief eingreifenden Weise gestört sind. Wenn aber die Lungenoperationen in der weitgeöffneten,
freien, unverwachsenen Pleurahöhle ausgeführt worden sind,
wo das Mediastinum seine Weichheit und Beweglichkeit bewahrt
hatte, dann können das von Garr è so benannte Mediastinal-
flattern und durch dieses schwere Atmungs- und Zirkulations-
störungen und Kollapse auftreten. Heruntergeladen von: NYU. Urheberrechtlich geschützt. Seit jener Zeit ist - soweit ich die Literatur übersehe
bis auf meinen Fall eine ähnliche Beobachtung nicht mitgeteilt
worden. Mein Fall besitzt für die vorliegende Frage noch des-
halb eine besondere Bedeutung, weil er die Operation ein Viertel-
jahr überlebt hat und die Folgen dieser weitgehenden operativen
Verstümmelung längere Zeit beobachtet werden konnten. Der
Krankheitsverlauf hat gezeigt, daß der Patient in den ersten
Wochen nach der Operation nur wenig unter Atmungsbeschwer-
den gelitten hat, daß sich diese vielmehr erst später, nach
ein paar Wochen, stärker bemerkbar machten und sich allmäh-
lich gesteigert haben. Nach der Statistik von Gerulanos ist diese Komplikation
in etwa der Häfte der Fälle aufgetreten, doch hat sie in keinem
Falle einen tödlichen Ausgang nach sich gezogen. In unserer Statistik der Lungenlappenamputationen bei freier
Pleurahöhle ist während der Operation ein Todesfall infolge
von Kollaps. der durch den akuten Pneumothorax bedingt worden
wäre, auch nicht vorgekommen, obwohl ganz kolossale Defekte
in die Brustwand gesetzt worden sind, z. B. im Fall Helferich-
Gerulanos und dem meinigen, und obwohl die Operation
öfter eine lange Dauer von 1 1/2_2 Stunden erforderte. Das
Druckdifferenzverfahren wird in Zukunft die Gefahr des akuten
Pneumothorax wohl ganz beseitigen, wie das bereits jetzt in
einer ganzen Reihe unserer Lungenlappenamputationen er-
freulicherweise beobachtet werden konnte. DEUTSCHE MEDIZINISCHE WOCHENSCHTRIFT. Der akute Pneumo-
thorax wird am Schluß der Operation dadurch beseitigt, daß
die Pleurahöhle geschlossen und so das mechanische Gleich-
gewicht im Thorax wiederhergestelit wird. Dieser Umstand spricht nicht dafür, daß die Ursache der
Atmungsinsuffizienz hauptsächlich in der Verschieblichkeit des
Mediastinums gelegen habe. Denn die letztere besaß ihren höch-
sten Grad in den ersten Woehen nach der Operation. Nachdem
aber das Mediastinum im Verlauf von ein paar Wochen sich mit
einer Granulationsschicht bedeckt und durch deren Schrump-
fung eine gewisse Fixation erhalten hatte, die so weit ging,
daß das Herz nach der rechten Seite hinüber gezogen wurde,
hätten die Atmungsbeschwerden geringer werden müssen. Die
klinische Erfahrung hat aber gelehrt, daß sie von da ab stärker
in die Erscheinung traten und dann allmählich noch weiter zu-
genommen haben. In seltenen Fällen ist es aber nicht möglich, am Schluß der
Operation den Pneumothorax zu beseitigen, nämlich dann,
wenn von der Brustwand ein so großer Teil entfernt
werden mußte, daß ein Verschluß der Pleurahöhle
nicht hergestellt werden kann. Dann resultiert der
Zustand eines dauernden Pneu mothorax. In einem gewissen Grade hat die Atmung und die Zirkulation
durch Verschiebung des Mediastinums bei der In- und Ex-
spiration zweifellos eine Behinderung erlitten, wie das besonders
bei angestrengter Atmung und bei Hustenanfällen deutlich in
die Augen sprang. Aber daneben haben zweifellos eine Reihe
anderer Momente eine, große Rolle gespielt. In erster Linie
ist der komplette Ausfall einer ganzen, zumal der größeren
rechten Lunge zu nennen. Um ihre Funktion zu ersetzen,
mußte das Zwerchfell die linke Lunge ausgiebiger und häufiger
bewegen. Darum ist der hohe Grad des vikariierenden Ein-
physems entstanden, das, wie das Röntgenbild zeigt,
bis
hinab zur elften Rippe reichte. Mit der Zunahme des Emphy-
sems mußten die Bewegungen des Zwerchfells an Um-
fang verlieren, weil dieses in der Exspirationsstellung nicht
mehr zur normalen Höhe heraufsteigen konnte und seine
Exkursionen an Ausdehnung verloren. Es mußten deshalb da-
neben noch alle Atrnungshilfsmittel in Tätigkeit treteti,
und zwar dauernd, wie das in der letzten Zeit stets beobachtet
werden konnte. li k
hf ll
d
h d
h i
i Wir beobachteten ihn unter zwei verschiedenen Bedingun-
gen, 1. wenn bei entzündlichen Erkrankungen der Lunge und
verwachsener Pleura, also bei den Bronchiektasien, operiert wird. Dann bleibt die Pleurahöhle nach Schluß der Operation offen,
weil die infizierte Wundhöhle tamponiert werden muß. DEUTSCHE MEDIZINISCHE WOCHENSCHTRIFT. 28. Augast 1913. 2. Ungünstiger als bei verwachsener Pleura gestalteten
sich die Verhältnisse, wenn die Operation im freien Pleuraraum
ausgeführt wurde und am Schlu 13 die Pleurahöhle wegen des
allzu großen Defektes der Thoraxwand nicht geschlossen werden
konnte. und Kollaps und rasch der Tod eingetreten sind. Die Narkose war
wenigstens für zwei Fälle für das traurige Ereignis nicht verantwortlich
zu machen, denn bei einem Falle war Lokalanästhesie und beim zweiten
nur einige Tropfen Chloroform angewandt worden. Auch L e n hartz
hat ähnliches erlebt. S au e r b r u e h teilte mir persönlich einen Fall von Lungenlappen-
amputation mit, der am Schluß der Operation plötzlich starb. Er Ist
der Ansicht, daß der Narkose die Schuld für den traurigen Ausgang zu-
zuschreiben ist. In dieser Richtung liegen bisher drei Beobachtungen vor, ein Fall
von Weinlechner (s. Gerulanos Fall 10, S. 518), ein zweiter Fall von
Helferich-Gerulanos und ein dritter von mir. (Im Fall Kümmell,
Carcinoma pulmonis, war das Mediastinuin durch Knötehendissemination
in eine feste Schwarte. verwandelt und konnte daher zum Flattern des
Mediastinums nicht führen.) In solchen Fällen bestehen nianchmal die größten Schwierig-
keiten, die Todesursache genau zu bezeichnen, und es wird unsere
Aufgabe sein, bei der Operation in Zukunft die Symptome
recht genau zu beobachten und zu registrieren, uni allmählich
mehr Klarheit in dieses jetzt noch unklare Gebiet zu bringen. Der Patient Weinlechners,
bei
dem
ein mannskopfgroßes
Myxoqhondrom und ein Stück Lunge aus der freien Pleurahöhle entfernt
wurde. starb 24 Stunden nach der Operation unter den Symptomen der
Dyspnoe und schwachen, beschleunigten Pulses. I)ie Sektion zeigte eine
eitrige Pleuritis, die zum raschen Tode neben dem Mediastinalflattern
gewiß das ihre noch beigetragen hat. Deshalb ist dieser Fall für die vor-
liegende Frage nur hedingungsweise verwertbar. 5. An fliufter Stelle ist unter den Gefahren der Lungen-
operationen der akute Pneumothorax zu nennen. Diese Gefahr macht sich so gLit wie garnicht geltend bei
jenen Fällen, bei welchen vor der Operation das Mediastinum
durch entzündliche Prozesse, z. B. bei den Bronchiektasien,
verdickt und verhärtet und durch Verwachsungen fixiert
worden war und seine Beweglichkeit verloren hatte. Man hat
zwar auch bei solchen Fällen leichte Mediastinalverschicbungen
beobachtet .- Macewen und Körte - indessen doch nur in
so geringem Grade, daß bedenkliche Zustände nicht aufgetreten
sind. Radikaloperation eines primären Lungen-
karzinoms.1) g
p
g
Nunmehr wollen wir die Resultate, die bei der
Amputation von einzelnen oder mehreren Lungenlappen ge-
wonnen wurden, kurz betrachten. Die Hauptgefahren, die
diese Operationen belasten, sind folgende:
1 Di I f k i Bei Friedrichs Fall Kostbahn mit Druckdifferenz trat beim Fassen
des Hauptbronchus mit der Quetschzange eine Atmungssynkope und
Kollaps auf, die rasch wieder vorübergingen. Dagegen verlor Willy
Meyer seine beiden Lungenmputationen (wegen Bronchiektasie bei
freier Pleurahöhle mit Druckdifferenz) am Vagustod. Während der etwas
schwierigen Arbeit bei Abtragung des abgeklemmten Hilus, speziell bei
der Ligatur eines Hauptgefäßes, kollabierten die Patienten unter Verlang-
samung des Pulses und starben, der eine am Schluß der Operation, der
andere eine Stunde nach deren Beendigung. Willy Meyer meint,
daß neben dem Vagusreflex auch noch die Kohlensäurevergiftung mit-
gewirkt habe, welche dadurch zustande gekommen sei, daß
bei der
Ueberdrucknarkose die Lunge zu wenig ventiliert worden sei. i
i
i
i d
d
i
h b i kl i 1. Die Infektion. Sie spielt trotz der Größe der Opera-
tionen keine nennenswerte Rolle. Es liegt kein Fall, wenigstens
in der mir vorliegenden Statistik, vor, der einer während der
Operation entstandenen Infektion erlegen wäre. Ein Fall ist
an einer postopemativen Infektion zugrunde gegangen, nämlich
die Totalexstirpation der karzinomatösen Lunge von K ü mme U,
aber unter ganz besonderen Verhältnissen. Es war der ganze
Hulus mit einer großen Klemme abgequetscht und in einiger
Entfernung von ihm die Lunge abgetragen worden. Die
Klemme wurde liegen gelassen, und so mußte der distal von
ihr liegende Stumpf nekrotisch werden, der - obwohl tam-
poniert - zu Sepsis und am sechsten Tage post operationem
zum Tode führte. Dieses traurige Ereignis des Vagustodes ist auch bei kleine-
ren Lungenoperationen beobachtet worden. So berichtet Körte über drei Fälle (Lungenfistel, bronchektatische
Kaverne), bei denen, ohne daß die freie Pleurahöhle eröffnet worden war,
nach sonst gelungener Operation (Pneumotomie) plötzliche Atemstörung 1669 DEUTSCHE MEDIZINISCHE WOCHENSCHTRIFT. Literatur: 1. Karewski, Berliner klinische Wochenschrift 1898, Nr. 15. -
2. Jacowski, Zentraiblatt für Chirurgie 1897, Nr. 28. - 3. Lenh artz, bei Müser,
Jahrbücher der Hamburger Staats-Krankenhäuser 1907, Bd. 12. - 4. lÇüttner, Ver.
handlungen der Deutechen Gesellschaft für Chirurgie 1908. - 5. Müller, Chirurgen.
Kongreß 1912. - 6. Macewen, siehe Lungenchirurgie von Garrè und Quincke,
zweite Auflage, 1912, S. 170. - 7. F. Krause, Berliner klinische Wochenschrift, Bd. 16,
S. 347. - 8. Garrè, Diese Wochenschrift 1904, S. 533. - 9. Perthes, Chirurgen.
Kongreß 1908, Bd. 2, S 222. - 10. Gerulanos, Deutsche Zeitschrift für Chirurgie
1898, Bd. 49. - 11. Garrt, Lungenchirurgie, zweite Auflage 1912 und genauer
zitiert von Sauerbruch, Deutsche
Zeitschrift für Chirurgie
1909,
Bd. 102. -
12. Heidenhain, Chirurgen-Kongreß 1901, Bd. 2, S. 636. - 13. Körte, Langenbecks
Archiv für klinische Chirurgie, Bd. 85, S. 29-30. - 14. Len h arta, siehe K is sling,
Jahrbücher der Hamburger Staatskrankenhäuser, 5. 75, Fall 27. - 15. Quervain,
Chirurgen.Kongreß 1912, 5. 41. - 16. Gluck, ebenda 1907. - 17. Friedrich, ebenda
1908, Bd. 2, S. 573. - 18 Willy Meyer, Annales of surgery 1910,
Juli-Dezember,
Vol. 52, S. 38. - 19. Mollgard.Rovsing, Zentralblatt für Chirurgie 1910, S. 1276. -
20. Gerulanos, Deutsche Zeitschrift für Chirurgie 1898, Bd. 49. - 21. Kümmell,
Chirurgen.Kongreß 1911, Bd. 2, S. 147. - 22. Sauerbruch, ebenda 1908, S. i53. - DEUTSCHE MEDIZINISCHE WOCHENSCHTRIFT. In diesen
Fällen ist das Mediastinum durch die entzündlichen Prozesse,
Verwachsungen und Schwarten so fixiert, daß nur ausnahms-
weise Pneumothoraxsymptome auftreten. In der Kasuistik der Lungerilappenamputationen, wo die
Pleura verwachsen war, sind nur bei einem Falle nach der
Operation Pneumothoraxsymptorne aufgetreten, niimlic h im
Falle Macewen. Er entfernte die hochgradig kavernös zerstörte linke Lunge fast ganz
und berichtet, daß hinterher durch lange Wochen der Patient Dyspnoe
zeigte, welche verschwand, wenn er sich auf die kranke Seite legte,
wobei das Modiastinum sich nach der tamponierten I'leurahöhle senkte
und das Flattern desselben aufhörte. Im weiteren Wundverlaufe haben
sich aber durch die entzündlichen Schwarten, die sieh durch die Granu-
lation auf dem Mediastinum bildeten, diese Symptome ganz verloren,
und der Patient lebte nach 1
Jahren post operationem noch in recht
guter Verfassung. Dem linken Zwerchfell wurde noch durch ein zweites
Moment die Arbeit erschwert. Weil hei der Operation das ganze DEIJPSOIIE MEDIZINISCHE WOOHENSORIll'T. Ñr. 35 Ñr. 35 1670 rechte Zwerchfell und der untere Brustkorb hatten entfernt
werden müssen, fehlte der Leber die natürliche Befestigung in
ihrer Lage. Sie wurde nun vom linken Zwerchfell, das einseitig
arbeiten mußte, bei jeder Inspiration weithin über die rechte
Seitenkontur des Rumpfes hinausgeschoben und kehrte bei
der Exspiration wieder in die natürliche Lage zurück. Diese
ausgedehnten Verschiebungen des schweren Organs stellten an
die Arbeitskraft des linken Zwerchfells eine nicht zu unter-
schätzende hohe Anforderung. rechte Zwerchfell und der untere Brustkorb hatten entfernt
werden müssen, fehlte der Leber die natürliche Befestigung in
ihrer Lage. Sie wurde nun vom linken Zwerchfell, das einseitig
arbeiten mußte, bei jeder Inspiration weithin über die rechte
Seitenkontur des Rumpfes hinausgeschoben und kehrte bei
der Exspiration wieder in die natürliche Lage zurück. Diese
ausgedehnten Verschiebungen des schweren Organs stellten an
die Arbeitskraft des linken Zwerchfells eine nicht zu unter-
schätzende hohe Anforderung. Endlich ist noch das Bestehen der Bronchusfistel zu
erwähnen,
die
freilich
zuletzt
durch Narbenschrumpfung
ziemlich eng, kaum strohhalmdick, geworden war und, wenn
auch nicht viel, doch immerhin etwas den Erfolg der Atem-
bewegungen beeinträchtigte. d
F
it Ziehe
ich das Fazit
aus
diesen
Ueberlegungen,
so
möchte ich sagen, daß der dauernde Pneumothorax, das Frei-
liegen des Mediastinums für sich allein, dem Patienten die
Existenzfähigkeit nicht geraubt hätte. DEUTSCHE MEDIZINISCHE WOCHENSCHTRIFT. Wie beim Pyothorax
schon zur Zeit der Operation das Mediastinum durch voraus-
gegangene Entzündung fixiert ist, so ist in meinem Falle das
freiliegende Mediastinum durch die Vernarbung allmählich be-
festigt worden und hätte für sich allein die Atmung nicht in einer
existenzbedrohenden Weise beeinträchtigt. Aber all die übrigen
Momente, die bei meinem Falle durch die ausgedehnte Ope-
ration hinzugefügt worden waren, würden dem Patienten
kaum ein lebenswertes Dasein für die Dauer gestattet haben
und haben in der Tat im Verlaufe von drei Monaten seine Wider-
standsfähigkeit in so hohem Grade eingeschränkt, daß eine diffuse
Bronchitis seinen Tod herbeiführen konnte. Heruntergeladen von: NYU. Urheberrechtlich geschützt. Schluß. Ueberblicken wir zum Schluß noch einmal die
Operationsresultate bei den Lungenlappenamputationen,
so
ergibt sich folgendes:
V
d
G
hl d
22
i
ll Schluß. Ueberblicken wir zum Schluß noch einmal die
Operationsresultate bei den Lungenlappenamputationen,
so
ergibt sich folgendes:
Von der Gesamtzahl der 22 von mir zusammengestellten
Fälle müssen wir 5 Fälle (1 Fall von Murphy, 2 Fälle von
Rovsing, 1 Fall von Kümmell und 1 Fall von Friedrich)
ausschalten, weil ich keine genauen Angaben erlangen konnte. Es verblieben demnach 17
Fälle von Lungenlappen-
amputation Schluß. Ueberblicken wir zum Schluß noch einmal die
Operationsresultate bei den Lungenlappenamputationen,
so
ergibt sich folgendes:
V
d
G
hl d
22
i
ll Von der Gesamtzahl der 22 von mir zusammengestellten
Fälle müssen wir 5 Fälle (1 Fall von Murphy, 2 Fälle von
Rovsing, 1 Fall von Kümmell und 1 Fall von Friedrich)
ausschalten, weil ich keine genauen Angaben erlangen konnte. E
bli b
d
h 17
F ll
L
l Von der Gesamtzahl der 22 von mir zusammengestellten
Fälle müssen wir 5 Fälle (1 Fall von Murphy, 2 Fälle von
Rovsing, 1 Fall von Kümmell und 1 Fall von Friedrich)
ausschalten, weil ich keine genauen Angaben erlangen konnte. E
bli b
d
h 17
F ll
L
l Es verblieben demnach 17
Fälle von Lungenlappen-
amputation. p
Durchgekommen sind li Fälle, und zwar: 1. wegen
Tuberkulose operierte Fälle: 2 Fälle (Macewen und Müller),
2. wegen Bronchiektasie operierte Fälle: 7 Fälle (6 bei ver-
wachsener Pleura und 1 bei freier Pleurahöhle), 3. wegen Tumor
operierte Fälle: 2 Fälle (Sauerbruch und Rotter). G
b
i d p
Durchgekommen sind li Fälle, und zwar: 1. wegen
Tuberkulose operierte Fälle: 2 Fälle (Macewen und Müller),
2. DEUTSCHE MEDIZINISCHE WOCHENSCHTRIFT. wegen Bronchiektasie operierte Fälle: 7 Fälle (6 bei ver-
wachsener Pleura und 1 bei freier Pleurahöhle), 3. wegen Tumor
operierte Fälle: 2 Fälle (Sauerbruch und Rotter). G
b
i d p
Gestorben sind:
I A V
d 2 Fäll I. An Vagustod 2 Fälle (W. Meyer), 2. an Kollaps am
Schluß der Operation 1 Fall (Sauerbrueh), 3. an akutem
Pneumothorax und Kollaps 1 Fall (Gerulanos), 4. an Me-
diastinalemphysem 1 Fall (Friedrich), 5. an Sepsis von nekro-
tischein Blilusstuinpf 1 Fall (Kümmell). Di Z hl
i d
kl i
d ß i
B
i
d
M Die Zahlen sind so klein, daß eine Bestimmung der Mor-
tahitätsprozente noch zwecklos erscheint, zumal gewiß mancher
unglücklich verlaufene Fall nicht publiziert worden ist. Wir
leben noch in einer Zeit, wo jeder Fall für sich ein besonderes
Interesse besitzt und gesammelt zu werden verdient, und des-
halb wollte ich auch mein Schärflein dem kleinen vorhandenen
Material hinzufügen.
|
https://openalex.org/W2043346183
|
https://europepmc.org/articles/pmc3795269?pdf=render
|
English
| null |
Molecular Basis for the Resistance of Human Mitochondrial 2-Cys Peroxiredoxin 3 to Hyperoxidation
|
Journal of biological chemistry/The Journal of biological chemistry
| 2,013
|
cc-by
| 10,929
|
Molecular Basis for the Resistance of Human Mitochondrial
2-Cys Peroxiredoxin 3 to Hyperoxidation* y
y
Received for publication,April 3, 2013, and in revised form, August 20, 2013 Published, JBC Papers in Press,September 3, 2013, DOI 10.1074/jbc.M113.473470
Alexina C. Haynes‡1, Jiang Qian§1,2, Julie A. Reisz§, Cristina M. Furdui§3, and W. Todd Lowther‡4
From the ‡Center for Structural Biology and Department of Biochemistry, §Section on Molecular Medicine, Department of Intern
Medicine, Wake Forest School of Medicine, Winston-Salem, North Carolina 27157 Received for publication,April 3, 2013, and in revised form, August 20, 2013 Published, JBC Papers in Press,September 3, 2013, DOI 10.1074/jbc.M113.473470
Alexina C. Haynes‡1, Jiang Qian§1,2, Julie A. Reisz§, Cristina M. Furdui§3, and W. Todd Lowther‡4
From the ‡Center for Structural Biology and Department of Biochemistry, §Section on Molecular Medicine, Department of Internal
Medicine, Wake Forest School of Medicine, Winston-Salem, North Carolina 27157 Background: Human 2-Cys peroxiredoxins (Prxs) are differentially susceptible to inactivation by H2O2. Results: Engineered Prx2 and Prx3 variants demonstrate that C-terminal residues modulate the extent of hyperoxidation. Conclusion: Rapid disulfide bond formation protects Prx3 from inactivation. Significance: The reactivity of Prx3 with H2O2 is important for understanding its protective role in the mitochondria. Background: Human 2-Cys peroxiredoxins (Prxs) are differentially susceptible to inactivation by H2O2. Results: Engineered Prx2 and Prx3 variants demonstrate that C-terminal residues modulate the extent of hyperoxidation. Conclusion: Rapid disulfide bond formation protects Prx3 from inactivation. Results: Engineered Prx2 and Prx3 variants demonstrate that C-terminal residues modulate the extent of hyperoxidation. Conclusion: Rapid disulfide bond formation protects Prx3 from inactivation. Significance: The reactivity of Prx3 with H2O2 is important for understanding its protective role in the mitochondria. p
p
Significance: The reactivity of Prx3 with H2O2 is important for understanding its protective role in the mitochondria. he reactivity of Prx3 with H2O2 is important for understanding its protective role in the mitochondria. Peroxiredoxins (Prxs) detoxify peroxides and modulate
H2O2-mediated cell signaling in normal and numerous patho-
physiological contexts. The typical 2-Cys subclass of Prxs
(human Prx1–4) utilizes a Cys sulfenic acid (Cys-SOH) interme-
diate and disulfide bond formation across two subunits during
catalysis. During oxidative stress, however, the Cys-SOH moiety
can react with H2O2 to form Cys sulfinic acid (Cys-SO2H),
resulting in inactivation. The propensity to hyperoxidize varies
greatly among human Prxs. Mitochondrial Prx3 is the most
resistant to inactivation, but the molecular basis for this prop-
erty is unknown. Molecular Basis for the Resistance of Human Mitochondrial
2-Cys Peroxiredoxin 3 to Hyperoxidation* A panel of chimeras and Cys variants of Prx2
and Prx3 were treated with H2O2 and analyzed by rapid chemi-
cal quench and time-resolved electrospray ionization-TOF
mass spectrometry. The latter utilized an on-line rapid-mixing
setup to collect data on the low seconds time scale. These
approaches enabled the first direct observation of the Cys-SOH
intermediate and a putative Cys sulfenamide (Cys-SN) for Prx2
and Prx3 during catalysis. The substitution of C-terminal resi-
dues in Prx3, residues adjacent to the resolving Cys residue,
resulted in a Prx2-like protein with increased sensitivity to
hyperoxidation and decreased ability to form the intermolecu-
lar disulfide bond between subunits. The corresponding Prx2
chimera became more resistant to hyperoxidation. Taken
together, the results of this study support that the kinetics of the
Cys-SOH intermediate is key to determine the probability of
hyperoxidation or disulfide formation. Given the oxidizing
environment of the mitochondrion, it makes sense that Prx3
would favor disulfide bond formation as a protection mecha-
nism against hyperoxidation and inactivation. Peroxiredoxins (Prxs)5 are ubiquitous, highly expressed anti-
oxidant enzymes that can convert hydrogen peroxide (H2O2),
peroxynitrite (ONOO), and lipid peroxides (ROOH) to water. Although this function was originally thought to be primarily
protective in nature, Prxs also play a key role in modulating
H2O2-mediated cell signaling in normal and pathophysiologi-
cal contexts, including cell growth, differentiation, adrenal ste-
roidogenesis, neurodegeneration, and cancer (1–5). Human
cells contain six Prx isoforms with differences in subcellular
localization and the content of Cys residues (6). The typical
2-Cys or Prx1 subclass (human Prx1–4) contains two catalytic
Cys residues on each monomer of an obligate homodimer (Fig. 1A). Under normal conditions, the peroxidatic Cys residue
(Cys-SPH) attacks a H2O2 molecule to form a sulfenic acid
intermediate (Cys-SPOH). Subsequent structural rearrange-
ments enable the active site to transition from the fully folded
(FF) to a locally unfolded conformation. The Cys-SPH residue
can then form a disulfide with the resolving Cys residue (Cys-
SRH), located near the C terminus of the adjacent subunit. This
disulfide (SP-SR) is reduced by the thioredoxin-thioredoxin
reductase system. Additionally, during the catalytic cycle, an
interchange between dimeric and higher order oligomeric
states occurs, with the reduced decamer typically being the
most active form (7, 8). Under conditions of high oxidative stress, a second H2O2
molecule can react with the Cys-SPOH moiety to form a Cys
sulfinic acid (Cys-SPO2H) moiety within some Prx isoforms (9). THE JOURNAL OF BIOLOGICAL CHEMISTRY VOL. 288, NO. 41, pp. 29714–29723, October 11, 2013
© 2013 by The American Society for Biochemistry and Molecular Biology, Inc.
Published in the U.S.A. THE JOURNAL OF BIOLOGICAL CHEMISTRY VOL. 288, NO. 41, pp. 29714–29723, October 11, 2013
© 2013 by The American Society for Biochemistry and Molecular Biology, Inc. Published in the U.S.A. THE JOURNAL OF BIOLOGICAL CHEMISTRY VOL. 288, NO. 41, pp. 29714–29723, October 11, 2013
© 2013 by The American Society for Biochemistry and Molecular Biology, Inc. Published in the U.S.A. 1 Both authors contributed equally to this work. * Thisworkwassupported,inwholeorinpart,byNationalInstitutesofHealth
Grant R01 GM072866 from NIGMS (to W. T. L.) and Grant R01 CA136810
from NCI (to C. M. F.). 5 The abbreviations used are: Prx, peroxiredoxin; FF, fully folded; ESI, electro-
spray ionization. * Thisworkwassupported,inwholeorinpart,byNationalInstitutesofHealth
Grant R01 GM072866 from NIGMS (to W. T. L.) and Grant R01 CA136810
from NCI (to C. M. F.). 2 Present address: Dept. of Medicine, Duke University Medical Center, Dur-
ham, NC 27710. 3 To whom correspondence may be addressed: Section on Molecular Medi-
cine, Dept. of Internal Medicine, Wake Forest School of Medicine, Medical
Center Blvd., Winston-Salem, NC 27157. Tel.: 336-716-2697; Fax: 336-716-
1214; E-mail: cfurdui@wakehealth.edu. Molecular Basis for the Resistance of Human Mitochondrial
2-Cys Peroxiredoxin 3 to Hyperoxidation* This hyperoxidation of the Prx molecule results in inactivation
and is thought to enable H2O2 to modulate the activity of a
variety of other proteins, including phosphatases and the mas-
ter redox transcription factor Nrf2 (10–12). Repair of the Prx
molecules by sulfiredoxin restores the peroxidase activity, low-
ers peroxide levels, and terminates subsequent downstream
signaling events (9, 13–15). However, the susceptibility of
human 2-Cys Prxs to hyperoxidation varies greatly, with the
cytoplasmic Prx1 and Prx2 being more susceptible than the
mitochondrial Prx3 (16). The resistance of Prx3 to hyperoxida-
tion is consistent with its ability to maintain function within a
highly oxidative environment, but the molecular basis for this 4 To whom correspondence may be addressed: Center for Structural Biology
andDept.ofBiochemistry,WakeForestSchoolofMedicine,MedicalCenter
Blvd., Winston-Salem, NC 27157. Tel.: 336-716-7230; Fax: 336-713-1283;
E-mail: tlowther@wakehealth.edu. VOLUME 288•NUMBER 41•OCTOBER 11, 2013 29714
JOURNAL OF BIOLOGICAL CHEMISTRY * Thisworkwassupported,inwholeorinpart,byNationalInstitutesofHealth
Grant R01 GM072866 from NIGMS (to W. T. L.) and Grant R01 CA136810
from NCI (to C. M. F.).
1 Both authors contributed equally to this work.
2 Present address: Dept. of Medicine, Duke University Medical Center, Dur-
ham, NC 27710.
3 To whom correspondence may be addressed: Section on Molecular Medi-
cine, Dept. of Internal Medicine, Wake Forest School of Medicine, Medical
Center Blvd., Winston-Salem, NC 27157. Tel.: 336-716-2697; Fax: 336-716-
1214; E-mail: cfurdui@wakehealth.edu.
4 To whom correspondence may be addressed: Center for Structural Biology
andDept.ofBiochemistry,WakeForestSchoolofMedicine,MedicalCenter
Blvd., Winston-Salem, NC 27157. Tel.: 336-716-7230; Fax: 336-713-1283;
E-mail: tlowther@wakehealth.edu. Molecular Basis for Resistance of hPrx3 to Hyperoxidation The struc-
ture of hyperoxidized Prx2 (Fig. 1C) illustrates the proximity of
these regions to the Cys-SPH residue (19). In particular, the
GGLG motif interacts with the C-terminal helix of the adjacent
Prx subunit, which contains the Tyr and Phe residues of the YF
motif. This specific interaction is postulated to slow the rate of
formation of the intermolecular disulfide intermediate (SP-SR)
during catalysis, enabling hyperoxidation to occur (6, 10). The
changes in the Prx3 sequence in the proximity of the Cys-SRH
residue and the YF motif have been postulated to alter the inter-
action with the rest of the Prx molecule, resulting in a decreased
susceptibility to hyperoxidation (9, 16). Therefore, changes in
both regions in Prx3 may result in its unique biochemical and
physiological properties. y
g
In this study, a panel of Prx2 and Prx3 variants and chimeras
was analyzed to investigate the contribution of the observed
sequence changes near the GGLG motif and the C terminus to
hyperoxidation. Previous reports have used long time scales,
nonreducing SDS-PAGE, two-dimensional PAGE, and West-
ern blotting to monitor the hyperoxidation of Prx molecules
(16, 20, 21). In contrast, the data presented herein was collected
using a combination of rapid chemical quench and time-re-
solved ESI-TOF mass spectrometry methods to facilitate anal-
ysis under both denaturing and native conditions (22, 23). These improvements and the strategic use of Cys variants have
enabled the direct observation of the Cys-SPOH intermediate
during catalysis. Moreover, the stability of this intermediate in
Prx2 is supported by the time-dependent formation of a puta-
tive Cys-sulfenamide (SN) intermediate. Changing the C-ter-
minal residues of Prx2 and Prx3 had the largest impact on
resistance to hyperoxidation. The residues near the GGLG
motif appeared to play a minimal role. Although Prx3 could be
converted into a Prx2-like molecule and vice versa, the trans-
formations were incomplete suggesting that additional resi-
dues, regions of the protein, and perhaps the equilibrium of the
oligomeric states may also be involved in regulating the ease of
hyperoxidation. Altogether, the data support that the unique
C-terminal residues of Prx3 facilitate the rapid formation of the
SP-SR disulfide, thus protecting the enzyme from inactivation. For the Prx3 variants (WT, HA 3 PP (H155P and A159P),
C2S (C127S and C229S), CT (N232G, T234K, D236G, and
P238D), HA 3 PP CT), the E. Molecular Basis for Resistance of hPrx3 to Hyperoxidation Molecular Basis for Resistance of hPrx3 to Hyperoxidation For the Prx2 variants (WT, PP 3 HA (P98H and P102A), C2S
(C70S and C172S), CT (G175N, K177T, G179D, and D181P),
PP 3 HA CT), the E. coli cells were grown at 37 °C until an
A600 of 0.8 and induced with 0.5 mM isopropyl 1-thio--D-ga-
lactopyranoside at 25 °C for 4–5 h. Given the absence of an
affinity tag, the purification required four chromatographic
steps. The cells were lysed in 100 ml of 20 mM HEPES, pH 7.9,
100 mM NaCl, 1 mM EDTA containing protease inhibitors
(PMSF and benzamidine; both at 0.1 mM) using an Emulsiflex
C5 homogenizer (Avestin, Inc.). This mixture was then centri-
fuged, and the supernatant was treated with 2.5% streptomycin
sulfate followed by centrifugation. Ammonium sulfate was
added to a final concentration of 20% to the supernatant, and
the solution was filtered. This solution was loaded onto a phe-
nyl-Sepharose high performance (Low Sub) column (GE
Healthcare) and eluted with a 600-ml linear gradient to buffer
without ammonium sulfate. The fractions corresponding to the
Prx molecule, as determined by SDS-PAGE, were dialyzed into
20 mM Tris, pH 7.9, subsequently loaded onto a Q-Sepharose FF
column (GE Healthcare), and eluted with a 600-ml linear gra-
dient to 500 mM NaCl. The Prx fractions were pooled and dia-
lyzed into 7 mM potassium phosphate, pH 7.0. The dialysate was
subsequently loaded onto a CHT ceramic hydroxyapatite col-
umn (Bio-Rad) and eluted with a 600-ml linear gradient to 400
mM potassium phosphate, pH 7.0. The Prx2-containing frac-
tions were concentrated to 5 ml and loaded onto a Superdex
200 column equilibrated with 20 mM HEPES, pH 7.5, 100 mM
NaCl. The Prx fractions were pooled, concentrated, flash-fro-
zen with liquid nitrogen, and stored at 80 °C until use. All
Prx2 proteins were stored in a buffer without dithiothreitol
(DTT) with the exception of Prx2C2S, which was stored in 20
mM HEPES, pH 7.5, 100 mM NaCl, and 10 mM DTT. characteristic is not known. Moreover, a detailed analysis of
Prx3 is needed to understand its ability to protect the murine
heart from the damage caused by myocardial infarction and
cancer cells from apoptosis-inducing drugs (2, 17, 18). An alignment of human Prx1–4 reveals that Prx3 has a
unique primary sequence near the GGLG motif within the
active site region (Fig. 1B) and near the C terminus. Molecular Basis for Resistance of hPrx3 to Hyperoxidation coli cells were grown at 37 °C
until an A600 of 0.8 and induced with 0.5 mM isopropyl 1-thio-
-D-galactopyranoside at 18 °C for 16 h. Expression from the
pTYB21 vector results in the addition of an N-terminal chitin
binding domain contained within an intein sequence, enabling
the self-processing and removal of the chitin binding domain-
intein tag after incubation with DTT. The cells were lysed in
150 ml of 20 mM Tris, pH 8.5, 500 mM NaCl, and 1 mM EDTA
containing protease inhibitors (PMSF and benzamidine; both
at 0.1 mM). The supernatant was loaded onto a chitin column
(New England Biolabs) and extensively washed. Intein-medi-
ated cleavage was initiated by equilibrating the column with 20
mM Tris, pH 8.5, 500 mM NaCl, 1 mM EDTA, and 50 mM DTT
followed by a 40-h incubation at room temperature. The
mature form of Prx3, residues 62–255, was eluted from the
column, dialyzed against 20 mM Mes, pH 6.5, 1 mM DTT and
subsequently loaded onto a Q-Sepharose FF column (GE
Healthcare) and eluted with a 600-ml (0–50%) linear gradient
to 1 M NaCl. The Prx3-containing fractions were concentrated
and purified further using the Superdex 200 column, as
described for the Prx2 variants. All Prx3 variants were stored in
20 mM HEPES, pH 7.5, 100 mM NaCl with the exception of Prx3
WT, which had 10 mM DTT. Molecular Basis for Resistance of hPrx3 to Hyperoxidation Preparation of Samples for Mass Spectrometry Analysis—Im-
mediately prior to analysis, the Prx variants were thawed and
reduced with 10 mM DTT at room temperature for 30 min. DTT was removed by passing the protein solution through a
Bio-Gel P6 spin column (Bio-Rad) pre-equilibrated with either
50 mM Tris buffer, pH 7.5, or 50 mM ammonium acetate, pH 6.9. Protein concentrations were determined, in duplicate at a min-
imum, using the absorbance at 280 nm and the theoretical
extinction coefficients for each protein (Prx2 WT, 20,460 M1
cm1; Prx2-C2S, 21,430
M1 cm1; Prx2-CT, 21,555 M1
cm1; Prx2 PP 3 HA, 21,555 M1 cm1; Prx2 PP 3 HA CT,
21,555 M1 cm1; Prx3 WT, 20,065 M1 cm1; Prx3-C2S,
19,940 M1 cm1; Prx3 CT, 20,065 M1 cm1; Prx3 HA 3 PP,
20,065 M1 cm1; Prx3 HA 3 PP CT, 20,065 M1 cm1)
calculated by the ExPASy ProtParam tool. The protein samples
were immediately diluted and analyzed using the chemical
quench and time-resolved methods described below. Mass Spectrometry Data Collection and Analysis—For the
chemical quench experiments, each DTT-free Prx protein was
diluted further in 50 mM Tris, pH 7.5, to a final concentration of
50 M. Oxidation was initiated by the addition of 0.8 eq of
standardized H2O2 (240 43.6 M1 cm1) to the protein solu-
tion. The solution was incubated at 25 °C in a Thermomixer
(Eppendorf) with gentle mixing. In control experiments, all
conditions were the same as above except the same volume of
H2O instead of H2O2 was used. At 30 s incubation time, the
sample was applied to a Bio-Gel P6 spin column pre-equili-
brated with 0.03% formic acid in H2O to quench the oxidation
reaction. The flow-through was then used directly for ESI-TOF
MS analysis. In the comparative time-resolved experiments using the
Prx2 and Prx3 variants, protein oxidation was performed using
an on-line rapid-mixing setup. The experimental setup con-
tained two Hamilton syringes as follows: one containing 100 M
DTT-free Prx variant, and the other containing 100 M H2O2,
both in 50 mM ammonium acetate, pH 6.9. The syringes were
individually connected to separate fused silica capillaries and
simultaneously advanced using a syringe pump (KD Scientific). The solutions were combined through a zero dead volume-
mixing tee (Upchurch Scientific) into a connecting fused silica
capillary (volume, 0.362 l). Molecular Basis for Resistance of hPrx3 to Hyperoxidation The following motifs and residues are high-
lighted: GGLG motif, yellow bar; residue differences between the Prxs, pink
and purple circles; Cys-SRH residue, black circle. C, active site of hyperoxidized,
human Prx2. The same coloring scheme from B is used. The peroxidatic Cys is
hyperoxidized and labeled as Csd51. The Cys-SRH residue for Prx2 is Cys-172. PDB code 1QMV (19). All ESI-TOF MS data were recorded in a positive ion mode
on an Agilent MSD TOF system with the following settings:
capillary voltage (VCap) 3500 V, nebulizer gas (N2) 30 pounds/
inch2, drying gas (N2) 5.0 liter min1; fragmentor 140 V; gas
temperature 325 °C. The chemical quench samples were
injected for analysis by ESI-TOF MS at a flow rate of 25 l
min1 from a 250-l syringe via a syringe pump. For the time-
resolved experiments, the samples were injected as described
above. The averaged MS spectra were deconvoluted using the
Agilent MassHunter workstation software Version B.01.03. Data for the Prx2-C2S variant were fitted using SigmaPlot Ver-
sion 11.0 (Systat Software Inc) and KinTek Explorer (KinTek
Corp.) based on a simple kinetic model E S 7 EI; EI S 7 EP, where E is Prx-C2S; S is H2O2; EI is the Prx-C2S-SPOH, and
EP is Prx-C2S-SPO2H. EXPERIMENTAL PROCEDURES Protein Expression and Purification—The human PRDX2
and PRDX3 genes were subcloned into the pET17 (Novagen)
and pTYB21 (New England Biolabs), respectively, in a manner
that ultimately resulted in the mature form of each protein
without any additional N- or C-terminal residues. This was
necessary as additional residues at either location could nega-
tively impact catalytic activity. All Prx variants were created
using the QuikChange site-directed mutagenesis method
(Stratagene) with the appropriate primers. All proteins were
expressed in BL21-Gold (DE3) Escherichia coli cells (New Eng-
land Biolabs). OCTOBER 11, 2013•VOLUME 288•NUMBER 41 JOURNAL OF BIOLOGICAL CHEMISTRY 29715 29715 OCTOBER 11, 2013•VOLUME 288•NUMBER 41 -
d
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9. -
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of
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FIGURE 1. Key residues involved in 2-Cys Prx catalysis and hyperoxida-
tion. A, 2-Cys Prx catalytic cycle showing oxidation, hyperoxidation, and
repair by sulfiredoxin. The monomers of the obligate Prx homodimer are
shown in blue and green. Depending on the concentration of peroxide pres-
ent, one or both of the peroxidatic Cys residues (Cys-SPH) may be oxidized to
the Cys sulfenic acid (Cys-SPOH) or hyperoxidized to the Cys sulfinic acid (Cys-
SPO2H). The resolving Cys residue, Cys-SRH, is located near the C terminus and
forms an intermolecular disulfide bond with the Cys-SPH residue during nor-
mal catalysis. Reduction of this disulfide and the Cys-SPO2H moiety is per-
formed by the thioredoxin-thioredoxin reductase-NAPDH (Trx-Trx-NADPH)
system and sulfiredoxin (Srx), respectively. The abbreviation used within the
main text for each species is indicated in italics. B, sequence alignment of key
residues within the active site The following motifs and residues are high
xidation Molecular Basis for Resistance of hPrx3 to Hyperoxidation The mixture was then continu-
ously flowed into an ESI needle (volume, 1.269 l) inserted in a
stainless steel electrospray probe for ESI-TOF MS analysis. Varying flow rates were applied to achieve reaction time points
lower than 30 s. FIGURE 1. Key residues involved in 2-Cys Prx catalysis and hyperoxida-
tion. A, 2-Cys Prx catalytic cycle showing oxidation, hyperoxidation, and
repair by sulfiredoxin. The monomers of the obligate Prx homodimer are
shown in blue and green. Depending on the concentration of peroxide pres-
ent, one or both of the peroxidatic Cys residues (Cys-SPH) may be oxidized to
the Cys sulfenic acid (Cys-SPOH) or hyperoxidized to the Cys sulfinic acid (Cys-
SPO2H). The resolving Cys residue, Cys-SRH, is located near the C terminus and
forms an intermolecular disulfide bond with the Cys-SPH residue during nor-
mal catalysis. Reduction of this disulfide and the Cys-SPO2H moiety is per-
formed by the thioredoxin-thioredoxin reductase-NAPDH (Trx-Trx-NADPH)
system and sulfiredoxin (Srx), respectively. The abbreviation used within the
main text for each species is indicated in italics. B, sequence alignment of key
residues within the active site. The following motifs and residues are high-
lighted: GGLG motif, yellow bar; residue differences between the Prxs, pink
and purple circles; Cys-SRH residue, black circle. C, active site of hyperoxidized,
human Prx2. The same coloring scheme from B is used. The peroxidatic Cys is
hyperoxidized and labeled as Csd51. The Cys-SRH residue for Prx2 is Cys-172. PDB code 1QMV (19). FIGURE 1. Key residues involved in 2-Cys Prx catalysis and hyperoxida-
tion. A, 2-Cys Prx catalytic cycle showing oxidation, hyperoxidation, and
repair by sulfiredoxin. The monomers of the obligate Prx homodimer are
shown in blue and green. Depending on the concentration of peroxide pres-
ent, one or both of the peroxidatic Cys residues (Cys-SPH) may be oxidized to
the Cys sulfenic acid (Cys-SPOH) or hyperoxidized to the Cys sulfinic acid (Cys-
SPO2H). The resolving Cys residue, Cys-SRH, is located near the C terminus and
forms an intermolecular disulfide bond with the Cys-SPH residue during nor-
mal catalysis. Reduction of this disulfide and the Cys-SPO2H moiety is per-
formed by the thioredoxin-thioredoxin reductase-NAPDH (Trx-Trx-NADPH)
system and sulfiredoxin (Srx), respectively. The abbreviation used within the
main text for each species is indicated in italics. B, sequence alignment of key
residues within the active site. RESULTS AND DISCUSSION Hyperoxidation of Wild-type Prx2 and Prx3—Although
human Prx2 and Prx3 exhibit second order rate constants of
107 M1 s1 with H2O2, these enzymes represent divergent
2-Cys Prx molecules with respect to their susceptibility to 29716
JOURNAL OF BIOLOGICAL CHEMISTRY 29716 VOLUME 288•NUMBER 41•OCTOBER 11, 2013 Molecular Basis for Resistance of hPrx3 to Hyperoxidation FIGURE 2. Susceptibility of wild-type Prx2 and Prx3 to hyperoxidation. Chemical quench and ESI-TOF MS were used to assess the oxidation state of
each protein (50 M) following treatment with 0.8 eq of H2O2 for 30 s at pH 7.5. The 1st column of panels shows the full spectra for Prx2 and Prx3 with and
without H2O2 treatment. The panels to the right show a close-up view of the mass ranges encompassing the monomeric and dimeric species. See Fig. 1A for the abbreviations used for each species. All theoretical and experimental mass values ( S.D.) are given in Table 1; amu, atomic mass units. Molecular Basis for Resistance of hPrx3 to Hyperoxidation FIGURE 2. Susceptibility of wild-type Prx2 and Prx3 to hyperoxidation. Chemical quench and ESI-TOF MS were used to assess the oxidation state of
each protein (50 M) following treatment with 0.8 eq of H2O2 for 30 s at pH 7.5. The 1st column of panels shows the full spectra for Prx2 and Prx3 with and
without H2O2 treatment. The panels to the right show a close-up view of the mass ranges encompassing the monomeric and dimeric species. See Fig. 1A for the abbreviations used for each species. All theoretical and experimental mass values ( S.D.) are given in Table 1; amu, atomic mass units. hyperoxidation of the catalytic Cys-SPH residue to Cys sulfinic
acid (Cys-SPO2H) (24). To evaluate this difference, a panel of
human Prx2 and Prx3 variants was expressed and purified from
E. coli. Importantly, the expression construct for each protein
was designed with the requirement that no affinity tags or addi-
tional N- and C-terminal residues remain at the final step of
purification, as these can greatly influence the oligomeric state
and peroxidase activity (8, 25). Although Prx2 was readily
expressed and purified without affinity tags, Prx3 was more
problematic requiring the screening of a variety of expression
tags and an evaluation of their ease of removal by proteases. RESULTS AND DISCUSSION In
the end, only an N-terminal chitin binding domain-intein
fusion led to sufficient expression levels for all variants ana-
lyzed, resulting in a mature N terminus at residue 62 following
DTT treatment. analysis. Moreover, all data presented herein were collected
without the presence of DTT or other external reductant like
thioredoxin in the reaction mixture. This simplification pre-
vents the Prx molecule from cycling and enables partial-turn-
over analysis of Prx oxidation. Reduced Prx2 or Prx3 (50 M) was mixed with 0.8 eq of H2O2
at pH 7.5 and incubated for 30 s. The reaction was chemically
quenched by passing the sample through a desalting column
equilibrated with 0.03% formic acid in H2O and immediately
analyzed by ESI-TOF mass spectrometry (Fig. 2). The addition
of H2O2 to Prx2 results in the conversion of the reduced mon-
omer (SH, M) to the hyperoxidized monomer (SO2H, M 32)
and two intermolecular disulfide-linked species, the oxidized
(SS SH, M M 2) and hyperoxidized (SS SO2H, M
M 30) dimers (Fig. 1; all theoretical and experimental mass
values are given in Table 1). In contrast, the addition of H2O2 to
Prx3 results in the same species but with more of the reduced
(SH) monomer remaining. Previous in vitro and cellular studies have used gel-based and
Western blotting methods to monitor the hyperoxidation of
Prx2 and Prx3 (16, 20, 21). Although these low resolution tech-
niques do illustrate the differences in reactivity with H2O2, they
have missed critical reaction intermediates that may shed light
into the molecular mechanism of resistance to hyperoxidation
in Prx3. Quantitative ESI-TOF mass spectrometry approaches
were used in this study to dissect the appearance and disappear-
ance of reaction intermediates (Fig. 1) associated with oxida-
tion (Cys-SPOH, M 16) and hyperoxidation (Cys-SPO2H,
M 32). A key feature of this approach has been to pre-reduce
the samples with DTT and to desalt immediately prior to With the substoichiometric addition of H2O2, the presence
of reduced monomer and monomeric and dimeric species con-
taining the hyperoxidized Cys-SPO2H moiety for both Prx2 and
Prx3 is counterintuitive. The Cys-SPH residue should react
quickly with H2O2 to form the Cys-SPOH intermediate and
then transition to the SP-SR dimeric species. Based on other
biochemical and molecular modeling studies, however, there is
evidence for one Cys-SPH residue to be more reactive than the
other within the Prx homodimer (26–28). TABLE 1 TABLE 1
Theoretical and experimental mass values for the different oxidation states of Prx2 and Prx3 variants a The removal of the Cys-SRH residue by mutagenesis prevents the possibility of this species forming. See text for details. b Species was not observed. Please see text for experimental details, as some species can only be captured with the time-resolved approach. Not all Prx2 and Prx3 variants
were analyzed with the latter approach. c All mass values were determined in triplicate except for Prx3 HA 3 PP CT, which was performed in duplicate, due to the paucity of material available. order for the Cys-SPOH species to react with a second mol-
ecule of H2O2, the active site must be in the FF conformation
(6). Thus, it appears that under these nonturnover reaction
conditions a small subpopulation of Prx active sites main-
tains the Cys-SPOH intermediate in the FF conformation,
leading to hyperoxidation. dation, but this species has not been directly observed during
Prx turnover before (10, 31). Time-resolved ESI-TOF MS Analysis of Early Reaction
Intermediates—The tracking of the formation of the Cys-SPOH
species in Prxs was first studied using molecular probes specific
for this functional group, including dimedone (32). Advances in
the development of chemical probes have revolutionized the
isolation and identification of other proteins that form a Cys
sulfenic acid within cells exposed to a variety of stress condi-
tions (6, 33–35). The reactivity of these probes is, however, not
high enough to capture the transient Cys-SPOH intermediate
during the Prx reaction cycle. The reported reaction rates vary
from 0.003 to 1.65 min1 at a saturating concentration of dime-
done (36). Even when using the low pH chemical quench method
and ESI-TOF MS at a 30-s time point (Fig. 2), the Cys-SPOH spe-
cies was not captured for WT Prx2 and Prx3. Therefore, a more
rapid analysis of the reaction intermediates is necessary. In summary, these analyses of the wild-type (WT) proteins
are consistent with cell-based and in vitro studies showing
that Prx3 is more resistant to hyperoxidation (16, 20, 21). Moreover, the concentrations of Prx and H2O2 used were
directly comparable with those found within cells (29, 30). These experiments demonstrate that hyperoxidation of Prx2
and Prx3 can occur on a physiologically relevant time scale
without catalytic cycling when the concentration of H2O2 is
similar to the amount of Prx protein. RESULTS AND DISCUSSION In addition, in OCTOBER 11, 2013•VOLUME 288•NUMBER 41 OCTOBER 11, 2013•VOLUME 288•NUMBER 41 29717 JOURNAL OF BIOLOGICAL CHEMISTRY 29717 Molecular Basis for Resistance of hPrx3 to Hyperoxidation TABLE 1
Theoretical and experimental mass values for the different oxidation states of Prx2 and Prx3 variants
a The removal of the Cys-SRH residue by mutagenesis prevents the possibility of this species forming. See text for details. b Species was not observed. Please see text for experimental details, as some species can only be captured with the time-resolved approach. Not all Prx2 and Prx3 variants
were analyzed with the latter approach. c All mass values were determined in triplicate except for Prx3 HA 3 PP CT, which was performed in duplicate, due to the paucity of material available. TABLE 1 Nonetheless, the ability to capture this putative intermediate,
even as a minor product, supports that the Cys-SPOH species is
stabilized in Prx2. FIGURE 3. Time-resolved ESI-TOF MS analysis of wild-type Prx2 and Prx3
d
i
l
i
h
d
h
l FIGURE 3. Time-resolved ESI-TOF MS analysis of wild-type Prx2 and Prx3
during catalysis. Each variant was treated with an equimolar concentration
of H2O2 followed by the continuous analysis of reaction intermediates at pH
6.9. Left panel, representative deconvoluted spectra for Prx2 at different reac-
tion time points. The full spectra and a close-up of the region around the
monomer are shown. The series of shoulder peaks are consistent with the
presence of Na adducts (22 Da). See Table 1 for mass details for the differ-
ent species. amu, atomic mass units. Right panel, full spectra for Prx3. In contrast, only the reduced monomer (SH) and the oxi-
dized dimer (SS SH) were observed in the mass spectra for
WT Prx3 in the 1.0–5.0-s reaction time range. The absence of
the Cys-SPOH and sulfenamide intermediates for Prx3 sup-
ports that the lifetime of the Cys-SPOH intermediate is consid-
erably shorter than that for Prx2, as a consequence of rapid
intermolecular disulfide bond formation (SP-SR). Thus, the
presence of the Cys-SRH residue and the ability to form the
intermolecular SP-SR species appears to greatly impact the life-
time of the Cys-SPOH intermediate. Time-resolved ESI-TOF MS experiments, employing an
on-line, rapid-mixing setup, were used to monitor the for-
mation of the Cys-SPOH species for Prx2 and Prx3 during
catalysis, i.e. under native conditions. In this approach, the
Prx proteins were pre-reduced with DTT, desalted into a
volatile buffer, and loaded into a Hamilton syringe. The sam-
ples were then mixed on-line in an equimolar ratio (100 M
each) with H2O2 at varying flow rates (10–80 l/min) to
achieve the acquisition of mass spectra at short reaction time
points (1–15 s). With this 30-fold reduction of the reaction
time scale, the detection of the Cys-SPOH intermediate at
pH 7.5 was still not possible. Hyperoxidation of Prx2 and Prx3 Cys Variants—To dissect
the contribution of the Cys-SRH residue and SP-SR intermedi-
ate formation to the hyperoxidation of Prx2 and Prx3, the Cys-
SRH residue and one other noncatalytic Cys residue were
mutated to Ser (Prx2-C2S, C70S and C172S; Prx3-C2S, C127S
and C229S; numbering scheme based on full-length gene
sequence). TABLE 1 These observations also
support the notion that the lifetime or stability of the Cys-
SPOH intermediate is crucial to enable subsequent hyperoxi- 29718
JOURNAL OF BIOLOGICAL CHEMISTRY VOLUME 288•NUMBER 41•OCTOBER 11, 2013 VOLUME 288•NUMBER 41•OCTOBER 11, 2013 FIGURE4.SusceptibilityofPrx2-C2SandPrx3-C2Stohyperoxidation.Chem-
ical quench and ESI-TOF MS were used to assess the oxidation state of each pro-
tein (50 M) following treatment with 2 eq of H2O2 for 30 s at pH 7.5. These Prx2
andPrx3variantscontainonlytheCys-SPHresidueandcannotformtheintermo-
lecular disulfide reaction intermediate. Therefore, the deconvoluted spectra
focus on the monomeric species, as indicated. amu, atomic mass units. cular Basis for Resistance of hPrx3 to Hyperoxidation Molecular Basis for Resistance of hPrx3 to Hyperoxidation FIGURE 3. Time-resolved ESI-TOF MS analysis of wild-type Prx2 and Prx3
during catalysis. Each variant was treated with an equimolar concentration
of H2O2 followed by the continuous analysis of reaction intermediates at pH
6.9. Left panel, representative deconvoluted spectra for Prx2 at different reac-
tion time points. The full spectra and a close-up of the region around the
monomer are shown. The series of shoulder peaks are consistent with the
presence of Na adducts (22 Da). See Table 1 for mass details for the differ-
ent species. amu, atomic mass units. Right panel, full spectra for Prx3. FIGURE4.SusceptibilityofPrx2-C2SandPrx3-C2Stohyperoxidation.Chem-
ical quench and ESI-TOF MS were used to assess the oxidation state of each pro-
tein (50 M) following treatment with 2 eq of H2O2 for 30 s at pH 7.5. These Prx2
andPrx3variantscontainonlytheCys-SPHresidueandcannotformtheintermo-
lecular disulfide reaction intermediate. Therefore, the deconvoluted spectra
focus on the monomeric species, as indicated. amu, atomic mass units. (Cys-SPN, M 2) (Table 1), a novel finding to our knowledge
for human Prx proteins. At this point, we cannot determine
whether the putative sulfenamide species exists in solution as a
minor species or is a result of the dehydration process when the
protein ion transitions to the gas phase during MS analysis. Nonetheless, the ability to capture this putative intermediate,
even as a minor product, supports that the Cys-SPOH species is
stabilized in Prx2. (Cys-SPN, M 2) (Table 1), a novel finding to our knowledge
for human Prx proteins. At this point, we cannot determine
whether the putative sulfenamide species exists in solution as a
minor species or is a result of the dehydration process when the
protein ion transitions to the gas phase during MS analysis. Molecular Basis for Resistance of hPrx3 to Hyperoxidation Molecular Basis for Resistance of hPrx3 to Hyperoxidation FIGURE 5. Time-resolved ESI-TOF MS analysis of the Prx2-C2S and Prx3-C2S
variants during catalysis. A, representative deconvoluted spectra for Prx2-C2S
at the indicated reaction time points. The protein was treated with an equimolar
concentration of H2O2 (50 M of each final) at pH 6.9 followed by the analysis of
reactionmixturewithESI-TOFmassspectrometry.Thespectraarefocusedonthe
following species: Cys-SPH, Cys-SPOH, Cys-SPO2H, and a putative Cys-sulfen-
amide (Cys-SPN) intermediate (Table 1). B, global kinetic modeling of the Prx2-
C2S kinetic data. The plot shows the determined kinetic profiles for the –SPH and
–SPO2H and the combined –SPOH/–SPN species, as the –SPN intermediate logi-
cally originates from the –SPOH species. C, deconvoluted spectra for Prx3-C2S
treated with H2O2 for 600 s. amu, atomic mass units. Molecular Basis for Resistance of hPrx3 to Hyperoxid constant of 104 Prx2-C2S is consistent with the rate reported
for turnover for the WT Prx2 (107 M1 s1), especially given
the suboptimal pH conditions and the mutation of the Cys-SRH
residue (24, 37–40). One caveat to the Prx2-C2S studies was the unanticipated
observation of more oxidization than expected, considering the
equimolar proportion of H2O2 added. It is unclear why this
occurred for only this Prx2 variant and not others in this study,
but it could have been formed during MS analysis. Nonetheless,
the data for Prx2-C2S are consistent with the increased lifetime
of the Cys-SPOH intermediate and the inability to form the
normal SP-SR intermolecular disulfide. In marked contrast, the
Cys-SPOH, Cys-SPN, and Cys-SPO2H species were observed at
similar levels at 600 s for Prx3-C2S (Fig. 5C), in line with the
amount of H2O2 added. Given the significantly lowered reac-
tivity of the Prx3-C2S variant, the rates for the formation of
the different oxidized and hyperoxidized species were not
calculated. An orthogonal analysis of the hyperoxidation of WT Prx2
and Prx3 was recently reported while our studies were in review
(41). This analysis focused on determining the rate of hyperoxi-
dation, kSOH 3 SO2H (k2 in their scheme), and the rate of disul-
fide formation, kSOH 3 SP-SR (k3 in their scheme). Our
kSOH 3 SO2H value of 1.1 103 M1 s1, for Prx2-C2S at a sub-
optimal pH, is comparable with 1.2 104 M1 s1 for the WT
enzyme. Moreover, our chemical quench and time-resolved
MS data (Figs. Molecular Basis for Resistance of hPrx3 to Hyperoxidation 2 and 3) directly illustrate the rapid formation of
the SP-SR intermediate for Prx3, consistent with the 10-fold
higher kSOH 3 SP-SR rate for Prx3 (20 s1 versus 2 s1 for Prx2)
and the oxidation of the Cys-SPOH species being the rate-lim-
iting step for hyperoxidation. Taken together, the data support
the importance of rate of formation of the SP-SR species in con-
trolling susceptibility to hyperoxidation, as originally proposed
by Wood et al. (10). As described below, a panel of Prx2 and
Prx3 chimeras of the active site and C-terminal region, near the
Cys-SRH residue, was evaluated in an effort to determine which
residues unique to Prx3 may impart the unique resistance to
hyperoxidation. FIGURE 5. Time-resolved ESI-TOF MS analysis of the Prx2-C2S and Prx3-C2S
variants during catalysis. A, representative deconvoluted spectra for Prx2-C2S
at the indicated reaction time points. The protein was treated with an equimolar
concentration of H2O2 (50 M of each final) at pH 6.9 followed by the analysis of
reactionmixturewithESI-TOFmassspectrometry.Thespectraarefocusedonthe
following species: Cys-SPH, Cys-SPOH, Cys-SPO2H, and a putative Cys-sulfen-
amide (Cys-SPN) intermediate (Table 1). B, global kinetic modeling of the Prx2-
C2S kinetic data. The plot shows the determined kinetic profiles for the –SPH and
–SPO2H and the combined –SPOH/–SPN species, as the –SPN intermediate logi-
cally originates from the –SPOH species. C, deconvoluted spectra for Prx3-C2S
treated with H2O2 for 600 s. amu, atomic mass units. FIGURE 5. Time-resolved ESI-TOF MS analysis of the Prx2-C2S and Prx3-C2S
variants during catalysis. A, representative deconvoluted spectra for Prx2-C2S
at the indicated reaction time points. The protein was treated with an equimolar
concentration of H2O2 (50 M of each final) at pH 6.9 followed by the analysis of
reactionmixturewithESI-TOFmassspectrometry.Thespectraarefocusedonthe
following species: Cys-SPH, Cys-SPOH, Cys-SPO2H, and a putative Cys-sulfen-
amide (Cys-SPN) intermediate (Table 1). B, global kinetic modeling of the Prx2-
C2S kinetic data. The plot shows the determined kinetic profiles for the –SPH and
–SPO2H and the combined –SPOH/–SPN species, as the –SPN intermediate logi-
cally originates from the –SPOH species. C, deconvoluted spectra for Prx3-C2S
treated with H2O2 for 600 s. amu, atomic mass units. the intrinsic differences between Prx2 and Prx3. This compar-
ison clearly demonstrates that the mutation of the Cys-SRH
residue has a significant impact on the reactivity of Prx3 with
H2O2. Molecular Basis for Resistance of hPrx3 to Hyperoxidation One likely explanation is that the active site for the Prx3-
C2S variant is predominantly in the locally unfolded conforma-
tion, thus preventing the reaction with H2O2. These observa-
tions are consistent with the decrease in hyperoxidation
observed when mutating the Cys-SRH residue to Ser or Ala in
other eukaryotic Prxs (37–39). the intrinsic differences between Prx2 and Prx3. This compar-
ison clearly demonstrates that the mutation of the Cys-SRH
residue has a significant impact on the reactivity of Prx3 with
H2O2. One likely explanation is that the active site for the Prx3-
C2S variant is predominantly in the locally unfolded conforma-
tion, thus preventing the reaction with H2O2. These observa-
tions are consistent with the decrease in hyperoxidation
observed when mutating the Cys-SRH residue to Ser or Ala in
other eukaryotic Prxs (37–39). hyperoxidation. Hyperoxidation of C-terminal and GGLG Motif Chimeras of
Prx2 and Prx3—As briefly described earlier, the packing of the
C-terminal YF-containing helix against the GGLG motif (Fig. 1C) is a prominent feature of eukaryotic Prxs. This interaction
and the resultant stabilization of the active site are thought to
slow the rate of formation of the intermolecular SS intermedi-
ate during catalysis enabling hyperoxidation (6, 10). In fact,
the mutation and truncation of the C terminus results in an
increased resistance to hyperoxidation in other Prxs (37,
42–44). The appendage of a C terminus from a Prx molecule
sensitive to hyperoxidation to one that is normally resistant can
also result in an increase in sensitivity to hyperoxidation (43). Similar studies have not been performed with human Prx2 and
Prx3 in an effort to address their differences in hyperoxidation. A sequence alignment (Fig. 1B) of human Prx1–4 reveals
that two Pro residues, Pro-98 and Pro-102 of Prx2, are substi-
tuted to His and Ala in Prx3, respectively. Their position
next to the GGLG motif suggests that these Pro residues may
be important for the positioning of this motif to interact with
the C terminus of the adjacent Prx subunit. Four additional Hyperoxidation of C-terminal and GGLG Motif Chimeras of
Prx2 and Prx3—As briefly described earlier, the packing of the
C-terminal YF-containing helix against the GGLG motif (Fig. 1C) is a prominent feature of eukaryotic Prxs. This interaction
and the resultant stabilization of the active site are thought to
slow the rate of formation of the intermolecular SS intermedi-
ate during catalysis enabling hyperoxidation (6, 10). TABLE 1 These mutations leave only the Cys-SPH residue for
each protein, and therefore the dimeric SP-SR species cannot
form, and the potential for unwanted thiol-disulfide exchange
reactions is removed. Decreasing the reaction pH to 6.9, however, enabled the
detection of the Cys-SPOH species for wild-type (WT) Prx2 at
1.5 s (Fig. 3), even when the majority of the protein was present
as the oxidized dimer (SS SH), as expected. Importantly,
under these reaction conditions and short time scale, the SS
SO2H species was not consistently observed. By 5.8 s the Cys-
SPOH intermediate was consumed, and a new peak emerged
with a mass consistent with the formation of a Cys sulfenamide An analysis of the variants at pH 7.5, with the addition of 2 eq
of H2O2 for 30 s (Fig. 4), was performed using the chemical
quench method coupled with ESI-TOF mass spectrometry. The Prx3-C2S variant remained in the reduced state while the
Prx2-C2S variant was fully hyperoxidized, further highlighting OCTOBER 11, 2013•VOLUME 288•NUMBER 41 OCTOBER 11, 2013•VOLUME 288•NUMBER 41 29719 JOURNAL OF BIOLOGICAL CHEMISTRY Molecular Basis for Resistance of hPrx3 to Hyperoxidation Importantly,
these variants all contain the Cys-SRH residue and can there-
fore undergo normal catalytic cycling. species containing the Cys-SPO2H moiety increased (Fig. 6B)
over the WT protein. The Prx3 CT chimera was even more
sensitive to hyperoxidation, as only the monomeric Cys-SO2H
species was observed in addition to a complete loss of SS SH
and SS SO2H species. The combination of the GGLG and CT
variants, Prx3 HA 3 PP CT, yielded a similar increase in the
monomeric SO2H species and a small increase in the SS-con-
taining species. It is unclear at this time how the combination of
the two sets of mutations could lead to a compensatory effect. The analysis of the Prx2 and Prx3 chimeras supports that the
C terminus of Prx3 is the primary determinant to the resistance
of the WT enzyme to hyperoxidation and that the residues near
the GGLG motif can modulate this resistance to some degree. Moreover, the lack of the dimeric SS SH and SS SO2H for
the Prx3 CT variant suggests that the active site is stabilized in
the FF conformation, causing the Cys-SPOH species to be read-
ily hyperoxidized. It is interesting to note that none of the Prx2
and Prx3 chimeras exhibited a full transformation in their sen-
sitivity or resistance to hyperoxidation. This finding suggests
that other regions of the proteins and their dynamic oligomeric
states may also influence the ease of hyperoxidation. species containing the Cys-SPO2H moiety increased (Fig. 6B)
over the WT protein. The Prx3 CT chimera was even more
sensitive to hyperoxidation, as only the monomeric Cys-SO2H
species was observed in addition to a complete loss of SS SH
and SS SO2H species. The combination of the GGLG and CT
variants, Prx3 HA 3 PP CT, yielded a similar increase in the
monomeric SO2H species and a small increase in the SS-con-
taining species. It is unclear at this time how the combination of
the two sets of mutations could lead to a compensatory effect. The analysis of the Prx2 and Prx3 chimeras supports that the
C terminus of Prx3 is the primary determinant to the resistance
of the WT enzyme to hyperoxidation and that the residues near
the GGLG motif can modulate this resistance to some degree. Molecular Basis for Resistance of hPrx3 to Hyperoxidation In fact,
the mutation and truncation of the C terminus results in an
increased resistance to hyperoxidation in other Prxs (37,
42–44). The appendage of a C terminus from a Prx molecule
sensitive to hyperoxidation to one that is normally resistant can
also result in an increase in sensitivity to hyperoxidation (43). Similar studies have not been performed with human Prx2 and
Prx3 in an effort to address their differences in hyperoxidation. The Prx2 and Prx3 Cys variants were also analyzed by time-
resolved ESI-TOF MS at pH 6.9 to evaluate the formation of
reaction intermediates. For Prx2-C2S, the addition of 1 eq of
H2O2 resulted in the formation of Cys-SPOH species at 1.2 s
(Fig. 5A). By 15 s, three species were present as follows: Cys-
SPOH, Cys-SPN, and Cys-SPO2H. At the 600-s time point, the
hyperoxidized species predominated. Additional time points
were collected, and the relative abundance for each species to
the total signal was converted to concentration to generate a
plot (Fig. 5B) of the reduced, oxidized, and hyperoxidized spe-
cies versus time. The intensities for the Cys-SPOH and Cys-SPN
intermediates were combined, as the Cys-SPN intermediate can
only form from the Cys-SPOH. A global fit of the data using
KinTek Explorer was used to determine the following rate con-
stants: kSH 3 SOH, 2.0 104 M1 s1; kSOH 3 SO2H, 1.1 103
M1 s1. A separate exponential fit to the formation of the Cys-
SPO2H species yielded the kSH 3 SO2H rate constant of 9.2 102
M1 s1, consistent with the conversion of the Cys-SPOH inter-
mediate to the Cys-SPO2H species being the rate-limiting step
in Prx2-C2S hyperoxidation. Importantly, the kSH 3 SOH rate A sequence alignment (Fig. 1B) of human Prx1–4 reveals
that two Pro residues, Pro-98 and Pro-102 of Prx2, are substi-
tuted to His and Ala in Prx3, respectively. Their position
next to the GGLG motif suggests that these Pro residues may
be important for the positioning of this motif to interact with
the C terminus of the adjacent Prx subunit. Four additional VOLUME 288•NUMBER 41•OCTOBER 11, 2013 29720 VOLUME 288•NUMBER 41•OCTOBER 11, 2013 29720
JOURNAL OF BIOLOGICAL CHEMISTRY Molecular Basis for Resistance of hPrx3 to Hyperoxidation Molecular Basis for Resistance of hPrx3 to Hyperoxidation FIGURE 6. Susceptibility of Prx2 and Prx3 GGLG and C-terminal chimeras to hyperoxidation. A, Prx2 variants: WT, PP 3 HA (P98H and P102A); CT (G175N,
K177T, G179D, and D181P); PP 3 HA CT. B, Prx3 variants: WT, HA 3 PP (H155P and A159P); CT (N232G, T234K, D236G, and P238D); HA 3 PP CT. Chemical
quench ESI-TOF analyses were performed with 0.8 eq of H2O2 for 30 s at pH 7.5. A close-up of the mass range for the monomeric (left panel) and dimeric (right
panel) species is presented within each panel (Table 1). amu, atomic mass units. Molecular Basis for Resistance of hPrx3 to Hyperoxidation FIGURE 6 Susceptibility of Prx2 and Prx3 GGLG and C terminal chimeras to FIGURE 6. Susceptibility of Prx2 and Prx3 GGLG and C-terminal chimeras to hyperoxidation. A, Prx2 variants: WT, PP 3 HA (P98H and P102A); CT (G175N,
K177T, G179D, and D181P); PP 3 HA CT. B, Prx3 variants: WT, HA 3 PP (H155P and A159P); CT (N232G, T234K, D236G, and P238D); HA 3 PP CT. Chemical
quench ESI-TOF analyses were performed with 0.8 eq of H2O2 for 30 s at pH 7.5. A close-up of the mass range for the monomeric (left panel) and dimeric (right
panel) species is presented within each panel (Table 1). amu, atomic mass units. differences between Prx2 and Prx3 were identified adjacent
to the Cys-SRH residue (16). In this region, Gly-175, Lys-177,
Gly-179, and Asp-181 of Prx2 are substituted with Asn, Thr,
Asp, and Pro in Prx3, respectively. A panel of Prx2 and Prx3
variants was generated where these sequence differences were
swapped as a group to generate chimeras. The panel was eval-
uated using the same experimental conditions as for the WT
proteins and using the chemical quench method. Importantly,
these variants all contain the Cys-SRH residue and can there-
fore undergo normal catalytic cycling. differences between Prx2 and Prx3 were identified adjacent
to the Cys-SRH residue (16). In this region, Gly-175, Lys-177,
Gly-179, and Asp-181 of Prx2 are substituted with Asn, Thr,
Asp, and Pro in Prx3, respectively. A panel of Prx2 and Prx3
variants was generated where these sequence differences were
swapped as a group to generate chimeras. The panel was eval-
uated using the same experimental conditions as for the WT
proteins and using the chemical quench method. REFERENCES (2005) Analysis of the link between enzymatic
activity and oligomeric state in AhpC, a bacterial peroxiredoxin. Biochem-
istry 44, 10583–10592 Inspection of the Prx2 active site (Fig. 1C) and the residues
surrounding the Cys-51-SPH residue reveals that Prx2 would
not be able to form a backbone-mediated Cys-SPN intermedi-
ate similar to PTP1B. Cys-51 is adjacent to the conserved amino
acid Pro-52, which lacks an amide proton and cannot attack the
sulfenic acid moiety. Based on studies with synthetic peptides,
it is possible that the Cys-SPN formation in Prx2 is mediated
through the amine groups of a Lys or Arg side chain (49). Arg-
127, a conserved residue, is the only residue adjacent to Cys-51
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chondria, it makes sense that the Prx3 molecule would favor
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ily hyperoxidized. It is interesting to note that none of the Prx2
and Prx3 chimeras exhibited a full transformation in their sen-
sitivity or resistance to hyperoxidation. This finding suggests
that other regions of the proteins and their dynamic oligomeric
states may also influence the ease of hyperoxidation. Following the addition of 0.8 eq H2O2 for 30 s, the Prx2
GGLG region chimera (Prx2 PP 3 HA) (Fig. 6A) had a compa-
rable profile to WT Prx2, with prominent monomeric and
dimeric species containing the Cys-SPO2H moiety. In contrast,
the Prx2 C-terminal chimera (Prx2 CT) was more resistant to
hyperoxidation, as indicated by the lack of formation of the
Cys-SPO2H monomeric species and the presence of the SS
SH and SS SO2H species. The combination of the variants,
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protection from hyperoxidation. These observations support
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and Prx2-C2S (Figs. 3 and 5) supports a Cys-SPOH-Cys-SPN
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increase in hyperoxidation, i.e. the monomeric and dimeric OCTOBER 11, 2013•VOLUME 288•NUMBER 41 JOURNAL OF BIOLOGICAL CHEMISTRY 29721 OCTOBER 11, 2013•VOLUME 288•NUMBER 41 29721 Molecular Basis for Resistance of hPrx3 to Hyperoxidation However, the inability to observe the Cys-SPOH and Cys-SPN
intermediates for WT Prx3 also supports the rapid formation of
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English
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The gaugino condensate from asymmetric four-torus with twists
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The Journal of high energy physics/The journal of high energy physics
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cc-by
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Published for SISSA by
Springer Received: November 15, 2022
Accepted: December 19, 2022
Published: January 23, 2023 Received: November 15, 2022
Accepted: December 19, 2022
Published: January 23, 2023 Keywords: Anomalies in Field and String Theories, Nonperturbative Effects, Supersym-
metric Gauge Theory Open Access, c⃝The Authors.
Article funded by SCOAP3. The gaugino condensate from asymmetric four-torus
with twists JHEP01(2023)118 Mohamed M. Anbera and Erich Poppitzb
aCentre for Particle Theory, Department of Mathematical Sciences, Durham University,
South Road, Durham DH1 3LE, U.K. bDepartment of Physics, University of Toronto,
60 St George St., Toronto, ON M5S 1A7, Canada Mohamed M. Anbera and Erich Poppitzb
aCentre for Particle Theory, Department of Mathematical Sciences, Durham University,
South Road, Durham DH1 3LE, U.K. bDepartment of Physics, University of Toronto,
60 St George St., Toronto, ON M5S 1A7, Canada E-mail: mohamed.anber@durham.ac.uk, poppitz@physics.utoronto.ca Abstract: We calculate the gaugino condensate in SU(2) super Yang-Mills theory on an
asymmetric four-torus T4 with ’t Hooft’s twisted boundary conditions. The T4 asymmetry
is controlled by a dimensionless detuning parameter ∆, proportional to L3L4 −L1L2, with
Li denoting the T4 periods. We perform our calculations via a path integral on a T4. Its
size is taken much smaller than the inverse strong scale Λ and the theory is well inside the
semi-classical weak-coupling regime. The instanton background, constructed for ∆≪1
in [1], has fractional topological charge Q = 1
2 and supports two gaugino zero modes,
yielding a non-vanishing bilinear condensate, which we find to be ∆-independent. Further,
the theory has a mixed discrete chiral/1-form center anomaly leading to double degeneracy
of the energy eigenstates on any size torus with ’t Hooft twists. In particular, there are two
vacua, |0⟩and |1⟩, that are exchanged under chiral transformation. Using this information,
the ∆-independence of the condensate, and assuming further that the semi-classical theory is
continuously connected to the strongly-coupled large-T4 regime, we determine the numerical
coefficient of the gaugino condensate: ⟨0|trλλ|0⟩= |⟨1|trλλ|1⟩| = 32π2Λ3, a result equal to
twice the known R4 value. We discuss possible loopholes in the continuity approach that
may lead to this discrepancy. Keywords: Anomalies in Field and String Theories, Nonperturbative Effects, Supersym-
metric Gauge Theory Keywords: Anomalies in Field and String Theories, Nonperturbative Effects, Supersym-
metric Gauge Theory ArXiv ePrint: 2210.13568 Open Access, c⃝The Authors. Article funded by SCOAP3. Open Access, c⃝The Authors. Article funded by SCOAP3. https://doi.org/10.1007/JHEP01(2023)118 Contents
1
Introduction
1
1.1
Gaugino condensate: a historical prelude
2
1.2
Gaugino condensate on asymmetric T4: a summary of the procedure and
results
4
1.3
Future directions
7
1.4
Outline
8
2
Fractional instantons on the symmetric torus
9
3
Fractional instantons and gaugino zero modes on the asymmetric torus
13
3.1
Fermion zero modes
15
3.2
Bosonic zero modes
15
4
The path integral: bosonic and fermionic measures
17
4.1
Fermionic measure
17
4.2
Bosonic measure
18
5
The Hamiltonian formalism, Wilson loops, and the moduli space
19
5.1
Pure Yang-Mills theory
19
5.2
SYM theory
22
6
The gaugino condensate
24
A Constructing instantons on the asymmetric T4 with twists
25
A.1 Constructing the self-dual fractional instanton for small ∆
28
A.2 The field strength tensor of the fractional instanton to order ∆
34
A.3 The gauge invariants of the fractional instanton background
36
B Zero modes of the fractional instanton
38
B.1
Leading-order bosonic zero-modes and measure
38
B.2
Fermions and their zero-mode measure
40
B.2.1
No zero modes of D2 = D ¯D on the asymmetric T4
42
B.2.2
The zero modes of D on the asymmetric T4 via the Dirac equation
42
B.2.3
Zero modes of D and ¯D on the symmetric T4
44
B.2.4
The zero modes of D on the asymmetric T4 via supersymmetry
45
B.3
The moduli space metric, to any order in ∆
46
B.3.1
Fermion zero-mode measure to arbitrary order in ∆
46
B.3.2
Bosonic zero-modes and moduli-space metric to any order in ∆
47
B.3.3
The derivatives of the O(
√
∆) solution and the gauge condition
50
B.3.4
The Jacobian and the all-order bosonic measure
54 1
Introduction In practice, the PSU(N) flux is turned on by imposing
twisted boundary conditions on the fields that live on T4. Next, we examine the partition
function Z[PSU(N)] of SYM in this background by performing a Zdχ
2N rotation. We find
Z[PSU(N)] →ei 2π
N Z[PSU(N)], and thus, the theory stops being invariant under the action
of Zdχ
2N once we gauge the 1-form symmetry. This is the sought generalized ’t Hooft anomaly
— a mixed anomaly between the Z(1)
N 1-form symmetry and the Zdχ
2N 0-form discrete chiral
symmetry. The anomaly indicates that the IR theory cannot be trivially gapped. Assuming JHEP01(2023)118 Assuming a gauge theory generates a mass gap in the infrared (IR), one way to match
its ’t Hooft anomalies is via the formation of condensates. A famous example, and the
subject of this paper, is the formation of gaugino condensates in N = 1 SU(N) super
Yang-Mills theory (SYM), which are needed to match a generalized ’t Hooft anomaly. This anomaly can be understood as follows. In addition to the Z(1)
N
1-form symmetry
that acts on the Wilson lines, SYM enjoys a Zdχ
2N 0-form global discrete chiral, or R,
symmetry. We may gauge the 1-form symmetry by turning on a background gauge field
of Z(1)
N , which is done either by coupling SYM to a ZN TQFT [13] or by activating a ’t
Hooft flux [14, 15]. The latter is a field configuration on T4 that carries a fractional flux
B ∈H2(T4, ZN) (i.e. the flux piercing 2-cycles obeys the quantization rule
R
T2⊂T4 B ∈2πZ
N )
and fractional topological charge Q =
1
8π2
R
T4 B ∧B ∈Z
N . In mathematical language, we
consider the PSU(N) ≡SU(N)/ZN bundle instead of the SU(N) bundle. The former has
a non-trivial Brauer class w ∈H2(BPSU(N), ZN) that obstructs the lifting of PSU(N)
to SU(N), and we set B = w. In practice, the PSU(N) flux is turned on by imposing
twisted boundary conditions on the fields that live on T4. Next, we examine the partition
function Z[PSU(N)] of SYM in this background by performing a Zdχ
2N rotation. We find
Z[PSU(N)] →ei 2π
N Z[PSU(N)], and thus, the theory stops being invariant under the action
of Zdχ
2N once we gauge the 1-form symmetry. Contents JHEP01(2023)118 – i – 1
Introduction Strongly coupled gauge theories have been under intense study over the past few years,
thanks to the recent developments of generalized global symmetries [2]. These are operations
that implement the group multiplication laws via topological constructions such that the
symmetry operations are supported on topological surfaces that are robust under small
deformations. An ordinary 0-form symmetry G, which acts on point-like particles, is
implemented by operators supported on co-dimension 1 surfaces. These surfaces obey the
group-multiplication laws via fusion rules and give rise to phases valued in G when they
cross the charged objects. Likewise, a 1-form symmetry acts on 1-dimensional objects
and is implemented via co-dimension 2 surfaces. For example, Wilson lines in 4-D SU(N)
pure or super Yang-Mills theories are charged under Z(1)
N 1-form symmetry. The 1-form
symmetry is implemented via topological 2-dimensional surfaces that obey the ZN group
multiplication laws and give rise to ZN phases when they link with Wilson lines. Like
ordinary 0-form symmetries, 1-form symmetries organize the spectrum of a theory into
representations, satisfy Ward identities, and may become anomalous if one tries to gauge
them. In particular, ’t Hooft anomaly matching conditions (or ’t Hooft anomalies for short),
which impose stringent constraints on quantum field theory (QFT), can be generalized to
include anomalies of 1-form symmetries. Detecting the anomaly in 4-D requires defining a
given QFT on manifolds with nontrivial 2-cycles, the typical example being the 4-torus T4. Generalized ’t Hooft anomalies provide a framework for classifying QFT and its phases. Many recent works entertained this generalized framework to shed light on a plethora of
asymptotically free gauge theories, including vector-like [3–10] and chiral theories [11, 12]. Strongly coupled gauge theories have been under intense study over the past few years,
thanks to the recent developments of generalized global symmetries [2]. These are operations
that implement the group multiplication laws via topological constructions such that the
symmetry operations are supported on topological surfaces that are robust under small
deformations. An ordinary 0-form symmetry G, which acts on point-like particles, is
implemented by operators supported on co-dimension 1 surfaces. These surfaces obey the
group-multiplication laws via fusion rules and give rise to phases valued in G when they
cross the charged objects. Likewise, a 1-form symmetry acts on 1-dimensional objects
and is implemented via co-dimension 2 surfaces. 1
Introduction For example, Wilson lines in 4-D SU(N)
pure or super Yang-Mills theories are charged under Z(1)
N 1-form symmetry. The 1-form
symmetry is implemented via topological 2-dimensional surfaces that obey the ZN group
multiplication laws and give rise to ZN phases when they link with Wilson lines. Like
ordinary 0-form symmetries, 1-form symmetries organize the spectrum of a theory into
representations, satisfy Ward identities, and may become anomalous if one tries to gauge
them. In particular, ’t Hooft anomaly matching conditions (or ’t Hooft anomalies for short),
which impose stringent constraints on quantum field theory (QFT), can be generalized to
include anomalies of 1-form symmetries. Detecting the anomaly in 4-D requires defining a
given QFT on manifolds with nontrivial 2-cycles, the typical example being the 4-torus T4. Generalized ’t Hooft anomalies provide a framework for classifying QFT and its phases. Many recent works entertained this generalized framework to shed light on a plethora of
asymptotically free gauge theories, including vector-like [3–10] and chiral theories [11, 12]. Assuming a gauge theory generates a mass gap in the infrared (IR), one way to match
its ’t Hooft anomalies is via the formation of condensates. A famous example, and the
subject of this paper, is the formation of gaugino condensates in N = 1 SU(N) super
Yang-Mills theory (SYM), which are needed to match a generalized ’t Hooft anomaly. This anomaly can be understood as follows. In addition to the Z(1)
N
1-form symmetry
that acts on the Wilson lines, SYM enjoys a Zdχ
2N 0-form global discrete chiral, or R,
symmetry. We may gauge the 1-form symmetry by turning on a background gauge field
of Z(1)
N , which is done either by coupling SYM to a ZN TQFT [13] or by activating a ’t
Hooft flux [14, 15]. The latter is a field configuration on T4 that carries a fractional flux
B ∈H2(T4, ZN) (i.e. the flux piercing 2-cycles obeys the quantization rule
R
T2⊂T4 B ∈2πZ
N )
and fractional topological charge Q =
1
8π2
R
T4 B ∧B ∈Z
N . In mathematical language, we
consider the PSU(N) ≡SU(N)/ZN bundle instead of the SU(N) bundle. The former has
a non-trivial Brauer class w ∈H2(BPSU(N), ZN) that obstructs the lifting of PSU(N)
to SU(N), and we set B = w. 1.1
Gaugino condensate: a historical prelude Generally speaking, the matching conditions can only provide kinematical constraints and
do not, by themselves yield insights into the details of the IR dynamics of a gauge theory. One needs an extra guide if, at all, there is a hope to understand the dynamics, e.g., the
condensates. Thanks to supersymmetry, such studies are possible in SYM. These date
back to the early eighties [17–21] (see [22–27] for reviews). The condensate calculations are
based on the Belavin-Polyakov-Schwartz-Tyupkin (BPST) instanton calculus [28]: BPST
instantons are (anti) self-dual Yang-Mills configurations that violate the non-renormalization
theorems of SYM and hence, give a non-zero vacuum expectation value to the condensates. On dimensional-analysis grounds one can write ⟨trλ2
16π2 ⟩= cΛ3, where Λ is the strong-coupling
scale and c is a numerical factor. The exact value of c was a controversial issue that caused
many debates in the past. Generally, there are two methods to compute the bilinear gaugino
condensate in 4-D SYM: the strong-coupling and the weak-coupling instanton methods. JHEP01(2023)118 In the first method, we start directly from the 4-D SYM in its strong-coupling regime
and do instanton calculus, as in [17, 18]. A single SU(N) BPST instanton carries integer
topological charge Q ∈Z, and the configuration with the lowest topological charge Q = 1
admits 2N gaugino zero modes. The saturation of the zero modes in the Q = 1 instanton
background gives a nonzero value to the 2N-point function ⟨(trλ2)N⟩, from which one can
naively extract the value of the 2-point function ⟨(trλ2)⟩=
h
⟨(trλ2)N⟩
i1/N. A detailed
calculation, keeping track of all numerical coefficients, gives ⟨(trλ2)⟩= 2((N −1)!(3N −
1))−1/N(16π2Λ3)ei 2πk
N , with k = 0, 1, . . . , N −1. The complex phase results from taking the
Nth root of unity, in accordance with the expectation that the theory admits N distinct
vacua needed to match the generalized ’t Hooft anomaly. In the weak-coupling instanton method, we consider super QCD with N −1 fundamental
flavors Φi, i = 1, . . . , N −1, where Φi is a chiral superfield, and give all the flavors small
masses m. We work in the limit |Φi| ≫ΛQ, where ΛQ is the strong scale in the presence
of quarks. Since there are N −1 flavors, the gauge group fully abelianizes and we are
well inside the weak-coupling regime. 1
Introduction This is the sought generalized ’t Hooft anomaly
— a mixed anomaly between the Z(1)
N 1-form symmetry and the Zdχ
2N 0-form discrete chiral
symmetry. The anomaly indicates that the IR theory cannot be trivially gapped. Assuming – 1 – confinement, the theory breaks its Zdχ
2N symmetry and forms N vacua separated by domain
walls. The order parameter of Zdχ
2N symmetry is the bilinear gaugino condensate ⟨trλ2⟩or
higher-order condensates ⟨(trλ2)n⟩, n > 1 and n mod N ̸= 0. The existence of N vacua is
also in accordance with the Witten index [16]. 1The comparison between the weak-coupling and strong-coupling instanton methods in SU(2) was first
performed in [21], where the correct ratio between the two methods was given. 1.1
Gaugino condensate: a historical prelude The total superpotential of this theory takes the
from W = mi
j ¯ΦjΦi +
Λ2N+1
Q
Det(¯ΦΦ), where the second term is the Affleck-Dine-Seiberg (ADS)
superpotential [20]. The ADS term is nonperturbative in nature and is based on holomorphy
and the symmetry structure of super QCD. It also results from saturating the quarks’
zero modes in the BPST instanton background(the numerical coefficient was obtained1
in [29], and corrected in [30]). Since we are in a weak-coupling limit, the instanton
calculations are reliable. Minimizing the energy, we obtain the supersymmetric vacuum
¯ΦjΦi =
m−1j
i
h
Λ(2N+1)
Q
Detm
i1/N. Finally, we substitute this result back into W to find – 2 – W = N
h
Λ2N+1
Q
Detm
i1/N. We then decouple the quarks by taking m ≫ΛQ, thus, leaving
the weak-coupling regime. Using holomorphy, we can write Weff= NΛ3, where Λ is the
strong scale at the mass threshold, and it exactly coincides with SYM strong scale at the
decoupling limit. Recalling that one can write the holomorphic strong scale as Λ = µeiτ/3N,
with τ =
4πi
g2(µ) and µ is some arbitrary energy scale, and that ⟨trλ2⟩= −16πi∂Weff
∂τ , one
obtains ⟨trλ2⟩= 16π2Λ3ei 2πk
N
in the k-th vacuum.2 Having two different methods that yield two different answers resulted in many debates
in the literature about the validity of both methods. It was earlier understood that the
strong-coupling instanton method is in tension with the cluster decomposition principle
(CDP). Consider the correlator ⟨trλ2(x)trλ2(x′)⟩. In the limit |x −x′| →∞we expect
⟨trλ2(x)trλ2(x′)⟩= ⟨trλ2⟩2. However, since a BPST instanton cannot saturate 2 gaugino
zero modes, one finds ⟨trλ2⟩= 0, contradicting CDP. A possible resolution of this puzzle
was proposed in [32]. It was hypothesized that SYM admits an extra phase with vanishing
bilinear condensate ⟨trλ2⟩= 0 and that averaging over the chirally symmetric and non-
symmetric phases gives the result of the strong-coupling instanton method. This hypothesis
was carefully examined in [33] by considering a softly broken N = 2 Seiberg-Witten theory
down to SYM. It was shown that the chirally-symmetric phase is absent, casting doubt on
the averaging hypothesis. Further considerations in [34] excluded the symmetric vacuum. We also note that the anomaly-matching argument of [35] also precludes such a phase. It
was further shown in [36] that strong-coupling multi-instanton calculations are inconsistent
with CDP. 2The definition of the strong coupling scale we follow in this paper is given by Λ3 = µ3 e−8π2/Ng2
g2
, the
one used in [25, 26, 31].
3The 4-D coupling constant on R3 × S1
L ceases to run at scale ∼1/NL, roughly the W-boson mass.
Taking L ≪(NΛ)−1, we stay in the weakly-coupled regime.
4A SU(N) caloron with a unit topological charge is composed of N monopole instantons. Calorons are
Yang-Mills (anti) self-dual configurations defined on R3 × S1 with integral topological charges and non-trivial
holonomy (the expectation value of the Polyakov’s loop) along S1. A BPST instanton, in contrast, (or more
precisely, the Harrington-Shepard solution [38] defined on R3 × S1) has a trivial holonomy. Calorons were
discovered by Kraan and van Baal [39] using the Atiyah-Drinfeld-Hitchin-Manin (ADHM) construction [40]
and independently by Lee and Yi [41] and Lee and Lu [42] in the context of D-branes. Let L and P be the
size of S1 and the holonomy (in units of 1/L). If LP ≳1, then the monopole constituents are well-separated
in space, and one can make sense of them in a semi-classical treatment, as in the case of SYM on R3 × S1
L.
In particular, in the supersymmetric vacuum, which preserves the 0-form ZN center symmetry of the theory,
the constituent monopoles are of equal action S =
8π2
Ng2 . In the opposite limit, LP ≪1, the monopoles hide
inside the caloron core. 2The definition of the strong coupling scale we follow in this paper is given by Λ3 = µ3 e−8π2/Ng2
g2
, the
one used in [25, 26, 31].
3
3
1 1.1
Gaugino condensate: a historical prelude JHEP01(2023)118 Extra support to the weak-coupling calculations came from studying SYM on R3 × S1
L,
where S1
L is a small spatial circle with circumference L ≪(NΛ)−1, and both gauge fields
and gauginos are given periodic boundary conditions on S1
L [31, 37]. Compactification over a
small circle causes this theory to fully abelianize and enter its weakly-coupled regime.3 The
theory on R3 × S1
L admits monopole-instantons, the microscopic constituents of calorons.4
At the supersymmetric vacuum, the monopoles have topological charges of 1/N. Using the
index theorem, we deduce that a single monopole can saturate 2 gaugino zero modes giving
rise to the bilinear condensate. Detailed calculations give ⟨trλ2
16π2 ⟩= Λ3, the exact same – 3 – result from 4-D weak-coupling instanton calculations. The advantage of the compactified
theory over the 4-D theory at weak coupling is that in the former, one can understand
the dynamics responsible for the condensate formation without relying on the miracle of
holomorphy. As a bonus, the proliferation of the monopoles causes the compactified theory
to generate a mass gap and confine, a result that is prohibitively difficult to understand
in 4-D. The continuity of confinement and condensate between the small and large L limits
may imply that the fractional instantons are responsible for the dynamics on R4, even
though one may not make analytical sense of them in a strongly-coupled setup. The
continuity conjecture was taken seriously over the past decade in supersymmetric and
nonsupersymmetric theories; see [43, 44] for reviews. The conjecture withstood many tests,
but we are still far from a firm conclusion about the role of fractional microscopic objects
in strongly-coupled phenomena. This continuity was mainly tested on R3 × S1
L, and one
wishes to examine whether it holds in other geometries. JHEP01(2023)118 One such geometry is T4, very natural from the point of view of lattice practicalities. Right after ’t Hooft presented his twisted solutions (solutions with twisted boundary
conditions, i.e. PSU(N) bundle solutions, with fractional topological charges) [15], van
Baal studied their mathematical properties [45, 46]. 1.1
Gaugino condensate: a historical prelude Later, it was argued in a series of
works [47–49], see also the review [50], that (anti) self-dual ’t Hooft fractional instantons can
be seen in realistic simulations of 4-D pure Yang-Mills theory and that such configurations
could be utilized to explain confinement.5 Further, it was argued in [53], via extended lattice
simulations, that ’t Hooft fractional instantons on T4 are ultimately connected to monopole
instantons in the infinite 3-volume limit and finite time6 direction. In particular, it was
shown that an exact SU(2) caloron solution with a unit topological charge and equal-action
constituent monopoles (see Footnote 4) can be constructed on the twisted T4 by gluing two
twisted solutions, each carrying Q = 1
2 charge, along the space directions.7 1.2
Gaugino condensate on asymmetric T4: a summary of the procedure and
results 5Even before these studies, a program known as the “femtouniverse” utilized the Hamiltonian formalism
on R × T3, to study Yang-Mills theories at small volumes [51]; see [52] for a review.
6Notice that these are simulations in pure Yang-Mills theory, and thus, unlike SYM, there is no distinction
between thermal and spatial circles.
7In fact, there is an obstruction to the existence of Q = 1 (anti) self-dual caloron on T4 with untwisted
boundary conditions [54]. Yet, in practice, one can find a very good approximate self-dual solution even in
the absence of twists.
8We interchangeably use the term “’t Hooft flux background” and “’t Hooft twists.” The latter is more
precise, since it refers to the twist of the boundary conditions, which does not always lead to nonzero “flux,”
i.e. nonzero gauge field strength. Whether such field strength is present or not is a dynamical issue, see
e.g. [16]. We hope that our abuse of terminology does not lead to confusion. 8We interchangeably use the term “’t Hooft flux background” and “’t Hooft twists.” The latter is more
precise, since it refers to the twist of the boundary conditions, which does not always lead to nonzero “flux,”
i.e. nonzero gauge field strength. Whether such field strength is present or not is a dynamical issue, see
e.g. [16]. We hope that our abuse of terminology does not lead to confusion. 5Even before these studies, a program known as the “femtouniverse” utilized the Hamiltonian formalis
on R × T3, to study Yang-Mills theories at small volumes [51]; see [52] for a review. 6Notice that these are simulations in pure Yang-Mills theory, and thus, unlike SYM, there is no distincti
between thermal and spatial circles.
7
4 7In fact, there is an obstruction to the existence of Q = 1 (anti) self-dual caloron on T4 with untwisted
undary conditions [54]. Yet, in practice, one can find a very good approximate self-dual solution even in
e absence of twists. 1.2
Gaugino condensate on asymmetric T4: a summary of the procedure and
results The possible connection between ’t Hooft’s solutions and monopole-instantons [53] calls for
a serious examination of this finding. Since both the R3 × S1
L monopole-instanton and 4-D
weak-coupling instanton methods give the same gaugino condensate, one wonders whether
the same result can be obtained in the ’t Hooft flux background.8 This is especially timely
after the advent of the new generalized anomalies, which can be easily detected when – 4 – a QFT is put on T4 with a PSU(N) bundle (or ’t Hooft twisted boundary conditions). Recently, Ünsal advocated that a refinement of the instanton sum in the partition functions
of SU(N) theories has to be considered: while fractional instantons of PSU(N) bundles
contribute to observables like the gaugino condensate and vacuum energy, the sum over
the fractional objects has to be constrained to yield the integer topological charges of the
SU(N) bundle [55] (see also [52] for an earlier assertion). In this paper, we put this proposal under scrutiny and perform detailed calculations of
the gaugino condensate on T4 and a PSU(2) bundle.9 Our conclusion is that the condensate
in any of the two vacua is given by ⟨0|trλ2|0⟩= |⟨1|trλ2|1⟩| = 32π2Λ3, with a coefficient
that is twice that obtained via the weak-coupling instanton method on R4 and the semi-
classical calculations on R3 × S1
L. The extra factor of 2 is unexpected and calls for further
serious examinations of the role of the PSU(N) bundles in SU(N) gauge theories and of
the continuity conjecture. JHEP01(2023)118 The calculations that lead to this puzzling result are surprisingly rich. The simplest
SU(2) pure Yang-Mills (i.e. Yang-Mills equations with zero source) fractional instanton with
topological charge Q = 1
2 and action S0 = 4π2
g2 was constructed by ’t Hooft in his seminal
work [15]. This solution is abelian in nature, i.e. the gauge field components are along
the Cartan direction. The solution must be (anti) self-dual, otherwise, the fluctuations in
this background will have negative modes signaling instability. Let L1, L2, L3, L4 be the
lengths of the periods in T4. Then, the self-duality of the abelian solution is guaranteed if
and only if L1L2 = L3L4. We dub the T4 that obeys this relation as the self-dual torus,
the simplest one being the symmetric T4 with L1=L2=L3=L4. 9The gaugino condensate on a symmetric T4 in the background of ’t Hooft flux was first considered long
ago in [56]. These calculations were solely based on supersymmetry transformations along with dimensional
analysis, and no attempt to determine the numerical coefficient was made. 1.2
Gaugino condensate on asymmetric T4: a summary of the procedure and
results Given the simplicity of the
abelian solution on the symmetric T4, one is tempted to use it as a source for the gaugino
condensate. According to the index theorem, this background must saturate 2 gaugino zero
modes. Nevertheless, the direct solution of the Dirac equation yields 6 zero modes (four
“undotted” and two “dotted” ones). To make things worse, the extra zero modes source the
super Yang-Mills equations of motion, hinting that such an abelian solution might not be a
consistent background. The resolution of both puzzles could have been achieved had we
been able to show that higher-order corrections (including loops) lift the extra gaugino zero
modes. Although we believe that this should be the case, we were not able to show it in a
satisfactory way. In order to circumvent this difficulty, we chose to depart from the symmetric self-dual
to the non-self-dual torus. This is both a blessing and a curse. The curse is the technical
difficulty of the problem, while the blessing is that the asymmetric torus enables us to
take various interesting limits, e.g. R × T3 and R2 × T2. If the relation L1L2 = L3L4 is
violated, the abelian solution must be modified to include non-abelian pieces, ensuring
that the solution persists to be (anti) self-dual. To date, there exists no analytical solution
with Q = 1
2 on T4 with arbitrary shape. However, a systematic procedure to deal with
non-self-dual tori was developed in [1]. This method gives an approximate analytical – 5 – self-dual solution, with charge |Q| = 1
2 and action S0 = 4π2
g2 , as an expansion in a “detuning”
parameter ∆≡(L3L4 −L1L2)/√L1L2L3L4 measuring the deviation from a self-dual T4. Solving the Dirac equation on a small asymmetric T4 with ∆≪1 and limiting our
explicit treatment to the lowest order in ∆, we find exactly 2 gaugino zero modes as per the
index theorem. We also verified that the explicit solutions of the fermion zero modes are
consistent with supersymmetry transformations. These modes do not source the Yang-Mills
equations of motion, implying that our approximate solution is a consistent background. The gauge field fluctuations admit 4 bosonic zero modes (also in accordance with the index
theorem), interpreted as translational moduli. Supersymmetry guarantees the cancelation
between the bosonic and fermionic excited states, leaving only the bosonic and fermion zero
mode integrals to deal with. 10Effectively, a Wilson loop measures the Z2 flux of the twisted solution. 1.2
Gaugino condensate on asymmetric T4: a summary of the procedure and
results JHEP01(2023)118 The contributions of zero modes to the path integral are taken into account using the
method of collective coordinates, and therefore, we need to integrate over the moduli space
M. To correctly identify the shape and size of M, we carefully examine all gauge invariant
observables in the background of the fractional instanton on T4. This includes both local
gauge-invariant densities and Wilson loops. While gauge-invariant densities are invariant
under translations over a period on T4, a Wilson loop acquires a Z2 phase.10 Therefore,
we find M ∼T4 with double the periods of the physical torus to account for the gauge
inequivalent classes. This result is further supported by investigating the Hamiltonian
formalism of the theory. Interestingly, the metric on M is found to be proportional to the
background action and is, hence, independent of ∆. Putting the pieces together, we finally
obtain ⟨trλ2⟩= 64π2Λ3, with a coefficient four times the expected number on R4. To understand the significance of this result, we need to interpret the expectation
value ⟨trλ2⟩using the Hamiltonian formalism. Due to the mixed discrete chiral/one-form
center anomaly, the energy eigenstates are doubly degenerate in the background of a ’t
Hooft flux on any torus size: there are 2 vacua that are exchanged under the operation of
chiral transformation, which explains the extra factor of 2, while the relative phase in the
condensate in the two vacua is compensated by the ’t Hooft twist in the Euclidean time
direction [57]. Thus, restricting the condensate to one vacuum, upon taking the limit of
large T4, we obtain ⟨0|trλ2|0⟩= |⟨1|trλ2|1⟩| = 32π2Λ3. This coefficient is twice the known
value on R4 (using the weak-coupling instanton method) or on R3 × S1
L. We emphasize that our calculations are performed on a small T4, compared to the
strong scale of the theory, and thus, we are well inside the semi-classical regime. The
calculations in this regime are under analytic control, thanks to the smallness of the coupling
constant. However, to make a connection to the result on R4, we made a few assumptions. The invalidation of any of these assumptions can explain the discrepancy between our result
and the expected one. We now list the assumptions that led to our result: 1. We assume that there is a unique fractional instanton on the asymmetric T4 with
topological charge Q = 1
2. 1.2
Gaugino condensate on asymmetric T4: a summary of the procedure and
results This solution is nonabelian in nature and is obtained
from ’t Hooft’s abelian solution on a symmetric T4 as an expansion in the detuning 1. We assume that there is a unique fractional instanton on the asymmetric T4 with
topological charge Q = 1
2. This solution is nonabelian in nature and is obtained
from ’t Hooft’s abelian solution on a symmetric T4 as an expansion in the detuning – 6 – parameter ∆[1]. However, we were not able to prove the uniqueness11 of the solution. Instead, we rely on the numerical evidence in [1]. parameter ∆[1]. However, we were not able to prove the uniqueness11 of the solution. Instead, we rely on the numerical evidence in [1]. 2. Another lingering issue is the radius of convergence of the expansion, which is yet
to be understood. Although our final result does not depend on ∆, one needs to be
cautious when interpreting the result. In order to interpret the result and compare
with the condensate on R4, we had to make use of the Hamiltonian formalism. Here,
first, one puts the theory on a small spatial torus T3, with a ’t Hooft twist, and
with periods of length L ≪Λ−1, and then takes the limit of a large Euclidean time
direction, L4 ≫Λ−1. This is the limit ∆∼
q
L4
L ≫1, well outside the small-∆regime
used to compute the condensate. 2. Another lingering issue is the radius of convergence of the expansion, which is yet
to be understood. Although our final result does not depend on ∆, one needs to be
cautious when interpreting the result. In order to interpret the result and compare
with the condensate on R4, we had to make use of the Hamiltonian formalism. Here,
first, one puts the theory on a small spatial torus T3, with a ’t Hooft twist, and
with periods of length L ≪Λ−1, and then takes the limit of a large Euclidean time
direction, L4 ≫Λ−1. This is the limit ∆∼
q
L4
L ≫1, well outside the small-∆regime
used to compute the condensate. JHEP01(2023)118 3. After taking ∆large, one needs to take the size of the remaining T3 periods beyond the
inverse strong-coupling scale. Thus, we necessarily leave the semi-classical regime, yet
we assume no extra instantons contribute to the condensate in this limit. p
12The definition of a self-dual torus in SU(N) is different from the SU(2) case [15]. 11To avoid possible confusion, we note that the series in ∆determines a unique self-dual configuration for
fixed values of the moduli (see the proof in appendix A.1, near eq. (A.31)). The possibility of non-uniqueness
mentioned here refers to existence of a genuinely nonabelian Q = 1
2 solution not connected to ’t Hooft’s
abelian solution. The numerical study of [1] appears to support uniqueness in this sense, but does not
constitute a proof. 1.2
Gaugino condensate on asymmetric T4: a summary of the procedure and
results (However,
we can not help but note that this is similar, at least in spirit, to the extrapolation of
the R3 × S1
L semiclassical calculation of the gaugino condensate to R4.) 4. In carrying out our calculations, we assume that quantum corrections due to bosonic,
fermionic, and ghost fluctuations cancel exactly in our supersymmetric background, to
all loop orders, and for arbitrary T4 size. Although the cancellation of the determinants
to any loop order is well-established in R4, one may need to examine this assumption
more carefully in the fractional instanton background of T4. In view of the above discussion, in the bulk of the paper, we present our calculations in
sufficient detail to help the interested readers follow all numerical factors and enable them
to dwell on the procedures used — and on improving the interpretation of our result. 1.3
Future directions This situation is different
from the calculations on R3 × S1
L, where a monopole-instanton always supports 2 zero
modes for all gauge groups, even those with no center symmetry. Therefore, at first, it
is not clear how the twists and monopoles are connected. Investigating this problem
is important for the continuity program. Spin(2N) has a Z4 or a Z2 × Z2 center group depending on whether N is odd or even. Owing to the small centers, ’t Hooft fluxes (or fractional instantons) of these groups
will, in general, support more than 2 gaugino zero modes. This situation is different
from the calculations on R3 × S1
L, where a monopole-instanton always supports 2 zero
modes for all gauge groups, even those with no center symmetry. Therefore, at first, it
is not clear how the twists and monopoles are connected. Investigating this problem
is important for the continuity program. 3. It is also interesting to carry out our procedure to higher orders in ∆. The convergence
of the series in ∆may shed more light on the problem of continuity. In this regard, we
note that the closely related work [59] in the two-dimensional abelian Higgs model was
able to carry the ∆-expansion to 51-st order, with the results indicating convergence
to the infinite volume limit. JHEP01(2023)118 4. Another interesting geometry is to consider SYM on T2×R2 with a ’t Hooft flux turned
on T2. This setup was considered previously in [60]. It was shown via dimensional
reduction from T2 ×R2 to R2 that the theory admits ZN vortices and that the gaugino
condensate forms in the 2-D effective theory ⟨trλ2⟩∼Λ3, as expected. However, the
authors did not attempt to compute the numerical coefficient of the condensate. Such
a calculation would mandate a more careful treatment of the dimensionally reduced
2-D theory, presumably using the power of supersymmetry. We also note that T2 × R2
is the limiting geometry of our asymmetric T4 after taking ∆to infinity. 1.3
Future directions Here, in lieu of a conclusion, we point out that our study warrants a few expansion direction 1. An immediate step would be generalizing the SU(2) result to SU(N ≥3). Self-dual
instantons with topological charge
1
N , N ≥3, are necessarily non-abelian solutions
of Yang-Mills equations [15]. This makes the treatment more involved, especially as
we deviate from the self-dual torus.12 Fortunately, a systematic analysis to deal with
this problem, a generalization of the method in [1], appeared in [58]. One can follow
the same line of thought in our work to compute the condensate in SU(N). 2. It is tempting to study the condensates in other gauge groups, e.g., Sp(N) and
Spin(2N) groups. These groups have small center groups: Sp(N) has a Z2 and 2. It is tempting to study the condensates in other gauge groups, e.g., Sp(N) and
Spin(2N) groups. These groups have small center groups: Sp(N) has a Z2 and – 7 – Spin(2N) has a Z4 or a Z2 × Z2 center group depending on whether N is odd or even. Owing to the small centers, ’t Hooft fluxes (or fractional instantons) of these groups
will, in general, support more than 2 gaugino zero modes. This situation is different
from the calculations on R3 × S1
L, where a monopole-instanton always supports 2 zero
modes for all gauge groups, even those with no center symmetry. Therefore, at first, it
is not clear how the twists and monopoles are connected. Investigating this problem
is important for the continuity program. Spin(2N) has a Z4 or a Z2 × Z2 center group depending on whether N is odd or even. Owing to the small centers, ’t Hooft fluxes (or fractional instantons) of these groups
will, in general, support more than 2 gaugino zero modes. This situation is different
from the calculations on R3 × S1
L, where a monopole-instanton always supports 2 zero
modes for all gauge groups, even those with no center symmetry. Therefore, at first, it
is not clear how the twists and monopoles are connected. Investigating this problem
is important for the continuity program. Spin(2N) has a Z4 or a Z2 × Z2 center group depending on whether N is odd or even. Owing to the small centers, ’t Hooft fluxes (or fractional instantons) of these groups
will, in general, support more than 2 gaugino zero modes. 1.4
Outline Our paper is organized as follows: In section 2, we formulate the theory and spell out all the necessary ingredients to
define the partition function and the condensate on T4 with twisted boundary conditions. Further, we explain that a self-dual torus gives rise to extra, unexpected, zero modes. Then, we present the solution on the asymmetric T4 in section 3 and discuss both the
fermion and bosonic zero modes. In section 4, we calculate the measures of the bosonic
and fermion zero modes. In section 5, we deviate to the Hamiltonian formalism to discuss
two important aspects. First, we argue that the moduli space of the bosonic zero modes is
isomorphic to T4 with a period size twice the size of the physical period. Next, we recall
that the 0-form/1-form mixed anomaly implies that the energy eigenstates on T3 are doubly
degenerate and the theory admits 2 degenerate vacua. These features are important for the
interpretation of our calculation of the gaugino bilinear. Finally, in section 6, we put all the
pieces together to obtain our result of the gaugino condensate. Owing to the mismatch between our and both R4 and R3 × S1
L results for the gaugino
condensate, and in order to offer the reader the opportunity to catch mistakes, if any, we
present our rather detailed calculations of various quantities in two appendices. In appendix A, we review in great detail the construction of [1] of the fractional
instanton to order ∆, with emphasis on the dependence on the collective coordinates. We
also provide expressions of the field strengths and Wilson loops in the background of the
leading-order solution. – 8 – In appendix B, we construct the fermion zero modes by directly solving the Weyl
equation as well as by using supersymmetry transformation, and we prove that both
methods yield the same result. Then, we construct the bosonic zero modes to any order
in ∆, first by employing the fermionic zero modes and then by taking derivatives of the
classical background solution w.r.t. the collective coordinates modulo gauge transformation
(we also determine these gauge transformations). Finally, we determine the Jacobian of the
bosonic zero modes moduli space needed to complete the calculations. 13The Euclidean action, supersymmetry transformations, and the matrices σn, ¯σn, σmn, ¯σmn, are as
in [25], except that we use hermitean gauge fields, necessitating the replacement Athat ref. = iAthis paper. See
also appendices A.1 and B.2. 2
Fractional instantons on the symmetric torus The periodicity condition on the gauge fields and gaugino in R4 defines the – 9 – T4 fields: A(x + ˆenLn) = Ωn(x)(A(x) −id)Ω−1
n (x),
n = 1, 2, 3, 4,
∀x ∈R4,
λ( + ˆ L )
Ω( )λ( )Ω−1( ) A(x + ˆenLn) = Ωn(x)(A(x) −id)Ω−1
n (x),
n = 1, 2, 3, 4,
∀x ∈R4,
λ(x + ˆenLn) = Ωn(x)λ(x)Ω−1
n (x) , (2.6) where we denoted A(x) =
4P
n=1
An(x)dxn. Let the SU(2) non-abelian field Φ denote either
the gauge field or the gaugino and expand Φ using the Cartan-Weyl basis: Φ(x) = Φ3 τ 3
2 + Φ+τ + + Φ−τ −. (2.7) (2.7) JHEP01(2023)118 The Pauli matrices τ 3, τ ± are the generators of SU(2) in this basis. Using the commutation
relations [τ 3, τ ±] = ±τ 3, [τ +, τ −] = τ 3 along with the Baker-Campbell-Hausdorffformula,
one finds that the boundary conditions on Φ are satisfied if and only if: The Pauli matrices τ 3, τ ± are the generators of SU(2) in this basis. Using the commutation
relations [τ 3, τ ±] = ±τ 3, [τ +, τ −] = τ 3 along with the Baker-Campbell-Hausdorffformula,
one finds that the boundary conditions on Φ are satisfied if and only if: Φ3(xi + Li) = Φ3(x) + I ,
Φ±(x1 + L1, x2, x3, x4) = Φ±(x1, x2, x3, x4) ,
Φ±(x1, x2 + L2, x3, x4) = e∓i 2πx1
L1 Φ±(x1, x2, x3, x4) ,
(2.8) (2.8) where I is a nonhomogeneous term that contributes to the gauge field and appears upon
shifting the x2 coordinate: A3
n(x + ˆe2L2) = A3
n(x) + 2π
L1 δn,1. Similar boundary condi-
tions hold in the 3–4 plane. As we shall show, there is a classical solution to the equa-
tions of motion (2.3), which satisfies the boundary conditions (2.8) and has a topological
charge Q = 1
2. 2
The Euclidean partition function of our system is given by the path integral: ZSYM[n12 = 1, n34 = 1] =
X
ν∈Z
Z
[DAµ][Dλ][D¯λ]e−SSYM−i(ν+ 1
2 )θ|n12=1,n34=1 ,
(2.9) (2.9) where we have emphasized that this path integral is to be computed with the twists in the
1–2 and 3–4 plane, as per the transition functions (2.4), and thus, all the fields need to
satisfy the boundary conditions (2.8). 14If ν ̸= 0, the transition functions (2.4) (but not the cocycle conditions (2.5)) have to be appropri-
ately modified. 2
Fractional instantons on the symmetric torus JHEP01(2023)118 We consider the SU(2) SYM theory on T4 with periods of lengths L1, L2, L3, L4. The
Euclidean action of the theory is given by13 SSYM = 1
g2
Z
T4 tr
1
2FmnFmn + 2
∂n¯λ ˙α + i[An, ¯λ ˙α]
¯σ ˙αα
n λα
,
(2.1) (2.1) and λ is a left-handed adjoint Weyl fermion, the gaugino. Dn = ∂n + i[An, ] is the covariant
derivative, σn ≡(i⃗σ, 1), ¯σn ≡(−i⃗σ, 1), ⃗σ are the Pauli matrices, and the Latin letters n, m
run over 1, 2, 3, 4. The field strength is given by Fmn = ∂mAn −∂nAm + i[Am, An]. This
action is invariant under the supersymmetry transformations δAn = ζα σn α ˙α ¯λ ˙α+¯ζ ˙α ¯σ ˙αα
n λα ,
δλα = −σ
β
mn α ζβ Fmn ,
δ¯λ ˙α = −¯σ
˙α
mn
˙β ¯ζ
˙β Fmn ,
(2.2) δAn = ζα σn α ˙α ¯λ ˙α+¯ζ ˙α ¯σ ˙αα
n λα ,
δλα = −σ
β
mn α ζβ Fmn ,
δ¯λ ˙α = −¯σ
˙α
mn
˙β ¯ζ
˙β Fmn , (2.2) where the spinors obey ξ1 = ξ2, ξ2 = −ξ1 and likewise for the dotted ones. The equations
of motion that result from the variation of SSYM are (DmFmn)A = −i tr ¯λ¯σn[T A, λ] ,
¯σ ˙αα
n DnλA
α = 0 ,
σn α ˙αDn¯λA ˙α = 0,
(2.3) (2.3) where A = 1, 2, 3 labels the color group generators T A = τ A/2 with τ A the Pauli matrices. We shall consider SYM with twisted boundary conditions on T4. Without loss of generality,
we can use the following transition functions: Ω2(x) = e−i2π x1
L1
τ3
2 ,
Ω4(x) = e−i2π x3
L3
τ3
2 ,
while Ω1 = Ω3 = 1. (2.4) (2.4) Ω2 and Ω4 implement the twists along the x2 and x4 directions, while the transition
functions along the x1 and x3 directions are trivial. The transition functions obey the
cocycle conditions Ωi(x + Ljˆej) Ωj(x) = eiπnijτ3 Ωj(x + Liˆei) Ωi(x),
i, j = 1, 2, 3, 4,
∀x ∈R4,
(2.5) (2.5) where ˆen is a unit vector in the xn direction, n12 = n34 = −n21 = −n43 = 1, and the rest of
nij are zeros. 2
Fractional instantons on the symmetric torus Notice that one also needs to sum over the integer
topological sectors ν ∈Z in order for ZSYM to respect locality and unitarity.14 The vacuum
angle θ can be transformed away by applying an axial rotation on the gauginos. Our main
aim is to find the bilinear gaugino condensate starting from (2.9). The solution of ZSYM, as well as the condensate, will proceed by using the semi-classical
techniques, which amount to computing the path integral as the sum of paths of small
fluctuations in the background of instantons. The semiclassical approach is justified in the
limit of small volume. Notice, however, that this partition function vanishes identically, which can be under-
stood in two different ways. First, as we shall show, the theory exhibits 2 fermion zero
modes. These are the zero modes that are saturated in the twisted background and give – 10 – rise to the fermion condensate. We can also argue that ZSYM = 0 because of the mixed
anomaly between the 0-form discrete chiral and 1-form center symmetries, as was previously
shown in [57]. The gaugino condensate calculations can proceed by inserting the gaugino bilinear
tr λλ in the path integral (2.9), where the trace is taken in the color space. We define the
expectation value of the gaugino condensate as: ⟨tr λλ⟩= N −1 X
ν∈Z
Z
[DAµ][Dλ][D¯λ] tr λλ e−SSYM−i(ν+ 1
2 )θ|n12=1,n34=1 ,
(2.10) (2.10) with normalization constant N. Only the ν = 0 sector (in the presence of the twists) can
contribute to the bilinear condensate, and thus, we restrict our calculations to this sector. The standard way of normalizing the expectation value of an operator is to divide by the
partition function. Since ZSYM = 0, we need to search for another appropriate way to
normalize our physical observables. We choose to divide by the partition function with
twists only in the 1–2 plane. Explicitly, JHEP01(2023)118 N =
X
ν∈Z
Z
[DAµ][Dλ][D¯λ] e−SSYM−iνθ|n12=1 . (2.11) (2.11) This partition function is saturated by the ν = 0 term. In the small-T4 limit, it can be
evaluated using a semiclassical expansion around two zero-action classical saddle point
configurations, related by the Z2 center symmetry in the x3 direction, generated by the
“improper gauge transformation” T3. In a gauge with constant transition functions15 in the
x1-x2 plane, these saddle points are A = 0 and A = −iT3dT −1
3
[16]. 15These zero-action configurations can also be exhibited in a gauge where Ω2 is as in (2.4), with Ω1,3,4 = 1,
but details are to be given elsewhere. 2
Fractional instantons on the symmetric torus Each of these saddle
points gives an identical contribution to N. There are no zero modes (see [61] for calculations
of the spectrum) and all determinants, fermionic and bosonic, are the ones computed in the
A = 0 background (we note that this is the normalization of instanton transition amplitudes
already taken in [62]). The partition function (2.11), up to a normalization factor that is
expected to cancel the numerical factor in the numerator of (2.10), is equal to the Witten
index Tr[(−1)F ], which counts the number of the ground states. Thus, we take N = 2. See
section 5 for a Hamiltonian treatment. As a first trial, let us find a self-consistent Q = 1/2 fractional-instanton solution to the
equations of motion (2.3) with the boundary conditions (2.8). It is easy to see that the
abelian gauge configuration: ¯A3
1 = 2πx2
L1L2
+ z1
L1
,
¯A3
2 = z2
L2
,
¯A3
3 = 2πx4
L3L4
+ z3
L3
,
¯A3
4 = z4
L4
,
(2.12) (2.12) obeys (2.8). The bar is introduced here to serve a later convenience, and the constants
zm are the collective coordinates, which will be set to zero in this section without loss
of generality. This field configuration was first found by ’t Hooft, and it solves the Pure
Yang-Mills equations DmFmn = 0, owing to its abelian nature and constant field strength. 15These zero-action configurations can also be exhibited in a gauge where Ω2 is as in (2.4), with Ω1,3,4 = 1,
but details are to be given elsewhere. – 11 – It carries a topological charge Q = 1
2 and its action is half the action of a BPST instanton:
S = S0 ≡4π2
g2 . This solution must be self-dual or anti-self-dual, Fmn = ±1
2ϵmnpqFpq, which
guarantees that the bosonic and fermionic determinants in this background do not yield
negative zero modes, a sign of instability of the solution on T4. Self-duality of the Q = 1/2
solution (2.12) implies the condition L1L2 = L3L4 . (2.13) (2.13) A torus that satisfies the relation (2.13) is said to be self-dual, and a simple choice that
satisfies the condition (2.13) is the symmetric torus with L1 = L2 = L3 = L4. The classical
solution (2.12) will also hold in SYM provided that the right-hand side of the first equation
in (2.3) vanishes. 16For completeness, we note that an analogous problem occurs with the bosonic zero modes around the
solution (2.12) on the self-dual torus: there are 8 (four real and two complex), rather than 4, bosonic zero
modes, as was shown long ago by van Baal [46]. We also stress that the existence of the four undotted
and two dotted fermionic zero modes (2.14) is consistent with the index theorem, which only determines
their difference. 2
Fractional instantons on the symmetric torus To check that, we first need to solve the Weyl equations (second and third
equations in (2.3)) in the background (2.12), along with the boundary conditions (2.8). We
find 6-independent zero modes: 4 modes for λ and 2 modes for ¯λ: JHEP01(2023)118 λ = τ 3
2
"
ξ1
ξ2
#
+
∞
X
n1,n3=−∞
e−i2π(n1
x1
L1 +n3
x3
L3 )h12
0 (x2 −n1L2) h34
0 (x4 −n3L4)τ +
"
0
ξ3
#
+
∞
X
n1,n3=−∞
ei2π(n1
x1
L1 +n3
x3
L3 )h12
0 (x2 −n1L2) h34
0 (x4 −n3L4)τ −
"
ξ4
0
#
,
¯λ = τ 3
2
"
ξ5
ξ6
#
,
(2.14) ¯λ = τ 3
2
"
ξ5
ξ6
#
, ξ5
ξ6
#
,
(2.14) (2.14) where ξi are Grassmann numbers. The functions h12
0 and h34
0 are the ground eigenstates
of the simple harmonic oscillator, of frequencies ω12 =
2π
L1L2 and ω34 =
2π
L3L4 , respectively;
see appendices A.1 and B.2.3. Owing to the abelian nature of the classical background,
the Weyl equation yields the solutions in the τ 3 directions. Substituting the fermion zero
mode solutions into the right-hand side of the bosonic equation of motion in (2.3), one
easily finds that the source term is nonzero. This simple exercise shows that the abelian
background (2.12) is either inconsistent or that some gaugino zero modes must be lifted
by higher-order corrections in order to have tr¯λ¯σn[T A, λ] = 0. Presumably, higher-order
corrections will gap 4 of the fermion zero modes, and in the end, we will have a consistent
story. We were not able to show that this is the case in a satisfactory way.16 Instead, we chose to detune the self-dual torus, i.e., to relax the condition L1L2 = L3L4,
and modify the abelian background to include non-abelian pieces that are needed to
guarantee the self-duality of the fractional instanton on an asymmetric T4. The detuned
solution does not suffer from any of the above-mentioned problems. A further motivation
for considering the asymmetric T4 connects to interesting semiclassical limits that have
been considered. – 12 – 3
Fractional instantons and gaugino zero modes on the asymmetric torus Fractional instantons and gaugino zero modes on the asymmetric torus In order to circumvent the problems of the self-dual T4, we instead search for a self-dual
instanton on an asymmetric torus using a perturbation technique introduced in [1]. The
gauge field An can be written in the general form Acl
n (x, z) =
¯A3
n(x, z) + Sn(x, z)
τ 3
2 + Wn(x, z)τ + + W ∗
n(x, z)τ −,
(3.1) (3.1) where we have split the τ 3 component into two parts. The first part ¯A3
n(x, z) is the abelian
background (2.12) that solves the sourceless Yang-Mills equations on the symmetric T4. The functions Sn(x, z) and Wn(x, z) will be determined perturbatively. We also introduce
the dimensionless detuning parameter ∆≡(L3L4 −L1L2) /√L1L2L3L4, which measures
the deviation from the self-dual torus, and take ∆> 0. The solution of the sourceless Yang-
Mills equations on the asymmetric T4 is obtained by imposing the self-duality condition
Fmn = 1
2ϵmnpqFpq, where ϵ1234 = 1, etc. In order to reduce the gauge redundancy, one also
imposes the background gauge condition ∂nAcl
n + i[ ¯An, Acl
n ] = 0. JHEP01(2023)118 The details of the construction of the self-dual solution in an expansion in powers of ∆
is given in appendix A.1. The presentation there follows [1] but for completeness we present
it in detail using our notation, with an emphasis on the dependence of the solution of the
zn variables. Here, we only give an idea of the construction of the fractional instanton and
present its main features. To simplify the equations, it is convenient to use a quaternion
notation. Thus, we introduce the matrices: w = σnWn ,
wc = Cw∗C ,
s = σnSn ,
(3.2)
2)
¯σn = (σn)† and C =
0 −i
! Self-duality and the background w = σnWn ,
wc = Cw∗C ,
s = σnSn ,
(3.2)
where σn = (i⃗σ, 12×2), ¯σn = (σn)† and C =
0 −i
i 0
! . Self-duality and the background
gauge conditions (see (A.12)) then yield the following equations: w = σnWn ,
wc = Cw∗C ,
s = σnSn ,
(3.2) (3.2) where σn = (i⃗σ, 12×2), ¯σn = (σn)† and C =
0 −i
i 0
! . 3
Fractional instantons and gaugino zero modes on the asymmetric torus Self-duality and the backgroun
gauge conditions (see (A.12)) then yield the following equations: where σn = (iσ, 12×2), σn = (σn)† and C =
i 0
! . Self-duality and the background
gauge conditions (see (A.12)) then yield the following equations: ¯σn∂ns = 2π∆
√
V
iτ 3 −i
w†
cwc −w†w
,
¯σn
∂n + i ¯A3
n
w = −i
2
s†w −w†
cs
. (3.3) (3.3) These equations are subject to the boundary conditions (2.8). The solutions to (3.3) is
found as series expansions in
√
∆: w = ∆1/2
∞
X
j=0
wj∆j ,
s =
∞
X
j=1
sj∆j . (3.4) (3.4) The symmetry structure of the self-duality equations (3.3), as well as their solution to
the leading order in ∆, is discussed in appendix A.1. The final answer for the fractional
instanton solution, giving the order
√
∆terms in (3.1), reads: The symmetry structure of the self-duality equations (3.3), as well as their solution to
the leading order in ∆, is discussed in appendix A.1. The final answer for the fractional
instanton solution, giving the order
√
∆terms in (3.1), reads: W1(x, z, α) = −i
2
√
∆F(x, z)eiα
√
2π
V 1/4 + O(∆3/2)
W2(x, z, α) = 1
2
√
∆F(x, z)eiα
√
2π
V 1/4 + O(∆3/2) = iW1 + O(∆3/2),
W3 = O(∆3/2) ,
W4 = O(∆3/2) ,
Sn = O(∆) . (3.5) (3.5) – 13 – – 13 – We stress that the O(∆) contribution to Sn is determined by the O(
√
∆) terms shown
above, in a manner described in appendix A.1, but explicit expressions will not be needed. The arbitrary phase α is due to the gauge freedom to rotate around the τ 3 isospin direction,
and the function F(x, z) is given by the expression: We stress that the O(∆) contribution to Sn is determined by the O(
√
∆) terms shown
above, in a manner described in appendix A.1, but explicit expressions will not be needed. 3
Fractional instantons and gaugino zero modes on the asymmetric torus The arbitrary phase α is due to the gauge freedom to rotate around the τ 3 isospin direction,
and the function F(x, z) is given by the expression: F (x, z) =
p
L2L4
∞
X
n1,n3=−∞
e
−i2π
n1
x1
L1 +n3
x3
L3
e−i z2
L2 (x2−n1L2)−i z4
L4 (x4−n3L4)
× h12
0
x2 −
n1 −z1
2π
L2
h34
0
x4 −
n3 −z3
2π
L4
,
(3.6) (3.6) JHEP01(2023)118 with the normalization
R
T4 |F|2 = Q4
i=1 Li = V . The functions h12,34
0
are the same harmonic
oscillator ground state wave functions appearing in eq. (2.14) and described there. It remains to check that this solution obeys the equations of motion (2.3), and in
particular, that the fermionic source in the bosonic equation of motion vanishes identically. To this end, we need to find the fermion zero modes, which we do in section 3.1. For
this purpose, we will need to use the field strength, a computation carried out in detail in
appendix A.2. We find that to order O(
√
∆): F12 =
2π
L1L2
,
F34 =
2π
L3L4
,
F13 = −iγ∗eiα
s
2π
2L3L4
G(x, z)τ + + iγe−iα
s
2π
2L3L4
G∗(x, z)τ −,
F14 = γ∗eiα
s
2π
2L3L4
G(x, z)τ + + γe−iα
s
2π
2L3L4
G∗(x, z)τ −,
(3.7) F13 = −iγ∗eiα
s
2π
2L3L4
G(x, z)τ + + iγe−iα
s
2π
2L3L4
G∗(x, z)τ −,
F14 = γ∗eiα
s
2π
2L3L4
G(x, z)τ + + γe−iα
s
2π
2L3L4
G∗(x, z)τ −,
(3.7) (3.7) where γ = i
2
q
2π∆
√
V and the function G(x, z) is where γ = i
2
q
2π∆
√
V and the function G(x, z) is G (x, z) =
p
L2L4
∞
X
n1,n3=−∞
e
−i2π
n1
x1
L1 +n3
x3
L3
e−i z2
L2 (x2−n1L2)−i z4
L4 (x4−n3L4)
× h12
0
x2 −
n1 −z1
2π
L2
h34
1
x4 −
n3 −z3
2π
L4
. 3.1
Fermion zero modes The fermion zero modes can be found by solving the Weyl equations from (2.3), Dn¯σnλ =
0 , Dnσn¯λ = 0 in the background (3.1). We perform these explicit computations in
appendix B.2.2. The fermion zero modes can also be obtained via the supersymmetry transforma-
tions (2.2), with the result agreeing with the direct solution of the Weyl equations. Consider
the effect of the supersymmetry transformation (2.2) in the background of the bosonic
solution (3.1), with fermions set to zero, ¯λ = λ = 0. Since our solution is self-dual, i.e. obeys ¯σmnFmn = 0, the SUSY transformation only produces λα variations: δλ = −σmnFmnζ ,
δ¯λ = 0 ,
(3.9) (3.9) which is true to all orders in ∆. Computing δλ we obtain, see appendix B.2.4, to O(
√
∆): δλ1
δλ2
! = −2iF (0)
12
ζ1
−ζ2
! + 2F (1)
13
ζ2
−ζ1
! −i2F (1)
14
ζ2
ζ1
! =
"
η1
η2
! τ 3
2 + V
1
4
π
1
2
γ∗eiαG(x, z)
η2
0
! τ + + V
1
4
π
1
2
γe−iαG∗(x, z)
0
η1
! τ −
#
,
(3.10) #
(3.10) where in going from the first to second line we used the definitions η1 ≡4πV −1/2ζ1,
η2 ≡−4πV −1/2ζ2. Thus, as expected, we find 2 fermion zero modes in accordance with
the index theorem. One can easily see that tr¯λ¯σn[T A, λ] = 0, and hence, the self-dual
instanton (3.1) on the asymmetric T4 solves the sourceless equations of motion DmFmn = 0
and is a consistent background for SYM. 3
Fractional instantons and gaugino zero modes on the asymmetric torus (3.8 G (x, z) =
p
L2L4
∞
X
n1 n3=
∞
e
−i2π
n1
x1
L1 +n3
x3
L3
e−i z2
L2 (x2−n1L2)−i z4
L4 (x4−n3L4) × h12
0
x2 −
n1 −z1
2π
L2
h34
1
x4 −
n3 −z3
2π
L4
. (3.8) (3.8) The function h1 is the first excited state of the simple harmonic oscillator, and just like
F(x, z), G is dimensionless and similarly normalized
R
T4 |G|2 = Q4
i=1 Li = V . To find the
field strength to order O(∆) and establish the self-duality of the solution, one needs to
solve for the functions Sn, see (A.43). In appendix A.1, we discuss the relations obeyed
by the field strength of Sn (explicit expressions will not be needed in our work). These
are important for establishing the self-duality of the solution, and thus of the fact that its
action S0 saturates the BPS bound, S0 = 4π2
g2 . g
Finally, we stress that the solutions, whose construction via a small-∆expansion
was described above, have been subjected to comparison with “exact” solutions obtained
by numerically minimizing the lattice Yang-Mills theory action with an n12 = n34 =
1 twist. A good qualitative (and in some cases quantitative) agreement of the gauge – 14 – invariants charactering the solution, computed analytically17 to O(∆), with the numerical
approximation of the exact solution was found, for ∆in the range 0.02 −0.09 for various
lattice sizes, see [1] for a detailed discussion. The existence of a consistent solution in the form (3.4) to all orders in ∆has been
shown in [1], but explicit calculations beyond the leading order have not yet been performed. The radius of convergence in ∆is also not known. In what follows, we assume that the
all-order ∆-expansion gives rise to a unique self-dual solution of action S0 = 4π2
g2 , at least
for sufficiently small ∆. This is supported by the consistency of (3.4) and the agreement
with numerical tests [1]. JHEP01(2023)118 17This is also done in our appendix A.3, where the zn dependence of the local and non-local gau
invariants characterizing the solution is discussed in detail. 3.2
Bosonic zero modes For every fermionic zero mode φ (β) A
α
= −(σmn)(β)
α F A
mn,
β = 1, 2,
A = 1, 2, 3,
(3.11) φ (β) A
α
= −(σmn)(β)
α F A
mn,
β = 1, 2,
A = 1, 2, 3,
(3.11) (3.11) there are two bosonic zero modes. Thus, in total, there are four independent bosonic
zero modes. The advantage of the discussion that follows is that the bosonic zero modes 17This is also done in our appendix A.3, where the zn dependence of the local and non-local gauge
invariants characterizing the solution is discussed in detail. – 15 – automatically obey the background gauge condition and, furthermore, their construction
holds to arbitrary orders in ∆. (β) A The four-vector expressions for the bosonic zero modes are denoted by Z(β) A
n
and
Z(β ′) A
n
, where β, β′ = 1, 2. These modes are determined as described in e.g. [25, 26]: from
each zero mode φ(β)
α
of the undotted Dirac equation one builds two four-vector bosonic zero
modes, denoted by Z(β)
n
and Z(β ′)
n
(from here on, we suppress the Lie-algebra index A to
reduce clutter). Their four-vector components are then (see appendix B.3.2, eq. (B.37)): Z(β)
n
=
n
ℑφ(β)
2 , −ℜφ(β)
2 , ℑφ(β)
1 , ℜφ(β)
1
o
, Z(γ ′)
n
=
n
ℜφ(γ)
2 , ℑφ(γ)
2 , ℜφ(γ)
1 , −ℑφ(γ)
1
o
. JHEP01(2023)118 Using the expression of φ(β)
α
in terms of Fmn, we can also express Z(β)
n
and Z(γ ′)
n
in terms
of Fmn: Z(1)
n
=
n
ℑφ(1)
2 , −ℜφ(1)
2 , ℑφ(1)
1 , ℜφ(1)
1
o
= {−2F14, 2F13, −2F12, 0} ,
Z(2)
n
=
n
ℑφ(2)
2 , −ℜφ(2)
2 , ℑφ(2)
1 , ℜφ(2)
1
o
= {2F12, 0, −2F14, 2F13} ,
Z(1 ′)
n
=
n
ℜφ(1)
2 , ℑφ(1)
2 , ℜφ(1)
1 , −ℑφ(1)
1
o
= {−2F13, −2F14, 0, 2F12} ,
Z(2 ′)
n
=
n
ℜφ(2)
2 , ℑφ(2)
2 , ℜφ(2)
1 , ℑφ(2)
1
o
= {0, 2F12, 2F13, 2F14} . (3.12) (3.12) It is a simple exercise to check DnZ(β)
n
= 0 and DnZ(γ ′)
n
= 0, and thus, these zero modes
solve the classical equations of motion as expected. 4.1
Fermionic measure The fermion zero modes measure will be inferred from the one for the non-zero modes. We
expand the fermions as eigenfunctions of the second order Hermitian operators JHEP01(2023)118 D ¯D = D2 + iFmnσmn ,
−(D ¯D) β
α λβ = ω2λβ
(4.1)
¯DD = D2 + iFmn¯σmn = D2,
D2¯λ
˙β = ω2¯λ
˙β , JHEP01(2023)118 (4.1) where, in the second line, we used the self-duality of the background. To discuss the measure, we begin by considering the contribution of a single nonzero
eigenvalue ω to the fermion path integral. Let −(D ¯D) β
α φi
β = ω2φi
α, where i labels the
different eigenfunctions, the commuting functions φi
α, with the same eigenvalue ω (we note
that there are at least two of them). We expand the nonzero-mode part of the fermion field
(for brevity, denoting it with the same letter λ, ¯λ) λα =
X
i
χi φi
α
(4.2)
¯λ ˙α =
X
i
¯χi 1
ω
¯D ˙ααφi
α, (4.2) where we used the fact that the nonzero eigenfunctions of D ¯D and ¯DD are related as shown
and we attach the spinor index to the bosonic solution of the 2nd order equation and not
to the Grassmann variable, χi or ¯χi (the fact that there is more than a single solution for
every ω is accounted by the index i). We also indicate that the λ and ¯λ expansions have
each their separate Grassmann variables χi, ¯χi. where we used the fact that the nonzero eigenfunctions of D ¯D and ¯DD are related as shown
and we attach the spinor index to the bosonic solution of the 2nd order equation and not
to the Grassmann variable, χi or ¯χi (the fact that there is more than a single solution for
every ω is accounted by the index i). We also indicate that the λ and ¯λ expansions have
each their separate Grassmann variables χi, ¯χi. 3.2
Bosonic zero modes ( )
(
′) Further, one can write down Z(β)
n
and Z(γ′)
n
as the derivatives with respect to the
collective coordinates {zi} modulo gauge transformations. To this end, we define new zero
modes Y (i)
n , i = 1, 2, 3, 4, by relabeling (3.12) as follows Y (3)
n
≡Z(1)
n
,
Y (1)
n
≡−Z(2)
n
,
Y (4)
n
≡−Z(1 ′)
n
,
Y (2)
n
≡−Z(2 ′)
n
,
(3.13) (3.13) and show in appendix B.3.3 that Y (k)
n
= 4πLk
√
V
∂An
∂zk
+ Dn(Acl)Λ(k) . (3.14) (3.14) There, we also explicitly find the expressions for the background-gauge restoring gauge
transformations Λ(k) to order
√
∆and show that they obey boundary conditions preserving
the transition functions. For later convenience, we also define the inner product of the
zero-mode wave functions (or moduli space metric) Ukl = 2
g2
Z
T4 tr Y (k)
n
Y (l)
n
(3.15) (3.15) which in diagonal basis is simply Ukl = δlkul. Using (3.12), see appendix B.3.2 for details,
we readily obtain Ukl = 4δkl
g2
Z
T4 tr Fmn ˜Fmn = 4δklS0 = δkl 16π2
g2
. (3.16) (3.16) This result is valid to all orders in ∆, since the action of a fractional instanton does not
depend on the size or shape of T4. This result is valid to all orders in ∆, since the action of a fractional instanton does not
depend on the size or shape of T4. – 16 – – 16 – 4
The path integral: bosonic and fermionic measures The contributions from the non-zero modes of fermions, bosons, and ghosts cancel in the
path integral, thanks to supersymmetry. Thus, in our subsequent discussion, we only discuss
the contribution from zero modes to the bosonic and fermionic measures. 4.1
Fermionic measure Plugging (4.2) into the fermionic action (2.1), we obtain after integration by parts and
using the fact that φ is an eigenvector of D ¯D: SF = 2
g2 tr (Dn¯λ ˙α¯σ ˙αα
n λα) =
X
ij
¯χjχiω
2
g2
Z
T4 tr φiαφj
α
(4.3)
= ω
X
ij
¯χjχi Uij
F , (4.3) where the fermion mode inner product matrix is where the fermion mode inner product matrix is Uij
F = 2
g2
Z
T4 tr
φi
2φj
1 −φi
1φj
2
,
Uij
F = −Uji
F . (4.4) (4.4) Then we define the fermion nonzero mode path integral so that it produces ω (the minimal
number of eigenfunctions with the same eigenvalue is two, i.e. i, j = 1, 2, with UF generically
a 2 × 2 matrix) Y
dχid¯χi (det UF )−1e−SF = ω . (4.5) Z Y
i
dχid¯χi (det UF )−1e−SF = ω . (4.5) (4.5) – 17 – When all nonzero eigenvalues are taken into account, we obtain the square root of the
product over all nonzero eigenvalues of ¯DD (or D ¯D). When all nonzero eigenvalues are taken into account, we obtain the square root of the
product over all nonzero eigenvalues of ¯DD (or D ¯D). The integrals over the fermion zero modes are defined in the same manner via the same
mode normalization matrix, Uij
F , defined in (4.4). Recalling that only the undotted spinors
λα have zero modes, we expand18 λα =
X
i
ηiφi
α + nonzero modes,
(4.6) (4.6) where we use ηi to denote the zero-mode Grassmann variable. The fermion zero-mode
measure is then taken to be the “square root” of (4.5):19 JHEP01(2023)118 dµF =
Y
i
dηi (det UF )−1/2 =
Y
i
dηi (PfUF )−1 . (4.7) (4.7) In appendix B.3.1, we calculate the Pfaffian, using the zero-mode wave functions (3.11),
and show that PfUF = −U12
F = 4 × 4π2
g2 , see eq. (B.34). Notice that this result is valid to
all orders in ∆(thus including the nonabelian part of the zero modes), since PfUF involves
integrating the square of the field strength Fmn over T4, which is proportional to the action,
a ∆-independent quantity. (3.11), Furthermore, it follows from (4.6) that tr λαλα =
1
2ηαηβφ(α)A
γ
φ(β)A
δ
ϵδγ+(nonzero
modes). 4.1
Fermionic measure Thus, combining with (4.7), one finally finds: Z
dµF tr λλ(x) =
g2
16π2
Z
dη1dη2 tr [λαλα(x)]
=
g2
16π2
1
2
φ(2)A
γ
φ(1)A
δ
−φ(1)A
γ
φ(2)A
δ
[x]ϵδγ . (4.8) (4.8) We next note that all gauge invariant quantities in the fractional instanton background
depend on the combinations of xi with the dimensionless collective coordinates zl, see
eq. (A.9) in appendix A.1. Thus, to calculate the condensate, in eq. (4.8) one should replace We next note that all gauge invariant quantities in the fractional instanton background
depend on the combinations of xi with the dimensionless collective coordinates zl, see
eq. (A.9) in appendix A.1. Thus, to calculate the condensate, in eq. (4.8) one should replace x1 →x1 −L1z2
2π ,
x2 →x2 + L2z1
2π ,
x3 →x3 −L3z4
2π ,
x4 →x4 + L4z3
2π . (4. (4.9) That all gauge invariant quantities depend on (4.9) follows from the actions of translations
in our background and is explained in appendix A.1 (see Footnote 30 there). 19This definition ensures that, upon perturbing with a zero-mode lifting mass term, δSm = m
g2 tr λαλα,
e obtains m for the zero-mode contribution to the path integral. 18Here and below, we use φi
α to denote the zero-mode solutions of D ¯D, obeying (D ¯D) β
α φi
β = 0. The
reader should forgive us for using the same letter as in the non-zero mode discussion near (B.9). 5
The Hamiltonian formalism, Wilson loops, and the moduli space Up to this point, we have all pieces to compute the gaugino condensate except for the
shape and size of the moduli space M, or in other words, the range of integration over
the collective coordinates {zm}. Determining M will force us to deviate, for now, from
the path integral to the Hamiltonian formalism. We refer the reader to [57] for a detailed
description of the Hilbert space, while here, we only provide a synopsis needed to study the
Wilson loops and moduli space. 4.2
Bosonic measure We express the bosonic field An(x), to be integrated over in the path integral, as a sum
of the classical solution Acl
n (x, z) (3.1), the zero mode fluctuations normalized as in (B.67)
of appendix B.3.3, and the nonzero modes of the fluctuation operator denoted by Zq
n (of
eigenvalues ωq) using the same notation as in appendix B.1, see the discussion after eq. (B.2): An(x) = Acl
n (x, z) +
4
X
k=1
ζ(0)
k
√
V
4πLk
Y (k)
n
(x, z) +
X
q
ζqZ(q)
n . (4.10) (4.10) 18Here and below, we use φi
α to denote the zero-mode solutions of D ¯D, obeying (D ¯D) β
α φi
β = 0. The
reader should forgive us for using the same letter as in the non-zero mode discussion near (B.9). 18Here and below, we use φi
α to denote the zero-mode solutions of D ¯D, obeying (D ¯D) β
α φi
β = 0. The
reader should forgive us for using the same letter as in the non-zero mode discussion near (B.9). 19 19This definition ensures that, upon perturbing with a zero-mode lifting mass term, δSm = m
g2 tr λαλα,
one obtains m for the zero-mode contribution to the path integral. – 18 – Using the inner product defined in (3.16), the measure of the bosonic zero modes takes
the form
1
4 "
(0) #
4
(0) Using the inner product defined in (3.16), the measure of the bosonic zero modes takes
the form dµB =
det
V
16π2LkLl
Ukl
1
2
4
Y
k=1
"
dζ(0)
k
√
2π
#
= V
g4
4
Y
k=1
dζ(0)
k
√
2π . (4.11) (4.11) In appendix B.3.4, we show how we change the variables ζ(0)
k
to the collective coordi-
nates {zm} by inserting a unity, á la Faddeev-Popov gauge-fixing method. The resulting
expression is In appendix B.3.4, we show how we change the variables ζ(0)
k
to the collective coordi-
nates {zm} by inserting a unity, á la Faddeev-Popov gauge-fixing method. The resulting
expression is dµB = V
g4
4
Y
k=1
dzk
√
2π . (4.12) (4.12) JHEP01(2023)118 5.1
Pure Yang-Mills theory They also
commute with the Hamiltonian and thus all eigenstates of ˆH are also labeled by e1 ∈{0, 1}
and e2 ∈{0, 1}.20 The twisted partition function of pure Yang-Mills theory, the one we have been studying
in the absence of fermions, is the one with an insertion of a ˆT3 twist: ZY M[n12 = 1, n34 = 1] = trHm3=1
h
e−L4 ˆH ˆT3
i
=
X
E(e3), e3={0,1}
⟨E(e3), e3|e−L4E(e3) ˆT3|E(e3), e3⟩
=
X
E(e3), e3={0,1}
⟨E(e3), e3|e−L4E(e3)|E(e3), e3⟩eiπe3−i θ
2 ,
(5.1) JHEP01(2023)118 (5.1) where in going from the first to the second line, we summed over a complete set of eigenstates
in the physical Hilbert space Hm3=1 that diagonalize ˆH and ˆT3 simultaneously (for brevity,
omitting the summation over e1,2). The expectation value of the Wilson loop operator ˆW3
is21 ⟨W3⟩= trHm3=1
h
e−L4 ˆH ˆW3 ˆT3
i
. Using the relation ˆT3 ˆW3 = −ˆW3 ˆT3 and the fact that ˆT3
(but not ˆW3) commutes with ˆH, we immediately find ⟨ˆW3⟩= −⟨ˆW3⟩, and hence, ⟨ˆW3⟩= 0. One can also show that the expectation value of the Wilson loop winding in any
other direction vanishes identically. Since ˆTℓ, ℓ= 1, 2, 3 and ˆH form a set of commuting
operators, they can be diagonalized simultaneously. Let {|E(e1, e2, e3), e1, e2, e3⟩} be a set
of orthonormal eigenstates of the set of the 4 operators ˆH, { ˆTℓ, ℓ= 1, 2, 3}, where eℓ∈{0, 1}
is the Z2 electric flux in the Lℓdirection, and we emphasized that, in general, the energy
of the state depends on these fluxes. The expectation value of a general Wilson loop ˆWp
wrapping the Lp direction and computed using the ˆT3-twisted partition function (5.1) reads where in going from the first to the second line, we summed over a complete set of eigenstates
in the physical Hilbert space Hm3=1 that diagonalize ˆH and ˆT3 simultaneously (for brevity,
omitting the summation over e1,2). The expectation value of the Wilson loop operator ˆW3
is21 ⟨W3⟩= trHm3=1
h
e−L4 ˆH ˆW3 ˆT3
i
. Using the relation ˆT3 ˆW3 = −ˆW3 ˆT3 and the fact that ˆT3
(but not ˆW3) commutes with ˆH, we immediately find ⟨ˆW3⟩= −⟨ˆW3⟩, and hence, ⟨ˆW3⟩= 0. One can also show that the expectation value of the Wilson loop winding in any
other direction vanishes identically. 5.1
Pure Yang-Mills theory The moduli space is determined in the absence of fermions, and thus, we start by studying
the Hamiltonian formalism of pure Yang-Mills theory with vacuum angle θ on T3 with a
unit ’t Hooft magnetic flux. Consider L1,2,3 of T3 as space of volume V3 and L4 as Euclidean time, where V3 is to
be taken much smaller than the inverse of Λ3, the strong-coupling scale, while L4 can be
varied from small to large w.r.t. Λ−1. Recall that we apply the twists m3 ≡n12 = 1, this
is a “magnetic flux” piercing the 1–2 plane, and k3 ≡n34 = 1. The latter is related to a
twist of the partition function by a centre symmetry transformation, to be described below. The physical Hilbert space lives along the constant time slices and, thus, is in the m3 = 1
“magnetic flux” background. Let |ψ⟩denote a state in the physical Hilbert space on T3 with
twisted boundary conditions, Hm3=1. ( ) We introduce the operator ˆT3 as the generator of the Z(1)
2
1-form center symmetry
in the L3 direction. The generator ˆT3 commutes with the Hamiltonian, [ ˆT3, ˆH] = 0, and
thus, they can be diagonalized in the same basis. It can be shown that the action of ˆT3
on its eigenstates, |ψ⟩= |e3⟩, in the physical Hilbert space is ˆT3|e3⟩= eiπe3−i θ
2 |e3⟩, where
e3 ∈{0, 1} is the Z2 “electric flux” of the state. This terminology can be explained as follows. Since ˆT3 is a center-symmetry generator, it acts on Wilson loops winding around the L3
direction as ˆT3 ˆW3 = −ˆW3 ˆT3. Then, one readily finds ˆT3( ˆW3|e3⟩) = eiπ(e3+1)−i θ
2 ( ˆW3|e3⟩),
i.e., the action of ˆW3 on a state increases the Z2 flux of this state by one unit. The fact
that ˆW3 can be thought of as creating a winding electric flux tube explains the terminology. We conclude that ˆT3 measures the center flux of a given state in Hilbert space. The
generators of the center symmetries in the other two spatial directions, x1 and x2, ˆTℓ, – 19 – ℓ= 1, 2, act similarly on Wilson loops winding in the corresponding directions. 20The action of ˆT1 on states of electric flux e1 is ˆT1|e1⟩= eiπe1|e1⟩(and similar for ˆT2), without the θ/2
factor in the action of ˆT3 (which is due to the m3 = 1 twist). 21We ignore the normalization of Wilson loops. We will come back to normalization in calculating the
gaugino condensate. 20The action of ˆT1 on states of electric flux e1 is ˆT1|e1⟩= eiπe1|e1⟩(and similar for ˆT2), without the θ
factor in the action of ˆT3 (which is due to the m3 = 1 twist). 5.1
Pure Yang-Mills theory – 20 – We spent so much time explaining the expected result (5.3) because its consistency with
semiclassics is one of our main criteria used to determine the moduli space of the frac-
tional instanton. We spent so much time explaining the expected result (5.3) because its consistency with
semiclassics is one of our main criteria used to determine the moduli space of the frac-
tional instanton. Thus, we now contrast the general result (5.3) with the computation of the expectation
value of a Wilson loop in the path integral formalism, in the semiclassical approximation. Consider a Wilson loop W(Cn1,n2,n3,n4), with C beginning at an arbitrary point x in T4
and winding nℓtimes around each direction Lℓ: W(x, Cn1,n2,n3,n4) = tr
Pe
iR
Cn1,n2,n3,n4
Ak(x′)dx′
k Ωn2
2 (x) Ωn4
4 (x)
,
(5.4) (5.4) JHEP01(2023)118 where we inserted Ωn2
2 (x) Ωn4
4 (x) to enforce the gauge invariance of W(x, Cn1,n2,n3,n4). Using the classical self-dual background (3.1), (3.5), we show in eq. (A.58) in the appendix,
that W to order ∆is: W(x, Cn1,n2,n3,n4) = 2 cos
1
2
n1
z1 + 2πx2
L2
+ n2
z2 −2πx1
L1
+ n3
z3 + 2πx4
L4
+ n4
z4 −2πx4
L2
. × [1 + ∆F(x, z)] . (5.5) (5.5) The O(1) and O(∆) contributions come from the abelian and nonabelian components
of (3.1). The cosine function has 4π periodicity in {zi}, while the O(∆) piece F(x, z) is a
periodic and even function of {z1 + 2πx2
L2 , z2 −2πx1
L1 , z3 + 2πx4
L4 , z4 −2πx4
L2 } with periodicity
2π for {zi}. 5.1
Pure Yang-Mills theory Since ˆTℓ, ℓ= 1, 2, 3 and ˆH form a set of commuting
operators, they can be diagonalized simultaneously. Let {|E(e1, e2, e3), e1, e2, e3⟩} be a set
of orthonormal eigenstates of the set of the 4 operators ˆH, { ˆTℓ, ℓ= 1, 2, 3}, where eℓ∈{0, 1}
is the Z2 electric flux in the Lℓdirection, and we emphasized that, in general, the energy
of the state depends on these fluxes. The expectation value of a general Wilson loop ˆWp
wrapping the Lp direction and computed using the ˆT3-twisted partition function (5.1) reads ⟨ˆWp⟩=
X
E(e1,e2,e3), ei={0,1}
e−L4E⟨E(e1, e2, e3), e1, e2, e3| ˆWp ˆT3|E(e1, e2, e3), e1, e2, e3⟩(5.2)
=
X
E(e1,e2,e3), ei={0,1}
e−L4E⟨E(e1, e2, e3), e1, e2, e3| ˆWp|E(e1, e2, e3), e1, e2, e3⟩eiπe3−i θ
2 . (5.2) However, the insertion of ˆWp increases the electric flux by one unit in the Lp direction and
produces a sum over different energy eigenstates. Thus, its diagonal matrix element in the
|E(e1, e2, e3), e1, e2, e3⟩state vanishes. We immediately conclude that a Wilson loop that
wraps L1, L2, or L3 must vanish on T4 with twisted boundary conditions. The vanishing
of ⟨ˆW4⟩follows by applying a 90-degree rotation to any spatial Wilson loop, i.e. upon
considering a different T4 direction as time. Thus, we conclude that for any winding Wilson
loop ˆWp, However, the insertion of ˆWp increases the electric flux by one unit in the Lp direction and
produces a sum over different energy eigenstates. Thus, its diagonal matrix element in the
|E(e1, e2, e3), e1, e2, e3⟩state vanishes. We immediately conclude that a Wilson loop that
wraps L1, L2, or L3 must vanish on T4 with twisted boundary conditions. The vanishing
of ⟨ˆW4⟩follows by applying a 90-degree rotation to any spatial Wilson loop, i.e. upon
considering a different T4 direction as time. Thus, we conclude that for any winding Wilson
loop ˆWp, ⟨ˆWp⟩= trHm3=1
h
e−L4 ˆH ˆWp ˆT3
i
= 0. (5.3) (5.3) 20The action of ˆT1 on states of electric flux e1 is ˆT1|e1⟩= eiπe1|e1⟩(and similar for ˆT2), without the θ/2
factor in the action of ˆT3 (which is due to the m3 = 1 twist). 21 21We ignore the normalization of Wilson loops. We will come back to normalization in calculating the
gaugino condensate. 22 ˜
W in the second term is the Wilson loop (5.4), but evaluated in the anti-instanton background, whose
explicit form is similar to (5.5) and shall not be needed. 5.1
Pure Yang-Mills theory Now, using the results from the previous section and limiting our discussion to pure
Yang-Mills theory and ignoring issues of normalization, the expectation value of a general
Wilson loop is W(x,Cn1,n2,n3,n4)⟩
(5.6) ⟨W(x,Cn1,n2,n3,n4)⟩
(5.6)
=
X
ν
Z
[DAµ]W(x,Cn1,n2,n3,n4)e−SY M−iθ(ν+ 1
2 )|n12=1,n34=1
∼e−S0−i θ
2 V
g4
Z
M
4
Y
k=1
dzk
√
2π W(x,Cn1,n2,n3,n4)+e−S0+i θ
2 V
g4
Z
M
4
Y
k=1
dzk
√
2π
˜W(x,Cn1,n2,n3,n4), (5.6) =
X
ν
Z
[DAµ]W(x,Cn1,n2,n3,n4)e
SY M
iθ(ν+ 2 )|n12=1,n34=1
∼e−S0−i θ
2 V
g4
Z
M
4
Y
k=1
dzk
√
2π W(x,Cn1,n2,n3,n4)+e−S0+i θ
2 V
g4
Z
M
4
Y
k=1
dzk
√
2π
˜W(x,Cn1,n2,n3,n4 where in going from the first to the second line, we ignored the quantum loops and used the
bosonic zero-mode measure (4.12). We limited the r.h.s. to the contributions of the ν = 0
sector, with total topological charge Q = 1
2, and the ν = −1 sector, with total topological
charge Q = −1
2. Ignoring higher-Q contributions is justified in the limit when semiclassics
holds, i.e. for a small T4. Furthermore, in writing the above expression, we assumed that the fractional instantons
(and antinstantons22) we obtained are the only |Q| = 1
2 saddle points in the path integral,
contributing to the first and second terms above, respectively. While we have no proof of – 21 – uniqueness, the favourable comparison of “exact” (i.e. obtained by numerically minimizing
the action) fractional instantons on an asymmetric T4 with the solutions obtained by
small-∆expansion gives support in favor of this assumption, at least for small enough ∆. In this regard, we note that ref. [1] found good agreement for ∆as large as 0.08. Our point now is that the d4z integral in (5.6) vanishes, and is thus consistent with (5.3),
for all values of θ and for all x, if and only if the limits of integration are taken zi ∈[0, 4π). This leads us to conclude that the moduli space M ∼T4 with period 4π in every direction.23 A further argument in favour of this identification of the moduli space is that the
classical fractional instanton field configurations with zn differing by 2π are distinguished
by the gauge invariant winding Wilson loop operators, while those differing by 2π are not
distinguished. Thus one expects that zn and zn + 2π are not to be identified. 5.1
Pure Yang-Mills theory In contrast,
no local gauge invariant operators can distinguish between zn and zn + 2π, see section A.3
in the appendix for detail.24 JHEP01(2023)118 23Moreover, it is easy to check that changing the limits of integration to any other values yields a
position-dependent Wilson loop. For example, consider ⟨W(x, Cn1=1,n2=0,n3=0,n4=0)⟩and take the range of
zi ∈[0, 2π), which yields ⟨W(x, Cn1=1,n2=0,n3=0,n4=0)⟩∼−sin
π x2
L
+ O(∆). This result should not be
expected on physical grounds since our background has constant field strength on T4 (to leading order in
∆); the expectation value of the Wilson loop should, at most, be a constant (to leading order in ∆). )
(
)
24We note, without discussing the details, that a virtually identical argument for extending the lim
of zn integration holds also in the SU(N) case in the background of the Q = 1/N solutions found by
Hooft [15], recently extended in the framework of the small-∆expansion [58]. 5.2
SYM theory Before turning to the calculations of the gaugino condensate using the path integral method,
we pause here to discuss SYM theory using the Hamiltonian formalism, akin to our discussion
of pure Yang-Mills of section 5.1. The partition function of SYM with twisted boundary
conditions in the 1–2 and 3–4 planes, identical for bosons and fermions, is given by ZSYM[n12 = 1, n34 = 1] = trHm3=1
h
(−1)F e−L4 ˆH ˆT3
i
. (5.7) (5.7) The insertion of the fermion number (−1)F guarantees that both fermions and bosons
obey periodic boundary conditions in the time direction. Let ˆX be the Zdχ
4
discrete chiral
symmetry generator. Then, it can be shown that the symmetry operators ˆT3 and ˆX obey
the algebra: The insertion of the fermion number (−1)F guarantees that both fermions and bosons
obey periodic boundary conditions in the time direction. Let ˆX be the Zdχ
4
discrete chiral
symmetry generator. Then, it can be shown that the symmetry operators ˆT3 and ˆX obey
the algebra: h ˆH, ˆT3
i
= 0 ,
h ˆH, ˆX
i
= 0 ,
ˆT3 ˆX = eiπ ˆX ˆT3 ,
(5.8) (5.8) where the last relation is the result of the mixed anomaly between the 0-form discrete chiral
and 1-form center symmetries [57].25 Since ˆH commutes with ˆT3, we can as before, label
the physical states in Hm3=1 by |E(e3), e3⟩. The algebra (5.8) requires that ˆX|E(e3), e3⟩=
|E(e3), e3 −1⟩, and thus, it is easily seen the states |E(e3), e3 = 1⟩and |E(e3), e3 = 0⟩are
degenerate: ˆH|E, e3 = 0⟩= E(e3 = 0)|E, e3 = 0⟩, ˆH|E, e3 = 1⟩= E(e3 = 0)|E, e3 = 1⟩, at
any size of the spatial T3, as a consequence of the anomaly. 23Moreover, it is easy to check that changing the limits of integration to any other values yields a
position-dependent Wilson loop. For example, consider ⟨W(x, Cn1=1,n2=0,n3=0,n4=0)⟩and take the range of
zi ∈[0, 2π), which yields ⟨W(x, Cn1=1,n2=0,n3=0,n4=0)⟩∼−sin
π x2
L
+ O(∆). This result should not be
expected on physical grounds since our background has constant field strength on T4 (to leading order in
∆); the expectation value of the Wilson loop should, at most, be a constant (to leading order in ∆). [
]
[
]
25The same algebra arises in the 2-D massless charge-2 Schwinger model [63], due to a similar anomal 5.2
SYM theory 24We note, without discussing the details, that a virtually identical argument for extending the limits
of zn integration holds also in the SU(N) case in the background of the Q = 1/N solutions found by ’t
Hooft [15], recently extended in the framework of the small-∆expansion [58]. 25The same algebra arises in the 2-D massless charge-2 Schwinger model [63], due to a similar anomaly. – 22 – Now, we can readily calculate the partition function (5.7) to find ZSYM[n12 = 1, n34 = 1] = trHm3=1
h
(−1)F e−L4 ˆH ˆT3
i
=
X
E, e3={0,1}
(−1)F (−1)e3⟨E, e3|e−EL4|E, e3⟩
=
X
E, e3={0,1}
(−1)F (−1)e3e−EL4 = 0 . (5.9) (5.9) This equation provides one way to see that the twisted partition function of SYM vanishes,
by noting that all states in Hilbert space are doubly degenerate and their contributions
cancel each other in the twisted partition function (5.9). This equation provides one way to see that the twisted partition function of SYM vanishes,
by noting that all states in Hilbert space are doubly degenerate and their contributions
cancel each other in the twisted partition function (5.9). JHEP01(2023)118 Now we insert the gaugino condensate, the tr λ2 operator, where the trace is taken in
the color space. The operator is inserted at x4 = 0 and some position on T3: ⟨tr λλ⟩=
trHm3=1
h
(−1)F e−L4 ˆH tr λ2 ˆT3
i
trHm3=1
h
(−1)F e−L4 ˆH
i
= N −1
X
E, e3={0,1}
(−1)F (−1)e3e−EL4⟨E, e3| tr λ2|E, e3⟩. (5.10) (5.10) Here, we took the normalization constant N to be the Witten index: N = trHm3=1
h
(−1)F i
=
2, given by the partition function on T3 with an n12 twist, but without a ˆT3 twist in the
time direction (recall (2.11) in the path integral framework). Next, we know that ˆX|E, e3⟩= |E, e3 + 1⟩from the anomaly (5.8) and that ˆX acts on
the condensate as ˆX tr λ2 = −tr λ2 ˆX. Thus, because ⟨E, 0| ˆX† ˆX tr λ2|E, 0⟩= −⟨E, 1| tr λ2|E, 1⟩,
(5.11) (5.11) tr λ2 has opposite expectation values in the two degenerate states e3 = 0 and e3 = 1. Thus,
we find tr λ2 has opposite expectation values in the two degenerate states e3 = 0 and e3 = 1. 26Equating the result of our calculation, eq. (6.3) below, to the r.h.s. of (5.13) is only possible if we
assume that the semi-classical treatment holds as L4 is varied between small and large, and, in particular,
there are no new contributions that contribute to the l.h.s. This can be only justified by understanding the
convergence radius of the ∆expansion. 27We note that a similar equation holds in SU(N) theories for one of the N vacua of the twisted, small-V3
theory. There N = N and there is N-fold degeneracy of all energy states on T3 with n12 = 1. 5.2
SYM theory Thus,
we find ⟨tr λλ⟩= N −1
X
E, e3={0,1}
(−1)F e−EL4⟨E, 0| tr λ2|E, 0⟩V3,n12 ⟨tr λλ⟩= N −1
X
E, e3={0,1}
(−1)F e−EL4⟨E, 0| tr λ2|E, 0⟩V3,n12
=
X
E
(−1)F e−EL4⟨E, 0| tr λ2|E, 0⟩V3,n12 ,
(5.12) =
X
E
(−1)F e−EL4⟨E, 0| tr λ2|E, 0⟩V3,n12 ,
(5.12) (5.12) where the sum is over only the half of the Hilbert space with e3 = 0 and we are reminded
that the condensate is being computed in a small V3 theory Hilbert space with boundary
conditions twisted by n12. where the sum is over only the half of the Hilbert space with e3 = 0 and we are reminded
that the condensate is being computed in a small V3 theory Hilbert space with boundary
conditions twisted by n12. If L4 is small compared to the energy scales in the problem, there is no reason to assume
that any particular values of E dominate. Thus, eq. (5.12) is the Hamiltonian expression
of the expectation value we have computed for general L4. However, we can try take the
L4 →∞limit to obtain26 ⟨tr λλ⟩= ⟨0, 0| tr λ2|0, 0⟩V3,n12 ,
(5.13) (5.13) 26Equating the result of our calculation, eq. (6.3) below, to the r.h.s. of (5.13) is only possible if we
assume that the semi-classical treatment holds as L4 is varied between small and large, and, in particular,
there are no new contributions that contribute to the l.h.s. This can be only justified by understanding the
convergence radius of the ∆expansion. – 23 – – 23 – where we used that supersymmetry is unbroken and the small-V3 ground state is bosonic,
(−1)F = 1.27 In conclusion, eq. (5.13) shows that in the large-L4 limit, the calculation of ⟨tr λ2⟩
using the ˆT3-twisted parition function and normalized by the Witten index, as in (5.10),
yields the gaugino condensate in one of the two degenerate ground states of the small-V3
theory with a unit ’t Hooft flux n12. The state |0, 0⟩V3,n12 is further expected, as V3 →∞,
to become one of the two degenerate ground states of the SU(2) SYM theory on R4. JHEP01(2023)118 JHEP01(2023)118 6
The gaugino condensate Finally, we put pieces together to read out the condensate. We use the fact that non-zero
modes in (2.10) cancel between the bosons, fermions, and ghosts. Then, we combine the
integral of tr λ2 over the zero mode measure for the fermions from eq. (4.8) with the boson
zero mode measure (4.12). We also recall that we normalize by the Witten index N = 2
to obtain: ⟨trλλ⟩= M3
PV e
−4π2
g2
N
V
g4
(6.1)
×
Z
zi∈[0,4π]
4
Y
k=1
dzk
√
2π
g2
16π2
1
2 ϵδγ(φ(2)A
γ
φ(1)A
δ
−φ(1)A
γ
φ(2)A
δ
)[{x}]
x1→x1−z2L1
2π , see eq. (4.9)
= Λ3
2
V
4π2
1
16π2
2π
Z
−2π
d4z
φ(2)A
2
φ(1)A
1
−φ(1)A
2
φ(2)A
1
−z2L1
2π , z1L2
2π ,−z4L3
2π , z3L4
2π
. (6.1) To obtain the last line, we recalled the substitution of (4.9), the fact that all local gauge
invariants are periodic functions of ˆzk (defined in (4.9)) of period 2π, and used shifts of
the zn variables to set the xk-coordinates (of period Lk) to zero. Further, Pauli-Villars
regularization has been utilized to renormalize the theory, and the scale MPV is the Pauli-
Villars mass. The factor M3
PV comes from regularizing the boson and fermion determinants,
with each zero-mode contributing an appropriate factor of MPV : the bosonic determinant
gives M4
PV and the fermionic determinant gives M−1
PV (we do not describe this in detail, as it
is a standard procedure in supersymmetric instanton calculations [25, 26, 31, 37]). In going
from the first to the second line of (6.1), we used the fact that Λ3 = M3
P V
g2 e
−4π2
g2 in the scheme
often used for gaugino condensate calculations [25, 26], notably, in the weakly-coupled
R3 × S1 set up and its comparison with the weak-coupling calculation on R4 [31]. Next, we rescale the zk variables in (6.1) by appropriate factors of 2π
Lp , contributing an
overall Jacobian (2π)4
V
. Acknowledgments E.P. is grateful to Antonio Gonzalez-Arroyo for many conversations on fractional instantons
and the ∆-expansion during the “Fluxtube-22” Workshop at KITP during the Winter
of 2022, supported in part by the National Science Foundation under Grant No. NSF
PHY-1748958. We also thank F. David Wandler for comments on the manuscript. Both
authors would like to thank the Simons Centre for Geometry and Physics, where this work
started. E.P. acknowledges the hospitality of Durham University during work on this project
and M.A. acknowledges the hospitality of the University of Toronto, where this work was
completed. M.A. is supported by STFC through grant ST/T000708/1. E.P. is supported
by a Discovery Grant from NSERC. 6
The gaugino condensate Taking the liberty to again call the rescaled variables xk, we obtain – 24 – for the condensate for the condensate ⟨tr λλ⟩= Λ3
2
1
4
Y
k
Lk
Z
−Lk
dxk
φ(2)A
2
φ(1)A
1
−φ(1)A
2
φ(2)A
1
[−x1, x2, −x3, x4]
= Λ3
2
24
4
Z
T4
d4x
φ(2)A
2
φ(1)A
1
−φ(1)A
2
φ(2)A
1
[x] = Λ3
2
24
4 g2U21
F . (6.2) (6.2) As indicated, the integrand on the second line is the same as the one appearing in U21
F
from (4.4), safe for the absence of a factor of 1/g2. Thus, recalling that U21
F = 16π2
g2 , as per
the discussion after (4.7) (see also (B.34)), we finally obtain for (5.12): As indicated, the integrand on the second line is the same as the one appearing in U21
F
from (4.4), safe for the absence of a factor of 1/g2. Thus, recalling that U21
F = 16π2
g2 , as per
the discussion after (4.7) (see also (B.34)), we finally obtain for (5.12): JHEP01(2023)118 ⟨tr λλ⟩= 32π2Λ3. (6.3) (6.3) Further, assuming that the result extends to L4 →∞, as described in the previous
section, we use (5.13) and (6.3) to conclude ⟨0, 0| tr λ2|0, 0⟩V3,n12 = 2 × 16π2Λ3 . (6.4) (6.4) Thus, the condensate in one of the two degenerate vacua of the small-V3, n12 = 1 theory
has twice the value calculated on R4 as described in the Introduction.28 Thus, the condensate in one of the two degenerate vacua of the small-V3, n12 = 1 theory
has twice the value calculated on R4 as described in the Introduction.28 A
Constructing instantons on the asymmetric T4 with twists Our SU(2) Lie algebra convention is as follows. We denote the generators in the Cartan
as τ 3
2 and the non-Cartan as τ ±, where τ + =
0 1
0 0
! = (τ −)†. We expand the Hermitean
gauge field as An = A3
n
τ 3
2 + A+
n τ + + A−
n τ −,
A−= (A+)†,
n = 1, 2, 3, 4. (A.1) (A.1) 28In the spirit of Footnote 24, without discussing the details, we remark that a similar result is obtained,
upon taking the large-L4 limit of ’t Hooft’s SU(N) solutions with Q =
1
N , constructed via the ∆expansion
in [58]. One finds, instead of (6.4), that the condensate in one of the N degenerate vacua on T3 with an
n12 = 1 twist, ⟨0, 0| tr λ2|0, 0⟩V3,n12 = N × 16π2Λ3, i.e. equals N times the R4 result. – 25 – An identical expression (but without the reality condition) also holds for the adjoint
representation fermions λα, ¯λ ˙α (α, ˙α = 1, 2), which are independent variables in Euclidean
space, to be discussed in more detail later. The fields are smooth and defined on R4, with coordinates xn, n = 1, 2, 3, 4. The
restriction to a T4 with periods Ln, and with ’t Hooft twists is accomplished by imposing
periodicities defined by transition functions Ωn(x), x ∈R4. As explained in the main text,
we choose a gauge where the T4 transition functions are trivial in the x1 and x3 directions
and nontrivial in the x2 and x4 directions Ω2(x) = e−i2π x1
L1
τ3
2 ,
Ω4(x) = e−i2π x3
L3
τ3
2 ,
while Ω1 = Ω3 = 12×2,
∀x ∈R4. (A 2) JHEP01(2023)118 (A.2) (
)
Thus, there are two nontrivial twists, n12 = n34 = 1, since (A.2) obey the cocycle conditions (
)
hus, there are two nontrivial twists, n12 = n34 = 1, since (A.2) obey the cocycle conditions Thus, there are two nontrivial twists, n12 = n34 = 1, since (A.2) obey the cocycle conditions Ωi(x + Ljˆej) Ωj(x) = eiπnij Ωj(x + Liˆei) Ωi(x),
i, j = 1, 2, 3, 4,
∀x ∈R4,
(A.3) (A.3) where ˆen is a unit vector in the xn direction. 29Our convention for gauge transformations, A(x) →g(x)(A(x) −id)g−1(x), implies Fmn = ∂mAn −
∂nAm + i[Am, An] and Dmφ = ∂mφ + i[Am, φ] for any adjoint φ. Adjoint fermions obey the same periodicity
conditions as (A.4), but without the inhomogeneous term. 30For example, a translation x1 →x1 +ϵ1 is accompanied by g1(ϵ1, x2) = e
i2π ϵ1x2
L1L2
τ3
2 ensuring that Ω2(x1)
is invariant: as per (A.5), Ω2(x1) transforms into g1(x2 = L2)Ω2(x1 + ϵ1)g−1
1 (x2 = 0) = Ω2(x1). At the
same time, the g1 action on ¯A shifts z2 →z2 −2πϵ1
L1 , showing that the variable ˆz2 = z2 −2πx1
L1
is invariant
under the combined action of g1 and translation eϵ1∂1. Our nonabelian solution also exhibits this property:
considering, for example, its W1 component of eq. (A.40), we observe that it is invariant under the combined
action of translation of x1, the shift of z2 given above, and a gauge transformation by g1, which multiplies
W1 by a phase. Gauge invariants built from the solution will then only depend on the ˆzn combinations. A
Constructing instantons on the asymmetric T4 with twists (A.8) (A.8) The abelian background (A.7), (A.8) has the following properties: The abelian background (A.7), (A.8) has the following properties: The abelian background (A.7), (A.8) has the following properties: 1. The field strength F (0)
mn from (A.8) can be used to explicitly verify that the abelian
background (A.7) has topological charge 1/2. This can be seen by recalling that the
topological charge only depends on the transition functions. Its fractional nature is
owing to the nonzero twists n12 = n34 = 1. 2. In addition, it also follows from (A.8), that for a “symmetric” T4 — one where
L1L2 = L3L4 — the background (A.7) is self-dual and hence stable, i.e. it has minimal
action for the given topological charge. The action of the self-dual abelian solution is
S0 = 4π2
g2 , half that of the BPST instanton. 3. For use below, it is convenient to introduce the variables 3. For use below, it is convenient to introduce the variables 3. For use below, it is convenient to introduce the variables (ˆz1, ˆz2, ˆz3, ˆz4) ≡
z1 + 2πx2
L2
, z2 −2πx1
L1
, z3 + 2πx4
L4
, z4 −2πx3
L3
(A.9) (A.9) The ˆz-variables are important since all gauge invariants characterizing the nonabelian
instanton background depend on ˆzn only. In the gauge we are using, the fact that
the background depends on ˆz1, ˆz3 is already evident in (A.7). The appearance of the
combinations ˆz2, ˆz4 follows from the action of translations in x1 and x3: in order to
preserve the transition functions, an x1, x3 translation is accompanied by a non-Ω-
periodic gauge transformation which shifts z2 and z4. This ensures that all gauge
invariant quantities only depend on ˆzn.30 The ˆz-variables are important since all gauge invariants characterizing the nonabelian
instanton background depend on ˆzn only. In the gauge we are using, the fact that
the background depends on ˆz1, ˆz3 is already evident in (A.7). The appearance of the
combinations ˆz2, ˆz4 follows from the action of translations in x1 and x3: in order to
preserve the transition functions, an x1, x3 translation is accompanied by a non-Ω-
periodic gauge transformation which shifts z2 and z4. A
Constructing instantons on the asymmetric T4 with twists The periodicity condition on the gauge fields
in R4 define the T4 fields: A(x + ˆenLn) = Ωn(x)(A(x) −id)Ω−1
n (x),
n = 1, 2, 3, 4,
∀x ∈R4,
(A.4) (A.4) where we denoted A(x) =
4P
n=1
An(x)dxn. The Euclidean path integral is performed over
fields obeying (A.4), with fixed transition functions Ωn(x). Gauge transformations g(x) ∈
SU(2), x ∈R4 act on the gauge field the usual way29 while their action on transition
functions is Ωn(x) →g(x + ˆenLn)Ωn(x)g−1(x) ,
n = 1, 2, 3, 4,
∀x ∈R4. (A.5) (A.5) Gauge transformations g(x) which leave the transition functions invariant will be called
“Ω-periodic.” With our choice of gauge for the transition functions, Ω-periodic gauge
transformations g(x) are periodic in x1 and x3 but not in x2 and x4. The only constant
Ω-periodic transformations are the abelian ones, g = eiατ 3. For future use, we note that a fundamental-representation Wilson loop along a unit-
winding loop C1 (winding once along xn) is W(C1, x) = tr
Pe
i
x+ˆenLn
R
x
Ak(x′)dx′
k
Ωn(x)
. (A.6) (A.6) Here, the insertion of Ωn(x) ensures invariance under (A.5). Here, the insertion of Ωn(x) ensures invariance under (A.5). 29Our convention for gauge transformations, A(x) →g(x)(A(x) −id)g−1(x), implies Fmn = ∂mAn −
∂nAm + i[Am, An] and Dmφ = ∂mφ + i[Am, φ] for any adjoint φ. Adjoint fermions obey the same periodicity
conditions as (A.4), but without the inhomogeneous term. – 26 – A particular field configuration obeying (A.4) is the constant field strength Abelian
background, the “fractional instanton” introduced by ’t Hooft, see [15, 46, 64]: ¯An(x, z) = ¯A3
n(x, z)τ 3
2 :
¯A3
1 = 2πx2
L1L2
+ z1
L1
,
(A.7)
¯A3
2 = z2
L2
,
¯A3
3 = 2πx4
L3L4
+ z3
L3
,
¯A3
4 = z4
L4
. (A.7) JHEP01(2023)118 4
Here, zn are constants whose significance as collective coordinates associated with the instan-
ton will be discussed at length later. The field strength of the abelian background (A.7) is: F (0)
mn = τ 3
2
0
−
2π
L1L2
0
0
2π
L1L2
0
0
0
0
0
0
−
2π
L3L4
0
0
2π
L3L4
0
. A.1
Constructing the self-dual fractional instanton for small ∆ As explained in the main text, there are issues regarding the abelian solution in the tuned
T4 that have not yet been addressed in full. Notably, they concern the lifting of the extra
bosonic zero modes (found in [46]) present in the L1L2 = L3L4 limit. These issues, as well
as our desire to probe the more interesting asymmetric T4 limit31 prompt us to introduce a
“detuning” parameter ∆, which we define as follows ∆= L3L4 −L1L2
√L1L2L3L4
= L3L4 −L1L2
√
V
. (A.10) (A.10) We always take L3L4 > L1L2, i.e. ∆> 0. For small positive ∆, a nonabelian solution of
the self-duality equations has been constructed as a series expansion in powers of
√
∆[1],
with the leading contribution being the abelian background (A.7). We always take L3L4 > L1L2, i.e. ∆> 0. For small positive ∆, a nonabelian solution of
the self-duality equations has been constructed as a series expansion in powers of
√
∆[1],
with the leading contribution being the abelian background (A.7). JHEP01(2023)118 In this section, we exhibit this solution, to the leading nontrivial order in ∆, us-
ing our notation and carefully including the dependence on zn. To begin, consider the
classical background An(x, z) =
¯A3
n(x, z) + Sn(x, z)
τ 3
2 + Wn(x, z)τ + + W ∗
n(x, z)τ −,
(A.11) (A.11) where S, W are the deviations from the abelian background, to be determined in terms of
an expansion in
√
∆. Let us momentarily denote them by an ≡Sn τ 3
2 +Wnτ + +W ∗
nτ −. The
construction of the self-dual solution on the asymmetric torus by means of an expansion
in ∆proceeds by imposing a self-duality condition on the field strength of (A.11) and
solving the resulting equations in a series expansion in
√
∆[1]. In order to solve for an, it
is subjected to the background-Lorentz gauge condition: Dn( ¯A)an = ∂nan + i[ ¯An, an] = 0, or in components:
(A.12)
∂Sn
0 Dn( ¯A)an = ∂nan + i[ ¯An, an] = 0, or in components:
(A.12)
∂nSn = 0,
3[pt]
∂n + i ¯A3
n
W n = 0. (A.12) Further, the boundary conditions (A.4) imply that Sn is periodic in all xn, while Wn is
periodic in x1 and x3, but not in x2 and x4. A
Constructing instantons on the asymmetric T4 with twists This ensures that all gauge
invariant quantities only depend on ˆzn.30 30For example, a translation x1 →x1 +ϵ1 is accompanied by g1(ϵ1, x2) = e
i2π ϵ1x2
L1L2
τ3
2 ensuring that Ω2(x1)
is invariant: as per (A.5), Ω2(x1) transforms into g1(x2 = L2)Ω2(x1 + ϵ1)g−1
1 (x2 = 0) = Ω2(x1). At the
same time, the g1 action on ¯A shifts z2 →z2 −2πϵ1
L1 , showing that the variable ˆz2 = z2 −2πx1
L1
is invariant
under the combined action of g1 and translation eϵ1∂1. Our nonabelian solution also exhibits this property:
considering, for example, its W1 component of eq. (A.40), we observe that it is invariant under the combined
action of translation of x1, the shift of z2 given above, and a gauge transformation by g1, which multiplies
W1 by a phase. Gauge invariants built from the solution will then only depend on the ˆzn combinations. – 27 – A.1
Constructing the self-dual fractional instanton for small ∆ 31This is because the asymmetric T4 connects to various semiclassical limits that have been discussed in
the literature, see the main text. A.1
Constructing the self-dual fractional instanton for small ∆ Explicitly the boundary conditions are Further, the boundary conditions (A.4) imply that Sn is periodic in all xn, while Wn is
periodic in x1 and x3, but not in x2 and x4. Explicitly the boundary conditions are Sn(x + ˆekLk) = Sn(x), ∀k,
(A.13)
Wn(x + ˆe1L1) = Wn(x),
Wn(x + ˆe2L2) = e−i 2πx1
L1 Wn(x),
Wn(x + ˆe3L3) = Wn(x),
Wn(x + ˆe4L4) = e−i 2πx3
L1 Wn(x). (A.13) To proceed with the construction of the instanton on the twisted asymmetric T4,
following [1], we calculate the field strength of (A.11), set its antiselfdual part to zero, and 31This is because the asymmetric T4 connects to various semiclassical limits that have been discussed in
the literature, see the main text. – 28 – solve the equations imposing self-duality in a series expansion in powers of
√
∆. To write
the subsequent equations, it is convenient to use a quaternion notation. Thus, we introduce
the matrices32 solve the equations imposing self-duality in a series expansion in powers of
√
∆. To write
the subsequent equations, it is convenient to use a quaternion notation. Thus, we introduce
the matrices32 w = σnWn , where σn = (i⃗σ, 12×2), ¯σn = (σn)† ,
(A.14) (A.14) s = σnSn , wc = Cw∗C , where C =
0 −i
i 0
! . Here ⃗σ are the usual Pauli matrices, acting in spinor space, not to be confused with the
τ 3, τ ± group generators from earlier. In terms of the matrices (A.14), the condition that
the field strength of (A.11) be self dual is Fmn¯σmσn = 0. This, using (A.12), becomes Here ⃗σ are the usual Pauli matrices, acting in spinor space, not to be confused with the
τ 3, τ ± group generators from earlier. In terms of the matrices (A.14), the condition that
the field strength of (A.11) be self dual is Fmn¯σmσn = 0. This, using (A.12), becomes JHEP01(2023)118 Fmn¯σmσn = 0 =⇒¯σn∂ns = 2π∆
√
V
iτ 3 −i(w†
cwc −w†w),
(A.15)
and ¯σn(∂n + i ¯A3
n)w = −i
2(s†w −w†
cs). (A.15) The self-duality equations (A.15) admit a solution as a series expansion in the T4 detuning
parameter ∆(A.10), The self-duality equations (A.15) admit a solution as a series expansion in the T4 detuning
parameter ∆(A.10), w = ∆1/2 w1 + ∆3/2 w2 + ∆5/2 w3 + . . . 32The n = 1, 2, 3 components of the four-vector matrix σn defined here should not be confused with
⃗σ = {σa, a = 1, 2, 3} = (σ1, σ2, σ3), the usual Pauli matrices. We use lower-case indices a = 1, 2, 3 to denote
the usual Pauli matrices σa and reserve τ a for the SU(2) generators. A.1
Constructing the self-dual fractional instanton for small ∆ (A.20) (A.20) Before we continue, we note that (A.20) together with (A.18) implies that the norm of w1
on T4 can be expressed as an R2-integral Before we continue, we note that (A.20) together with (A.18) implies that the norm of w1
on T4 can be expressed as an R2-integral ||w1|| ≡
Z
T 4 d4x tr w†
1w1 =
X
n1,n3
L2
Z
0
dx2
L4
Z
0
dx4 tr
wn1,n3
1
†wn1,n3
1
=
∞
Z
−∞
dx2
∞
Z
−∞
dx4 tr u†
1(x2, x4)u1(x2, x4) . (A.21) JHEP01(2023)118 (A.21) Thus, finiteness of ||w1|| implies that the elements of the quaternion u1(x2, x4) should be
square-normalizable functions on the R2-plane spanned by x2, x4. Any complete basis of
such functions on R2 can be used, but below, we shall argue that an especially convenient
basis is given by appropriately chosen simple harmonic oscillator eigenfunctions. Continuing with our self-duality equations (A.17), now the second equation in (A.17)
together with (A.20) implies that
∂4 + i z4
L4
+
2π
L3L4
x4 −
n3 −z3
2π
L4
−
∂2 + i z2
L2
+
2π
L1L2
x2 −
n1 −z1
2π
L2
∂2 + i z2
L2
+
2π
L1L2
x2 −
n1 −z1
2π
L2
∂4 + i z4
L4
−
2π
L3L4
x4 −
n3 −z3
2π
L4
× u1(x2 −n1L2, x4 −n3L4) = 0 . (A.22) The holonomies in the partial derivatives can be absorbed by defining a new quaternion
˜u1(x2 −n1L2, x4 −n3L4) by means of the redefinition he holonomies in the partial derivatives can be absorbed by defining a new quaternion
(x2 −n1L2, x4 −n3L4) by means of the redefinition u1(x2 −n1L2, x4 −n3L4) = e−i z2
L2 (x2−n1L2)−i z4
L4 (x4−n3L4)˜u1(x2 −n1L2, x4 −n3L4). ( u1(x2 −n1L2, x4 −n3L4) = e−i z2
L2 (x2−n1L2)−i z4
L4 (x4−n3L4)˜u1(x2 −n1L2, x4 −n3L4). A.1
Constructing the self-dual fractional instanton for small ∆ ,
(A.16)
s = ∆s1 + ∆2 s2 + ∆3 s3 + . . . . (A.16) The difference in powers of
√
∆in the series for w and s follows by the structure of the
self-duality equations (A.15). Here, we shall study only the leading-order solution. To exhibit it explicitly, we
substitute the expansions in (A.16) in (A.15) and keeping the leading term in each equation,
we find that s1, w1 obey ¯σn∂ns1 = 2π
√
V
iτ 3 −i
w†
1cw1c −w†
1w1
,
(A.17)
i ¯A3
0 ¯σn∂ns1 = 2π
√
V
iτ 3 −i
w†
1cw1c −w†
1w1
,
(A.17)
¯σn
∂n + i ¯A3
n
w1 = 0 . (A.17) ¯σn
∂n + i ¯A3
n
w1 = 0 . We begin with the equation for w1 — the complex quaternion σmWm, obeying the boundary
conditions (A.13). Periodicity in x1, x3 is obeyed by writing a Fourier series We begin with the equation for w1 — the complex quaternion σmWm, obeying the boundary
conditions (A.13). Periodicity in x1, x3 is obeyed by writing a Fourier series w1 =
∞
X
n1,n3=−∞
e
−i2π
n1
x1
L1 +n3
x3
L3
wn1,n3
1
(x2, x4),
(A.18) (A.18) while the conditions wn1,n3
1
(x2 + L2, x4) = wn1+1,n3
1
(x2, x4) ,
(A.19)
wn1,n3
1
(x2, x4 + L4) = wn1,n3+1
1
(x2, x4) , (A.19) 32The n = 1, 2, 3 components of the four-vector matrix σn defined here should not be confused with
⃗σ = {σa, a = 1, 2, 3} = (σ1, σ2, σ3), the usual Pauli matrices. We use lower-case indices a = 1, 2, 3 to denote
the usual Pauli matrices σa and reserve τ a for the SU(2) generators. – 29 – – 29 – ensure the rest of (A.13) and, by induction, imply that all wn1,n3 can be expressed via a
single function, ensure the rest of (A.13) and, by induction, imply that all wn1,n3 can be expressed via a
single function, wn1,n3
1
(x2, x4) = u1(x2 −n1L2, x4 −n3L4). 33With appropriately shifted center, as in the argument of ˜u1 below, a fact which we do not make explicit
for brevity. A.1
Constructing the self-dual fractional instanton for small ∆ (A.28) It is then clear that this equation is satisfied by ˜u1 given by the product of ground state
wave functions of the ω12 and ω34 SHOs times a constant 2 × 2 matrix C1: It is then clear that this equation is satisfied by ˜u1 given by the product of ground state
wave functions of the ω12 and ω34 SHOs times a constant 2 × 2 matrix C1: ˜u1 = h12
0
x2 −
n1 −z1
2π
L2
h34
0
x4 −
n3 −z3
2π
L4
C1,
(A.29) (A.29) where C1 obeys, as a consequence of (A.28) where C1 obeys, as a consequence of (A.28) 0 √2ω12
0 −√2ω34
! C1 = 0 =⇒C1 =
a b
0 0
! ,
(A.30) (A.30) with arbitrary complex numbers a, b. Before continuing, let us make the following important remark: Before continuing, let us make the following important remark: • We stress that (A.29), (A.30) is the unique solution and not simply a consistent
one. Because of the R2-normalizability (A.21), any solution can be expressed in
terms of ω12 and ω34 SHO eigenfunctions. Explicitly, for the ab-th element of the
quaternion ˜u1, we have ˜u1 ab(x2, x4) =
∞
P
n,m=0
cnm
ab h12
n (x2)h34
m(x4). Plugging into (A.28)
and using (A.26), (A.27) one finds a set of linear equations for the constants cnm
ab : • We stress that (A.29), (A.30) is the unique solution and not simply a consistent
one. Because of the R2-normalizability (A.21), any solution can be expressed in
terms of ω12 and ω34 SHO eigenfunctions. Explicitly, for the ab-th element of the
quaternion ˜u1, we have ˜u1 ab(x2, x4) =
∞
P
n,m=0
cnm
ab h12
n (x2)h34
m(x4). Plugging into (A.28)
and using (A.26), (A.27) one finds a set of linear equations for the constants cnm
ab : √ω34 cp,q+1
11
p
q + 1 + √ω12 cp−1,q
21
√p = 0,
for p, q = 0, 1, 2, 3 . . . ,
√ω34 cp,q+1
12
p
q + 1 + √ω12 cp−1,q
22
√p = 0,
√ω12 cp+1,q
11
p
p + 1 −√ω34 cp,q−1
21
√q = 0,
√ω12 cp+1,q
12
p
q + 1 −√ω34 cp,q−1
22
√q = 0. A.1
Constructing the self-dual fractional instanton for small ∆ (A.23)
Using this, equation (A.22) becomes (A.23) Using this, equation (A.22) becomes Using this, equation (A.22) becomes
∂4 +
2π
L3L4
x4 −
n3 −z3
2π
L4
−∂2 +
2π
L1L2
x2 −
n1 −z1
2π
L2
∂2 +
2π
L1L2
x2 −
n1 −z1
2π
L2
∂4 −
2π
L3L4
x4 −
n3 −z3
2π
L4
× ˜u1 (x2 −n1L2, x4 −n3L4) = 0 .
∂4 +
2π
L3L4
x4 −
n3 −z3
2π
L4
−∂2 +
2π
L1L2
x2 −
n1 −z1
2π
L2
∂2 +
2π
L1L2
x2 −
n1 −z1
2π
L2
∂4 −
2π
L3L4
x4 −
n3 −z3
2π
L4
× ˜u1 (x2 −n1L2, x4 −n3L4) = 0 . (A.24) (A.24) As already alluded to, we now recognize that the first order differential operators
appearing above are the creation and annihilation operators of simple harmonic oscillators
(SHO) of frequencies 2π/(L1L2) and 2π/(L3L4). Let hij
p (x) be the normalized p-th state of
the SHO of frequency
2 ωij =
2π
LiLj
. (A.25) (A.25) – 30 – – 30 – The relations that we need in what follows are the orthonormality relations ∞
Z
−∞
dxhij
n (x)hij
m(x) = δnm , n, m = 0, 1, 2 . . . ,
(A.26) (A.26) as well as the raising and lowering operators which obey the usual equations s
LiLj
4π
"
∂x +
2π
LiLj
x
#
hij
n (x) = √n hij
n−1(x)
↔
Aij|n⟩ij = √n|n −1⟩ij,
s
LiLj
4π
"
−∂x +
2π
LiLj
x
#
hij
n (x) =
√
n + 1 hij
n+1(x)
↔
A†
ij|n⟩ij =
√
n + 1|n + 1⟩ij ,
(A.27) JHEP01(2023)118 (A.27) where we have indicated that the differential operators in the middle and bottom line are
the familiar lowering and raising operators Aij, A†
ij of SHOs of frequencies ωij (A.25). In
terms of A12, A†
12, A34, A†
34,33 we can rewrite (A.24) as √2ω34A34
√2ω12A†
12
√2ω12A12 −√2ω34A†
34
! ˜u1
x2 −
n1 −z1
2π
L2, x4 −
n2 −z3
2π
L2
= 0 . A.1
Constructing the self-dual fractional instanton for small ∆ (A.31) (A.31) 33With appropriately shifted center, as in the argument of ˜u1 below, a fact which we do not make explicit
for brevity. – 31 – One begins by noticing that c00
11 and c00
12 do not appear above (this is easy to see
by inspection recalling the range of p, q, which ensure that terms containing the
nonexistent coefficients, like c−1,∗
∗∗
, are always multiplied by 0). Then, recursively
solving the equations, one finds that their only solution is that all cnm
ij
vanish except
for the two that do not appear in equations (A.31), the undetermined c00
11 and c00
12,
called a and b in (A.29). Let us flesh out the argument. We consider the first and third equations in (A.31); the
second and fourth can be considered similarly and are left as an exercise. First notice
that (A.31) imply that c0,p
11 = cp,0
11 = 0 for p = 1, 2, 3 . . .. Further, denote δ =
qω12
ω34
and shift the p’s and q’s in (A.31) such that both equations involve cp,q
11 we find JHEP01(2023)118 cp,q
11
√q + δcp−1,q−1
21
√p = 0,
(A.32)
cp,q
11
√p −1
δ cp−1,q−1
21
√q = 0. (A.32) Next, we multiply the top equation by √p and the bottom by √q, subtract them,
and find
q Next, we multiply the top equation by √p and the bottom by √q, subtract them,
and find
q cp−1,q−1
21
(pδ + q
δ) = 0. (A.33) (A.33) Recalling that the appropriate range for p, q in (A.33) is 1, 2, 3 . . ., this implies that
all c21’s vanish. Hence by (A.32), all cp,q
11 with (p, q) ̸= (0, 0) vanish as well. Recalling that the appropriate range for p, q in (A.33) is 1, 2, 3 . . ., this implies that
all c21’s vanish. Hence by (A.32), all cp,q
11 with (p, q) ̸= (0, 0) vanish as well. We next turn to the first of the self-duality equations in (A.17). Since s1 is periodic,
the r.h.s. of the equation has no constant Fourier mode. Thus, consistency implies that the
constant mode of the r.h.s. vanishes as well; this will be seen to fix the coefficients a, b in
terms of the volume of the torus up to an overall phase. A.1
Constructing the self-dual fractional instanton for small ∆ To determine them, let us collect
everything — in reverse order, eqs. (A.29), (A.24), (A.23), (A.20), and (A.18)—and exhibit
the full solution for w1 we found so far: w1 = F(x, z)C1 = F(x, z)
a b
0 0
! ,
(A.34) (A.34) where where F(x, z) =
p
L2L4
∞
X
n1,n3=−∞
e−i2π(n1
x1
L1 +n3
x3
L3 )e−i z2
L2 (x2−n1L2)−i z4
L4 (x4−n3L4)
× h12
0
x2 −
n1 −z1
2π
L2
h34
0
x4 −
n3 −z3
2π
L4
,
(A.35) F(x, z) =
p
L2L4
∞
X
n1 n3=
∞
e−i2π(n1
x1
L1 +n3
x3
L3 )e−i z2
L2 (x2−n1L2)−i z4
L4 (x4−n3L4) 1,
3
× h12
0
x2 −
n1 −z1
2π
L2
h34
0
x4 −
n3 −z3
2π
L4
,
(A.35) with the normalization Z
T 4 |F|2 = V,
(A.36) Z
T 4 |F|2 = V, (A.36) recalling (A.27). Note that F is dimensionless and a, b have dimension one. In addition,
under the reflection of all xn and all zn, after relabeling n1, n3 →−n1, −n3 and noting that
hij
0 are even functions of their arguments, we find recalling (A.27). Note that F is dimensionless and a, b have dimension one. In addition,
under the reflection of all xn and all zn, after relabeling n1, n3 →−n1, −n3 and noting that
hij
0 are even functions of their arguments, we find F(−x, −z) = F(x, z) . (A.37) (A.37) – 32 – – 32 – With (A.34), (A.35), we have that the vanishing constant mode of ∂s from equa-
tion (A.17) implies that 2π
√
V τ 3 = (C†
cCc −C†C)
Z
T 4
d4x|F(x, z)|2 , or
2π
√
V
1 0
0 −1
! =
|b|2 −|a|2
−2a∗b
−2ab∗
|a|2 −|b|2
! V . (A.38) 2π
√
V
1 0
0 −1
! =
|b|2 −|a|2
−2a∗b
−2ab∗
|a|2 −|b|2
! V . (A.38) (A.38) We thus conclude that a = 0 while |b|2 =
2π
V 1/2 . Thus, our solution has the form JHEP01(2023)118 w(x, z) = σnWn =
√
∆w1(x, z) =
√
∆F(x, z)eiα (2π)1/2
V 1/4
0 1
0 0
! 34As stressed above, we shall not need its explicit form, but only the relations it satisfies, which are
important to ensure self-duality. A.1
Constructing the self-dual fractional instanton for small ∆ (A.42) (A.42) – 33 – – 33 – The consistency of this equation (the absence of a constant Fourier mode of the r.h.s.)
discussed above is yet again seen to follow from (A.36). We also note that equation (A.42)
allows adding a constant to s1; this is a contribution to the constants zn, already included
in our background (A.7). To solve (A.42), we multiply by σm∂m to obtain ∂n∂ns1 = −iσmτ 3 2π
√
V
(F ∗∂mF + F∂mF ∗) . (A.43) (A.43) This equation is solved by expanding both s1 and the r.h.s. in Fourier modes in x1 . . . x4 and
equating the coefficients. This can be explicitly done and a unique s1 can be written down,
but we shall not need the explicit form here. As we mentioned in section 1.3, understanding
the higher orders in the ∆expansion is an interesting problem for future studies. JHEP01(2023)118 A.1
Constructing the self-dual fractional instanton for small ∆ + O(∆) ,
s(x, z) = σnSn = O(∆) , w(x, z) = σnWn =
√
∆w1(x, z) =
√
∆F(x, z)eiα (2π)1/2
V 1/4
0 1
0 0
! + O(∆) , (A.39) with the phase α due to the gauge freedom to rotate around the τ 3 isospin direction. / with the phase α due to the gauge freedom to rotate around the τ 3 isospin direction. with the phase α due to the gauge freedom to rotate around the τ 3 isospin direction. Before we continue, let us exhibit the self-dual solution we found, eq. (A.39), w = ∆1/2w1
in terms of the 4-vector gauge potentials, Wn, Sn of (A.11): Before we continue, let us exhibit the self-dual solution we found, eq. (A.39), w = ∆1/2w1
in terms of the 4-vector gauge potentials, Wn, Sn of (A.11): Sn = O(∆) ,
W1(x, z, α) = −i
2
√
∆F(x, z)eiα
√
2π
V 1/4 + O(∆3/2) ≡−γeiαF(x, z), where γ ≡i
2
s
2π∆
√
V
,
W2(x, z, α) = 1
2
√
∆F(x, z)eiα
√
2π
V 1/4 + O(∆3/2) = iW1 + O(∆3/2),
W3 = O(∆3/2),
W4 = O(∆3/2). (A.40) W4 = O(∆3/2). (A.40) (A.40) We note that the above implies that the only gauge-field zero modes in our background
are the one due to translations (corresponding to shifting zn) and constant gauge rotations
around τ 3 (corresponding to shifts of α). The former are physical and gauge invariant
quantities characterizing the solution will be seen to depend on zn, while the latter are
gauge artifacts with no physical quantity exhibiting α-dependence. For calculating the action density and gauge-invariant “electric” and “magnetic” fields
to leading nontrivial order, one also needs the expression for S1, which was not given
in (A.40). Here we simply describe how this can be found. We have, with w1 from (A.39) w1 = F
0 b
0 0
! ,
b = eiα
√
2π
V
1
4
=⇒w†
1w1 = |F|2
0
0
0 |b|2
! ,
w1c = F ∗
0
0
−b∗0
! =⇒w†
1cw1c = |F|2
|b|2 0
0
0
! . (A.41) Hence, from the top equation in (A.17), we obtain the equation for s1: ¯σn∂ns1 = iτ 3 2π
√
V
1 −|F(x, z)|2
. A.2
The field strength tensor of the fractional instanton to order ∆ Combining this with the results for F s
mn from (A.46), we find F (0+1(s))
mn
= τ 3
2
0
−
2π
L1L2 + ∆F s
12
∆F s
13
∆F s
14
2π
L1L2 −∆F s
12
0
∆F s
14
−∆F13
−∆F s
13
−∆F s
14
0
−
2π
L3L4 + ∆F s
34
−∆F s
14
∆F s
13
2π
L3L4 −∆F s
34
0
,
(A.47) F (0+1(s))
mn
= τ 3
2
0
−
2π
L1L2 + ∆F s
12
∆F s
13
∆F s
14
2π
L1L2 −∆F s
12
0
∆F s
14
−∆F13
−∆F s
13
−∆F s
14
0
−
2π
L3L4 + ∆F s
34
−∆F s
14
∆F s
13
2π
L3L4 −∆F s
34
0
,
(A.47) (A.47) (A.47) JHEP01(2023)118 where F s
34 is understood to be expressed via F s
12 through the first equation in (A.46) 34
12
(
)
To study the complete field strength tensor in the τ 3 direction to order ∆, we must
add to (A.47) the O(∆) contribution to the τ 3 field strength coming from the commu-
tator F (1(w))
mn
= i[Wmτ + + W ∗
mτ −, Wnτ + + W ∗
nτ −] =
τ 3
2 2i(WmW ∗
n −W ∗
mWn). For the
background (A.40), this is only nonzero for F (1(w))
12
. We find F (1(w))
12
= −F (1(w))
21
= τ 3
2
2π∆
√
V
|F(x, z)|2 , all other F (1(w))
mn
= 0. (A.48) (A.48) Most of the terms in (A.47) obey self-duality because of F (0+1(s))
13
= −F (0+1(s))
24
and
F (0+1(s))
23
= F (0+1(s))
14
as is evident from (A.47), (A.46). The only terms left to consider are
the 12 and 34 entries. To study their self-duality, we write, using the top equation in (A.46) Most of the terms in (A.47) obey self-duality because of F (0+1(s))
13
= −F (0+1(s))
24
and
F (0+1(s))
23
= F (0+1(s))
14
as is evident from (A.47), (A.46). A.2
The field strength tensor of the fractional instanton to order ∆ To find the gauge invariants of the solution to order ∆, we need the field strength of
s1, namely34 F s
nm ≡(∂nSm −∂mSn) ,
(A.44) (A.44) where for brevity we use Sn to denote the coefficient of the O(∆) part of Sn. The l.h.s. of (A.42) has the form where for brevity we use Sn to denote the coefficient of the O(∆) part of Sn. The l.h.s. of (A.42) has the form
−i∂3 + ∂4 −i∂1 −∂2
−i∂1 + ∂2
i∂3 + ∂4
iS3 + S4 iS1 + S2
iS1 −S2 −iS3 + S4
−i∂3 + ∂4 −i∂1 −∂2
−i∂1 + ∂2
i∂3 + ∂4
iS3 + S4 iS1 + S2
iS1 −S2 −iS3 + S4
=
∂nSn + i(F s
12 −F s
34)
−F s
13 −F s
24 + i(F s
23 −F s
14)
F s
13 + F s
24 + i(F s
23 −F s
14)
∂nSn −i(F s
12 −F s
34)
. (A.45) =
∂nSn + i(F s
12 −F s
34)
−F s
13 −F s
24 + i(F s
23 −F s
14)
F s
13 + F s
24 + i(F s
23 −F s
14)
∂nSn −i(F s
12 −F s
34)
. (A.45) (A.45) Comparing with the r.h.s. of (A.42), using ∂nSn = 0, we conclude that Comparing with the r.h.s. of (A.42), using ∂nSn = 0, we conclude that F s
12 −F s
34 = 2π
√
V
1 −|F(x, z)|2,
F s
13 + F s
24 = 0,
F s
23 −F s
14 = 0. (A.46) (A.46) Note that these terms should be multiplied by ∆. Also note that these equations by
themselves do not determine the individual F s
12, F s
34 (etc.) but only their non-self-dual
parts. To find the individual F s
mn, we need to solve (A.43) to first find s1. – 34 – The field strength of the O(1) abelian background (A.7) is F (0)
mn, already given in (A.8). Combining this with the results for F s
mn from (A.46), we find The field strength of the O(1) abelian background (A.7) is F (0)
mn, already given in (A.8). A.2
The field strength tensor of the fractional instanton to order ∆ The only terms left to consider are
the 12 and 34 entries. To study their self-duality, we write, using the top equation in (A.46) F (0+1(s))
12
−F (0+1(s))
34
= τ 3
2
−2πL3L4 −L1L2
V
+ ∆(F s
12 −F s
34)
= τ 3
2
−2π ∆
√
V
+ 2π ∆
√
V
(1 −|F(x, z)|2
= −τ 3
2
2π∆
√
V
|F(x, z)|2 . (A.49) F (0+1(s))
12
−F (0+1(s))
34
= τ 3
2
−2πL3L4 −L1L2
V
+ ∆(F s
12 −F s
34)
= τ 3
2
−2π ∆
√
V
+ 2π ∆
√
V
(1 −|F(x, z)|2
3 2 ∆ = −τ 3
2
2π∆
√
V
|F(x, z)|2 . (A.49) (A.49) This non-selfdual contribution to F (0+1(s))
mn
is cancelled by the O(∆) contribution of the Wn
shown in (A.48). Displayed in full glory, the Cartan part of the field strength to order ∆is given by the
sum of (A.47) and (A.48): F (0+1)
mn
Cartan =
0
−
2π
L1L2 +∆(F s
12+ 2π
√
V |F(x,z)|2)
∆F s
13
∆F s
14
2π
L1L2 −∆(F s
12+ 2π
√
V |F(x,z)|2)
0
∆F s
14
−∆F13
−∆F s
13
−∆F s
14
0
−
2π
L3L4 +∆F s
34
−∆F s
14
∆F s
13
2π
L3L4 −∆F s
34
0
. (A.50) F (0+1)
mn
Cartan = – 35 – We stress again that F s
34 is understood to be expressed via F s
12 through (A.46), a substitution
we have not explicitly done for lack of space. Further, the above expression is understood
to be multiplied by τ 3/2 and the undertermined F s
mn are found by solving (A.43). We stress again that F s
34 is understood to be expressed via F s
12 through (A.46), a substitution
we have not explicitly done for lack of space. Further, the above expression is understood
to be multiplied by τ 3/2 and the undertermined F s
mn are found by solving (A.43). The non-Cartan part of the solution, the Wn from (A.40) also produce a non-Cartan
field strength. A.2
The field strength tensor of the fractional instanton to order ∆ The O(
p
∆) field strength due to Wn is F (1)
mn = (∂m + i ¯A3
m)Wnτ + + (∂m −
i ¯A3
m)W ∗
nτ −−(m ↔n). It is self-dual by itself and the O(
p
∆) field strength of Wn
is the only non-Cartan contribution to order ∆(the next non-Cartan contribution is of
order ∆3/2): F (1)
mn =
0
0
F (1)
13
F (1)
14
0
0
F (1)
14 −F (1)
13
−F (1)
13 −F (1)
14
0
0
−F (1)
14
F (1)
13
0
0
. (A.51) F (1)
mn =
0
0
F (1)
13
F (1)
14
0
0
F (1)
14 −F (1)
13
−F (1)
13 −F (1)
14
0
0
−F (1)
14
F (1)
13
0
0
. (A.51) JHEP01(2023)118 JHEP01(2023)118 (A.51) The nonzero entries of (A.51) are The nonzero entries of (A.51) are The nonzero entries of (A.51) are F (1)
13 = −iγ∗eiα
rω34
2 G(x, z)τ + + iγe−iα
rω34
2 G∗(x, z)τ −,
(A.52)
F (1)
14 = γ∗eiα
rω34
2 G(x, z)τ + + γe−iα
rω34
2 G∗(x, z)τ −, (A.52) where we shouldn’t forget that γ ∼
√
∆, as γ = i
2
q
2π∆
√
V , as per (A.40). The function
G(x, z) is G(x, z) =
p
L2L4
∞
X
n1,n3=−∞
e−i2π(n1
x1
L1 +n3
x3
L3 )e−i z2
L2 (x2−n1L2)−i z4
L4 (x4−n3L4)
× h12
0
x2 −
n1 −z1
2π
L2
h34
1
x4 −
n3 −z3
2π
L4
,
(A.53) (A.53) where, just like F(x, z), G is dimensionless. where, just like F(x, z), G is dimensionless. In conclusion, the full field strength tensor of our solution, to order ∆, is given by the
Cartan part (A.50) and the non-Cartan part (A.51). Owing to the self-duality, the action
of the solution is S0 = 4π2
g2 , as can also be explicitly inferred from the explicit form of the
field strength. These properties of the solutions are useful in what follows. A.3
The gauge invariants of the fractional instanton background We now consider the zn-dependence of gauge invariants, both local and nonlocal (i.e. winding
Wilson loops) characterizing the solution. We begin with the zn dependence of local gauge invariants, formed of traces of powers
the field strength tensor. Using the data given above, we now compute ⟨E2
i ⟩≡
L3
Z
0
dx3
L4
Z
0
dx4 tr F 2
i4(x, z),
(A.54) (A.54) – 36 – calling it the “i-th component of the electric field squared,” averaged over x3 and x4.35
Omitting overall constants, for i = 1, we find for the leading contribution to (A.54), which
is O(∆): ⟨E2
1⟩∼
X
n1,m1
e−i2π(n1−m1) 1
L1
x1−z2L1
2π
h12
0
x2 + z1L2
2π
−n1L2
h12
0
x2 + z1L2
2π
−m1L2
∼
X
n1,m1
e−i2π(n1−m1) 1
L1
x1−z2L1
2π
e
−
π
L1L2
h x2+ z1L2
2π −n1L2
2+(x2+ z1L2
2π −m1L2)2i
. (A.55) The sum over m, n is rapidly converging and can be seen to produce localized bumps on T4
when plotted, periodic on R2 with period L1, L2 (usually a limit of −4 ≤m, n ≤4 suffices
to make the errors tiny and produces a periodic picture). The point of this discussion is to
illustrate two facts: JHEP01(2023)118 1. That all local gauge invariants characterizing our fractional instanton depend on the
combinations z2 −2πx1
L1
and z1 + 2πx2
L2
(this also holds for the dependence on z4 −2πx3
L2
and z3 + 2πx4
L4 , not shown above). 1. That all local gauge invariants characterizing our fractional instanton depend on the
combinations z2 −2πx1
L1
and z1 + 2πx2
L2
(this also holds for the dependence on z4 −2πx3
L2
and z3 + 2πx4
L4 , not shown above). 2. That, furthermore, the local gauge invariants have 2π periodicity in these variables. 2. That, furthermore, the local gauge invariants have 2π periodicity in these variable Next, we consider the zn dependence of winding Wilson loops. To order ∆0, with the
abelian background (A.7), this is a rather straightforward task. Consider a Wilson loop
beginning at some x, going along the x1 direction n1 times (i.e. from x to x + ˆe1n1L1), then
n2 times in the x2 direction, n3 times in the x3 direction, and n4 times in the x4 direction,
with the final point being x +
4P
k=1
ˆeknkLk. 35The averaging is done solely in order to shorten the formulae that we display. This was also done in [1],
when comparing the analytic solution to the numerical minimization of the action at given ∆. A.3
The gauge invariants of the fractional instanton background As an explicit simple example, consider the O(∆) contribution to W(C1,0,0,0), obtained
by expanding the path-ordered exponential and using the explicit form of the solution (A.40). Omitting the overall constant, we obtain36 JHEP01(2023)118 JHEP01(2023)118 W(C1,0,0,0)
O(∆)−contribution
(A.58)
∼cos ˆz1
2
X
n3
ein3ˆz4 h34
0 ( ˆz3L4
2π
−n3L4)
2
×
X
n1
e−in1ˆz2 h12
0 ( ˆz1L2
2π
−n1L2)
1
Z
0
dt eit(ˆz1−2πn1)
2
+ contribution of s1
. (A.58) The expression above illustrates the properties we mentioned earlier: as a function of ˆzn,
the O(∆) contribution multiplying the overall cos ˆz1
2 factor is 2π periodic. The expression above illustrates the properties we mentioned earlier: as a function of ˆzn,
the O(∆) contribution multiplying the overall cos ˆz1
2 factor is 2π periodic. A.3
The gauge invariants of the fractional instanton background The gauge invariant Wilson loop along the loop
Cn1,n2,n3,n4, beginning at x and consisting of the winding straight segments described above,
is given by W(Cn1,n2,n3,n4) = tr
Pe
iR
Cn1,n2,n3,n4
Ak(x′)dx′
k Ωn2
2 (x) Ωn4
4 (x)
,
(A.56) (A.56) where the nontrivial transition functions are inserted to ensure gauge invariance. ¯ The path-ordering can be disregarded for an abelian background (A of (A.7)) and o
can conclude that W ∆0 (Cn1,n2,n3,n4)
(A.57)
= 2 cos
1
2
n1
z1 + 2πx2
L2
+ n2
z2 −2πx1
L1
+ n3
z3 + 2πx4
L4
+ n4
z4 −2πx4
L2
. (A.57) (
n1,n2,n3,n4)
(
)
2 cos
1
2
n1
z1 + 2πx2
L2
+ n2
z2 −2πx1
L1
+ n3
z3 + 2πx4
L4
+ n4
z4 −2πx4
L2
. We now observe that the O(∆0) Wilson loops W ∆0
n1,n2,n3,n4 are periodic functions of the
variables ˆz1 ≡z1 + 2πx2
L2 , ˆz2 ≡z2 −2πx1
L1 , ˆz3 ≡z3 + 2πx4
L4 , ˆz4 ≡z4 −2πx3
L3 . However, in contrast
with the local gauge invariants, like the earlier (A.55), the periodicity in ˆzn is 4π, rather
than 2π. Thus, while local gauge invariants can not distinguish values of ˆzn differing by 2π,
nonlocal gauge invariant observables distinguish such values. These values are, therefore,
not physically equivalent. We now observe that the O(∆0) Wilson loops W ∆0
n1,n2 – 37 – We are led to conclude that the range of values of ˆzn which are distinguished by gauge
invariant quantities — and are thus physically distinct — is given by T4. In our description,
the T4 has “circumference” 4π, ˆzn ≡ˆzn + 4π. This fact is important in the calculation of
the gaugino condensate. It should be clear that the O(∆) (and higher) contributions to the Wilson loops (A.56),
which require taking the path ordering into account, are proportional to the same overall
factor as (A.57)—since they come upon expanding the path-ordered exponential. Thus,
eq. (A.57), is multiplied by (1 + O(∆)). The O(∆) terms are 2π periodic functions of ˆzn,
even with respect to their simultaneous reflection, not affecting our conclusion above. 37It should be clear that, to order O(∆0), the zero modes (B.1) already obey the background gauge
condition: the leading-order background is in the Cartan algebra and thus commutes with Z0,(p)
n
and,
furthermore, the leading-order zero modes (B.1) are constant. 36We indicated that there is an additional contribution of the Cartan-direction O(∆) component s1, which
we have not computed. However, since it is found by solving (A.43), whose r.h.s. is (schematically) ∼F ∗F
which has the same properties as the (also schematically) |W1|2 contribution shown in (A.58). B.1
Leading-order bosonic zero-modes and measure Here, we study the leading order bosonic zero modes and construct the O(∆0) bosonic zero
mode measure. In the following sections, we shall argue that the measure remains the same
to all orders in ∆. The bosonic zero modes are related to the dependence of the solution on zp. Their
leading-order wave functions are particularly simple Z0,(p)
n
= ∂Acl. n
∂zp
= δnp
Lp
τ3
2 + . . . (B.1) (B.1) As usual when performing semiclassical instanton calculations, we add a background Lorentz
gauge fixing term to the bosonic action37 and expand to second order in fluctuations am,
Am ≡Acl
m + am, Dm ≡Dm(Acl) = ∂m + i[Acl
m, ∗]. We stress that here Acl
m is the classical As usual when performing semiclassical instanton calculations, we add a background Lorentz
gauge fixing term to the bosonic action37 and expand to second order in fluctuations am,
Am ≡Acl
m + am, Dm ≡Dm(Acl) = ∂m + i[Acl
m, ∗]. We stress that here Acl
m is the classical 36We indicated that there is an additional contribution of the Cartan-direction O(∆) component s1, which
we have not computed. However, since it is found by solving (A.43), whose r.h.s. is (schematically) ∼F ∗F
which has the same properties as the (also schematically) |W1|2 contribution shown in (A.58). 37It should be clear that, to order O(∆0), the zero modes (B.1) already obey the background gauge
condition: the leading-order background is in the Cartan algebra and thus commutes with Z0,(p)
n
and,
furthermore, the leading-order zero modes (B.1) are constant. – 38 – solution on the asymmetric T4, taken to the desired order in ∆. Thus, we obtain the usual
action of the bosonic fluctuations solution on the asymmetric T4, taken to the desired order in ∆. Thus, we obtain the usual
action of the bosonic fluctuations Sb,g.f. =
Z
T 4
1
2g2 tr FmnFmn + 1
g2 tr (Dmam)2
(B.2)
≃4π2
g2 + 1
g2
Z
T 4 tr [anOnmam] , where Onmam = −D2δnmam −2i[Fnm, am]. (B.2) We include the rather well-known details that follow in order to motivate the inner product
of modes as well as to follow the factors of 2. Denote by Zk
m the nonzero-eigenvalue
eigenfunctions of Onm, i.e. B.1
Leading-order bosonic zero-modes and measure OnmZk
m = ωkZk
n and expand the nonzero-mode part of the
fluctuation am (for brevity, using the same letter as the full fluctuation which includes the
zero modes) as am = P
k ζkZk
m. Then we have that JHEP01(2023)118 Sb,g.f. −4π2
g2 =
X
l,k
ωlζkζl
2
2
g2
Z
T 4 tr Zk
mZl
m
≡
X
l,k
ωlζkζl
2
Ukl, where the last equation defines the zero-mode norm matrix Ukl, explicitly spelled out in (B.3)
below. We diagonalize the matrix Ukl with eigenvalues uk and define the measure of the
path integral over the nonzero modes as Q
k
dζk
√uk
√
2π , thus normalizing the path integral to
simply produce the product Q
k ω−1/2
k
. The upshot is that we defined the inner product (or
moduli space metric) Ukl = 2
g2
Z
T 4 tr Zk
nZl
n
(B.3) (B.3) which in a diagonal basis is simply Ukl = δlkul. which in a diagonal basis is simply Ukl = δlkul. ( ) We use the same inner product for the zero modes Z(0),p
n
of eq. (B.1), for which we find,
neglecting the O(
√
∆) contributions u(0)
k
=
V
g2L2
k
. (B.4) (B.4) As before, we expand the gauge field as An = Acl
n + P4
p=1 ζ(0)
p Z(0),p
n
+ (nonzero modes), and
define the measure over the zero modes as Q4
k=1 dζ(0)
k
r
u(0)
k
2π , the same as for the nonzero
modes. Taken at face value, this integral is undetermined until we find the region of
integration over ζ(0)
k . To change variables ζ(0)
k
→zk, we note that to leading order in
∆this is quite straightforward, since the dependence of Acl(z) on zk is linear hence one
simply replaces ζ(0)
k
by zk. These O(∆0) considerations allow us to obtain the bosonic zero-
mode measure dµB ≡
d4z
(
√
2π)4
4
Y
l=1
q
u(0)
l
= V
g4
dz1dz2dz3dz4
(
√
2π)4
. (B.5) (B.5) As described earlier, section A.3, the zn are integrated over in the range from 0 to 4π
modulo an overall reflection. We end this introductory discussion of bosonic zero modes with two comments: – 39 – 1. Eq. (B.5) was obtained by considering only the leading-order solution. B.1
Leading-order bosonic zero-modes and measure Our next task
is to show that the zero modes of the O(
√
∆) (and higher) solution enjoy the same
measure. We need to ensure that the background gauge condition can be satisfied
and that the change of variables from ζ(0)
k
to zn results in the same measure. 2. An additional question that needs to be discussed is the fact that for ∆= 0, the
self-dual abelian solution has extra non-Cartan zero modes, in addition to the constant
modes, as was found long ago [46]. In contrast, the asymmetric T4 self-dual solution
has only the zero modes discussed above, as we show below. JHEP01(2023)118 38All our notation regarding fermions is as in [25], save for the fact that ref. [25] uses antihermitean gauge
fields, necessitating the replacement Athat ref. = iAthis paper. The four-vectors σn, ¯σn were already defined
in (A.14). For futher use, notice, in particular, that σmn = (σm¯σn −σn¯σm)/4, and that these matrices
are, explicitly, σ12 = σ34 = i
2σ3, σ13 = −σ24 = −i
2σ2, σ14 = σ23 = i
2σ1. As we already noted, we use σa to
denote the usual Pauli matrices, not to be confused with the components of the four-vector σn of (A.14). 40This definition ensures that, upon perturbing with a zero-mode lifting mass term, δSm = m
g2 tr λαλα,
e obtains m for the zero-mode contribution to the path integral. B.2
Fermions and their zero-mode measure It is well-known (see e.g. [25, 26]) that there is a relation between the zero modes of the
adjoint Dirac operator and the zero modes of the bosonic fluctuation operator Omn of
eq. (B.2), to be exploited later. To this end, as well as because we are interested in the
theory with adjoint fermions, we now consider the adjoint fermions and their path integral
in the fractional instanton background. The Euclidean space Lagrangian density with the fermions included is 1
2g2 tr FmnFmn + 2
g2 tr (∂n¯λ ˙α + i[An, λ ˙α])¯σ ˙αα
n λα),
(B.6) (B.6) where λ and ¯λ are independent variables.38 For future use, we note that it is invariant
under the supersymmetry δAn = ζα σn α ˙α ¯λ ˙α + ¯ζ ˙α ¯σ ˙αα
n
λα
(B.7)
δλα = −σ
β
mn α ζβ Fmn
δ¯λ ˙α = −¯σ
˙α
mn
˙β ¯ζ
˙β Fmn (B.7) δ¯λ ˙α = −¯σ
˙α
mn
˙β ¯ζ
˙β Fmn δ¯λ ˙α = −¯σ
˙α
mn
˙β ¯ζ
˙β Fmn where the σ’s are the ones of [25]. As usual for spinors, ξ1 = ξ2, ξ2 = −ξ1 and likewise
for dotted. The procedure for the fermions we shall follow is to again start from the nonzero modes. We expand the fermions as eigenfunctions of the second order Hermitean operators The procedure for the fermions we shall follow is to again start from the nonzero mod
We expand the fermions as eigenfunctions of the second order Hermitean operators D ¯D = D2 + iFmnσmn ,
−(D ¯D) β
α λβ = ω2λβ
(B.8)
¯DD = D2 + iFmn¯σmn = D2,
D2¯λ
˙β = ω2¯λ
˙β , (B.8) where, in the second line, we used the self-duality of the background (A.15). To discuss the
measure, begin by considering the contribution of a single (for brevity) nonzero eigenvalue
ω to the fermion path integral. Let −(D ¯D) β
α φi
β = ω2φi
α, where i labels the different
eigenfunctions, the commuting functions φi
α, with the same eigenvalue ω (we note that – 40 – there are at least two of them). We expand the nonzero-mode part of the fermion field (for
brevity, denoting it with the same letter λ, ¯λ) there are at least two of them). B.2
Fermions and their zero-mode measure We expand the nonzero-mode part of the fermion field (for
brevity, denoting it with the same letter λ, ¯λ) λα =
X
i
χi φi
α
(B.9)
1 λα =
X
i
χi φi
α
(B.9)
¯λ ˙α =
X
i
¯χi 1
ω
¯D ˙ααφi
α, (B.9) where we used the fact that the nonzero eigenfunctions of D ¯D and ¯DD are related as shown
and we attach the spinor index to the bosonic solution of the 2nd order equation and not
to the Grassmann variable, χi or ¯χi (the fact that there is more than a single solution for
every ω is accounted by the index i). We also indicate that the λ and ¯λ expansions have
each their separate Grassmann variables χi, ¯χi. where we used the fact that the nonzero eigenfunctions of D ¯D and ¯DD are related as shown
and we attach the spinor index to the bosonic solution of the 2nd order equation and not
to the Grassmann variable, χi or ¯χi (the fact that there is more than a single solution for
every ω is accounted by the index i). We also indicate that the λ and ¯λ expansions have
each their separate Grassmann variables χi, ¯χi. JHEP01(2023)118 Plugging (B.9) into the fermionic action (B.6), we obtain after integration of parts and
using the fact that φ is an eigenvector of D ¯D: SF = 2
g2 tr (Dn¯λ ˙α¯σ ˙αα
n λα) =
X
ij
¯χjχiω
2
g2
Z
tr φiαφj
α
(B.10)
= ω
X
ij
¯χjχi Uij
F , (B.10) where the fermion mode inner product matrix is here the fermion mode inner product matrix is Uij
F = 2
g2
Z
T 4 tr
φi
2φj
1 −φi
1φj
2
, U ij
F = −Uji
F ,
(B.11) (B.11) and again we remind ourselves that we are just looking at a single eigenvalue (one can
imagine a sum over them). Then we define the fermion nonzero mode path integral so that
it produces ω (the minimal number of eigenfunctions with the same eigenvalue is two, i.e. i, j = 1, 2, with UF generically a 2 × 2 matrix) Z Y
i
dχid¯χi (det UF )−1e−SF = ω . (B.12) (B.12) When all nonzero eigenvalues are taken into account, we obtain the square root of the
product over all nonzero eigenvalues of ¯DD (or D ¯D). B.2.1
No zero modes of D2 = D ¯
D on the asymmetric T4 The reason to include this section is that in the ∆= 0 abelian self-dual background, i.e. in
the symmetric-T4 case, the D2 (= ¯DD) operator has zero modes: an = cnτ 3, with arbitrary
constant cn. These zero modes are also zero modes of Omn of (B.2), owing to the abelian
nature of the background. The four Cartan zero modes of the ∆= 0 self-dual solution
appear in addition to the two non-Cartan (complex) zero modes, also obeying Omnan = 0
but with an in the τ ± directions, found in [46]. Thus the ∆= 0 self-dual abelian background
has 8, not 4 bosonic zero modes. While it is expected that interactions lift half of these
zero modes, this has not been shown in any detail and is a problem for future studies. JHEP01(2023)118 In any case, since we find the ∆̸= 0 detuned T4 of greater physical interest, we proceed
to show that in our self-dual background (A.40) the D2 operator has no zero modes. Furst,
suppose that there exists an adjoint field φ (generally complex) obeying DnDnφ = 0 in
our background; φ is, of course, assumed to obey the boundary conditions appropriate to
adjoints, i.e. (A.4) without the nonhomogeneous term. This implies that
R
T4 tr φ†DnDnφ = 0, T
or, after integration by parts, noting that the boundary terms vanish if (A.4) are obeyed,
R
T4 tr Dnφ†Dnφ = 0. This is only possible if Dnφ = 0, or writing explicitly the components
of this equation: ∂nφ3 −2iA−
n φ+ + 2iA+
n φ−= 0,
∂n −iA3
n
φ−+ iA−
n φ3 = 0,
∂n + iA3
n
φ+ −iA+
n φ3 = 0,
(B.15) (B.15) where A3,±
n
are to be substituted by the O(
√
∆) background fields (A.40). Eqs. (B.15)
imply that the D2 zero mode φ0 of the abelian background (the ∼∆0 term with A± = 0)
has components φ3
0 = c, φ±
0 = 0. One can show that there are no other zero mode solutions
obeying the right boundary conditions (see [46], or perform a SHO analysis of (B.15) in the
background (A.7), similar to the analysis in section A.1). We now want to argue that the O(
√
∆) perturbations around the abelian background
of eq. (A.40) lift the zero eigenvalue of −D2. B.2.1
No zero modes of D2 = D ¯
D on the asymmetric T4 To this end, we use perturbation theory
for the non-negative Hermitean operator −D2 and compute its matrix element in the
unperturbed “eigenstate” found above, φ0 = cτ 3
2 . For the shift of the eigenvalue, this gives
R
T4 tr φ†
0(−D2)φ0 = |c|2
2
R
T4 4A−
n A+
n , where only the n = 1, 2 components are nonzero in the
order
√
∆solution: A+
1 = W1 and A+
2 = W2 = iW1. The integral is positive definite, as it is
easily seen to be proportional to
R
T4 |F|2, recall (A.36), showing that the zero eigenvalue is
lifted in the detuned-T4 self-dual background. This is a welcome feature of this background,
compared to the one in the symmetric T4 studied in [46]. B.2
Fermions and their zero-mode measure When all nonzero eigenvalues are taken into account, we obtain the square root of the
product over all nonzero eigenvalues of ¯DD (or D ¯D). The definition of the integrals over the fermion zero modes are done in the same manner
using the same mode normalization matrix, Uij
F defined in (B.11). We imagine (as we shall
argue to be the case in our background) that only the undotted spinors λα have zero modes,
thus we expand39 λα =
X
i
ηiφi
α + nonzero modes,
(B.13) (B.13) where we use ηi to denote the zero-mode Grassman variable. The fermion zero-mode
measure is then taken to be the “square root” of (B.12):40 dµF =
Y
i
dηi (det UF )−1/2 =
Y
i
dηi (PfUF )−1 . (B.14) (B.14) 39Here and below, we use φi
α to denote the zero-mode solutions of D ¯D, obeying (D ¯D) β
α φi
β = 0. The
reader should forgive us for using the same letter as in the non-zero mode discussion near (B.9). 40 40This definition ensures that, upon perturbing with a zero-mode lifting mass term, δSm = m
g2 tr λαλα,
one obtains m for the zero-mode contribution to the path integral. – 41 – B.2.2
The zero modes of D on the asymmetric T4 via the Dirac equation In this section, we explicitly study the Dirac equation for the undotted fermions in the
∼
√
∆background and show that they have two zero modes. Since, as shown above,
D2 = ¯DD has no zero modes, the presence of two zero modes of D ¯D is guaranteed by the
index theorem in the topological charge 1/2 background. Thus, we include this discussion – 42 – only for completeness. In the later section, we shall see that these zero modes can be
obtained using supersymmetry. only for completeness. In the later section, we shall see that these zero modes can be
obtained using supersymmetry. The Dirac equation for the zero mode is ¯D ˙ααλα = 0 yielding The Dirac equation for the zero mode is ¯D ˙ααλα = 0 yielding 0 = ¯σn ˙αα
∂nλ3
α −2iW ∗
nλ+
α + 2iWnλ−
α
,
0 = ¯σn ˙αα
∂nλ−
α −i ¯A3
nλ−
α + iW ∗
nλ3
α
,
0 = ¯σn ˙αα
∂nλ+
α + i ¯A3
nλ+
α −iWnλ3
α
. (B.16) (B.16) JHEP01(2023)118 In our leading-order background (A.40), these equations give, for the λ3
α components: (i∂1 + ∂2)λ3
2 + (i∂3 −∂4)λ3
1 = 4γ∗F(x, z)eiαλ−
2 ,
−(i∂1 −∂2)λ3
2 + (i∂3 + ∂4)λ3
1 = 4γF ∗(x, z)e−iαλ+
1 . B.2.2
The zero modes of D on the asymmetric T4 via the Dirac equation Proceeding – 43 – thus, we find the leading-order fermion zero-modes: λ3(0)
α
= η3
α, λ3(0)
α
= η3
α,
λ−(0)
1
= 0,
λ−(0)
2
= −η3
1γe−iα
s
L3L4
π
p
L2L4
X
n1,n3
e
i2π
n1
x1
L1 +n3
x3
L3
e
i
z2
L2 (x2−n1L2)+ z4
L4 (x4−n3L4)
× h12
0
x2 −n1 + z1
2π
h34
1
x4 −n3 + z3
2π
,
λ+(0)
1
= η3
2γ∗eiα
s
L3L4
π
p
L2L4
X
n1,n3
e
−i2π
n1
x1
L1 +n3
x3
L3
e
−i
z2
L2 (x2−n1)+ z4
L4 (x4−n3)
× h12
0
x2 −n1 + z1
2π
h34
1
x4 −n3 + z3
2π
, λ−(0)
1
= 0, JHEP01(2023)118 λ+(0)
1
= η3
2γ∗eiα
s
L3L4
π
p
L2L4
X
n1,n3
e
−i2π
n1
x1
L1 +n3
x3
L3
e
−i
z2
L2 (x2−n1)+ z4
L4 (x4−n3)
× h12
0
x2 −n1 + z1
2π
h34
1
x4 −n3 + z3
2π
, λ+(0)
2
= 0. (B.20) λ+(0)
2
= 0. (B.20) λ+(0)
2
= 0. (B.20) That (B.20) are solutions to order
√
∆follows by direct substitution and use of (A.27). Consider, for example, the λ−
α components of the zero modes. That λ−
2 satisfies the top
equation in (B.18) follows from the fact that it is acted upon by the lowering operator of
the ω12 SHO, while setting λ−
1 to zero is necessitated by its being acted upon by the raising
operator of the ω34 oscillator as well as by the second equation in (B.18). The lowering
operator of the ω34 oscillator acting on λ−
2 from (B.20) can be easily seen to produce the
r.h.s. of the second eq. in (B.18), recalling the definition of F from (A.35). One similarly
verifies that λ+(0)
α
solve the (B.19). Before we continue, let us write the fermion zero modes (B.20) in a more compact
manner, in terms of the function G(x, z) of (A.53). The fermion zero modes (B.20), that
ω34 = 2π/(L3L4), are now written as: λ(0)
α
=
η3
1
η3
2
! τ 3
2 +
η3
2
0
! γ∗eiα
s
2
ω34
G(x, z)τ + +
0
−η3
1
! B.2.2
The zero modes of D on the asymmetric T4 via the Dirac equation γe−iα
s
2
ω34
G∗(x, z)τ −
=
η3
1
η3
2
! τ 3
2 +
η3
2
0
! γ∗eiα V
1
4
π
1
2
G(x, z)τ + +
0
−η3
1
! γe−iα V
1
4
π
1
2
G∗(x, z)τ −,
(B.21) with the last equality being true to leading order in
√
∆. with the last equality being true to leading order in
√
∆. with the last equality being true to leading order in
√
∆. B.2.2
The zero modes of D on the asymmetric T4 via the Dirac equation (B.17) (B.17) On the other hand, the non-Cartan λ−
α components satisfy the equations
i(∂1 −i z1
L1
) + (∂2 −i z2
L2
) +
2π
L1L2
x2
λ−
2 +
i(∂3 −i z3
L3
) −(∂4 −i z4
L4
) +
2π
L3L4
x4
λ−
1
= 0 ,
i(∂1 −i z1
L1
) −(∂2 −i z2
L2
) +
2π
L1L2
x2
λ−
1 −
i(∂3 −i z3
L3
) + (∂4 −i z4
L4
) +
2π
L3L4
x4
λ−
2
= 2γF ∗(x, z)e−iαλ3
1 ,
(B.18)
i(∂1 −i z1
L1
) −(∂2 −i z2
L2
) +
2π
L1L2
x2
λ−
1 −
i(∂3 −i z3
L3
) + (∂4 −i z4
L4
) +
2π
L3L4
x4
λ−
2
= 2γF ∗(x, z)e−iαλ3
1 ,
(B.18) hile the λ+
α components obey while the λ+
α components obey while the λ+
α components obey
−i(∂1 + i z1
L1
) −(∂2 + i z2
L2
) +
2π
L1L2
x2
λ+
2 +
−i(∂3 + i z3
L3
) + (∂4 + i z4
L4
) +
2π
L3L4
x4
λ+
1
= 2γ∗F(x, z)eiαλ3
2 ,
i(∂1 + i z1
L1
) −(∂2 + i z2
L2
) −
2π
L1L2
x2
λ+
1 +
−i(∂3 + i z3
L3
) −(∂4 + i z4
L4
) +
2π
L3L4
x4
λ+
2
= 0 . (B.19) = 0 . We now can follow exactly the same steps as in the study of the self-duality equation
for w1, see discussion after (A.17): we introduce x1, x3 Fourier modes for λ± and the
functions corresponding to (A.20); likewise, we can absorb the Wilson lines by a redefinition
similar to (A.23). Proceeding thus, we can now solve the undotted fermion zero mode
equations (B.17), (B.18), (B.19) in an expansion in
√
∆. Keeping in mind that γ ∼
√
∆,
it follows that the solution for λ3
α is of order ∆0 and is simply given by a two-component
constant Grassmann spinor η3
α. This satisfies the λ3
α equation to leading order, since the
r.h.s. of (B.17) is of order (
√
∆)2 as the λ± solutions are themselves of order
√
∆. B.2.3
Zero modes of D and ¯
D on the symmetric T4 (B.23) That these are solutions of (B.17), (B.18), (B.19) with γ = 0 follows from observing that
the annihilation operators of the ω12 and ω34 SHOs act on λ+
1 and λ−
2 components only,
while the other components are acted upon by creation operators and are thus set to
zero. These four zero modes of ¯D ˙αα at ∆= 0 combine with the two dotted zero modes,
obeying Dα ˙α¯λ ˙α = 0, which exist due to the fact that D2 has zero modes at ∆= 0 (recall
section B.2.1):41 That these are solutions of (B.17), (B.18), (B.19) with γ = 0 follows from observing that
the annihilation operators of the ω12 and ω34 SHOs act on λ+
1 and λ−
2 components only,
while the other components are acted upon by creation operators and are thus set to
zero. These four zero modes of ¯D ˙αα at ∆= 0 combine with the two dotted zero modes,
obeying Dα ˙α¯λ ˙α = 0, which exist due to the fact that D2 has zero modes at ∆= 0 (recall
section B.2.1):41 ¯λ3(∆=0)
˙α
= ¯η3
˙α,
¯λ±(∆=0)
˙α
= 0. (B.24) ¯λ±(∆=0)
˙α
= 0. (B.24) (B.24) The presence of two dotted (B.24) and four undotted (B.23) fermion zero modes in the
self-dual background on the symmetric T4 is, of course, in accord with the index theorem. The presence of extra zero modes is the fermionic counterpart of the existence of bosonic
zero modes of D2 on the symmetric T4, as discussed after eq. (B.15) of section B.2.1. As
mentioned in the main text, the extra zero modes — bosonic and fermionic — are expected
to be lifted once fluctuations around the self dual background on the symmetric T4 and
their interactions are taken into account, but this has not been yet demonstrated. 41As in our analysis leading to the bosonic solution of eq. (A.34), one can show that there are no
normalizable zero modes of D or ¯D except for (B.23), (B.24). B.2.3
Zero modes of D and ¯
D on the symmetric T4 For completeness, let us consider the fermionic zero modes of the abelian self-dual in-
stanton solution of the ∆= 0 symmetric T4. For the ¯Dλ = 0 equation, we can
use (B.17), (B.18), (B.19) with γ set to zero, i.e. without r.h.s. Then, it immediately – 44 – follows that the zero modes on the symmetric T4 are follows that the zero modes on the symmetric T4 are λ3(∆=0)
α
= η3
α,
(B.22) λ3(∆=0)
α
= η3
α,
(B.22)
λ−(∆=0)
1
= 0,
λ−(∆=0)
2
= η−
2
p
L2L4
X
n1,n3
e
i2π
n1
x1
L1 +n3
x3
L3
e
i
z2
L2 (x2−n1L2)+ z4
L4 (x4−n3L4)
× h12
0
x2 −n1 + z1
2π
h34
0
x4 −n3 + z3
2π
,
λ+(∆=0)
1
= η+
1
p
L2L4
X
n1,n3
e
−i2π
n1
x1
L1 +n3
x3
L3
e
−i
z2
L2 (x2−n1)+ z4
L4 (x4−n3)
× h12
0
x2 −n1 + z1
2π
h34
0
x4 −n3 + z3
2π
, λ3(∆=0)
α
= η3
α,
(B.22)
λ−(∆=0)
1
= 0, (B.22) × h12
0
x2 −n1 + z1
2π
h34
0
x4 −n3 + z3
2π
, × h12
0
x2 −n1 + z1
2π
h34
0
x4 −n3 + z3
2π
,
λ+(∆=0)
1
= η+
1
p
L2L4
X
n1,n3
e
−i2π
n1
x1
L1 +n3
x3
L3
e
−i
z2
L2 (x2−n1)+ z4
L4 (x4−n3)
× h12
0
x2 −n1 + z1
2π
h34
0
x4 −n3 + z3
2π
, λ+(∆=0)
1
= η+
1
p
L2L4
X
n1,n3
e
−i2π
n1
x1
L1 +n3
x3
L3
e
−i
z2
L2 (x2−n1)+ z4
L4 (x4−n3)
× h12
+ z1
h34
+ z3
JHEP01(2023)118 × h12
0
x2 −n1 + z1
2π
h34
0
x4 −n3 + z3
2π
, λ+(∆=0)
2
= 0. (B.23) λ+(∆=0)
2
= 0. B.2.4
The zero modes of D on the asymmetric T4 via supersymmetry We now check that the asymmetric T4 undotted fermion zero modes (B.20) can be obtained
via supersymmetry of the O(
√
∆) bosonic background (A.7), (A.40). Consider the effect
of the SUSY transforms (B.7) in the gauge field background (A.7), (A.40) with fermions
set to zero, ¯λ = λ = 0. Since our solution is self-dual, i.e. obeys ¯σmnFmn = 0, the SUSY
transform only produces λα variations. Computing δλ we obtain δλ = −(σmnF (0)
mn + σmnF (1)
mn)ζ + . . . (B.25) δλ = −(σmnF (0)
mn + σmnF (1)
mn)ζ + . . . (B.25) 41As in our analysis leading to the bosonic solution of eq. (A.34), one can show that there are no
normalizable zero modes of D or ¯D except for (B.23), (B.24). 41As in our analysis leading to the bosonic solution of eq. (A.34), one can show that there are no
normalizable zero modes of D or ¯D except for (B.23), (B.24). – 45 – where F (0)
mn is the field strength (A.8) of the abelian background (A.7), and F (1)
mn is the order
√
∆contribution from (A.51), (A.52). Thus, combining everything, plugging into (B.25),
and recalling Footnote 38, we obtain δλ1
δλ2
! = −2iF (0)
12
ζ1
−ζ2
! +2F (1)
13
ζ2
−ζ1
! −i2F (1)
14
ζ2
ζ1
! = i 4π
√
V
"
ζ1
−ζ2
! τ 3
2 + V
1
4
π
1
2
γ∗eiαG(x,z)τ +
−ζ2
0
! + V
1
4
π
1
2
γe−iαG∗(x,z)τ −
0
−ζ1
!#
(B.26) On the last line, we again used the small-∆relation ω34 ≃2πV −1
2 . Comparing (B.21)
with (B.26), we see that they are identical provided the supersymmetry parameter in (B.26)
is identified with the Grassmann coefficient in (B.21) as follows On the last line, we again used the small-∆relation ω34 ≃2πV −1
2 . Comparing (B.21)
with (B.26), we see that they are identical provided the supersymmetry parameter in (B.26)
is identified with the Grassmann coefficient in (B.21) as follows JHEP01(2023)118 η3
1 = 4πiV −1
2 ζ1 ,
(B.27)
η3
2 = −4πiV −1
2 ζ2 , (B.27) showing that all is consistent with SUSY. B.3
The moduli space metric, to any order in ∆ Here we shall study the bosonic and fermionic moduli space to order ∆. It is well known
that for every zero mode solution of the undotted Dirac equation φ(β)
α , one can construct
two zero mode eigenvalues of the operator Onm which obey the background gauge condition
Dm(Acl)am = 0. We begin with our notation for the zero modes (B.25): we shall denote the corresponding
commuting wave functions by φβ A
α
, where A = 1, 2, 3 denotes the SU(2) algebra index. These are the two solutions of the undotted Dirac equation considered above. Thus, with
(β) = 1, 2 labeling the two zero modes, we have
D ˙ααφ(β) = 0
(B 28) (B.28) φ(β)
α = −(σmn)(β)
α Fmn , with φ(β)
α =
3
X
A=1
φ (β) A
α
T A,
(B.29)
φ (β) A
α
= −(σmnF A
mn)(β)
α = −2i(σ3) (β)
α F A
12+2i(σ2) (β)
α F A
13−2i(σ1) (β)
α F A
14
(B.30)
= −2i (σa) (β)
α V A
a ,where V A
a has components V A
3 = F A
12,
V A
2 = −F A
13,
V A
1 = F A
14. (B.29) φ (β) A
α
= −(σmnF A
mn)(β)
α = −2i(σ3) (β)
α F A
12+2i(σ2) (β)
α F A
13−2i(σ1) (β)
α F A
14
(B.30)
= −2i (σa) (β)
α V A
a ,where V A
a has components V A
3 = F A
12,
V A
2 = −F A
13,
V A
1 = F A
14. (B.30) In the second equality, we used self-duality of the background and the explicit form of σmn
given in Footnote 38. B.3.1
Fermion zero-mode measure to arbitrary order in ∆ (B.34) (B.34) The Pfaffian of the fermion mode matrix is thus PfUF = −U12
F = 4 × 4π2
g2 and the fermion
zero-mode measure, defined via the Pfaffian in (B.14) is The Pfaffian of the fermion mode matrix is thus PfUF = −U12
F = 4 × 4π2
g2 and the fermion
zero-mode measure, defined via the Pfaffian in (B.14) is dµF = dη1dη2 (PfUF )−1 = 4 × 4π2
g2 dη1dη2 . (B.35) (B.35) To obtain a nonzero result for the fermion zero mode integral, we insert the gaugino bilinear,
tr λαλα = 1
2ηαηβφ(α)A
γ
φ(β)A
δ
ϵδγ+(nonzero modes), and obtain Z
dη1dη2 (PfUF )−1 tr λαλα =
g2
16π2
Z
dη1dη2 1
2 ηαηβφ(α)A
γ
φ(β)A
δ
ϵδγ
=
g2
16π2
1
2
φ(2)A
γ
φ(1)A
δ
ϵδγ −φ(1)A
γ
φ(2)A
δ
ϵδγ
,
(B.36) (B.36) where we used (B.34) and the explicit form of the Pfaffian. We stress that the fermion zero mode measure (B.14) as well as (B.36) hold to arbitrary
order in ∆. Furthermore, the measure and the result (B.36) are independent on ∆. B.3.1
Fermion zero-mode measure to arbitrary order in ∆ B.3.1
Fermion zero-mode measure to arbitrary order in ∆ In terms of the zero modes (B.28) the fermion zero-mode expansion (B.13), relabeling the
index i (used there to label the different zero modes), i →β, we have λA
α = ηβφ(β) A
α
, sum understood over β = 1, 2, λA
α = ηβφ(β) A
α
, sum understood over β = 1, 2,
Uβγ
F
= 1
g2
Z
T 4
φ(β) A
2
φ(γ) A
1
−φ(β) A
1
φ(γ) A
2
, λA
α = ηβφ(β) A
α
, sum understood over β = 1, 2,
Uβγ
F
= 1
g2
Z
T 4
φ(β) A
2
φ(γ) A
1
−φ(β) A
1
φ(γ) A
2
,
(B.31) Uβγ
F
= 1
g2
Z
T 4
φ(β) A
2
φ(γ) A
1
−φ(β) A
1
φ(γ) A
2
,
(B.31) (B.31) – 46 – where again A = 1, 2, 3 is the Lie algebra index, summed over the definition of UF . The
fermion zero mode norm matrix Uβγ
F
from (B.11) is antisymmetric and we have from (B.31)
and (B.28) where again A = 1, 2, 3 is the Lie algebra index, summed over the definition of UF . The
fermion zero mode norm matrix Uβγ
F
from (B.11) is antisymmetric and we have from (B.31)
and (B.28) U12
F = 1
g2
Z
T 4 V A
a V A
b (−4)
h
(σa) 1
2 (σb) 2
1 −(σa) 1
1 (τ b) 2
2
i
= (−4)
g2
Z
T 4 V A
a V A
b Xab . (B.32) (B.32) Consider now the matrix Xab = (σa) 1
2 (σb) 2
1 −(σa) 1
1 (σb) 2
2 implicitly defined above. We
have, from the explicit form of the Pauli matrices: JHEP01(2023)118 ||Xab|| =
1 −i 0
i 1 0
0 0 1
,
(B.33) (B.33) thus U12
F = −4
g2
Z
T 4 V A
a V A
a = −4
g2
Z
T 4
F A
12
2 +
F A
14
2 +
F A
13
2
= −1
g2
Z
T 4(F A
mn)2
= −4 4π2
g2
since
1
4g2
Z
T 4
F A
mn
2 = 4π2
g2
! . B.3.2
Bosonic zero-modes and moduli-space metric to any order in ∆ Now to the wave functions of the bosonic zero modes obtained from the fermionic modes and
automatically obeying the gauge condition. For every fermionic zero mode φ (β)
α
, β = 1, 2,
there are two bosonic zero modes. Thus, in total there are four independent bosonic zero
modes. The advantage of the discussion that follows is that the bosonic zero modes thus
obtained automatically obey the gauge condition and, furthermore, that their construction
holds to arbitrary orders in ∆. – 47 – The four-vector expressions for the bosonic zero modes thus obtained are denoted by
Z(β) A
n
and Z(β ′) A
n
, where β = 1, 2, A = 1, 2, 3. These modes are determined as follows (see
e.g. [25, 26]). First one forms the quaternions made out of the zero-mode solutions of the
undotted Dirac equation, explicitly: σnZ(β) A
n
=
Z(β)
4
+ iZ(β)
3
Z(β)
2
+ iZ(β)
1
−Z(β)
2
+ iZ(β)
1
Z(β)
4
−iZ(β)
3
!A
=
φ(β)
1
−φ(β) ∗
2
φ(β)
2
φ(β) ∗
1
!A
,
σnZ(β ′) A
n
=
Z(β ′)
4
+ iZ(β ′)
3
Z(β ′)
2
+ iZ(β ′)
1
−Z(β ′)
2
+ iZ(β ′)
1
Z(β ′)
4
−iZ(β ′)
3
!A
=
iφ(β)
1
iφ(β) ∗
2
iφ(β)
2
−iφ(β) ∗
1
!A
. (B.37) (B.37) JHEP01(2023)118 Thus, each zero mode φ(β)
α
of the undotted Dirac equation can be used to build two four-
vector bosonic zero modes, denoted by Z(β)
n
and Z(β ′)
n
. Their four-vector components are
then inferred from (B.37): Z(β) A
n
=
n
ℑφ(β) A
2
, −ℜφ(β) A
2
, ℑφ(β) A
1
, ℜφ(β) A
1
o
,
Z(γ ′) A
n
=
n
ℜφ(γ) A
2
, ℑφ(γ) A
2
, ℜφ(γ) A
1
, −ℑφ(γ) A
1
o
. (B.38) (B.38) Now, knowing the four-vector components of the zero modes, we can use (B.37)
and (B.28) to find det Ukl and argue for its ∆-independence. We need to compute the 4 × 4
matrix of different overlaps (B.3) Now, knowing the four-vector components of the zero modes, we can use (B.37)
and (B.28) to find det Ukl and argue for its ∆-independence. B.3.2
Bosonic zero-modes and moduli-space metric to any order in ∆ We need to compute the 4 × 4
matrix of different overlaps (B.3) Uβ,γ = 2
g2
Z
T 4 tr Z(β)
n Z(γ)
n
= 1
g2
Z
T 4 Z(β) A
n
Z(γ) A
n
Uβ,γ+2 = Uγ+2,β = 2
g2
Z
T 4 tr Z(β)
n Z(γ ′)
n
= 1
g2
Z
T 4 Z(β) A
n
Z(γ ′) A
n
,
Uβ+2,γ+2 = 2
g2
Z
T 4 tr Z(β ′)
n
Z(γ ′)
n
= 1
g2
Z
T 4 Z(β ′) A
n
Z(γ ′) A
n
,
(B.39) (B.39) where the trace is now in the Lie-algebra generator space. The four-vector inner products are Z(β)
n Z(γ)
n
= Z(β ′)
n
Z(γ ′)
n
= ℑφ(β)
2 ℑφ(γ)
2
+ ℜφ(β)
2 ℜφ(γ)
2
+ ℑφ(β)
1 ℑφ(γ)
1
+ ℜφ(β)
1 ℜφ(γ)
1
=
2
X
α=1
1
2
φ(β)
α φ(γ) ∗
α
+ φ(β) ∗
α
φ(γ)
α
,
Z(β)
n Z(γ ′)
n
= ℑφ(β)
2 ℜφ(γ)
2
−ℜφ(β)
2 ℑφ(γ)
2
+ ℑφ(β)
1 ℜφ(γ)
1
−ℜφ(β)
1 ℑφ(γ)
1
=
2
X
α=1
i
2
φ(β)
α φ(γ) ∗
α
−φ(β) ∗
α
φ(γ)
α
,
(B.40 (B.40) where momentarily we omitted the group index A (to be restored below). Thus, using (B.28), where momentarily we omitted the group index A (to be restored below). Thus, using (B.28), – 48 – with the shorthand σ.F A ≡σmnF A
mn, we find with the shorthand σ.F A ≡σmnF A
mn, we find with the shorthand σ.F A ≡σmnF A
mn, we find Uβ,γ = Uβ+2,γ+2 =
1
2g2
Z
T 4
2
X
α=1
φ(β) A
α
φ(γ) ∗A
α
+ φ(β) ∗A
α
φ(γ) A
α
=
1
2g2
Z
T 4
2
X
α=1
σ.F A (β)
α
σ.F A (γ) ∗
α
+
σ.F A (β) ∗
α
σ.F A (γ)
α
,
Uβ,γ+2 = Uγ+2,β =
i
2g2
Z
T 4
2
X
α=1
φ(β) A
α
φ(γ) ∗A
α
−φ(β) ∗A
α
φ(γ) A
α
=
i
2g2
Z
T 4
2
X
α=1
σ.F A (β)
α
σ.F A (γ) ∗
α
−
σ.F A (β) ∗
α
σ.F A (γ)
α
. 42The reader may notice that while we use the same letter, the moduli space metric U kl of (B.45) does
not equal the one constructed earlier from the leading-order derivatives of the classical solution w.r.t. zn,
the metric U kl of eqs. (B.3), (B.4). In fact, we have g8 det U kl
eq. (B.45) = (4π)8 while g8 det U kl
eq. (B.4) = V 2.
This is accounted for by the difference in normalization of the respective zero modes; see section B.3.3 for
explicit expressions. This difference contributes an extra factor of ( 4π
√
V )8 Q
k(L2
k) = (4π)8
V 2
to the determinant
of eq. (B.4). B.3.2
Bosonic zero-modes and moduli-space metric to any order in ∆ JHEP01(2023)118 (B.41) (B.41) (B.41) (
)
Let us now study the matrix Let us now study the matrix Let us now study the matrix Aβγ =
1
2g2
Z
T 4
2
X
α=1
(σ.F A) (β)
α
(σ.F A) (γ) ∗
α
. (B.42) (B.42) Using the notation of eq. (B.28), we rewrite it as Using the notation of eq. (B.28), we rewrite it as Using the notation of eq. (B.28), we rewrite it as Aβγ =
1
2g2
Z
T 4 V A
a V A
b 4 (σa)
(β)
α
((σb)∗)
(γ
α
) = 2
g2
Z
T 4 V A
a V A
b (σ2σaσbσ2)
(γ)
(β)
= δγ
β
2
g2
Z
T 4 V A
a V A
a =
1
2g2
Z
T 4(F A
mn)2 . ( (B.43) Thus, the 4 × 4 matrix U with matrix elements (B.41), expressed through A of (B.42) is of
the form U =
A11 + A∗
11
A12 + A∗
12
i(A11 −A∗
11) i(A12 −A∗
12)
A12 + A∗
12
A22 + A∗
22
i(A12 −A∗
12) i(A22 −A∗
22)
i(A11 −A∗
11) i(A12 −A∗
12)
A11 + A∗
11
A12 + A∗
12
i(A12 −A∗
12) i(A22 −A∗
22)
A12 + A∗
12
A22 + A∗
22
=
2A11
0
0
0
0
2A22
0
0
0
0
2A11
0
0
0
0
2A22
= diag(1, 1, 1, 1) 1
g2
Z
T 4(F A
mn)2
= diag(1, 1, 1, 1) 4 4π2
g2
since
1
4g2
Z
T 4
F A
mn
2 = 4π2
g2
! ,
(B.44) (B.44) where we used the diagonal form of A form (B.43). where we used the diagonal form of A form (B.43). Thus, we have for the norm matrix (B.3) of the bosonic zero modes (to any arbitrary
order in ∆to which the solution has been find): Ukl = δkl 4 4π2
g2 ,
k, l = 1, 2, 3, 4. q (
)
43As these can be constructed from F cl.
mn to any order in ∆, we shall call these “exact” zero modes. B.3.2
Bosonic zero-modes and moduli-space metric to any order in ∆ (B.45) (B.45) – 49 – – 49 – The point, so far, is to argue that the inner-product of the bosonic zero modes obeying the
gauge condition — or the moduli space metric (B.45)—are ∆-independent.42 The careful reader may remark that the fact that the bosonic zero mode metric is
proportional to the classical action, as in (B.45), is well-known, hence the ∆-independence
follows from the fact that the action of the self-dual solution is ∆-independent. However,
we presented the steps outlined above, especially the explicit relation between the undotted
Dirac equation zero modes and the bosonic zero modes of eq. (B.38), in order to use them to
verify that the derivatives of the O(
√
∆) classical solution we found with respect to zn are
equal to the modes (B.38) obeying the background gauge condition, after an appropriate
gauge transformation. This somewhat more involved procedure, compared to the similar
task for the BPST instanton, is what we discuss next. JHEP01(2023)118 B.3.3
The derivatives of the O(
√
∆) solution and the gauge condition To this end, let us compute the zero modes (B.38) in the ∆expansion and compare to the
derivatives of the classical solution, ∂Acl
n /∂zk. The zero modes (B.38) obeying the gauge
condition43 are determined by the matrices (B.28) ||ℜφ(β) A
α
|| =
0
2F A
13
−2F A
13
0
! ,
||ℑφ(β) A
α
|| =
−2F A
12 −2F A
14
−2F A
14
2F A
12
! . (B.46) (B.46) This yields for Z(β)
n , Z(β)′
n
of (B.38), This yields for Z(β)
n , Z(β)′
n
of (B.38), This yields for Z(β)
n , Z(β)′
n
of (B.38), This yields for Z(β)
n , Z(β)′
n
of (B.38), Y (3) A
n
≡Z(1) A
n
=
n
ℑφ(1) A
2
,−ℜφ(1) A
2
,ℑφ(1) A
1
,ℜφ(1) A
1
o
=
n
−2F A
14,2F A
13,−2F A
12,0
o
,
Y (1) A
n
≡−Z(2) A
n
=
n
−ℑφ(2) A
2
,ℜφ(2) A
2
,−ℑφ(2) A
1
,−ℜφ(2) A
1
o
=
n
−2F A
12,0,2F A
14,−2F A
13
o
,
Y (4) A
n
≡−Z(1 ′) A
n
=
n
−ℜφ(1) A
2
,−ℑφ(1) A
2
,−ℜφ(1) A
1
,ℑφ(1) A
1
o
=
n
2F A
13,2F A
14,0,−2F A
12
o
,
Y (2) A
n
≡−Z(2 ′) A
n
=
n
−ℜφ(2) A
2
,−ℑφ(2) A
2
,−ℜφ(2) A
1
,ℑφ(2) A
1
o
=
n
0,−2F A
12,−2F A
13,−2F A
14
o
. (B.47) We relabelled the four zero modes Z(1)
n , Z(2)
n , Z(1)′
n
, Z(2)′
n
by Y (k)
n
, where k indicates that in
our ∆-expanded solution these correspond to derivatives of the classical background with
respect to zk (as we shall see shortly). The functions Y (k)
n
calculated in the leading ∼
√
∆
solution are explicitly presented below. B.3.3
The derivatives of the O(
√
∆) solution and the gauge condition – 50 – Let us now also write our ∼
√
∆self dual classical solution (A.40): Acl
n (x, z) =
2πnnmxm
LnLm
+ zn
Ln
τ 3
2 + τ +(δn1 + iδn2)W + τ −(δn1 −iδn2)W ∗, Acl
n (x, z) =
2πnnmxm
LnLm
+ zn
Ln
τ 3
2 + τ +(δn1 + iδn2)W + τ −(δn1 −iδn2)W ∗,
W
i
√
π∆
iαF(
)
( Acl
n (x, z) =
2πnnmxm
LnLm
+ zn
Ln
τ 3
2 + τ +(δn1 + iδn2)W + τ −(δn1 −iδn2)W ∗,
W = −i
√
π∆
√
2V 1/2 eiαF(x, z),
(B.4 W = −i
√
π∆
√
2V 1/2 eiαF(x, z),
(B.48) (B.48) where for brevity we introduced the (not anti-symmetric!) tensor nnm where only n12 =
n34 = 1 are nonzero. Consider now the derivative of the classical solution w.r.t. zp/Lp Lp
∂Acl
n
∂zp
= δnp
τ 3
2 + τ +(δn1 + iδn2)Lp∂W
∂zp
+ τ −(δn1 −iδn2)Lp∂W ∗
∂zp
). (B.49) Lp
∂Acl
n
∂zp
= δnp
τ 3
2 + τ +(δn1 + iδn2)Lp∂W
∂zp
+ τ −(δn1 −iδn2)Lp∂W ∗
∂zp
). (B.49) (B.49) JHEP01(2023)118 JHEP01(2023)118 The Cartan term is the one we considered before, see section B. To find the zero mode
wave functions, an explicit computation using the SHO h0 and h1 properties from (A.27)
shows that L1
∂F
∂z1
= −
s
L1L2
4π
˜G ,
L2
∂F
∂z2
= iL2z1
2π F −i
s
L1L2
4π
˜G ,
L3
∂F
∂z3
= −
s
L3L4
4π G ,
L4
∂F
∂z4
= iL4z3
2π F −i
s
L3L4
4π G . (B.50) (B.50) Here, we defined, in addition to F(x, z) (A.35) and G(x, z) (A.53), a new function ˜G(x, z),
similar to G(x, z) but where the 1st-excited state is in the ω12 SHO instead: ˜G (x, z) =
p
L2L4
∞
X
n1,n3=−∞
e
−i2π
n1
x1
L1 +n3
x3
L3
e−i z2
L2 (x2−n1L2)−i z4
L4 (x4−n3L4) ˜G (x, z) =
p
L2L4
∞
X
n1,n3=−∞
e
−i2π
n1
x1
L1 +n3
x3
L3
e−i z2
L2 (x2−n1L2)−i z4
L4 (x4−n3L4)
× h12
1
x2 −
n1 −z1
2π
L2
h34
0
x4 −
n3 −z3
2π
L4
. B.3.3
The derivatives of the O(
√
∆) solution and the gauge condition (B.51) × h12
1
x2 −
n1 −z1
2π
L2
h34
0
x4 −
n3 −z3
2π
L4
. (B.51) (B.51) Using these expressions, we find the derivatives of the classical solution w.r.t. zp: L1
∂Acl
n
∂z1
= δn1
τ 3
2 +
"
τ + (δn1 + iδn2) i
√
∆
2
√
2 eiα ˜G + h.c. #
,
L2
∂Acl
n
∂z2
= δn2
τ 3
2 +
τ + (δn1 + iδn2)
−i
√
π∆
√
2V 1/2 eiα
!
iL2z1
2π F −i
s
L1L2
4π
˜G
+ h.c.
,
L3
∂Acl
n
∂z3
= δn3
τ 3
2 +
"
τ + (δn1 + iδn2) i
√
∆
2
√
2 eiαG + h.c. #
,
L4
∂Acl
n
∂z4
= δn4
τ 3
2 +
τ + (δn1 + iδn2)
−i
√
π∆
√
2V 1/2 eiα
!
iL4z3
2π F −i
s
L3L4
4π G
+ h.c.
. (B.52) ∂z4
2
√
2V 1/2
!
2π
s
4π
(B.52) – 51 – The expressions for the exact zero modes Y (k)
n
from (B.47) can also be computed using
our knowledge of the field strength to order
√
∆, F (0)
mn, F (1)
mn of eqs. (A.8) and (A.52). Next,
we use this information and (B.52) to determine the gauge transformations needed to bring
the Lk
∂Acl
n
∂zk zero modes into the background-Lorentz gauge. We shall see that on the T4
with twists, this is slightly different from the usual BPST instanton. To find these gauge
transformations, we now consider the derivatives of the classical solution w.r.t. each zk
in turn. Zero mode
∂
∂z1 vs Y (1):
here, we compare Y (1)
n
to the derivative w.r.t. z1. From the
above we find that the four-vectors of the exact zero mode and the derivative of the classical
solution are JHEP01(2023)118 Y (1)
n
=
(
4π
√
V
τ 3
2 , 0, τ +
−i
√
2∆π
√
V
eiαG(x, z)
! + h.c., τ +
√
2∆π
√
V
eiαG(x, z) + h.c. )
,
L1
∂Acl
n
∂z1
=
(
τ 3
2 +
τ + i
√
∆
2
√
2 eiα ˜G + h.c. ! B.3.3
The derivatives of the O(
√
∆) solution and the gauge condition (B.57) (B.57) Here, in contrast with (B.55), we find that the gauge transformation making the zero mode
obey the background condition also has a Cartan-subalgebra piece ∼∆0, in addition to an
O(
√
∆) piece which is proportional to (B.55): Here, in contrast with (B.55), we find that the gauge transformation making the zero mode
obey the background condition also has a Cartan-subalgebra piece ∼∆0, in addition to an
O(
√
∆) piece which is proportional to (B.55): JHEP01(2023)118 Λ(2)(x, z) = 2L2z1
√
V
τ 3
2 +
iΛ(1)+(x, z)τ + + h.c. . (B.58) (B.58) Naturally, only terms of order
√
∆are to be kept on the r.h.s. of (B.57). Zero mode
∂
∂z3 vs Y (3)
: remarkably, here we find Y (3)
n
−4π
√
V
L3
∂Acl
n
∂z3
= 0 =⇒Λ(3) = 0,
(B.59) (B.59) hence no compensating gauge transform is needed. This follows from the four-vector
expressions for the zero modes Y (3)
n
=
(
i
√
2∆π
√
V
eiαGτ + + h.c., −
√
2∆π
√
V
eiαGτ + + h.c., 4π
√
V
τ 3
2 , 0
)
,
(B.60)
L3
∂Acl
n
∂z3
=
(
i
√
∆
2
√
2eiαGτ + + h.c., −
√
∆
2
√
2eiαGτ + + h.c., τ 3
2 , 0
)
. (B.61) (B.60) and and L3
∂Acl
n
∂z3
=
(
i
√
∆
2
√
2eiαGτ + + h.c., −
√
∆
2
√
2eiαGτ + + h.c., τ 3
2 , 0
)
. (B.61) (B.61) Notice that x3 is the direction where Acl depends on x4 + z3L4/(2π) and where the classical
√
∆solution vanishes. Notice that x3 is the direction where Acl depends on x4 + z3L4/(2π) and where the classical
√
∆solution vanishes. B.3.3
The derivatives of the O(
√
∆) solution and the gauge condition , −
τ +
√
∆
2
√
2eiα ˜G + h.c. ! , 0, 0
)
. (B.53) (
! ! )
Their difference is
i ˜G(
)
Their difference is Their difference is Their difference is Their difference is Y (1)
n
−4π
√
V
L1
∂Acl
n
∂z1
= τ + π
√
2∆eiα
V 1/2
−i ˜G(x, z)
˜G(x, z)
−iG(x, z)
G(x, z)
+ h.c. = Dn(Acl.)Λ(1) = ∂nΛ(1) + i
h
Acl. n
∆=0, Λ(1)i
. (B.54) (B.54) After some algebra, we find that the gauge transformation making the derivative of the
classical solution obey the gauge condition is O(
√
∆): After some algebra, we find that the gauge transformation making the derivative of the
classical solution obey the gauge condition is O(
√
∆): Λ(1)(x, z) = −
√
2∆π
V
1
4
eiαF(x, z)τ + + h.c. . (B.55) (B.55) Zero mode
∂
∂z2 vs Y (2):
here we have the four-vectors Y (2)
n
=
(
0, 4π
√
V
τ 3
2 , τ +
√
2∆π
√
V
eiαG(x, z) + h.c., τ + i
√
2∆π
√
V
eiαG(x, z) + h.c. )
,
L2
∂Acl
n
∂z2
=
τ +
√
∆πeiα
√
2V
1
4
L2z1
2π F(x, z) −
s
L1L2
4π
˜G(x, z)
+ h.c.,
τ 3
2 + τ +i
√
∆πeiα
√
2V
1
4
L2z1
2π F(x, z) −
s
L1L2
4π
˜G(x, z)
+ h.c., 0, 0
. (B.56) (B.56) – 52 – – 52 – We again consider the difference We again consider the difference We again consider the difference Y (2)
n
−4π
√
V
L2
∂Acl
n
∂z2
= τ + π
√
2∆eiα
√
V
−2√π
V
1
4
L2z1
2π F(x, z) −
q
L1L2
4π
˜G(x, z)
−i2√π
V
1
4
L2z1
2π F(x, z) −
q
L1L2
4π
˜G(x, z)
G(x, z)
iG(x, z)
+ h.c. = Dn(Acl.)Λ(2) = ∂nΛ(2) + i
h
Acl. n
∆=0 + Acl. n
O(
√
∆), Λ(2)i
. B.3.3
The derivatives of the O(
√
∆) solution and the gauge condition Zero mode
∂
∂z4 vs Y (4):
here, the four-vectors of the exact zero mode and the derivative
of the classical solution are Y (4)
n
=
(
−
√
2∆π
√
V
eiαGτ + + h.c., −i
√
2∆π
√
V
eiαGτ + + h.c., 0, 4π
√
V
τ 3
2
)
,
(B.62) (B.62) and and L4
∂Acl
n
∂z4
=
√
π∆
√
2V 1/2 eiα
L4z3
2π F −
s
L3L4
4π G
τ + + h.c.,
i
√
π∆
√
2V 1/2 eiα
L4z3
2π F −
s
L3L4
4π G
τ + + h.c., 0, τ 3
2
. (B.63)
√
2V 1/2
2π
s
4π
i
√
π∆
√
2V 1/2 eiα
L4z3
2π F −
s
L3L4
4π G
τ + + h.c., 0, τ 3
2
. (B.63) (B.63) – 53 – Their difference is Their difference is Their difference is Y (4)
n
−4π
√
V
L4
∂Acl
n
∂z4
= −τ +
√
2π∆
V 1/2 eiα L4z3
V
1
4
F(x, z)
iF(x, z)
0
0
+ h.c. = Dn(Acl.)Λ(4) = ∂nΛ(4) + i
h
Acl. n
∆=0 + Acl. n
O(
√
∆), Λ(4)i
. (B.64) (B.64) Here, we have that Λ(4)(x, z) = 2L4z3
√
V
τ 3
2
(B.65) (B.65) JHEP01(2023)118 only has a ∆= 0 part. The claim that Λ(4) obeys (B.64) is straightforwardly verified Summary:
in each case we have verified that to order
√
∆, 4π
√
V
Lk
∂Acl
n
∂zk
+ Dn(Acl)Λ(k) = Y (k)
n
(B.66) (B.66) obeys the background gauge condition, where Λ(k), for k = 1, 2, 3, 4, are given in ((B.55),
(B.58), (B.59), (B.65)), respectively. As follows from these explicit expressions, the gauge
transformation Λ(k) which makes the derivative of the classical solution obey the background-
gauge condition is Ω-periodic (recall the definition after (A.5)), i.e. obeys the same periodicity
conditions (A.4) as the classical solution. In fact, the x-dependent part of Λ(k) is expressed
through the O(
√
∆) component of the classical solution Acl
k , similar to the BPST case. The
Ω-periodicity of Λ(k) is important in what follows. B.3.3
The derivatives of the O(
√
∆) solution and the gauge condition We shall next argue that the measure in terms of the zn variables remains the one we
found earlier by studying the leading-order zero modes, eq. (B.5). For use below, we also
rewrite the zero modes (B.66) as ∂Acl
n
∂zk
+ Dn(Acl)˜Λ(k) =
√
V
4πLk
Y (k)
n
. (B.67) (B.67) The motivation for the rescaling evident in (B.67) is that the zero modes are now directly
proportional to the derivatives of Acl
n with respect to zk. The compensating gauge transfor-
mation ˜Λ(k) =
√
V
4πLk Λ(k) is trivially related to Λ(k) appearing in (B.66) and appearing in
((B.55), (B.58), (B.59), (B.65)). The motivation for the rescaling evident in (B.67) is that the zero modes are now directly
proportional to the derivatives of Acl
n with respect to zk. The compensating gauge transfor-
mation ˜Λ(k) =
√
V
4πLk Λ(k) is trivially related to Λ(k) appearing in (B.66) and appearing in
((B.55), (B.58), (B.59), (B.65)). 44Of eigenvalues ωq, using the same notation as after eq. (B.2): OmnZ(q)
n
= ωqZ(q)
n . 46Evaluating R
T4 Acl.
n Y (k)
n
using the explicit expressions of section B.3.3 and plugging into (B.70), we find
that to leading-order in ∆the zero of fk occurs for zk = z∗
k, where z∗
k = −π(δk3 + δk4) + Lk ˜A3
k + O(
√
∆).
Here, ˜A3
k is the constant T4-mode of the Cartan component of An. 45Recalling that (B.45) calculated Ukl =
2
g2
R
T4 tr Y (k)
n
Y (l)
n
= 16π2
g2 δkl.
(k) B.3.4
The Jacobian and the all-order bosonic measure We begin by shifting the bosonic field An(x), obeying (A.4), to be integrated over in the
path integral by the classical solution Acl. n (x, z) of (B.48). We can choose to expand the
fluctuation in terms of a complete set of eigenfunctions of the hermitean operator Omn(x, z)
— the zero modes (B.67) and the nonzero modes Zq
n:44 An(x) −Acl. n (x, z) =
4
X
k=1
ζ(0)
k
√
V
4πLk
Y (k)
n
(x, z) +
X
q
ζq Z(q)
n (x, z). (B.68) (B.68) 44Of eigenvalues ωq, using the same notation as after eq. (B.2): OmnZ(q)
n
= ωqZ(q)
n . – 54 – The coefficients ζ(0)
k
and ζq are the projections of the gauge field fluctuation An(x) −
Acl. n (x, z) onto the Y (k)(x, z) and Zq(x, z) directions in field space, thus they have implicit
zk-dependence. In what follows, we trade the integration over ζ(0)
k
for integration over the
zk. In our subsequent discussion we shall not explicitly write the contribution of the nonzero
modes to the measure of the path integral, due to their cancellation with the contribution
of the nonzero modes of the fermions and ghosts. With the expansion (B.68), the measure of the bosonic zero modes now takes the form,
using (B.45)45 and taking into account the normalization of the zero modes dµB =
det
V
16π2LkLl
Ukl
eq. (B.45)
1
2
4
Y
k=1
"
dζ(0)
k
√
2π
#
= V
g4
4
Y
k=1
dζ(0)
k
√
2π . (B.69) JHEP01(2023)118 JHEP01(2023)118 (B.69) In order to integrate over fields orthogonal to the Y (k)
n
(x, z) zero modes, we consider their
inner product with (B.68) fk = 2
g2 tr
Z
T4(An(x) −Acl. n (x, z)) Y (k)
n
(x, z). B.3.4
The Jacobian and the all-order bosonic measure (B.70) (B.70) We then insert unity in the path integral, in the form 1 =
Y
k
dzk
Y
p
δ(fp) | det ∂fk
∂zl
| ,
(B.71) (B.71) where ∂fk
∂zl is evaluated at the value of zn making delta function vanish.46 Then, using (B.68),
the orthogonality of the zero and nonzero modes, we have that (B.45), that fp =
√
V
4πLp
16π2
g2 ζ(0)
p
,
(B.72) (B.72) so that the δ-function from (B.71) sets ζ(0)
k
= 0 after integrating over ζ(0)
k
with the
measure (B.69) (to avoid confusion, recall that ζ(0)
k
has implicit z-dependence). On the other hand evaluating the derivative of (B 70) we find so that the δ-function from (B.71) sets ζ(0)
k
= 0 after integrating over ζ(0)
k
with the
measure (B.69) (to avoid confusion, recall that ζ(0)
k
has implicit z-dependence). O
th
th
h
d
l
ti
th d
i
ti
f (B 70)
fid On the other hand, evaluating the derivative of (B.70), we find ∂fk
∂zl
= 2
g2
Z
T4 tr
∂(An −Acl
n )
∂zl
Y (k)
n
+ (An −Acl
n )∂Y (k)
n
∂zl
! = 2
g2
Z
T4 tr
−∂Acl. n
∂zl
Y (k)
n
+ (An −Acl
n )∂Y (k)
n
∂zl
! . Next, we use (B.67) to replace ∂Acl. n
∂zl
by Y (k)
n
. Using the fact that ˜Λ(k) is Ω-periodic allows
us to integrate by parts on T4 without a boundary term, i.e. set
R
T4 tr Dn˜Λ(l) Y (k)
n
= 0, 45Recalling that (B.45) calculated Ukl =
2
g2
R
T4 tr Y (k)
n
Y (l)
n
= 16π2
g2 δkl. l
(k) 46Evaluating R
T4 Acl. n Y (k)
n
using the explicit expressions of section B.3.3 and plugging into (B.70), we find
that to leading-order in ∆the zero of fk occurs for zk = z∗
k, where z∗
k = −π(δk3 + δk4) + Lk ˜A3
k + O(
√
∆). Here, ˜A3
k is the constant T4-mode of the Cartan component of An. – 55 – since Y (k)
n
obeys the background gauge condition. We thus find ∂fk
∂zl
= 2
g2
Z
T4 tr
−
√
V
4πLl
Y (l)
n
Y (k)
n
+ (An −Acl
n )∂Y (k)
n
∂zl
! B.3.4
The Jacobian and the all-order bosonic measure = −
√
V
4πLl
16π2
g2 δkl + 2
g2
Z
T4 tr (An −Acl
n )∂Y (k)
n
∂zl
. (B.73) (B.73) Thus, the unity insertion (B.71) becomes Thus, the unity insertion (B.71) becomes 1 =
Y
k
dzk δ
ζ(0)
k
√
V
4πLk
16π2
g2
! det
√
V
4πLl
16π2
g2 δkl −2
g2
Z
T4 tr ζqZ(q)
n
∂Y (k)
n
∂zl
! ,
(B.74) (B.74) JHEP01(2023)118 where we used (B.68) and took the liberty to set ζ(0)
k
= 0 in the determinant, due to
integrating the delta function with the measure (B.69). The nonzero mode part of the
fluctuations can be ignored to leading order. Thus, collecting everything, we find that the
Jacobian factors from the delta function and the determinant in (B.74) cancel out and the
bosonic measure (B.69) becomes, after inserting (B.74) and integrating over ζ(0)
k , where we used (B.68) and took the liberty to set ζ(0)
k
= 0 in the determinant, due to
integrating the delta function with the measure (B.69). The nonzero mode part of the
fluctuations can be ignored to leading order. Thus, collecting everything, we find that the
Jacobian factors from the delta function and the determinant in (B.74) cancel out and the
bosonic measure (B.69) becomes, after inserting (B.74) and integrating over ζ(0)
k , dµB = V
g4
4
Y
k=1
dzk
√
2π . (B.75) (B.75) The bosonic zero mode measure is thus equal to the leading-order measure constructed
earlier in (B.5). Open Access. This article is distributed under the terms of the Creative Commons
Attribution License (CC-BY 4.0), which permits any use, distribution and reproduction in
any medium, provided the original author(s) and source are credited. SCOAP3 supports
the goals of the International Year of Basic Sciences for Sustainable Development. References [1] M. Garcia Perez, A. González-Arroyo and C. Pena, Perturbative construction of selfdual
configurations on the torus, JHEP 09 (2000) 033 [hep-th/0007113] [INSPIRE]. [1] M. Garcia Perez, A. González-Arroyo and C. Pena, Perturbative construction of selfdual
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Clinical Predictors of Response to Cognitive-Behavioral Therapy in Pediatric Anxiety Disorders: The Genes for Treatment (GxT) Study
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University of Groningen University of Groningen Journal of the American Academy of Child and Adolescent Psychiatry IMPORTANT NOTE: You are advised to consult the publisher's version (publisher's PDF) if you wish to cite from
it. Please check the document version below. Document Version
Publisher's PDF, also known as Version of record Publication date:
2015 Link to publication in University of Groningen/UMCG research database Citation for published version (APA):
Hudson, J. L., Keers, R., Roberts, S., Coleman, J. R. I., Breen, G., Arendt, K., Boegels, S., Cooper, P.,
Creswell, C., Hartman, C., Heiervang, E. R., Hoetzel, K., In-Albon, T., Lavallee, K., Lyne-Ham, H. J., Marin,
C. E., McKinnon, A., Meiser-Stedman, R., Morris, T., ... Eley, T. C. (2015). Clinical Predictors of Response
to Cognitive-Behavioral Therapy in Pediatric Anxiety Disorders: The Genes for Treatment (GxT) Study. Journal of the American Academy of Child and Adolescent Psychiatry, 54(6), 454-463. https://doi.org/10.1016/j.jaac.2015.03.018 Copyright
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amendment. Take-down policy
If you believe that this document breaches copyright please contact us providing details, and we will remove access to the work immediately
and investigate your claim. Download date: 24-10-2024 Clinical Predictors of Response to Cognitive-Behavioral
Therapy in Pediatric Anxiety Disorders: The Genes for
Treatment (GxT) Study Jennifer L. Hudson, PhD, Robert Keers, PhD, Susanna Roberts, MSc, Jonathan R.I. Coleman, MSc,
Gerome Breen, PhD, Kristian Arendt, PhD, Susan B€ogels, PhD, Peter Cooper, DPhil,
Cathy Creswell, DClinPsy, PhD, Catharina Hartman, PhD, Einar R. Heiervang, MD, PhD,
Katrin H€otzel, PhD, Tina In-Albon, PhD, Kristen Lavallee, PhD, Heidi J. Lyneham, PhD,
Carla E. Marin, PhD, Anna McKinnon, PhD, Richard Meiser-Stedman, PhD,
Talia Morris, BPsych (Hons), Maaike Nauta, PhD, Ronald M. Rapee, PhD, Silvia Schneider, PhD,
Sophie C. Schneider, BPsych(Hons), Wendy K. Silverman, PhD, Mikael Thastum, PhD,
Kerstin Thirlwall, DClinPsy, Polly Waite, DClinPsy, Gro Janne Wergeland, MD,
Kathryn J. Lester, DPhil, Thalia C. Eley, PhD lower rates of remission) than those with generalized
anxiety disorder (GAD). Although individuals with
specific phobia (SP) also had poorer outcomes than
those with GAD at posttreatment, these differences
were not maintained at follow-up. Both
comorbid
mood and externalizing disorders significantly pre-
dicted poorer outcomes at posttreatment and follow-
up, whereas self-reported parental psychopathology
had little effect on posttreatment outcomes but signifi-
cantly predicted response (although not remission) at
follow-up. Objective: The Genes for Treatment study is an interna-
tional, multisite collaboration exploring the role of genetic,
demographic,
and
clinical
predictors
in
response
to
cognitive-behavioral therapy (CBT) in pediatric anxiety
disorders. The current article, the first from the study,
examined demographic and clinical predictors of response
to CBT. We hypothesized that the child’s gender, type of
anxiety disorder, initial severity and comorbidity, and par-
ents’ psychopathology would significantly predict outcome. lower rates of remission) than those with generalized
anxiety disorder (GAD). Although individuals with
specific phobia (SP) also had poorer outcomes than
those with GAD at posttreatment, these differences
were not maintained at follow-up. Both
comorbid
mood and externalizing disorders significantly pre-
dicted poorer outcomes at posttreatment and follow-
up, whereas self-reported parental psychopathology
had little effect on posttreatment outcomes but signifi-
cantly predicted response (although not remission) at
follow-up. Method: A sampleof 1,519 children5 to 18 yearsofage with
a primary anxiety diagnosis received CBT across 11 sites. Outcome was defined as response (change in diagnostic
severity) and remission (absence of the primary diagnosis) at
each time point (posttreatment, 3-, 6-, and/or 12-month
follow-up) and analyzed using linear and logistic mixed
models. Separate analyses were conducted using data from
posttreatment and follow-up assessments to explore the
relative importance of predictors at these time points. Clinical Predictors of Response to Cognitive-Behavioral
Therapy in Pediatric Anxiety Disorders: The Genes for
Treatment (GxT) Study Conclusion: SoAD, nonanxiety comorbidity, and parental
psychopathology were associated with poorer outcomes
after CBT. The results highlight the need for enhanced
treatments for children at risk for poorer outcomes. Key
Words: anxiety
disorders,
treatment,
predictors,
cognitive-behavioral therapy Results: Individuals with social anxiety disorder (SoAD)
had significantly poorer outcomes (poorer response and J Am Acad Child Adolesc Psychiatry 2015;54(6):454–463. T T in life.1 Although CBT has been established as an efficacious
treatment, roughly 40% of children retain their disorder after
treatment.2,3 Identifying predictors of outcome, including
both response (change in symptoms) and rates of remission,
may allow clinicians to identify children at risk for poorer
outcomes before they commence therapy4 and help guide
the development of more effective treatments for these
children. T
his article presents the phenotypic analyses from the
Genes for Treatment (GxT) study, an international
multisite collaboration exploring the role of genetic
and clinical predictors of response to cognitive-behavioral
therapy (CBT) in pediatric anxiety disorders. Here we pre-
sent analyses examining clinical predictors of outcome. Our
research focuses on anxiety disorders, as these are the most
prevalent mental disorders, and, when experienced early,
are associated with increased risk of multiple disorders later There is some evidence to suggest that a diagnosis of
social anxiety disorder (SoAD), and comorbid mood and
externalizing disorder/symptoms are each associated with
poorer treatment outcomes.5-8 Parental depression and
anxiety have also been associated with poorer response and
remission. Nevertheless, findings for each of these predictors
are inconsistent. Indeed, the 2 most recent systematic re-
views of the literature failed to find conclusive evidence for a
role of any of these factors in treatment outcome.9,10 externalizing disorder/symptoms are each associate
poorer treatment outcomes.5-8 Parental depressio
anxiety have also been associated with poorer respon
remission. Nevertheless, findings for each of these pre
are inconsistent. Indeed, the 2 most recent system
views of the literature failed to find conclusive eviden
role of any of these factors in treatment outcome.9,10
Clinical guidance is available at the end of this article. Supplemental material cited in this article is available online. JOURNAL OF THE AMERICAN ACADEMY OF CHILD & ADOLESCENT PS
454
www.jaacap.org
VOLUME 54
NUMBER 6
JUN
Downloaded for Anonymous User (n/a) at University of Groningen from ClinicalKey.com by Elsevier on June 27, 2019. For personal use only. No other uses without permission. Copyright ©2019. Elsevier Inc. All rights reserved. Take-down policy Take-down policy
If you believe that this document breaches copyright please contact us providing details, and we will remove access to the work immediately
and investigate your claim. Downloaded from the University of Groningen/UMCG research database (Pure): http://www.rug.nl/research/portal. For technical reasons the
number of authors shown on this cover page is limited to 10 maximum. Downloaded from the University of Groningen/UMCG research database (Pure): http://www.rug.nl/research/portal. For technical reasons the
number of authors shown on this cover page is limited to 10 maximum. NEW RESEARCH
Clinical Predictors of Response to Cognitive-Behavioral
Therapy in Pediatric Anxiety Disorders: The Genes for
Treatment (GxT) Study
Jennifer L. Hudson, PhD, Robert Keers, PhD, Susanna Roberts, MSc, Jonathan R.I. Coleman, MSc,
Gerome Breen, PhD, Kristian Arendt, PhD, Susan B€ogels, PhD, Peter Cooper, DPhil,
Cathy Creswell, DClinPsy, PhD, Catharina Hartman, PhD, Einar R. Heiervang, MD, PhD,
Katrin H€otzel, PhD, Tina In-Albon, PhD, Kristen Lavallee, PhD, Heidi J. Lyneham, PhD,
Carla E. Marin, PhD, Anna McKinnon, PhD, Richard Meiser-Stedman, PhD,
Talia Morris, BPsych (Hons), Maaike Nauta, PhD, Ronald M. Rapee, PhD, Silvia Schneider, PhD,
Sophie C. Schneider, BPsych(Hons), Wendy K. Silverman, PhD, Mikael Thastum, PhD,
Kerstin Thirlwall, DClinPsy, Polly Waite, DClinPsy, Gro Janne Wergeland, MD,
Kathryn J. Lester, DPhil, Thalia C. Eley, PhD NEW RESEARCH NEW RESEARCH Clinical Predictors of Response to Cognitive-Behavioral
Therapy in Pediatric Anxiety Disorders: The Genes for
Treatment (GxT) Study JOURNAL OF THE AMERICAN ACADEMY OF CHILD & ADOLESCENT PSYCHIATRY
www.jaacap.org
VOLUME 54
NUMBER 6
JUNE 2015
Downloaded for Anonymous User (n/a) at University of Groningen from ClinicalKey.com by Elsevier on June 27, 2019. For personal use only. No other uses without permission. Copyright ©2019. Elsevier Inc. All rights reserved. JOURNAL OF THE AMERICAN ACADEMY OF CHILD & ADOLESCENT PSYCHIATRY
VOLUME 54
NUMBER 6
JUNE 2015
ingen from ClinicalKey.com by Elsevier on June 27, 2019. . Copyright ©2019. Elsevier Inc. All rights reserved. JOURNAL OF THE AMERICAN ACADEMY OF CHILD & ADOLESCENT PSYCHIATRY
VOLUME 54
NUMBER 6
JUNE 2015 454 454
www.jaacap.org
VOLUME 54
NUMBER 6
JUNE 2015
Downloaded for Anonymous User (n/a) at University of Groningen from ClinicalKey.com by Elsevier on June 27, 2019. For personal use only. No other uses without permission. Copyright ©2019. Elsevier Inc. All rights reserved. Downloaded for Anonymous User (n/a) at University of Groningen from ClinicalKey.com by Elsevier on June 27, 2019. For personal use only. No other uses without permission. Copyright ©2019. Elsevier Inc. All rights reserved. Downloaded for Anonymous User (n/a) at University of Groningen from ClinicalKey.com by Elsevier on June 27, 2019. For personal use only. No other uses without permission. Copyright ©2019. Elsevier Inc. All rights reserved. PREDICTORS OF CBT OUTCOME IN PEDIATRIC ANXIETY DISORDERS It is likely that the absence of multivariate models, in
conjunction with small samples, varied methodology, and
the failure to consistently distinguish between response and
remission, has contributed to the inconsistent results. The
collaboration of multiple sites and trials can overcome these
limitations. This study represents the largest collaboration to
date of pediatric anxiety treatment data and provides
significantly greater power to detect genetic, clinical, and
demographic
predictors
of
outcome
than
previously
possible. The sample includes data from previously pub-
lished studies,11,12 as well as data from ongoing trials yet to
be published. The goal of the current article was to identify
clinical and demographic predictors of outcome. We present
results from a linear mixture model with a higher-order
random effect allowing individuals to be nested within tri-
als, thereby controlling for possible trial and site differences. The design allows for the simultaneous examination of
multiple variables, resulting in the identification of unique
predictors. Downloaded for Anonymous User (n/a) at University of Groningen from ClinicalKey.com by Elsevier on June 27, 2019.
For personal use only. No other uses without permission. Copyright ©2019. Elsevier Inc. All rights reserved. Clinical Predictors of Response to Cognitive-Behavioral
Therapy in Pediatric Anxiety Disorders: The Genes for
Treatment (GxT) Study In our prior analyses on a subset of the current
sample, we found that being female, greater initial anxiety
severity, and the presence of comorbid mood and external-
izing disorders were uniquely associated with poorer
response to CBT.13 Although these findings are largely
consistent with the literature, the finding that girls do worse
than boys in CBT for child anxiety has emerged in only 1
individual trial14 and requires further examination in a
larger sample. We hypothesized that female gender, the
presence of SoAD, comorbid mood disorder, or externalizing
disorders, and greater parental psychopathology would
predict poorer outcomes to CBT in pediatric anxiety. Bochum and Basel, where the Diagnostisches Interview bei psychi-
schen Strungen im Kindes- und Jugendalter (Kinder-DIPS) was
used.16 Participants were assessed before and immediately after
treatment (posttreatment), with further assessments made 3, 6, or 12
months after treatment cessation where possible (follow-up). The
presence and severity of the primary anxiety disorder was measured
at each time point. Severity was assessed using the clinician severity
rating (CSR) from the structured interview, which assigns a score of
0 to 8 (absent to very severe). A diagnosis was made when the child
met the diagnostic criteria and received a CSR of 4 or more, usually
based on a composite of parent and child report. Diagnoses were
made according to DSM criteria.17 Ten sites (Sydney, Reading, Aarhus, Bochum, Basel, Groningen,
Oxford, Florida, Cambridge, and Amsterdam) also assessed co-
morbid mood (major depression or dysthymia) or externalizing
disorders
(oppositional
defiant
disorder,
conduct
disorder or
attention-deficit/hyperactivity disorder [ADHD]) at baseline using
the ADIS-C/P. In addition, at 8 sites (Sydney, Reading, Aarhus, Bergen,
Bochum, Oxford, Florida, Amsterdam), parents completed the
Depression Anxiety Stress Scales (DASS),18 assessing depression,
anxiety, and stress symptoms experienced over the past week. For
this study, the 3 subscales were summed to create an overall mea-
sure of parental psychopathology. All assessments were completed by graduate assistants or clin-
ical staff (mainly psychologists) trained in the administration of the
instruments. Sites have previously reported good interrater reli-
ability for the diagnostic instruments using these samples.11,19,20 METHOD
Sample The Genes for Treatment study (GxT) sample comprises data from
1,519 children who received a course of CBT for anxiety at 1 of 11
sites: Sydney, Australia (n ¼ 706); Reading, UK (n ¼ 340); Aarhus,
Denmark (n ¼ 124); Bergen, Norway (n ¼ 119); Bochum, Germany
(n ¼ 57); Basel, Switzerland (n ¼ 49); Groningen, the Netherlands
(n ¼ 37); Oxford, UK (n ¼ 21); Miami, Florida, USA (n ¼ 50);
Cambridge, UK (n ¼ 12) and Amsterdam, the Netherlands (n ¼ 4). Participants were included if they were 5 to 18 years of age (94%
were 5–13 years of age), met DSM-IV criteria for a primary diagnosis
of an anxiety disorder, and provided a DNA sample. Parents gave
written consent, and children gave written or verbal assent. Exclu-
sion criteria were significant physical or intellectual impairment or
psychosis. We conducted analyses using 2 treatment outcomes: response
(change in diagnostic severity), and remission (absence of the pri-
mary diagnosis). In response analyses, linear mixed-effects models
were used to investigate the effects of baseline predictor variables on
change in severity (CSR score) of the primary anxiety diagnosis from
baseline at each time point. In these analyses, the b values of vari-
ables predicting a more favorable response to treatment (i.e., greater
reduction in severity) are negative, whereas variables predicting a
less favorable response are positive. All participants received individual-based CBT involving a sin-
gle child (with or without their parent; n ¼ 426, 28%; mean [SD]
number sessions ¼ 11.8 [3.2]), group-based CBT (n ¼ 800, 52.7%;
mean [SD] number sessions ¼ 10 [0]) or guided CBT self-help (n ¼
293, 19.3%; mean [SD] number sessions ¼ 7.3 [1.5]) and provided at
least 1 posttreatment assessment. In analyses of remission, similar logistic mixed effects models
were used to investigate the effects of baseline predictor variables on
absence of the primary anxiety diagnosis at each time point. In these
analyses, odds ratios of variables predicting a higher likelihood of
remission (a loss of the primary diagnosis) are greater than 1,
whereas variables predicting a lower likelihood of remission have
odds ratios of less than 1. All treatments were manualized, and treatment protocols across
all sites were comparable for core elements of CBT including
teaching of coping skills, cognitive restructuring, and exposure. Further details are provided in Supplement 1, available online. Statistical Analysis To make use of all available postbaseline assessments and to provide
estimates in the presence of missing values, the effects of predictors
on outcome were tested using mixed models fitted with full
maximum likelihood. All models included the fixed effects of
baseline severity (CSR score of the primary diagnosis at baseline,
centered at the mean) and the linear and quadratic effects of time to
account for the curvilinear slope of treatment outcome. To account
for correlations between repeated measures from the same partici-
pant, all models included the random effects of individual. We also
included a higher-order random effect of trial to account for
between-trial differences in outcome. As each trial was conducted at
a single site, this random effect also accounted for between-site
differences. Predictor variables were entered simultaneously. Thus,
when a significant predictor is identified, it is significant over and
above the other predictors in the model. Measures Initially, we considered response and remission using data from
the entire duration of the trial. However, the power of the GxT
sample also enabled us to compare the results from separate All sites administered the Anxiety Disorders Interview Schedule for
DSM-IV, Parent and Child Versions (ADIS-IV-C/P15) except at JOURNAL OF THE AMERICAN ACADEMY OF CHILD & ADOLESCENT PSYCHIATRY
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0 5
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For personal use only. No other uses without permission. Copyright ©2019. Elsevier Inc. All rights reserved. Sample Characteristics p
The baseline demographic and clinical characteristics of the
sample overall and by site are given in Table 1. The most
common primary diagnosis was GAD, followed by SoAD,
SAD, and SP. The remaining participants met criteria for
“other anxiety” disorders, which included panic disorder
with and without agoraphobia and agoraphobia without
panic disorder (n ¼ 38), obsessive-compulsive disorder
(OCD; n ¼ 44), posttraumatic stress disorder (PTSD; n ¼
17), selective mutism (in patients with primary selective
mutism, a diagnosis of severe SoAD was also given; the
selective mutism was considered by the clinician to be
primary, the most interfering: n ¼ 4) or anxiety disorder not
otherwise specified (n ¼ 10). CSR scores for the primary
diagnosis indicated that the majority of the sample (79.1%)
were rated 6 or above (either severe or very severe) at the
start of treatment. Changes in severity scores grouped by
primary diagnosis with the n for each time point are given
in Figure 1. The 10 sites that measured comorbid mood and
externalizing disorders found both to be common, with
prevalence rates of 10.7% and 18.2%, respectively. Parental
psychopathology was also common, with 114 (8.9%), 137
(10.6%), and 172 (13.3%) scoring above the cut-offs for se-
vere depression (21þ), anxiety (15þ), and stress (26þ),
respectively.22 Individuals treated with group CBT and
those treated with self-help CBT had significantly more
missing outcome data than those treated with individual Our primary analyses included only the clinical and de-
mographic data collected in all of the participating sites as predictors
of treatment outcome. These were treatment type (in which group-
based and guided self-help CBT were each compared with
individual-based CBT), age (centered at the mean), gender (0 ¼
male, 1 ¼ female), and primary diagnosis (in which SoAD, separa-
tion anxiety disorder [SAD], specific phobia [SP], and “other anxi-
ety” disorders were each compared with generalized anxiety
disorder [GAD]). In secondary analyses, we also explored the effects
of comorbid mood and externalizing disorders, and parental psy-
chopathology as predictors of outcome in trials where these data
were available. These analyses included the presence of a comorbid
mood or externalizing disorder and standardized total score of the
DASS to indicate parental depression, anxiety, and stress symptoms. To control for multiple testing (6 analyses), we considered predictors
significant at a Bonferroni-corrected a level of 0.008 (0.05/6). RESULTS analyses predicting outcome at the posttreatment and follow-up
assessments, respectively. To formally test whether predictors
were specific to the posttreatment or follow-up time points, we also
tested the significance of a time-by-predictor interaction in models
using data from each time point in the study. Sample Characteristics JOURNAL OF THE AMERICAN ACADEMY OF CHILD & ADOLESCENT PSYCHIATRY
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JUNE 2015 455 From Each Site
Bergen
Bochum
Basel
Groningen
Oxford
Florida
Cambridge
Amsterdam
Total
2)
6.9
(1.1)
6.8
(1.1)
6
(0.8)
6.2
(1)
5.5
(1)
6.8
(1.2)
6.3
(1.2)
5.8
(1.7)
6.3
(1)
5) 64
(53.8) 33
(57.9) 27
(55.1) 17
(45.9) 13
(61.9) 21
(42.9)
8
(66.7)
0
(0)
783
(51.6)
4) 11.4
(2.1) 11.3
(2.5)
8.6
(2.2) 11.9
(3.1)
9
(1.8)
9.5
(2.2) 12.6
(2.8) 12
(1.8)
9.9
(2.2)
22
(18.5)
6
(10.5)
0
(0)
7
(18.9)
3
(14.3) 13
(26)
0
(0)
0
(0)
558
(36.7)
5) 54
(45.4) 15
(26.3)
0
(0)
15
(40.5)
7
(33.3) 13
(26)
0
(0)
1
(25)
341
(22.4)
3)
0
(0)
20
(35.1)
0
(0)
6
(16.2)
1
(4.8)
6
(12)
0
(0)
1
(25)
166
(10.9)
8) 43
(36.1) 13
(22.8) 49 (100)
6
(16.2)
9
(42.9) 12
(24)
0
(0)
2
(50)
341
(22.4)
3)
0
(0)
3
(5.3)
0
(0)
3
(8.1)
1
(4.8)
6
(12)
12 (100)
0
(0)
113
(7.4)
6) 58
(48.7) 57 (100)
49 (100)
37 (100)
0
(0)
50 (100)
12 (100)
1
(25)
426
(28)
4) 61
(51.3)
0
(0)
0
(0)
0
(0)
0
(0)
0
(0)
0
(0)
3
(75)
800
(52.7)
0
(0)
0
(0)
0
(0)
0
(0)
21 (100)
0
(0)
0
(0)
0
(0)
293
(19.3)
9)
—a
11
(19.3)
1
(2)
1
(2.7)
1
(4.8)
2
(4)
4
(36.4)
0
(0)
150
(10.7)
)
—a
3
(5.3)
2
(4.1)
2
(5.4)
4
(19)
13
(26)
6
(54.5)
1
(25)
254
(18.2)
6) 13.5 (14.6) 28.2 (16.9)
—a
—a
33
(16.2) 28.4 (12.1)
—a
22.2 (20.1)
30.8 (19.9)
3)
2.3
(4.2)
4.8
(5.3)
—a
—a
7.6
(6.2)
5.2
(4.9)
—a
5.5
(6.4)
6.5
(6.5)
4)
4.3
(7.1)
7.7
(7.8)
—a
—a
9.4
(6.7)
7.4
(4.1)
—a
3.8
(3.5)
9.1
(8)
8)
6.9
(5.5) 15.8
(7.7)
—a
—a
15.9
(6.7) 15.8
(7.1)
—a
13
(11.3)
15.2
(8.4)
goraphobia without panic disorder (n ¼ 38), obsessive-compulsive disorder (OCD; n ¼ 44), posttraumatic stress disorder (PTSD; n ¼ 17), selective
¼ cognitive-behavioral therapy; GAD ¼ generalized anxiety disorder; SAD ¼ separation anxiety disorder; SoAD ¼ social anxiety disorder; SP ¼ )
.6)
.2)
.7)
.4)
.9)
.4)
.4)
)
.7)
.3) PREDICTORS OF CBT OUTCOME IN PEDIATRIC ANXIETY DISORDERS Predictors of Response and Remission p
Results of the linear and logistic mixed models used to
explore the effects of demographic and clinical characteris-
tics on response (change in diagnostic severity of the pri-
mary diagnosis from baseline) and remission (absence of the
primary diagnosis) are given in Tables 2 and 3. Outcome
was considered first using data from all time points, then at
the posttreatment or follow-up assessments specifically. To
assess response (change in diagnostic severity), baseline
severity of diagnosis was included in all models as a co-
variate. Higher baseline severity was associated with higher
severity scores and a lower likelihood of remission across all
time points. Treatment Type
Treatment type was not associated with response or remis-
sion overall or in analyses conducted using the posttreat-
ment or follow-up assessments separately. Sample Characteristics Finally, our approach to measuring outcome allowed us to
include all of the available data and provided increased power to
detect predictors of treatment outcome. To ensure that our findings
were comparable to previous analyses of treatment outcome, we
also conducted analyses exploring the effects of the factors included
above on change in severity scores and absence of primary anxiety
disorder for each time point separately, using linear and logistic
regression, respectively. All statistical analyses were conducted using STATA version
12.0.21 FIGURE 1
Mean clinician severity rating (CSR) score by primary diagnosis at each time point. Note: Error bars represent 1
standard error of the mean; “other” includes panic disorder with and without agoraphobia and agoraphobia without panic disorder
(n ¼ 38), obsessive-compulsive disorder (OCD; n ¼ 44), posttraumatic stress disorder (PTSD; n ¼ 17), selective mutism (n ¼ 4), or
anxiety disorder not otherwise specified (n ¼ 10). GAD ¼ generalized anxiety disorder; SAD ¼ separation anxiety disorder;
SoAD ¼ social anxiety disorder; SP ¼ specific phobia. JOURNAL OF THE AMERICAN ACADEMY OF CHILD & ADOLESCENT PSYCHIATRY
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JUNE 2015 457 Downloaded for Anonymous User (n/a) at University of Groningen from ClinicalKey.com by Elsevier on June 27, 2019. For personal use only. No other uses without permission. Copyright ©2019. Elsevier Inc. All rights reserved. Downloaded for Anonymous User (n/a) at University of Groningen from ClinicalKey.com by Elsevier on June 27, 2019. For personal use only. No other uses without permission. Copyright ©2019. Elsevier Inc. All rights reserved. HUDSON et al. Predictors of Response and Remission TABLE 2
Results of Linear Mixed Models Examining Predictors of Treatment Response (Change in Severity of the Primary Diagnosis
From Baseline) Using Data From All Time Points, or Separately Using Only the Posttreatment or at Follow-Up Assessments r Mixed Models Examining Predictors of Treatment Response (Change in Severity of the Primary Diagnosis
a From All Time Points, or Separately Using Only the Posttreatment or at Follow-Up Assessments ABLE 2
Results of Linear Mixed Models Examining Predictors of Treatment Response (Change in Severity
rom Baseline) Using Data From All Time Points, or Separately Using Only the Posttreatment or at Follow TABLE 2
Results of Linear Mixed Models Examining Predictors of Treatment Response (Change in Severity of the Primary Diagnosis
From Baseline) Using Data From All Time Points, or Separately Using Only the Posttreatment or at Follow-Up Assessments
All Time Pointsa
Posttreatment Assessment
Follow-Up Assessmentsa
b
(95% CI)
b
(95% CI)
b
(95% CI)
Severity of primary diagnosis at baseline
0.18
(0.14e0.21)*
0.20
(0.15e0.24)*
0.14
(0.10e0.19)*
Treatment
Individual-based CBT
—b
—b
—b
Group-based CBT
0.17
(e0.01e0.35)
0.18
(e0.01e0.38)
0.06
(e0.18e0.31)
Guided self-help CBT
e0.02
(e0.27e0.23)
0.02
(e0.23e0.28)
e0.24
(e0.70e0.23)
Gender
0.09
(0.02e0.16)
0.08
(0.00e0.16)
0.10
(0.01e0.19)
Age
0.01
(e0.01e0.02)
0.01
(e0.01e0.03)
0.01
(e0.03e0.02)
Primary diagnosis
GAD
—b
—b
—b
SoAD
0.44
(0.34e0.53)*
0.48
(0.37e0.59)*
0.39
(0.27e0.51)*
SP
0.13
(0.01e0.26)
0.22
(0.07e0.36)*
0.02
(e0.14e0.18)
SAD
0.10
(0.00e0.20)
0.13
(0.01e0.24)
0.08
(e0.05e0.21)
Other
e0.18
(e0.32e0.03)
e0.17
(e0.33e0.00)
e0.16
(e0.34e0.03)
Secondary analysesc
Comorbid externalizing disorder
0.16
(0.06e0.27)*
0.23
(0.11e0.34)*
0.11
(e0.02e0.24)
Comorbid mood disorder
0.19
(0.06e0.32)*
0.23
(0.08e0.37)*
0.15
(e0.02e0.31)
Parental psychopathology
0.06
(0.02e0.10)*
0.04
(e0.01e0.09)
0.09
(0.03e0.14)*
Note: All models included the random effects of trial. Regression weights (b) significantly greater than 0 indicate that this variable is associated with a poorer reduction in
symptom severity after treatment. CBT ¼cognitive-behavioral therapy; GAD ¼ generalized anxiety disorder; Other ¼ other anxiety disorder; SAD ¼ separation anxiety
disorder; SoAD ¼ social anxiety disorder; SP ¼ specific phobia. aTo account for data collected longitudinally, these models included the random effects of participant and the linear and quadratic effects of time. bReference category. cInclude comorbidity and parental psychopathology. *p < .008. JOURNAL OF THE AMERICAN ACADEMY OF CHILD & ADOLESCENT PSYCHIATRY
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JUNE 2015 Gender and Age CBT (b ¼ 0.26, 95% CI ¼ 0.14–0.37, p < .001 and b ¼ 0.42,
95% CI ¼ 0.29–0.55, p < .001, respectively). However,
missingness was not associated with baseline severity,
age, gender, primary diagnosis, comorbid mood or exter-
nalizing
disorders,
or
parental
psychopathology
(all
p values >.1). g
Gender and age did not significantly predict response or
remission after correction for multiple testing. Age-by-
gender interactions were also nonsignificant. g
Gender and age did not significantly predict response or
remission after correction for multiple testing. Age-by-
gender interactions were also nonsignificant. Primary Diagnosis Primary Diagnosis
Primary diagnosis was significantly associated with both
response and remission. In response analyses, individuals
with SoAD showed significantly less change in their diag-
nostic severity than those with GAD. Correspondingly, in
analyses of remission, individuals with primary SoAD were
significantly more likely to retain their diagnosis at post-
treatment and follow-up assessments than those with GAD. Findings were similar regardless of time point. This suggests
that this factor had similar effects on outcome at both the
posttreatment and follow-up time points. The effects of
SoAD were also similar regardless of treatment type. Results
of response analyses for individual CBT, group CBT, and
guided self-help respectively were as follows: b ¼ 0.36, 95%
CI ¼ 0.16–0.56, p ¼ .001; b ¼ 0.54, 95% CI ¼ 0.37–0.70, p <
.001; and b ¼ 0.37, 95% CI ¼ 0.13–0.62, p ¼ .003. Results of
remission analyses for individual CBT, group CBT, and
guided self-help respectively were as follows: OR ¼ 0.41,
95% CI ¼ 0.18–0.93, p ¼ .033; OR ¼ 0.16, 95% CI ¼ 0.07–0.33,
p < .001; OR ¼ 0.08, 95% CI ¼ 0.01–0.84, p ¼ .035. This
suggests that the poor outcomes for individuals with SoAD JOURNAL OF THE AMERICAN ACADEMY OF CHILD & ADOLESCENT PSYCHIATRY
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JUNE 2015 458 www.jaacap.org Downloaded for Anonymous User (n/a) at University of Groningen from ClinicalKey.com by Elsevier on June 27, 2019. For personal use only. No other uses without permission. Copyright ©2019. Elsevier Inc. All rights reserved. Downloaded for Anonymous User (n/a) at University of Groningen from ClinicalKey.com by Elsevier on June 27, 2019. For personal use only. No other uses without permission. Copyright ©2019. Elsevier Inc. All rights reserved. PREDICTORS OF CBT OUTCOME IN PEDIATRIC ANXIETY DISORDERS TABLE 3
Results of Logistic Mixed Models Examining Predictors of Remission (Absence of the Primary Diagnosis) Using Data From
All Time Points, or Separately Using Only the Posttreatment or at Follow-Up Assessments TABLE 3
Results of Logistic Mixed Models Examining Predictors of Remission (Absence of the Primary Diagnosis) Using Data From
All Time Points, or Separately Using Only the Posttreatment or at Follow-Up Assessments
Characteristic
All Time Pointsa
Posttreatment Assessment
Follow-Up Assessmentsa
OR
(95% CI)
OR
(95% CI)
OR
(95% CI)
Severity of primary diagnosis at baseline
0.54
(0.44e0.65)*
0.69
(0.61e0.78)*
0.50
(0.36e0.69)*
Treatment
Individual-based CBT
—b
—b
—b
Group-based CBT
0.49
(0.21e1.13)
0.60
(0.32e1.09)
0.87
(0.24e3.13)
Guided self-help CBT
0.33
(0.10e1.04)
0.47
(0.23e0.98)
1.80
(0.13e25.57)
Gender
0.76
(0.55e1.05)
0.84
(0.67e1.05)
0.78
(0.47e1.29)
Age
1.00
(0.92e1.08)
0.98
(0.93e1.04)
1.05
(0.92e1.19)
Primary diagnosis
GAD
—b
—b
—b
SoAD
0.18
(0.11e0.28)*
0.31
(0.23e0.42)*
0.18
(0.08e0.39)*
SP
0.59
(0.33e1.04)
0.58
(0.40e0.86)*
0.90
(0.37e2.17)
SAD
0.76
(0.47e1.21)
0.70
(0.51e0.96)
1.02
(0.50e2.12)
Other
1.99
(0.99e3.99)
1.55
(0.95e2.53)
1.76
(0.60e5.16)
Secondary analysesc
Comorbid externalizing disorder
0.57
(0.35e0.94)
0.66
(0.48e0.91)
0.70
(0.35e1.43)
Comorbid mood disorder
0.43
(0.23e0.80)*
0.58
(0.39e0.87)
0.43
(0.17e1.06)
Parental psychopathology
0.80
(0.65e0.98)
0.91
(0.79e1.04)
0.71
(0.52e0.97)
Note: All models included the random effects of trial. Regression weights (b) significantly greater than 0 indicate that this variable is associated with a poorer reduction in
symptom severity after treatment. CBT ¼ cognitive-behavioral therapy; GAD ¼ generalized anxiety disorder; Other ¼ other anxiety disorder; OR ¼ odds ratio;
SAD ¼ separation anxiety disorder; SoAD ¼ social anxiety disorder; SP ¼ specific phobia. aTo account for data collected longitudinally, these models included the random effects of participant and the linear and quadratic effects of time. bReference category. cIncludes comorbidity and parental psychopathology. *p < .008. type, age, gender, and diagnosis were similar to those in the
previous models (see Table S2, available online, for estimates
from the full model). were not driven by a poor response to a particular treatment
type. Downloaded for Anonymous User (n/a) at University of Groningen from ClinicalKey.com by Elsevier on June 27, 2019.
For personal use only. No other uses without permission. Copyright ©2019. Elsevier Inc. All rights reserved. Comorbid Mood or Externalizing Disorders Comorbid Mood or Externalizing Disorders g
Using the same models and covariates as above (that is,
baseline severity as a covariate and gender, age, primary
diagnosis, and treatment type as predictors), we conducted
secondary analyses, exploring the effects of comorbid mood
or externalizing disorders, and parental psychopathology on
remission and response in trials that measured these factors
(lower portion of Tables 2 and 3). Effect sizes for treatment JOURNAL OF THE AMERICAN ACADEMY OF CHILD & ADOLESCENT PSYCHIATRY
VOLUME 54
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JUNE 2015 We also found that the presence of SoAD anywhere in
the child’s profile significantly worsened his/her outcome
(see Table S1, available online). The presence of a comorbid externalizing disorder was
associated with a poorer response to treatment (less
change in severity). Although these effects appeared to
be smaller in the follow-up than in the posttreatment as-
sessments, externalizing disorder by study period in-
teractions were nonsignificant (all p values >.1), indicating
that this factor had similar effects at both outcome time
points. Although findings were nominally significant
(p < .05) for remission, they did not withstand correction
for multiple testing. Individuals with a primary diagnosis of SP showed
significantly poorer response (less change in severity) and
lower rates of remission than those with GAD. However,
these findings were specific to outcome at the posttreatment
assessment. To test the statistical significance of these effects,
we included a diagnosis by study period interaction in an-
alyses using data from all time points. This interaction was
significant for both response and remission outcomes
(b ¼ –0.17, 95% CI ¼ –0.31 to 0.02, p ¼ .025 and OR ¼ 2.33,
95% CI ¼ 1.15–4.71, p ¼ .035, respectively), indicating that
SP becomes a less important predictor of outcome in the later
stages of the study. The presence of a comorbid mood disorder was also
associated with poorer response (especially at posttreat-
ment) and lower likelihood of remission using data from all
time points. However, as with externalizing disorders, a
mood disorder by study period interaction was nonsignifi-
cant for response and remission (all p values >.1), suggest-
ing that the effects of mood disorders did not differ
across time. Downloaded for Anonymous User (n/a) at University of Groningen from ClinicalKey.com by Elsevier on June 27, 2019.
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For personal use only. No other uses without permission. Copyright ©2019. Elsevier Inc. All rights reserved. Parental Psychopathology Parental psychopathology (total DASS score) was associ-
ated with significantly poorer response, particularly in the JOURNAL OF THE AMERICAN ACADEMY OF CHILD & ADOLESCENT PSYCHIATRY
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MBER 6
JUNE 2015
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Downloaded for Anonymous User (n/a) at University of Groningen from ClinicalKey.com by Elsevier on June 27, 2019. For personal use only. No other uses without permission. Copyright ©2019. Elsevier Inc. All rights reserved. 459 HUDSON et al. follow-up assessment. There was a significant parental
psychopathology by study period interaction (b ¼ 0.11,
95% CI ¼ 0.06–0.15, p < .001), indicating that these effects
were specific to follow-up. Although findings were in a
similar direction for remission, these results did not with-
stand correction for multiple testing. disorders was also significantly associated with lower like-
lihood of remission, and although findings were only
nominally significant (p < .05) for mood disorders and
parental psychopathology, they followed the same pattern
as we observed in our original analysis. Our
longitudinal
approach
to
measuring
outcome
allowed us to include all of the available data, providing
increased power to detect predictors of outcome. To enable
direct comparisons with other studies, we also conducted
analyses of remission of the primary diagnosis and change in
the severity of primary diagnosis at each time point in the
study (see Tables S7 and S8, available online). Although
findings did not reach statistical significance at all time
points because of the lower power inherent to subgroup
analyses, the results are similar to those from the mixture
model approach. Parental Involvement and Treatment Length
A recent individual-level meta-analysis combining data
from published child anxiety treatment trials suggested
that the level of parental involvement in treatments may
have an impact on outcome. Specifically, treatments that
involved
parents
and
used
contingency
management
strategies and/or a transfer of control model showed
better outcomes than treatments that included other types
of parental involvement.23 To account for these effects in
the current study, we coded parental involvement in each
trial using the same approach as in this previous study
(i.e.,
low
involvement,
active
involvement
without
emphasis on contingency management, and transfer of
control or active involvement with emphasis on contin-
gency management or transfer of control) and reanalyzed
the data using parental involvement as a covariate (see
Supplement 1 Methods and Table S3, available online). Downloaded for Anonymous User (n/a) at University of Groningen from ClinicalKey.com by Elsevier on June 27, 2019.
For personal use only. No other uses without permission. Copyright ©2019. Elsevier Inc. All rights reserved. Parental Psychopathology The results indicated that the level of parental involve-
ment was not associated with either response or remission,
and the inclusion of this variable did not affect our pre-
vious findings. As the included trials differed in the
number of planned sessions, we also explored whether
treatment length explained our previous findings (see
Table S4, available online). These analyses suggested that
treatment length was not associated with either response
or remission and did not confound the relationship be-
tween diagnosis, comorbidity, and parental psychopa-
thology and outcome. Downloaded for Anonymous User (n/a) at University of Groningen from ClinicalKey.com by Elsevier on June 27, 2019.
For personal use only. No other uses without permission. Copyright ©2019. Elsevier Inc. All rights reserved. Comparison With Previous Analyses Comparison With Previous Analyses
We previously reported on clinical and demographic pre-
dictors of treatment outcome at follow-up for a subset (n ¼
384) of this sample. These analyses suggested that female
gender, greater initial anxiety severity, and comorbid mood
and externalizing disorders were all associated with poorer
response to CBT.13 To ensure that the findings in the current
report were not driven entirely by data from these previous
analyses, we reanalyzed the GxT data excluding this subset. The results were similar to those from the entire sample (see
Table S5, available online). 460
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ww.jaacap.org
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JUNE 2015
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University of Groningen from ClinicalKey.com by Elsevier on June 27, 2019.
without permission. Copyright ©2019. Elsevier Inc. All rights reserved. Sensitivity Analyses
W
b
d d
f We combined data from multiple trials including patients
with a wide age range with a variety of different primary
disorders. This approach provided us with increased po-
wer to detect small effects and to identify robust predictors
with the highest potential clinical utility. Nevertheless, the
resulting heterogeneity may have affected the results. To
address this we conducted a series of sensitivity analyses
in which we attempted to reduce the heterogeneity of the
sample to include only individuals within a narrower age
range (5–13, n ¼ 1,429, 94.1%: see Table S9, available on-
line), only those with the 4 most common diagnoses (GAD,
SoAD, SAD, and SP; n ¼ 1,406, 92.5%; see Table S10,
available online), or only those who received a treatment
that was not diagnosis specific (n ¼ 1,423, 93.7%; see
Table S11, available online). In each of these analyses,
findings were equivalent to those from the full analysis,
suggesting that they were not the result of excessive het-
erogeneity in the sample. DISCUSSION This is the first article to emerge from an international
multisite collaboration exploring the role of genetic and
clinical predictors of outcome after CBT for pediatric anxiety
disorders. We
identified
several
clinical
predictors
of
outcome, some of which showed effects only at specific time
points. As our study examined multiple treatment pre-
dictors, we were able to identify variables that contributed
unique variance over and above other predictors, such as
baseline severity. y
In support of previous research,5,6 children with pri-
mary SoAD had the poorest outcomes and were nearly
twice as likely as children with primary GAD to still have
a diagnosis at the end of the study. This is not to say that
CBT is ineffective for children with SoAD but, rather, it
suggests that CBT is less effective than for children with
other types of anxiety disorders. These results cannot be
explained by initial severity, comorbidity, or parental
psychopathology. Currently we do not fully understand
why children with SoAD have poorer outcomes. Future
research must endeavor to understand the mechanisms We chose to focus on outcomes for the primary anxiety
disorder in the current article, as this is typically the main
outcome measure used in clinical trials and is typically the
target of treatment. Nevertheless, some previous studies
have considered remission as an absence of all anxiety di-
agnoses. When we conducted analyses using this stricter
definition, the results were comparable to our previous
findings of remission from the primary diagnosis (see
Table S6, available online). That is, individuals with a
diagnosis of SoAD were significantly less likely to experi-
ence remission. The presence of comorbid externalizing 460 ACADEMY OF CHILD & ADOLESCENT PSYCHIATRY
VOLUME 54
NUMBER 6
JUNE 2015 PREDICTORS OF CBT OUTCOME IN PEDIATRIC ANXIETY DISORDERS underlying these poorer outcomes for children with SoAD
and to develop and evaluate enhanced treatments. Of
particular note, the treatment delivered in the trials re-
ported here were typically of a generic format targeting a
heterogeneous group of children with anxiety disorders
(with the exception of patients with PTSD from the
Cambridge site and patients with SAD from the Bochum
and Basel sites). Treatments tailored specifically to target
SoAD (e.g., increased social skills training, video feed-
back, attention training) such as Social Effectiveness
Training24 may enhance outcomes for this more intrac-
table disorder. DISCUSSION As all
variables were modeled simultaneously, predictor effects are
significant over and above all other predictors in the model. Thus we can conclude, for instance, that SoAD is a signifi-
cant predictor of poorer response and remission, over and
above comorbid mood disorders. This study represents the largest of its kind and was
made possible through sharing of data and procedures. Despite these strengths, there are a number of limitations. First, there is considerable heterogeneity in the sample. We
included trial as a covariate in our analyses and used
broadly common assessment tools; yet each trial and site in
which it was conducted had subtle differences in recruit-
ment, assessment, and treatment. We also had very few
adolescents in our sample, limiting generalization of our
findings to preadolescent children. Future research needs to
determine whether these predictors are also important for
adolescents receiving treatment for anxiety disorders. As we
were interested in predictors of poor outcome in children
who received a full course of CBT, a control group was not
appropriate. Yet it is possible that the predictors identified in
this article may also be predictive of poorer outcomes even
in the absence of treatment. Finally, these data suggest that parental psychopa-
thology may have an impact on outcomes, specifically
during
the
follow-up
period,
although
this
varies
depending on the measure of outcome used. Parental
psychopathology did not predict remission of child anxi-
ety disorder. In contrast, when outcome was measured as
change in diagnostic severity, children of parents with
elevated symptoms of anxiety, depression, and stress
showed poorer response at follow-up. Previous research
has shown, albeit inconsistently, that increased parental
psychopathology reduces the efficacy of treatment for
anxious youth.9,25 However, the temporal effects observed
here are novel and may explain why not all studies
report a significant association. Moreover, these findings
indicate
that
parental
psychopathology
may
exert
increasing influence on the child’s symptom presentation
even after a child’s treatment has been completed. At the
completion of treatment, children no longer rely on the
therapist to monitor the successful execution of exposure
tasks but, rather, become increasingly reliant on parents
or themselves. DISCUSSION Unexpectedly, children with a primary
diagnosis of SP also showed poorer outcomes immedi-
ately
after
treatment
than
children
with
a
primary
diagnosis of GAD, but this difference disappeared by
follow-up. This suggests that children with a primary
diagnosis of SP take longer to demonstrate equivalent
outcomes to children with GAD. It is possible that, given
the graded approach to exposure, severe fears were
tackled toward the end of therapy after other, less severe
comorbid fears were reduced. majority of evidence shows comparable outcomes for
treatments
with
limited
versus
increased
parental
involvement. However, a recent individual patient data
meta-analysis showed enhanced long-term outcomes for
treatments with greater parent involvement and increased
focus on parenting factors such as contingency manage-
ment.23 Furthermore, there is some evidence to suggest
that, in the long term, providing additional parent anxiety
management may lead to enhanced outcomes for children
with anxiety.27 Treatment modality was not a significant predictor of
outcome, suggesting that treatment change is influenced by
factors common to the programs included in this study. Consistent with a recent meta-analysis,28 age also was not a
significant predictor of outcome, suggesting that CBT
works just as well for younger and older children, although
the majority of our sample was less than 13 years of age;
thus, our conclusions with respect to adolescence are
limited. Our lack of evidence for a unique effect of gender
is in contrast to a previous analysis of a small subset of
these data.13 Children presenting with comorbid mood or external-
izing disorders were approximately twice as likely as those
without to retain their primary anxiety disorder across all
outcome time points. These children also demonstrated
reduced levels of symptom change. These results support
the growing body of evidence that suggests that comorbidity
affects outcomes of CBT for anxious youth.7,8 There was
weak support for a temporal effect of comorbidity on
outcome,
with
the
importance
of
comorbid
disorders
reduced by the follow-up time point. Although this could be
explained by reduced power within these secondary ana-
lyses, it could also suggest that children with comorbid
disorders take longer to improve compared to those without,
suggesting that treatments could be developed that bring
about more efficient change. Of note, the significance of the predictors identified
cannot be explained by the child’s baseline severity of the
primary diagnosis, as this was included in the models. Downloaded for Anonymous User (n/a) at University of Groningen from ClinicalKey.com by Elsevier on June 27, 2019.
For personal use only. No other uses without permission. Copyright ©2019. Elsevier Inc. All rights reserved. Downloaded for Anonymous User (n/a) at University of Groningen from ClinicalKey.com by Elsevier on June 27, 2019.
For personal use only. No other uses without permission. Copyright ©2019. Elsevier Inc. All rights reserved. JOURNAL OF THE AMERICAN ACADEMY OF CHILD & ADOLESCENT PSYCHIATRY
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461
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VOLUME 54
NUMBER 6
JUNE 2015 Clinical Guidance Havik, PhD, and Krister Fjermestad, PhD, of
University of Bergen; Elisa Kulewski, MSc, Jonas Großekath€ofer, MSc, Nora
Dirks, BSc, Evelyn Kmelnitski, BSc, Sabrina Heuser, Dipl Psych, Karen Krause,
Dipl Psych, of Bochum University; Adrian Boyle, MD, FCEM, Clare Dixon,
BSc, MSc, Patrick Smith, MA, MSc, PhD, and Tim Dalgleish, MA, PhD, MSc,
of University of Cambridge; Harma Moorlag, PhD, Nienke Boersma, MSc,
and Sanne Hogendoorn, MSc, of University of Groningen; Sue Cruddace,
PhD, Marie Weber, student, Zoe Hughes, BSc, Liz White, BSc, Francoise
Hentges, PhD, DClinPsy, and Kiri Clarke, MSc, of Reading University; Nynke
Wagenaar, MSc, of University of Amsterdam; Luci Motoca, PhD, Yesenia
Rodriguez, MS, Klaudia Pereira, MSc, Cristina Del Busto, MS, Erin Hede-
mann, MS, and Yasmin Rey, PhD, of Florida International University; and
Gillian O’Neill, BSc (Hons), Lucy Lindley, BSc (Hons), Rachel Banham, BSc
(Hons), and Nora Delvendahl, BSc (Hons), of King’s College London for their
contributions. This article was reviewed under and accepted by deputy editor John Pia-
centini, PhD. Drs. Hudson, Lyneham, Rapee, and Ms. Morris and Ms. Schneider are with
the Centre for Emotional Health, Macquarie University, Sydney, Australia. Drs. Keers, Breen, and Eley and Ms. Roberts and Mr. Coleman are with King’s
College London, Institute of Psychiatry, Psychology and Neuroscience, Med-
ical Research Council (MRC) Social, Genetic and Developmental Psychiatry
(SGDP) Centre, London. Drs. Arendt and Thastum are with University of Aar-
hus, Denmark. Dr. Bogels is with the Research Institute Child Development and
Education, University of Amsterdam. Drs. Cooper, Creswell, Thirlwall, and
Waite are with the School of Psychology and Clinical Language Sciences,
University of Reading, UK. Drs. Hartman and Nauta are with University
Medical Center Groningen, University of Groningen, The Netherlands. Dr. Heiervang is with the Institute of Clinical Medicine, University of Oslo, Nor-
way and Anxiety Research Network, Haukeland University Hospital, Bergen,
Norway. Dr. H€otzel is with Ruhr-Universit€at Bochum, Germany. Dr. In-Albon is
with University Koblenz-Landau, Landau, Germany. Dr. Lavallee is with Uni-
versity of Basel, Switzerland. Drs. Marin and Silverman are with Yale Uni-
versity, New Haven, CT. Drs. McKinnon and Meiser-Stedman are with the
MRC Cognition and Brain Sciences Unit, Cambridge, UK. Dr. Schneider is
with Ruhr-Universit€at Bochum, Germany. Dr. Wergeland is with Anxiety
Research Network, Haukeland University Hospital. Dr. Lester is with the School
of Psychology, University of Sussex, UK. Disclosure: Dr. Clinical Guidance NIHR on behalf of the MRC-NIHR partnership. Dr. Lester is supported by an
MRC research grant (MR/J011762/1) and Jacobs Foundation Young
Scholar Award. Dr. Keers is supported by an MRC Population Health Scientist
Award (MR/K021281/1). This study presents independent research partly
funded by the NIHR Biomedical Research Centre at South London and
Maudsley, NHS Foundation Trust, and King’s College London. The views
expressed are those of the author(s) and not necessarily those of the NHS, the
NIHR, or the Department of Health. NIHR on behalf of the MRC-NIHR partnership. Dr. Lester is supported by an
MRC research grant (MR/J011762/1) and Jacobs Foundation Young
Scholar Award. Dr. Keers is supported by an MRC Population Health Scientist
Award (MR/K021281/1). This study presents independent research partly
funded by the NIHR Biomedical Research Centre at South London and
Maudsley, NHS Foundation Trust, and King’s College London. The views
expressed are those of the author(s) and not necessarily those of the NHS, the
NIHR, or the Department of Health. CBT works irrespective of a child’s age and gender. Children with SoAD had poorer outcomes compared to
children with other anxiety disorders. Parent involvement did not impact treatment outcome. Parent involvement did not impact treatment outcome. Drs. Hudson and Keers contributed equally to the work. Drs. Lester and Eley
also contributed equally to the work. There is some evidence that the presence of comorbid
mood disorders and parental psychopathology may lead
to poorer outcomes There is some evidence that the presence of comorbid
mood disorders and parental psychopathology may lead
to poorer outcomes Dr. Keers served as the statistical expert for this research. The authors thank Irma Knuistingh Neven, BEd, MSc, Kathryn Preece,
BSc(Psych) PGDip, Annabel Price, BSc (Hons), and Julia White, BCom,
BSc-Psych (Hons), Grad Dip Psych, of Macquarie University; Marianne
Bjerregaard
Madsen,
administrator,
Hjalti
Jonsson,
PhD,
and
Lisbeth
Jørgensen, MSc, of Aarhus University; Carmen Adornetto, DPhil, Judith Blatter-
Meunier, DPhil, Chantal Herren, DPhil, of University of Basel; Kristine Fonnes
Griffin, administrator, Odd E. DISCUSSION Given this, it is possible that parental
psychopathology could exert greater interference on the
child’s symptom reduction during this period.26 The In summary, these findings suggest that CBT is effective
for children irrespective of whether treatment is delivered in
individual or group format and irrespective of the child’s
age and gender. CBT is more effective for children without
primary SoAD or comorbid mood disorders. Children with
primary specific phobia or comorbid externalizing disorders
may show slower response; however, in the long term, there
should be no significant difference in outcome. Finally, the
impact of having a parent with elevated levels of psycho-
pathology will have an increasingly important impact on the
child’s outcomes after treatment is complete. The next step is
to develop and to evaluate enhanced treatments for children
at risk for poorer outcome. & JOURNAL OF THE AMERICAN ACADEMY OF CHILD & ADOLESCENT PSYCHIATRY
VOLUME 54
NUMBER 6
JUNE 2015 461 HUDSON et al. REFERENCES REFERENCES 5. Ginsburg GS, Kendall PC, Sakolsky D, et al. Remission after acute treat-
ment in children and adolescents with anxiety disorders: findings from
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JUNE 2015 462 www.jaacap.org Clinical Guidance Hudson is an author of the Cool Kids program but receives no
direct payment from it. Dr. Creswell is joint author of a book used in treatment
within the Overcoming trial and receives royalties from sales of the book. Dr. Lyneham is an author of the Cool Kids program but receives no direct
payment from it. Dr. Rapee is an author of the Cool Kids program but receives
no direct payment from it. Dr. Schneider is an author of the Diagnostisches
Interview bei psychischen St€orungen im Kindes- und Jugendalter, from which
she receives royalties. Dr. Silverman is an author of the Anxiety Disorders
Interview Schedule for Children, from which she receives royalties. Drs. Keers,
Breen, Arendt, Bogels, Cooper, Hartman, Heiervang, H€otzel, In-Albon, Lav-
allee, Marin, McKinnon, Meiser-Stedman, Nauta, Thastum, Thirlwall, Waite,
Wergeland, Lester, Eley, Ms. Roberts, Mr. Coleman, Ms. Morris, and Ms. Schneider report no biomedical financial interests or potential conflicts of in-
terest. Combined study supported by UK MRC grant G0901874/1 (T.C.E.). In-
dividual trials support by Australian Research Council grant DP0878609
(J.L.H., Jenny Donald, PhD, R.M.R., T.C.E.); Australian National Health and
Medical Research Council grants (1027556: R.M.R., J.L.H., H.J.L., Cathy
Mihalopolous, BSc[Hons], PhD), (488505: H.J.L., J.L.H., R.M.R.), and
(382008: J.L.H. and R.M.R.); TrygFonden grant (7-10-1391: M.T. and
Esben Hougaard, PhD); Edith og Godtfred Kirk Christiansens Fond grant (21-
5675: M.T.); Swiss National Science Foundation grant (105314-116517:
S.S.); Western Norway Regional Health Authority grants (911253: Odd E. Havik, PhD) and (911366: E.H.); UK MRC Clinical Fellowship (G0802821:
R.M.-S.); National Institute of Mental Health R01MH079943 (W.K.S.); UK
National Institute for Health Research (NIHR) grants (PB-PG-0110-21190:
C.C.) and (PB-PG-0107-12042: P.C.); UK MRC grants (09-800-17: P.C. and C.C.; G0802326: K.T., P.C., and C.C.; G1002011: P.W., C.C.,
and P.C.; and G0601874; C.C.). Grant 09-800-17 was managed by Correspondence to Thalia Eley, PhD, King’s College London, Institute of
Psychiatry, Psychology and Neuroscience, SGDP Centre, Box P080, De
Crespingy Park, London, SE5 8AF UK; e-mail: thalia.eley@kcl.ac.uk, or
Kathryn Lester, DPhil, School of Psychology, University of Sussex, pevensey
Building, Falmer, Brighton, BN1 9QH, UK; e-mail: k.lester@sussex.ac.uk 0890-8567/$36.00/ª2015 American Academy of Child and Adolescent
Psychiatry. Published by Elsevier Inc. This is an open access article under the
CC BY license (http://creativecommons.org/licenses/by/4.0/). http://dx.doi.org/10.1016/j.jaac.2015.03.018 www.jaacap.org Downloaded for Anonymous User (n/a) at University of Groningen from ClinicalKey.com by Elsevier on June 27, 2019. For personal use only. No other uses without permission. Copyright ©2019. Elsevier Inc. All rights reserved. PREDICTORS OF CBT OUTCOME IN PEDIATRIC ANXIETY DISORDERS 18. Lovibond SH, Lovibond PF. Manual for the Depression Anxiety Stress
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https://www.frontiersin.org/articles/10.3389/fonc.2018.00125/pdf
|
English
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Multimodal Light Microscopy Approaches to Reveal Structural and Functional Properties of Promyelocytic Leukemia Nuclear Bodies
|
Frontiers in oncology
| 2,018
|
cc-by
| 20,706
|
Multimodal Light Microscopy
Approaches to Reveal Structural and
Functional Properties of
Promyelocytic Leukemia Nuclear
Bodies The promyelocytic leukemia (pml) gene product PML is a tumor suppressor localized
mainly in the nucleus of mammalian cells. In the cell nucleus, PML seeds the formation
of macromolecular multiprotein complexes, known as PML nuclear bodies (PML NBs). While PML NBs have been implicated in many cellular functions including cell cycle
regulation, survival and apoptosis their role as signaling hubs along major genome main-
tenance pathways emerged more clearly. However, despite extensive research over the
past decades, the precise biochemical function of PML in these pathways is still elusive. It remains a big challenge to unify all the different previously suggested cellular functions
of PML NBs into one mechanistic model. With the advent of genetically encoded fluores-
cent proteins it became possible to trace protein function in living specimens. In parallel,
a variety of fluorescence fluctuation microscopy (FFM) approaches have been developed
which allow precise determination of the biophysical and interaction properties of cel-
lular factors at the single molecule level in living cells. In this report, we summarize the
current knowledge on PML nuclear bodies and describe several fluorescence imaging,
manipulation, FFM, and super-resolution techniques suitable to analyze PML body
assembly and function. These include fluorescence redistribution after photobleaching,
fluorescence resonance energy transfer, fluorescence correlation spectroscopy, raster
image correlation spectroscopy, ultraviolet laser microbeam-induced DNA damage,
erythrocyte-mediated force application, and super-resolution microscopy approaches. Since most if not all of the microscopic equipment to perform these techniques may be
available in an institutional or nearby facility, we hope to encourage more researches to
exploit sophisticated imaging tools for their research in cancer biology. Citation: Hoischen C, Monajembashi S,
Weisshart K and Hemmerich P (2018)
Multimodal Light Microscopy
Approaches to Reveal Structural and
Functional Properties
of Promyelocytic Leukemia
Nuclear Bodies. Front. Oncol. 8:125. doi: 10.3389/fonc.2018.00125 Keywords: live cell imaging, fluorescence fluctuation microscopy, super-resolution, promyelocytic leukemia,
tumor suppressor, oncogene Edited by:
Elisa Ferrando-May,
Universität Konstanz, Germany Reviewed by:
Lothar Schermelleh,
University of Oxford, United Kingdom
Graham Dellaire,
Dalhousie University, Canada
Don C. Lamb,
Ludwig-Maximilians-Universität
München, Germany *Correspondence:
Peter Hemmerich
peter.hemmerich@leibniz-fli.de Specialty section:
This article was submitted to
Cancer Genetics,
a section of the journal
Frontiers in Oncology Received: 17 November 2017
Accepted: 05 April 2018
Published: 25 May 2018 Review Review
published: 25 May 2018
doi: 10.3389/fonc.2018.00125 published: 25 May 2018
doi: 10.3389/fonc.2018.00125 Edited by: Edited by:
Elisa Ferrando-May,
Universität Konstanz, Germany PML AND PML NUCLEAR BODIES The pml gene product (PML) is a member of the tripartite
motif (TRIM)-containing protein superfamily. In human cells,
six nuclear PML isoforms (I–VI) are expressed. The various
isoforms originate from alternative mRNA splicing of exons 7–9
while exons 1–6 are shared by all isoforms (Figure 1A) (21). This
primary sequence complexity of PML protein expression allows
for common as well as individual functional modalities among
the isoforms (22). PML I is the longest isoform (882 amino acids),
while PML VI (552 amino acids) is the shortest isoform in the
cell nucleus. Similar to other members of the TRIM family, all
nuclear PML protein isoforms contain a conserved TRIM/RBCC
motif consisting of a RING domain, two B-box domains and a
coiled-coil domain (RBCC) (Figure 1A) (23). A nuclear localiza-
tion signal (NLS) mediates predominant nuclear localization of
PML. All PML isoforms contain three well-characterized small
ubiquitin-related modifier (SUMO) modification sites at position
65, 160, and 490 of the PML primary sequence (Figure 1A) (24). Generally, SUMO modification of proteins plays important roles
in diverse cellular processes, including chromatin organization,
transcription, DNA repair, macromolecular assembly, protein i
A better understanding of the biophysical and biochemical
mechanisms by which PML and/or the PML nuclear bodies
participate in genome maintenance is expected to facilitate the
development of therapeutic strategies for the treatment of PML-
related diseases (19). Novel microscopy methods have become key tools for study-
ing biological systems over the past decades. Deep insight with
unprecedented spatial and time resolution has been obtained
for many cellular factors as a result of the rapid development of
optical microscopy, fluorescent probes, and new labeling tech-
niques (20). Since most biochemical mechanisms on the cellular
level are dynamic by nature and cannot be fully understood by
simply measuring fixed structures it is desirable to investigate the
molecule of interest in real time, in living cells, at single-molecule,
nanometer, and nanosecond resolution. Is this feasible? We think
the answer is yes and the purpose of this report is explaining why. Figure 1 | Promyelocytic leukemia (PML) protein isoforms. (A) Schematic depiction of the six nuclear PML isoforms (I to VI). Exons 1–6 are shared by all isoforms
while their C-termini are individually different due to alternative splicing of exons 7–9. R, RING domain, B, B box; CC, coiled coil domain; NLS, nuclear localization
sequence; SIM, SUMO-interacting motif; S, SUMOylation sites at arginine positions K65, K160, and K490. INTRODUCTION At the physiological
level, PML has been functionally linked to anti-inflammatory and
antiviral response pathways, metabolism, stem cell maintenance,
and aging, while more mechanistically, PML’s role in tumor
suppression is linked to control of the cell cycle, apoptosis/
senescence, cell migration, angiogensis, and the DNA damage
response (9, 10). Since upon DNA damage PML NBs accumulate
various DNA damage response factors and physically associate
with damaged chromatin, they have also been suggested to play
important roles in genome maintenance, probably by supporting
specific aspects of DNA repair pathways (11–18). We set out here to summarize our view of PML nuclear body
function and assembly, the current status of powerful imaging
methods and describe in some detail how the new imaging tools
work in deciphering structural and functional aspects of PML
nuclear bodies. Many of these tools may be accessible at a near-by
imaging facility of most laboratories. We therefore wish to encour-
age those researchers in the fields of cancer biology to exploit the
new methods more rigorously. Ultimately, the combination of
classical biochemical approaches with dynamic methods and live
cell imaging platforms may make it possible to fully elucidate the
biophysical mechanisms underlying the structure, function, and
networks of tumor suppressors and oncogenes, thus aiding the
development of new therapeutic approaches. INTRODUCTION The promyelocytic leukemia (pml) gene is a target of the t(15;17) chromosomal translocation, which
fuses pml reciprocally with retinoic acid receptor α (RARα) (1). PML protein is the major build-
ing unit of the so-called PML nuclear bodies (PML NBs). PML NBs appear as nuclear dot-shaped
structures that are interspersed between chromatin (2). PML NBs are heterogeneous and dynamic May 2018 | Volume 8 | Article 125 Frontiers in Oncology | www.frontiersin.org 1 Advanced Bioimaging of PML Bodies Hoischen et al. structures, ranging in size from 0.1 to 1.0 µm, and typically there
are 5–30 bodies per nucleus, depending on the cell type, phase
of cell cycle, and the cellular stress level (3–5). Overexpression of
PML in cancer cell lines induces cell cycle arrest and apoptosis
(6). PML knock-out mice develop a range of cancers including
papillomas, carcinomas, and lymphomas after exposure to car-
cinogens (7). Furthermore, loss of PML is a hallmark of human
cancers from diverse tissues (8). Therefore, PML is regarded as
a potent tumor suppressor in in vitro (biochemistry, cell culture
experiments) and in vivo (model organisms). At the physiological
level, PML has been functionally linked to anti-inflammatory and
antiviral response pathways, metabolism, stem cell maintenance,
and aging, while more mechanistically, PML’s role in tumor
suppression is linked to control of the cell cycle, apoptosis/
senescence, cell migration, angiogensis, and the DNA damage
response (9, 10). Since upon DNA damage PML NBs accumulate
various DNA damage response factors and physically associate
with damaged chromatin, they have also been suggested to play
important roles in genome maintenance, probably by supporting
specific aspects of DNA repair pathways (11–18). structures, ranging in size from 0.1 to 1.0 µm, and typically there
are 5–30 bodies per nucleus, depending on the cell type, phase
of cell cycle, and the cellular stress level (3–5). Overexpression of
PML in cancer cell lines induces cell cycle arrest and apoptosis
(6). PML knock-out mice develop a range of cancers including
papillomas, carcinomas, and lymphomas after exposure to car-
cinogens (7). Furthermore, loss of PML is a hallmark of human
cancers from diverse tissues (8). Therefore, PML is regarded as
a potent tumor suppressor in in vitro (biochemistry, cell culture
experiments) and in vivo (model organisms). PML AND PML NUCLEAR BODIES Additional posttranslational modifications
(PTMs) of PML include phosphorylation, acetylation, and
ubiquitination, all of which may serve to fine-tune PML (nuclear
body) function through multiple mechanisms (28). A common
feature of TRIM/RBCC proteins is homo-multimerization which
generates a variety of subcellular structures including ribbon-like
structures, cytoplasmic or nucleopasmic filaments, as well as
cytoplasmic or nucleoplasmic bodies (23). Indeed, all six nuclear
PML isoforms, when ectopically overexpressed, individually
form nuclear bodies even in the absence of endogenous PML
(29), with some isoforms contributing not only to nuclear body
morphology (27, 30) but also function (31–33). By immunofluorescence light microscopy, normal PML bod-
ies display as spherical structures, ranging in size from 0.2 µm
up to 1 µm (Figure 2A). By electron or super-resolution light
microscopy, PML protein is concentrated in a ~100 nm thick
shell in the periphery of the nuclear bodies with no chromatin
or RNA inside them (34–37). The shell also contains SUMO
isoforms and other PML body components, such as SP100
(Figure 2B) (35). This structural arrangement provokes the
question on the nature and biological function of the inner core
of a PML NB. Within the nuclear body shell, PML’s branched
SUMO chains stabilize protein complexes as a “molecular glue”
(see next section). In functionally specialized PML bodies, such
as in alternative lengthening of telomeres-associated PML nuclear
bodies (APBs) and in immunodeficiency, centromeric instability,
and facial dysmorphy (ICF) syndrome cells, the inner core of PML
bodies contains chromatin, namely telomeric DNA in APBs or Figure 2 | Structure and function of promyelocytic leukemia (PML) nuclear bodies. (A) Distribution of PML protein in a cell nucleus of a MRC-5 (primary human
lung fibroblast) cell. The micrograph shows the immunofluorecence signal of an antibody directed to all PML isoforms (green, monoclonal antibody E-11, sc-377390,
Santa Cruz Biotechnology, Heidelberg, Germany) along with DAPI fluorescence (red) of a mid-confocal section of the nucleus. Bar; 5 µm. (B) Structure of PML
nuclear bodies. SUMOylated PML protein subunits are the building blocks of a shell-like structure in the periphery of the nuclear body. Additional PML body-
interacting proteins may bind to PML, specifically to the C-termini of the various PML isoforms, to the poly-small ubiquitin-related modifier (poly-SUMO) chains or to
SUMO-interaction motifs. PML nuclear bodies’ are in direct contact with chromatin fibers, which contribute to the bodies physical stability. See Figure 3 for more
information on the assembly mechanism. PML AND PML NUCLEAR BODIES (B) PML protein expression in various cell lines. Western
blot of whole cell lysates derived from MRC-5 (primary human lung fibroblasts), U2OS (Osteosarcoma-derived ALT cell line), and HEp-2 (human epithelial non-ALT
cancer cell line) using a rabbit-anti-PML antibody (ABD-030, Jena Bioscience, Germany) at 1:500 dilution. Non-SUMOylated PML isoforms are detectable between
55 kDa and 110 kDa. Poly-SUMOylated PML isoforms are detected above 110–250 kDa. Figure 1 | Promyelocytic leukemia (PML) protein isoforms. (A) Schematic depiction of the six nuclear PML isoforms (I to VI). Exons 1–6 are shared by all isoforms
while their C-termini are individually different due to alternative splicing of exons 7–9. R, RING domain, B, B box; CC, coiled coil domain; NLS, nuclear localization
sequence; SIM, SUMO-interacting motif; S, SUMOylation sites at arginine positions K65, K160, and K490. (B) PML protein expression in various cell lines. Western
blot of whole cell lysates derived from MRC-5 (primary human lung fibroblasts), U2OS (Osteosarcoma-derived ALT cell line), and HEp-2 (human epithelial non-ALT
cancer cell line) using a rabbit-anti-PML antibody (ABD-030, Jena Bioscience, Germany) at 1:500 dilution. Non-SUMOylated PML isoforms are detectable between
55 kDa and 110 kDa. Poly-SUMOylated PML isoforms are detected above 110–250 kDa. May 2018 | Volume 8 | Article 125 2 Advanced Bioimaging of PML Bodies Hoischen et al. homeostasis, trafficking, and signal transduction (25). In the
case of PML, SUMO-2 and SUMO-3 can form heteropolymeric
poly-SUMO chains (26). PML isoforms as well as their poly-
SUMOylated variants can be easily detected by Western blotting
(Figure 1B) (27). Additional posttranslational modifications
(PTMs) of PML include phosphorylation, acetylation, and
ubiquitination, all of which may serve to fine-tune PML (nuclear
body) function through multiple mechanisms (28). A common
feature of TRIM/RBCC proteins is homo-multimerization which
generates a variety of subcellular structures including ribbon-like
structures, cytoplasmic or nucleopasmic filaments, as well as
cytoplasmic or nucleoplasmic bodies (23). Indeed, all six nuclear
PML isoforms, when ectopically overexpressed, individually
form nuclear bodies even in the absence of endogenous PML
(29), with some isoforms contributing not only to nuclear body
morphology (27, 30) but also function (31–33). homeostasis, trafficking, and signal transduction (25). In the
case of PML, SUMO-2 and SUMO-3 can form heteropolymeric
poly-SUMO chains (26). PML isoforms as well as their poly-
SUMOylated variants can be easily detected by Western blotting
(Figure 1B) (27). PML NUCLEAR BODY FUNCTION Systems biological analyses based on online repositories, most
notably the Nuclear Protein Database1 (43) have predicted,
that more than 150 nuclear proteins have the ability to interact
with PML bodies (44, 45). The “Biological General Repository
for Interaction Datasets” (BioGRID) lists 243 unique protein
interactions.2 Resident factors of PML NBs include, beside all
PML isoforms, SUMO paralogs, Daxx, and SP100 (46). Most
other factors only transiently accumulate at PML bodies under
specific stress conditions or in specialized PML bodies, such as
APBs or the giant PML bodies in ICF cells (39). In addition to
the telomeric chromatin and shelterin core components, APBs
accumulate DNA recombination and repair factors such as the
MRN complex, RAD (radiation sensitivity) family members,
RPA and WRN (38, 47).h The functional diversity of transient PML NB components
is likely the basis of the many different biological roles ascribed
to these nuclear structures (Figure 2C) (5, 48). PML NBs have
been functionally linked to apoptosis (49), nuclear proteolysis
(50), senescence (51), stem cell renewal (52, 53), regulation of
gene expression (54), tumor suppression (55), the DNA dam-
age response (40, 41, 56), telomere elongation and stability (47,
57), epigenetic regulation (37, 58), and antiviral responses (59)
(Figure 2C). Not surprisingly, functional annotation of PML
nuclear body proteins show an enrichment of terms related
to cell cycle control, cellular stress response, DNA repair, and
protein modification processes (44). More globally, the various
aspects of PML NB functions mainly point to their role in genome
maintenance (18). The iterative nature of the multiple binding sites creates a
multivalency, which has now been suggested to be responsible
for the compartmentalization activity of PML NBs through the
biophysical mechanism of phase-separation (67). Although
only inferred as probable from GFP-SUMO/RFP-SIM phase-
separation data obtained in vitro, the Banani et al. report suggests
that that the polySUMO/polySIM interfaces in PML NBs may
form phase-separated liquid droplet structures in living cells
(68). Thus PML NBs belong to the family of viscous liquid, mem-
brane less nuclear compartments, which may function as phase
separating condensates equivalent to lipid droplets (69). PML AND PML NUCLEAR BODIES (C) Proposed functions of PML nuclear bodies. Probably more than 100 proteins permanently or transiently bind to PML
NBs. According to these protein’s function, many different physiological roles as depicted have been proposed for PML NBs. Figure 2 | Structure and function of promyelocytic leukemia (PML) nuclear bodies. (A) Distribution of PML protein in a cell nucleus of a MRC-5 (primary human
lung fibroblast) cell. The micrograph shows the immunofluorecence signal of an antibody directed to all PML isoforms (green, monoclonal antibody E-11, sc-377390,
Santa Cruz Biotechnology, Heidelberg, Germany) along with DAPI fluorescence (red) of a mid-confocal section of the nucleus. Bar; 5 µm. (B) Structure of PML
nuclear bodies. SUMOylated PML protein subunits are the building blocks of a shell-like structure in the periphery of the nuclear body. Additional PML body-
interacting proteins may bind to PML, specifically to the C-termini of the various PML isoforms, to the poly-small ubiquitin-related modifier (poly-SUMO) chains or to
SUMO-interaction motifs. PML nuclear bodies’ are in direct contact with chromatin fibers, which contribute to the bodies physical stability. See Figure 3 for more
information on the assembly mechanism. (C) Proposed functions of PML nuclear bodies. Probably more than 100 proteins permanently or transiently bind to PML
NBs. According to these protein’s function, many different physiological roles as depicted have been proposed for PML NBs. May 2018 | Volume 8 | Article 125 Frontiers in Oncology | www.frontiersin.org 3 Advanced Bioimaging of PML Bodies Hoischen et al. pericentric satellite heterochromatin of chromosome 1 in the
giant PML bodies of ICF cells (38, 39).h reactions or complex formation between low-abundance nuclear
factors, as was also suggested for other subnuclear structures
such as Cajal bodies or nucleoli (62). More specifically, PML
NBs may be SUMOylation hot spots. This hypothesis is driven
by the observation that most components of the SUMOylation
machinery concentrate in PML NBs (45). The number of PML NBs varies between 5 and 30 depend-
ing on the cell-type, the cellular differentiation status, and the
cell cycle. During interphase PML bodies are positionally stable
through their physical and probably functional interplay with the
surrounding chromatin (Figure 2B) (2). Yet, PML NBs are also
dynamic structures that undergo significant changes in number,
size, and position particularly in response to cellular stress (4). One example is fission of PML bodies into smaller bodies in early
S phase (40, 41, 42). 1 http://npd.hgu.mrc.ac.uk/ (Accessed: November 17, 2017).
2 https://thebiogrid.org/111384/summary/homo-sapiens/pml.html (Accessed:
November 17, 2017). PML AND PML NUCLEAR BODIES PML NBs may lose their structural integrity
based on modifications or structural alterations in adjacent
chromatin associated with DNA replication. PML NUCLEAR BODY ASSEMBLY The formation and structural integrity of PML NBs relies on at least
five basic mechanistic principles: (i) oxidation-driven intermo-
lecular disulfide cross-linking of PML, (ii) the self-oligomerizing
properties of PML’s RBCC motif, (iii) the poly-SUMO chains on
the three major target lysines, (iv) the non-covalent interac-
tion of SUMO with SUMO interacting motifs (SIM) in nuclear
body-associated factors, and (v) specific sequences in various
PML protein isoforms (Figure 3). In the initial step of nuclear
body assembly, oxidized PML monomers allow the formation
of disulfide-crosslinked covalent multimers that self-organize
into the NB outer shell (9, 63). Non-covalent homodimerization
mediated by the RBCC domain may be similarly important for the
early PML NB assembly step, since the isolated RING domain of
PML very efficiently forms multimeres in vitro (64). Subsequently,
UBC9-mediated poly-SUMOylation, SUMO/SIM interactions
(9, 65) and addition of SUMO and/or SIM-containing binding
partners create a mature PML body with a peripheral scaffold
consisting of the six different PML isoforms, their SIM motifs and
the poly-SUMO chains (Figure 3). Recently, it was demonstrated
that certain regions in the C-terminal domains of specific PML
isoforms are also important for NB assembly and function (32,
33). These findings add an additional layer of complexity in the
structural and functional maintenance of PML NB integrity. The
PML nuclear body scaffold offers a multitude of potential sites to
which an assortment of PML-interacting, SIM-containing, and/
or SUMOylated partner proteins may bind transiently to a more
or less extent. The varying residence times (Rts) of binding part-
ners at PML NBs would be expected to depend on the number
and strength of their individual interaction modules (66). This is
in line with the presence of several SUMOylation sites and SIMs
in major PML-NB components including PML, SP100, DAXX,
HIPK2, UBC9, PIASy, and RNF4 (9).h PML NUCLEAR BODY FUNCTION The
biochemical environment within a phase-separating PML body
is different from that in the surrounding nucleoplasm, and this
difference could enable unique strategies for regulating nuclear
response pathways, including (a) regulation of enzyme reaction
kinetics (i.e., posttranslational modifications), (b) regulation of One hypothesis for the integration of all of these functions in
a unifying concept is based on the idea that PML NBs provide
a stable protein scaffold onto which binding partners associate
for their efficient PTM or sequestration (Figure 2C) (28, 60, 61). Controlled accumulation at or release of specific nuclear factors
from the nuclear bodies may enhance their functional interaction
based on mass-law action, thereby fine-tuning signaling cascades
through the nucleoplasm. This mechanism may enable chemical May 2018 | Volume 8 | Article 125 Frontiers in Oncology | www.frontiersin.org 4 Hoischen et al. Advanced Bioimaging of PML Bodies Figure 3 | Assembly of promyelocytic leukemia (PML) nuclear bodies. The assembly of PML nuclear bodies is initiated by oligomerization of non-SUMOylated PML
monomers. Oligomerization occurs via weak non-covalent interactions through the RBCC motif and covalent di-sulfide bonds between cystein residues. The
E2-small ubiquitin-related modifier (SUMO) ligase UBC9 then promotes (poly-)SUMOylation of the PML moieties which allows for multiple SUMO–SUMO interacting
motifs (SIM) interaction possibilities to form larger aggregates. Binding partners carrying SIMs and or SUMO residues can bind to the preassembled aggregates to
form a normal PML body based on self-organization. Figure 3 | Assembly of promyelocytic leukemia (PML) nuclear bodies. The assembly of PML nuclear bodies is initiated by oligomerization of non-SUMOylated PML
monomers. Oligomerization occurs via weak non-covalent interactions through the RBCC motif and covalent di-sulfide bonds between cystein residues. The
E2-small ubiquitin-related modifier (SUMO) ligase UBC9 then promotes (poly-)SUMOylation of the PML moieties which allows for multiple SUMO–SUMO interacting
motifs (SIM) interaction possibilities to form larger aggregates. Binding partners carrying SIMs and or SUMO residues can bind to the preassembled aggregates to
form a normal PML body based on self-organization. genesis itself, suggesting that tightly controlled PTMs are required
for full maturation of functional PML bodies in early G1 (71). the specificity of biochemical reactions, (c) sequestration of mol-
ecules, and (d) buffering cellular concentration of molecules (67). Cell cycle-dependent disassembly of PML NBs begins upon
de-SUMOylation of PML at the onset of mitosis. PML NUCLEAR BODY FUNCTION The spherical
shell structure of PML NBs breaks down and other NB compo-
nents such as SUMO, SP100, and DAXX detach or are removed. During mitosis PML aggregates into so-called mitotic accumu-
lations of PML protein (MAPPs) (40, 41). Interestingly, PML
bodies form stable interactions with early endosomes throughout
mitosis and the two compartments dissociate in the cytoplasm of
newly divided daughter cells (70). When followed through the
telophase/G1 transition, Chen et al. observed that GFP-tagged
MAPPs become trapped in the newly formed nuclei but also that
many PML NBs are formed de novo at different sites in daughter
nuclei. This suggests that PML NBs can assemble from both,
MAPPs as well as soluble PML monomers in G1 (71). At the M/
G1 border of the cell cycle, MAPPs also complex with FG repeat-
containing peripheral components of the nuclear pore complex
to become CyPNs (cytoplasmic assemblies of PML and nucleop-
orins) (72). Within CyPNs, PML appears to be instrumental in a
novel, nuclear pore-independent, mechanism of nucleoporin and
nuclear cargo protein targeting to the reforming G1 cell nucleus
(73). The recruitment of SP100 and DAXX into newly formed
PML NBs occurs considerably (ca. 30 min) later than PML NB PML IN TUMORIGENESIS So far, we have summarized some aspects of PML NB biology
derived from microscopic, cell, and molecular biology approaches. Another branch of PML research has tackled questions on PML
protein function by means of genetics. These approaches uncov-
ered PML’s role in cancer biology. PML was originally identified
as a potential gene of interest in tumorigenesis due to its associa-
tion with acute promyelocytic leukemia (APL). APL is a rare but
aggressive subtype of white blood cell cancer, characterized by an
accumulation of promyelocytes in the bone marrow and periph-
eral blood (74). The majority of APL patients are characterized by
the t(15;17) chromosomal translocation that reciprocally joins the
PML and retinoic acid receptor α (RARα) genes, resulting in bal-
anced expression of PML-RARα and RARα-PML fusion proteins
(1). While PML-RARα blocks differentiation of promyelocytes by
suppressing the transcriptional function of RARα, PML-RARα
disrupts the structure of PML nuclear bodies through formation
of PML-RARα/PML heterodimers. This phenotype was observed
in 99% of APL patients (75). Treatment of APL for many years
was retinoic acid, arsenic trioxide or a combination of the two, May 2018 | Volume 8 | Article 125 Frontiers in Oncology | www.frontiersin.org 5 Advanced Bioimaging of PML Bodies Hoischen et al. which, fortunately, seemed to cure most APL patients. It is now
known that the mechanism of this therapy involves targeting of
the PML/RARα fusion protein to proteasomal degradation (76). Strikingly, drug treatment reverses the pathological microspeck-
led PML distribution in the nucleus of APL cells toward the
regular morphology of PML nuclear bodies (77). defective localization of Brca1 and Rad51 to sites of DNA damage
(89). Thus, although the physiological function of PML and the
nuclear bodies have not been thoroughly elucidated, their tumor-
suppressive role by supporting DNA damage response pathways
may be common to all of these potential functions (19, 89).h The lack of PML is not necessarily a tumor-promoting event. Functional analysis of the hematopoietic stem cell compartment in
mice have uncovered that PML is required for leukemia initiating cell
maintenance (90). The authors suggest a new therapeutic approach
for eradication of cancer-initiating cells in leukemia through
pharamacological inhibition of PML. This and other reports have
lead to the suggestion that PML may act as both a tumor suppressor
and an oncogene, depending on the cellular context (91). TUMOR SUPPRESSOR AND ONCOGENIC
FUNCTIONS OF PML Beside the correlative connection between carcinogenesis and
PML expression, there is plenty of experimental evidence for
a direct tumor-suppressive role of PML. Several independent
studies have demonstrated that overexpression of PML can slow
down or block cell cycle progression in a variety of cancer cell
lines (6, 81, 84). Likewise, in primary human or mouse fibroblasts
overexpression of PML isoform IV induces a stable senescence-
associated cell cycle arrest (85, 86). Further analyses of typical
stress-response pathways revealed the involvement of the tumor
suppressors pRb and p53 in PML overexpression-induced
cellular senescence (86, 87). However, the molecular details
of PML action along the pRB and/or p53 tumor suppressive
pathways remain elusive. Besides in cellular senescence, PML
has an essential functional role in apoptosis (49). This is based
on initial observations on the first reported PML knock-out
mouse model, where splenic lymphocytes and thymocytes from
Pml−/− mice show barely half the capacity of wild-type cells to
initiate apoptosis after ionizing radiation or after induction of the
cytokine death-receptor pathway (88). As already pointed out,
PML loss correlates with the progression of many cancers and in
most cases low PML expression is associated with poor prognosis. The tumor suppressor function of PML NBs may be linked to
their ability to accumulate many proteins involved in DNA dam-
age response and repair pathways, which is believed to stabilize
DNA repair complexes and enhance their activities (4, 13, 60). In
support of this hypothesis, it was shown recently in a knock-in
mouse model, that intact PML bodies are critical for DNA dam-
age responses. Functional assays in mice expressing PML but
lacking PML NBs showed impaired homologous recombination
(HR) and non-homologous end-joining repair pathways, with Inter- and intracellular mechanisms of molecular communication
may be better understood through direct visualization. In the past
decades, advancements in imaging technologies have expanded
our ability to access and analyze in living specimen the morphol-
ogy of tissues and cellular components. These enabled analyses of
fine-structural features at the nanoscale level, precise localization,
and the dynamic interplay of single and macromolecular assem-
blies that drive cell growth, the cell cycle, differentiation, and
cell death (20–37). Super-resolution light microscopy delivered
images with unprecedented sensitivity and clarity allowing the
exploration of interactions between individual molecules with
a distance resolution as low as 20 nm (94). PML IN TUMORIGENESIS Along
these lines it was also demonstrated that PML targeting impacts on
breast cancer (BCa)-initiating cell function, and hence on cancer
initiation and dissemination in BCa (92). Furthermore, in triple-
negative breast cancer cell and mouse models PML promotes cell
migration, invasion, and metastasis through binding to regulatory
regions of HIF1A target genes (93). These initially unexpected
findings clearly suggest a previously underestimated importance of
PML in the maintenance of some tumors. Another link between cancer and PML became evident by
comparing PML protein expression in normal and neoplastic
human tissues. Such studies documented loss of PML expression
in breast carcinoma (78), gastric cancer (79), small cell lung car-
cinoma (80), and in invasive epithelial tumors (81). Furthermore,
microarray analyses of PML mRNA expression showed complete
loss of or strongly reduced PML transcript expression in many
different human neoplasms, including colon, prostate, and breast
adenocarcinomas, as well as in lung, CNS, germ cell, and non-
Hodgkin’s tumors/lymphomas (8). The same study reported that
PML protein is also frequently overexpressed in carcinomas of
larynx and thyroid, epithelial thymomas, Kaposi’s sarcoma, and
in Hodgkin cells, a tumor of cytokine-producing cells. The latter
phenomenon may be attributable to strong upregulation of the
PML gene after Interferon induction (82). Taken together, loss of
expression in many (but not all) cancer types have suggested that
PML works as a tumor suppressor (83). Frontiers in Oncology | www.frontiersin.org TUMOR SUPPRESSOR AND ONCOGENIC
FUNCTIONS OF PML New fluorescence
fluctuation microscopy (FFM) approaches provided the basis for
determining the biophysical and interaction properties of single
molecules in living cells (95, 96). Laser-based FFM analysis tools
are outlined below but many more exist, all of which unfortunately
cannot be covered by this overview, including single particle
tracking (SPT), light sheet microscopy, total internal reflection
microscopy just to name a few. To acquire the full picture of live
cell laser-based imaging technologies, we refer to recent excel-
lent reviews on these topics (20, 97–99). Altogether, a plethora
of new live cell imaging techniques have been developed which
even large research groups are unable to establish to a broad
extent in their departments. To address this, dedicated advanced
light microscopy imaging facilities are extremely helpful as their
members are usually microscope experts (100). However, we
believe that research laboratories are still reluctant in exploiting
the full potential of microscopy facilities. We therefore provide an
introductory overview on some imaging instrumentation which May 2018 | Volume 8 | Article 125 Frontiers in Oncology | www.frontiersin.org 6 Advanced Bioimaging of PML Bodies Hoischen et al. the creation of photobleached spots of fluorescent molecules in
solution or in living cells by the application of a laser beam. By
monitoring the redistribution of the fluorescent molecules from
the unbleached volume, their diffusion or transport properties
can be assessed (101). FRAP and related techniques such as point
continuous photobleaching, fluorescence loss in photobleaching,
inverse-FRAP, and photoactivation/conversion have been devel-
oped in the past, each suitable to quantitatively assess specific
biophysical properties of the molecule under investigation (97). However, the limitations and pitfalls of FRAP experiments, in
particular when they are employed to extract biophysical param-
eters also, have to be considered. Things to consider include the
complete set-up of the FRAP experiment (103), knowledge on the
bleach volume profile (104), as well as the potential phototoxic
effects elicited by the bleaching laser beam (105). are covered by such facilities and provide specific examples in
PML biology to encourage cancer cell biologists and biochemists
to extend their experimental approaches toward the exciting new
imaging technologies. FLUORESCENCE RECOVERY AFTER
PHOTOBLEACHING (FRAP) A third circled unbleached region at the bottom of this nucleus is shown as a positive control. One particular bleach spot is
shown in a magnified view in the bottom panels. (B) Quantitation of FRAP experiments. After background subtraction, compensation for imaging-induced
photobleaching and normalization, typical FRAP curves are obtained. FRAP curve A shows full recovery to prebleach fluorescence values indicating complete
exchange of the GFP-tagged protein in the bleached spot within the observation time. In FRAP curve B, fluorescence recovery is not complete within observation
time indicating an immobile fraction of molecules or a fraction with a very slow exchange rate. (C) FRAP curve fitting using exponential functions. FRAP curves for
GFP-tagged PML-I (left) and PML-II (right) were fitted with one-component (red) or two-component (green) exponential functions. (D) Table showing the residence
time (Rt) in minutes of GFP-tagged PML isoforms I to VI derived from fitting FRAP curves employing different mathematical models (See text for details). * numbers in
red letters represent Rt values derived from one component modeling which failed to precisely fit to the measured FRAP curve as shown for GFP-PML-II in (C). Figure 4 | Fluorescence recovery after photobleaching (FRAP) to assess component exchange at promyelocytic leukemia (PML) nuclear bodies. (A) A typical FRAP
experiment is shown. Two circular regions in the nucleus of a GFP-PML-V expressing U2OS cell were exposed to a short 488 nm laser bleach pulse and fluorescence
redistribution was monitored over time. A third circled unbleached region at the bottom of this nucleus is shown as a positive control. One particular bleach spot is
shown in a magnified view in the bottom panels. (B) Quantitation of FRAP experiments. After background subtraction, compensation for imaging-induced
photobleaching and normalization, typical FRAP curves are obtained. FRAP curve A shows full recovery to prebleach fluorescence values indicating complete
exchange of the GFP-tagged protein in the bleached spot within the observation time. In FRAP curve B, fluorescence recovery is not complete within observation
time indicating an immobile fraction of molecules or a fraction with a very slow exchange rate. (C) FRAP curve fitting using exponential functions. FRAP curves for
GFP-tagged PML-I (left) and PML-II (right) were fitted with one-component (red) or two-component (green) exponential functions. (D) Table showing the residence
time (Rt) in minutes of GFP-tagged PML isoforms I to VI derived from fitting FRAP curves employing different mathematical models (See text for details). Figure 4 | Fluorescence recovery after photobleaching (FRAP) to assess component exchange at promyelocytic leukemia (PML) nuclear bodies. (A) A typical FRAP
experiment is shown. Two circular regions in the nucleus of a GFP-PML-V expressing U2OS cell were exposed to a short 488 nm laser bleach pulse and fluorescence
redistribution was monitored over time. A third circled unbleached region at the bottom of this nucleus is shown as a positive control. One particular bleach spot is
shown in a magnified view in the bottom panels. (B) Quantitation of FRAP experiments. After background subtraction, compensation for imaging-induced
photobleaching and normalization, typical FRAP curves are obtained. FRAP curve A shows full recovery to prebleach fluorescence values indicating complete
exchange of the GFP-tagged protein in the bleached spot within the observation time. In FRAP curve B, fluorescence recovery is not complete within observation
time indicating an immobile fraction of molecules or a fraction with a very slow exchange rate. (C) FRAP curve fitting using exponential functions. FRAP curves for
GFP-tagged PML-I (left) and PML-II (right) were fitted with one-component (red) or two-component (green) exponential functions. (D) Table showing the residence
time (Rt) in minutes of GFP-tagged PML isoforms I to VI derived from fitting FRAP curves employing different mathematical models (See text for details). * numbers in
red letters represent Rt values derived from one component modeling which failed to precisely fit to the measured FRAP curve as shown for GFP-PML-II in (C). FLUORESCENCE RECOVERY AFTER
PHOTOBLEACHING (FRAP) Arguably, one of the most commonly used approaches to study
dynamic cellular processes in living cells is FRAP (101). FRAP is
able to access average dynamics of diffusing molecules within the
observation volume. The original description of FRAP was coined
continuous fluorescence microphotolysis, which itself has been
established for more than three decades (102). When subjected
to repeated cycles of excitation and emission, fluorescent mol-
ecules eventually lose their ability to emit fluorescence, enabling f
Figure 4A shows a typical FRAP experiment for GFP-tagged
PML (isofom V) at nuclear bodies. Measuring the redistribution Figure 4 | Fluorescence recovery after photobleaching (FRAP) to assess component exchange at promyelocytic leukemia (PML) nuclear bodies. (A) A typical FRAP
experiment is shown. Two circular regions in the nucleus of a GFP-PML-V expressing U2OS cell were exposed to a short 488 nm laser bleach pulse and fluorescence
redistribution was monitored over time. A third circled unbleached region at the bottom of this nucleus is shown as a positive control. One particular bleach spot is
shown in a magnified view in the bottom panels. (B) Quantitation of FRAP experiments. After background subtraction, compensation for imaging-induced
photobleaching and normalization, typical FRAP curves are obtained. FRAP curve A shows full recovery to prebleach fluorescence values indicating complete
exchange of the GFP-tagged protein in the bleached spot within the observation time. In FRAP curve B, fluorescence recovery is not complete within observation
time indicating an immobile fraction of molecules or a fraction with a very slow exchange rate. (C) FRAP curve fitting using exponential functions. FRAP curves for
GFP-tagged PML-I (left) and PML-II (right) were fitted with one-component (red) or two-component (green) exponential functions. (D) Table showing the residence
time (Rt) in minutes of GFP-tagged PML isoforms I to VI derived from fitting FRAP curves employing different mathematical models (See text for details). * numbers in
red letters represent Rt values derived from one component modeling which failed to precisely fit to the measured FRAP curve as shown for GFP-PML-II in (C). Figure 4 | Fluorescence recovery after photobleaching (FRAP) to assess component exchange at promyelocytic leukemia (PML) nuclear bodies. (A) A typical FRAP
experiment is shown. Two circular regions in the nucleus of a GFP-PML-V expressing U2OS cell were exposed to a short 488 nm laser bleach pulse and fluorescence
redistribution was monitored over time. FLUORESCENCE (CROSS) CORRELATION
SPECTROSCOPY Fluorescence correlation spectroscopy (FCS) is an in vivo
method that analyses diffusing particles in a diffraction-limited
illumination ellipsoid (114, 115). The FCS detection volume is
created by a laser beam in a pinhole-adjustable confocal optical
system focused through a high numerical aperture objective
(Figure 5A). The FCS detection volume is defined by the point
spread function of the objective and the confocal pinhole. The
excitation laser beam determines how much of the detection
volume is excited and the final observation volume is deter-
mined by the overlap of excitation and detection volumes. For
objectives with a high numerical aperture (i.e., NA = 1.4) the
effective measuring volume is ~1 fl (116). Photons emitted from
diffusing fluorescent particles are counted continuously over time
through the same optics using sensitive avalanche photodiodes
(APDs) or galliumarsenidephosphide (GaAsP) hybrid detectors
at single molecule resolution (Figure 5A) (117). The fluorescence
intensity fluctuations are recorded over time (Figure 5B). Particle
concentration is reflected by the fluctuation amplitude, whereas
the frequency gives information on the diffusion times of the
fluorescent particles. For quantitative evaluation, the photon
trace is correlated with a time-shifted replica of itself (autocor-
relation) at different time values (Figure 5C). The amplitude of
the autocorrelation curve is inversely proportional to the average
number of fluorescent molecules in the confocal volume allow-
ing determination of particle concentration (Figure 5C). A more
detailed overview on the theory, history, and application of FCS
can be found here: (118, 119).l g
gi
g
To obtain a complete picture we collected the Rts of all PML
isoforms after fitting to one- and two-component exponential
functions (Figure 4D). This approach delivers the Rt of the
protein under investigation (110). One-component exponential
fits were successful for GFP-tagged PML-I and PML-V, while
FRAP curves for the other isoforms could only be fitted with
two-component exponential fits (Figure 4C and data not
shown). For comparison, the table includes the data we previ-
ously obtained by application of a binding-diffusion model based
on more sophisticated differential equation modeling to analyze
the FRAP curves (66). The table shows that the Rts of PML
isoforms at nuclear bodies as deduced from one-component
exponential fits, is convincingly close to those obtained from
assuming a binding-diffusion model (Figure 4D) although the
fits are not satisfactory for PML-II, -III, -IV, and -VI (values in
red letters). In particular, the very long Rt of PML-V (~50 min) is
confirmed. FLUORESCENCE RECOVERY AFTER
PHOTOBLEACHING (FRAP) * numbers in
red letters represent Rt values derived from one component modeling which failed to precisely fit to the measured FRAP curve as shown for GFP-PML-II in (C). May 2018 | Volume 8 | Article 125 7 Advanced Bioimaging of PML Bodies Hoischen et al. of fluorescence into the bleached region then yields the FRAP
recovery curve (Figure 4B). During the observation time of
the FRAP experiment, the fluorescence in the bleached region
may return to the prebleach value (Figure 4B, curve A) or not
(Figure 4B, curve B). Incomplete recovery even after long obser-
vation (>1 h) has been observed for some chromatin-binding
proteins, which suggests the presence of immobile or very slow
exchanging populations of molecules (106, 107). FRAP data
can be analyzed using mathematical models to yield kinetic
parameters (108). Today, many FRAP models of processes in the
cell nucleus assume that the proteins undergo diffusion as well
as binding/unbinding events at chromatin or other more static
subnuclear structures such as nuclear bodies. Importantly, both
diffusion and binding/unbinding events contribute to the spatial
dynamics of nuclear proteins (109, 110). of fluorescence into the bleached region then yields the FRAP
recovery curve (Figure 4B). During the observation time of
the FRAP experiment, the fluorescence in the bleached region
may return to the prebleach value (Figure 4B, curve A) or not
(Figure 4B, curve B). Incomplete recovery even after long obser-
vation (>1 h) has been observed for some chromatin-binding
proteins, which suggests the presence of immobile or very slow
exchanging populations of molecules (106, 107). FRAP data
can be analyzed using mathematical models to yield kinetic
parameters (108). Today, many FRAP models of processes in the
cell nucleus assume that the proteins undergo diffusion as well
as binding/unbinding events at chromatin or other more static
subnuclear structures such as nuclear bodies. Importantly, both
diffusion and binding/unbinding events contribute to the spatial
dynamics of nuclear proteins (109, 110). In conclusion, Figure 4 suggests that different FRAP modeling
approaches, despite subtle differences, arrive at overall similar Rts
for PML isoforms at nuclear bodies. It should be noted however
that these long Rts do not necessarily reflect the time in which one
PML molecule stays bound to one and the same specific binding
site. FLUORESCENCE RECOVERY AFTER
PHOTOBLEACHING (FRAP) Long Rts may also originate from PML molecules under-
going rapid binding and unbinding events at multiple adjacent
binding sites (in our case at the nuclear body) without leaving the
observation volume (110). If binding/unbinding events do not
occur on well-separated time scales, the interaction parameters
may not be readily extractable from the FRAP curves (111). A
combination of different FFM approaches may be required for
accurate determination of binding parameters (112). To assess
binding/unbinding events at PML NBs at higher resolution, the
tool kit should be extended to single particle tracking (SPT) since
this approach is able to quantitatively describe several popula-
tions of molecules with distinct binding properties (113). With respect to PML protein exchange at nuclear bodies it is
safe to assume a binding-dominant behavior because of the very
slow exchange rates as observed by FRAP (Figure 4A). Previously,
the residence time (Rt) at nuclear bodies of all PML isoforms had
been determined by FRAP using a binding-diffusion model based
on differential equations (29, 66). It was therefore interesting to
compare different modeling approaches. Figure 4C shows two
examples of fitting FRAP data obtained for GFP-tagged PML
isoforms I and II. Interestingly both, one- and two-exponential
functions delivered good fits to the FRAP curve for GFP-PML-I
but not for GFP-PML-II, where only a two-component exponen-
tial function gave good fit results (Figure 4C). FLUORESCENCE (CROSS) CORRELATION
SPECTROSCOPY These statistical fluctuations are mathematically processed using an autocorrelation algorithm, from which
biophysical parameters such as the particle concentration, the diffusion coefficient and complex formation properties can readily be assessed (C). (D) Confocal live
cell image of a U2OS nucleus coexpressing EGFP-SP100 and mRFP-PML-III (bar: 5 µm). The FCCS laser beam (light-blue) can be positioned anywhere in the cell. (E) By fitting the measured FCS data points (solid lines) to appropriate diffusion models (dashed lines), one can extract from the reciprocal of the amplitude and the
decay half-time value the number of particles in the detection volume (concentration) and the diffusion time, respectively. The cross-correlation (CC) result of
EGFP-SP100 and mRFP-PML-III are also shown. (F) CC results in the nucleus of living cells for a GFP–RFP fusion protein (positive control, high CC), GFP and RFP
as individual proteins (negative control, no CC) and the measurement performed in (D,E). An example of FCCS measurements of PML body components
is shown in Figure 5D. The image shows a live-cell confocal snap-
shot of a U2OS cell nucleus transiently expressing EGFP-SP100
and mRFP-PML III. The FCS laser spot was parked at a position
in the nucleoplasm where the fluorescence signals of the fusion
proteins are extremely low (Figure 5D, blue arrow). EGFP and
mRFP fluorescence fluctuation was then recorded over time
(10 × 10 s measurements) and the fluctuation data correlated
for each fluorophore (Figure 5E). By fitting theoretical model
functions to the measured autocorrelation curves, the diffusion
coefficient and the concentration of the diffusing species can
be extracted. In this particular cell nucleus (Figure 5D), the
concentration of EGFP-SP100 and mRFP-PML-III was 8.0 nM
and 2.5 nM, respectively, demonstrating the power of FCS to
work at extremely low expression levels (Figure 5E). The diffu-
sion coefficient in the nucleoplasm outside nuclear bodies for
these PML body components had been determined previously
(DSP100 = 1.23 µm2 s−1, DPML-III = 1.63 µm2 s−1) (66). Cross-correlation analysis between EGFP-SP100 and mRFP-
PML-III revealed a small but significant amplitude above the
value of 1.0 (Figure 5E, blue curve indicated with GFP-SP100
and RFP-PML), indicating the formation of complexes between
these fusion proteins. To evaluate this observation, the CC was
compared with values obtained for individually expressed GFP
and RFP molecules (negative control) as well as a GFP-RFP
fusion protein (positive control) (Figures 5E,F). Experiments
with these fluorochromes determine the dynamic range of the
FCCS set-up. FLUORESCENCE (CROSS) CORRELATION
SPECTROSCOPY This observation is fully consistent with the presence
of a strong homo-dimerization domain we found in the unique
C-terminus of PML isofom V (32). Obviously, this domain in
PML-V confers additional binding strength toward PML bodies. Fitting with two-component exponential functions assumes the
presence of two populations of molecules exchanging at PML
bodies with different on/off rates. These functions provided per-
fect fits for all PML isoforms (Figure 4C, green curves, and data
not shown), and the Rts are shown in Figure 4D. Interestingly,
the two-component fits deliver considerably large populations of
PML isoforms IV (61%) and VI (66%) with a Rt of ~half an hour
(Figure 4D). This suggests that a subfraction of these isoforms
may contribute to the structural integrity of nuclear bodies
through stable incorporation. In fluorescence cross-correlation spectroscopy (FCCS),
two spectrally distinct fluorophores are measured in the same
detection volume at the same time (Figures 5A,B, red and green
lines) and correlated by cross-correlation (CC) (Figure 5C, blue
curve). The amplitude of the CC curve is directly proportional
to the degree of complex formation and/or direct interaction
between the two fluorescent particles (120). A practical guide to
set up FCS and FCCS experiments in living cells can be found
here (121–123). May 2018 | Volume 8 | Article 125 Frontiers in Oncology | www.frontiersin.org 8 Advanced Bioimaging of PML Bodies Hoischen et al. Figure 5 | Fluorescence cross-correlation spectroscopy (FCCS) analysis of promyelocytic leukemia (PML) nuclear body components. (A) Schematic side view of a
living cell with the FCS laser beam focused to a position within the nucleus. The objective creates a laser light-illuminated subfemtoliter measuring volume in which
single fluorescent molecules are excited to emit photons. The photons are counted on an avalanche photodiode (APD) or a galliumarsenidphosphid (GaAsP)
detector as a time series of fluorescence intensity (B). These statistical fluctuations are mathematically processed using an autocorrelation algorithm, from which
biophysical parameters such as the particle concentration, the diffusion coefficient and complex formation properties can readily be assessed (C). (D) Confocal live
cell image of a U2OS nucleus coexpressing EGFP-SP100 and mRFP-PML-III (bar: 5 µm). The FCCS laser beam (light-blue) can be positioned anywhere in the cell. FLUORESCENCE (CROSS) CORRELATION
SPECTROSCOPY (E) By fitting the measured FCS data points (solid lines) to appropriate diffusion models (dashed lines), one can extract from the reciprocal of the amplitude and the
decay half-time value the number of particles in the detection volume (concentration) and the diffusion time, respectively. The cross-correlation (CC) result of
EGFP-SP100 and mRFP-PML-III are also shown. (F) CC results in the nucleus of living cells for a GFP–RFP fusion protein (positive control, high CC), GFP and RFP
as individual proteins (negative control, no CC) and the measurement performed in (D,E). Figure 5 | Fluorescence cross-correlation spectroscopy (FCCS) analysis of promyelocytic leukemia (PML) nuclear body components. (A) Schematic side view of a
living cell with the FCS laser beam focused to a position within the nucleus. The objective creates a laser light-illuminated subfemtoliter measuring volume in which
single fluorescent molecules are excited to emit photons. The photons are counted on an avalanche photodiode (APD) or a galliumarsenidphosphid (GaAsP)
detector as a time series of fluorescence intensity (B). These statistical fluctuations are mathematically processed using an autocorrelation algorithm, from which
biophysical parameters such as the particle concentration, the diffusion coefficient and complex formation properties can readily be assessed (C). (D) Confocal live
cell image of a U2OS nucleus coexpressing EGFP-SP100 and mRFP-PML-III (bar: 5 µm). The FCCS laser beam (light-blue) can be positioned anywhere in the cell. (E) By fitting the measured FCS data points (solid lines) to appropriate diffusion models (dashed lines), one can extract from the reciprocal of the amplitude and the
decay half-time value the number of particles in the detection volume (concentration) and the diffusion time, respectively. The cross-correlation (CC) result of
EGFP-SP100 and mRFP-PML-III are also shown. (F) CC results in the nucleus of living cells for a GFP–RFP fusion protein (positive control, high CC), GFP and RFP
as individual proteins (negative control, no CC) and the measurement performed in (D,E). Figure 5 | Fluorescence cross-correlation spectroscopy (FCCS) analysis of promyelocytic leukemia (PML) nuclear body components. (A) Schematic side view of a
living cell with the FCS laser beam focused to a position within the nucleus. The objective creates a laser light-illuminated subfemtoliter measuring volume in which
single fluorescent molecules are excited to emit photons. The photons are counted on an avalanche photodiode (APD) or a galliumarsenidphosphid (GaAsP)
detector as a time series of fluorescence intensity (B). FÖRSTER RESONANCE ENERGY
TRANSFER (FRET) The FRET process is a dipole–dipole interaction in which an
excited donor fluorophore transfers energy to an acceptor mol-
ecule in nanometer vicinity without absorption and emission of a
photon (128). FRET is therefore commonly employed to measure
the spatial distance between two fluorophores in fixed as well as
in living cells (129). The FRET efficiency depends on the distance
between two adjacent fluorescent molecules. At the Förster radius
distance between a FRET pair (typically around 5 nm), the FRET
efficiency is 50% (130). This size regime is comparable to the size
of many proteins, the distance within which proteins interact, and
the distance between sites on multisubunit proteins. Therefore,
FRET can deliver parameters on the distance between two distinct
sites on a macromolecule, the distance between two fluorophore-
tagged proteins, and hence if and how these two proteins interact
(131). Basically five different FRET detection methods have been
developed for light microscopy, including acceptor photobleach-
ing, donor photobleaching, ratio imaging, sensitized emission,
and fluorescence lifetime measurements (132). Raster image correlation spectroscopy thereby expands the
accessible timescales of FCS as it can resolve dynamics in the
range of microseconds to seconds with still a sufficient spatial
resolution (125). Data in cells are most conveniently acquired as
a time series stack by raster scanning of images of selected cell
areas. Due to its broad dynamic access by analyzing the fluctua-
tions between neighboring pixels in the x- and y-direction, nearly
all diffusion processes that take place in cellular subregions can be
studied (125). A major advantage of the RICS technology is that
it can be used in principle on any commercial confocal micro-
scope with analog detection (126). The software and application
tutorials developed by the Enrico Gratton lab can be found as
downloads here.3 l
In the past, we have mainly used acceptor photobleach-
ing FRET (abFRET) to analyze spatial proximities within
chromatin-interacting complexes (133). In abFRET, the accep-
tor chromophore is photobleached, thereby preventing FRET
from the donor to the acceptor (Figure 7A). If the donor and
acceptor were in sufficient proximity for energy transfer, pho-
tobleaching the acceptor results in an observable increase in
donor fluorescence (Figure 7B). The measurement of abFRET
only generates positive values when the distance between the
donor and acceptor (in our case EGFP and mRFP, respec-
tively) is between 3 and 8 nm. RASTER IMAGE CORRELATION
SPECTROSCOPY (RICS) The examples shown illustrate the power of RICS to determine
spatial maps of concentrations, aggregation, diffusion and bind-
ing of mobile molecules in living cells using readily accessible
instrumentation (125). Ideally, in the assessment of biophysical parameters of mobile
molecules in living specimens, one wants to know the space-
resolved behavior of single molecules in terms of their kinetics
and interactions and without the disturbance of the equilibrium
state, as occurs in FRAP. All of these parameters are provided by
RICS (125). Data acquisition in RICS is quite simple as only a 2D
confocal image or time series analysis is required. The scanning
encodes dynamic information within a single image, which can
then be extracted using RICS. The processing of the resulting
images, however, is not trivial: RICS data are computed from the
power spectrum of the spatial autocorrelation function that is
obtained from the intensity images by 2D fast Fourier transfor-
mation algorithms (125). FLUORESCENCE (CROSS) CORRELATION
SPECTROSCOPY The mathematical delineation of the CC values is
described elsewhere (124). Analyzing EGFP and mRFP as single
molecules in our system resulted in CC = 1.001, indicating 0%
complex formation while for the mRFP-EGFP fusion protein we
observed a CC amplitude of 1.029, corresponding to 45% complex
formation. The CC value for EGFP-SP100 and mRFP-PML-III
was CC = 1.010, indicating that in this cell nucleus ca. 13% of
SP100 molecules reside in a complex with PML (Figures 5E,F). These analyses demonstrate that FCS and FCCS, although May 2018 | Volume 8 | Article 125 Frontiers in Oncology | www.frontiersin.org 9 Advanced Bioimaging of PML Bodies Hoischen et al. technically somewhat more demanding than for example FRAP
experiments, provide an extremely powerful tool to precisely
extract biophysical and interaction data on diffusing molecules
of interest in living cells. suggests incorporation of PML into larger complexes and/
or interaction with an immobile structure (i.e., chromatin), or
both. RICS can also be performed on large (but not small) PML
nuclear bodies (Figures 6J–M). The resulting diffusion map
reveals very slow diffusion of GFP-PML-IV at or within PML NBs
(Figure 6L), suggesting that binding events predominante PML
molecule mobility at or in the nuclear body.h 3 http://www.lfd.uci.edu/globals/ (Accessed: November 17, 2017). FÖRSTER RESONANCE ENERGY
TRANSFER (FRET) An abFRET example is shown
in Figure 7C, where EGFP-Sumo-1 (green) and mRFP-PML
I (red) are coexpressed in living cells. Two PML bodies were
selected for analysis and acceptor photobleaching performed in
region 1 but not in region 2 which served as internal control for
non-FRET effects (Figure 7C). For quantitation, FRET efficien-
cies in bleached and unbleached regions are then plotted in a
bar diagram (Figure 7D). The plot indicates that FRET between
EGFP-SUMO-1 and mRFP-PML-I occurred in most of the
cases (mean of FRET = 5.5%; black bars in Figure 7D), while
the unbleached control spots show a FRET mean value of −1.4%
(gray bars in Figure 7C). The FRET efficiency distribution is
significantly different from that in control regions (p < 0.001,
n = 88) (Figure 7D). Thus, Sumo-1 is in close proximity to PML To measure RICS we have used a Zeiss LSM710 which
conveniently provides a built-in RICS module in the ZEN
microscope software. Some examples of RICS measurements are
shown in Figure 6. As a positive control, a confocal time series
was acquired in a subregion of a U2OS cell expressing EGFP
(Figure 6A). RICS analysis then delivers a spatial correlation of
this region (Figure 6B). By fitting of the correlation data with a
3D-free diffusion model, a spatially resolved diffusion coefficient
map is generated (Figure 6C). This map shows that EGFP diffuses
throughout the cellular volume with variable diffusion coeffi-
cients ranging between 5 µm2 s−1 and 50 µm2 s−1. The mean value
for EGFP in the nucleus by RICS was 25 (± 5) μm2 s−1 (n = 12)
consistent with FCS data (127). The RICS approach also delivers
a map of the number of detected mobile molecules in the diffu-
sion analysis (Figure 6D). RICS was then applied to a U2OS cell
nucleus expressing EGFP-PML (isoform IV) (Figures 6E–M). Two subregions of the 2D confocal time stack were selected for
RICS analysis. RICS analysis in the nucleoplasm (Figures 6F–I)
showed that the diffusion coefficient of GFP-tagged PML-IV is
about one order of magnitude smaller than that of GFP alone
(Figure 6H), consistent with FCS measurements (66). This May 2018 | Volume 8 | Article 125 Frontiers in Oncology | www.frontiersin.org 10 Hoischen et al. Advanced Bioimaging of PML Bodies Figure 6 | Spatial mapping of promyelocytic leukemia (PML) protein mobility in the nucleus by raster image correlation spectroscopy (RICS). FÖRSTER RESONANCE ENERGY
TRANSFER (FRET) (A–D) As an
introductory example, RICS was performed in a U2OS cell expressing EGFP alone. (A) Shows a subregion of the cell containing nuclear (nuc.) and cytoplasmic (cyt.)
parts. The nuclear outshape is indicated by a black dashed line. For RICS analysis, a time series of GFP fluorescence images was acquired by confocal microscopy. Thus, the fluorescence intensity of each pixel is collected and the spatial autocorrelation is obtained per image (B). The image stack serves to increase the SNR and
to be able to remove immobile and slow molecules. This analysis generates spatial maps of the diffusion coefficient (C) and the number of free molecules which
contributed to the assessment (D). Since the shape of the spatial autocorrelation image indicates mostly freely diffusing species, the RICS data were fitted with a
one-component 3D-free diffusion model yielding diffusion coefficients for EGFP in the nucleus between 10 µm2 s−1 and 50 µm2 s−1 (C). RICS was then performed
similarly in a EGFP-PML-I-expressing U2OS cell (E–M). In the nucleoplasm, the diffusion coefficient of EGFP-tagged PML-I ranged between 1 µm2 s−1 and 4 µm2 s−1
(H). RICS in a region containing a large PML NB (J) still delivered acceptable spatial autocorrelation quality (K). This approach revealed a diffusion coefficient of
EGFP-PML-I in or at PML bodies which was one order of magnitude lower than in the nucleoplasm (L). Bars; 5 µm. Figure 6 | Spatial mapping of promyelocytic leukemia (PML) protein mobility in the nucleus by raster image correlation spectroscopy (RICS). (A–D) As an
introductory example, RICS was performed in a U2OS cell expressing EGFP alone. (A) Shows a subregion of the cell containing nuclear (nuc.) and cytoplasmic (cyt.)
parts. The nuclear outshape is indicated by a black dashed line. For RICS analysis, a time series of GFP fluorescence images was acquired by confocal microscopy. Thus, the fluorescence intensity of each pixel is collected and the spatial autocorrelation is obtained per image (B). The image stack serves to increase the SNR and
to be able to remove immobile and slow molecules. This analysis generates spatial maps of the diffusion coefficient (C) and the number of free molecules which
contributed to the assessment (D). FÖRSTER RESONANCE ENERGY
TRANSFER (FRET) Since the shape of the spatial autocorrelation image indicates mostly freely diffusing species, the RICS data were fitted with a
one-component 3D-free diffusion model yielding diffusion coefficients for EGFP in the nucleus between 10 µm2 s−1 and 50 µm2 s−1 (C). RICS was then performed
similarly in a EGFP-PML-I-expressing U2OS cell (E–M). In the nucleoplasm, the diffusion coefficient of EGFP-tagged PML-I ranged between 1 µm2 s−1 and 4 µm2 s−1
(H). RICS in a region containing a large PML NB (J) still delivered acceptable spatial autocorrelation quality (K). This approach revealed a diffusion coefficient of
EGFP-PML-I in or at PML bodies which was one order of magnitude lower than in the nucleoplasm (L). Bars; 5 µm. binding properties of repair factors at DNA lesions (138). Live cell
imaging of DNA damage foci has been used to reveal the mobility
of repair proteins, their assembly timing into repair sites, and the
movement of damaged chromatin (139–141). DNA damage can
be induced globally by ionizing radiation or radiomimetic drugs
allowing for bulk analysis of the DNA damage response at multiple
sites of DNA damage in the nucleus (142). Generation of single
focal spots of DNA damage is instrumental to analyze single repair
sites and became possible by targeted expression of endonucle-
ases or microirradiation (143). Coupling of UV-A light-emitting
lasers into confocal microscopes resulted in the development of
laser-microirradiation technologies (Figure 8A) (144, 145). Laser
lines in the visible range spectrum (405–514 nm) as well as mul-
tiphoton excitation (>750 nm) have been implemented in such
devices (146). The advantages and disadvantages of the different
laser systems to study cellular responses to DNA damage has been
assessed (147). By fine-tuning the microirradiation system it is
possible to discriminate between induction of base lesions, sin-
gle–strand and double-strand DNA breaks. Special UV-suitable
lenses (i.e., quartz glass) must be used to avoid energy loss and
destroying the lenses. Objectives with a high numerical aperture I at PML NBs which was expected because of the covalent con-
jugation of SUMO-1 to PML in nuclear bodies (134). A similar
abFRET approach has previously been used to document the
functional interaction between the CHFR mitotic checkpoint
protein and PML within PML NBs (135). FÖRSTER RESONANCE ENERGY
TRANSFER (FRET) By expanding this abFRET approach, the individual spatial
relationships between many PML NB components and probably
even the degree of PML SUMOylation could now be determined
to obtain a full picture of the molecular interaction landscape
within PML NBs. This kind of approach proved successful in
detecting the spatial inter-relationships within the large human
kinetochore complex (136) as well as in smaller complexes such
as the nucleosome (137). Thus, adding FRET techniques to the
experimental tool kits in many laboratories would significantly
increase the understanding of protein-protein interaction net-
works in cancer biology. LASER MICROIRRADIATION (B) Time courses of the fluorescence intensity of donor and acceptor
during abFRET. Bleaching of the acceptor results in a fluorescence intensity increases of the donor indicating FRET (arrow). (C) Cell nucleus showing the location of
EGFP-Sumo-1 and mRFP-PML I in PML-bodies. Two of them, spot1 and spot2, were selected for fluorescence intensity analysis before and after acceptor-
photobleaching (see enlargements below). At spot 1, the acceptor fluorophore mRFP was bleached (compare prebleach and postbleach), whereas spot 2 was not
bleached and served as control. (D) The donor fluorescence intensity variation observed during acceptor-photobleaching was determined for 89 not bleached
control PML-bodies (see spot 2) yielding Evar (gray bars) and for 89 acceptor-photobleaching PML bodies (see spot 1) yielding EFRET (black bars). The numbers of
observed single cases (grouped into Evar or EFRET value ranges of 4%) are displayed versus the values of Evar and EFRET. should be employed to achieve diffraction-limited focusing and
fine micromanipulation. A starting point to plan the application
of microirradiation techniques can be found here: (148, 149).h NBS1 has detached from the irradiated area and the number of
PML NBs returned to preirradiation levels (Figure 8B, 4 h). The
repair process has most likely been successfully completed by that
time although direct evidence for successful repair is lacking. All
these observations are consistent with previously reported data
(40, 41). When DNA damage becomes irreparable, repair foci
become permanent, as demonstrated for damaged telomeres
(151). PML bodies stay stably associated with such irreparable
DNA breaks (152). This phenomenon is illustrated in Figure 8C,
where a U2OS cell was microirradiated at multiple locations in the
nucleus with a high UV-A laser dose (40 μJ pulse−1) and stained
for PML and gH2AX 24 h after damage induction. Interestingly,
UV-induced DNA damage foci that colocalize with PML NBs are
positionally more stable than non-colocalizing (14), suggesting
that PML NBs may function to support topographic stability of
DNA repair foci within chromatin. The involvement of PML NBs in cellular DNA damage
response/repair pathways became evident upon the demonstra-
tion of their colocalization with experimentally induced DNA
damage foci (12, 13, 56, 150). UV laser microirradiation was also
used in the initial studies to analyze in more detail the behavior
of PML NBs in the vicinity of DNA damage in live cells (40,
41). LASER MICROIRRADIATION Experimental induction of DNA damage foci in living cells became
an ideal method to analyze in time and space the recruitment and May 2018 | Volume 8 | Article 125 Frontiers in Oncology | www.frontiersin.org 11 Advanced Bioimaging of PML Bodies Hoischen et al. Figure 7 | Complex formation assessment of promyelocytic leukemia (PML) body components by acceptor-photobleaching Förster resonance energy transfer
(FRET). (A) Schematic explanation of acceptor-photobleaching Förster resonance energy transfer (abFRET). The energy donor EGFP and the energy acceptor
mRFP are fused to proteins X and Y, which are sufficiently close (<10 nm) to each other to allow for FRET. Left side: the acceptor mRFP absorbs radiation-free
energy from the exited donor EGFP resulting in decreased donor fluorescence intensity. Right side: acceptor mRFP is bleached and energy is no longer transferred
from donor EGFP to acceptor mRFP resulting in an increase of donor fluorescence intensity. (B) Time courses of the fluorescence intensity of donor and acceptor
during abFRET. Bleaching of the acceptor results in a fluorescence intensity increases of the donor indicating FRET (arrow). (C) Cell nucleus showing the location of
EGFP-Sumo-1 and mRFP-PML I in PML-bodies. Two of them, spot1 and spot2, were selected for fluorescence intensity analysis before and after acceptor-
photobleaching (see enlargements below). At spot 1, the acceptor fluorophore mRFP was bleached (compare prebleach and postbleach), whereas spot 2 was not
bleached and served as control. (D) The donor fluorescence intensity variation observed during acceptor-photobleaching was determined for 89 not bleached
control PML-bodies (see spot 2) yielding Evar (gray bars) and for 89 acceptor-photobleaching PML bodies (see spot 1) yielding EFRET (black bars). The numbers of
observed single cases (grouped into Evar or EFRET value ranges of 4%) are displayed versus the values of Evar and EFRET. Figure 7 | Complex formation assessment of promyelocytic leukemia (PML) body components by acceptor-photobleaching Förster resonance energy transfer
(FRET). (A) Schematic explanation of acceptor-photobleaching Förster resonance energy transfer (abFRET). The energy donor EGFP and the energy acceptor
mRFP are fused to proteins X and Y, which are sufficiently close (<10 nm) to each other to allow for FRET. Left side: the acceptor mRFP absorbs radiation-free
energy from the exited donor EGFP resulting in decreased donor fluorescence intensity. Right side: acceptor mRFP is bleached and energy is no longer transferred
from donor EGFP to acceptor mRFP resulting in an increase of donor fluorescence intensity. Frontiers in Oncology | www.frontiersin.org LASER MICROIRRADIATION The laser-microbeam is focused into the middle of the field of view by a 100×, NA 1.3 Plan Neofluar oil immersion objective (Zeiss). The Nd:YLF laser can be frequency-tripled delivering 20 ns duration pulses at 350 nm with user-defined energies from 1 µJ to 200 µJ at user defined repetition rates
1–1000 Hz. (B) A living U2OS cell expressing EGFP-tagged NBS1 and mRFP-tagged PML-IV was irradiated at a single defined spot with approx. 5 µJ of energy
using the set-up described above (yellow arrow). Confocal stacks were acquired across the nucleus before and at indicated time points after the damage pulse. In
(C), U2OS cells were microirradiated at multiple positions with high laser power (40 µJ per site). Twenty-four hours after DNA damage induction cells were fixed and
stained to detect the DNA damage marker gH2AX (green) and endogenous PML (red). Scale bars, 5 µm. perform homologeous recombination (HR) repair (15, 16), and
it should also be mentioned that permanent lack of PML induces
genomic instability and increased susceptibility to cancer (11). Thus it would be now interesting to fine-dissect the molecular
mechanisms by which the presence of a PML NB is supportive
to DNA repair events at particular DNA damage foci. A straight-
forward model would be a scaffold or platform function of the
bodies for efficient biochemical repair activities nearby damaged
chromatin. A combination of super-resolution techniques with
live cell imaging after microirradiation is an attractive approach
to further study this phenomenon. and multiple traps or as optical strecher (156–159). OTs are
excellent nanotools with which manipulation in a living cell
or a living organism is possible without perforating the cell
membrane. Further information on OT technologies can be
found in Ref. (160–162). Generally OTs are used either to trap
biological objects directly with light or as indirect force trans-
ducers to exert linear forces via trapped microbeads. In EMFA,
polyethylenimine-coated erythrocytes are used instead of beads
as the “force transmitting device” for axial force application on
cells (Figure 9A) (161). Here, we used EMFA to recapitulate some of the published
data on PML NB behavior after global nuclear stress. Previously
it had been observed that PML NBs disintegrate into many small
PML-containing structures during heat shock or exposure to
Cadmium2+ ions, implying that these structures undergo a stress
response to altered chromatin organization or topology (163,
164). LASER MICROIRRADIATION These studies revealed intriguing morphological changes
of PML NBs near the damaged chromatin, including moving
toward the breaks, coalescing, and loss of positional stability. A
recapitulation of these observations is shown in Figure 8B. In this
experiment, a short pulse of 350 nm UV light was focused into
the nucleus of a U2OS cell expressing GFP-tagged NBS1 (A DNA
damage sensor protein) (green) and mRFP-tagged PML (red). As expected, NBS1 accumulates focally at the microirradiated
chromatin spot within minutes. Shortly after, new PML bodies
appear at the periphery of the damage focus (30 min). After 4 h, Of course, these fascinating microscopic observations remain
descriptive without supporting functional studies. Previously it
was shown that depletion of PML indeed decreases the ability to May 2018 | Volume 8 | Article 125 Frontiers in Oncology | www.frontiersin.org 12 Advanced Bioimaging of PML Bodies Hoischen et al. Figure 8 | Behavior of promyelocytic leukemia (PML) bodies at UV-A microbeam induced DNA damage foci. (A) For laser damage induction, a pulsed 350 nm
Nd:YLF (neodymium-doped yttrium lithium fluoride) UV-A laser (Spectra Physics) was coupled into a confocal laser scanning microscope (LSM 510) via the
epifluorescence illumination path. The laser-microbeam is focused into the middle of the field of view by a 100×, NA 1.3 Plan Neofluar oil immersion objective (Zeiss). The Nd:YLF laser can be frequency-tripled delivering 20 ns duration pulses at 350 nm with user-defined energies from 1 µJ to 200 µJ at user defined repetition rates
1–1000 Hz. (B) A living U2OS cell expressing EGFP-tagged NBS1 and mRFP-tagged PML-IV was irradiated at a single defined spot with approx. 5 µJ of energy
using the set-up described above (yellow arrow). Confocal stacks were acquired across the nucleus before and at indicated time points after the damage pulse. In
(C), U2OS cells were microirradiated at multiple positions with high laser power (40 µJ per site). Twenty-four hours after DNA damage induction cells were fixed and
stained to detect the DNA damage marker gH2AX (green) and endogenous PML (red). Scale bars, 5 µm. Figure 8 | Behavior of promyelocytic leukemia (PML) bodies at UV-A microbeam induced DNA damage foci. (A) For laser damage induction, a pulsed 350 nm
Nd:YLF (neodymium-doped yttrium lithium fluoride) UV-A laser (Spectra Physics) was coupled into a confocal laser scanning microscope (LSM 510) via the
epifluorescence illumination path. LASER MICROIRRADIATION When EMFA is applied on living cells expressing GFP-
tagged PML, force is applied on chromatin located just below
the erythrocyte (Figure 9A). This physical pressure induces
the appearance of PML-containing microstructures within the
region of force application (Figure 9B). Eventually, such micro-
structures fuse with each other to form larger structures, while
the native PML NBs remain positionally stable (Figure 9B). This
behavior of PML microstructures occurs on a minute scale and
was interpreted as evidence for a supramolecular assembly/disas-
sembly model in which PML NBs are not a uniform, homogene-
ous polymer, but rather are composed of units or modules that are
linked together as supramolecular assemblies (4, 41). This view
is supported by super-resolution analyses of the PML NB archi-
tecture which revealed distinct occupation rather than uniform
distribution of various PML body components in a shell-like
structure (35) (Figure 10). Rapid disassembly/reassembly cycles
of PML nuclear bodies upon cellular stress may be instrumental
in their function as damage sensors and in genome maintenance. Frontiers in Oncology | www.frontiersin.org OPTICAL TWEEZER (OT): ERYTHROCYTE-
MEDIATED FORCE APPLICATION (EMFA) In
phase contrast (PhC) imaging, the position of the nucleus relative to erythrocytes can be monitored during the course of the experiment (upper panels). The behavior
of PML nuclear bodies was monitored by confocal sectioning (middle panels, images show maximum intensity projections). The nuclear region of force application is
shown as a magnified view in the bottom panels. Arrowheads indicate de novo formation of PML NBs. Scale bar, 5 µm. Figure 9 | Optical tweezer (OT) as a tool to analyze PML nuclear body assembly. (A) Schematic depiction of erythrocyte-mediated force application (EMFA) based
on OTs. Polyethylenimine coated erythrocytes attach unspecifically to the surfaces of the adherent target cells. Erythrocytes serve as very efficient “force transmitting
devices” for axial force application on cells. The cell layer is moved into the region of the desired position in such a way that the laser focus (yellow ellipse) locates
slightly below the erythrocyte. Immediately after switching on the laser the erythrocyte is pulled toward the focus due to the gradient force of the laser light, which
causes a brief physical force onto the cell. The experimental setup used here consists of a continuous wave (cw) diode pumped Nd-YAG-laser (Spectra Physics)
emitting at 1064 nm. The laser beam is coupled into an inverted confocal laser scanning microscope (LSM 510, Carl Zeiss Jena) and was focused via a high
numerical aperture objective (100×, 1.30 NA) into the object plane. (B) U2OS cells expressing EGFP-tagged PML-IV were subjected to EMFA as shown in (A). In
phase contrast (PhC) imaging, the position of the nucleus relative to erythrocytes can be monitored during the course of the experiment (upper panels). The behavior
of PML nuclear bodies was monitored by confocal sectioning (middle panels, images show maximum intensity projections). The nuclear region of force application is
shown as a magnified view in the bottom panels. Arrowheads indicate de novo formation of PML NBs. Scale bar, 5 µm. Figure 10 | Super-resolution imaging of promyelocytic leukemia (PML) nuclear bodies. (A) Principle of stimulated emission depletion (STED) microscopy. In STED,
two lasers are focused through a high numerical aperture objective lens. The excitation laser (green) serves to excite the fluorophore of interest similar to confocal
imaging. Excitation light pulses are immediately followed by a high energy red-shifted STED beam with circularly polarized light (red). OPTICAL TWEEZER (OT): ERYTHROCYTE-
MEDIATED FORCE APPLICATION (EMFA) The STED light de-excites the
excited fluorescence except for a small central spot due to the donut-like shape of the STED beam. This results in a subdiffraction size illumination excitation beam
which can be scanned across the sample with a confocal scanner to produce super-resolved images. (B–D) Example of 3-color STED imaging of PML NBs using a
Leica STED microscope. Fixed U2OS cells were immunofluorescently labeled to detect SUMO, SP100, and PML with secondary antibodies coupled to STAR-635P
(green), STAR-580 (red), and Atto-490LS (blue), respectively. All dyes were depleted using the 770 nm STED laser. (B) shows one confocal section in the center of the
nucleus recorded in confocal mode. (C) shows the same focal section as in (B) but recorded with the depletion laser switched on followed by deconvolution of the
fluorescence signals using Huygens software (STED/decon.). (D) The DAPI signal was also acquired in the same focal section employing the HyVolution II mode of the
Leica LSM (= confocal mode with the pinhole closed to 0.5 Airy units followed by deconvolution) (Confocal/decon.). (E) 3D-STORM imaging of a PML nuclear body in
U2OS cells immunofluorescently labeled with an anti-PML antibody (Secondary antibody: Alexa-647N). (F) Super-resolution SIM imaging of a PML nuclear body in
U2OS cells immunofluorescently labeled with an anti-PML antibody (Secondary antibody: Cy3). STORM and SIM imaging was performed using a Zeiss Elyra system. Figure 10 | Super-resolution imaging of promyelocytic leukemia (PML) nuclear bodies. (A) Principle of stimulated emission depletion (STED) microscopy. In STED,
two lasers are focused through a high numerical aperture objective lens. The excitation laser (green) serves to excite the fluorophore of interest similar to confocal
imaging. Excitation light pulses are immediately followed by a high energy red-shifted STED beam with circularly polarized light (red). The STED light de-excites the
excited fluorescence except for a small central spot due to the donut-like shape of the STED beam. This results in a subdiffraction size illumination excitation beam
which can be scanned across the sample with a confocal scanner to produce super-resolved images. (B–D) Example of 3-color STED imaging of PML NBs using a
Leica STED microscope. Fixed U2OS cells were immunofluorescently labeled to detect SUMO, SP100, and PML with secondary antibodies coupled to STAR-635P
(green), STAR-580 (red), and Atto-490LS (blue), respectively. All dyes were depleted using the 770 nm STED laser. OPTICAL TWEEZER (OT): ERYTHROCYTE-
MEDIATED FORCE APPLICATION (EMFA) Since their introduction in 1986 by Ashkin et al. (153), OTs have
developed rapidly over the past decades (154). OTs are today
widely used tools in physics, chemistry, biological, and medical
research (155). OTs are applicable to objects at nanometer up to
several micrometer size ranges. The simplest form to use OTs is
by focusing a laser beam using an objective lens of high numerical
aperture (Figure 9A). As the rear pupil of the objective must be
entirely illuminated, the diameter of the laser beam is expanded
by telescope optics before directed to the microscope. Dielectric
particles such as small biological objects near the focus will
mainly experience two forces: radiation pressure in the direction
of light propagation and gradient forces in the direction of the
spatial light gradient. The balancing of both forces is required. The equilibrium position of particles in the focus is given if gradi-
ent force dominates over the scattering force.h There are also several setup variants: conventional OT with
standard Gaussian laser beam, non-Gaussian laser beams based
on a Bessel beam or a Laguerre–Gaussian mode, dual beams, May 2018 | Volume 8 | Article 125 13 Advanced Bioimaging of PML Bodies Hoischen et al. Figure 9 | Optical tweezer (OT) as a tool to analyze PML nuclear body assembly. (A) Schematic depiction of erythrocyte-mediated force application (EMFA) based
on OTs. Polyethylenimine coated erythrocytes attach unspecifically to the surfaces of the adherent target cells. Erythrocytes serve as very efficient “force transmitting
devices” for axial force application on cells. The cell layer is moved into the region of the desired position in such a way that the laser focus (yellow ellipse) locates
slightly below the erythrocyte. Immediately after switching on the laser the erythrocyte is pulled toward the focus due to the gradient force of the laser light, which
causes a brief physical force onto the cell. The experimental setup used here consists of a continuous wave (cw) diode pumped Nd-YAG-laser (Spectra Physics)
emitting at 1064 nm. The laser beam is coupled into an inverted confocal laser scanning microscope (LSM 510, Carl Zeiss Jena) and was focused via a high
numerical aperture objective (100×, 1.30 NA) into the object plane. (B) U2OS cells expressing EGFP-tagged PML-IV were subjected to EMFA as shown in (A). OPTICAL TWEEZER (OT): ERYTHROCYTE-
MEDIATED FORCE APPLICATION (EMFA) (B) shows one confocal section in the center of the
nucleus recorded in confocal mode. (C) shows the same focal section as in (B) but recorded with the depletion laser switched on followed by deconvolution of the
fluorescence signals using Huygens software (STED/decon.). (D) The DAPI signal was also acquired in the same focal section employing the HyVolution II mode of the
Leica LSM (= confocal mode with the pinhole closed to 0.5 Airy units followed by deconvolution) (Confocal/decon.). (E) 3D-STORM imaging of a PML nuclear body in
U2OS cells immunofluorescently labeled with an anti-PML antibody (Secondary antibody: Alexa-647N). (F) Super-resolution SIM imaging of a PML nuclear body in
U2OS cells immunofluorescently labeled with an anti-PML antibody (Secondary antibody: Cy3). STORM and SIM imaging was performed using a Zeiss Elyra system. SUPER-RESOLUTION MICROSCOPY (SRM) several SRM approaches have been established over past decade
which improve resolution by a factor of 2–10, depending on the
technique. Meanwhile, three main super-resolution technolo-
gies are commercially available, namely structured illumination
microscopy (SIM), single molecule localization (SML), and
stimulated emission depletion (STED) (94). The resolution of a light microscope is limited to about 200 nm by
diffraction (165). The microscopic images of small cellular orga-
nelles or nuclear bodies in this size range therefore appear blurred
and their morphological details go undetected. Fortunately, May 2018 | Volume 8 | Article 125 Frontiers in Oncology | www.frontiersin.org 14 Advanced Bioimaging of PML Bodies Hoischen et al. Structured illumination microscopy is a versatile and the most
gentle super-resolution approach which increases the resolution
by up to twofold in lateral and axial direction (166, 167). This is
achieved by illuminating the sample with a grid pattern. The pat-
tern can for example be generated by laser light passing through a
movable optical grating which is projected via the objective onto
the sample (168). The interference of the pattern with sample
structures allows access to high frequency or in other words
high-resolution information that would be otherwise obscured
in a normal wide field image. SIM requires at least 9 images (2D-
SIM) or 15 images (3D-SIM) to be taken for each optical section,
whereby the illumination pattern is phase shifted and rotated in
order to access the high-resolution information by sophisticated
algorithms (168). The advantage of SIM is that it is compatible
with all fluorescent dyes, making even super-resolved multicolor
live-cell imaging feasible (169).l subdiffraction-sized fluorescence spot in the center of the donut
(179, 180) (Figure 10A). Interestingly, the first report on super-
resolution light microscopy of PML nuclear bodies was not based
on the three SRM methods described above but was realized
with the so-called 4Pi microscope developed by Hell et al. (179). Four-Pi fluorescence laser-scanning microscopy studies revealed
that during interphase PML NBs adopt a spherical organization
characterized by the assembly of different PML body components
into distinct, partially overlapping patches within a 50–100-nm
thick shell (35). The spherical organization of PML NBs had been
observed already before by electron microscopy (36, 48), but 4Pi
allowed for simultaneous pair-wise detection of two PML body
components. One example of STED nanoscopy on PML NBs is shown in
Figures 10B–D. SUPER-RESOLUTION MICROSCOPY (SRM) The three major PML NB constituents SUMO,
SP100 and PML were immunolabeled in U2OS cells with differ-
ent fluorophores and imaged in confocal as well as in STED mode
to visualize the improvement in optical resolution through STED
(Figures 10B,C, respectively). As expected, STED reveals that
these proteins decorate distinct, yet partially overlapping patches
in the peripheral shell of the PML NB (Figure 10C). Super-
imposition of the STED image with the DAPI pattern of the same
confocal section confirms the absence of chromatin in the core
of normal PML NBs (Figure 10D) (36). We also applied STORM
and SIM imaging of PML in U2OS cells. STORM is similarly well
suited to reveal the shell morphology of PML protein distribution
(Figure 10E) while the resolution in SIM is, as expected, consider-
ably lower than in STED or STORM (Figure 10F). However, since
the laser load is much less, SIM would be better suited for live cell
super-resolved imaging of PML nuclear body morphology, i.e., in
the analyses of fission and fusion events of PML microstructures
in stress conditions (Figure 9) or DNA at damage foci (Figure 8). In conclusion, this section shows that with commercially avail-
able SRM microscopes the analysis of biomolecules can be lifted
to a new optical dimension. In SML switching of molecules between two distinct fluores-
cent states, normally an “on” and an “off” state is used to determine
the exact position of a fluorescent molecule by determining the
center of mass within the blurry fluorescent spot. The blinking
is thereby adjusted to have at average only one molecule in its
fluorescent state within the diffraction limited spot. The concept
of blinking was realized using photoactivatable dyes, such as
paGFP in photoactivated localization microscopy (PALM) and
fluorescence PALM, or by using photoswitchable dye pairs (such
as Cy3–Cy5 or EosFPs) as in stochastic optical reconstruction
microscopy (STORM). Although PALM was established using
fluorescence proteins, it was soon realized that any organic dye
under appropriate reducing conditions can be brought to on and
off switch cycles, a technology termed dSTORM (170). In PALM/STORM, a series of several thousand images from
the blinking specimen are recorded and mathematically pro-
cessed into high-resolution images reaching resolutions below
30 nm in the lateral direction (171, 172). SML approaches have
the inherent disadvantage that typically (ten)thousands of frames
need to be acquired to reconstruct a single super-resolved image. SUPER-RESOLUTION MICROSCOPY (SRM) The entailed low temporal resolution, extended exposure with
high excitation power and associated phototoxicity render these
methods less suitable for live cell imaging.l 4 http://www.eurobioimaging.eu/ (Accessed: January 12, 2018).
5 http://www.eurobioimaging.eu/global-bioimaging (Accessed: January 12, 2018). Frontiers in Oncology | www.frontiersin.org OUTLOOK We believe that many biochemical or molecular biology ori-
ented research labs are still not aware of the multitude of new
and exciting microscopic methods and their capabilities. The
aim of this contribution was to present recent advances in bio-
imaging in combination with selected application examples in
PML nuclear body biology. Here we have illustrated the power
of imaging methods and provide a guide to these techniques to
make them more accessible to a larger number of labs involved
in oncogene or tumor suppressor research. We have presented
several experimental examples feasible in our imaging facil-
ity, yet the number of additional techniques is much higher. Bioimaging facility networks have been established in several
countries worldwide and these can be approached with specific
imaging requests. A source for comprehensive bioimaging
methodology is available Europe-wide4 and a global bioimaging
network project may be realized in the near future.5 More recently developed fluctuation microscopy (SOFI, SIRF)
approaches in part overcome these limitations at the expense of
much lower resolution increase (173, 174). Nevertheless, live cell
imaging using SML has been reported (175). Optical resolution
in STED usually is well below 50 nm in fixed samples and ca. 70 nm in live-cell experiments (94). A more in depth explanation
on the theory and on practical applications of SIM, SML, and
STED can be found here: (176, 177). Possible practical limita-
tions and compromises that must be considered when designing
super-resolution experiments have been pointed out by Lambert
and Waters (178). Stimulated emission depletion is based on the application
of two laser beams in a confocal (point-scanning) set-up. The
STED depletion laser is delivered into the optical path through a
phase filter, which creates a donut-shaped beam on the confocal
fluorescence spot by controlled de-excitation of the previously
excited fluorophore (Figure 10A). The high intensity STED
beam extinguishes the peripheral fluorescence signal, leaving a May 2018 | Volume 8 | Article 125 15 Advanced Bioimaging of PML Bodies Hoischen et al. in certain stem cell niches, these nuclear bodies could be imaged
and functionally analyzed in various living spheroid or organoid
stem cell systems using a combination of multicolor lightsheet and
super-resolution approaches (187, 188). In the same experimental
setting, laser-assisted ablation of single PML NB-expressing cells
could help to identify PML-mediated mechanisms of stem cell
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the hMre11 complex and p53 at sites of irradiation induced DNA damage. Oncogene (2002) 21(11):1633–40. doi:10.1038/sj.onc.1205227 5. Bernardi R, Pandolfi PP. Structure, dynamics and functions of promyelo-
cytic leukaemia nuclear bodies. Nat Rev Mol Cell Biol (2007) 8:1006–16. doi:10.1038/nrm2277 5. Bernardi R, Pandolfi PP. Structure, dynamics and functions of promyelo-
cytic leukaemia nuclear bodies. Nat Rev Mol Cell Biol (2007) 8:1006–16. doi:10.1038/nrm2277 13. Bøe SO, Haave M, Jul-Larsen A, Grudic A, Bjerkvig R, Lønning PE. OUTLOOK Seeing is believing and therefore we look forward
to monitor PML nuclear body biochemistry through new imaging
set-ups in real time in living cells in the future. Local, regional, national, and supranational imaging networks
will continue to develop with the aim to provide access, service
and training to state-of-the-art imaging technologies. Only such
dedicated facility infrastructures and/or very specialized imaging
research labs will be able to cope with the fast development of
novel microscopy techniques. Although probably a demanding
task, both, the facility members as well as basic research scientists
are now in charge to synergistically work together to fully exploit
the powerful imaging tools in the study of molecular and cellular
mechanisms. FUNDING This work was supported by grant HE 2484/3-1 to PH from the
Deutsche Forschungsgemeinschaft. This work was supported by grant HE 2484/3-1 to PH from the
Deutsche Forschungsgemeinschaft. ACKNOWLEDGMENTS We apologize to all authors who’s excellent articles in the field
of PML body biology and microscopy techniques could not be
cited in this contribution due to space limitations. We would
like to thank the following colleagues for their time and effort
in helping to establish the microscopy techniques described in
our facility: Stephanie Weidtkamp-Peters, Lars Schmiedeberg,
Almut Horch, Sandra Münch, Sandra Orthaus, Karolin Klement,
Paulius Grigaravicius, Daniela Hellwig, Tobias Ulbricht, Volker
Döring, Otto Greulich, Friedrich Haubensak, Eberhard Schmitt,
Frank Große, and Stephan Diekmann. We would like to thank
Debra Weih for proof-reading of the manuscript. More physiologically, it would be seminal to investigate PML
NBs in their most physiological setting, the living model organism. A combination of confocal microscopy and/or nanoscopy with
adaptive optics for better tissue penetration (185, 186) would enable
monitoring of fluorescent PML NBs in living tissue such as skin or
brain of GFP-PML knock-in mice under normal vs. stress condi-
tions (irradiation, chemicals). Since PML has an established role AUTHOR NOTE We have also summarized the current knowledge on the
potential functions and assembly of PML nuclear bodies. PML
has been analyzed using wet-lab and genetic techniques on
one hand and imaging methods on the other. With the new
microscopy methods now at hand it will be exciting to see the
two different approaches merging. For example, a combination
of STED and FCS (STED-FCS) (181), should make it possible
to assess biophysical and binding properties of PML-interacting
partners within PML NBs. This would help (i) to understand the
molecular/biochemical events occurring molecularly at PML NBs
at sites of DNA damage and (ii) to better visualize/understand the
proposed phase separation function of PML NBs (68). For exam-
ple, single-molecule tracking at nanoscale resolution has recently
been employed to demonstrate the liquid droplet nature of stress
granules in the cell nucleus (182). As nanoscopy will become less
phototoxic in the future (183), super-resolution imaging of APBs
in living cells will shed more light on the mechanisms of DNA
recombination events which occur in PML NBs during telomere
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open-access article distributed under the terms of the Creative Commons Attribution
License (CC BY). The use, distribution or reproduction in other forums is permitted,
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English
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Childhood MMR vaccination and the incidence rate of measles infection: a ten year longitudinal cohort study of American children born in the 1990s
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BMC pediatrics
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cc-by
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Open Access © The Author(s). 2019 Open Access This article is distributed under the terms of the Creative Commons Attribution 4.0
International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and
reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to
the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver
(http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated. Childhood MMR vaccination and the
incidence rate of measles infection: a ten
year longitudinal cohort study of American
children born in the 1990s David A. Geier1,2, Janet K. Kern1,2*
and Mark R. Geier1,2 David A. Geier1,2, Janet K. Kern1,2*
and Mark R. Geier1,2 Abstract Background: Measles (rubeola) is a highly contagious disease with significant morbidity/mortality. Measles-Mumps-
Rubella (MMR) is a live-attenuated vaccine used in the United States (US) since the early 1970s to prevent measles
infection. This retrospective longitudinal cohort study examined childhood MMR vaccination effectiveness (VE) on
preventing diagnosed measles cases. Methods: The Independent Healthcare Research Database (IHRD) is composed of non-identifiable linked eligibility
and claim healthcare records prospectively generated from the Florida Medicaid system. The SAS system was
utilized to examine a cohort of 101,736 persons eligible for Florida Medicaid from 1990 to 2009 and continuously
eligible with ≥10 outpatient office visits during the 120-month period following birth. There were 32,870 persons
(224,492 person-years) in the cohort receiving a single dose of childhood MMR vaccine (vaccinated) and 43,538
persons (434,637 person-years) in an unvaccinated cohort (no exposures to measles-containing vaccine). The
frequency of diagnosed measles (ICD-9 code: 055xxx) was examined. Cox proportional hazards models evaluated
MMR vaccination and diagnosed measles over time. Results: MMR vaccinated cohort members were at significantly reduced risk of measles in the unadjusted (VE =
83.6, 95% CI = 67.2–91.8%) and adjusted (VE = 80.7, 95% CI = 61.5–83.9%) models as compared to the unvaccinated
cohort. VE = 80% among younger MMR recipients (12–15 months), whereas VE = 90% among older MMR recipients
(16–20 months) as compared to the unvaccinated cohort. Conclusion: Routine childhood MMR vaccination significantly reduced the incidence rate of childhood measles
infections, and the VE was greater in the older recipients (16–20 months) than in the younger recipients (12–15
months). Conclusion: Routine childhood MMR vaccination significantly reduced the incidence rate of childhood measles
infections, and the VE was greater in the older recipients (16–20 months) than in the younger recipients (12–15
months). Keywords: Cohort, Measles, MMR vaccine, Pediatric, Rubeola Background occur in epidemic cycles and virtually all people acquired
measles before adulthood in the US prior to the imple-
mentation of the national measles vaccine program in
1963. It was described prior to the national measles
vaccine program in the US, annually about 500,000 cases
of measles were reported, of whom 500 persons died, 48,
000 were hospitalized, and about 1000 cases of encephal-
itis with permanent brain damage were observed [2]. As described by the United States (US) Centers for Dis-
ease Control and Prevention (CDC), measles (rubeola) is
highly contagious (90% of exposed susceptible persons
develop measles) rash illness that is transmitted by direct
contact with respiratory droplets or airborne spread
between person to person [1]. Measles was observed to In the US, measles vaccination was initially recom-
mended for administration at 9 months in 1963, 12
months in 1965, and 15 months in 1967 [1]. During the * Correspondence: jkern@dfwair.net
1Institute of Chronic Illnesses, Inc, 14 Redgate Ct, Silver Spring, MD 20905,
USA
2CoMeD, Inc, 14 Redgate Ct, Silver Spring, MD 20905, USA * Correspondence: jkern@dfwair.net
1Institute of Chronic Illnesses, Inc, 14 Redgate Ct, Silver Spring, MD 20905, Institute of Chronic Illnesses, Inc, 14 Redgate Ct, Silver Spri
USA
2CoMeD, Inc, 14 Redgate Ct, Silver Spring, MD 20905, USA USA
2CoMeD, Inc, 14 Redgate Ct, Silver Spring, MD 20905, USA Geier et al. BMC Pediatrics (2019) 19:325
https://doi.org/10.1186/s12887-019-1710-5 Geier et al. BMC Pediatrics (2019) 19:325
https://doi.org/10.1186/s12887-019-1710-5 Independent healthcare research database (IHRD) Independent healthcare research database (IHRD)
The Independent Healthcare Research Database (IHRD)
is
composed
of
non-identifiable
healthcare
records
generated from the Florida Medicaid system. The data
contained within the IHRD were obtained from the
Agency for Health Care Administration (AHCA) of the
state of Florida and included eligibility and claim files. It
is possible to link a person’s eligibility and claim records
by a unique recipient identifier code. The eligibility
records included detailed information for each person
regarding their month and year of enrollment, gender,
date of birth, and county level residency. The claims
records included detailed information for each person
regarding their diagnosis status using the International Study participants
Fi
1 y p
p
Figure 1 presents a schematic flowchart of the IHRD
data examined in the present study. A cohort of 8,440,
941 persons of all ages with no changes or missing gen-
ders or dates of birth and eligible at specific times for
Florida Medicaid from July 1990 through June 2009 was
initially evaluated in this study. Among this cohort, a
total of 1,871,728 persons were eligible for Florida
Medicaid from their date of birth and among those
persons a total of 193,453 persons were continuously
eligible for Florida Medicaid for 120 months following
birth. Finally, among the cohort of 193,453 persons
continuously eligible for Florida Medicaid for 120
months following birth, a sub-cohort of 101,736 persons
with ≥10 outpatient office visits during the 120-month
period following birth was identified. Since, the late 1980s/early 1990s, the Advisory Commit-
tee on Immunization Practices (ACIP), the American
Academy of Pediatrics (AAP), and American Academy of
Family Practitioners (AAFP) have recommended that the
first dose of MMR vaccine should be given to children
aged 12 through 15 months (with administration between
6 and 12 months under special circumstances) [1]. The measles vaccine program in the US was so success-
ful against measles infections that it is the largest country
in the world to have ended endemic measles transmission
[6]. Therefore, it would be ethically unacceptable to con-
duct placebo-controlled trials to assess measles vaccine
effectiveness in the US, and as a result, current epidemio-
logical research on the effectiveness of MMR vaccine
needs to focus on retrospective studies of populations
to optimize protection by modifying immunization
schedules [7]. Vaccination status
h The exposure variable examined in this study was identi-
fied from the healthcare procedure codes filed on claims
for each cohort member examined. The procedure codes
examined, included: measles vaccination (codes: 9945,
W1941, 90705), MMR vaccine (codes: 90707, W1943,
9948), measles and rubella vaccine (code: 90708), mea-
sles, mumps, rubella, and varicella (MMRV) vaccine
(code: 90710). Only persons receiving a single dose of
MMR vaccine were included in the vaccinated cohort
(codes: 90707, W1943, or 9948) and persons were con-
sidered unvaccinated, if they did not receive any mea-
sles-containing vaccine (codes: 9945, W1941, 90705,
90707, W1943, 9948, 90708, or 90710) during the study
period examined. All persons receiving more than 1 dose
of MMR vaccination or other measles-containing vac-
cines were excluded from the present study. Among
those vaccinated with MMR, the date of service for the
first claim in chronological order with a procedure code
specifying MMR vaccine was assumed to be the date of
vaccine administration. Overall, it was observed that 32,
916 persons were in the MMR vaccinated cohort and 43,
538 persons were in the unvaccinated cohort. The purpose of the present retrospective longitudinal
cohort study was to examine the vaccine effectiveness of
childhood MMR vaccination to reduce the incidence
rate of childhood measles infections in the US during
the 1990s/2000s. In addition, this study examined the
relationship between the age of childhood MMR vaccin-
ation and its impact on the effectiveness of the vaccine. Page 2 of 11 Page 2 of 11 Geier et al. BMC Pediatrics (2019) 19:325 Geier et al. BMC Pediatrics (2019) 19:325 Code for Disease, 9th revision (ICD-9) codes, healthcare
procedure codes (medical, dental, etc.), and administered
drugs using National Drug Codes (NDC). The data in
the IHRD were assembled and accessed under approval
by the Liberty Institutional Review Board (IRB) (Deland,
FL). The SAS system for Windows, version 9.4 (Cary,
NC, USA) was used to examine the IHRD. 1970s combined measles-mumps-rubella (MMR) vaccine
was introduced in the US [3, 4]. The MMR vaccine used
in the US since the 1980s is the M-M-R® II vaccine
(Merck & Co, Inc., Whitehouse Station, NJ), and is a
sterile lyophilized preparation of (1) ATTENUVAX®
(Measles Virus Vaccine Live), a more attenuated line of
measles virus, derived from Enders’ attenuated Edmon-
ston strain and propagated in chick embryo cell culture;
(2) MUMPSVAX® (Mumps Virus Vaccine Live), the Jeryl
Lynn™(B level) strain of mumps virus propagated in
chick embryo cell culture; and (3) MERUVAX® II (Ru-
bella Virus Vaccine Live), the Wistar RA 27/3 strain of
live attenuated rubella virus propagated in WI-38 human
diploid lung fibroblasts [5]. Outcomes The outcome variable examined in this study was identi-
fied from the ICD-9 codes filed on claims for each
cohort member examined. All measles-related diagnoses
(code: 055xxx) were examined, including: measles (055), Page 3 of 11 Geier et al. BMC Pediatrics (2019) 19:3 Geier et al. BMC Pediatrics Fig. 1 A schematic flowchart of the data examined in the present study. Persons in the MMR vaccinated cohort received only 1 dose of MMR
vaccine and includes only persons diagnosed with measles post-MMR vaccine administration (43 persons were excluded with measles diagnoses
pre-MMR vaccine administration and 3 persons were diagnosed measles within 30 days of vaccine administration, which are most likely measles
vaccine-associated adverse events) Fig. 1 A schematic flowchart of the data examined in the present study. Persons in the MMR vaccinated cohort received only 1 dose of MMR
vaccine and includes only persons diagnosed with measles post-MMR vaccine administration (43 persons were excluded with measles diagnoses
pre-MMR vaccine administration and 3 persons were diagnosed measles within 30 days of vaccine administration, which are most likely measles
vaccine-associated adverse events) vaccination were included in the final MMR vaccinated
cohort. As a result, the overall size of the MMR vaccinated
cohort was reduced to 32,870 persons. post-measles
encephalitis
(code:
055.0),
post-measles
pneumonia (code: 055.1), post-measles otitis media (code:
055.2), measles with other specified complications (code:
055.7), measles keratoconjunctivitis (code: 055.71), mea-
sles with other specified complications (code: 055.79),
measles with unspecified complication (code: 055.8), and
measles without mention of complication (code: 055.9). No information was available regarding whether measles
cases were laboratory confirmed or not. Persons were
considered to have measles if they had any of the measles-
related diagnoses and persons were not considered to have
measles if they did not have any of the measles-related
diagnoses during the study period examined. Among
those with a measles diagnosis, the date of service for the
first claim in chronological order with a measles diagnosis
was assumed to be the date of onset of measles infection. Only those persons either not diagnosed with measles or
diagnosed with measles more than 30 days post-MMR Statistical analyses In all statistical analyses, the statistical package in SAS was
utilized, and a two-sided p-value < 0.05 was considered
statistically significant. The null hypothesis was that MMR
vaccination would have no impact on the incidence rate of
measles diagnoses. It was also assumed in this study that
chances of exposure to wild type measles virus were equal
in the vaccinated and unvaccinated cohorts. In order to evaluate the relationship between MMR vac-
cination and diagnosed measles, person-years of follow-up
were calculated in the vaccinated and unvaccinated co-
horts examined in this study. In the unvaccinated cohort,
person-years of follow-up began on the date of birth and
continued until the end of eligibility (a maximum of 120 Geier et al. BMC Pediatrics (2019) 19:325 Page 4 of 11 Page 4 of 11 months after birth) or until the date of the first measles
diagnosis. In the vaccinated cohort, person-years of fol-
low-up began on the date of MMR vaccine administration
and continued until the end of eligibility (a maximum of
120 months after birth) or until the date of the first mea-
sles diagnosis. cohort contributing a total of 224,492 person-years and
43,538 persons in the unvaccinated cohort contributing a
total of 434,637 person-years. The gender distribution was
similar in the MMR vaccinated cohort (male/female ratio:
1.13) and unvaccinated cohort (male/female ratio = 1.14). In addition, overall mean dates of birth were similar in
both the vaccinated and unvaccinated cohorts. g
A regression analysis of diagnosed measles cases based
on the Cox proportional hazards model was used to evalu-
ate overtime in years the potential relationship between
MMR vaccination and the outcome of a measles diagno-
sis. Ties in the failure times were handled using the exact
method. In addition, an evaluation of the potential impact
of young (< 1 year-old) persons in the unvaccinated cohort
being diagnosed with measles at an age prior to the earli-
est age when MMR vaccine is first recommended at 12
months-old was undertaken. MMR vaccine effectiveness
was examined in modeling by only counting cases of
measles diagnosed at ≥12 months-old in the unvaccinated
cohort and only examining persons receiving MMR vac-
cine at ≥12 months-old in the vaccinated cohort. Finally,
modeling was conducted to evaluate the potential impact
of age of MMR vaccine administration (≥12 months, ≥
16 months, and ≥20 months) on the effectiveness of the
vaccine to prevent cases of measles. Statistical analyses All models were con-
structed without adjustment for covariates (Model I) and
with adjustment for the covariates of gender (categorical
variable), date of birth (continuous variable), and county
of residence (as a continuous variable) (Model II). Overall,
vaccine effectiveness was determined as ((1 – hazard ratio)
× 100). Table 2 shows the demographic characteristics of the
85 persons diagnosed with measles examined this study. Slightly more males than females were diagnosed with
measles (male/female ratio = 1.15), but the ratio was
consistent with those observed in the vaccinated and
unvaccinated cohorts examined. The mean date of birth
among persons diagnosed with measles was slightly
earlier in chronological time in the unvaccinated cohort
(1993) as compared to vaccinated cohort (1994). Most
diagnosed
cases
of
measles
(> 90%)
were
without
complications. Table 3 reveals the Cox proportional hazards model
results examining the impact of childhood MMR vaccin-
ation on the incidence rate of diagnosed measles. It was
observed regardless of the age of childhood MMR vac-
cination that the vaccine effectiveness was 83.6% (95%
confidence interval = 67.2 to 91.8%) in the unadjusted
and 80.7% (95% confidence interval = 61.5 to 90.4%) in
the
adjusted
models. MMR
vaccine
effectiveness
remained significant when only counting cases of mea-
sles diagnosed at ≥1 year-old in the unvaccinated cohort
and only examining persons receiving MMR vaccine at
≥1 year-old in the vaccinated cohort in the unadjusted
(vaccine effectiveness = 70.9, 95% confidence interval =
37.8 to 86.4%) and adjusted (vaccine effectiveness = 65.4,
95% confidence interval = 25.6 to 83.9%) models. ICD-9 International Code of Disease, 9th revision, MMR Measles, mumps, rubella, std. Standard deviation
a All persons examined in this study were enrolled from their date of birth for 120 consecutive months. All persons had non-changing dates of birth and gender
status. All persons had ≥10 outpatient office visits
b Persons received only 1 dose of MMR vaccine and includes only persons diagnosed with measles post-MMR vaccine administration (43 persons were excluded
with measles diagnoses pre-MMR vaccine administration and 3 persons were diagnosed measles within 30 days of vaccine administration, which are most likely
measles vaccine-associated adverse events)
c P
i
d
d
f
l
i i
i Results Table 1 displays the demographic characteristics of the
population of persons examined in this study. Overall,
there were a total 32,870 persons in the MMR vaccinated Figure 2 is a Cox proportional hazards survival plot
evaluating the incidence of measles cases diagnosed over Table 1 Demographic characteristics of the persons examined in this studya
Parameter Examined
MMR Vaccinated Cohortb
(n = 32,870)
Unvaccinated Cohortc
(n = 43,538)
Person-Years
224,492
434,637
Gender (%)
Male
17,468 (53.14%)
23,202 (53.29%)
Female
15,402 (46.86%)
20,336 (46.71%)
Date of Birth
mean ± std. (range)
1995 ± 2.5
(1990–1999)
1994 ± 2.5
(1990–1999)
Number Diagnosed with Measles
(ICD-9 Code: 055xxx)
9
76 Number Diagnosed with Measles
(ICD-9 Code: 055xxx) ICD-9 International Code of Disease, 9th revision, MMR Measles, mumps, rubella, std. Standard deviation
a All persons examined in this study were enrolled from their date of birth for 120 consecutive months. All persons had non-changing dates of birth and gender
status. All persons had ≥10 outpatient office visits
b Persons received only 1 dose of MMR vaccine and includes only persons diagnosed with measles post-MMR vaccine administration (43 persons were excluded
with measles diagnoses pre-MMR vaccine administration and 3 persons were diagnosed measles within 30 days of vaccine administration, which are most likely
measles vaccine-associated adverse events)
c
d
d
f
l c Persons received no doses of any measles-containing vaccine Page 5 of 11 Geier et al. BMC Pediatrics (2019) 19:325 Table 2 Demographic summary of the persons diagnosed with measles examined in this studya
Parameter Examined
All Persons Diagnosed
with Measles
(n = 85)
Vaccinated Persons
Diagnosed with
Measles (n = 9)c
Unvaccinated Persons
with Diagnosed
Measles (n = 76)d
Gender (%)
Male
45 (53.41%)
5 (55.56%)
40 (52.63%)
Female
40 (47.06%)
4 (44.44%)
36 (47.37%)
Date of Birth
mean ± std. (range)
1993 ± 2.1
(1990–1999)
1994 ± 1.26
(1992–1996)
1993 ± 2.2
(1990–1999)
Age at Measles Diagnosis
mean ± std. (range)
1.65 ± 1.69
(0.15–7.08)
1.27 ± 1.72
(0.15–5.39)
1.69 ± 1.7
(0.18–7.08)
Year of Measles Diagnosis
mean ± std. (range)
1995 ± 2.78
(1991–2003)
1996 ± 1.9
(1993–1999)
1994 ± 2.8
(1991–2003)
Measles Diagnosis-Associated
Complications
No Complications
78 (91.77%)
8 (88.89%)
70 (92.11%)
Complications Specifiedb
5 (5.88%)
1 (11.11%)
4 (5.26%)
Unknown Complication Status
2 (2.35%)
0 (0%)
2 (2.63%)
aAll persons examined in this study were enrolled from their date of birth for 120 consecutive months. Results The unvac-
cinated cohort revealed the most significant increases in
the number of measles cases diagnosed in the first 2
years of follow-up in the present study. This was then
followed by a period of still increasing numbers of mea-
sles case diagnoses from the 2nd to the 6th year of fol-
low-up, but at a slower rate than the initial 2-year period
of follow-up. Finally, in the last period from the 6th to
10th year of follow-up, there were relatively few measles
cases diagnosed as compared to the previous follow-up
periods. Results All persons had non-changing dates of birth and gender
status. All persons had ≥10 outpatient office visits
bThis includes persons with post-measles otitis media (n = 2), measles keratoconjunctivitis (n = 1), measles with other specified complications (n = 1), measles with
unspecified complication (n = 1)
cPersons received only 1 dose of MMR vaccine and includes only persons diagnosed with measles post-MMR vaccine administration (43 persons were excluded
with measles diagnoses pre-MMR vaccine administration and 3 persons were diagnosed measles within 30 days of vaccine administration, which are most likely
measles vaccine-associated adverse events)
dPersons received no doses of measles-containing vaccine when examining the MMR vaccinated cohort at the
older ages examined with receipt at ≥16 months-old or ≥
20 months-old vaccine effectiveness was about 90% or
more. the period of years persons were followed in the MMR
vaccinated cohort and the unvaccinated cohort. The plot
reveals that in the initial period post-MMR vaccination
(< 6 months) there were a greater number of measles
cases diagnosed than in the unvaccinated cohort, but in
the later periods post-MMR vaccination (> 6 months)
there relatively few measles cases diagnosed as compared
to the initial 6-month follow-up period in the MMR vac-
cinated cohort or the unvaccinated cohort. The unvac-
cinated cohort revealed the most significant increases in
the number of measles cases diagnosed in the first 2
years of follow-up in the present study. This was then
followed by a period of still increasing numbers of mea-
sles case diagnoses from the 2nd to the 6th year of fol-
low-up, but at a slower rate than the initial 2-year period
of follow-up. Finally, in the last period from the 6th to
10th year of follow-up, there were relatively few measles
cases diagnosed as compared to the previous follow-up
periods. the period of years persons were followed in the MMR
vaccinated cohort and the unvaccinated cohort. The plot
reveals that in the initial period post-MMR vaccination
(< 6 months) there were a greater number of measles
cases diagnosed than in the unvaccinated cohort, but in
the later periods post-MMR vaccination (> 6 months)
there relatively few measles cases diagnosed as compared
to the initial 6-month follow-up period in the MMR vac-
cinated cohort or the unvaccinated cohort. Discussion The results of this retrospective longitudinal cohort
study of prospectively collected healthcare data provide
important and compelling new epidemiological quantita-
tive data regarding the vaccine effectiveness of the child-
hood MMR vaccine routinely administered to American
children. Further, the vaccine effectiveness of childhood
MMR vaccination remained when considering covariates
such as gender, date of birth, and county of residence. In considering the results observed in the present
study with previous studies, the Cochrane Collaboration
recently published an extensive review examining MMR
vaccine effectiveness [7]. Of three MMR vaccine effect-
iveness studies examined by the Cochrane Collaboration,
all three were cohort studies that observed childhood
MMR vaccine administration was significantly effective
in
preventing
clinical
cases
of
measles
[8–10]. In
addition,
the
Cochrane
Collaboration
review
also
described that vaccine effectiveness = 97% for MMR
vaccine administered in US vaccine programs [11]. Table 4 reveals the impact of the age of MMR vaccine
administration on vaccine effectiveness in comparison to
the unvaccinated cohort. Among those persons receiving
MMR vaccine at the younger ages examined with receipt
at ≥12 months-old was the least effective with a vaccine
effectiveness ranging from about 80 to 85%. By contrast, Page 6 of 11 Geier et al. BMC Pediatrics (2019) 19:325 Table 3 Cox proportional hazards model results examining the relationship between MMR vaccination and diagnosed measles
Model
Variable
Hazard Ratio
(95% CI)
VE
(95% CI)
p-value
χ2
I
Vaccinateda vs Unvaccinatedb (all ages)
0.164
(0.082 to 0.328)
83.6%
(67.2 to 91.8%)
< 0.0001
26.2
Vaccinated vs Unvaccinated
(≥12 months-old)c
0.291
(0.136 to 0.622)
70.9%
(37.8 to 86.4%)
0.0015
10.1
II
Vaccinated vs Unvaccinated (all ages)
0.193
(0.096 to 0.385)
80.7%
(61.5% to 90.4)
< 0.0001
21.7
Gender (Female vs Male)
1.01
(0.659 to 1.544)
0.97
0.002
County of Residence
0.993
(0.982 to 1.004)
0.24
1.40
Date of Birth
0.999
(0.999 to 0.999)
< 0.0001
30.2
Vaccinated vs Unvaccinated
(≥12 months-old)c
0.346
(0.161 to 0.744)
65.4%
(25.6 to 83.9%)
0.00065
7.39
Gender (Female vs Male)
0.959
(0.544 to 1.692)
0.89
0.02
County of Residence
0.997
(0.982 to 1.011)
0.65
0.21
Date of Birth
0.999
(0.999 to 0.999)
< 0.0001
18.8
Italicized results are statistically significant. Discussion Model I = unadjusted, Model II = adjusted for gender, county of residence, and date of birth
CI Confidence interval, VE Vaccine effectiveness
aPersons received only 1 dose of MMR vaccine
bPersons received no doses of measles-containing vaccine
cOnly persons diagnosed with measles at ≥12 months-old were included in the unvaccinated cohort and only examining persons receiving MMR vaccine at ≥12
months-old in the vaccinated cohort, so as to ensure direct overlap in ages with the vaccinated and unvaccinated cohorts Table 3 Cox proportional hazards model results examining the relationship between MMR vaccination and diagnosed measles Persons received only 1 dose of MMR vaccine
bPersons received no doses of measles-containing vaccine
cOnly persons diagnosed with measles at ≥12 months-old were included in the unvaccinated cohort and only examining persons receiving MMR vaccine at ≥12
months-old in the vaccinated cohort, so as to ensure direct overlap in ages with the vaccinated and unvaccinated cohorts Fig. 2 A Cox proportional hazards survival plot evaluating cases of measles diagnosed over the period of follow-up in the MMR vaccinated cohort1 (1)
in comparison to the unvaccinated cohort2 (0). 1 Persons received only 1 dose of MMR vaccine. 2 Persons received no doses of
measles-containing vaccine Fig. 2 A Cox proportional hazards survival plot evaluating cases of measles diagnosed over the period of follow-up in the MMR vaccinated cohort1 (1)
in comparison to the unvaccinated cohort2 (0). 1 Persons received only 1 dose of MMR vaccine. 2 Persons received no doses of
measles-containing vaccine Fig. 2 A Cox proportional hazards survival plot evaluating cases of measles diagnosed over the period of follow-up in the MMR vaccinated cohort1 (1)
in comparison to the unvaccinated cohort2 (0). 1 Persons received only 1 dose of MMR vaccine. 2 Persons received no doses of
measles-containing vaccine Page 7 of 11 Geier et al. BMC Pediatrics (2019) 19:325 Geier et al. Discussion BMC Pediatrics Table 4 An evaluation of the impact of the age of MMR vaccine administration on the effectiveness of the vaccine to prevent cases
of measles
Model
Variable
Hazard Ratio
(95% CI)
VE
(95% CI)
p-value
χ2
I
Vaccinateda vs Unvaccinatedb
(≥12 months-old)
0.147
(0.071 to 0.305)
85.3%
(69.5 to 92.9%)
< 0.0001
26.5
Vaccinated vs Unvaccinated
(≥16 months-old)
0.100
(0.036 to 0.273)
90%
(72.7 to 86.4%)
< 0.0001
20.2
Vaccinated vs Unvaccinated
(≥20 months-old)
0.061
(0.015 to 0.247)
93.9%
(75.3 to 98.5%)
< 0.0001
15.3
II
Vaccinated vs Unvaccinated
(≥12 months-old)
0.173
(0.083 to 0.360)
82.7%
(64 to 91.7%)
< 0.0001
22.1
Gender (Female vs Male)
1.032
(0.673 to 1.584)
0.89
0.02
County of Residence
0.994
(0.983 to 1.005)
0.27
1.20
Date of Birth
0.999
(0.999 to 0.999)
< 0.0001
30
Vaccinated vs Unvaccinated
(≥16 months-old)
0.111
(0.040 to 0.303)
88.9%
(69.7 to 96%)
< 0.0001
18.4
Gender (Female vs Male)
1.109
(0.718 to 1.715)
0.64
0.22
County of Residence
0.995
(0.984 to 1.007)
0.42
0.66
Date of Birth
0.999
(0.999 to 0.999)
< 0.0001
28.1
Vaccinated vs Unvaccinated
(≥20 months-old)
0.070
(0.017 to 0.287)
93%
(71.3 to 98.3%)
< 0.0001
13.7
Gender (Female vs Male)
1.027
(0.658 to 1.602)
0.91
0.01
County of Residence
0.996
(0.985 to 1.008)
0.49
0.47
Date of Birth
0.999
(0.999 to 1.000)
< 0.0001
27.4
Italicized results are statistically significant. Model I = unadjusted, Model II = adjusted for gender, county of residence, and date of birth
CI Confidence interval, VE Vaccine effectiveness
a Persons received only 1 dose of MMR vaccine
b Persons received no doses of measles-containing vaccine Table 4 An evaluation of the impact of the age of MMR vaccine administration on the effectiveness of the vaccine to prevent cases
of measles Italicized results are statistically significant. Model I = unadjusted, Model II = adjusted for gender, county of residence, and date of birth
CI Confidence interval, VE Vaccine effectiveness
a Persons received only 1 dose of MMR vaccine
b Persons received no doses of measles-containing vaccine The results of the present study also revealed that vac-
cine effectiveness was greatest for those children admin-
istered a single dose of MMR vaccine between 16 and
20 months of age as compared to those receiving a single
dose of MMR vaccine between 12 and 15 months. Discussion It is
also worth considering in countries where the risk of
measles infection is high and low MMR vaccine uptake,
especially for the second dose of MMR vaccine, that
administration of MMR vaccine at ≥15 months maybe a
means to improve long-term protection against measles
infection for many children. examined were generated completely separate from the
current study design. The healthcare providers submit-
ting claims for MMR vaccine administration and measles
diagnoses were most likely not thinking about the
possible relationship between MMR vaccination and
measles diagnoses. The study design utilized to examine the IHRD was
another important strength of the present study. All
persons examined in this study were eligible for Florida
Medicaid from birth for 120 months (no gaps in eligibil-
ity were allowed). In addition, in order to ensure that
the cohort of persons examined was actively utilizing
healthcare services from the Florida Medicaid system, all
persons examined in this study had to have ≥10 out-
patient office visit claims submitted (that averages to at
least one outpatient office visit per person per year). These
requirements
helped
to
significantly
reduce
possible enrollment factors or differences in healthcare-
seeking behaviors among the persons examined in this
study. Another interesting aspect of the present study was
that there were three measles disease diagnoses made
within 30 days post-MMR vaccine (these were excluded
from analyses undertaken in the present study to deter-
mine MMR vaccine effectiveness). It was previously re-
ported the usual incubation period of measles is 8 to 12
days [21]. All three measles diagnoses appeared to occur
within the biologically appropriate time for the incuba-
tion and manifestation of measles infection (one on day
11 and two on day 13), and as a result are most likely
MMR vaccine-associated adverse events. It is unclear
whether any previous epidemiological studies were large
enough to observe this phenomenon following child-
hood MMR vaccine administration, but a previous day-
to-day reactogenicity study of MMR vaccine versus a
placebo administered to 14 to 18 months-old in a twin
study revealed apparently mild measles-associated symp-
toms commenced 5 to 7 days post-MMR vaccine admin-
istration and peaked on day 10 [21]. The results of the
present study support that MMR vaccine-associated
measles adverse events are rare with a rate of 0.91 per
10,000 recipients (95% confidence interval = 0.19 to 2.67
per 10,000 recipients) within 30 days of MMR vaccin-
ation. Discussion It would be interesting in future studies to use
microbiological tests to determine whether such poten-
tial measles adverse events are truly vaccine-associated
or the result of wild-type measles infections. Further, vaccination status was determined with preci-
sion for each person because detailed information regard-
ing procedure codes and dates of service for claims
submitted on behalf of each person were examined. In
order for a person to become a member of the vaccinated
cohort, the claims records for a person revealed that only
a single dose of MMR vaccine was administered. Those
persons with procedure codes specifying other measles-
containing vaccine(s) or multiple doses of MMR vaccine
were excluded from the present analyses. Similarly,
members of the unvaccinated cohort were confirmed to
have no claims submitted on their behalf specifying
receipt of any type of measles-containing vaccine. The outcome status was also determined with precision
for each person because detailed information regarding
outcomes using ICD-9 diagnosis coding and dates of ser-
vice for claims submitted on behalf of each person were
examined. In order for a person to be recognized as
having a measles diagnosis, the initial date of service speci-
fying a measles diagnosis (055xxx) was identified. Finally, the use of Cox proportional hazards survival
plot modeling to evaluate cases of measles diagnosed
over a period of many years in the vaccinated and
unvaccinated cohorts allowed for us to draw inferences
regarding the relationship between vaccination and out-
comes as a function of follow-up time. It is possible that a potential limitation of this study was
that the findings observed were the result of statistical
chance or cofounders/unknown biases in the data. Statis-
tical chance seems unlikely given that a limited number of
statistical tests were performed, and most results were
highly statistically significant. In addition, it was observed
that the significant effects observed in unadjusted models
remained significant even when adjusting for potential Discussion This
type of age dependent MMR vaccine effectiveness was
described in previous epidemiological studies [18]. The
ACIP reported that measles vaccine is at least 95%
effective for children vaccinated at ≥15 months of age,
whereas a lower efficacy was observed for children vacci-
nated between 12 and 14 months of age. They commen-
ted that measles vaccine efficacy maybe lower because of
trans-placental maternal antibody persists beyond the
first birthday in some children, which, interferes with re-
sponse to vaccination [19]. The biological plausibility of
age dependent MMR vaccine effectiveness is supported
by a previous study that revealed higher proportion of The results observed in this study regarding the vaccine
effectiveness of childhood MMR to significantly reduce the
incidence rate of measles cases for many years post-vaccin-
ation are biologically plausible. For example, it was reported
as early as 1971 that among 715 children (with no initial
antibody to measles) that MMR vaccination induced a posi-
tive measles antibody response in 96% of the children [12]. It
was
subsequently
reported
that
among
children
administered a single dose of MMR vaccine at 15 months-
old and evaluated for antibodies against measles at 6–7
years-old that > 90% were still positive for antibodies
against measles [13]. Other studies in different populations
revealed that measles antibodies may persistent more than
a decade post-MMR vaccination [14, 15]. In addition, it was
even revealed in long-term longitudinal cohort studies of
measles vaccine recipients that persistent antibodies were
observed in > 90% of the persons examined [16, 17]. Page 8 of 11 Geier et al. BMC Pediatrics (2019) 19:325 Page 8 of 11 those vaccinated with MMR vaccine at younger ages had
undetectable or low levels of measles antibody 5–6 years
post-immunization [20]. As a consequence, there is a
potential delicate balance to weigh between ensuring the
best
possible
long-term
immunological response to
MMR vaccine administration in vaccine recipients ver-
sus the potential of measles exposure and measles-asso-
ciated disease among children. It would seem, at least in
the US, in more recent years with the end of endemic
measles
transmission
that
for
most
children
administration of MMR vaccine at ≥15 months would be
more appropriate than < 15 months, although the impact
maybe limited because most children will subsequently
receive a second childhood dose of MMR vaccine. Strengths/limitations It is possible that there
may be differences in the chances of wild type measles
virus exposure in different geographical areas over
different years. This potential phenomenon should be
further examined in future studies. An additional potential limitation of this study was
that measles cases were not uniformly diagnosed during
the study period from 1990 to 2009. As revealed in
Table 5, it was observed that most cases of measles were
diagnosed in the early 1990s period, and by the 2000s
virtually no cases of measles were diagnosed, regardless
of vaccination status. This phenomena most probably re-
flects increasing “herd immunity” from increasing MMR
vaccine coverage in the overall population. As described
previously about “herd immunity” [22], the consequence
is that the chance of exposure to measles throughout the
study period examined significantly decreased regardless
of vaccination status, and as a result, this may have
reduced the vaccine effectiveness observed in the present
study in comparison with previous studies examining
measles
vaccine
effectiveness. Namely,
unvaccinated
persons were deriving a benefit of protection against
measles infection from vaccinated persons. It would be
interesting in future studies to evaluate the impact of
increasing
“herd
immunity”
on
population
measles
disease patterns. The ACIP recommends that a second dose of MMR vac-
cination should be administered during childhood [1]. It
is possible that additional doses of MMR vaccination
may further improve vaccine effectiveness to prevent
cases of measles. It is recommended that future studies
further explore the impact of additional doses of MMR
vaccination on vaccine effectiveness to prevent measles
cases. The ACIP recommends that a second dose of MMR vac-
cination should be administered during childhood [1]. It
is possible that additional doses of MMR vaccination
may further improve vaccine effectiveness to prevent
cases of measles. It is recommended that future studies
further explore the impact of additional doses of MMR
vaccination on vaccine effectiveness to prevent measles
cases. Another potential limitation of the present study was
that the better vaccine effectiveness associated with older
age of receiving MMR vaccination might associated with
missing data on the first vaccination (i.e., perhaps the
first documented MMR vaccination was really a second
MMR vaccination, because the first was not docu-
mented). Strengths/limitations An important strength of this study was that retrospect-
ive observations made in the IHRD were derived from
eligibility and claims records prospectively generated as
part of the routine healthcare provided for persons in
the
Florida
Medicaid
system. Therefore,
the
data Geier et al. BMC Pediatrics (2019) 19:325 Page 9 of 11 Table 5 A summary of diagnosed measles cases by year of
diagnosis
Year of
Diagnosis
All Measles
Cases
MMR Vaccinated
Cohorta Diagnosed
with Measles
Unvaccinated
Cohortb Diagnosed
with Measles
1991
18
0
18
1992
14
0
14
1993
11
1
10
1994
11
2
6
1995
8
1
7
1996
8
2
6
1997
6
1
5
1998
5
1
4
1999
4
1
3
2000
2
0
2
2001
0
0
0
2002
0
0
0
2003
1
0
1
2004
0
0
0
2005
0
0
0
2006
0
0
0
2007
0
0
0
2008
0
0
0
2009
0
0
0
Total
85
9
76
aPersons received only 1 dose of MMR vaccine
bPersons received no doses of measles-containing vaccine covariates such as gender, date of birth, and county of
residence. The results observed this study were consistent
with previous epidemiological observations on different
populations and were biologically plausible. Table 5 A summary of diagnosed measles cases by year of
diagnosis It is also possible that some of the persons examined in
the IHRD may have had symptoms of measles that were
so slight that they were not noted by their healthcare pro-
viders, or healthcare providers may have misdiagnosed or
misclassified vaccination status for some persons. How-
ever, these potential limitations, while possible, should not
have affected the results appreciably because it is uncer-
tain how differential application would have occurred in
the vaccinated and unvaccinated cohorts examined. Im-
portantly, any misclassification with respect to diagnostic
or vaccination status, would in all likelihood bias the find-
ings towards the null hypothesis because persons exam-
ined would have been put into the wrong vaccination and/
or diagnostic category and result in diminished statistical
power to establish the accurate relationship between
vaccination and outcomes. Another potential limitation of this study was that
limited information was available regarding the area of
residence of persons over the multiple years of this
study. It was assumed that chances of exposure to wild
type measles virus were equal in the vaccinated and un-
vaccinated cohorts examined. AAFP: American Academy of Family Practitioners; AAP: American Academy of
Pediatrics; ACIP: Advisory Committee on Immunization Practices;
AHCA: Agency for Health Care Administration; CA: California; FL: Florida;
ICD-9: International Code for Disease, 9th revision; IHRD: Independent
Healthcare Research Database; IRB: Institutional Review Board; MMR:
Measles-mumps-rubella; NDC: National Drug Codes; NJ: New Jersey;
US: United States; USA: United States of America; VE: Vaccination
effectiveness; WA: Washington Consent for publication
Not applicable. Consent for publication
Not applicable. Consent for publication
Not applicable. Funding
Th This research was funded by the non-profit organizations, CoMeD, Inc. and
Institute of Chronic Illnesses, Inc. Dr. Mark Geier and Mr. David Geier are
directors of the non-profit Institute of Chronic Illnesses, Inc. and the
non-profit CoMeD, Inc. The funding organizations did not influence the
design, data collection, analyses, data interpretation, or the writing of this
manuscript. 16. Kremer JR, Schneider F, Muller CP. Waning antibodies in measles and
rubella vaccines-a longitudinal study. Vaccine. 2006;24(14):2594–601. 16. Kremer JR, Schneider F, Muller CP. Waning antibodies in measles and
rubella vaccines-a longitudinal study. Vaccine. 2006;24(14):2594–601. 17. Kato H, Mori M, Oba M, Kawahara H, Kaneko T. Persistence and half-lives of
anti-measles and anti-rubella antibodies in Japanese hospital workers: a
longitudinal study. Intern Med. 2016;55(18):2587–94. 17. Kato H, Mori M, Oba M, Kawahara H, Kaneko T. Persistence and half-lives of
anti-measles and anti-rubella antibodies in Japanese hospital workers: a
longitudinal study. Intern Med. 2016;55(18):2587–94. 18. Orenstein WA, Markowitz L, Preblud SR, Hinman AR, Tomasi A, Bart KJ. Appropriate age for measles vaccination in the United States. Dev Biol
Stand. 1986;65:13–21. 18. Orenstein WA, Markowitz L, Preblud SR, Hinman AR, Tomasi A, Bart KJ. Appropriate age for measles vaccination in the United States. Dev Biol
Stand. 1986;65:13–21. Acknowledgements
None. 12. Stokes J Jr, Weibel RE, Villarejos VM, Arguedas JA, Buynak EB, Hilleman MR. Trivalent combined measles-mumps-rubella vaccine. Findings in clinical-
laboratory studies. JAMA. 1971;218(1):57–61. 12. Stokes J Jr, Weibel RE, Villarejos VM, Arguedas JA, Buynak EB, Hilleman MR. Trivalent combined measles-mumps-rubella vaccine. Findings in clinical-
laboratory studies. JAMA. 1971;218(1):57–61. Authors’ contributions
l
d
d 13. Gil Miguel A, Astasio Arbiza P, Ortega Molina P, Dominguez Rojas V,
Gonzalez Lope A. Seroprevalence of antibodies against measles, rubella,
mumps and varicella among school children in Madrid. An Esp Pediatr. 1999;50(5):459–62. 13. Gil Miguel A, Astasio Arbiza P, Ortega Molina P, Dominguez Rojas V,
Gonzalez Lope A. Seroprevalence of antibodies against measles, rubella,
mumps and varicella among school children in Madrid. An Esp Pediatr. 1999;50(5):459–62. DAG conceptualized and designed the study, carried out the initial analyses,
drafted the initial manuscript, and approved the final manuscript as
submitted. JKK critically reviewed and revised the manuscript, and approved
the final manuscript as submitted. MRG conceptualized and designed the
study, drafted the initial manuscript, and approved the final manuscript as
submitted. All authors read and approved the final manuscript. 14. Seagle EE, Bednarczyk RA, Hill T, Fiebelkorn AP, Hickman CJ, Icenogle JP,
Belongia EA, McLean HQ. Measles, mumps, and rubella antibody patters of
persistence and rate of decline following the second dose of the MMR
vaccine. Vaccine. 2018;36(6):818–26. 14. Seagle EE, Bednarczyk RA, Hill T, Fiebelkorn AP, Hickman CJ, Icenogle JP,
Belongia EA, McLean HQ. Measles, mumps, and rubella antibody patters of
persistence and rate of decline following the second dose of the MMR
vaccine. Vaccine. 2018;36(6):818–26. 15. Davidkin I, Jokinen S, Broman M, Leinikki P, Peltola H. Persistence of
measles, mumps, and rubella in an MMR-vaccinated cohort: a 20-year
follow-up. J Infect Dis. 2008;197(7):950–6. Conclusion Seagle EE, Bednarczyk RA, Hill T, Fiebelkorn AP, Hickman CJ, Icenogle JP,
Belongia EA, McLean HQ. Measles, mumps, and rubella antibody patters of
persistence and rate of decline following the second dose of the MMR
vaccine. Vaccine. 2018;36(6):818–26. 15. Davidkin I, Jokinen S, Broman M, Leinikki P, Peltola H. Persistence of
measles, mumps, and rubella in an MMR-vaccinated cohort: a 20-year
follow-up. J Infect Dis. 2008;197(7):950–6. 16. Kremer JR, Schneider F, Muller CP. Waning antibodies in measles and
rubella vaccines-a longitudinal study. Vaccine. 2006;24(14):2594–601. 17. Kato H, Mori M, Oba M, Kawahara H, Kaneko T. Persistence and half-lives of
anti-measles and anti-rubella antibodies in Japanese hospital workers: a
longitudinal study. Intern Med. 2016;55(18):2587–94. 18. Orenstein WA, Markowitz L, Preblud SR, Hinman AR, Tomasi A, Bart KJ. Appropriate age for measles vaccination in the United States. Dev Biol
Stand. 1986;65:13–21. Received: 7 September 2018 Accepted: 3 September 2019 Received: 7 September 2018 Accepted: 3 September 2019 References Measles transmission and vaccine effectiveness during a large outbreak on
a densely populated island: implications for vaccination policy. Clin Infect
Dis. 2006;42(3):315–9. 8. Marin M, Nguyen HQ, Langidrik JR, Edwards R, Briand K, Papania MJ, et al. Measles transmission and vaccine effectiveness during a large outbreak on
a densely populated island: implications for vaccination policy. Clin Infect
Dis. 2006;42(3):315–9. 8. Marin M, Nguyen HQ, Langidrik JR, Edwards R, Briand K, Papania MJ, et al. Measles transmission and vaccine effectiveness during a large outbreak on
a densely populated island: implications for vaccination policy. Clin Infect
Dis. 2006;42(3):315–9. Ethics approval and consent to participate Ethics approval and consent to participate References 1. McLean HQ, Fiebelkorn AP, Temte JL, Wallace GS. Centers for Disease
Control and Prevention. Prevention of measles, rubella, congenital rubella
syndrome and mumps, 2013: summary recommendations of the advisory
committee on immunization practices (ACIP). MMWR Recomm Rep. 2013;
62(RR-04:1–34. 2. Bloch AB, Orenstein WA, Stetler HC, et al. Health impact of measles
vaccination in the United States. Pediatrics. 1985;76:524–32. 2. Bloch AB, Orenstein WA, Stetler HC, et al. Health impact of measles
vaccination in the United States. Pediatrics. 1985;76:524–32. 3. Redd SC, Markowitz LE, Katz SL. Measles vaccine. In: Plotkin SA, Orenstein
WA, editors. Vaccines. Philadelphia: WB Saunders; 1999. p. 222–66. 4. Schwarz AJ, Jackson JE, Ehrenkranz NJ, Ventura A, Schiff GM, Walters VW. Clinical evaluation of a new measles-mumps-rubella trivalent vaccine. Am J
Dis Child. 1975;129(12):1408–12. 2. Bloch AB, Orenstein WA, Stetler HC, et al. Health impact of measles
vaccination in the United States. Pediatrics. 1985;76:524–32. 3. Redd SC, Markowitz LE, Katz SL. Measles vaccine. In: Plotkin SA, Orenstein
WA, editors. Vaccines. Philadelphia: WB Saunders; 1999. p. 222–66. 3. Redd SC, Markowitz LE, Katz SL. Measles vaccine. In: Plotkin SA, Orenstein
WA, editors. Vaccines. Philadelphia: WB Saunders; 1999. p. 222–66. 4. Schwarz AJ, Jackson JE, Ehrenkranz NJ, Ventura A, Schiff GM, Walters VW. Clinical evaluation of a new measles-mumps-rubella trivalent vaccine. Am J
Dis Child. 1975;129(12):1408–12. 5. MERCK & CO., INC., M-M-R-II, Measles Mumps, and Rubella Virus Vaccine
Live. http://www.merck.com/product/usa/pi_circulars/m/mmr_ii/mmr_ii_pi. pdf. Revised 5/2017; Accessed 18 July 2018. Overall, the results of the present study support the
ongoing successful use of routine MMR vaccination as
an important public health tool to reduce the incidence
rate of diagnosed measles. Future studies should con-
tinue to monitor how long and how robust the protect-
ive effects of MMR vaccine(s) can be expected to persist. 6. Strebel PM, Henao-Restrepo AM, Hoekstra E, Olive JM, Papania MJ, Cochi SL. Global measles elimination efforts: the significance of measles elimination in
the United States. J Infect Dis. 2004;189(Suppl 1):S251–7. 7. Demicheli V, Rivetti A, Debalini MG, Di Pietrantonj C. Vaccines for measles,
mumps, and rubella in children. Cochrane Database Syst Rev. 2012;15(2):
CD004407. 7. Demicheli V, Rivetti A, Debalini MG, Di Pietrantonj C. Vaccines for measles,
mumps, and rubella in children. Cochrane Database Syst Rev. 2012;15(2):
CD004407. 8. Marin M, Nguyen HQ, Langidrik JR, Edwards R, Briand K, Papania MJ, et al. Competing interests
Th
h
d
l
h This retrospective cohort study of prospectively collected
healthcare data from the IHRD provides new evidence con-
sistent with and extending results from previous epidemio-
logical studies revealing that routine childhood MMR
vaccination in the US significantly reduced the incidence
rate of diagnosed measles cases. Furthermore, MMR vac-
cine administration at 16–20 months-old was associated
with greater vaccine effectiveness relative to MMR vaccine
administration at 12–15 months-old. It was also revealed
that on rare occasions in the 30-day post-MMR vaccine
administration period about 1 in 10,000 doses of MMR vac-
cine developed MMR vaccine-associated measles adverse
events. Finally, the results observed in this study help to
establish that the IHRD is an important epidemiological
resource to help quantitatively evaluate important public
health issues. The authors declare that they have no competing interests. Received: 7 September 2018 Accepted: 3 September 2019 Abbreviations
AAFP A
i AAFP: American Academy of Family Practitioners; AAP: American Academy of
Pediatrics; ACIP: Advisory Committee on Immunization Practices;
AHCA: Agency for Health Care Administration; CA: California; FL: Florida;
ICD-9: International Code for Disease, 9th revision; IHRD: Independent
Healthcare Research Database; IRB: Institutional Review Board; MMR:
Measles-mumps-rubella; NDC: National Drug Codes; NJ: New Jersey;
US: United States; USA: United States of America; VE: Vaccination
effectiveness; WA: Washington 9. Marolla F, Baviera G, Cacciapuoti CV, Cannavavo R, Clemente A, et al. A field
study on vaccine efficacy against mumps of three MMR vaccines [Efficacia
verso la parotite di tre diversi vaccini a tripla componente: studio sul
campo]. Riv Ital Pediatr. 1998;24(3):466–72. 10. Ong G, Rasidah N, Wan S, Cutter J. Outbreak of measles in primary school
students with high first dose MMR vaccination coverage. Singap Med J. 2007;48(7):656–61. 11. Orenstein WA, Bernier RH, Dondero TJ, Hinman AR, Marks JS, Bart KJ, et al. Field
evaluation of vaccine efficacy. Bull World Health Org. 1985;63(6):1055–68. 11. Orenstein WA, Bernier RH, Dondero TJ, Hinman AR, Marks JS, Bart KJ, et al. Field
evaluation of vaccine efficacy. Bull World Health Org. 1985;63(6):1055–68. Conclusion Competing interests
The authors declare that they have no competing interests. Received: 7 September 2018 Accepted: 3 September 2019
References
1. McLean HQ, Fiebelkorn AP, Temte JL, Wallace GS. Centers for Disease
Control and Prevention. Prevention of measles, rubella, congenital rubella
syndrome and mumps, 2013: summary recommendations of the advisory
committee on immunization practices (ACIP). MMWR Recomm Rep. 2013;
62(RR-04:1–34. 2. Bloch AB, Orenstein WA, Stetler HC, et al. Health impact of measles
vaccination in the United States. Pediatrics. 1985;76:524–32. 3. Redd SC, Markowitz LE, Katz SL. Measles vaccine. In: Plotkin SA, Orenstein
WA, editors. Vaccines. Philadelphia: WB Saunders; 1999. p. 222–66. 4. Schwarz AJ, Jackson JE, Ehrenkranz NJ, Ventura A, Schiff GM, Walters VW. Clinical evaluation of a new measles-mumps-rubella trivalent vaccine. Am J
Dis Child. 1975;129(12):1408–12. 5. MERCK & CO., INC., M-M-R-II, Measles Mumps, and Rubella Virus Vaccine
Live. http://www.merck.com/product/usa/pi_circulars/m/mmr_ii/mmr_ii_pi. pdf. Revised 5/2017; Accessed 18 July 2018. 6. Strebel PM, Henao-Restrepo AM, Hoekstra E, Olive JM, Papania MJ, Cochi SL. Global measles elimination efforts: the significance of measles elimination in
the United States. J Infect Dis. 2004;189(Suppl 1):S251–7. 7. Demicheli V, Rivetti A, Debalini MG, Di Pietrantonj C. Vaccines for measles,
mumps, and rubella in children. Cochrane Database Syst Rev. 2012;15(2):
CD004407. 8. Marin M, Nguyen HQ, Langidrik JR, Edwards R, Briand K, Papania MJ, et al. Measles transmission and vaccine effectiveness during a large outbreak on
a densely populated island: implications for vaccination policy. Clin Infect
Dis. 2006;42(3):315–9. 9. Marolla F, Baviera G, Cacciapuoti CV, Cannavavo R, Clemente A, et al. A field
study on vaccine efficacy against mumps of three MMR vaccines [Efficacia
verso la parotite di tre diversi vaccini a tripla componente: studio sul
campo]. Riv Ital Pediatr. 1998;24(3):466–72. 10. Ong G, Rasidah N, Wan S, Cutter J. Outbreak of measles in primary school
students with high first dose MMR vaccination coverage. Singap Med J. 2007;48(7):656–61. 11. Orenstein WA, Bernier RH, Dondero TJ, Hinman AR, Marks JS, Bart KJ, et al. Field
evaluation of vaccine efficacy. Bull World Health Org. 1985;63(6):1055–68. 12. Stokes J Jr, Weibel RE, Villarejos VM, Arguedas JA, Buynak EB, Hilleman MR. Trivalent combined measles-mumps-rubella vaccine. Findings in clinical-
laboratory studies. JAMA. 1971;218(1):57–61. 13. Gil Miguel A, Astasio Arbiza P, Ortega Molina P, Dominguez Rojas V,
Gonzalez Lope A. Seroprevalence of antibodies against measles, rubella,
mumps and varicella among school children in Madrid. An Esp Pediatr. 1999;50(5):459–62. 14. Strengths/limitations This would appear to be unlikely, since the
ages examined for receipt of MMR vaccination were all
before the second birthday, and the ACIP does not
recommend administration of a second dose of MMR
vaccine at such a young age [1]. A final potential limitation of the present study was
that it is unknown how many cases were reported to the
national notifiable disease system from Florida in this
time period compared to what was observed in the A still further potential limitation of the present study
was that only persons receiving a single dose of MMR
vaccination were examined in the vaccinated cohort. Page 10 of 11 Geier et al. BMC Pediatrics (2019) 19:325 Geier et al. BMC Pediatrics (2019) 19:325 Florida Medicaid system. It is possible that there may be
some sort of selection bias, although it would probably
not have a large impact on the observations made in this
study. Ethics approval and consent to participate
The data in the IHRD were assembled and accessed under approval by the
Liberty Institutional Review Board (IRB) (Deland, FL). Availability of data and materials This database is publicly available through the US Medicaid system. This database is publicly available through the US Medicaid system. Page 11 of 11 Geier et al. BMC Pediatrics (2019) 19:325 Geier et al. BMC Pediatrics (2019) 19:325 19. Centers for Disease Control (CDC). Measles prevention. MMWR Suppl. 1989;
38(9):1–18. 20. Boulianne N, Serres GD, Ratnam S, Ward BJ, Joly JR, Duval B. Measles,
mumps, and rubella antibodies in children 5-6 years after immunization:
effect of vaccine type and age at vaccination. Vaccine. 1995;13(16):1611–6. 20. Boulianne N, Serres GD, Ratnam S, Ward BJ, Joly JR, Duval B. Measles,
mumps, and rubella antibodies in children 5-6 years after immunization:
effect of vaccine type and age at vaccination. Vaccine. 1995;13(16):1611–6. 21. Virtanen M, Petola H, Paunio M, Heinonen OP. Day-to-day reactogenicity
and the healthy vaccine effect of measles-mumps-rubella vaccination. Pediatrics. 2000;106(5):E62. 21. Virtanen M, Petola H, Paunio M, Heinonen OP. Day-to-day reactogenicity
and the healthy vaccine effect of measles-mumps-rubella vaccination. Pediatrics. 2000;106(5):E62. 22. Fing P, Earnes K, Heymann DL. “Herd immunity”: a rough guide. Clin Infect
Dis. 2011;52(7):911–6. 22. Fing P, Earnes K, Heymann DL. “Herd immunity”: a rough guide. Clin Infect
Dis. 2011;52(7):911–6. Publisher’s Note Springer Nature remains neutral with regard to jurisdictional claims in
published maps and institutional affiliations. Springer Nature remains neutral with regard to jurisdictional claims in
published maps and institutional affiliations. Springer Nature remains neutral with regard to jurisdictional claims in
published maps and institutional affiliations.
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“The Great Mimicker”: An Unusual Etiology of Cytopenia, Diffuse Lymphadenopathy, and Massive Splenomegaly
|
Case reports in medicine
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Hindawi Publishing Corporation
Case Reports in Medicine
Volume 2015, Article ID 637965, 6 pages
http://dx.doi.org/10.1155/2015/637965 Hindawi Publishing Corporation
Case Reports in Medicine
Volume 2015, Article ID 637965, 6 pages
http://dx.doi.org/10.1155/2015/637965 Hindawi Publishing Corporation
Case Reports in Medicine
Volume 2015, Article ID 637965, 6 pages
http://dx.doi.org/10.1155/2015/637965 Correspondence should be addressed to Mazen Zaarour; mfzaarour@gmail.com Correspondence should be addressed to Mazen Zaarour; mfzaarour@gmail.com Received 11 August 2015; Accepted 4 October 2015 Academic Editor: Masahiro Kohzuki Copyright © 2015 Mazen Zaarour et al. This is an open access article distributed under the Creative Commons Attribution License,
which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. Sarcoidosis is an idiopathic multisystem disease characterized by the formation of noncaseating granulomas. It frequently presents
with pulmonary infiltrates and bilateral hilar and mediastinal lymphadenopathy. Splenic involvement is common, but massive
splenomegaly is a rare occurrence. Sarcoidosis is known as “the great mimicker” (or “the great imitator”) since it exhibits a
myriad of symptoms, mimicking other inflammatory, infectious, and neoplastic conditions, including lymphoma. Herein, we
report the case of a 44-year-old male patient who was found to have bicytopenia, hypercalcemia, diffuse lymphadenopathy, and
massive splenomegaly, a constellation of findings suggestive of underlying lymphoma. Interestingly, lymph node biopsy showed
noncaseating granulomas suggestive of sarcoidosis, without evidence of malignancy. 1. Introduction Herein, we report the case of a 44-year-old male patient
who was found to have bicytopenia, hypercalcemia, diffuse
lymphadenopathy, and massive splenomegaly, a constellation
of findings suggestive of underlying lymphoma. Surprisingly,
lymph node biopsy showed noncaseating granulomas sugges-
tive of sarcoidosis, without evidence of malignancy. Sarcoidosis is a chronic inflammatory disorder of unknown
origin which occurs mainly in young people [1, 2]. It is
characterized by the presence of noncaseating granulomas. Although the lung is the most common organ involved,
the disease can affect any organ, including the spleen [1]. Granulomatous infiltration of the spleen is common in
sarcoidosis and is often asymptomatic [2]. Splenomegaly is
unusual, and massive splenomegaly is very rare [3].hi Case Report
(The Great Mimicker): An Unusual Etiology of Cytopenia,
Diffuse Lymphadenopathy, and Massive Splenomegaly Mazen Zaarour,1 Chanudi Weerasinghe,1 Elias Moussaly,1
Shafinaz Hussein,2 and Jean-Paul Atallah3
1Department of Medicine, Staten Island University Hospital, North Shore-LIJ Health System, Staten Island, New York, NY 10305, USA
2Department of Pathology, Staten Island University Hospital, North Shore-LIJ Health System, Staten Island, New York, NY 10305, USA
3Division of Hematology and Oncology, Department of Medicine, Staten Island University Hospital, North Shore-LIJ Health System,
Staten Island, New York, NY 10305, USA Mazen Zaarour,1 Chanudi Weerasinghe,1 Elias Moussaly,1
Shafinaz Hussein,2 and Jean-Paul Atallah3 Shafinaz Hussein,2 and Jean-Paul Atallah3
1Department of Medicine, Staten Island University Hospital, North Shore-LIJ Health System, Staten Island, New York, NY 10305, USA
2Department of Pathology, Staten Island University Hospital, North Shore-LIJ Health System, Staten Island, New York, NY 10305, USA
3Division of Hematology and Oncology, Department of Medicine, Staten Island University Hospital, North Shore-LIJ Health System,
Staten Island, New York, NY 10305, USA 1Department of Medicine, Staten Island University Hospital, North Shore-LIJ Health System, Staten Island, New York, NY 10305, USA
2Department of Pathology, Staten Island University Hospital, North Shore-LIJ Health System, Staten Island, New York, NY 10305, USA
3Division of Hematology and Oncology, Department of Medicine, Staten Island University Hospital, North Shore-LIJ Health System,
Staten Island, New York, NY 10305, USA 2. Case Presentation We report the case of a 44-year-old Caucasian male who was
referred to our hospital by his primary physician for abnor-
mal outpatient laboratory test values. The patient had been
healthy until 5 months prior to admission, when he started to
have progressively worsening fatigue. Outpatient blood tests
revealed kidney injury, hypercalcemia, and anemia, findings
that required hospitalization. The symptoms of sarcoidosis, if present, are nonspecific. The presence of noncaseating granulomas is also not pathog-
nomonic of the disease, as it can be seen in malignancy
[1]. Moreover, the involvement of the reticuloendothelial
system in sarcoidosis, as evidenced by enlarged lymph nodes
and splenomegaly, often mandates tissue examination to
exclude an underlying masked lymphoma. Sarcoidosis is well
known to be “the great mimicker” (or “the great imitator”),
since it exhibits a myriad of symptoms, mimicking other
inflammatory, infectious, and neoplastic conditions, includ-
ing lymphoma. On the day of admission, the patient’s only complaint was
severe fatigue. Upon further questioning, he admitted having
a 70-pound unintentional weight loss over the last 18 months. He denied any fever, chills, night sweats, cough, rash, or joint
or abdominal pain. His prior medical history consisted of 2 2 Case Reports in Medicine (a)
(b)
Figure 1: Massive splenomegaly. (a) Sagittal sonographic view of the spleen showing a markedly enlarged and diffuse heterogeneous spleen
(blue arrow) measuring 30 cm in length. (b) Coronal noncontrast CT of the abdomen and pelvis showing enlarged spleen reaching 33.6 cm
in length. (a) (b) (a) (b) Figure 1: Massive splenomegaly. (a) Sagittal sonographic view of the spleen showing a markedly enlarged and diffuse heterogeneous spleen
(blue arrow) measuring 30 cm in length. (b) Coronal noncontrast CT of the abdomen and pelvis showing enlarged spleen reaching 33.6 cm
in length. (a)
(b)
Figure 2: Diffuse lymphadenopathy. (a) Transverse CT of the abdomen showing enlarged para-aortic lymph nodes (blue arrows) reaching
14 mm in the shortest axis. (b) Transverse CT of the pelvis showing enlarged inguinal lymph nodes reaching 15 mm in the shortest axis. (b) (a) (a) (b) Figure 2: Diffuse lymphadenopathy. (a) Transverse CT of the abdomen showing enlarged para-aortic lymph nodes (blue arrows) reaching
14 mm in the shortest axis. (b) Transverse CT of the pelvis showing enlarged inguinal lymph nodes reaching 15 mm in the shortest axis. 2. Case Presentation hypercalcemia of 13.7 mg/dL was noted, along with a blood
urea nitrogen (BUN) of 33 mg/dL and a serum creatinine
of 2.39 mg/dL, findings consistent with kidney injury. The
renal function was normal three years ago. Liver enzymes
were normal. An abdominal sonogram showed a markedly
enlarged and diffusely heterogeneous spleen measuring
30 cm in length (Figure 1(a)). Enlarged kidneys with normal
echogenicity were found as well (right kidney 13 cm, left
kidney 15.5 cm). A noncontrast computed tomography (CT)
scan of the abdomen and pelvis confirmed the presence
of massive splenomegaly (Figure 1(b)), along with multiple
mildly enlarged paraaortic, mesenteric, and bilateral iliac
chain lymph nodes (Figure 2). A chest radiograph was unre-
markable; however, a CT chest revealed diffuse mediastinal,
lower cervical, and axillary adenopathy. diabetes mellitus, gout, and hyperlipidemia. The patient was
a nonsmoker and had no allergies. His family history was
noncontributory. On physical exam, the patient’s body temperature was
98.6∘F, blood pressure was 159/92 mmHg, and heart rate
was 100/min. Cardiovascular and pulmonary exams were
unremarkable. Left upper quadrant tenderness was noted on
the abdominal exam, as well as a firm and enlarged spleen,
which was palpable below the umbilicus. No rash, cervical,
or axillary lymphadenopathy was identified. i
Laboratory analysis showed a normocytic anemia with
a hemoglobin of 6.7 g/dL, a hematocrit of 21.4%, and a
mean corpuscular volume (MCV) of 82.3 𝜇m3. The rest
of the hematologic panel was as follows: white blood cell
count of 3.93 × 109/L, platelet count of 254 × 109/L, and
erythrocyte sedimentation rate (ESR) of 93 mm/h. A periph-
eral blood smear was within normal limits. In addition, The patient received packed red blood cells transfusions
to maintain his hemoglobin level around 8 mg/dL. He was 3 Case Reports in Medicine (a)
(b)
Figure 3: Nonnecrotizing granulomata. Low- (a) and high-magnification (b) photomicrograph of a section from an inguinal lymph node. It
shows that the lymph node is replaced by numerous small compact nonnecrotizing granulomata. (b) (a) (b) (a) Figure 3: Nonnecrotizing granulomata. Low- (a) and high-magnification (b) photomicrograph of a section from an inguinal lymph node. It
shows that the lymph node is replaced by numerous small compact nonnecrotizing granulomata. Table 1: Laboratory findings. 2. Case Presentation Extrathoracic sarcoidosis is also common, with liver and
spleen involvement described in half of autopsy cases [2, 3]. Other commonly involved organs are the skin, the joints, and
the eyes. Extrathoracic sarcoidosis is also common, with liver and
spleen involvement described in half of autopsy cases [2, 3]. Other commonly involved organs are the skin, the joints, and
the eyes. y
Sarcoidosis can be asymptomatic in some patients. If
present, symptoms are both systemic (fever, weight loss, and
fatigue) and/or organ-specific (shortness of breath, chest
pain, and cough) [1]. There is no single laboratory test for
the diagnosis. However, cytopenia, eosinophilia, and hyper-
gammaglobulinemia are common findings. Hypercalcemia
and/or hypercalciuria are also found in some cases. ACE,
produced by the epithelial cells of granulomas, is detected in
the serum of 60% of patients; however, its value in diagnosing
ormanaging sarcoidosis remains controversial [4]. Soluble
interleukin-2 receptor (sIL-2R) concentration, a marker of
T-cell activation, is considered to reflect disease activity. A
biopsy from the involved organ that is most easily accessed is 2. Case Presentation Parameter
Value
Total protein (g/dL)
8.1 (6–8.3)
Albumin (g/dL)
3.2 (3.0–5.5)
Serum iron (𝜇g/dL)
34 (35–150)
Total iron binding capacity (𝜇g/dL)
241 (260–400)
Ferritin (ng/mL)
608 (30–400)
Percent saturation (%)
14.1 (15–50)
Reticulocyte count (%)
1.88 (0.5–1.5)
ESR (mm/h)
93 (0–10)
Vitamin B12 (pg/mL)
215 (243–894)
Lactate dehydrogenase (IU/L)
97 (60–200)
Inorganic phosphorus (mg/dL)
2.5 (2.1–4.9)
Intact PTH (pg/mL)
5 (15–65)
PTH related protein (pg/mL)
22 (14–27)
Thyroid stimulating hormone (𝜇IU/mL)
2.72 (0.27–4.2)
Vitamin D 1,25(OH)2 total (pg/mL)
248 (18–72)
Vitamin D 25-OH total (ng/mL)
26 (30–100)
Uric acid (mg/dL)
6.3 (4.8–8.7)
Serum protein electrophoresis (SPEP)
Normal
Free kappa/lambda ratio
1.01 (0.26–1.65)
Urine protein electrophoresis (UPEP)
Normal Table 1: Laboratory findings. also given intravenous fluids to treat the hypercalcemia and
received one dose of pamidronate, which helped to lower the
calcium level to as low as 11 mg/dL over the next few days.hf The presence of massive splenomegaly and diffuse
lymph node enlargement was concerning lymphoma. Further
workup showed anemia of chronic disease and elevated
vitamin D 1,25(OH)2 levels (with low PTH levels). Anti-
nuclear antibody, HIV test, monospot test, and purified
protein derivative (PPD) were negative. Additional studies
are listed in Table 1. A bone marrow biopsy revealed a
hypercellular marrow with negative cultures and cytogenetic
analysis. PCR analyses for Bcr/Abl and JAK2 mutation
were both negative. An excisional biopsy of a left inguinal
lymph node showed that the lymph node was extensively
involved with small compact nonnecrotizing granulomata
(Figure 3). Gomori methenamine silver (GMS) and acid-
fast bacillus (AFB) staining showed no fungal organisms or
acid-fast organisms, respectively. There was no morphologic
or immunophenotypic evidence of malignancy. Additional
serum studies showed an angiotensin-converting enzyme
(ACE) level of 73 U/L (reference range 9–67). These findings
led to a diagnosis of sarcoidosis, for which the patient was
started on prednisone 40 mg/day and discharged home few
days later.t Four weeks after the initiation of therapy, the patient’s
calcium level was 10.3 mg/dL, along with a hemoglobin
of 9.4 g/dL and a creatinine of 1.38 mg/dL. 2 weeks later,
ACE level was 31 mg/dL. 8 weeks after hospital discharge, a
fluorine-18 fluorodeoxyglucose (FDG) PET imaging, done
while the patient was still on treatment, showed no focal
FDG avid lesions, along with stable non-FDG avid thoracic
and abdominal adenopathy. The patient continued to be in
good health 9 months after his diagnosis and had shown no
progression of sarcoidosis. 3. Discussion Patients with splenomegaly may have a higher
incidence of constitutional symptoms and more disseminated
disease [11]. Splenic sarcoidosis may cause hypersplenism, as
evidenced by anemia, leukopenia, thrombocytopenia, or any
such combination. The radiographic features of splenic sar-
coidosis are variable. Splenomegaly is usually homogeneous;
however, the sarcoid granulomas, often small, can coalesce
to produce macroscopically visible nodules. Therefore, in up
to 15% of patients, the disease may manifest as multiple low-
attenuation and diffusely scattered nodules, ranging in size
from 1 to 30 mm [2, 12, 13]. This pattern may mimic other
worrisome diagnoses, such as lymphoma, metastases from
solid tumor, and tuberculosis [2, 3].h The crux of sarcoidosis is its ability to masquerade
as other diseases, most significantly lymphoma. As such,
for clinicians, distinguishing these entities can make the
difference between life and death for patients. In addition to
the nonspecific clinical, radiological, and histological features
in sarcoidosis, the lymphocyte activation and the reticu-
loendothelial system involvement (lymph nodes, spleen, and
liver) make the distinction of sarcoidosis from lymphoma
extremely challenging. In fact, hypercalcemia and increased
serum ACE levels have also been described in patients with
lymphoma [14]. Moreover, multiple reports confirmed the
presence of sarcoid-like (noncaseating epithelioid) granulo-
mas in patients with lymphoma, even without a history of
“true” sarcoidosis [15]. Brincker concluded that a sarcoid-
like granulomatous reaction occurred in 4% of cancers, in
14% of patients with Hodgkin’s lymphoma, and in 7% of
patients with non-Hodgkin’s lymphoma [15]. In our patient,
the combination of bicytopenia, hypercalcemia, diffuse lym-
phadenopathy, and massive splenomegaly favored a diagnosis
of lymphoma. Moreover, the patient had no clinical or
radiological evidence of respiratory system involvement to
suggest sarcoidosis as a “likely” diagnosis. g
[ ]
Splenic involvement in sarcoidosis is defined as the
histologic presence of noncaseating granulomas in the spleen. Autopsy studies show that the spleen is the second most
commonly affected organ in sarcoidosis, with the lung
being first [3]. Clinical evidence of splenomegaly is however
uncommon, present only in up to 27% of cases. Moreover, the
occurrence of massive splenomegaly in sarcoidosis is limited
to case reports. Although there is no consensus regarding the
definition of massive splenomegaly, most authors describe
it as when the spleen reaches the pelvis or has crossed
the midline into the right lower or right upper abdominal
quadrants. 3. Discussion Sarcoidosis is a chronic idiopathic granulomatous disease
which can affect all age groups [1]. It has a slight predilection
for women in the third to fifth decades of life. Sarcoidosis
can affect virtually any organ system, with the lungs and
mediastinal lymphatic system being affected in up to 90%
of patients. In this setting, bilateral hilar adenopathy, with
or without interstitial lung disease, is a common finding. 4 Case Reports in Medicine Lymphoma (usually indolent). Lymphoma (usually indolent). recommended and is the only way to establish the diagnosis
[4, 5].h Hairy cell leukemia. The diagnosis of sarcoidosis is based on criteria from the
American Thoracic Society (ATS), the European Respiratory
Society (ERS), and the World Association of Sarcoidosis and
Other Granulomatous Disorders (WASOG) [6]. These crite-
ria include the following: the presence of clinicoradiological
findings suggestive of sarcoidosis, the presence of histological
evidence of noncaseating epithelioid cell granulomas, and
the exclusion of known causes of granulomatous reactions
[5, 6]. In fact, noncaseating granulomas are nonspecific for
sarcoidosis and are associated with some infections (such as
tuberculosis and histoplasmosis), occupational and environ-
mental exposures (such as beryllium), autoimmune disorders
(such as Wegener’s granulomatosis), and malignancy (such as
lymphoma and solid tumors) [1]. Gaucher disease. Beta thalassemia major. Schistosomiasis. Kala-azar (visceral leishmaniasis). Sarcoidosis (rarely). Hyperreactive
malarial
splenomegaly
syndrome
(tropical splenomegaly syndrome). AIDS with mycobacterium avium complex. Splenic vein thrombosis. y
p
Some patients with sarcoidosis are not disabled by the
illness and therefore do not require treatment [4]. In general,
treatment is initiated when impairment of organ function
is imminent. Oral prednisone at a dose of 20 to 40 mg
daily is the recommended regimen. In the case of adequate
response after 1 to 3 months, the prednisone dose should
be tapered to 5 to 15 mg daily, with treatment planned for
at least 6 additional months [4]. Sarcoidosis associated with
massive splenomegaly can be treated with either splenectomy
or corticosteroids, with no clear superiority of one modality
over the other [2, 7]. Splenectomy has not been shown
to alter the course of sarcoid progression. The indications
for splenectomy include intractable abdominal pain from
splenomegaly, functional asplenia, splenic rupture, hema-
tologic abnormalities, massive splenomegaly refractory to
medical therapy, or a strong suspicion of an alternative
diagnosis [8].i Splenic involvement in sarcoidosis is usually asymp-
tomatic, although left upper quadrant pain is occasionally
present. 3. Discussion Other authors define it as when the spleen weights
more than 1000–1500 g or if the largest dimension is greater
than 20 cm (Poulin et al.). The most common etiologies of
massive splenomegaly include hematological disorders (such
as myeloproliferative disease and lymphomas), infectious
diseases (such as visceral leishmaniasis and malaria), and
infiltrative conditions (such as Gaucher disease) [9]. Massive
splenomegaly remains a rare manifestation of sarcoidosis. In fact, in a large review by Fordice et al. of 6074 cases of
sarcoidosis, only 20 patients (3%) had massive splenomegaly
[10]. Differential diagnosis of massive splenomegaly is as
follows: In some cases, the coexistence of “true” sarcoidosis
and lymphoproliferative disease has been reported in the
literature. In most of these cases, sarcoidosis preceded the
diagnosis of lymphoma, but in few other reports, lymphopro-
liferative disease occurred first [16]. This possible association Myelofibrosis (primary or secondary). Chronic myeloid leukemia. 5 Case Reports in Medicine between these two entities led to the so-called “sarcoidosis-
lymphoma syndrome,” first suggested by Brincker in 1989
[17]. Since the diagnosis of sarcoidosis preceded the occur-
rence of the lymphoproliferative disease in most cases, he
suggested that sarcoidosis might be a paraneoplastic syn-
drome [17]. The causal relation between these two entities is
still a subject of speculation. It has been suggested that the
impairment of the immune system in sarcoidosis, in the form
of altered cell reaction and increased mitogenesis of B and T
lymphocytes, can predispose to the development of lymphoid
malignancies [18]. Moreover, the treatment of sarcoidosis
with steroids can further compromise the immune system
and may represent another predisposing factor for lymphoma
development [15]. between these two entities led to the so-called “sarcoidosis-
lymphoma syndrome,” first suggested by Brincker in 1989
[17]. Since the diagnosis of sarcoidosis preceded the occur-
rence of the lymphoproliferative disease in most cases, he
suggested that sarcoidosis might be a paraneoplastic syn-
drome [17]. The causal relation between these two entities is
still a subject of speculation. It has been suggested that the
impairment of the immune system in sarcoidosis, in the form
of altered cell reaction and increased mitogenesis of B and T
lymphocytes, can predispose to the development of lymphoid
malignancies [18]. Moreover, the treatment of sarcoidosis
with steroids can further compromise the immune system
and may represent another predisposing factor for lymphoma
development [15]. [4] M. C. Iannuzzi, B. A. Rybicki, and A. S. The authors declared no conflict of interests. [17] H. Brincker, “Coexistence of sarcoidosis and malignant disease:
causality or coincidence?” Sarcoidosis, vol. 6, no. 1, pp. 31–43,
1989. Consent Informed consent was obtained from the patient for publica-
tion of this case report and any accompanying images. [15] H. Brincker, “Sarcoid reactions in malignant tumours,” Cancer
Treatment Reviews, vol. 13, no. 3, pp. 147–156, 1986. [16] J. London, A. Grados, C. Ferm´e et al., “Sarcoidosis occurring
after lymphoma: report of 14 patients and review of the
literature,” Medicine, vol. 93, no. 21, article e121, 2014. 3. Discussion Teirstein, “Sarcoidosis,”
The New England Journal of Medicine, vol. 357, no. 21, pp. 2108–
2165, 2007. [5] N. Sharma, H. Tariq, K. Uday, Y. Skaradinskiy, M. Niazi, and S. Chilimuri, “Hypercalcemia, anemia, and acute kidney injury: a
rare presentation of sarcoidosis,” Case Reports in Medicine, vol. 2015, Article ID 565243, 6 pages, 2015. [6] American Thoracic Society, “Statement on sarcoidosis: joint
statement of the American Thoracic Society (ATS), the Euro-
pean Respiratory Society (ERS) and the World Association of
Sarcoidosis and Other Granulomatous Disorders (WASOG)
adopted by the ATS Board of Directors and by the ERS
Executive Committee, February 1999,” American Journal of
Respiratory and Critical Care Medicine, vol. 160, no. 2, pp. 736–
755, 1999. p
FDG PET imaging remains an essential modality in the
management of lymphoma. One of many advantages it offers
over conventional imaging is the ability to detect occult
lesions. However, its specificity is limited by multiple false-
positive conditions, including infections, inflammations, and
sarcoidosis [19, 20]. In fact, in the setting of sarcoidosis, PET
imaging has been suggested to monitor disease progression
and response to therapy [21]. Since both sarcoidosis and
lymphoma are FDG avid, PET imaging cannot differentiate
these two conditions, and therefore histological verification
remains mandatory [20, 22]. [7] S. Kawano, J. Kato, N. Kawano et al., “Sarcoidosis manifesting
as cardiac sarcoidosis and massive splenomegaly,” Internal
Medicine, vol. 51, no. 1, pp. 65–69, 2012. [8] O. P. Sharma, V. Vucinic, and D. G. James, “Splenectomy in
sarcoidosis: indications, complications, and long-term follow-
up,” Sarcoidosis Vasculitis and Diffuse Lung Diseases, vol. 19, no. 1, pp. 66–70, 2002. [9] H. L. Paz-Y-Mar, A. Gonzalez-Estrada, and M. C. Alraies,
“Massive splenomegaly,” BMJ Case Reports, vol. 2013, 2013. [10] J. Fordice, T. Katras, R. E. Jackson et al., “Massive splenomegaly
in sarcoidosis,” Southern Medical Journal, vol. 85, no. 7, pp. 775–
778, 1992. [11] R. Palade, D. Voiculescu, E. Suliman, and G. Simion, “Splenic
sarcoidosis—a case report,” Chirurgia, vol. 109, no. 5, pp. 670–
674, 2012. 4. Conclusion This report illustrates an unusual case of sarcoidosis that pre-
sented as bicytopenia, hypercalcemia, diffuse lymphadenopa-
thy, and massive splenomegaly, mimicking lymphoma. Physi-
cians should be aware of this atypical presentation and
accordingly should consider sarcoidosis in their differential
diagnosis, after excluding other worrisome diagnoses, such
as lymphoma. [12] F. Ufuk and D. Herek, “CT of hepatic sarcoidosis: small
nodular lesions simulating metastatic disease,” Polish Journal of
Radiology, vol. 80, pp. 945–954, 2015. [13] D. M. Warshauer and J. K. T. Lee, “Imaging manifestations of
abdominal sarcoidosis,” American Journal of Roentgenology, vol. 182, no. 1, pp. 15–28, 2004. [14] R. A. DeRemee and P. M. Banks, “Non-Hodgkin’s lymphoma
associated with hypercalcemia and increased activity of serum
angiotensin-converting enzyme,” Mayo Clinic Proceedings, vol. 61, no. 9, pp. 714–718, 1986. Conflict of Interests The authors declared no conflict of interests. References [18] H. Brincker, “Coexistence of sarcoidosis and myeloproliferative
disease: a case of sarcoidosis preceding polycythaemia vera with
a literature review,” Journal of Internal Medicine, vol. 225, no. 5,
pp. 355–357, 1989. [1] L. S. Newman, C. S. Rose, and L. A. Maier, “Sarcoidosis,” The
New England Journal of Medicine, vol. 336, no. 17, pp. 1224–1234,
1997. [19] M. E. Juweid and B. D. Cheson, “Role of positron emission
tomography in lymphoma,” Journal of Clinical Oncology, vol. 23,
no. 21, pp. 4577–4580, 2005. [2] Z. Pavlovi´c-Popovi´c, B. Zari´c, Z. Kosjerina, and D. Petrovi´c,
“Splenomegaly in sarcoidosis: frequency, treatment, prognosis
and long-term follow-up,” Srpski Arhiv za Celokupno Lekarstvo,
vol. 143, no. 5-6, pp. 279–283, 2015. [20] T. Acar, R. Savas, K. Kocacelebi, and E. S. Ucan, “Corticosteroid
responsive sarcoidosis with multisystemic involvement years
after initial diagnosis: a lymphoma mimicker on 18-FDG
PET/CT,” Journal of Clinical Imaging Science, vol. 5, article 40,
2015. [3] I. Patel, M. Ismajli, and A. Steuer, “Sarcoidosis presenting as
massive splenic infarction,” Case Reports in Rheumatology, vol. 2012, Article ID 834758, 2 pages, 2012. Case Reports in Medicine 6 [21] H. Zhuang and A. Alavi, “18-Fluorodeoxyglucose positron
emission tomographic imaging in the detection and monitoring
of infection and inflammation,” Seminars in Nuclear Medicine,
vol. 32, no. 1, pp. 47–59, 2002. [22] P. Spagnolo, F. Luppi, P. Roversi, S. Cerri, L. M. Fabbri, and L. Richeldi, “Sarcoidosis: challenging diagnostic aspects of an old
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Tubgcp3 Is Required for Retinal Progenitor Cell Proliferation During Zebrafish Development
|
Frontiers in molecular neuroscience
| 2,019
|
cc-by
| 12,051
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ORIGINAL RESEARCH
published: 24 May 2019
doi: 10.3389/fnmol.2019.00126 Tubgcp3 Is Required for Retinal
Progenitor Cell Proliferation During
Zebrafish Development Guobao Li1,2, Daqing Jin1,2* and Tao P. Zhong1,2* 1 State Key Laboratory of Genetic Engineering, School of Life Sciences, Zhongshan Hospital, Fudan University, Shanghai,
China, 2 Shanghai Key Laboratory of Regulatory Biology, Institute of Molecular Medicine, School of Life Sciences, East China
Normal University, Shanghai, China The centrosomal protein γ-tubulin complex protein 3 (Tubgcp3/GCP3) is required for
the assembly of γ-tubulin small complexes (γ-TuSCs) and γ-tubulin ring complexes
(γ-TuRCs), which play critical roles in mitotic spindle formation during mitosis. However,
its function in vertebrate embryonic development is unknown. Here, we generated the
zebrafish tubgcp3 mutants using the CRISPR/Cas9 system and found that the tubgcp3
mutants exhibited the small eye phenotype. Tubgcp3 is required for the cell cycle
progression of retinal progenitor cells (RPCs), and its depletion caused cell cycle arrest
in the mitotic (M) phase. The M-phase arrested RPCs exhibited aberrant monopolar
spindles and abnormal distributed centrioles and γ-tubulin. Moreover, these RPCs
underwent apoptosis finally. Our study provides the in vivo model for the functional
study of Tubgcp3 and sheds light on the roles of centrosomal γ-tubulin complexes in
vertebrate development. Edited by:
Christian Gonzalez-Billault,
Universidad de Chile, Chile Edited by:
Christian Gonzalez-Billault,
Universidad de Chile, Chile
Reviewed by:
Jaerak Chang,
Ajou University, South Korea
Ann C. Morris,
University of Kentucky, United States
*Correspondence:
Tao P. Zhong
taozhong@fudan.edu.cn;
tzhong@bio.ecnu.edu.cn
Daqing Jin
dqjin@fudan.edu.cn;
dqjin@bio.ecnu.edu.cn Reviewed by:
Jaerak Chang,
Ajou University, South Korea
Ann C. Morris,
University of Kentucky, United States Keywords: γ-TuSC, γ-TuRC, tubgcp3, cell cycle, ciliary marginal zone, zebrafish INTRODUCTION Centrosome, the major microtubule-organizing center (MTOC) in vertebrate cells, provides a
major site for microtubule (MT) nucleation and plays key roles in bipolar spindle assembly during
mitosis (Kellogg et al., 1994). A typical centrosome consists of a pair of centrioles surrounded
by the pericentriolar matrix (PCM) (Bornens, 2002). Many proteins, including γ-tubulin (GCP1),
γ-tubulin complex proteins (GCPs) and a large number of other centrosome-associated proteins,
localize to PCM and are involved in the formation of mitotic spindles. Together with other
GCPs, γ-tubulin forms two distinctly sized complexes: the γ-tubulin small complex (γ-TuSC)
and the γ-tubulin ring complex (γ-TuRC). The γ-TuSC is a heterotetramer consisting of two
copies of γ-tubulin and one copy each of GCP2 and GCP3/Tubgcp3. Seven γ-TuSCs with GCP4,
GCP5, GCP6 and other accessory proteins assemble into the γ-TuRC, which facilitates MT
nucleation by capping the minus ends of MTs and protecting them from depolymerization
(Zheng et al., 1995). Centrosomes have critical roles in brain development, and mutations in
genes encoding for centrosome-associated proteins have been shown to be genetically linked to
neurodevelopmental disorders (Novorol et al., 2013; Chavali et al., 2014; Morris-Rosendahl and
Kaindl, 2015; Buchwalter et al., 2016). Received: 24 December 2018
Accepted: 29 April 2019
Published: 24 May 2019
Citation:
Li G, Jin D and Zhong TP (2019)
Tubgcp3 Is Required for Retinal
Progenitor Cell Proliferation During
Zebrafish Development. Front. Mol. Neurosci. 12:126. doi: 10.3389/fnmol.2019.00126 Received: 24 December 2018
Accepted: 29 April 2019
Published: 24 May 2019 Zebrafish Maintenance Zebrafish (Danio rerio) were maintained and bred under
standard conditions as previously described (Westerfield, 2000). Stages of embryonic development were determined according to
their morphology (Westerfield, 2000). Embryos were treated with
0.003% 1-phenyl-2-thiourea (PTU) in egg water to prevent the
production of pigment. The transgenic line Tg(HuC:GFP) was
used in this study, in which the zebrafish brain is labeled with
green fluorescent protein (GFP) (Park et al., 2000). All animal
experiments were approved by the Institutional Animal Care and
Use Committee, Fudan University. Among vertebrate models, the zebrafish provides many
unique advantages over other rodents for gene functional
study during early embryonic development. For example, owing
to its external fertilization and rapid development, zebrafish
early embryos can be easily visualized and manipulated. In
addition, maternal gene products, synthesized during oogenesis
and supplied to the egg, play essential roles in the earliest
stages of zebrafish embryonic development (Pelegri, 2003). With
disruption of any of the maternal-effect genes, the embryos
continue to develop until the maternal supply is exhausted,
which facilitates the functional study of these genes at relatively
late developmental stages. The zebrafish retina is part of the
central nervous system (CNS), and its neuroanatomy is well
characterized. The ciliary marginal zone (CMZ), a proliferative
region located at the periphery of the retina, provides an
excellent model for the study of neurodevelopment (Novorol
et al., 2013). The retina grows continuously throughout life
and almost all retina neurogenesis comes from CMZ after
the embryogenesis of retina is completed at 60 hpf (Marcus
et al., 1999). The CMZ contains retinal stem cells (RSCs)
and retinal progenitor cells (RPCs), exhibiting a peripheral-to-
central arrangement pattern. The RSCs were located nearest
to the periphery, the proliferative RPCs resided in the middle,
and the post-mitotic RPC cells were positioned at the most
central of the CMZ (Wehman et al., 2005; Cerveny et al.,
2010; Valdivia et al., 2016; Wan et al., 2016). In CMZ, cell
proliferation and differentiation are precisely coordinated for
the growth of zebrafish eyes. Many cell proliferation and Citation: In Saccharomyces cerevisiae, cells overexpressing the
wild-type Spc98p/GCP3 or carrying the temperature-sensitive
allele spc98-1 arrest in mitosis with a defective spindle (Geissler
et al., 1996). The duplication and separation of spindle pole
body (SPB; yeast centrosome) are not affected in these cells. Disruption of gcpC/GCP3 in Aspergillus nidulans results in
absent functional spindles and defective mitosis (Xiong and
Oakley, 2009). In Drosophila mutants for disks-degenerate 4 (dd4,
which encodes GCP3), cells exhibit reduced density of spindle
microtubules and delayed cell cycle progression from mitosis
(Barbosa et al., 2000). Centriole duplication and separation
are defective in some of the dd4 mutant cells. In addition,
γ-tubulin is missing from the spindle poles and becomes
dispersed throughout the cell. Mitotic arrest has been observed
in Hela, T98, and U87MG cell lines after depletion of GCP3
using siRNA (Draberova et al., 2015; Farache et al., 2016; Cota
et al., 2017). However, Mikule et al. (2007) found that cells
harboring wild-type p53 (RPE-1, BJ-1, HME-1, and HCT-116)
arrest in G1 phase in a p53-dependent manner after being
transfected with siRNA against GCP3. Given that U87MG
cells expressing wild-type p53 show mitotic arrest, it remains
unclear which types of cell cycle defects will happen in the
GCP3-deleted cells with wild-type p53 gene. These different cell
cycle defects may occur in a cell type-specific manner as these
studies were carried out using different cell lines. Moreover,
there have been no functional studies of GCP3 in vivo in a
vertebrate system. differentiation-associated genes have been studied using the
zebrafish model (Wehman et al., 2005; Cerveny et al., 2010;
Valdivia et al., 2016). In this study, we explored the in vivo function of tubgcp3 using
the zebrafish model. We found that Tubgcp3 is essential for the
development of zebrafish retina. Knockout of the tubgcp3 gene
resulted in the small eye phenotype exhibiting CMZ defects due
to the abnormal cell cycle progression. Depletion of Tubgcp3 in
RPCs caused mitotic arrest and apoptosis. Our findings reveal
the critical roles of GCP3 in cell cycle progression, providing
insights into the function of its associated complexes, γ-TuSC
and γ-TuRC, in development, and establish a vertebrate model
for further study. Citation: Li G, Jin D and Zhong TP (2019)
Tubgcp3 Is Required for Retinal
Progenitor Cell Proliferation During
Zebrafish Development. Li G, Jin D and Zhong TP (2019)
Tubgcp3 Is Required for Retinal
Progenitor Cell Proliferation During
Zebrafish Development. Front. Mol. Neurosci. 12:126. doi: 10.3389/fnmol.2019.00126 Many studies have shown that γ-TuSC is involved in MT nucleation and mitotic spindle
assembly, and every component of γ-TuSC is indispensable for cell cycle progression May 2019 | Volume 12 | Article 126 1 Frontiers in Molecular Neuroscience | www.frontiersin.org Tubgcp3 in Zebrafish Retinal Development Li et al. (Oakley et al., 1990; Geissler et al., 1996; Knop et al., 1997;
Yuba-Kubo et al., 2005; Xiong and Oakley, 2009; Pouchucq
et al., 2018). In Saccharomyces cerevisiae, cells overexpressing the
wild-type Spc98p/GCP3 or carrying the temperature-sensitive
allele spc98-1 arrest in mitosis with a defective spindle (Geissler
et al., 1996). The duplication and separation of spindle pole
body (SPB; yeast centrosome) are not affected in these cells. Disruption of gcpC/GCP3 in Aspergillus nidulans results in
absent functional spindles and defective mitosis (Xiong and
Oakley, 2009). In Drosophila mutants for disks-degenerate 4 (dd4,
which encodes GCP3), cells exhibit reduced density of spindle
microtubules and delayed cell cycle progression from mitosis
(Barbosa et al., 2000). Centriole duplication and separation
are defective in some of the dd4 mutant cells. In addition,
γ-tubulin is missing from the spindle poles and becomes
dispersed throughout the cell. Mitotic arrest has been observed
in Hela, T98, and U87MG cell lines after depletion of GCP3
using siRNA (Draberova et al., 2015; Farache et al., 2016; Cota
et al., 2017). However, Mikule et al. (2007) found that cells
harboring wild-type p53 (RPE-1, BJ-1, HME-1, and HCT-116)
arrest in G1 phase in a p53-dependent manner after being
transfected with siRNA against GCP3. Given that U87MG
cells expressing wild-type p53 show mitotic arrest, it remains
unclear which types of cell cycle defects will happen in the
GCP3-deleted cells with wild-type p53 gene. These different cell
cycle defects may occur in a cell type-specific manner as these
studies were carried out using different cell lines. Moreover,
there have been no functional studies of GCP3 in vivo in a
vertebrate system. (Oakley et al., 1990; Geissler et al., 1996; Knop et al., 1997;
Yuba-Kubo et al., 2005; Xiong and Oakley, 2009; Pouchucq
et al., 2018). Immunofluorescence and TUNEL Assay Immunofluorescence and TUNEL Assay
Embryos were fixed in 4% paraformaldehyde for 2 h at
room temperature (RT) except for anti-γ-tubulin staining
fixed
in
4%
formalin. Cryosections
were
prepared
as
described in the previous ISH section. Cryosections were
boiled in 0.01 M citric acid (pH 6) for 30 min. After being
washed three times in PBST (0.1% Triton X-100 and 0.1%
Tween 20 in PBS), the sections were incubated in blocking
solution (2% horse serum, 10% FBS, 0.1% Triton X-100,
0.1% Tween 20, 10% DMSO in PBS) for 60 min. The
sections were then incubated with primary antibodies at
4◦C overnight. Primary antibodies used in this study include
rabbit anti-phosphohistone-H3 (Ser-10) (06-570, Millipore;
1:400), mouse anti-BrdU (11170376001, Roche; 1:300), rabbit
anti-γH2AX (Ser-139) antibody (GTX127342, GeneTex; 1:300),
mouse
anti-PCNA
(P8825,
Sigma-Aldrich;
1:200),
mouse
anti-γ-Tubulin
antibody
(T5326,
Sigma-Aldrich;
1:1000),
mouse
anti-α-Tubulin
antibody
(T9026,
Sigma-Aldrich;
1:1000), mouse monoclonal anti-acetylated tubulin (T6793,
Sigma-Aldrich; 1:1000), rabbit polyclonal anti-opsin (AB5404,
Millipore;
1:1000),
mouse
monoclonal
ZPR-1
(ab174435,
Abcam; 1:500) and mouse monoclonal anti-phodopsin 4D2
(ab183359, Abcam; 1:1000). The sections were washed three
times in PBST and incubated with secondary antibodies
at RT for 2 h. Secondary antibodies were goat anti-mouse
Alexa-Fluor-488 (A-11001, Invitrogen; 1:1000), goat anti-mouse
Alexa-Fluor-594 (A-21135,
Invitrogen;
1:1000),
goat
anti-mouse Alexa-Fluor-555 (A-21422, Invitrogen; 1:1000),
goat
anti-rabbit
Alexa-Fluor-488
(A-11034,
Invitrogen;
1:1000)
and
goat
anti-rabbit
Alexa-Fluor-594
(A-11037,
Invitrogen;
1:1000). Sections
were
counterstained
with
4′,6-diamidino-2-phenylindole
(DAPI)
(D3571,
Invitrogen)
when needed. The filamentous actin (F-actin) was stained
with Alexa Fluor 488 phalloidin (A12379, Thermo Fisher;
1:100). For BrdU staining, sections were treated with 2M
HCl for 1 h at RT before being incubated in blocking
solution. For
whole-mount
immunostaining,
the
4%
paraformaldehyde
fixed
embryos
were
permeabilized Generation of tubgcp3 Mutants
by the CRISPR/Cas9 System and
Phenotypic Analysis Disruption
of
tubgcp3
transcript
variant
X1
(GenBank
accession
number
XM_005170995)
was
performed
using
CRISPR/Cas9 technology. Cas9 nuclease target sites were
designed
using
the
ZiFiT
Targeter
online
software. The
target site in the exon 4 was selected and the corresponding
sequence
was
5′-GGTCCTCACAGAGGCTGAGCAGG-3′. Cas9
mRNA
and
guide
RNA
(gRNA)
were
synthesized
using the mMESSAGE mMACHINE T7 Transcription Kit
(AM1344, Invitrogen, United States) and MAXIscript T7
Transcription
Kit
(AM1322,
Invitrogen,
United
States),
respectively. Then, 300 pg Cas9 mRNA and 30 pg gRNA
were co-injected into the one-cell stage zebrafish embryos to
knockout the tubgcp3 gene. The PCR primers for genotyping
were as follows: forward (5′-ATTACGCAGAGGACCAAGA-3′)
and reverse (5′-AAAATAGGATTTCATACAGGAACCCG-3′). The
tubgcp3
mutants
were
identified
at
3
dpf
by
the
developmental
defects
of
the
head
and
the
arch. Heterozygous animals were incrossed to generate embryos
for
experimental
analyses. Homozygous
mutants
were
used
as
the
experimental
group
and
siblings
as
the
control in this study. For morphological measurements, embryos were anesthetized
with
0.16
mg/mL
Tricaine
(A5040,
Sigma-Aldrich)
and
embedded in 3% methylcellulose (M0387, Sigma-Aldrich). Body May 2019 | Volume 12 | Article 126 Frontiers in Molecular Neuroscience | www.frontiersin.org Frontiers in Molecular Neuroscience | www.frontiersin.org 2 Tubgcp3 in Zebrafish Retinal Development Li et al. BrdU Incorporation length was measured laterally in the rostral-caudal axis. Eye size
was measured laterally along the longest diameter of the eye. Brain size was measured by calculating the dorsal area of the
brain using the transgenic line Tg(HuC:GFP) (Park et al., 2000). length was measured laterally in the rostral-caudal axis. Eye size
was measured laterally along the longest diameter of the eye. Brain size was measured by calculating the dorsal area of the
brain using the transgenic line Tg(HuC:GFP) (Park et al., 2000). To examine RPC proliferation, 66 hpf embryos were incubated in
the thymidine analog 5-bromo-2-deoxyuridine (BrdU) (B5002,
Sigma-Aldrich) at 10 mM/1% dimethyl sulfoxide (276855,
Sigma-Aldrich) in embryo medium for 6 h at 28.5◦C. Then, the
embryos were rinsed twice with PBS before being fixed at 72 hpf. To examine RSC proliferation, 4 dpf embryos were incubated
with 3 mM BrdU/1% dimethyl sulfoxide in embryo medium for
24 h before being fixed at 5 dpf. For cartilage staining, 5 dpf embryos were fixed in Bouin’s
solution overnight. The fixed embryos were washed three times
in 70% ethanol/0.1% ammonia, then washed two more times
in 95% ethanol. The embryos were transferred into Alcian
blue solution (80% ethanol/20% glacial acetic acid, 0.1% Alcian
blue) and stained overnight. After staining, the embryos were
gradually rehydrated in a decreasing ethanol series (60%, 40%,
and 20%) and washed twice in phosphate-buffered saline (PBS). The embryos were incubated in 3% hydrogen peroxide/1%
potassium hydroxide until the pigmentation was removed. After
that, the samples were incubated in 0.05% trypsin in 30% sodium
tetraborate until cleared. Then, the embryos were transferred into
70% glycerol for imaging. Semi-Quantitative RT-PCR and Plasmids Semi-Quantitative RT-PCR and Plasmids
Total
RNA
was
extracted
from
whole
embryos
at
the
indicated developmental stages using a TRIZOL reagent. cDNA
synthesis
was
carried
out
using
a
TOYOBO
RT-PCR
kit
(FSQ-301,
TOYOBO,
Japan)
according
to
the manufacturer’s instructions. The expression profile of
tubgcp3 was analyzed using the following primers: tubgcp3
forward
(5′-AGAAGAGATGGCCGAGTGGG-3′)
and
reverse
(5′-CGCCAGACGAGTTCTGAGTA-3′);
β-actin
forward
(5′-CAGCCTTCCTTCCTGGGTAT-3′)
and
reverse
(5′-GCCATACAGAGCAGAAGCCA-3′). cDNA
encoding
full-length γ-tubulin was amplified by PCR and inserted into
pEGFP-N2 (Clontech, United States) using EcoR I and Xho I. cDNA encoding Full-length, N-terminal (Tubgcp3 1–551 aa)
and C-terminal (Tubgcp3 552–906 aa) Tubgcp3 were amplified
by PCR and cloned into pCMV-Myc (Clontech, United States)
using EcoRI and BamHI. HE Staining For Hematoxylin and Eosin (HE) staining, embryos were
dehydrated using a graded ethanol series (50, 70, 90, 95, and
100%) before being transferred to xylene. Then, the embryos were
embedded in paraffin wax and sectioned at 5 µm using a Leica
Cryostat (Leica RM2235, Leica). HE staining was performed
according to standard protocols. RESULTS For immunoprecipitation, HEK293T cells were co-transfected
with GFP-tagged zebrafish γ-tubulin and Myc-tagged zebrafish
Tubgcp3 constructs using Lipofectamine 2000 Transfection
Reagent (Invitrogen). After 48 h, transfected cells were lysed
with lysis buffer (50 mM HEPES, pH 7.5, 150 mM NaCl, 1 mM
MgCl2, 1 mM EGTA, 0.5% NP-40, protease inhibitor cocktail
(04693132001, Roche)) and incubated on ice for 10 min. The
lysate was obtained by centrifugation at 16,000 × g for 15 min at
4◦C. The supernatants were incubated with anti-Myc antibody
and protein A-Sepharose (GE Healthcare) at 4◦C for 4 h. Then
the precipitants were washed three times with lysis buffer before
being boiled in SDS loading buffer for immunoblot. Zebrafish
embryos (5 dpf) were collected, washed and homogenized in
RIPA lysis buffer (P0013B, Beyotime Biotechnology, China)
containing protease inhibitor cocktail (04693132001, Roche). The following primary antibodies were used: rabbit anti-Myc
(A5598, Sigma-Aldrich; 1:1000), rabbit anti-GFP (50430-2-AP,
ProteinTech;
1:2000),
rabbit
anti-TUBGCP3
(15719-1-AP,
ProteinTech; 1:1000), mouse anti-β-Actin (CW0264M, CWBIO;
1:2000) and rabbit anti-β-Actin (GTX124388, GeneTex; 1:5000). The Expression Pattern of Zebrafish
tubgcp3 During Early Development
To
analyze
the
roles
of
tubgcp3
during
zebrafish
early
development, we first examined the expression pattern of tubgcp3
by RT-PCR (Figure 1A) and whole-mount in situ hybridization
(WISH) (Figures 1B–J). The RT-PCR analyses showed tubgcp3
transcripts were maternally deposited and continually expressed
from 2-cell stage to 5 days post fertilization (dpf) during early
embryonic development (Figure 1A). The expression of tubgcp3
mRNA first decreased and then increased from 2-cell stage
to 24 hpf, indicating the degradation of maternally deposited
tubgcp3 transcripts and the activation of zygotic transcripts
during the maternal-to-zygotic transition (MZT). Consistent
with RT-PCR results, WISH analyses showed that tubgcp3 mRNA
was detected at all developmental stages from cleavage stage to
3 dpf compared with the control group (Figures 1B–J,N,O). Furthermore, we found that the expression of tubgcp3 was
enriched in the head and eye as well as weak expression in
other tissues of the embryos from 1 to 3 dpf (Figures 1B–J). To further characterize its expression in zebrafish retina, in situ
hybridization (ISH) was performed on cryosections of the
embryo eyes. In comparison with the sense probe as the control
(Figure 1P), tubgcp3 was expressed throughout the retina with a
gradual enrichment at CMZ (Figures 1K–M). We also detected
the expression of tubgcp2 and γ-tubulin, which encodes another
two subunits of γTuSC. Their expression was similar to that
of tubgcp3 (Supplementary Figures S1A–H). In situ Hybridization Analyses In situ hybridization was performed on 10 µm cryosections
of zebrafish eyes. Briefly, zebrafish embryos were fixed in 4%
paraformaldehyde overnight at 4◦C. The next day, the fixed
embryos were washed three times with PBS and dehydrated
in 30% sucrose. Then, the embryos were embedded in OCT
(Invitrogen) before being sectioned at 10 µm with a Leica
cryostat (Leica CM1860, Leica Microsystems, Germany). For
whole-mount in situ hybridization, the steps were performed as
previously described (Thisse and Thisse, 2008). To generate in situ probes, PCR products of γ-tubulin,
tubgcp2, tubgcp3, pcna, vsx2, col15a1b, ccnd1, atoh7, and
cdkn1c
were
amplified
from
cDNA
and
subcloned
into
pGEM-T Easy vector (A1360, Promega). Probe plasmids
were digested with restriction enzyme to make DNA templates. Digoxigenin-labeled RNA probes were generated by in vitro
transcription using the MAXIscript SP6/T7 Transcription
Kit
(AM1322,
Invitrogen). In
situ
hybridization
signals
were detected by using NBT/BCIP (11681451001, Roche)
for
sections
and
BM-Purple
(11442074001,
Roche)
for
whole-mount embryos. May 2019 | Volume 12 | Article 126 Frontiers in Molecular Neuroscience | www.frontiersin.org 3 Tubgcp3 in Zebrafish Retinal Development Li et al. Li et al. by
proteinase
K
digestion
before
being
incubated
in
blocking solution. region including ∼400 µm of the tails. Statistical analyses were
performed with unpaired Student’s t-test using GraphPad Prism
software. A P-value < 0.05 was considered statistically significant
(∗P < 0.05, ∗∗P < 0.01). Data are expressed as mean + SEM. To detect cell death, a TUNEL assay was performed on
sections using the In Situ Cell Death Detection Kit (Roche)
according to the manufactures’ instruction. RESULTS In addition, the
expression of pcna, a proliferation marker, was confined in the
CMZ from 3 to 5 dpf (Supplementary Figures S1I–L). These data
indicate that tubgcp3 may have a role in cell proliferation during
zebrafish retinal development. Generation of Zebrafish tubgcp3
Mutants and Morphological Analysis The
images
of
in
situ
hybridization,
HE
staining
and
SA-β-gal assay were captured using a Nikon ECLIPSE Ni
microscope (Nikon) or Olympus microscope (IX83, Olympus). Immunostaining images were acquired using a Zeiss Axio
Observer.Z1
microscope
(Zeiss)
or
Nikon
A1
confocal
microscope (Nikon). Bright-field images of whole mount
zebrafish embryos were taken using a Leica microscope
(Leica M205FA, Leica). p
g
y
To investigate the roles of tubgcp3 during zebrafish embryonic
development, we established tubgcp3 knockout zebrafish lines
using the CRISPR/Cas9 system. The CRISPR/Cas9 target site
was designed in the exon 4 of the tubgcp3 gene. Finally, two
mutant alleles with 5-base pair (bp) deletion and 11-bp insertion
were identified (Figure 2A and data not shown). Since the
two mutant lines exhibited the same phenotypes, we used the
5-bp deletion line for further research. The 5-bp deletion was
predicted to lead to a premature termination in Tubgcp3 protein
translation and yield a 99-amino acid (aa)-truncated Tubgcp3
protein absent of the two conversed GRIP domains (Figure 2B). tubgcp3 transcripts were detected in the tubgcp3 mutant retina
(Supplementary Figure S2A), which suggested that the mutated
tubgcp3 mRNA escaped non-sense-mediated mRNA decay Senescence-Associated β-Galactosidase
(SA-β-gal) Assay To
detect
cellular
senescence,
β-galactosidase
assay
was
performed using the Senescence Cells Histochemical Staining
Kit (CS0030, Sigma-Aldrich). Zebrafish embryos (5 dpf) were
fixed in 0.2% glutaraldehyde at RT for 2 h. The fixed embryos
were washed three times in PBS before being embedded
in OCT (Invitrogen). Then, the embryos were sectioned at
10 µm for the assay. Statistical Analyses To calculate cell proliferation and cell death in zebrafish retina,
sections of the most central portion of the retina were selected
for the analysis. The cell number was manually counted using
ImageJ software within a defined region in the nasal part of
the retina including the nasal CMZ (140 µm × 100 µm). Proliferating cells in embryo tails was counted within a defined May 2019 | Volume 12 | Article 126 Frontiers in Molecular Neuroscience | www.frontiersin.org 4 Tubgcp3 in Zebrafish Retinal Development Li et al. FIGURE 1 | Expression of tubgcp3 during zebrafish early development. (A) Semi-quantitative RT-PCR analyses showing the expression of zebrafish
tubgcp3 from 2-cell stage to 5 days post-fertilization (dpf). β-actin was used
as the internal control. (B–D) Whole-mount in situ hybridization (WISH)
displaying ubiquitous expression of tubgcp3 at the two-cell stage (B),
50%-epiboly (C) and 8-somite stage (8 s) (D). (E–J) From 1 to 3 dpf, the
expression of tubgcp3 becomes concentrated at the head. (K–M) In situ
hybridization (ISH) of zebrafish retinal cryosections exhibit the expression of
tubgcp3 throughout the whole retina at 1 dpf (K). From 3 dpf, its expression is
enriched at the ciliary marginal zone (CMZ) (L,M). (N–P) No positive staining is
detected with the sense probe. Arrows indicate the CMZ of the retina. Scale
bars: 200 µm (B–J,N,O); 50 µm (K–M,P). FIGURE 1 | Expression of tubgcp3 during zebrafish early development. (A) Semi-quantitative RT-PCR analyses showing the expression of zebrafish
tubgcp3 from 2-cell stage to 5 days post-fertilization (dpf). β-actin was used
as the internal control. (B–D) Whole-mount in situ hybridization (WISH)
displaying ubiquitous expression of tubgcp3 at the two-cell stage (B),
50%-epiboly (C) and 8-somite stage (8 s) (D). (E–J) From 1 to 3 dpf, the
expression of tubgcp3 becomes concentrated at the head. (K–M) In situ
hybridization (ISH) of zebrafish retinal cryosections exhibit the expression of
tubgcp3 throughout the whole retina at 1 dpf (K). From 3 dpf, its expression is
enriched at the ciliary marginal zone (CMZ) (L,M). (N–P) No positive staining is
detected with the sense probe. Arrows indicate the CMZ of the retina. Scale
bars: 200 µm (B–J,N,O); 50 µm (K–M,P). phenotype with reduced brain and eye size (Figures 2D,F). We determined the small brain phenotype using transgenic
Tg(HuC:GFP), in which GFP expression is controlled by the
promoter of neuronal gene HuC (Park et al., 2000). The tubgcp3 Mutants Exhibit Abnormal
CMZ In order to investigate the eye defects in tubgcp3 mutants in
detail, we performed Hematoxylin and Eosin (HE) staining
on transverse eye paraffin sections. The tubgcp3 mutant retina
showed defective CMZ with disorderly cells when compared
to wild-type siblings at 3 dpf (Figures 3A,B,E,F). Notably,
these abnormal cells disappeared from the CMZ at 5 dpf
(Figures 3C,D,G,H). However, the laminar structure of central
retina appeared normal in tubgcp3 mutants at 3 dpf and 5 dpf
(Figures 3I–L), including the ganglion cell layer (GCL), inner
plexiform layer (IPL), inner nuclear layer (INL), outer plexiform
layer (OPL), outer nuclear layer (ONL) and retinal pigment
epithelium (RPE). p
Ciliary marginal zone is responsible for adding new neurons
to the continuously growing retina in zebrafish larvae, which
consists of retinal stem cells (RSCs) and retinal progenitor
cells (RPCs) (Wehman et al., 2005; Cerveny et al., 2010;
Valdivia et al., 2016; Wan et al., 2016). vsx2 encodes a
homeodomain transcription factor, which is expressed in CMZ
cells, Müller glia and a subpopulation of bipolar cells (Vitorino
et al., 2009). The expression region of vsx2 was reduced
in tubgcp3 mutant CMZ from 3 to 5 dpf (Figures 4A–D),
which was consistent with the development defects detected
by HE staining (Figures 3E–H). col15a1b expressed at the
most periphery of CMZ, where it was considered to be a
stem-cell niche (the location of RSCs) (Pujic et al., 2006;
Cerveny et al., 2010; Gonzalez-Nunez et al., 2010; Valdivia
et al., 2016). Its expression seems to be unaffected in the
tubgcp3 mutants (Supplementary Figure S4A). ccnd1, a marker
for proliferating cells, encodes Cyclin D1 (CCND1) which is
required for G1-S transition (Cerveny et al., 2010; Valdivia et al.,
2016). The expression of ccnd1 was significantly reduced in
tubgcp3 mutant CMZ (Figures 4E–H). atoh7 encodes ATH5, a
member of bHLH transcription factor, and is involved in the
differentiation of ganglion cells (Masai et al., 2000; Cerveny
et al., 2010; Valdivia et al., 2016). cdkn1c encodes the p57cip/kip,
a cyclin-dependent kinase inhibitor, which is required for
many retinal cells to exit from the cell cycle before their FIGURE 1 | Expression of tubgcp3 during zebrafish early development. (A) Semi-quantitative RT-PCR analyses showing the expression of zebrafish
tubgcp3 from 2-cell stage to 5 days post-fertilization (dpf). β-actin was used
as the internal control. Frontiers in Molecular Neuroscience | www.frontiersin.org Statistical Analyses We found
that the brain size was reduced about 10% in the tubgcp3
mutants compared to the wild-type siblings at 3 dpf (Figure 2G). The brain size reduction in tubgcp3 mutants became more
significant (about 24% reduction) when measured at 5 dpf
(Figure 2G). Notably, the eyes became smaller in the tubgcp3
mutants when compared with wild-type siblings from 3 dpf
to 5 dpf (Figures 2E,F). Other defects including dorsal tail
curvature (Figure 2D), uninflated swim bladder (Figure 2D),
body length reduction (Supplementary Figure S3A) and jaw
malformation (Supplementary Figure S3B) were also visible in
tubgcp3 mutants. The developmental defects were gradually more
serious, and the mutants died around 10–14 dpf. The tubgcp3 Mutants Exhibit Abnormal
CMZ (B–D) Whole-mount in situ hybridization (WISH)
displaying ubiquitous expression of tubgcp3 at the two-cell stage (B),
50%-epiboly (C) and 8-somite stage (8 s) (D). (E–J) From 1 to 3 dpf, the
expression of tubgcp3 becomes concentrated at the head. (K–M) In situ
hybridization (ISH) of zebrafish retinal cryosections exhibit the expression of
tubgcp3 throughout the whole retina at 1 dpf (K). From 3 dpf, its expression is
enriched at the ciliary marginal zone (CMZ) (L,M). (N–P) No positive staining is
detected with the sense probe. Arrows indicate the CMZ of the retina. Scale
bars: 200 µm (B–J,N,O); 50 µm (K–M,P). FIGURE 1 | Expression of tubgcp3 during zebrafish early development. (A) Semi-quantitative RT-PCR analyses showing the expression of zebrafish
tubgcp3 from 2-cell stage to 5 days post-fertilization (dpf). β-actin was used
as the internal control. (B–D) Whole-mount in situ hybridization (WISH)
displaying ubiquitous expression of tubgcp3 at the two-cell stage (B),
50%-epiboly (C) and 8-somite stage (8 s) (D). (E–J) From 1 to 3 dpf, the
expression of tubgcp3 becomes concentrated at the head. (K–M) In situ
hybridization (ISH) of zebrafish retinal cryosections exhibit the expression of
tubgcp3 throughout the whole retina at 1 dpf (K). From 3 dpf, its expression is
enriched at the ciliary marginal zone (CMZ) (L,M). (N–P) No positive staining is
detected with the sense probe. Arrows indicate the CMZ of the retina. Scale
bars: 200 µm (B–J,N,O); 50 µm (K–M,P). (NMD). In addition, sequencing analyses confirmed that the 5-bp
deletion transcripts existed in tubgcp3 mutants (Supplementary
Figure S2B). Furthermore, the full-length Tubgcp3 protein
was significantly decreased in mutant embryos (Figure 2C). The residual full-length Tubgcp3 in tubgcp3 mutants maybe
attributed to the maternal supplied Tubgcp3 that was unusually
stable in its associated complexes or depleted at a very low rate in
embryos. All these results indicate a loss-of-function mutation in
tubgcp3 gene. The tubgcp3 mutant embryos were indistinguishable from
their wild-type siblings before 2 dpf. From 3 to 5 dpf, the
mutants exhibited a progressed MCPH (microcephaly)-like May 2019 | Volume 12 | Article 126 Frontiers in Molecular Neuroscience | www.frontiersin.org 5 Li et al. Tubgcp3 in Zebrafish Retinal Development FIGURE 2 | CRISPR/Cas9-mediated tubgcp3 knockout results in zebrafish developmental defects. (A) Sanger sequencing displaying a 5-base pair (bp) deletion in
tubgcp3 gene in the zebrafish mutants. The black box indicates the deletion. The tubgcp3 Mutants Exhibit Abnormal
CMZ The expression of atoh7 and cdkn1c was significantly reduced
in tubgcp3 mutant CMZ at 3 dpf and almost disappeared at
5 dpf (Figures 4I–P). These results reveal that the tubgcp3
mutants suffer from a significant reduction in proliferating and
differentiating in CMZ cells. The tubgcp3 Mutants Exhibit Abnormal
CMZ (B) Predicted structure and amino acid sequence of the wild-type and the mutant
alleles of Tubgcp3. The 5-bp deletion in tubgcp3 gene was predicted to generate a 99 amino acid (aa)-truncated Tubgcp3 protein without the GRIP1 domain (green
box) and GRIP2 domain (purple box). (C) Western blotting analysis showing Tubgcp3 protein decreased in tubgcp3 mutant embryos at 5 dpf. (D) Whole-mount
lateral views of the tubgcp3 mutant and sibling embryos at the indicated developmental stages. (E) Higher magnification of the lateral and dorsal views of zebrafish
heads from siblings and tubgcp3 mutants at 3 and 5 dpf. The brain size is measured based on the fluorescent area in the head of Tg(HuC:GFP). Red dotted lines
indicate the brain area of the embryos used for analysis. (F,G) Scatter plot of eye and head size from wild-type siblings and tubgcp3 mutants at 3 and 5 dpf. Data are
from 29 embryos for each group. Student’s t-test: ∗∗P < 0.01. Scale bars: 1 mm (D); 200 µm (E). FIGURE 2 | CRISPR/Cas9-mediated tubgcp3 knockout results in zebrafish developmental defects. (A) Sanger sequencing displaying a 5-base pair (bp) deletion in
tubgcp3 gene in the zebrafish mutants. The black box indicates the deletion. (B) Predicted structure and amino acid sequence of the wild-type and the mutant
alleles of Tubgcp3. The 5-bp deletion in tubgcp3 gene was predicted to generate a 99 amino acid (aa)-truncated Tubgcp3 protein without the GRIP1 domain (green
box) and GRIP2 domain (purple box). (C) Western blotting analysis showing Tubgcp3 protein decreased in tubgcp3 mutant embryos at 5 dpf. (D) Whole-mount
lateral views of the tubgcp3 mutant and sibling embryos at the indicated developmental stages. (E) Higher magnification of the lateral and dorsal views of zebrafish
heads from siblings and tubgcp3 mutants at 3 and 5 dpf. The brain size is measured based on the fluorescent area in the head of Tg(HuC:GFP). Red dotted lines
indicate the brain area of the embryos used for analysis. (F,G) Scatter plot of eye and head size from wild-type siblings and tubgcp3 mutants at 3 and 5 dpf. Data are
from 29 embryos for each group. Student’s t-test: ∗∗P < 0.01. Scale bars: 1 mm (D); 200 µm (E). and structures are unaffected in the central reitna of the
tubgcp3 mutants. further differentiation (Ohnuma et al., 1999; Shkumatava and
Neumann, 2005; Cerveny et al., 2010; Valdivia et al., 2016). Loss of Tubgcp3 in CMZ Cells Causes
M-Phase Arrest However, these cells were still
PH3+ after the 6 h BrdU treatment, which indicates that they
were still in the mitotic (M) phase. Since G2 and M phase
are shorter than 6 h, the results suggest that these RPCs were
arrested in M-phase. Moreover, there were also more BrdU+
PH3+ cells in the tubgcp3 mutants than in wild-type siblings
(Figures 5E,F,G), suggesting that some of the cycling RPCs
were arrested in M-phase after they passed the S phase. When
whole-mount immunostaining was carried out under the same
BrdU treatment condition, we observed similar results that a
large number of PH3+ BrdU- cells existed in the tubgcp3 mutant
tails while they absent in wild-type siblings (Supplementary Figures S5A,B). These results suggest that Tubgcp3 is required
for RPCs to go through mitosis. Given the mitotic arrested cells detected in the tubgcp3 mutant
retinae, we analyzed the spindle formation by immunostaining
using anti-α-tubulin and anti-PH3 antibodies. In wild-type
siblings, bipolar mitotic spindles were formed in mitotic cells
(Figures 5J,L). In contrast, abnormal monopolar spindles were
observed in the mitotic arrested cells in tubgcp3 mutant retina
(Figures 5K,M,N). The microtubules arrayed radially in the
center and the condensed chromosomes located at the periphery
in these cells (Figures 5I,K,M). These results suggest that
depletion of Tubgcp3 causes a defect in mitotic spindle formation
in RPCs, resulting in mitotic arrest in these cells. Loss of Tubgcp3 in CMZ Cells Causes
M-Phase Arrest Given the reduction of cell proliferation and differentiation in the
tubgcp3 mutant CMZ (Figures 4E–P), we first examined whether
cell cycle progression was defective in mutant retinae using BrdU
incorporation as an S phase marker and Phospho-Histone H3
(PH3) as a mitotic marker. Considering the length of the cell cycle
in the CMZ at early larval stages is about 6 to 8 h (Li et al., 2000;
Wehman et al., 2007), zebrafish embryos were incubated with
BrdU from 66 to 72 hpf and then subjected to section and cell
cycle analysis. Cycling RPCs would be labeled by BrdU except
those that had passed S phase and would exit cell cycle and
undergo differentiation. In addition, different retinal cell types, including Müller glia
cells (expressing vsx2) (Figures 4A–D), a subset of bipolar
cells (expressing vsx2) (Figures 4A–D), cones (labeled with
anti-ZPR1 for double cone photoreceptors and anti-M-opsin
for cone outer segments) (Figures 4Q–T and Supplementary
Figure S4B) and rods (labeled with anti-4D2 for rod outer
segments) (Supplementary Figure S4B), appeared normal in
the tubgcp3 mutants. Moreover, cilia in photoreceptor cells
(labeled with anti-acetylated α-tubulin) and retinal laminar
structures, including the inner segment, inter plexiform layer
(IPL), the outer limiting membrane (OLM) and the outer
plexiform layer (OPL) (labeled with phalloidin) (Supplementary
Figure S4B and data not shown), were also normal in tubgcp3
mutants. These results suggest that these differentiated cells We compared expression patterns of BrdU and PH3 between
the tubgcp3 mutants and wild-type siblings. In wild-type siblings,
the entire CMZ was labeled with BrdU with about three PH3+
cells scattered along the CMZ (Figures 5A,C,E,G). In the tubgcp3 May 2019 | Volume 12 | Article 126 Frontiers in Molecular Neuroscience | www.frontiersin.org 6 Li et al. Tubgcp3 in Zebrafish Retinal Development FIGURE 3 | The tubgcp3 mutants exhibit developmental defects in the CMZ of the retina. (A–D) Hematoxylin and Eosin (HE) staining displaying significant defects in
the CMZ of the tubgcp3 mutant retinae at 3 dpf and 5 dpf. (E–H) Higher-magnification images of the CMZ in blue dotted rectangles in (A–D). (I–L)
Higher-magnification image of the orange dotted rectangles in (A–D). The tubgcp3 mutants exhibit normal retinal laminar structures in the central retina. GCL,
ganglion cell layer; IPL, inner plexiform layer; INL, inner nuclear layer; OPL, outer plexiform layer; ONL, outer nuclear layer; RPE, retinal pigment epithelium. Scale
bars: 100 µm (A–D); 20 µm (E–L). Loss of Tubgcp3 in CMZ Cells Causes
M-Phase Arrest FIGURE 3 | The tubgcp3 mutants exhibit developmental defects in the CMZ of the retina. (A–D) Hematoxylin and Eosin (HE) staining displaying significant defects in
the CMZ of the tubgcp3 mutant retinae at 3 dpf and 5 dpf. (E–H) Higher-magnification images of the CMZ in blue dotted rectangles in (A–D). (I–L)
Higher-magnification image of the orange dotted rectangles in (A–D). The tubgcp3 mutants exhibit normal retinal laminar structures in the central retina. GCL,
ganglion cell layer; IPL, inner plexiform layer; INL, inner nuclear layer; OPL, outer plexiform layer; ONL, outer nuclear layer; RPE, retinal pigment epithelium. Scale
bars: 100 µm (A–D); 20 µm (E–L). mutants, there was a significantly increased number of PH3+
cells in CMZ and its adjacent regions (Figures 5B,F,G). We
noticed that a portion of these PH3+ cells were BrdU negative
(Figure 5F). In contrast, there were no PH3+ BrdU- cells in
wild-type siblings (Figure 5E). In addition, BrdU+ cells were
significantly reduced in mutant CMZ (Figures 5D,F,G). The
PH3+ BrdU- cells in tubgcp3 mutants had passed S phase when
we performed BrdU treatment, and they then went into mitosis
as they were stained by PH3. However, these cells were still
PH3+ after the 6 h BrdU treatment, which indicates that they
were still in the mitotic (M) phase. Since G2 and M phase
are shorter than 6 h, the results suggest that these RPCs were
arrested in M-phase. Moreover, there were also more BrdU+
PH3+ cells in the tubgcp3 mutants than in wild-type siblings
(Figures 5E,F,G), suggesting that some of the cycling RPCs
were arrested in M-phase after they passed the S phase. When
whole-mount immunostaining was carried out under the same
BrdU treatment condition, we observed similar results that a
large number of PH3+ BrdU- cells existed in the tubgcp3 mutant
tails while they absent in wild-type siblings (Supplementary mutants, there was a significantly increased number of PH3+
cells in CMZ and its adjacent regions (Figures 5B,F,G). We
noticed that a portion of these PH3+ cells were BrdU negative
(Figure 5F). In contrast, there were no PH3+ BrdU- cells in
wild-type siblings (Figure 5E). In addition, BrdU+ cells were
significantly reduced in mutant CMZ (Figures 5D,F,G). The
PH3+ BrdU- cells in tubgcp3 mutants had passed S phase when
we performed BrdU treatment, and they then went into mitosis
as they were stained by PH3. Frontiers in Molecular Neuroscience | www.frontiersin.org Tubgcp3 Deficiency Impairs
Centrioles Distribution Since centriole duplication and segregation are essential for
bipolar spindle formation during mitosis, we examined whether
these processes were affected in the tubgcp3 mutant retinal cells May 2019 | Volume 12 | Article 126 Frontiers in Molecular Neuroscience | www.frontiersin.org Frontiers in Molecular Neuroscience | www.frontiersin.org 7 Li et al. Tubgcp3 in Zebrafish Retinal Development FIGURE 4 | The tubgcp3 mutant embryos exhibit decreased expression of proliferation and differentiation markers in CMZ cells. (A–D) ISH analyses show that the
expression of vsx2 is normal in the central retina but significantly reduced in the CMZ in tubgcp3 mutant retinae at 3 dpf and 5 dpf. (E–H) ISH analyses exhibit that
ccnd1 is highly expressed in wild-type sibling CMZ (M,O) but clearly reduced in tubgcp3 mutant CMZ (N,P) at 3 dpf and 5 dpf. (I–P) atoh7 and cdkn1c (associated
with retinal cell differentiation) are expressed in the central CMZ of wild-type sibling retina but significantly reduced in tubgcp3 mutant CMZ at 3 dpf and almost
disappeared at 5 dpf. (Q–T) Immunostaining analyses displaying normal ZPR-1 staining (green/red double cone photoreceptors marker) in the central area of the
tubgcp3 mutant retina. Arrows indicate the CMZ of the retina. Scale bars: 100 µm (A–T). FIGURE 4 | The tubgcp3 mutant embryos exhibit decreased expression of proliferation and differentiation markers in CMZ cells. (A–D) ISH analyses show that the
expression of vsx2 is normal in the central retina but significantly reduced in the CMZ in tubgcp3 mutant retinae at 3 dpf and 5 dpf. (E–H) ISH analyses exhibit that
ccnd1 is highly expressed in wild-type sibling CMZ (M,O) but clearly reduced in tubgcp3 mutant CMZ (N,P) at 3 dpf and 5 dpf. (I–P) atoh7 and cdkn1c (associated
with retinal cell differentiation) are expressed in the central CMZ of wild-type sibling retina but significantly reduced in tubgcp3 mutant CMZ at 3 dpf and almost
disappeared at 5 dpf. (Q–T) Immunostaining analyses displaying normal ZPR-1 staining (green/red double cone photoreceptors marker) in the central area of the
tubgcp3 mutant retina. Arrows indicate the CMZ of the retina. Scale bars: 100 µm (A–T). distribution of γ-tubulin was affected after Tubgcp3 depletion. Our immunostaining results showed that γ-tubulin located
at each spindle pole during mitosis in wild-type siblings
(Figure 5R). In contrast, the distribution of γ-tubulin was
abnormal in the mitotic arrested RPCs in tubgcp3 mutants. Frontiers in Molecular Neuroscience | www.frontiersin.org Tubgcp3 Deficiency Impairs
Centrioles Distribution Most of the arrested cells that displayed γ-tubulin focus in
the center of the cells (Figure 5S). Others showed scattered
γ-tubulin staining patterns (Figure 5T). In order to test whether
the interaction between Tubgcp3 and γ-tubulin is conserved in
zebrafish, we performed co-Immunoprecipitation (co-IP) assays
using HEK293 cells by co-transfecting Myc-tagged zebrafish
Tubgcp3 and GFP-tagged zebrafish γ-tubulin. Co-IP assays
showed that Tubgcp3 binds to γ-tubulin through its C-terminal
domain, which is consistent with previous studies (Figure 5V). using anti-centrin (a marker for centriole) and anti-PH3. In
wild-type siblings, the mitotic cells had a pair of centrioles (two
centrioles per centrosome) at each spindle pole (Figure 5O). In
the tubgcp3 mutants, the M-phase arrested cells had four centriole
dots like the wild-type siblings (Figures 5P,Q). However, the
distribution of centrioles was abnormal. They were located at
the center of the cell (Figure 5P) or randomly scattered in the
cell (Figure 5Q). These data suggest that the centrioles duplicate
normally but fail to separate correctly in mitotic arrested RPCs in
the tubgcp3 mutants. Previous work has reported that Tubgcp3 interacts with
γ-tubulin to form γ-TuRC complexes, which are located at
the centrosome during mitosis (Pereira et al., 1998; Kollman
et al., 2010; Figure 5U). We next detected whether the May 2019 | Volume 12 | Article 126 Frontiers in Molecular Neuroscience | www.frontiersin.org 8 Li et al. Tubgcp3 in Zebrafish Retinal Development FIGURE 5 | The tubgcp3 mutant CMZ cells arrest in M-phase showing monopolar spindles and abnormal distributed centrioles and γ-tubulin. (A–F) Immunostaining
nalysis of cell proliferation in zebrafish retina at 3 dpf using DNA replication marker (BrdU, red) and mitotic marker (PH3, green). Embryos are incubated with BrdU
or 6 h before being collected at 72 hpf for the analysis. Almost all cells in wild-type sibling CMZ are BrdU+ with several PH3+ cells among them (A,C,E). In the
(Continued IGURE 5 | The tubgcp3 mutant CMZ cells arrest in M-phase showing monopolar spindles and abnormal distributed centrioles and γ-tubulin. (A–F) Immunostaining
nalysis of cell proliferation in zebrafish retina at 3 dpf using DNA replication marker (BrdU, red) and mitotic marker (PH3, green). Embryos are incubated with BrdU
or 6 h before being collected at 72 hpf for the analysis. Almost all cells in wild-type sibling CMZ are BrdU+ with several PH3+ cells among them (A,C,E). DISCUSSION In this study, we generated the zebrafish tubgcp3 mutant and
investigated the function of tubgcp3 in eye development. Our
data reveal that Tubgcp3 plays important roles in cell cycle
progression in the CMZ of the retina. Depletion of Tubgcp3 in
RPCs results in monopolar spindle formation and impairs the
distribution of centrioles and γ-tubulin, causing M-phase arrest
and further apoptosis. In addition, depletion of Tubgcp3 results
in cell proliferation defects and senescence at the peripheral
CMZ. These defects led to the small eye phenotype in the tubgcp3
mutants. To our knowledge, this is the first in vivo model for
the functional study of Tubgcp3. Our findings also provide some
clues for studying the roles of its associated complexes, γ-TuSC
and γ-TuRC, in vertebrate development. In this study, we generated the zebrafish tubgcp3 mutant and
investigated the function of tubgcp3 in eye development. Our
data reveal that Tubgcp3 plays important roles in cell cycle
progression in the CMZ of the retina. Depletion of Tubgcp3 in
RPCs results in monopolar spindle formation and impairs the
distribution of centrioles and γ-tubulin, causing M-phase arrest
and further apoptosis. In addition, depletion of Tubgcp3 results
in cell proliferation defects and senescence at the peripheral
CMZ. These defects led to the small eye phenotype in the tubgcp3
mutants. To our knowledge, this is the first in vivo model for
the functional study of Tubgcp3. Our findings also provide some
clues for studying the roles of its associated complexes, γ-TuSC
and γ-TuRC, in vertebrate development. g
In addition, RSCs [marked by col15a1b (Pujic et al., 2006;
Cerveny et al., 2010; Gonzalez-Nunez et al., 2010; Valdivia et al.,
2016)] still could be detected at the most peripheral CMZ (close
to the lens) in the tubgcp3 mutant retina at 5 dpf (Supplementary
Figure S4A). Apoptosis signal was also absent in this region at
3 dpf (Figures 6H,Q) and 5 dpf (Supplementary Figure S6). We next want to detect cell proliferation at the peripheral CMZ. Embryos were incubated with BrdU for 24 h before being fixed at
5 dpf for the assay. In this region, BrdU+ cells were significantly
decreased in the tubgcp3 mutants compared to wild-type siblings
(Figures 6S–T”,Y). As the proliferation of RSCs occurs at the
peripheral CMZ, we speculated that RSC proliferation might
be affected in the tubgcp3 mutant CMZ. Tubgcp3 Deficiency Impairs
Centrioles Distribution In the
(Continued) FIGURE 5 | The tubgcp3 mutant CMZ cells arrest in M-phase showing monopolar spindles and abnormal distributed centrioles and γ-tubulin. (A–F) Immunostaining
analysis of cell proliferation in zebrafish retina at 3 dpf using DNA replication marker (BrdU, red) and mitotic marker (PH3, green). Embryos are incubated with BrdU
for 6 h before being collected at 72 hpf for the analysis. Almost all cells in wild-type sibling CMZ are BrdU+ with several PH3+ cells among them (A,C,E). In the
(Continued) May 2019 | Volume 12 | Article 126 Frontiers in Molecular Neuroscience | www.frontiersin.org 9 Li et al. Li et al. Tubgcp3 in Zebrafish Retinal Development FIGURE 5 | Continued
tubgcp3 mutant retina, PH3+ cells are significantly increased (B,F), but BrdU+ cells are markedly decreased (D,F). Note that PH3+ BrdU- cells are detected in the
tubgcp3 mutant retina (F) but absent in the wild-type sibling (E). (G) Bar chart analyses depicting quantification of BrdU- and PH3-labeled cells in wild-type sibling
and tubgcp3 mutant retinae. Data are mean + SEM from 50 retinal sections for each group. Student’s t-test: ∗∗P < 0.01. (H–M) Immunostaining of 3 dpf retinal
cryosections with anti-α-tubulin (red) and anti-PH3 (green) displaying bipolar spindles formed in mitotic cells in wild-type siblings (H,J,L). In the tubgcp3 mutant
retina, many mitotic RPCs exhibit monopolar spindles (I,K,M). Insets indicate high-magnification images of mitotic RPCs in rectangles in (H–M). (N) Bar charts
depicting quantification of mitotic cells with monopolar spindles in wild-type sibling (0.12 per section, n = 43 sections) and the tubgcp3 mutant retinae (8.14 per
section, n = 36 sections). (O–Q) Immunostaining analyses displaying a pair of centrioles at each pole of the bipolar spindle in mitotic cells in wild-type sibling CMZ
(O). In the tubgcp3 mutant retinae, centrioles are distributed at the center of the M-phase arrested cells (57.6%, n = 59 M-phase arrested cells) (P) or randomly
scatter in these cells (42.4%, n = 59 M-phase arrested cells) (Q). (R–T) Immunostaining analyses exhibiting γ-tubulin at the spindle poles in mitotic cells in wild-type
sibling (R). In tubgcp3 mutant retinae, γ-tubulin localizes at the center of the M-phase arrested cells, showing a single focus (62.5%, n = 80 M-phase arrested cells)
(S) or scattered foci (37.5%, n = 80 M-phase arrested cells) (T). (U) Schematic representation of the structure of γ-TuSC and γ-TuRC. Tubgcp3 Deficiency Impairs
Centrioles Distribution (V) Co-immunoprecipitation
(IP) assays showing Tubgcp3 interacts with γ-tubulin through its C terminal domain. HEK293T cells were transfected with plasmids to express GFP-tagged zebrafish
γ-tubulin and Myc-tagged zebrafish Tubgcp3 fragments, including full length (1–906 aa) Tubgcp3, N terminal (1–551 aa) Tubgcp3 and C terminal (552–906 aa)
Tubgcp3. Then the cell samples were performed by immunoprecipitation with anti-Myc antibody and analyzed by immunoblotting (IB) with anti-Myc and anti-GFP
antibodies. β-Actin was used as the loading control. Arrowheads indicate the IgG heavy chain (∼50 kDa) and IgG light chain (∼25 kDa). Scale bars: 20 µm (A–F);
20 µm (H–M); 2 µm (O–T). Kumar, 2010; Schmidt et al., 2010; Hossain and Tsang, 2013). Consistent with these reports, we found that the expression of
senescence-associated β-galactosidase (SA-β-gal), a widely used
senescent marker (Dimri et al., 1995), was significantly increased
at the peripheral CMZ in the tubgcp3 mutant CMZ compared to
the wild-type siblings (Figures 6U–X). These results indicate that
depletion of Tubgcp3 caused cellular senescence at the peripheral
CMZ that contains RSCs. Taken together, our data suggest that depletion of Tubgcp3
does not affect centriole duplication, but results in abnormal
distribution of centrioles and γ-tubulin. Taken together, our data suggest that depletion of Tubgcp3
does not affect centriole duplication, but results in abnormal
distribution of centrioles and γ-tubulin. Tupgcp3-Deficient Cells Undergo
Apoptosis and Senescence Given our HE staining results showed disappearance of cells in
the tubgcp3 mutant CMZ from 3 to 5 dpf (Figures 3A–H), we
next investigated whether the mitotic arrest RPCs underwent
apoptosis using TUNEL assay. There were almost no TUNEL+
cells in wild-type siblings (Figures 6C,E,G,I). In contrast,
TUNEL+ cells were significantly increased in tubgcp3 mutant
CMZ and the adjacent regions (Figures 6D,F,H,I) at 3 dpf. However, the TUNEL+ cells and PH3+ cells did not co-localize
in the mutants (Figures 6F,H). This may be due to the fact
that PH3 expression was absent in late-stage apoptotic cells
(Huang et al., 2006). Next, we performed immunostaining using
γ-H2AX, an early stage apoptotic marker (Rogakou et al.,
2000), together with PH3. There was a significant increase
in the number of γ-H2AX + cells in the tubgcp3 mutant
retina at 3 dpf (Figures 6M,O,Q,R), compared to wild-type
siblings (Figures 6L,N,P,R). Moreover, some of the γ-H2AX+
cells overlapped with PH3+ cells (Figures 6O,Q). These results
suggest that the M-phase arrested RPCs undergo apoptosis in the
tubgcp3 mutants. Frontiers in Molecular Neuroscience | www.frontiersin.org DISCUSSION Previous studies have
reported that centrosome dysfunction caused by centrosomal
protein depletion could induce cellular senescence (Manning and γ-TuSC, composed of Tubgcp3, Tubgcp2, and γ-tubulin, is
an essential complex for microtubule nucleation and spindle
assembly during mitosis. Each component of γ-TuSC is likely
essential for all cell proliferation in the developing zebrafish. Recently, Pouchucq et al. (2018) reported that morpholino
(MO)-mediated tubg1/γ-tubulin knockdown caused zebrafish
embryo development arrest at the mid-gastrula stage. The early
developmental defects are most probably attributable to the
fact that MO was designed against the translation start site of
tubg1 mRNA, which blocks the translation of both the maternal
and zygotic tubg1 mRNA (Pouchucq et al., 2018). Although
cell cycle defects and increased apoptosis were observed after
depletion of γ-tubulin (Pouchucq et al., 2018), study on the
function of γ-tubulin in later stages of development has been
limited. In contrast, the tubgcp3 mutants can survive longer than May 2019 | Volume 12 | Article 126 Frontiers in Molecular Neuroscience | www.frontiersin.org Frontiers in Molecular Neuroscience | www.frontiersin.org 10 Li et al. Tubgcp3 in Zebrafish Retinal Development Li et al. Tubgcp3 in Zebrafish Retinal Development
FIGURE 6 | Tupgcp3 deficient cells undergo apoptosis and senescence. (A–H) Immunostaining analyses displaying significantly increased TUNEL+ cells in the
tubgcp3 mutant retina (D,F,H) at 3 dpf compared to wild-type sibling (C,E,G). Note the increased PH3+ cells in the tubgcp3 mutant retina do not co-localize with
the TUNEL+ cells (F,H). (I) Bar chart analyses depicting quantification of TUNEL+ cells in wild-type sibling and the tubgcp3 mutant retinae. (J–Q) Immunostaining
analyses exhibiting markedly increased γ-H2AX+ cells in the tubgcp3 mutant retina (M,O,Q) at 3 dpf compared to wild-type sibling (L,N,P). Note that some of the
(Continued)
Frontiers in Molecular Neuroscience | www frontiersin org
11
May 2019 | Volume 12 | Article 126 FIGURE 6 | Tupgcp3 deficient cells undergo apoptosis and senescence. (A–H) Immunostaining analyses displaying significantly increased TUNEL+ cells in the
tubgcp3 mutant retina (D,F,H) at 3 dpf compared to wild-type sibling (C,E,G). Note the increased PH3+ cells in the tubgcp3 mutant retina do not co-localize with
the TUNEL+ cells (F,H). (I) Bar chart analyses depicting quantification of TUNEL+ cells in wild-type sibling and the tubgcp3 mutant retinae. (J–Q) Immunostaining
analyses exhibiting markedly increased γ-H2AX+ cells in the tubgcp3 mutant retina (M,O,Q) at 3 dpf compared to wild-type sibling (L,N,P). DISCUSSION In CMZ, new neurons are produced for the
continuous growth of zebrafish eyes after the embryogenesis of
retina completed at 60 hpf. The tissue-specific defects in CMZ
are in accordance with the rapid depletion of the maternal store
in the regions of high proliferation. This also correlates with the
function of γ-TuSC in cell proliferation. 10 days due to the maternal deposition of tubgcp3 gene products. The maternal effect provides a possibility to study its function
at relatively late developmental stages. In the tubgcp3 mutant,
the differentiated cells seem to be unaffected (Figures 3I–L). However, the CMZ exhibits obvious defects from 3 to 5 dpf
(Figures 3E–H). This is associated with the relatively higher
expression of tubgcp3 in CMZ compared to other retinal regions
(Figures 1L,M). In CMZ, new neurons are produced for the
continuous growth of zebrafish eyes after the embryogenesis of
retina completed at 60 hpf. The tissue-specific defects in CMZ
are in accordance with the rapid depletion of the maternal store
in the regions of high proliferation. This also correlates with the
function of γ-TuSC in cell proliferation. g p
Autosomal recessive primary microcephaly (MCPH) is a
neurodevelopmental disorder characterized by markedly reduced
brain size. The patients exhibited significantly reduced number
of neural progenitor cells caused by cell proliferation defects,
increased cell death and the disruption of the balance between
symmetric and asymmetric division (Barbelanne and Tsang,
2014; Buchwalter et al., 2016; O’Neill et al., 2018). Currently, at
least nine centrosome-related genes have been genetically linked
to microcephaly disorders (Megraw et al., 2011; Novorol et al.,
2013; Chavali et al., 2014; Morris-Rosendahl and Kaindl, 2015;
Buchwalter et al., 2016). Mutations in tubgcp4 and tubgcp6 have
been reported to be associated with MCPH (Buchwalter et al.,
2016). They encode TUBGCP4 and TUBGCP6, respectively, two
components of γ-TuRC (Zheng et al., 1995). In addition, the
MCPH models have been established using zebrafish retinal
neuroepithelium by depletion of centrosomal proteins, including
STIL, ASPM, WDR62, and ODF2 (Novorol et al., 2013). STIL localizes to the procentriolar cartwheel region and plays
important roles in centriole duplication (Arquint and Nigg,
2014). ASPM localizes at the spindle poles and is involved
in the organization of spindle poles (Tungadi et al., 2017). WDR62, which also localizes to the spindle poles, is required
for mitotic entry of neural stem cells (Ramdas Nair et al.,
2016). DISCUSSION ODF2, a mother centriole subdistal appendage protein, is
indispensable for the assembly of the mother centriole (Ishikawa
et al., 2005). In these models, zebrafish embryos display the
MCPH phenotype with significantly reduced head and eye
size (Novorol et al., 2013). After knockout of tubgcp3 gene,
the zebrafish embryos exhibit the similar MCPH phenotype
(Figures 2E–G). M-phase cell cycle arrest (Figures 5A–G) and
increased apoptosis are also observed (Figures 6A–R) in tubgcp3
mutant retinae, which is consistent with these MCPH models
(Novorol et al., 2013). Moreover, cell proliferation defect and
senescence were also observed at the peripheral CMZ (stem
cell niche) (Figures 6S–V,Y). Senescent cells were also observed
in the brain of the tubgcp3 mutants (Supplementary Figure
S8). Given the MCPH phenotype observed in tubgcp3 mutants
(Figures 2E–G) and the requirement of Tubgcp3 in γ-TuRC Despite the fact that many studies have been carried out
among different organisms to understand the function of
Tubgcp3 in γ-TuRC assembly and centrosome function (Geissler
et al., 1996; Barbosa et al., 2000; Mikule et al., 2007; Xiong and
Oakley, 2009; Farache et al., 2016; Cota et al., 2017), its roles in
vertebrate development remain unclear. In vitro studies using
human cell lines show that GCP3/Tubgcp3 is required for cell
cycle progression (Mikule et al., 2007; Draberova et al., 2015;
Cota et al., 2017). However, the cell cycle defects caused by GCP3
depletion are conflicting. Draberova et al. (2015) reported that the
wild-type p53 U87MG cells and mutant p53 T98 cells arrested in
M-phase after depletion of GCP3 using siRNA. GCP3-depleted
HeLa cells also arrested in the M-phase (Cota et al., 2017). In the
tubgcp3 mutants, we found that RPCs arrested in M-phase in the
CMZ of the retina (Figures 5B,D,F,G), which is consistent with
previous studies. Moreover, the mitotic arrest RPCs underwent
apoptosis (Figures 6A–R). However, Mikule et al. (2007) found
that some GCP3-depleted cell lines, such as RPE-1, BJ-1, HME-
1, and HCT-116, did not arrest in M-phase, but arrested in
G1 phase in a p53-dependent manner. In our study, we found
that cell proliferation was affected at the peripheral CMZ in the
tubgcp3 mutant retina. These cells might be RSCs, which failed
to progress into S phase (Figures 6S–T”,Y). They did not arrest
in M-phase as PH3+ cells did not accumulate in the mutant
peripheral CMZ at 5 dpf (Supplementary Figure S7). DISCUSSION Note that some of the
(Continued Frontiers in Molecular Neuroscience | www.frontiersin.org May 2019 | Volume 12 | Article 126 11 Li et al. Li et al. Tubgcp3 in Zebrafish Retinal Development FIGURE 6 | Continued
increased PH3+ cells overlap with the γ-H2AX+ cells in the tubgcp3 mutant (O,Q). Arrows mark the PH3 and γ-H2AX double positive cells in the tubgcp3 mutant
retina. Arrowheads indicate the location of RSCs in the CMZ of the retina. (R) Bar chart analyses depicting quantification of γ-H2AX+ and PH3+ cells in wild-type
sibling and the tubgcp3 mutant retinae. Data are mean + SEM from 30 sections for each group. Student’s t-test: ∗∗P < 0.01. (S–T”) ISH and immunostaining
analysis of cell proliferation at the extreme periphery of CMZ at 5 dpf. Zebrafish embryos were incubated in BrdU for 24 h before collected at 5 dpf for the double
staining assay. In the wild-type sibling, there are many BrdU+ cells in col15a1b-labeled region (S,S’,S”). In contrast, BrdU+ cells are significantly decreased in this
region in the tubgcp3 mutant CMZ (T,T’,T”). (U–X) Senescence-associated β-galactosidase (SA-β-gal) staining exhibiting increased β-galactosidase activity at the
CMZ in the tubgcp3 mutant (V) compared to the wild-type sibling (U). Nuclei are stained with DAPI (W,X). Insets indicate high-magnification images of the peripheral
edge of CMZ in rectangles in (U–X). (Y) Bar chart analyses depicting quantification of BrdU+ cells in the col15a1b-labeled region in wild-type sibling and the
tubgcp3 mutant CMZ. Data are mean + SEM from 36 sections for each group. Student’s t-test: ∗∗P < 0.01. Scale bars: 20 µm (A–H); 20 µm (J–Q); 20 µm (S–T”);
50 µm (U–X). could induce cellular senescence (Manning and Kumar, 2010;
Schmidt et al., 2010; Hossain and Tsang, 2013). Consistent
with these reports, we observed that some cells underwent
senescence at the extreme periphery of CMZ in tubgcp3 mutants. Since CMZ cells are involved in the growth of zebrafish eye,
these defects together caused the small eye phenotype in the
tubgcp3 mutants. 10 days due to the maternal deposition of tubgcp3 gene products. The maternal effect provides a possibility to study its function
at relatively late developmental stages. In the tubgcp3 mutant,
the differentiated cells seem to be unaffected (Figures 3I–L). However, the CMZ exhibits obvious defects from 3 to 5 dpf
(Figures 3E–H). This is associated with the relatively higher
expression of tubgcp3 in CMZ compared to other retinal regions
(Figures 1L,M). Frontiers in Molecular Neuroscience | www.frontiersin.org REFERENCES glioblastoma. J. Neuropathol. Exp. Neurol. 74, 723–742. doi: 10.1097/NEN. 0000000000000212 glioblastoma. J. Neuropathol. Exp. Neurol. 74, 723–742. doi: 10.1097/NEN. 0000000000000212 Arquint, C., and Nigg, E. A. (2014). STIL microcephaly mutations interfere with
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cell division, development and disease. eLS 30, 1–2. Huang, X., Kurose, A., Tanaka, T., Traganos, F., Dai, W., and Darzynkiewicz, Z. (2006). Sequential phosphorylation of Ser-10 on histone H3 and ser-139
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and Wilson, S. W. (2010). The zebrafish flotte lotte mutant reveals that the local
retinal environment promotes the differentiation of proliferating precursors
emerging from their stem cell niche. Development 137, 2107–2115. ETHICS STATEMENT This study was carried out according to the Guide for the Care
and Use of Laboratory Animals from the National Institutes of
Health. The experimental protocol was approved by the Animal
Care and Use Committee of Fudan University. ACKNOWLEDGMENTS We acknowledge Haitao Zhou for excellent fish care. The
transgenic line Tg(HuC:GFP) was kindly provided by Su Guo
(University of California). We are grateful to laboratory members
Ruilin Zhang (Fudan University), Su Guo (University of
California), Jie He (Chinese Academy of Sciences), and Ying
Cao (Tongji University) for technical advice. We thank members
of our laboratory for helpful discussions. We also thank the
China Zebrafish Resource Center (CZRC) and the Zebrafish
All Genes Knockout Consortium (ZAKOC) for important
cooperation and assistance. FUNDING assembly and centrosome function (Geissler et al., 1996; Barbosa
et al., 2000; Mikule et al., 2007; Xiong and Oakley, 2009;
Farache et al., 2016; Cota et al., 2017), we speculate that
premature senescence may provide a possible new view to
explain the mechanism of MCPH. Further studies to characterize
the function of other centrosomal proteins will be necessary
to fully understand the relationship between centrosome and
microcephaly disorders. assembly and centrosome function (Geissler et al., 1996; Barbosa
et al., 2000; Mikule et al., 2007; Xiong and Oakley, 2009;
Farache et al., 2016; Cota et al., 2017), we speculate that
premature senescence may provide a possible new view to
explain the mechanism of MCPH. Further studies to characterize
the function of other centrosomal proteins will be necessary
to fully understand the relationship between centrosome and
microcephaly disorders. This work was supported by grants from the National Science
Foundation of China (31530044, 31671514, and 31471357). SUPPLEMENTARY MATERIAL TZ conceived and directed the project. GL carried out the
experiments and discovered the roles of Tubgcp3 in cell cycle
progression during zebrafish retinal development. TZ, DJ, and GL
prepared the figures and wrote the manuscript. The Supplementary Material for this article can be found
online
at:
https://www.frontiersin.org/articles/10.3389/fnmol. 2019.00126/full#supplementary-material DISCUSSION It is not
feasible for us to isolate RSCs for fluorescence-activated cell
sorter analysis (FACS) due to the absence of available transgenic
zebrafish lines expressing RSC-specific reporters in our lab. Whether depletion of Tubgcp3 in RSCs causes G1 arrest still
needs further study. To study whether p53 is involved in these
processes will be an important extension to the functional study
of Tubgcp3. It has been reported that centrosome dysfunction May 2019 | Volume 12 | Article 126 Frontiers in Molecular Neuroscience | www.frontiersin.org Frontiers in Molecular Neuroscience | www.frontiersin.org 12 Li et al. Li et al. Tubgcp3 in Zebrafish Retinal Development REFERENCES S. Jr. (1999). Neurogenesis in the
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conducted in the absence of any commercial or financial relationships that could
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330–347. doi: 10.1016/j.ydbio.2005.12.056 Copyright © 2019 Li, Jin and Zhong. This is an open-access article distributed
under the terms of the Creative Commons Attribution License (CC BY). The use,
distribution or reproduction in other forums is permitted, provided the original
author(s) and the copyright owner(s) are credited and that the original publication
in this journal is cited, in accordance with accepted academic practice. No use,
distribution or reproduction is permitted which does not comply with these terms. Copyright © 2019 Li, Jin and Zhong. This is an open-access article distributed
under the terms of the Creative Commons Attribution License (CC BY). The use,
distribution or reproduction in other forums is permitted, provided the original
author(s) and the copyright owner(s) are credited and that the original publication
in this journal is cited, in accordance with accepted academic practice. No use,
distribution or reproduction is permitted which does not comply with these terms. Ramdas Nair, A., Singh, P., Salvador Garcia, D., Rodriguez-Crespo, D.,
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W. M. (2000). Initiation of DNA fragmentation during apoptosis induces May 2019 | Volume 12 | Article 126 Frontiers in Molecular Neuroscience | www.frontiersin.org 14
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Mechanochemical Synthesis and Biological Evaluation of Novel Isoniazid Derivatives with Potent Antitubercular Activity
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Article
Mechanochemical Synthesis and Biological
Evaluation of Novel Isoniazid Derivatives with
Potent Antitubercular Activity Paulo F. M. Oliveira 1,2,3,†
ID , Brigitte Guidetti 2,3, Alain Chamayou 1, Christiane André-Barrès 2,3,
Jan Madacki 4, Jana Korduláková 4,*, Giorgia Mori 5, Beatrice Silvia Orena 5,
Laurent Roberto Chiarelli 5
ID , Maria Rosalia Pasca 5,*
ID , Christian Lherbet 2,3,
Chantal Carayon 2,3, Stéphane Massou 2, Michel Baron 1 and Michel Baltas 2,3,* 1
Department of Process Engineering, Université de Toulouse, Mines-Albi, CNRS UMR 5302,
Centre RAPSODEE, Campus Jarlard, 81013 Albi, France; paul_marqs@hotmail.com (P.F.M.O.);
alain.chamayou@mines-albi.fr (A.C.); baron@mines-albi.fr (M.B.) 2
Department of Chemistry, Université de Toulouse, UPS, CNRS UMR 5068, LSPCMIB, 118 Route de
Narbonne, 31062 Toulouse, France; guidetti@chimie.ups-tlse.fr (B.G.); candre@chimie.ups-tlse.fr (C.A.-B.)
christian.lherbet@itav.fr (C.L.); andre@chimie.ups-tlse.fr (C.C.); massou@chimie.ups-tlse.fr (S.M.)
3 Narbonne, 31062 Toulouse, France; guidetti@chimie.ups-tlse.fr (B.G.); candre@chimie.ups-tlse.fr (C.A.-B.);
christian.lherbet@itav.fr (C.L.); andre@chimie.ups-tlse.fr (C.C.); massou@chimie.ups-tlse.fr (S.M.)
3
CNRS, Laboratoire de Synthèse et Physico-Chimie de Molécules d’Intérêt Biologique, LSPCMIB, UMR-5068,
118 Route de Narbonne, 31062 Toulouse, France p
p
3
CNRS, Laboratoire de Synthèse et Physico-Chimie de Molécules d’Intérêt Biologique, LSPCMIB, UMR-5
118 Route de Narbonne, 31062 Toulouse, France 4
Department of Biochemistry, Comenius University in Bratislava, Faculty of Natural Science
Mlynská Dolina, Ilkoviˇcova 6, 84215 Bratislava, Slovakia; jan.madacki@gmail.com 5
Department of Biology and Biotechnology “Lazzaro Spallanzani”, University of Pavia; via Ferrata 1,
27100 Pavia, Italy; giorgia.mori@unipv.it (G.M.); beatricesilvia.orena01@universitadipavia.it (B.S.O.);
laurent.chiarelli@unipv.it (L.R.C.) *
Correspondence: kordulakova@fns.uniba.sk (J.K.); mariarosalia.pasca@unipv.it (M.R.P.);
baltas@chimie.ups-tlse.fr (M.B.); Tel.: +421-(0)260296547 (J.K.); +39-0382-985576 (M.R.P.);
+33-(0)561556289 (M.B.) †
Current address: Université de Lille, UMET, Unité Matériaux et Transformations, CNRS UMR 8207,
F-59000 Lille, France. Received: 2 July 2017; Accepted: 24 July 2017; Published: 1 September 2017 Received: 2 July 2017; Accepted: 24 July 2017; Published: 1 September 2017 Abstract: A series of isoniazid derivatives bearing a phenolic or heteroaromatic coupled frame were
obtained by mechanochemical means. Their pH stability and their structural (conformer/isomer)
analysis were checked. The activity of prepared derivatives against Mycobacterium tuberculosis
cell growth was evaluated. Some compounds such as phenolic hydrazine 1a and almost all
heteroaromatic ones, especially 2, 5 and 7, are more active than isoniazid, and their activity against
some M. tuberculosis MDR clinical isolates was determined. Compounds 1a and 7 present a selectivity
index >1400 evaluated on MRC5 human fibroblast cells. The mechanism of action of selected
hydrazones was demonstrated to block mycolic acid synthesis due to InhA inhibition inside the
mycobacterial cell. Keywords: Mycobacterium tuberculosis; mechanochemistry; hydrazone Molecules 2017, 22, 1457; doi:10.3390/molecules22091457 molecules molecules molecules 1. Introduction Tuberculosis (TB), caused by Mycobacterium tuberculosis (M.tb), represents an enduring, deadly
infectious disease worldwide. According to the World Health Organization (WHO), one third of
the global population is infected with M.tb. In comparison with other diseases caused by a single
infectious agent, TB is the second leading cause of mortality. It is estimated that in 2015 TB killed
1.8 million people, mainly in underdeveloped countries [1]. New effective drugs for the treatment www.mdpi.com/journal/molecules Molecules 2017, 22, 1457; doi:10.3390/molecules22091457 2 of 27 Molecules 2017, 22, 1457 of TB are necessary firstly to reduce the duration of TB treatment and, secondly, for the treatment of
M.tb multidrug-resistant (MDR) [2,3], extensively-drug resistant (XDR) [4], and totally-drug resistant
(TDR) strains [5]. In the recent years, two molecules bedaquiline and delamanid (Figure 1) have
been approved for the treatment of MDR-TB when an effective treatment regimen is not otherwise
available [6,7]. Molecules 2017, 22, 1457
2 of 27
(TDR) strains [5]. In the recent years, two molecules bedaquiline and delamanid (Figure 1) have been
approved for the treatment of MDR-TB when an effective treatment regimen is not otherwise
available [6,7]. Figure 1. Antitubercular drug Isoniazid (1952), and Bedaquiline and Delamanid, two new compounds
approved for the treatment of MDR-TB. Figure 1. Antitubercular drug Isoniazid (1952), and Bedaquiline and Delamanid, two new compounds
approved for the treatment of MDR-TB. Figure 1. Antitubercular drug Isoniazid (1952), and Bedaquiline and Delamanid, two new compounds
approved for the treatment of MDR-TB. Figure 1. Antitubercular drug Isoniazid (1952), and Bedaquiline and Delamanid, two new compounds
approved for the treatment of MDR-TB. One of the main known drug targets to fight M.tb growth is the enoyl-ACP reductase or InhA. This well-known enzyme is already the indirect target of Isoniazid (INH), a front-line prodrug used
clinically to treat TB. INH remains a key component in all multiple drug treatment regiments
recommended by the WHO even if M.tb resistant isolates have been rapidly generated during
monotherapy or inappropriate treatment. Hence, improvement of INH molecule by introducing
chemical modifications in its core structure in order to enhance biological response (prodrug, increase
of bioavailability, and membrane permeability) continues to be an interesting scientific challenge. Recently, for example, compounds containing isonicotinoyl moiety with potential dual inhibition
targeting FabG4 and HtdX, were successfully characterized [8]. 1. Introduction Hydrazide-hydrazone derivatives have long attracted attention because of their wide range of
applications in medicinal chemistry [9–12] Hydrazide and hydrazone derivatives showed strong
One of the main known drug targets to fight M.tb growth is the enoyl-ACP reductase or InhA. This well-known enzyme is already the indirect target of Isoniazid (INH), a front-line prodrug
used clinically to treat TB. INH remains a key component in all multiple drug treatment regiments
recommended by the WHO even if M.tb resistant isolates have been rapidly generated during
monotherapy or inappropriate treatment. Hence, improvement of INH molecule by introducing
chemical modifications in its core structure in order to enhance biological response (prodrug, increase
of bioavailability, and membrane permeability) continues to be an interesting scientific challenge. Recently, for example, compounds containing isonicotinoyl moiety with potential dual inhibition
targeting FabG4 and HtdX, were successfully characterized [8]. applications in medicinal chemistry [9–12]. Hydrazide and hydrazone derivatives showed strong
antioxidant and radical scavenging properties, while others ones displayed potent anticancer,
antimicrobial, anticonvulsant or anti-inflammatory activities in vitro [9]. Recently, interesting anti-
mycobacterial activities were reported about the following derivatives: guanylhydrazones [13], trans-
cinnamic acid hydrazides derivatives [14], fluorine containing hydrazones [15], sulfonyl-hydrazones [16],
and L-proline derived hydrazones [17]. Moreover, isoniazid-related hydrazones showed similar or better efficiency than the INH [18]. Isonicotinoylhydrazone derivatives were also synthesized and evaluated as anti-mycobacterial
agents [19 20] Interestingly vanillic acylhydrazones were reported as potential β keto acyl carrier
g
g
y
Hydrazide-hydrazone derivatives have long attracted attention because of their wide range of
applications in medicinal chemistry [9–12]. Hydrazide and hydrazone derivatives showed strong
antioxidant and radical scavenging properties, while others ones displayed potent anticancer, antimicrobial,
anticonvulsant or anti-inflammatory activities in vitro [9]. Recently, interesting anti-mycobacterial activities
were reported about the following derivatives: guanylhydrazones [13], trans-cinnamic acid hydrazides
derivatives [14], fluorine containing hydrazones [15], sulfonyl-hydrazones [16], and L-proline derived
hydrazones [17]. agents [19,20]. Interestingly, vanillic acylhydrazones were reported as potential β-keto acyl carrier
protein synthase III (FabH) inhibitors [21]. Schiff bases of isoniazid, considered as chemical
modification that can block N-acetylation of INH, showed good activity in vitro and in vivo and in
some cases low toxicity [22,23]. In 2008, an extended study reported a quantitative structure activity
relationships (QSAR) of a large hydrazide family for the developing of antitubercular compounds
[24]. Finally, some researchers focused on establishing a predictive QSAR model for different INH
derivatives including isonicotinoylhydrazones [25]. 1. Introduction Our group is involved both in synthesizing new antitubercular compounds, including cinnamic acid
derivatives [26–29], triazoles [30–33], pyrrolidines [34–36], semicarbazones and hydrazine/hydrazones
Moreover, isoniazid-related hydrazones showed similar or better efficiency than the INH [18]. Isonicotinoylhydrazone derivatives were also synthesized and evaluated as anti-mycobacterial
agents [19,20]. Interestingly, vanillic acylhydrazones were reported as potential β-keto acyl carrier
protein synthase III (FabH) inhibitors [21]. Schiff bases of isoniazid, considered as chemical
modification that can block N-acetylation of INH, showed good activity in vitro and in vivo and
in some cases low toxicity [22,23]. In 2008, an extended study reported a quantitative structure
activity relationships (QSAR) of a large hydrazide family for the developing of antitubercular
compounds [24]. Finally, some researchers focused on establishing a predictive QSAR model for
different INH derivatives including isonicotinoylhydrazones [25]. Molecules 2017, 22, 1457 3 of 27 Our group is involved both in synthesizing new antitubercular compounds, including
cinnamic acid derivatives [26–29], triazoles [30–33], pyrrolidines [34–36], semicarbazones and
hydrazine/hydrazones [37], and in searching for new and innovative synthetic reactions. We have
recently reported the solvent-free mechanosynthesis of a series of hydrazones [38,39]. Mechanochemistry
has been used for a long time for the chemical and physicochemical transformations of inorganic materials
to generate all states of aggregation produced by the effect of mechanical energy [40]. More recently, the
mechanical energy has been used to synthesize organic molecules in milling devices [41–52]. Molecules 2017, 22, 1457
3 of 27
[37], and in searching for new and innovative synthetic reactions. We have recently reported the solvent-
free mechanosynthesis of a series of hydrazones [38,39]. Mechanochemistry has been used for a long time
for the chemical and physicochemical transformations of inorganic materials to generate all states of Considering the pharmaceutical area [53], the mechanical action was used in particular to
develop nitrogen-containing heterocycles, well represented in many therapeutic classes. For example,
phthalazoles [54], phenazines [55], pyrazoles, pyridazinones [56], and pyrroles [57] were obtained
by mechanosynthesis. Non-heterocyclic nitrogen-containing molecules were also synthesized under
mechanical solid-state and solvent-free conditions, including imines, azomethines [58,59], azines [56],
enamines and hydrazones [60–62]. for the chemical and physicochemical transformations of inorganic materials to generate all states of
aggregation produced by the effect of mechanical energy [40]. More recently, the mechanical energy has
been used to synthesize organic molecules in milling devices [41–52]. 1. Introduction Considering the pharmaceutical area [53], the mechanical action was used in particular to
develop nitrogen-containing heterocycles, well represented in many therapeutic classes. For example,
phthalazoles [54], phenazines [55], pyrazoles, pyridazinones [56], and pyrroles [57] were obtained by
mechanosynthesis. Non-heterocyclic nitrogen-containing molecules were also synthesized under
h
i
l
lid t t
d
l
t f
diti
i
l di
i
i
thi
[58 59]
i
[56] In this work, this methodology was used in order to synthesize hydrazones under solvent-free
conditions, in particular the isonicotinoyl ones. Thus, herein we report the synthesis of a series of
phenol and hetero aryl isonicotinoylhydrazones through mechanochemistry and the evaluation of
their anti-tuberculosis activities. mechanical solid-state and solvent-free conditions, including imines, azomethines [58,59], azines [56],
enamines and hydrazones [60–62]. In this work, this methodology was used in order to synthesize hydrazones under solvent-free
conditions, in particular the isonicotinoyl ones. Thus, herein we report the synthesis of a series of
phenol and hetero aryl isonicotinoylhydrazones through mechanochemistry and the evaluation of 2. Results and Discussion
their anti tuberculosis ac 2.1. Chemistry
2. Results
2 1 Ch
i Mechanosynthesis of Isonicotinoyl Hydrazones
2.1. Chemistry
Mechanosynthesis of Isonicotinoyl Hydra ones Table 1 Hydra ones 2 11 produced mechanochemically by reacting INH and imida olic inda olic
y
g
g
g
times of 2 h. Table 1 Hydra ones 2 11 produced mechanochemically by reacting INH and imida olic inda olic
The hydrazones listed in Table 1 were thus obtained with a high transformation ratio in grinding
times of 2 h. The hydrazones listed in Table 1 were thus obtained with a high transformation ratio in grinding
times of 2 h. The hydrazones listed in Table 1 were thus obtained with a high transformation ratio in grinding
times of 2 h. The hydrazones listed in Table 1 were thus obtained with a high transformation ratio in grinding
times of 2 h. Aldehydes
Heterocyclic Hydrazones (6) Derived From Isoniazid
Imidazole derivatives
or indolic aldehydes. The reaction was catalyzed by p TSA. Aldehydes
Heterocyclic Hydrazones (6) Derived From Isoniazid
Imidazole derivatives
2 (80%) [a]
3 (98%) [a]
Indazole derivatives
4 (98%) [a]
5 (99%) [a]
Indole derivatives
6 (99%) [a]
7 (94%) [a]
8 (99%) [a]
9 (99%) [a]
10 (91%) [a]
11 (99%) [a]
[a] Yields after washing with NaHCO3 aqueous solution to eliminate p-TSA. According to TLC, 1H-
NMR and MS, the conversions were quantitative. It is still important to mention that, differently from the phenolic hydrazones, a melting was
or indolic aldehydes. The reaction was catalyzed by p TSA. Aldehydes
Heterocyclic Hydrazones (6) Derived From Isoniazid
Imidazole derivatives
2 (80%) [a]
3 (98%) [a]
Indazole derivatives
4 (98%) [a]
5 (99%) [a]
Indole derivatives
6 (99%) [a]
7 (94%) [a]
8 (99%) [a]
9 (99%) [a]
10 (91%) [a]
11 (99%) [a]
[a] Yields after washing with NaHCO3 aqueous solution to eliminate p-TSA. According to TLC, 1H-
NMR and MS, the conversions were quantitative. It is still important to mention that, differently from the phenolic hydrazones, a melting was
Indazole derivatives
or indolic aldehydes. The reaction was catalyzed by p-TSA. Aldehydes
Heterocyclic Hydrazones (6) Derived From Isoniazid
Imidazole derivatives
2 (80%) [a]
3 (98%) [a]
Indazole derivatives
4 (98%) [a]
5 (99%) [a]
Indole derivatives
6 (99%) [a]
7 (94%) [a]
8 (99%) [a]
9 (99%) [a]
10 (91%) [a]
11 (99%) [a]
[a] Yields after washing with NaHCO3 aqueous solution to eliminate p-TSA. According to TLC, 1H-
NMR and MS, the conversions were quantitative. Mechanosynthesis of Isonicotinoyl Hydrazones
2.1. Chemistry
Mechanosynthesis of Isonicotinoyl Hydra ones It is still important to mention that, differently from the phenolic hydrazones, a melting was
or indolic aldehydes. The reaction was catalyzed by p-TSA. Aldehydes
Heterocyclic Hydrazones (6) Derived From Isoniazid
Imidazole derivatives
2 (80%) [a]
3 (98%) [a]
Indazole derivatives
4 (98%) [a]
5 (99%) [a]
Indole derivatives
6 (99%) [a]
7 (94%) [a]
8 (99%) [a]
9 (99%) [a]
10 (91%) [a]
11 (99%) [a]
[a] Yields after washing with NaHCO3 aqueous solution to eliminate p-TSA. According to TLC, 1H-
NMR and MS, the conversions were quantitative. It is still important to mention that, differently from the phenolic hydrazones, a melting was
Indole derivatives
Table 1. Hydrazones 2 11 produced mechanochemically by reacting INH and imidazolic, indazolic
or indolic aldehydes. The reaction was catalyzed by p-TSA. Aldehydes
Heterocyclic Hydrazones (6) Derived From Isoniazid
Imidazole derivatives
2 (80%) [a]
3 (98%) [a]
Indazole derivatives
4 (98%) [a]
5 (99%) [a]
Indole derivatives
6 (99%) [a]
7 (94%) [a]
8 (99%) [a]
9 (99%) [a]
10 (91%) [a]
11 (99%) [a]
[a] Yields after washing with NaHCO3 aqueous solution to eliminate p-TSA. According to TLC, 1H-
NMR and MS, the conversions were quantitative. I i
ill i
i
h
diff
l
f
h
h
li
h d
l i
Table 1. Hydrazones 2 11 produced mechanochemically by reacting INH and imidazolic, indazolic
or indolic aldehydes. The reaction was catalyzed by p-TSA. Aldehydes
Heterocyclic Hydrazones (6) Derived From Isoniazid
Imidazole derivatives
2 (80%) [a]
3 (98%) [a]
Indazole derivatives
4 (98%) [a]
5 (99%) [a]
Indole derivatives
6 (99%) [a]
7 (94%) [a]
8 (99%) [a]
9 (99%) [a]
10 (91%) [a]
11 (99%) [a]
[a] Yields after washing with NaHCO3 aqueous solution to eliminate p-TSA. According to TLC, 1H-
NMR and MS, the conversions were quantitative. I i
ill i
i
h
diff
l
f
h
h
li
h d
l i
Table 1. Hydrazones 2–11 produced mechanochemically by reacting INH and imidazolic, indazolic
or indolic aldehydes. The reaction was catalyzed by p-TSA. Aldehydes
Heterocyclic Hydrazones (6) Derived From Isoniazid
Imidazole derivatives
2 (80%) [a]
3 (98%) [a]
Indazole derivatives
4 (98%) [a]
5 (99%) [a]
Indole derivatives
6 (99%) [a]
7 (94%) [a]
8 (99%) [a]
9 (99%) [a]
10 (91%) [a]
11 (99%) [a]
[a] Yields after washing with NaHCO3 aqueous solution to eliminate p-TSA. According to TLC, 1H-
NMR and MS, the conversions were quantitative. Table 1. Mechanosynthesis of Isonicotinoyl Hydrazones
2.1. Chemistry
Mechanosynthesis of Isonicotinoyl Hydra ones Hydrazones 2–11 produced mechanochemically by reacting INH and imidazolic, indazolic
or indolic aldehydes. The reaction was catalyzed by p-TSA. Aldehydes
Heterocyclic Hydrazones (6) Derived From Isoniazid
Imidazole derivatives
2 (80%) [a]
3 (98%) [a]
Indazole derivatives
4 (98%) [a]
5 (99%) [a]
Indole derivatives
6 (99%) [a]
7 (94%) [a]
8 (99%) [a]
9 (99%) [a]
10 (91%) [a]
11 (99%) [a]
[a] Yields after washing with NaHCO3 aqueous solution to eliminate p-TSA. According to TLC, 1H-
NMR and MS, the conversions were quantitative. Table 1. Hydrazones 2–11 produced mechanochemically by reacting INH and imidazolic, indazolic
or indolic aldehydes. The reaction was catalyzed by p-TSA. Aldehydes
Heterocyclic Hydrazones (6) Derived From Isoniazid
Imidazole derivatives
2 (80%) [a]
3 (98%) [a]
Indazole derivatives
4 (98%) [a]
5 (99%) [a]
Indole derivatives
6 (99%) [a]
7 (94%) [a]
8 (99%) [a]
9 (99%) [a]
10 (91%) [a]
11 (99%) [a]
[a] Yields after washing with NaHCO3 aqueous solution to eliminate p-TSA. According to TLC, 1H-
NMR and MS, the conversions were quantitative. Table 1. Hydrazones 2–11 produced mechanochemically by reacting INH and imidazolic, indazolic
or indolic aldehydes. The reaction was catalyzed by p-TSA. Aldehydes
Heterocyclic Hydrazones (6) Derived From Isoniazid
Imidazole derivatives
2 (80%) [a]
3 (98%) [a]
Indazole derivatives
4 (98%) [a]
5 (99%) [a]
Indole derivatives
6 (99%) [a]
7 (94%) [a]
8 (99%) [a]
9 (99%) [a]
10 (91%) [a]
11 (99%) [a]
[a] Yields after washing with NaHCO3 aqueous solution to eliminate p-TSA. According to TLC, 1H-
NMR and MS, the conversions were quantitative. [a] Yields after washing with NaHCO3 aqueous solution to eliminate p-TSA. According to TLC, 1H-NMR and MS,
the conversions were quantitative. Heterocyclic Hydrazones (6) Derived From Isoniazid
Heterocyclic Hydrazones (6) Derived From Isoniazid
Heterocyclic Hydrazones (6) Derived From Isoniazi
y
y p
Heterocyclic Hydrazones (6) Derived From Isoniazid
y
y p
Heterocyclic Hydrazones (6) Derived From Isoniazi
was catalyzed by p-TSA. n was catalyzed by p-TSA. y
y
g
was catalyzed by p-TSA. n was catalyzed by p-TSA. ed mechanochemically by reacting INH and imidazolic,
was catalyzed by p-TSA. ced mechanochemically by reacting INH and imidazoli
n was catalyzed by p-TSA. Mechanosynthesis of Isonicotinoyl Hydrazones
2.1. Chemistry
Mechanosynthesis of Isonicotinoyl Hydra ones Mechanosynthesis of Isonicotinoyl Hydrazones
2.1. Chemistry
Mechanosynthesis of Isonicotinoyl Hydrazones The classical methods to synthesize hydrazones are generally carried out at low concentration,
and require times from 3 to 24 h or even 48 h under reflux of toluene or ethanol in order to obtain good
yields. We previously employed the vibratory mill Pulverisette 0 (P0) (Fritsch, Germany) to synthesize
phenolic hydrazones mechanochemically [38]. A comparative study has been therein reported with
various hydrazides, among them the isoniazid and phenolic aldehydes leading to compounds already
described 1a–d (Figure 2). Mechanosynthesis of Isonicotinoyl Hydrazones
The classical methods to synthesize hydrazones are generally carried out at low concentration,
and require times from 3 to 24 h or even 48 h under reflux of toluene or ethanol in order to obtain
good yields. We previously employed the vibratory mill Pulverisette 0 (P0) (Fritsch, Germany) to
synthesize phenolic hydrazones mechanochemically [38]. A comparative study has been therein
reported with various hydrazides, among them the isoniazid and phenolic aldehydes leading to
compounds already described 1a–d (Figure 2). Figure 2. Isonicotinoyl hydrazones synthesized by co-grinding of isoniazide and an aldehyde. Figure 2. Isonicotinoyl hydrazones synthesized by co-grinding of isoniazide and an aldehyde. Figure 2. Isonicotinoyl hydrazones synthesized by co-grinding of isoniazide and an aldehyde. Figure 2. Isonicotinoyl hydrazones synthesized by co-grinding of isoniazide and an aldehyde. We decided to synthesize a series of isonicotinoylhydrazones derivatives bearing various N-
heterocyclic indole, indazole or imidazole moieties using the mechanochemical approach. The
corresponding aldehydes were selected because of the importance of these N-heterocyclic fragments
in a large number of natural or synthetic biologically active molecules. Indeed, compounds bearing
We decided to synthesize a series of isonicotinoylhydrazones derivatives bearing various
N-heterocyclic indole, indazole or imidazole moieties using the mechanochemical approach. The corresponding aldehydes were selected because of the importance of these N-heterocyclic 4 of 27 Molecules 2017, 22, 1457 fragments in a large number of natural or synthetic biologically active molecules. Indeed, compounds
bearing these frames may exhibit various activities, i.e., antibacterial, anticancer, antioxidant,
anti-inflammatory, anti-diabetic, antiviral, anti-proliferative, antituberculosis, antispermatogenic or
antipsychotic activities [63–67]. Mechanosynthesis of Isonicotinoyl Hydrazones
2.1. Chemistry
Mechanosynthesis of Isonicotinoyl Hydra ones Molecules 2017, 22, 1457
4 of 27
these frames may exhibit various activities, i.e., antibacterial, anticancer, antioxidant, anti-
Molecules 2017, 22, 1457
4 of 27
these frames may exhibit various activities, i.e., antibacterial, anticancer, antioxidant, anti-
Molecules 2017, 22, 1457
4 of 27
these frames may exhibit various activities
i e
antibacterial
anticancer
antioxidant
anti-
Molecules 2017, 22, 1457
4 of 27
these frames may exhibit various activities
i e
antibacterial
anticancer
antioxidant
anti-
Molecules 2017, 22, 1457
4 of 27
Molecules 2017, 22, 1457
4 of 27
Molecules 2017, 22, 1457
4 of 27
Molecules 2017, 22, 1457
4 of 27
Molecules 2017, 22, 1457
4 of 27
Molecules 2017, 22, 1457
4 of 27 The
reaction
described
for
phenolic
compounds
was
firstly
used
with
the
4-methyl-5-imidazolecarboxaldehyde as model of heterocyclic aldehyde. However, in spite
of the milling was carried out by up to eight hours, TLC and NMR analysis showed incomplete
conversion. In that respect, we evaluated the efficiency of the reaction in acidic media. inflammatory, anti-diabetic, antiviral, anti-proliferative, antituberculosis, antispermatogenic or
antipsychotic activities [63–67]. The reaction described for phenolic compounds was firstly used with the 4-methyl-5-
imidazolecarboxaldehyde as model of heterocyclic aldehyde. However, in spite of the milling was
carried out by up to eight hours TLC and NMR analysis showed incomplete conversion In that
inflammatory, anti-diabetic, antiviral, anti-proliferative, antituberculosis, antispermatogenic or
antipsychotic activities [63–67]. The reaction described for phenolic compounds was firstly used with the 4-methyl-5-
imidazolecarboxaldehyde as model of heterocyclic aldehyde. However, in spite of the milling was
carried out by up to eight hours TLC and NMR analysis showed incomplete conversion In that
these frames may exhibit various activities, i.e., antibacterial, anticancer, antioxidant, anti
inflammatory, anti-diabetic, antiviral, anti-proliferative, antituberculosis, antispermatogenic or
antipsychotic activities [63–67]. The reaction described for phenolic compounds was firstly used with the 4-methyl-5-
imidazolecarboxaldehyde as model of heterocyclic aldehyde. However, in spite of the milling was
ese
a
es
ay e
ibi
a ious ac i i ies, i e , a
ibac e ia , a
ica ce , a
io ida
, a
i
inflammatory, anti-diabetic, antiviral, anti-proliferative, antituberculosis, antispermatogenic or
antipsychotic activities [63–67]. The reaction described for phenolic compounds was firstly used with the 4-methyl-5-
imidazolecarboxaldehyde as model of heterocyclic aldehyde. Mechanosynthesis of Isonicotinoyl Hydrazones
2.1. Chemistry
Mechanosynthesis of Isonicotinoyl Hydra ones However, in spite of the milling was
these frames may exhibit various activities, i.e., antibacterial, anticancer, antioxidant, anti-
inflammatory, anti-diabetic, antiviral, anti-proliferative, antituberculosis, antispermatogenic or
antipsychotic activities [63–67]. The reaction described for phenolic compounds was firstly used with the 4-methyl-5-
imidazolecarboxaldehyde as model of heterocyclic aldehyde. However, in spite of the milling was
these frames may exhibit various activities, i.e., antibacterial, anticancer, antioxidant, anti-
inflammatory, anti-diabetic, antiviral, anti-proliferative, antituberculosis, antispermatogenic or
antipsychotic activities [63–67]. The reaction described for phenolic compounds was firstly used with the 4-methyl-5-
imidazolecarboxaldehyde as model of heterocyclic aldehyde. However, in spite of the milling was
these frames may exhibit various activities, i.e., antibacterial, anticancer, antioxidant, anti-
inflammatory, anti-diabetic, antiviral, anti-proliferative, antituberculosis, antispermatogenic or
antipsychotic activities [63–67]. The reaction described for phenolic compounds was firstly used with the 4-methyl-5-
i
id
l
b
ld h d
d l
f h t
li
ld h d
H
i
it
f th
illi
these frames may exhibit various activities, i.e., antibacterial, anticancer, antioxidant, anti-
inflammatory, anti-diabetic, antiviral, anti-proliferative, antituberculosis, antispermatogenic or
antipsychotic activities [63–67]. The reaction described for phenolic compounds was firstly used with the 4-methyl-5-
i
id
l
b
ld h d
d l
f h t
li
ld h d
H
i
it
f th
illi
these frames may exhibit various activities, i.e., antibacterial, anticancer, antioxidant, anti-
inflammatory, anti-diabetic, antiviral, anti-proliferative, antituberculosis, antispermatogenic or
antipsychotic activities [63–67]. The reaction described for phenolic compounds was firstly used with the 4-methyl-5-
these frames may exhibit various activities, i.e., antibacterial, anticancer, antioxidant, anti-
inflammatory, anti-diabetic, antiviral, anti-proliferative, antituberculosis, antispermatogenic or
antipsychotic activities [63–67]. The reaction described for phenolic compounds was firstly used with the 4-methyl-5- The reaction was thus carried out in the presence of AlCl3 or of p-toluenesulfonic acid (p-TSA);
the latter one showed the best result when using 50% mol of p-TSA. TLC showed the consumption
of the reagents and the consequent appearance of the hydrazone, which was confirmed by 1H- and
13C-NMR analysis. carried out by up to eight hours, TLC and NMR analysis showed incomplete conversion. In that
respect, we evaluated the efficiency of the reaction in acidic media. The reaction was thus carried out in the presence of AlCl3 or of p-toluenesulfonic acid (p-TSA);
the latter one showed the best result when using 50% mol of p-TSA. Mechanosynthesis of Isonicotinoyl Hydrazones
2.1. Chemistry
Mechanosynthesis of Isonicotinoyl Hydra ones TLC showed the consumption of
the reagents and the consequent appearance of the hydrazone, which was confirmed by 1H- and 13C-
carried out by up to eight hours, TLC and NMR analysis showed incomplete conversion. In that
respect, we evaluated the efficiency of the reaction in acidic media. The reaction was thus carried out in the presence of AlCl3 or of p-toluenesulfonic acid (p-TSA);
the latter one showed the best result when using 50% mol of p-TSA. TLC showed the consumption of
the reagents and the consequent appearance of the hydrazone, which was confirmed by 1H- and 13C-
carried out by up to eight hours, TLC and NMR analysis showed incomplete conversion. In that
respect, we evaluated the efficiency of the reaction in acidic media. The reaction was thus carried out in the presence of AlCl3 or of p-toluenesulfonic acid (p-TSA);
the latter one showed the best result when using 50% mol of p-TSA. TLC showed the consumption of
the reagents and the consequent appearance of the hydrazone which was confirmed by 1H- and 13C-
carried out by up to eight hours, TLC and NMR analysis showed incomplete conversion. In that
respect, we evaluated the efficiency of the reaction in acidic media. The reaction was thus carried out in the presence of AlCl3 or of p-toluenesulfonic acid (p-TSA);
the latter one showed the best result when using 50% mol of p-TSA. TLC showed the consumption of
the reagents and the consequent appearance of the hydrazone which was confirmed by 1H- and 13C-
imidazolecarboxaldehyde as model of heterocyclic aldehyde. However, in spite of the milling was
carried out by up to eight hours, TLC and NMR analysis showed incomplete conversion. In that
respect, we evaluated the efficiency of the reaction in acidic media. The reaction was thus carried out in the presence of AlCl3 or of p-toluenesulfonic acid (p-TSA);
the latter one showed the best result when using 50% mol of p-TSA. TLC showed the consumption of
imidazolecarboxaldehyde as model of heterocyclic aldehyde. However, in spite of the milling was
carried out by up to eight hours, TLC and NMR analysis showed incomplete conversion. In that
respect, we evaluated the efficiency of the reaction in acidic media. The reaction was thus carried out in the presence of AlCl3 or of p-toluenesulfonic acid (p-TSA);
the latter one showed the best result when using 50% mol of p-TSA. Mechanosynthesis of Isonicotinoyl Hydrazones
2.1. Chemistry
Mechanosynthesis of Isonicotinoyl Hydra ones 3 (98%) [a]
3 (98%) [a]
3 (98%) [a]
3 (98%) [a]
) Derived From Isoniazid
6) Derived From Isoniazid
) Derived From Isoniazid
6) Derived From Isoniazid
) Derived From Isoniazid
6) Derived From Isoniazid 2 (80%) [a]
2 (80%) [a]
y
y
2 (80%) [a]
y
y
2 (80%) [a]
Heterocyclic Hydrazone
(80%) [ ]
Heterocyclic Hydrazon
(80%) [ ]
Heterocyclic Hydrazone
Heterocyclic Hydrazon
Heterocyclic Hydrazone
Heterocyclic Hydrazon 2 (80%) [a]
2 (80%) [a]
2 (80%) [a]
2 (80%) [a (98%) [a]
3 (98%) [a]
(98%) [a]
3 (98%) [a] 5 (99%) [a]
5 (99%) [a]
5 (99%) [a]
5 (99%) [a]
3 (98%) [a]
5 (99%) [a]
3 (98%) [a]
5 (99%) [a]
3 (98%) [a]
(99%) [ ]
3 (98%) [a]
5 (99%) [ ]
3 (98%) [a]
3 (98%) [a] Indazole derivatives
4 (98%) [a]
Indazole derivatives
4 (98%) [a]
Indazole derivatives
Indazole derivatives
4 (98%) [a]
Indazole derivatives
4 (98%) [a]
(
)
Indazole derivatives
4 (98%) [a]
(
)
Indazole derivatives
4 (98%) [a]
2 (80%) [a]
Indazole derivatives
2 (80%) [a]
Indazole derivatives
2 (80%) [a]
Indazole derivatives
2 (80%) [a]
Indazole derivatives tives
4 (98%) [a]
vatives
4 (98%) [a]
stives
4 (98%) [a]
vatives
4 (98%) [a]
(
)
tives
4 (98%) [a]
(
)
vatives
4 (98%) [a]
2 (80%) [a]
tives
2 (80%) [a]
vatives
2 (80%) [a]
tives
2 (80%) [a]
vatives Indazole derivativ
Indazole derivat
Indazole derivatives
Indazole derivativ
Indazole deriva
Indazole derivativ
Indazole derivat
Indazole derivativ
Indazole derivat 5 (99%) [a]
5 (99%) [a]
5 (99%) [a]
5 (99%) [a]
5 (99%) [a]
5 (99%) [a] 4 (98%) [a]
4 (98%) [a]
4 (98%) [a]
4 (98%) [a]
4 (98%) [a]
4 (98%) [a] 7 (94%) [a]
7 (94%) [a]
7 (94%) [a]
7 (94%) [a]
7 (94%) [a]
7 (94%) [a]
7 (94%) [a]
7 (94%) [a]
5 (99%) [ ]
7 (94%) [ ]
5 (99%)
7 (94%) [a] 6 (99%) [a]
6 (99%) [a]
6 (99%) [a]
6 (99%) [a]
6 (99%) [a]
6 (99%) [a]
(
)
6 (99%) [a]
(
)
6 (99%) [a]
4 (98%) [a]
6 (99%) [ ]
4 (98%) [a]
6 (99%) [a] Indole derivatives 7 (94%)
7 (94%)
7 (94%) [a]
7 (94%) [a]
7 (94%) [a]
7 (94%) [a]
7 (94%) [a]
7 (94%) [a]
7 (94%) [a]
7 (94%) [a] 6 (99%)
6 (99%)
6 (99%) [a]
6 (99%) [a
6 (99%) [a]
6 (99%) [a]
6 (99%) [a]
6 (99%) [a]
6 (99%) [ ]
6 (99%) [a] 9 (99%) [a]
9 (99%) [a]
9 (99%) [a]
9 (99%) [a]
9 (99%) [a]
9 (99%) [a]
7 (94%)
(9 %)
7 (94%) [a]
7 (94%) [a] 8 (99%) [a]
8 (99%) [a]
8 (99%) [a]
8 (99%) [a]
8 (99%) [a]
8 (99%) [a]
8 (99%) [a]
8 (99%) [a]
6 (99%) [ ]
8 (99%) [a]
6 (99%)
8 (99%) [a] 8 (99%) [ ]
8 (99%)
8 (99%) [a]
8 (99%) [a]
8 (99%) [a]
8 (99%) [a]
8 (99%) [a]
8 (99%) [a] 11 (99%) [a]
nate p-TSA. Mechanosynthesis of Isonicotinoyl Hydrazones
2.1. Chemistry
Mechanosynthesis of Isonicotinoyl Hydra ones TLC showed the consumption of
imidazolecarboxaldehyde as model of heterocyclic aldehyde. However, in spite of the milling was
carried out by up to eight hours, TLC and NMR analysis showed incomplete conversion. In that
respect, we evaluated the efficiency of the reaction in acidic media. The reaction was thus carried out in the presence of AlCl3 or of p-toluenesulfonic acid (p-TSA);
the latter one showed the best result when using 50% mol of p-TSA. TLC showed the consumption of
imidazolecarboxaldehyde as model of heterocyclic aldehyde. However, in spite of the milling was
carried out by up to eight hours, TLC and NMR analysis showed incomplete conversion. In that
respect, we evaluated the efficiency of the reaction in acidic media. The reaction was thus carried out in the presence of AlCl3 or of p-toluenesulfonic acid (p-TSA);
the latter one showed the best result when using 50% mol of p-TSA. TLC showed the consumption of
imidazolecarboxaldehyde as model of heterocyclic aldehyde. However, in spite of the milling was
carried out by up to eight hours, TLC and NMR analysis showed incomplete conversion. In that
respect, we evaluated the efficiency of the reaction in acidic media. The reaction was thus carried out in the presence of AlCl3 or of p-toluenesulfonic acid (p-TSA);
the latter one showed the best result when using 50% mol of p TSA TLC showed the consumption of
imidazolecarboxaldehyde as model of heterocyclic aldehyde. However, in spite of the milling was
carried out by up to eight hours, TLC and NMR analysis showed incomplete conversion. In that
respect, we evaluated the efficiency of the reaction in acidic media. The reaction was thus carried out in the presence of AlCl3 or of p-toluenesulfonic acid (p-TSA);
the latter one showed the best result when using 50% mol of p TSA TLC showed the consumption of The hydrazones listed in Table 1 were thus obtained with a high transformation ratio in grinding
times of 2 h. NMR analysis. The hydrazones listed in Table 1 were thus obtained with a high transformation ratio in grinding
i
f 2 h
NMR analysis. The hydrazones listed in Table 1 were thus obtained with a high transformation ratio in grinding
i
f 2 h
the reagents and the consequent appearance of the hydrazone, which was confirmed by 1H- and 13C-
NMR analysis. Mechanosynthesis of Isonicotinoyl Hydrazones
2.1. Chemistry
Mechanosynthesis of Isonicotinoyl Hydra ones The hydrazones listed in Table 1 were thus obtained with a high transformation ratio in grinding
the reagents and the consequent appearance of the hydrazone, which was confirmed by H and C
NMR analysis. The hydrazones listed in Table 1 were thus obtained with a high transformation ratio in grinding
the reagents and the consequent appearance of the hydrazone, which was confirmed by 1H- and 13C-
NMR analysis. Th h d
li t d i T bl 1
th
bt i
d
ith
hi h t
f
ti
ti i
i di
the reagents and the consequent appearance of the hydrazone, which was confirmed by 1H- and 13C-
NMR analysis. Th h d
li t d i T bl 1
th
bt i
d
ith
hi h t
f
ti
ti i
i di
the latter one showed the best result when using 50% mol of p TSA. TLC showed the consumption of
the reagents and the consequent appearance of the hydrazone, which was confirmed by 1H- and 13C-
NMR analysis. the latter one showed the best result when using 50% mol of p TSA. TLC showed the consumption of
the reagents and the consequent appearance of the hydrazone, which was confirmed by 1H- and 13C-
NMR analysis. the latter one showed the best result when using 50% mol of p-TSA. TLC showed the consumption of
the reagents and the consequent appearance of the hydrazone, which was confirmed by 1H- and 13C-
NMR analysis. the latter one showed the best result when using 50% mol of p-TSA. TLC showed the consumption of
the reagents and the consequent appearance of the hydrazone, which was confirmed by 1H- and 13C-
NMR analysis. Table 1. Hydrazones 2–11 produced mechanochemically by reacting INH and imidazolic, indazolic or
indolic aldehydes. The reaction was catalyzed by p-TSA. Table 1. Hydrazones 2–11 produced mechanochemically by reacting INH and imidazolic, indazolic
i d li
ld h d
Th
ti
t l
d b
TSA
Table 1. Hydrazones 2–11 produced mechanochemically by reacting INH and imidazolic, indazolic
i d li
ld h d
Th
ti
t l
d b
TSA
times of 2 h. Table 1. Hydrazones 2–11 produced mechanochemically by reacting INH and imidazolic, indazolic
times of 2 h. Table 1. Hydrazones 2–11 produced mechanochemically by reacting INH and imidazolic, indazolic
y
g
g
g
times of 2 h. Mechanosynthesis of Isonicotinoyl Hydrazones
2.1. Chemistry
Mechanosynthesis of Isonicotinoyl Hydra ones According to TLC, 1H-
11 (99%) [a]
minate p-TSA. According to TLC, 1H-
9 (99%)
11 (99%) [a]
nate p-TSA. According to TLC, 1H-
9 (99%)
11 (99%) [a]
minate p-TSA. According to TLC, 1H-
9 (99%) [a]
11 (99%) [a]
nate p TSA According to TLC
1H
9 (99%) [a]
11 (99%) [a]
minate p TSA According to TLC
1H
9 (99%) [a]
11 (99%) [a]
9 (99%) [a]
11 (99%) [a]
9 (99%) [a]
11 (99%) [a]
9 (99%) [a]
11 (99%) [a] 9 (99%)
9 (99%)
9 (99%) [a]
9 (99%) [a]
9 (99%) [a]
9 (99%) [a]
9 (99%) [a]
9 (99%) [a] 10 (91%) [a]
ing with NaHCO3 aqueous solution to el
onversions were quantitative
10 (91%) [a]
shing with NaHCO3 aqueous solution to
conversions were quantitative
10 (91%) [a]
ing with NaHCO3 aqueous solution to el
10 (91%) [a]
shing with NaHCO3 aqueous solution to
10 (91%) [a]
ing with NaHCO3 aqueous solution to el
10 (91%) [a]
shing with NaHCO3 aqueous solution to
8 (99%) [ ]
10 (91%) [a]
h
O
l
l
8 (99%)
10 (91%) [a]
h
h
CO
l
8 (99%) [a]
10 (91%) [a]
8 (99%) [a]
10 (91%) [a] According to
According t
According to
. According t
11 (99%) [a]
According to
11 (99%) [a]
According to
11 (99%) [a]
11 (99%) [a]
11 (99%) [a]
11 (99%) [a] CO3 aqueous
re quantitativ
HCO3 aqueou
were quantitat
CO3 aqueous
HCO3 aqueou
10 (91%) [a]
CO3 aqueous
10 (91%) [a]
HCO3 aqueou
10 (91%) [a]
10 (91%) [a]
10 (91%) [a]
10 (91%) [a] NM
a
MS,
e co
e sio s
e e qua
i a i e
It is still important to mention that, differently from the phenolic hydrazones, a melting was
a
,
e o
e
io
e e qua
i a i e
It is still important to mention that, differently from the phenolic hydrazones, a melting wa
NMR and MS, the conversions were quantitative. It is still important to mention that differently from the phenolic hydrazones a melting was
NMR and MS, the conversions were quantitative. It is still important to mention that differently from the phenolic hydrazones a melting w
g
q
p
g
,
NMR and MS, the conversions were quantitative. g
q
p
g
,
NMR and MS, the conversions were quantitative. Molecules 2017, 22, 1457 5 of 27 Molecules 2017, 22, 1457 It is still important to mention that, differently from the phenolic hydrazones, a melting was
produced when the p-TSA was added, and, therefore, the reaction was not fully in solid-state. The formation of a fluid phase is vastly found for solid mixtures (eutectic melting) [68] and surely
contributed to reach high conversions in short times of grinding for these hydrazones. Molecules 2017, 22, 1457
5 of 27
formation of a fluid phase is vastly found for solid mixtures (eutectic melting) [68] and surely
contributed to reach high conversions in short times of grinding for these hydrazones. 2.2. Structural Analysis of Isonicotinoyl Hydrazones by DFT and NMR: Determination of the Free Activation
Energy (∆G̸=) between Conformers of Selected Compounds 1a and 5
2.2. Structural Analysis of Isonicotinoyl Hydrazones by DFT and NMR: Determination of the Free
Activation Energy (G≠) between Conformers of Selected Compounds 1a and 5 The structures of all the hydrazones were identified and fully characterized by 1H- and 13C-NMR,
MS and HRMS, FTIR and UV-vis (see Supplementary Materials). The structures of all the hydrazones were identified and fully characterized by 1H- and 13C-NMR,
MS and HRMS, FTIR and UV-vis (see Supplementary Materials). C
h
d
ll
l h d
h
d h
f
f Concerning the NMR data, all isonicotinoyl hydrazones showed the presence of conformers in
dimethylsulfoxide (DMSO) solution. NMR spectral and theoretical studies previously demonstrated
that acylhydrazones generally exist predominantly or solely as a mixture of isomers [69–71]. In theory,
N-acylhydrazones may exist with four possible arrangements in respect to (E/Z)-configurational
isomers relative to the C=N bond and (E’/Z’)-rotamers caused by inversion of the amide bonds
C(O)NH, here named cis/trans amide conformers (Figure 3) [69,72]. Concerning the NMR data, all isonicotinoyl hydrazones showed the presence of conformers in
dimethylsulfoxide (DMSO) solution. NMR spectral and theoretical studies previously demonstrated
that acylhydrazones generally exist predominantly or solely as a mixture of isomers [69–71]. In
theory, N-acylhydrazones may exist with four possible arrangements in respect to (E/Z)-
configurational isomers relative to the C=N bond and (E’/Z’)-rotamers caused by inversion of the
amide bonds C(O)NH, here named cis/trans amide conformers (Figure 3) [69,72]. Figure 3. E/Z-configurational isomers and cis/trans amide conformers for N-acylhydrazones. Figure 3. E/Z-configurational isomers and cis/trans amide conformers for N-acylhydrazones. Figure 3. E/Z-configurational isomers and cis/trans amide conformers for N-acylhydrazones. Figure 3. E/Z-configurational isomers and cis/trans amide conformers for N-acylhydrazones. Molecules 2017, 22, 1457 Although the four forms were considered, E/Z isomerization is generally not observed and the
Z geometric isomers are absent or present only in poor part. An exception is for R’ = 2-pyridyl, in
which strong intramolecular hydrogen bonds are present in the (Z)-form [70] mainly in less polar
Although the four forms were considered, E/Z isomerization is generally not observed and the Z
geometric isomers are absent or present only in poor part. An exception is for R’ = 2-pyridyl, in which
strong intramolecular hydrogen bonds are present in the (Z)-form [70] mainly in less polar solvents. solvents. While all isonicotinoyl hydrazones showed the presence of conformers in DMSO solution, for
study purposes, two derivatives were chosen to be further investigated: phenolic hydrazone (1a) and
indazole derivative (5). Both of them showed two sets of signals indicating the possibility of
equilibrium between rotamers in solution. Theoretical assessment of the existence of the isomers was
While all isonicotinoyl hydrazones showed the presence of conformers in DMSO solution, for
study purposes, two derivatives were chosen to be further investigated: phenolic hydrazone (1a)
and indazole derivative (5). Both of them showed two sets of signals indicating the possibility of
equilibrium between rotamers in solution. Theoretical assessment of the existence of the isomers was
carried out. carried out. The four structures of Z/E geometrical isomers and cis/trans amide conformers of 1a were
modeled by Density Functional theory (DFT), using Gaussian 09, firstly at HF/STO-3G level. The Z
conformers were found higher in energy than the E ones, around 6 kcal/mol (see Table S1 in the
Supplementary Materials). Thus, only the cisE and transE-isomers were then modeled at the B3LYP/6-
31+G(d,p) level and the frequencies calculations were performed on the optimized geometries at 298
The four structures of Z/E geometrical isomers and cis/trans amide conformers of 1a were modeled
by Density Functional theory (DFT), using Gaussian 09, firstly at HF/STO-3G level. The Z conformers
were found higher in energy than the E ones, around 6 kcal/mol (see Table S1 in the Supplementary
Materials). Thus, only the cisE and transE-isomers were then modeled at the B3LYP/6-31+G(d,p) level
and the frequencies calculations were performed on the optimized geometries at 298 K, showing all
positive frequencies and allowing evaluation of the Gibbs free energy. K, showing all positive frequencies and allowing evaluation of the Gibbs free energy. Mechanosynthesis of Isonicotinoyl Hydrazones
2.1. Chemistry
Mechanosynthesis of Isonicotinoyl Hydra ones [a] Yields after washing with NaHCO3 aqueous solution to eliminate p-TSA. According to TLC, 1H-
NMR and MS, the conversions were quantitative. [a] Yields after washing with NaHCO3 aqueous solution to eliminate p-TSA. According to TLC, 1H-
NMR and MS, the conversions were quantitative. [a] Yields after washing with NaHCO3 aqueous solution to eliminate p-TSA. According to TLC, 1H-
NMR and MS, the conversions were quantitative. [a] Yields after washing with NaHCO3 aqueous solution to eliminate p-TSA. According to TLC, 1H-
NMR and MS, the conversions were quantitative. [a] Yields after washing with NaHCO3 aqueous solution to eliminate p-TSA. According to TLC, 1H-NMR and MS,
the conversions were quantitative. Molecules 2017, 22, 1457 p
At the coalescence temperature Tc
At the coalescence temperature Tc kexch = π/√2 = 2.22· (Hz)
kexch = (kB·Tc/h)exp(−G≠/RTc) (Eyringss equation
G≠ = −RTcLn(kexch·h/kB·Tc)
with kB = 1.38 × 10−23 kJ/K, h = 6.626 × 10−34 J·s, and R
kexch = π∆ν/√2 = 2.22·∆ν (Hz)
kexch = (kB·Tc/h)exp(−∆G̸=/RTc) (Eyringss equation)
∆G̸= = −RTcLn(kexch·h/kB·Tc) J
J
J
The 1H-NMR study at increasing temperatures (from 298 K to 388 K) allo
with kB = 1.38 × 10−23 kJ/K, h = 6.626 × 10−34 J·s, and R = 8.314 J·mol−1·K−1. The 1H-NMR study at increasing temperatures (from 298 K to 388 K) allo
with kB = 1.38 × 10−23 kJ/K, h = 6.626 × 10−34 J·s, and R = 8.314 J·mol−1·K−1. of coalescence temperatures of the same signals of each isomer (Figure S1). Correlation of the
coalescence temperatures Tc with the difference in chemical shift of the signals led to G≠ following
the precedent equation described (Supplementary Materials, Table S3). The mean value obtained on
several signals led to G≠ = 17.58 kcal·mol−1. This experimental value is in agreement with the
calculated one of 17.63 kcal·mol−1 at the B3LYP/6-31+G(d,p) level. The same study was performed on compound 5, which possesses eight isomers. As previously
d
b d
h
f
h h
h
h
/
O
h
d h
h
The 1H-NMR study at increasing temperatures (from 298 K to 388 K) allowed the determination of
coalescence temperatures of the same signals of each isomer (Figure S1). Correlation of the coalescence
temperatures Tc with the difference in chemical shift of the signals led to ∆G̸= following the precedent
equation described (Supplementary Materials, Table S3). The mean value obtained on several signals
led to ∆G̸= = 17.58 kcal·mol−1. This experimental value is in agreement with the calculated one of
17.63 kcal·mol−1 at the B3LYP/6-31+G(d,p) level. described, the optimization of geometries on the height isomers at the HF/STO-3G showed that the
Z isomers are higher in energy (6–7.5 kcal/mol) (Supplementary Materials, Table S4). Tsshus, the
calculations were carried out at the B3LYP/6-31+G(d,p) level on the four isomers: cis and trans E-
isomers and the two rotamers, in the gas phase and in the DMSO modeled by the SMD polarizable
continuum model. Boltzmann analysis was used to determine the relative distribution of each
conformer both in the gas phase and in the DMSO continuum model. Molecules 2017, 22, 1457 Following Boltzmann distribution, (Pi/Pj = exp((Gj − Gi)/kBT), cisE-isomer was present at 92% and
transE at 8% in the gas phase, whereas in DMSO, using the polarizable solvent continuum model
(SMD) th
ti
i
t d
i /t
6/94 (T bl 2)
Following Boltzmann distribution, (Pi/Pj = exp((Gj −Gi)/kBT), cisE-isomer was present at 92%
and transE at 8% in the gas phase, whereas in DMSO, using the polarizable solvent continuum model
(SMD), the ratio was inverted: cis/trans: 6/94 (Table 2). 6 of 27
6 of 27 6 of 27
6 of 27 Molecules 2017, 22, 1457
Molecules 2017, 22, 1457 Table 2. Geometries and energies of minima and transition state for cis and trans E-isomers of 1a
obtained at B3LYP/6-31+G(d,p) level in the gas phase and using the DMSO polarizable continuum
model (SMD). Table 2. Geometries and energies of minima and transition state for cis and trans E-isomers of 1a
obtained at B3LYP/6-31+G(d,p) level in the gas phase and using the DMSO polarizable continuum
model (SMD). Table 2. Geometries and energies of minima and transition state for cis and trans E-isomers of 1a
obtained at B3LYP/6-31+G(d,p) level in the gas phase and using the DMSO polarizable continuum
model (SMD). Table 2. Geometries and energies of minima and transition state for cis and trans E-isomers of 1a
obtained at B3LYP/6-31+G(d,p) level in the gas phase and using the DMSO polarizable continuum
model (SMD). transE-1a
cisE-1a
TS-E-1a
In the Gas Phase
E (ua)
G (ua)
G (kcal/mol)
%
transE_1a
−816.730569
−816.553707
1.47
8
cisE_1a
−816.733307
−816.55605
0
92
In DMSO
E (ua)
G (ua)
G (kcal/mol)
%
transE_1a
−816.763427
−816.585816
−1.68
94
cisE_1a
−816.761415
−816.583145
0
6
TS_1a
−816.765271
−816.557724
17.63
-
In the Gas Phase
E (ua)
G (ua)
∆G (kcal/mol)
%
transE_1a
−816.730569
−816.553707
1.47
8
cisE_1a
−816.733307
−816.55605
0
92
In DMSO
E (ua)
G (ua)
∆G (kcal/mol)
%
transE_1a
−816.763427
−816.585816
−1.68
94
cisE_1a
−816.761415
−816.583145
0
6
TS_1a
−816.765271
−816.557724
17.63
- A transition state (TS-1a) was found between transE and cisE, characterized by its imaginary
frequency at −115.79 cm−1. The difference between Gibbs free energy of the transition state and the
energy of the cis-E-isomer (G≠) was equal to 17.63 kcal·mol−1. A transition state (TS-1a) was found between transE and cisE, characterized by its imaginary
frequency at −115.79 cm−1. Molecules 2017, 22, 1457 The difference between Gibbs free energy of the transition state and the
energy of the cis-E-isomer (∆G̸=) was equal to 17.63 kcal·mol−1. e e gy o
e cis E iso
e ( G )
as equa
o
63
a
o
The NMR chemical shift calculations were then performed at B3LYP/6-311+ (2d,p) level, using
the DMSO polarizable continuum model (PCM). Isotropic shielding constants () for 1H and 13C
nuclei were transformed in chemical shift (δ) using linear regression procedure proposed by
Lodewyk [73]. Calculated values are presented in the Supplementary Materials (Table S2). By
comparing calculated values and experimental ones, we unambiguously concluded that the transE-
isomer is the major one. This result is also in agreement with the calculated Gibbs free energy values
in DMSO, at 298 K, as transE-isomer is −1.68 kcal/mol lower than the cis (ratio cis/trans around 6/94). gy
q
The NMR chemical shift calculations were then performed at B3LYP/6-311+ (2d,p) level, using
the DMSO polarizable continuum model (PCM). Isotropic shielding constants (σ) for 1H and 13C nuclei
were transformed in chemical shift (δ) using linear regression procedure proposed by Lodewyk [73]. Calculated values are presented in the Supplementary Materials (Table S2). By comparing calculated
values and experimental ones, we unambiguously concluded that the transE-isomer is the major one. This result is also in agreement with the calculated Gibbs free energy values in DMSO, at 298 K,
as transE-isomer is −1.68 kcal/mol lower than the cis (ratio cis/trans around 6/94). gy
(
)
q
The NMR chemical shift calculations were then performed at B3LYP/6-311+ (2d,p) level, using
the DMSO polarizable continuum model (PCM). Isotropic shielding constants () for 1H and 13C
nuclei were transformed in chemical shift (δ) using linear regression procedure proposed by
The NMR chemical shift calculations were then performed at B3LYP/6-311+ (2d,p) level, using
the DMSO polarizable continuum model (PCM). Isotropic shielding constants (σ) for 1H and 13C nuclei
were transformed in chemical shift (δ) using linear regression procedure proposed by Lodewyk [73]. ,
,
/
(
/
/
)
This activation energy can also be measured by 1H-NMR analysis, by determining the
coalescence temperature Tc. This activation energy can also be measured by 1H-NMR analysis, by determining the coalescence
temperature Tc. 2.3.1. Hydrolytic Stability
2.3.1. Hydrolytic Stability
2.3.1. Hydrolytic Stability
2.3.1. Hydrolytic Stability
2.3.1. Hydrolytic Stability Stability studies were carried out in order to confirm that biological activities evidenced for
isonicotinoyl hydrazones arise from the tested compounds, and not from the hydrolysis of the imine
bond. UV-vis spectrophotometry at the λmax of absorbance of the related molecule was used to
monitor the stability of the most prominent synthesized compounds. The study was carried out for
all compounds; here, we present the results for some of them while all other data are in the
Supplementary Materials. Table 4 summarizes the conditions used and the stability results observed
for 1a–1d, 5 and 7 compounds. Stability studies were carried out in order to confirm that biological activities evidenced for
isonicotinoyl hydrazones arise from the tested compounds, and not from the hydrolysis of the imine
bond. UV-vis spectrophotometry at the λmax of absorbance of the related molecule was used to
monitor the stability of the most prominent synthesized compounds. The study was carried out for
all compounds; here, we present the results for some of them while all other data are in the
Supplementary Materials. Table 4 summarizes the conditions used and the stability results observed
for 1a–1d, 5 and 7 compounds. Stability studies were carried out in order to confirm that biological activities evidenced for
isonicotinoyl hydrazones arise from the tested compounds, and not from the hydrolysis of the imine
bond. UV-vis spectrophotometry at the λmax of absorbance of the related molecule was used to
monitor the stability of the most prominent synthesized compounds. The study was carried out for
all compounds; here, we present the results for some of them while all other data are in the
Supplementary Materials. Table 4 summarizes the conditions used and the stability results observed
for 1a–1d, 5 and 7 compounds. Stability studies were carried out in order to confirm that biological activities evidenced for
isonicotinoyl hydrazones arise from the tested compounds, and not from the hydrolysis of the imine
bond. UV-vis spectrophotometry at the λmax of absorbance of the related molecule was used to
monitor the stability of the most prominent synthesized compounds. The study was carried out for
all compounds; here, we present the results for some of them while all other data are in the
Supplementary Materials. Table 4 summarizes the conditions used and the stability results observed
for 1a–1d, 5 and 7 compounds. Molecules 2017, 22, 1457 Isomer
Geometry (In Gas Phase)
G (In Gas Phase)
%
G (In DMSO)
%
transE_5_1
−888.90736
0.34
−888.94471
28.22
transE_5_2
−888.909926
5.09
−888.94528
51.50
cisE_5_1
−888.910465
9.0
−888.941968
1.54
cisE_5_2
−888.912591
85.6
−888.944326
18.72
−888.90736
0.34
−888.94471
28.22
transE_5_2
( ,p)
g
p
(
)
Isomer
Geometry (In Gas Phase)
G (In Gas Phase)
%
G (In DMSO)
%
transE_5_1
−888.90736
0.34
−888.94471
28.22
transE_5_2
−888.909926
5.09
−888.94528
51.50
cisE_5_1
−888.910465
9.0
−888.941968
1.54
cisE_5_2
−888.912591
85.6
−888.944326
18.72
−888.909926
5.09
−888.94528
51.50
cisE_5_1
5 at the B3LYP/6 31 G(d,p) in the gas phase and in the DMSO continuum solvent model (SMD). Isomer
Geometry (In Gas Phase)
G (In Gas Phase)
%
G (In DMSO)
%
transE_5_1
−888.90736
0.34
−888.94471
28.22
transE_5_2
−888.909926
5.09
−888.94528
51.50
cisE_5_1
−888.910465
9.0
−888.941968
1.54
cisE_5_2
−888.912591
85.6
−888.944326
18.72
−888.910465
9.0
−888.941968
1.54
cisE_5_2
5 at the B3LYP/6 31 G(d,p) in the gas phase and in the DMSO continuum solvent model (SMD). Isomer
Geometry (In Gas Phase)
G (In Gas Phase)
%
G (In DMSO)
%
transE_5_1
−888.90736
0.34
−888.94471
28.22
transE_5_2
−888.909926
5.09
−888.94528
51.50
cisE_5_1
−888.910465
9.0
−888.941968
1.54
cisE_5_2
−888.912591
85.6
−888.944326
18.72
−888.912591
85.6
−888.944326
18.72 1H- and 13C-NMR chemical shifts were calculated as previously described at the B3LYP/6-
311+G(2d,p) using DMSO continuum model (PCM) and taking into account the Boltzmann
distribution of the two conformers for each isomer, which means transE-1/transE-2: 35%/65%, and
cisE-1/cisE-2: 8%/92%. The comparison of calculated chemical shifts and experimental ones of both 1H
and 13C (Supplementary Materials, Figure S2 and Table S5), showed that trans isomer is the major
compound in DMSO. 1H- and 13C-NMR chemical shifts were calculated as previously described at the B3LYP/6-
311+G(2d,p) using DMSO continuum model (PCM) and taking into account the Boltzmann
distribution of the two conformers for each isomer, which means transE-1/transE-2: 35%/65%, and
cisE-1/cisE-2: 8%/92%. The comparison of calculated chemical shifts and experimental ones of both 1H
and 13C (Supplementary Materials, Figure S2 and Table S5), showed that trans isomer is the major
compound in DMSO. Molecules 2017, 22, 1457 The a ti atio
e e
y
a e aluated by 1H NMR a aly i at i
ea i
te
e atu e (f o
298
1H- and 13C-NMR chemical shifts were calculated as previously described at the B3LYP/6-
311+G(2d,p) using DMSO continuum model (PCM) and taking into account the Boltzmann
distribution of the two conformers for each isomer, which means transE-1/transE-2: 35%/65%, and
cisE-1/cisE-2: 8%/92%. The comparison of calculated chemical shifts and experimental ones of both 1H
and 13C (Supplementary Materials, Figure S2 and Table S5), showed that trans isomer is the major
compound in DMSO. Th
i
i
l
d b
1H NMR
l
i
i
i
(f
298
1H- and 13C-NMR chemical shifts were calculated as previously described at the B3LYP/6-
311+G(2d,p) using DMSO continuum model (PCM) and taking into account the Boltzmann
distribution of the two conformers for each isomer, which means transE-1/transE-2: 35%/65%, and
cisE-1/cisE-2: 8%/92%. The comparison of calculated chemical shifts and experimental ones of both 1H
and 13C (Supplementary Materials, Figure S2 and Table S5), showed that trans isomer is the major
compound in DMSO. Th
i
i
l
d b
1H NMR
l
i
i
i
(f
298
1H-
and
13C-NMR
chemical
shifts
were
calculated
as
previously
described
at
the
B3LYP/6-311+G(2d,p) using DMSO continuum model (PCM) and taking into account the Boltzmann
distribution of the two conformers for each isomer, which means transE-1/transE-2: 35%/65%, and
cisE-1/cisE-2: 8%/92%. The comparison of calculated chemical shifts and experimental ones of both
1H and 13C (Supplementary Materials, Figure S2 and Table S5), showed that trans isomer is the major
compound in DMSO. The activation energy was evaluated by 1H-NMR analysis at increasing temperatures (from 298
K to 388 K) and was evaluated at 17.8 kcal/mol (Supplementary Materials, Table S6) in the same order
as for compound 1a. The activation energy was evaluated by 1H-NMR analysis at increasing temperatures (from 298
K to 388 K) and was evaluated at 17.8 kcal/mol (Supplementary Materials, Table S6) in the same order
as for compound 1a. Th
b
ti
i
t
t
t i t d
t ti
i ht
h
i
t
The activation energy was evaluated by 1H-NMR analysis at increasing temperatures (from 298
K to 388 K) and was evaluated at 17.8 kcal/mol (Supplementary Materials, Table S6) in the same order
as for compound 1a. Molecules 2017, 22, 1457 Th
b
i
i
i
d
i
i h
h
i
The activation energy was evaluated by 1H-NMR analysis at increasing temperatures (from 298
K to 388 K) and was evaluated at 17.8 kcal/mol (Supplementary Materials, Table S6) in the same order
as for compound 1a. Th
b
i
i
i
d
i
i h
h
i
The activation energy was evaluated by 1H-NMR analysis at increasing temperatures (from 298 K
to 388 K) and was evaluated at 17.8 kcal/mol (Supplementary Materials, Table S6) in the same order as
for compound 1a. These observations are important as restricted rotations might have an impact on
pharmacological properties. These observations are important as restricted rotations might have an impact on
pharmacological properties. These observations are important as restricted rotations might have an impact on
pharmacological properties. These observations are important as restricted rotations might have an impact on
pharmacological properties. p
These observations are important as restricted rotations might have an impact on
pharmacological properties. 2.3. Physicochemical Studies of Some Isonicotinoyl Hydrazones
2.3. Physicochemical Studies of Some Isonicotinoyl Hydrazones
2.3. Physicochemical Studies of Some Isonicotinoyl Hydrazones
2.3. Physicochemical Studies of Some Isonicotinoyl Hydrazones
2.3. Physicochemical Studies of Some Isonicotinoyl Hydrazones Molecules 2017, 22, 1457 Geometries, Gibbs free energies and Boltzmann distribution of the four major conformers of
5 at the B3LYP/6 31+G(d p) in the gas phase and in the DMSO continuum solvent model (SMD)
Table 3. Geometries, Gibbs free energies and Boltzmann distribution of the four major conformers of
5 at the B3LYP/6-31+G(d,p) in the gas phase and in the DMSO continuum solvent model (SMD). Table 3. Geometries, Gibbs free energies and Boltzmann distribution of the four major conformers of
5 at the B3LYP/6-31+G(d p) in the gas phase and in the DMSO continuum solvent model (SMD)
Table 3. Geometries, Gibbs free energies and Boltzmann distribution of the four major conformers of
5 at the B3LYP/6-31+G(d p) in the gas phase and in the DMSO continuum solvent model (SMD) at the B3LYP/6-31+G(d,p) in the gas phase and in the DMSO continuum solvent model (SMD). Table 3. Geometries, Gibbs free energies and Boltzmann distribution of the four major conformers o
5 at the B3LYP/6 31+G(d p) in the gas phase and in the DMSO continuum solvent model (SMD)
Table 3. Geometries, Gibbs free energies and Boltzmann distribution of the four major conformers o
5 at the B3LYP/6-31+G(d,p) in the gas phase and in the DMSO continuum solvent model (SMD). Table 3. Geometries, Gibbs free energies and Boltzmann distribution of the four major conformers o
5 at the B3LYP/6-31+G(d p) in the gas phase and in the DMSO continuum solvent model (SMD)
Table 3. Geometries, Gibbs free energies and Boltzmann distribution of the four major conformers o
5 at the B3LYP/6-31+G(d p) in the gas phase and in the DMSO continuum solvent model (SMD) Isomer
Geometry (In Gas Phase)
G (In Gas Phase)
%
G (In DMSO)
%
transE_5_1
5 at the B3LYP/6 31+G(d,p) in the gas phase and in the DMSO continuum solvent model (SMD). Molecules 2017, 22, 1457 In the gas phase, cis compounds are the major ones, although, in the DMSO continuum, trans
h
E
%
i E
% (
bl
)
The same study was performed on compound 5, which possesses eight isomers. As previously
described, the optimization of geometries on the height isomers at the HF/STO-3G showed that
the Z isomers are higher in energy (6–7.5 kcal/mol) (Supplementary Materials, Table S4). Tsshus,
the calculations were carried out at the B3LYP/6-31+G(d,p) level on the four isomers: cis and trans
E-isomers and the two rotamers, in the gas phase and in the DMSO modeled by the SMD polarizable
continuum model. Boltzmann analysis was used to determine the relative distribution of each
conformer both in the gas phase and in the DMSO continuum model. 7 of 27 Molecules 2017, 22, 1457 In the gas phase, cis compounds are the major ones, although, in the DMSO continuum,
trans isomers are the major ones: transE: 80%, cisE: 20% (Table 3). Molecules 2017, 22, 1457
7 of 27
Molecules 2017, 22, 1457
7 of 27
Molecules 2017, 22, 1457
7 of 27
Molecules 2017, 22, 1457
7 of 27 Table 3. Geometries, Gibbs free energies and Boltzmann distribution of the four major conformers of 5
Table 3 Geo
et ies Gibbs f ee e e gies a d Bolt
a
dist ibutio
of the fou
ajo co fo
e s of
Table 3 Geometries Gibbs free energies and Boltzmann distribution of the four major conformers o
Table 3 Geometries Gibbs free energies and Boltzmann distribution of the four major conformers o
Table 3 Geometries Gibbs free energies and Boltzmann distribution of the four major conformers of Table 3. Geometries, Gibbs free energies and Boltzmann distribution of the four major conformers of 5
at the B3LYP/6-31+G(d p) in the gas phase and in the DMSO continuum solvent model (SMD)
Table 3. Geometries, Gibbs free energies and Boltzmann distribution of the four major conformers of
Table 3. Geometries, Gibbs free energies and Boltzmann distribution of the four major conformers of
Table 3. Geometries, Gibbs free energies and Boltzmann distribution of the four major conformers of
Table 3. Geometries, Gibbs free energies and Boltzmann distribution of the four major conformers of Table 3. Geometries, Gibbs free energies and Boltzmann distribution of the four major conformers of 5
at the B3LYP/6-31+G(d,p) in the gas phase and in the DMSO continuum solvent model (SMD). Table 3. 2.3.1. Hydrolytic Stability
2.3.1. Hydrolytic Stability
2.3.1. Hydrolytic Stability
2.3.1. Hydrolytic Stability
2.3.1. Hydrolytic Stability Stability studies were carried out in order to confirm that biological activities evidenced for
isonicotinoyl hydrazones arise from the tested compounds, and not from the hydrolysis of the imine
bond. UV-vis spectrophotometry at the λmax of absorbance of the related molecule was used to
monitor the stability of the most prominent synthesized compounds. The study was carried out for all
compounds; here, we present the results for some of them while all other data are in the Supplementary
Materials. Table 4 summarizes the conditions used and the stability results observed for 1a–1d, 5 and
7 compounds. p
As expected, UV-vis spectroscopy demonstrated that all the tested compounds are stable for a
prolonged time (up to 22 h–7 days) and no significant decomposition was observed. Only 5 showed a
very small reduction (3%) of the absorbance after 20 h. It is known that hydrazones possess greater 8 of 27
8 of 27 Molecules 2017, 22, 1457
Molecules 2017, 22, 1457 intrinsic hydrolytic stability than that of imines. In addition to the contribution of the NH-N=C in
electron delocalization, the resonance forms in acylhydrazones increase the negative-charge on the
C=N and thus, reduce its electrophilicity and the affinity to the nucleophile attack from water [74]. Furthermore, the repulsion of the lone pairs of the NH-N can be relieved in the conjugates [75]. Table 4. Stability study of hydrazones. Compound
Medium
Conc. (mol/L)
pH
Time
Stability
1a
28% EtOH/H2O
6.0 × 10−5
6.1
22 h
stable
1b
6.3 × 10−5
6.5
22 h
stable
1c
6.9 × 10−5
6.3
15 h
stable Table 4. Stability study of hydrazones. Compound
Medium
Conc. (mol/L)
pH
Time
Stability
1a
28%
EtOH/H2O
6.0 × 10−5
6.1
22 h
stable
1b
6.3 × 10−5
6.5
22 h
stable
1c
6.9 × 10−5
6.3
15 h
stable
1d
5.9 × 10−5
6.2
21 h
stable
5
5%
EtOH/PIPES
buffer (50 mM)
4.1 × 10−5
6.8
20 h
3% Abs. reduction
7
3.1 × 10−5
6.8
20 h
stable
7 days
5% Abs. reduction
1d
5.9 × 10−5
6.2
21 h
stable
5
5% EtOH/PIPES buffer (50 mM)
4.1 × 10−5
6.8
20 h
3% Abs. reduction
7
3.1 × 10−5
6.8
20 h
stable
7 days
5% Abs. reduction
As expected, UV-vis spectroscopy demonstrated that all the tested compounds are stable for a
prolonged time (up to 22 h–7 days) and no significant decomposition was observed. 2.3.2. pKa Determination
2.3.2. pKa Determination The acid dissociation constant (Ka, or more commonly expressed by pKa) is a very important
physicochemical parameter in a wide range of research areas, including the development of active
molecules due to solubility issues. The pKa of the molecules studied for stability could also be
determined by using UV-vis spectrometry based on the variation of the absorbance as function of
the pH due to the presence of chromophores close to the ionization site of the molecules. The molar
absorptivity varies according to the conjugation forms that dynamically change when and where the
molecule is charged by the effect of pH and protonation/dissociation. As an example, the different
protonation states for the hydrazone 1d are shown in Figure 4. The acid dissociation constant (Ka, or more commonly expressed by pKa) is a very important
physicochemical parameter in a wide range of research areas, including the development of active
molecules due to solubility issues. The pKa of the molecules studied for stability could also be
determined by using UV-vis spectrometry based on the variation of the absorbance as function of the
pH due to the presence of chromophores close to the ionization site of the molecules. The molar
absorptivity varies according to the conjugation forms that dynamically change when and where the
molecule is charged by the effect of pH and protonation/dissociation. As an example, the different
protonation states for the hydrazone 1d are shown in Figure 4. Figure 4. Protonation states of the hydrazone 1d as function of pH. Figure 4. Protonation states of the hydrazone 1d as function of pH. Figure 4. Protonation states of the hydrazone 1d as function of pH. Figure 4. Protonation states of the hydrazone 1d as function of pH. For experimental pKa determination, the molecules were solubilized in hydroalcoholic solutions
at ethanol 28% and the ionic strength was maintained by the addition of KCl (0.1 M). The pH was
adjusted with concentrated solutions of KOH and HCl. The UV spectra were recorded at each pH
value and, at least three wavelengths were monitored. The absorbance variation was plotted as
function of the pH. As an example, the variations on the UV-vis spectra for compound 1d and the
resulting plot for six wavelength values are shown in Figure 5a,b, respectively (all other spectra are
present in Figures S4–S8). 2.3.1. Hydrolytic Stability
2.3.1. Hydrolytic Stability
2.3.1. Hydrolytic Stability
2.3.1. Hydrolytic Stability
2.3.1. Hydrolytic Stability Only 5 showed
a very small reduction (3%) of the absorbance after 20 h. It is known that hydrazones possess greater
intrinsic hydrolytic stability than that of imines. In addition to the contribution of the NH-N=C in
electron delocalization, the resonance forms in acylhydrazones increase the negative-charge on the
C=N and thus, reduce its electrophilicity and the affinity to the nucleophile attack from water [74]. Furthermore the repulsion of the lone pairs of the NH N can be relieved in the conjugates [75] Table 4. Stability study of hydrazones. 5.9 × 10 5
6.2
4.1 × 10−5
6.8 Moreover, the stability of compound 1d was further assessed upon incubation in DMSO, the
solvent used for biological assays, by mass spectrometry analysis; in addition, no relevant peaks
corresponding to possibly released INH have been detected (Figure S3). ,
p
p
j g
[
]
Moreover, the stability of compound 1d was further assessed upon incubation in DMSO, the
solvent used for biological assays, by mass spectrometry analysis; in addition, no relevant peaks
corresponding to possibly released INH have been detected (Figure S3). Moreover, the stability of compound 1d was further assessed upon incubation in DMSO, the
solvent used for biological assays, by mass spectrometry analysis; in addition, no relevant peaks
corresponding to possibly released INH have been detected (Figure S3). p
p
j g
[
]
Moreover, the stability of compound 1d was further assessed upon incubation in DMSO, the
solvent used for biological assays, by mass spectrometry analysis; in addition, no relevant peaks
corresponding to possibly released INH have been detected (Figure S3). 2.3.2. pKa Determination
2.3.2. pKa Determination The protonation/dissociation of the molecule is accompanied by a variation
For experimental pKa determination, the molecules were solubilized in hydroalcoholic solutions
at ethanol 28% and the ionic strength was maintained by the addition of KCl (0.1 M). The pH was
adjusted with concentrated solutions of KOH and HCl. The UV spectra were recorded at each pH value
and, at least three wavelengths were monitored. The absorbance variation was plotted as function
of the pH. As an example, the variations on the UV-vis spectra for compound 1d and the resulting
plot for six wavelength values are shown in Figure 5a,b, respectively (all other spectra are present in
Figures S4–S8). The protonation/dissociation of the molecule is accompanied by a variation in the 9 of 27
7 Molecules 2017, 22, 1457 absorbance (Figure 5a) and is graphically represented for six wavelength values as function of pH in
Figure 5b. in the absorbance (Figure 5a) and is graphically represented for six wavelength values as function of
pH in Figure 5b. (a)
(b)
Figure 5. The variations on the UV-vis spectra for compound 1d and the resulting plot for six
wavelength values. (a) UV-vis spectra obtained for compound 1d as function of pH variation; (b) Plots
of absorbance for six wavelength values (λ/nm) as function of pH for compound 1d. Th
i fl
ti
i t
d t
th
h
i
th t
t
t d/di
i t d
t t
f th
Wavelength (nm)
250
300
350
400
450
500
Absorbance (AU)
0
0.2
0.4
0.6
0.8
1
1.2
1.4
221
334
Figure 5. The variations on the UV-vis spectra for compound 1d and the resulting plot for six
wavelength values. (a) UV-vis spectra obtained for compound 1d as function of pH variation; (b) Plots
of absorbance for six wavelength values (λ/nm) as function of pH for compound 1d. (a)
Wavelength (nm)
250
300
350
400
450
500
Absorbance (AU)
0
0.2
0.4
0.6
0.8
1
1.2
1.4
221
334 (a) (a) (a)
(b) (b) Figure 5. The variations on the UV-vis spectra for compound 1d and the resulting plot for six
wavelength values. (a) UV-vis spectra obtained for compound 1d as function of pH variation; (b) Plots
of absorbance for six wavelength values (λ/nm) as function of pH for compound 1d. Figure 5. The variations on the UV-vis spectra for compound 1d and the resulting plot for six
wavelength values. 2.3.2. pKa Determination
2.3.2. pKa Determination (a) UV-vis spectra obtained for compound 1d as function of pH variation; (b) Plots
of absorbance for six wavelength values (λ/nm) as function of pH for compound 1d. molecule, and, therefore, the pH at that point amounts to the pKa. Thus, by using this method, the
pKa values of 1d were determined [76]. The same protocol was applied for the other molecules and
the resulted pKa are presented in Table 5, as an average value from three different λ. Table 5. pKa values determined for the isonicotinoylhydrazones. The inflection points correspond to the change in that protonated/dissociated state of the molecule,
and, therefore, the pH at that point amounts to the pKa. Thus, by using this method, the pKa values of
1d were determined [76]. The same protocol was applied for the other molecules and the resulted pKa
are presented in Table 5, as an average value from three different λ. Compound
1a
1b
1c
1d
5
7
pKa1
nd a
nd a
3.4
3.0
3.4
3.6
pKa2
9.2 ± 0.1
7.4 ± 0.1
9.1 ± 0.1
9.5 ± 0.1
10.4 ± 0.1
11
pKa3
-
8.9 ± 0.1
-
>11
-
-
a nd for not determined. Table 5. pKa values determined for the isonicotinoylhydrazones. Compound
1a
1b
1c
1d
5
7
pKa1
nd a
nd a
3.4
3.0
3.4
3.6
pKa2
9.2 ± 0.1
7.4 ± 0.1
9.1 ± 0.1
9.5 ± 0.1
10.4 ± 0.1
11
pKa3
-
8.9 ± 0.1
-
>11
-
-
a nd for not determined. 1a
1b
1c
1d
d
d
3 4
3 0
3
Table 5. pKa values determined for the isonicotinoylhydrazones. a nd for not determined. An inflection point was always observed close to pH 3, which is related with the protonation
of 4-pyridinic nitrogen of isoniazid moiety (pKa2 of isoniazid = 3.5), and corresponds to pKa1 of the 10 of 27 Molecules 2017, 22, 1457 hydrazones. The pKa2 of the molecules ranges from 7.7 to 11. It means that they are in dissociated
form from milder (1b) to stronger (7) basic conditions. hydrazones. The pKa2 of the molecules ranges from 7.7 to 11. It means that they are in dissociated
form from milder (1b) to stronger (7) basic conditions. 2.4. Biology of Mechanochemically Synthesized Hydrazones 2.4. Biology of Mechanochemically Synthesized Hydrazones 2.4.1. InhA Inhibition Assay InhA, the NADH-dependent fatty acid biosynthesis (FAS-II) enoylreductase from M. tuberculosis,
has emerged as a promising drug target due to its vital role in synthesis of mycolic acids. InhA
is the main target of Isoniazid [77–80]. Recombinant M.tb InhA was expressed in E. coli and
subsequently purified. The selected synthetic compounds, corresponding to the phenolic isonicotinoyl hydrazones 1a–d
and the corresponding heterocyclic ones 2–11 series, were evaluated in vitro for the inhibition of M.tb
InhA activity at 50 µM by applying a previously described method [81] (Table 6). Table 6. Enzyme inhibition values for the INH derivatives. Results are expressed as a percentage of
InhA inhibition. Compound
% Inhibition at 50 µM (Inhibitor)
Compound
% Inhibition at 50 µM (Inhibitor)
1a
45
5
19
1b
54
6
43
1c
48
7
39
1d
64
8
42
2
54
9
32
3
3
10
79
4
33
11
not soluble
TCL
>99 Considering the four phenolic derivatives 1a–d, the tri-substituted one (1d) presents the better
InhA inhibition activity with 64% value at 50 µM. Derivatives 1a–c are less potent with 45–54% InhA
inhibition range at 50 µM. Under these conditions, 99% inhibition is obtained for Triclosan (TCL). Concerning the heterocyclic isonicotinoyl hydrazones, compounds 2, 3 and 11 were difficult to
evaluate due to solubility issues at high concentrations. Compound 5 is a very poor inhibitor (19%
InhA inhibition), while compounds 4, 6 and 7 may be considered as poor inhibitors with 32%, 43%
and 39% values, respectively. Compound 10 is the derivative exhibiting the highest inhibition of InhA
enzyme with 79% at 50 µM. In comparing isonicotinoyl derivatives derived from indoles (compounds
6–10), we can notice that those possessing an indol-3-yl frame have the same activities with inhibition
values between 32% and 43%. Compounds 6 and 8 differing by one methyl group (position 2 of
the indol-3-yl frame) have the same inhibition values. On the contrary, compound 10 possessing an
indole-2-yl frame is two-fold more active (79% of inhibition). Concerning the imidazole and indazole
derivatives, we might hypothesize that the striking differences in activities could arise by a better
positioning of the compounds 2 and 4 guided by their nitrogen atoms on their heterocyclic parts. Molecules 2017, 22, 1457 Molecules 2017, 22, 1457 11 of 27 It is noteworthy that a series of phenolic hydrazones bearing the four phenolic frames
(a–d), previously synthetized by mechanochemical means were already tested against M.tb. cell
growth [38]. Among the different hydrazines (isoniazid, hydralazine, 2-hydrazino-benzothiazole,
3-aminorhodanine, benzyl carbazate and benzhydrazide), used to form the corresponding hydrazones,
only the isonicotinoyl derivatives were active against M.tb growth, whilst the other compounds were
not effective (MIC > 30 µM; data not shown, but reported in Reference [39]). p
Isonicotinoyl derivatives 1a–d showed good anti-mycobacterial activity with 0.0125 or
0.125 µg/mL MIC values. Among these four, those bearing two or more substituents ortho to the
phenolic function presented potent activities with a MIC value of 0.125 µg/mL, which is five times
higher than that of INH. Compound 1a, synthesized from p-hydroxybenzaldehyde and INH, is the
most potent derivative with a MIC value of 0.0125 µg/mL (0.05 µM), which is 2–4 times lower than
that of INH (0.025 µg/mL, 0.18 µM). 2.4.3. M.tb H37Rv Growth Inhibition Assays of Nitrogen Heterocyclic Hydrazones (2–11) 2.4.3. M.tb H37Rv Growth Inhibition Assays of Nitrogen Heterocyclic Hydrazones (2–11) The MIC values of the series of hydrazones, bearing the INH moiety coupled with different
N-heterocyclic aldehydes, were also determined (Table 8). The MIC values of the series of hydrazones, bearing the INH moiety coupled with different
N-heterocyclic aldehydes, were also determined (Table 8). Table 8. MICs of Isoniazid-Nitrogen heterocyclic hydrazones against M.tb H37Rv. Table 8. MICs of Isoniazid-Nitrogen heterocyclic hydrazones against M.tb H37Rv. Compound
MW
(g/mol)
MIC
(µg/mL)/(µM)
LogP
Cpd
MW
(g/mol)
MIC
(µg/mL)/(µM)
LogP
2
215.21
0.03/0.14
−1.00
7
265.27
0.015/0.056
0.24
3
229.24
0.03/0.13
−1.37
8
264.28
0.06/0.23
0.86
4
265.27
0.06/0.23
1.38
9
343.18
0.125/0.36
1.69
5
265.27
0.03/0.11
−0.52
10
264.28
0.06/0.23
0.52
6
278.31
0.25/0.90
0.49
11
309.28
0.25/0.81
1.39
INH
137.14
0.05/0.36
−0.64 All four imidazole and indazole derivatives (2–5) were 1.5–3 times more effective than isoniazid,
while their InhA inhibition activities were much lower to inexistent with activities against M.tb
growth, in the range of 0.11–0.23 µM. For indole derivatives, nitro substitution on the aromatic ring
(compound 11) or methyl substitution on the indole ring (compound 6), compromised the anti-TB
activity. While the bromo derivative 9 had the same activity as INH (0.36 µM), compounds 7, 8
and 10 presented better MIC values than INH. 2.4.2. Activity of Phenolic Isonicotinoyl Hydrazones (1a–d) against M.tb Cell Growth 2.4.2. Activity of Phenolic Isonicotinoyl Hydrazones (1a–d) against M.tb Cell Growth The determination of the minimal inhibitory concentration (MIC) was performed using M.tb
H37Rv strain and INH as control (Table 7). Table 7. Phenolic isonicotinoyl hydrazones tested as inhibitory agents against M.tb growth (H37Rv strain). Compound
MW
(g/mol)
MIC
(µg/mL)/(µM)
LogP
Cpd
MW
(g/mol)
MIC
(µg/mL)/(µM)
LogP
1a
241.25
0.0125/0.05
1.64
1c
271.27
0.125/0.46
1.51
1b
257.24
0.125/0.49
1.25
1d
301.30
0.125/0.41
1.38
INH
137.14
0.025/0.18
−0.64 Table 7. Phenolic isonicotinoyl hydrazones tested as inhibitory agents against M.tb growth (H37Rv strain). Molecules 2017, 22, 1457 Interestingly, the azaindole derivative 7 showed
the highest anti-TB activity in this series and was found as active as the phenolic compound 1a
(MIC = 0.015 µg/mL/0.056 µM). Finally, we can notice that all active compounds here presented, can show different lipophilic
values as given by their LogP values, probably supporting the inference that there is no clear
relationship between lipophilicity and in vitro activity as pointed also by others [25]. The resistance to the current tested drugs (first- and second-line) remains a very serious
problem, mostly resulting from inhA and katG mutations [82] and culminates in the occurrence
of M.tb multidrug-resistant (MDR) strains. Owing the good results obtained for the herein studied
INH-derived hydrazones, we tested them against a M.tb multidrug-resistant clinical isolate (IC2;
resistant to streptomycin, INH, rifampicin, ethambutol, pyrazinamide, ethionamide, and capreomicin)
(Table 9). The indazole and indole derivatives were not active against IC2 isolate (MICs > 10 µg/mL),
except for the nitro derivative 11. The imidazole containing derivatives 2 and 3 were poor active
(MIC = 5–10 µg/mL). By comparing results for compounds 10 and 11, it appears that the nitro
substituent improves the activity against IC2 clinical isolate. Interestingly, the phenolic derivatives 1a
and 1b presented the best activities against the MDR isolate, with MIC of 2.5 µg/mL (10.36 µM) and
1 µg/mL (3.89 µM), respectively. 12 of 27 Molecules 2017, 22, 1457 Table 9. MIC of isoniazid derivatives against M.tb MDR isolate IC2. Table 9. MIC of isoniazid derivatives against M.tb MDR isolate IC2. Table 9. MIC of isoniazid derivatives against M.tb MDR isolate IC2. Compound
MIC (µg/mL)/(µM)
H37Rv
IC2
1a
0.0125/0.05
2.5/10.36
1b
0.125/0.49
1/3.89
1c
0.125/0.46
>2.5/>9.22
1d
0.125/0.41
>2.5/>8.30
2
0.03/0.14
5/23.2
3
0.03/0.13
5–10/21.8–43.6
4
0.06/0.23
>10
5
0.03/0.11
>10
6
0.25/0.90
>10
7
0.015/0.056
>10
8
0.06/0.23
>10
9
0.125/0.36
>10
10
0.06/0.23
>10
11
0.25/0.81
5–10/18.9–37.8
INH
0.025/0.18
>2/>14.58 2.4.4. Cytotoxicity and Selectivity Index Determination 2.4.4. Cytotoxicity and Selectivity Index Determination Cytotoxicities of all compounds bearing the INH moiety were also evaluated on MRC5 human
fibroblast cells. Almost all compounds tested presented LD50 values above 80 µM (Table 10), with the
exception of 1b (LD50 = 36.3 µM). The LD50 evaluation is essential to determine the selectivity index
(SI), which indicates the best candidates in terms of high biological activity against the target and low
cytotoxicity. The SI presented in Table 10 are the ratio between LD50 and the in vitro MIC value against
M.tb H37Rv previously obtained. Table 10. Cytotoxicity (LD50) and selectivity index (SI) for the most active hydrazones against
H37Rv M.tb. Compound
LD50 (µM)
SI
Compound
LD50 (µM)
SI
1a
>80
>1600
5
>80
>727
1b
36.3
74
6
129
143
1c
>80
>173
7
>80
>1429
1d
>80
>195
8
>80
>364
2
>80
>571
9
>80
>222
3
>80
>615
10
71.4
310
4
>80
>364
11
156
193
INH
-
- Apart from compound 1b, due to its high toxicity, the phenolic hydrazones presented good
selectivities higher than 170. A great result was obtained for 1a which has the lowest MIC value
(0.0125 µg/mL), LD50 > 80 µM and the highest SI (>1600). The N-heterocyclic INH derivatives 2–11 presented good SI values, with the exception of 6 and
11, which possessed the highest MIC values. Compounds 4, 8, 9 and 10 conducted to comparable SI. Compound 10 must be considered (MIC = 0.06 µg/mL, LD50 = 71.4 µM and SI = 310), mainly due to
its InhA inhibition of 78%. Great SI values closer to 600 are found for 2 and 3 but, nonetheless, some
reservation must be taken due to the poor solubility of these molecules. Finally, the SI of compound 5
is higher than 727 and 7 is highlighted with MIC = 0.015 µg/mL and an SI higher than 1469. 2.4.5. In Search for the Molecular Target of Prepared Hydrazones in Mycobacteria 2.4.5. In Search for the Molecular Target of Prepared Hydrazones in Mycobacteria In order to confirm the enoylreductase InhA as a target of synthesized hydrazones, we analyzed
the effect of selected compounds with the best MIC values and cytotoxicity scores on synthesis of 13 of 27
13
f 27 Molecules 2017, 22, 1457 mycolic acids in avirulent strain M.tb H37Ra. Tested hydrazones, specifically 1a, 3, 5, 7 and 10, as well
as INH as control InhA inhibitor, were added to M.tb H37Ra culture when it reached early mid-log
phase of growth and, after subsequent 24 h cultivation, 14C acetate was added as a metabolic tracer. TLC analysis of lipid fractions extracted from harvested 14C labeled cells revealed that, similar to
INH, all of the tested hydrazones abolish the synthesis of trehalose monomycolates and trehalose
dimycolates (Figure 6). mycolic acids in avirulent strain M.tb H37Ra. Tested hydrazones, specifically 1a, 3, 5, 7 and 10, as well
as INH as control InhA inhibitor, were added to M.tb H37Ra culture when it reached early mid-log
phase of growth and, after subsequent 24 h cultivation, 14C acetate was added as a metabolic tracer. TLC analysis of lipid fractions extracted from harvested 14C labeled cells revealed that, similar to INH,
all of the tested hydrazones abolish the synthesis of trehalose monomycolates and trehalose
dimycolates (Figure 6). mycolic acids in avirulent strain M.tb H37Ra. Tested hydrazones, specifically 1a, 3, 5, 7 and 10, as well
as INH as control InhA inhibitor, were added to M.tb H37Ra culture when it reached early mid-log
phase of growth and, after subsequent 24 h cultivation, 14C acetate was added as a metabolic tracer. TLC analysis of lipid fractions extracted from harvested 14C labeled cells revealed that, similar to INH,
all of the tested hydrazones abolish the synthesis of trehalose monomycolates and trehalose
dimycolates (Figure 6). Figure 6. TLC analysis of lipids extracted from 14C acetate labeled M.tb H37Ra cells treated with
compounds 1a, 3, 5, 7 and 10, INH and DMSO as a control. Lipids were separated in
chloroform:methanol:water (20:4:0.5) and detected by autoradiography (TDM: trehalose dimycolates;
TMM: trehalose monomycolates; PE: phosphatidylethanolamine; CL: cardiolipin). Figure 6. TLC analysis of lipids extracted from 14C acetate labeled M.tb H37Ra cells treated
with compounds 1a, 3, 5, 7 and 10, INH and DMSO as a control. 2.4.5. In Search for the Molecular Target of Prepared Hydrazones in Mycobacteria Lipids were separated in
chloroform:methanol:water (20:4:0.5) and detected by autoradiography (TDM: trehalose dimycolates;
TMM: trehalose monomycolates; PE: phosphatidylethanolamine; CL: cardiolipin). Figure 6. TLC analysis of lipids extracted from 14C acetate labeled M.tb H37Ra cells treated with
compounds 1a, 3, 5, 7 and 10, INH and DMSO as a control. Lipids were separated in
chloroform:methanol:water (20:4:0.5) and detected by autoradiography (TDM: trehalose dimycolates;
TMM: trehalose monomycolates; PE: phosphatidylethanolamine; CL: cardiolipin). Figure 6. TLC analysis of lipids extracted from 14C acetate labeled M.tb H37Ra cells treated with
compounds 1a, 3, 5, 7 and 10, INH and DMSO as a control. Lipids were separated in
chloroform:methanol:water (20:4:0.5) and detected by autoradiography (TDM: trehalose dimycolates;
TMM: trehalose monomycolates; PE: phosphatidylethanolamine; CL: cardiolipin). Figure 6. TLC analysis of lipids extracted from 14C acetate labeled M.tb H37Ra cells treated
with compounds 1a, 3, 5, 7 and 10, INH and DMSO as a control. Lipids were separated in
chloroform:methanol:water (20:4:0.5) and detected by autoradiography (TDM: trehalose dimycolates;
TMM: trehalose monomycolates; PE: phosphatidylethanolamine; CL: cardiolipin). Figure 6. TLC analysis of lipids extracted from 14C acetate labeled M.tb H37Ra cells treated with
compounds 1a, 3, 5, 7 and 10, INH and DMSO as a control. Lipids were separated in
chloroform:methanol:water (20:4:0.5) and detected by autoradiography (TDM: trehalose dimycolates;
TMM: trehalose monomycolates; PE: phosphatidylethanolamine; CL: cardiolipin) Analysis of fatty/mycolic acids isolated from whole 14C labeled cells proved that these
compounds specifically inhibit synthesis of mycolic acids (Figure 7). Analysis of fatty/mycolic acids isolated from whole 14C labeled cells proved that these compounds
specifically inhibit synthesis of mycolic acids (Figure 7). Analysis of fatty/mycolic acids isolated from whole 14C labeled cells proved that these
compounds specifically inhibit synthesis of mycolic acids (Figure 7). Analysis of fatty/mycolic acids isolated from whole 14C labeled cells proved that these
compounds specifically inhibit synthesis of mycolic acids (Figure 7). Analysis of fatty/mycolic acids isolated from whole 14C labeled cells proved that these compounds
specifically inhibit synthesis of mycolic acids (Figure 7). Analysis of fatty/mycolic acids isolated from whole 14C labeled cells proved that these
compounds specifically inhibit synthesis of mycolic acids (Figure 7). Figure 7. TLC analysis of methyl esters of fatty (FAME) and mycolic (MAME) acids isolated from 14C
acetate labeled M.tb H37Ra cells treated with compounds 1a, 3, 5, 7 and 10, INH and DMSO as a
control. 2.4.5. In Search for the Molecular Target of Prepared Hydrazones in Mycobacteria Different forms of methyl esters were separated in n-hexane:ethyl acetate (95:5; 3×) and
detected by autoradiography. (, methoxy, and keto refer to forms of MAMEs). 0.1 0.5 0 5 0.1 0.5 0.1 0.5 0.1 0.5 0.1 0.5 g/mL
1a INH 3 5 7 10
FAME
methoxy
keto
M
A
M
E
y
y
y
(
g
)
compounds specifically inhibit synthesis of mycolic acids (Figure 7). Figure 7. TLC analysis of methyl esters of fatty (FAME) and mycolic (MAME) acids isolated from 14C
acetate labeled M.tb H37Ra cells treated with compounds 1a, 3, 5, 7 and 10, INH and DMSO as a
control. Different forms of methyl esters were separated in n-hexane:ethyl acetate (95:5; 3×) and
detected by autoradiography. (, methoxy, and keto refer to forms of MAMEs). 0.1 0.5 0 5 0.1 0.5 0.1 0.5 0.1 0.5 0.1 0.5 g/mL
1a INH 3 5 7 10
FAME
methoxy
keto
M
A
M
E
Figure 7. TLC analysis of methyl esters of fatty (FAME) and mycolic (MAME) acids isolated from
14C acetate labeled M.tb H37Ra cells treated with compounds 1a, 3, 5, 7 and 10, INH and DMSO as
a control. Different forms of methyl esters were separated in n-hexane:ethyl acetate (95:5; 3×) and
detected by autoradiography. (α, methoxy, and keto refer to forms of MAMEs). Figure 7. TLC analysis of methyl esters of fatty (FAME) and mycolic (MAME) acids isolated from 14C
acetate labeled M.tb H37Ra cells treated with compounds 1a, 3, 5, 7 and 10, INH and DMSO as a
control. Different forms of methyl esters were separated in n-hexane:ethyl acetate (95:5; 3×) and
detected by autoradiography. (, methoxy, and keto refer to forms of MAMEs). Figure 7. TLC analysis of methyl esters of fatty (FAME) and mycolic (MAME) acids isolated from 14C
acetate labeled M.tb H37Ra cells treated with compounds 1a, 3, 5, 7 and 10, INH and DMSO as a
control. Different forms of methyl esters were separated in n-hexane:ethyl acetate (95:5; 3×) and
detected by autoradiography. (, methoxy, and keto refer to forms of MAMEs). Figure 7. TLC analysis of methyl esters of fatty (FAME) and mycolic (MAME) acids isolated from
14C acetate labeled M.tb H37Ra cells treated with compounds 1a, 3, 5, 7 and 10, INH and DMSO as
a control. Different forms of methyl esters were separated in n-hexane:ethyl acetate (95:5; 3×) and
detected by autoradiography. A series
3.1. Material ability to inhibit M.tb H37Rv strain growth, the most active being 1a and 7. Imidazole derivative 5
and indazole one 10 are also active against H37Rv with their nitro substituent. Compounds 1a and
1b were the most effective against both M.tb H37Rv strain and drug-resistant IC2 isolate. The mechanism of anti-mycobacterial activities of selected hydrazones with the best scores
regarding the MICs and toxicities was confirmed to be through the cessation of mycolic acid synthesis
due to InhA inhibition inside the mycobacterial cell. 4. Materials and Methods
4.1. Material
All chemicals were obtained from Maybridge, TCI, Aldrich or Alfa Aesar, 97–99% and used
without further purification. Nuclear magnetic resonance spectra (1H- and 13C-NMR) were recorded
on Bruker AC 300, Avance-400 MHz and Avance-500 spectrometers with DMSO-d6 as solvent. Chemical shifts δ were expressed in parts per million (ppm) relative to TMS. Solvent residue signals
were used for calibration of spectral data. Mass spectrometry (MS) data were obtained from the
“Service Commun de Spectrométrie de masse” of the Plateforme Technique, Institut de Chimie de
Toulouse (Toulouse France) MS were performed using a Waters Quadrupole Time of flight mass
All chemicals were obtained from Maybridge, TCI, Aldrich or Alfa Aesar, 97–99% and used
without further purification. Nuclear magnetic resonance spectra (1H- and 13C-NMR) were recorded
on Bruker AC 300, Avance-400 MHz and Avance-500 spectrometers with DMSO-d6 as solvent. Chemical
shifts δ were expressed in parts per million (ppm) relative to TMS. Solvent residue signals were used
for calibration of spectral data. Mass spectrometry (MS) data were obtained from the “Service Commun
de Spectrométrie de masse” of the Plateforme Technique, Institut de Chimie de Toulouse (Toulouse,
France). MS were performed using a Waters Quadrupole Time-of-flight mass spectrometer XEVO
G2-S QTof. The samples were dissolved in methanol and Electrospray ionization method was used. High-resolution mass spectra (HRMS) were recorded on a ThermoFinnigan MAT 95 XL spectrometer
using electrospray ionization (ESI) methods. Melting points were measured using a Kofler heating
bench system Heizbank Type WME (Wagner &Munz GmbH, Munich, Germany), with measuring
accuracy of ±1 ◦C in the range of 50–260 ◦C. If the melting point was higher than 260 ◦C or if it could
not be exactly determined because of an apparent degradation, the DSC analysis was employed. The
analysis was performed in a ATG-DSC 111 (Sertaram). Molecules 2017, 22, 1457
Molecules 2017, 22, 1457 Molecules 2017, 22, 1457
Molecules 2017, 22, 1457 Next, we overproduced InhA protein in M.tb H37Ra and tested sensitivity of overproducer, as
well as control strain carrying empty vector against synthesized hydrazones by drop dilution method. Clearly, this testing showed, that MICs of all of tested compounds against M.tb H37Ra pMV261-InhA
are 5–10× higher comparing to control strain confirming InhA as molecular target of these inhibitors
inside mycobacterial cells (Figure 8). e
,
e o e p o u e
I
A p o ei
i
a a
e e
e
i i i y o o e p o u e , a
well as control strain carrying empty vector against synthesized hydrazones by drop dilution
method. Clearly, this testing showed, that MICs of all of tested compounds against M.tb H37Ra
pMV261-InhA are 5–10× higher comparing to control strain confirming InhA as molecular target of
these inhibitors inside mycobacterial cells (Figure 8). Figure 8. Determination of sensitivity of M.tb H37Ra pMV261 and M.tb H37Ra pMV261-InhA against
1a (Left panel) and 3, 5, 7 and 10 (Right panel) by drop dilution method. Figure 8. Determination of sensitivity of M.tb H37Ra pMV261 and M.tb H37Ra pMV261-InhA against
1a (Left panel) and 3, 5, 7 and 10 (Right panel) by drop dilution method. Figure 8. Determination of sensitivity of M.tb H37Ra pMV261 and M.tb H37Ra pMV261-InhA against
1a (Left panel) and 3, 5, 7 and 10 (Right panel) by drop dilution method. Figure 8. Determination of sensitivity of M.tb H37Ra pMV261 and M.tb H37Ra pMV261-InhA against
1a (Left panel) and 3, 5, 7 and 10 (Right panel) by drop dilution method. 3. Conclusions
3. Materials and Methods A series
3.1. Material 2.4.5. In Search for the Molecular Target of Prepared Hydrazones in Mycobacteria (α, methoxy, and keto refer to forms of MAMEs). 14 of 27
14 of 27 3.2.1. General Procedure for Phenolic Isonicotinoyl Hydrazones Synthesis
4.2.1. General Procedure for Phenolic Isonicotinoyl Hydrazones Synthesis The derivatives 1a–d were synthesized as previously described by us [38]. Compounds 1a–1d
have also a CAS number: 1a (840-81-3); 1b (13838-18-1); 1c (149-17-7); 1d (315230-80-9). The derivatives 1a–d were synthesized as previously described by us [38]. Compounds 1a–1d
have also a CAS number: 1a (840-81-3); 1b (13838-18-1); 1c (149-17-7); 1d (315230-80-9). The derivatives 1a–d were synthesized as previously described by us [38]. Compounds 1a–1d
have also a CAS number: 1a (840-81-3); 1b (13838-18-1); 1c (149-17-7); 1d (315230-80-9). The derivatives 1a–d were synthesized as previously described by us [38]. Compounds 1a–1d
have also a CAS number: 1a (840-81-3); 1b (13838-18-1); 1c (149-17-7); 1d (315230-80-9). 3.2.2. General Procedure for Isoniazid Nitrogen-Containing Heterocycles Derivatives 2–11
4.2.2. General Procedure for Isoniazid Nitrogen-Containing Heterocycles Derivatives 2–11 A mixture the solid reactants, INH (1 equivalent), the aldehyde (1 equivalent) and the catalyst
(p-TSA, 0.5 equivalent) were placed in milling device and the reaction proceeded between 1 h–2 h,
depending on the aldehyde. The Cryomill (Restch) was used for the screening of catalysts (milling
started at the room temperature) at 25 Hz during 1 h. After the choice of the catalyst (p-TSA), all the
reactions were carried out in the vibratory ball-mill Pulverisette 0 (Fritsch, Germany) equipped with
a single stainless steel ball of 50 mm of diameter and 500 g, in a semi-spherical vessel of 9.5 cm of
diameter. The plate vibrates with a frequency of 50 Hz and amplitude of 2.0 mm. The amounts of
reactant powder were stoichiometric conditions for reactants totalizing 1 g + the amount of catalyst. The transformation was monitored by TLC. After the reaction time, the powder mixture was washed
with a NaHCO3 solution to eliminate the catalyst and the powder was dried under vacuum. 1H-,
13C-NMR spectra and Mass Spectra for all new compounds are included in Supplementary Materials;
NMR data show both conformers). NMR data reported below correspond to the major conformer. A mixture the solid reactants, INH (1 equivalent), the aldehyde (1 equivalent) and the catalyst
(p-TSA, 0.5 equivalent) were placed in milling device and the reaction proceeded between 1 h–2 h,
depending on the aldehyde. The Cryomill (Restch) was used for the screening of catalysts (milling
started at the room temperature) at 25 Hz during 1 h. A series
3.1. Material The temperature programming was from 20 ◦C
to 200 or 260 ◦C according to the sample with a constant rate of 5 ◦C/min under nitrogen atmosphere. Fourier Transformed Infrared Spectroscopy (FTIR) analysis for identification was performed using
KB
ll t
Th
Ni
l t 5700
t
t
(Th
Ni
l t M di
WI USA) Th
i “Service Commun de Spectrométrie de masse” of the Plateforme Technique, Institut de Chimie de
Toulouse (Toulouse, France). MS were performed using a Waters Quadrupole Time-of-flight mass
spectrometer XEVO G2-S QTof. The samples were dissolved in methanol and Electrospray ionization
Fourier Transformed Infrared Spectroscopy (FTIR) analysis for identification was performed using
KBr pellets on a Thermo Nicolet 5700 spectrometer (Thermo-Nicolet, Madison, WI, USA). The main
peaks/bands were identified, especially the –C=N– that is attributed to the hydrazone. FTIR studies “Service Commun de Spectrométrie de masse” of the Plateforme Technique, Institut de Chimie de
Toulouse (Toulouse, France). MS were performed using a Waters Quadrupole Time-of-flight mass
spectrometer XEVO G2-S QTof. The samples were dissolved in methanol and Electrospray ionization
Fourier Transformed Infrared Spectroscopy (FTIR) analysis for identification was performed using
KBr pellets on a Thermo Nicolet 5700 spectrometer (Thermo-Nicolet, Madison, WI, USA). The main
peaks/bands were identified, especially the –C=N– that is attributed to the hydrazone. FTIR studies 15 of 27
formed
A). The 15 of 27
formed
A). The Molecules 2017, 22, 1457
Fourier Transfo
using KBr pellets on
22, 1457 with the solid hydrazines as function of temperature were recorded in IN10MX Thermo Scientific FTIR
microscope equipped with THMS600 (Linkam Scientific Instruments, Tadworth, Surrey, UK) heating
and freezing stage. studies with the solid hydrazines as function of temperature were recorded in IN10MX Thermo
Scientific FTIR microscope equipped with THMS600 (Linkam Scientific Instruments, Tadworth,
Surrey, UK) heating and freezing stage. 2C, C2,6), 134,36 (1C, C5′), 143.08 (2C, C3,5). KBr) ν cm−1: 3193.59 (N-H), 3038.08 (C-Har), 1648.96 (C=O), 1626.02 (C=N-N), 1596.86
1551.04 (Car
N), 1506.46 (C=N). OH 182 μM 25 °C): λ = 309 nm ε = 5495 05 dm3·mol−1·cm−1 (very poorly soluble) g
g
UV-vis spectroscopy was performed using a HP (Hewlett Packard, Palo Alto, CA, USA) 8452A
diode array spectrophotometer from 200 to 400 nm, with ethanol as a solvent at 20 ◦C and using quartz
cells. A series
3.1. Material The molar absorptivity was determined for the wavelength with the highest absorbance through
Lambert–Beer’s law with the molar absorptivity ε in (dm3·mol−1·cm−1) expressed for the λmax of
the molecule. UV-vis spectroscopy was performed using a HP (Hewlett Packard, Palo Alto, CA, USA) 8452A
diode array spectrophotometer from 200 to 400 nm, with ethanol as a solvent at 20 °C and using
quartz cells. The molar absorptivity was determined for the wavelength with the highest absorbance
through Lambert–Beer’s law with the molar absorptivity ε in (dm3·mol−1·cm−1) expressed for the λmax
of the molecule. OH, 182 μM, 25 C): λ = 309 nm, ε = 5495.05 dm3·mol 1·cm 1 (very poorly soluble). , TOF, MeOH) m/z: 238.0708 [M + Na+]; 216.0887 [M + H+]. (ES, TOF) m/z: M + H+ calc. for C10H10N5O: 216.0885. Found: 216.0887. ethyl-1H-imidazol-5-yl)methylene)isonicotinohydrazide (3) 3.2.1. General Procedure for Phenolic Isonicotinoyl Hydrazones Synthesis
4.2.1. General Procedure for Phenolic Isonicotinoyl Hydrazones Synthesis After the choice of the catalyst (p-TSA), all the
reactions were carried out in the vibratory ball-mill Pulverisette 0 (Fritsch, Germany) equipped with
a single stainless steel ball of 50 mm of diameter and 500 g, in a semi-spherical vessel of 9.5 cm of
diameter. The plate vibrates with a frequency of 50 Hz and amplitude of 2.0 mm. The amounts of
reactant powder were stoichiometric conditions for reactants totalizing 1 g + the amount of catalyst. The transformation was monitored by TLC. After the reaction time, the powder mixture was washed with
a NaHCO3 solution to eliminate the catalyst and the powder was dried under vacuum. 1H-, 13C-NMR
spectra and Mass Spectra for all new compounds are included in Supplementary Materials; NMR
data show both conformers). NMR data reported below correspond to the major conformer. 9 °C (dec.). Rf: 0.1 EtOAc/MeOH (4:1 v/v). R (300 MHz, DMSO-d6) δ ppm: 2.43 (s, 3H, CH3), 8.42 (dd, J = 5.5, 1.8 Hz, 2H, H2,6), 8.53
H-C=N), 9.11 (s, 1H, H3′), 9.14 (dd, J = 5.5, 1.8 Hz, 2H, H3,5), 15.98 (br, 2H, N-H). R (75 MHz, DMSO) δ ppm: 9.38 (1C, CH3), 123.60 (1C, C1′) 125.38 (2C, C2,6), 131.78 (1C, C5′),
C, C=N), 142.84 (1C, C3′), 144.03 (2C, C3,5), 147.78 (1C, C1), 159.52 (1C, C=O). KBr) ν cm−1: 3194.75 (N-H), 3097.19 (Car-H), 1660.58 (C=O), 1621.45 (C=N-N), 1602.24
, 1551.49 (Car
N). OH, 161.58 μM, 25 °C): λ = 316 nm, ε = 5551.73 dm3·mol−1·cm−1 (very poorly soluble). TOF, MeOH) m/z: 252.0866 [M + Na+]; 230.1049 [M + H+]. ES, TOF) m/z: [M + H+] calc. for C11H12N5O: 230.1042. Found: 230.1049. -dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4) (E)-N′-((1H-imidazol-4-yl)methylene)isonicotinohydrazide (2)
(E)-N′-((1H-imidazol-4-yl)methylene)isonicotinohydrazide (2) (E)-N′-((1H-imidazol-4-yl)methylene)isonicotinohydrazide (2)
(E) N′ ((1H imidazol 4 yl)methylene)isonicotinohydrazide (2) m.p.: 296.7 °C (dec.). Rf: 0.1 EtOAc/MeOH (4:1 v/v). 1H NMR (300 MH
DMSO d ) δ
8 15 (d J
1 4 H
1H H ) 8 36 (dd J
6 6 1 5 H
2H H )
.: 296.7 ◦C (dec.). Rf: 0.1 EtOAc/MeOH (4:1 v/v). C. Rf: 0.45 PE/EtOAc/MeOH (5:5:3 v/v/v). 0 MHz, DMSO-d6) δ ppm: 7.63 (d, J = 8.7 Hz, 1H, H3′), 7.84 (dd, J = 4.4, 1.6 Hz, 2H, m.p.: 296.7 °C (dec.). Rf: 0.1 EtOAc/MeOH (4:1 v/v
H NMR (
MH
DMSO d ) δ
8 1 (d J
1
m.p.: 296.7 ◦C (dec.). Rf: 0.1 EtOAc/MeOH (4:1 v/v). 2.5 C. Rf: 0.45 PE/EtOAc/MeOH (5:5:3 v/v/v). 3.2.1. General Procedure for Phenolic Isonicotinoyl Hydrazones Synthesis
4.2.1. General Procedure for Phenolic Isonicotinoyl Hydrazones Synthesis R (300 MHz, DMSO-d6) δ ppm: 7.63 (d, J = 8.7 Hz, 1H, H 1H-NMR (300 MHz, DMSO-d6) δ ppm: 8.15 (d, J = 1.4 Hz, 1H, H5′), 8.36 (dd, J = 6.6, 1.5 Hz, 2H, H2,6),
8.52 (s, 1H, H-C=N), 9.10 (dd, J = 6.6, 1.5 Hz, 2H, H3,5), 9.21 (d, J = 1.3 Hz, 1H, H3′), 15.67 (s, 2H, N-H). 13C-NMR (75 MHz, DMSO) δ ppm: 122.02 (1C, C5′), 125.10 (2C, C2,6), 128.25 (1C, C1′), 138.37 (1C,
C=N), 136,80 (1C, C3′), 144.77 (2C, C3,5), 146.91 (1C, C1), 160.14 (1C, C=O). 1H-NMR (300 MHz, DMSO-d6) δ ppm: 8.15 (d, J = 1.4 Hz, 1H, H5′), 8.36 (dd, J = 6.6, 1.5 Hz, 2H, H2,6),
8.52 (s, 1H, H-C=N), 9.10 (dd, J = 6.6, 1.5 Hz, 2H, H3,5), 9.21 (d, J = 1.3 Hz, 1H, H3′), 15.67 (s, 2H, N-H). 13C-NMR (75 MHz, DMSO) δ ppm: 122.02 (1C, C5′), 125.10 (2C, C2,6), 128.25 (1C, C1′), 138.37
(1C, C=N), 136,80 (1C, C3′), 144.77 (2C, C3,5), 146.91 (1C, C1), 160.14 (1C, C=O). 126.78 (2C, C2,6),
134,36 (1C, C5′), 143.08 (2C, C3,5). R (300 MHz, DMSO d6) δ ppm: 7.63 (d, J 8.7 Hz, 1H, H3), 7.84 (dd, J 4.4, 1.6 Hz, 2H,
0 (dd, J = 8.8, 1.5 Hz, 1H, H2′), 8.03–8.10 (m, 1H, H7′), 8.17 (t, J = 1.2 Hz, 1H, H6′), 8.57 (s,
=N), 8.79 (s, 2H, H3,5), 12.01 (s, 1H, N-H), 13.31 (s, 1H, N-Hind). R (75 MHz, DMSO) δ ppm: 111.39 (1C, C3′), 121.98 (2C, C2,6), 122.73 (1C, C7′), 123.35 (1C,
19 (1C, C2′), 127.23 (1C, C1′), 134.99 (1C, C6′), 141.07 (1C, C1), 141.14 (1C, C8′), 150.31 (1C,
50.76 (2C, C3,5), 161.87 (1C, C=O). FTIR (KBr) ν cm−1: 3193.59 (N-H), 3038.08 (C-Har), 1648.96 (C=O), 1626.02 (C=N-N), 1596.86 (C=Car),
1551.04 (Car
KBr) ν cm−1: 3188.96 (N-H), 3027.37 (Car-H), 1652 (C=O), 1622.47 (C=N-N), 1607.84
1549.40 (Car
N). N), 1506.46 (C=N). (
)
(
)
OH, 38.37 μM, 25 °C): λ = 234 nm, ε = 22,666.92 dm3·mol−1·cm−1. TOF MeOH) m/z: 266 1046 [M + H+]
)
(
)
UV (EtOH, 182 µM, 25 ◦C): λ = 309 nm, ε = 5495.05 dm3·mol−1·cm−1 (very poorly soluble). MS (ES TOF M OH)
/
238 0708 [M
N +] 216 0887 [M
H+] ((
)
OH, 38.37 μM, 25 °C): λ = 234 nm, ε = 22,666.92 dm3·mol−1·cm−1. TOF, MeOH) m/z: 266.1046 [M + H+]. 3.2. Chemistry
4.2. Chemistry 3.2.1. General Procedure for Phenolic Isonicotinoyl Hydrazones Synthesis
4.2.1. General Procedure for Phenolic Isonicotinoyl Hydrazones Synthesis E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
dih d
1H i d
l 5
l)
th l
)i
i
ti
h d
id (4) FTIR (KBr) ν cm−1: 3188.96 (N-H), 3027.37 (Car-H), 1652 (C=O), 1622.47 (C=N-N), 1607.84
13C-NMR (75 MHz, DMSO) δ ppm: 111.39 (1C, C3′), 121.98 (2C, C2,6), 122.73 (1C, C7′), 123.35 (1C,
C9′), 124.19 (1C, C2′), 127.23 (1C, C1′), 134.99 (1C, C6′), 141.07 (1C, C1), 141.14 (1C, C8′), 150.31 (1C,
C=N), 150.76 (2C, C3,5), 161.87 (1C, C=O). FTIR (KB )
1 3188 96 (N H) 3027 37 (C
H) 1652 (C O) 1622 47 (C N N) 1607 84
)
(
3,5)
(
)
(
ind)
13C-NMR (75 MHz, DMSO) δ ppm: 111.39 (1C, C3′), 121.98 (2C, C2,6), 122.73 (1C, C7′), 123.35 (1C, C9′),
124.19 (1C, C2′), 127.23 (1C, C1′), 134.99 (1C, C6′), 141.07 (1C, C1), 141.14 (1C, C8′), 150.31 (1C, C=N),
150.76 (2C, C3,5), 161.87 (1C, C=O). N), 8.79 (s, 2H, H3,5), 12.01 (s, 1H, N H), 13.31 (s, 1H, N Hind). R (75 MHz, DMSO) δ ppm: 111.39 (1C, C3′), 121.98 (2C, C2,6), 122.73 (1C, C7′), 123.35 (1C,
19 (1C, C2′), 127.23 (1C, C1′), 134.99 (1C, C6′), 141.07 (1C, C1), 141.14 (1C, C8′), 150.31 (1C,
50.76 (2C, C3,5), 161.87 (1C, C=O). C9′), 124.19 (1C, C2′), 127.23 (1C, C1′), 134.99 (1C, C6′), 141.07 (1C, C1), 141.14 (1C, C8′), 150.31 (1C,
C=N), 150.76 (2C, C3,5), 161.87 (1C, C=O). FTIR (KBr) ν cm−1: 3188.96 (N-H), 3027.37 (Car-H), 1652 (C=O), 1622.47 (C=N-N), 1607.84
13C-NMR (75 MHz, DMSO) δ ppm: 111.39 (1C, C3′), 121.98 (2C, C2,6), 122.73 (1C, C7′), 123.35 (1C,
C9′), 124.19 (1C, C2′), 127.23 (1C, C1′), 134.99 (1C, C6′), 141.07 (1C, C1), 141.14 (1C, C8′), 150.31 (1C,
C=N), 150.76 (2C, C3,5), 161.87 (1C, C=O). FTIR (KB )
1 3188 96 (N H) 3027 37 (C
H) 1652 (C O) 1622 47 (C N N) 1607 84
,
13C-NMR (75 MHz, DMSO) δ ppm: 111.39 (1C, C3′), 121.98 (2C, C2,6), 122.73 (1C, C7′), 123.35 (1C, C9′),
124.19 (1C, C2′), 127.23 (1C, C1′), 134.99 (1C, C6′), 141.07 (1C, C1), 141.14 (1C, C8′), 150.31 (1C, C=N),
150.76 (2C, C3,5), 161.87 (1C, C=O). ),
( ,
,
, ),
( ,
,
),
( ,
,
)
R (75 MHz, DMSO) δ ppm: 111.39 (1C, C3′), 121.98 (2C, C2,6), 122.73 (1C, C7′), 123.35 (1C,
19 (1C, C2′), 127.23 (1C, C1′), 134.99 (1C, C6′), 141.07 (1C, C1), 141.14 (1C, C8′), 150.31 (1C,
50.76 (2C, C3,5), 161.87 (1C, C=O). 3.2.1. General Procedure for Phenolic Isonicotinoyl Hydrazones Synthesis
4.2.1. General Procedure for Phenolic Isonicotinoyl Hydrazones Synthesis 13C-NMR (75 MHz, DMSO) δ ppm: 9.38 (1C, CH3), 123.60 (1C, C1′) 125.38 (2C, C2,6), 131.78 (1C, C5′),
138.44 (1C, C=N), 142.84 (1C, C3′), 144.03 (2C, C3,5), 147.78 (1C, C1), 159.52 (1C, C=O). FTIR (KBr) ν cm−1: 3194.75 (N-H), 3097.19 (Car-H), 1660.58 (C=O), 1621.45 (C=N-N), 1602.24
9 °C (dec.). Rf: 0.1 EtOAc/MeOH (4:1 v/v). R (300 MHz, DMSO-d6) δ ppm: 2.43 (s, 3H, CH3), 8.42 (dd, J = 5.5, 1.8 Hz, 2H, H2,6), 8.53
H-C=N), 9.11 (s, 1H, H3′), 9.14 (dd, J = 5.5, 1.8 Hz, 2H, H3,5), 15.98 (br, 2H, N-H). R (75 MHz, DMSO) δ ppm: 9.38 (1C, CH3), 123.60 (1C, C1′) 125.38 (2C, C2,6), 131.78 (1C, C5′),
1C, C=N), 142.84 (1C, C3′), 144.03 (2C, C3,5), 147.78 (1C, C1), 159.52 (1C, C=O). KBr) ν cm−1: 3194.75 (N-H), 3097.19 (Car-H), 1660.58 (C=O), 1621.45 (C=N-N), 1602.24 13C-NMR (75 MHz, DMSO) δ ppm: 9.38 (1C, CH3), 123.60 (1C, C1′) 125.38 (2C, C2,6), 131.78 (1C, C5′),
138.44 (1C, C=N), 142.84 (1C, C3′), 144.03 (2C, C3,5), 147.78 (1C, C1), 159.52 (1C, C=O). FTIR (KB )
3194 75 (N H) 3097 19 (C
H) 1660 58 (C O) 1621 45 (C N N) 1602 24
13C-NMR (75 MHz, DMSO) δ ppm: 9.38 (1C, CH3), 123.60 (1C, C1′) 125.38 (2C, C2,6), 131.78 (1C, C5′),
138.44 (1C, C=N), 142.84 (1C, C3′), 144.03 (2C, C3,5), 147.78 (1C, C1), 159.52 (1C, C=O). pp
(
)
(
)
(
)
(
19 (1C, C2′), 127.23 (1C, C1′), 134.99 (1C, C6′), 141.07 (1C, C1), 141.14 (1C, C8′), 150.31 (1C,
50.76 (2C, C3,5), 161.87 (1C, C=O). (s, 1H, H-C=N), 9.11 (s, 1H, H3′), 9.14 (dd, J = 5.5, 1.8 Hz, 2H, H3,5), 15.98 (br, 2H, N-H). 13C-NMR (75 MHz, DMSO) δ ppm: 9.38 (1C, CH3), 123.60 (1C, C1′) 125.38 (2C, C2,6), 131.78 (1C, C5′),
138 44 (1C C N) 142 84 (1C C ) 144 03 (2C C ) 147 78 (1C C ) 159 52 (1C C O)
pp
(
)
(
J
)
H-C=N), 9.11 (s, 1H, H3′), 9.14 (dd, J = 5.5, 1.8 Hz, 2H, H3,5), 15.98 (br, 2H, N-H). R (75 MHz, DMSO) δ ppm: 9.38 (1C, CH3), 123.60 (1C, C1′) 125.38 (2C, C2,6), 131.78 (1C, C5′), FTIR (KBr) ν cm−1: 3194.75 (N-H), 3097.19 (Car-H), 1660.58 (C=O), 1621.45 (C=N-N), 1602.24
(Car=Car), 1551.49 (Car
N). E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
dih d
1H i d
l 5
l)
th l
)i
i
ti
h d
id (4) y )
y
)
y
( )
yl)methylene)isonicotinohydrazide (4) p
(
)
1H-NMR (300 MHz, DMSO-d6) δ ppm: 7.63 (d, J = 8.7 Hz, 1H, H3′), 7.84 (dd, J = 4.4, 1.6 Hz, 2H
m.p.: 302.5 °C. Rf: 0.45 PE/EtOAc/MeOH (5:5:3 v/v/v). 1H NMR (300 MH
DMSO d ) δ
7 63 (d J
8 7 H
1H H ) 7 84 (dd J
4 4 1 6 H
2H
.: 302.5 ◦C. Rf: 0.45 PE/EtOAc/MeOH (5:5:3 v/v/v). C. Rf: 0.45 PE/EtOAc/MeOH (5:5:3 v/v/v). p
(
)
1H-NMR (300 MHz, DMSO-d6) δ ppm: 7.63 (d, J = 8.7 Hz, 1H, H3′)
m.p.: 302.5 °C. Rf: 0.45 PE/EtOAc/MeOH (5:5:3 v/v/v). 1H NMR (300 MH
DMSO d ) δ
7 63 (d J
8 7 H
1H H )
m.p.: 302.5 ◦C. Rf: 0.45 PE/EtOAc/MeOH (5:5:3 v/v/v). .5 °C. Rf: 0.45 PE/EtOAc/MeOH (5:5:3 v/v/v). p
1H-NMR (300 MHz, DMSO-d6) δ ppm: 7.63 (d, J = 8. m.p.: 302.5 °C. Rf: 0.45 PE/EtOAc/MeOH (5:5:3 v/v/v). H NMR (300 MH
DMSO d ) δ
7 63 (d J
8
m.p.: 302.5 ◦C. Rf: 0.45 PE/EtOAc/MeOH (5:5:3 v/v/v). 2.5 °C. Rf: 0.45 PE/EtOAc/MeOH (5:5:3 v/v/v). H2,6), 7.90 (dd, J = 8.8, 1.5 Hz, 1H, H2′), 8.03–8.10 (m, 1H, H7′), 8.17 (t, J = 1.2 Hz, 1H, H6′), 8.57 (s,
1H, H-C=N), 8.79 (s, 2H, H3,5), 12.01 (s, 1H, N-H), 13.31 (s, 1H, N-Hind). 13C-NMR (75 MHz, DMSO) δ ppm: 111.39 (1C, C3′), 121.98 (2C, C2,6), 122.73 (1C, C7′), 123.35 (1C,
1H-NMR (300 MHz, DMSO-d6) δ ppm: 7.63 (d, J = 8.7 Hz, 1H, H3′), 7.84 (dd, J = 4.4, 1.6 Hz, 2H,
H2,6), 7.90 (dd, J = 8.8, 1.5 Hz, 1H, H2′), 8.03–8.10 (m, 1H, H7′), 8.17 (t, J = 1.2 Hz, 1H, H6′), 8.57 (s,
1H, H-C=N), 8.79 (s, 2H, H3,5), 12.01 (s, 1H, N-H), 13.31 (s, 1H, N-Hind). 13C NMR (75 MH
DMSO) δ
111 39 (1C C ) 121 98 (2C C ) 122 73 (1C C ) 123 35 (1C
1H-NMR (300 MHz, DMSO-d6) δ ppm: 7.63 (d, J = 8.7 Hz, 1H, H3′), 7.84 (dd, J = 4.4, 1.6 Hz, 2H,
H2,6), 7.90 (dd, J = 8.8, 1.5 Hz, 1H, H2′), 8.03–8.10 (m, 1H, H7′), 8.17 (t, J = 1.2 Hz, 1H, H6′), 8.57 (s, 1H,
H-C=N), 8.79 (s, 2H, H3,5), 12.01 (s, 1H, N-H), 13.31 (s, 1H, N-Hind). 3.2.1. General Procedure for Phenolic Isonicotinoyl Hydrazones Synthesis
4.2.1. General Procedure for Phenolic Isonicotinoyl Hydrazones Synthesis 3
,
FTIR (KBr) ν cm−1: 3194.75 (N-H), 3097.19 (Car-H), 1660.58 (C=O), 1621.45 (C=N-N), 1602.24 (Car=Car),
1551.49 (Car
(
,
),
(
,
)
KBr) ν cm−1: 3188.96 (N-H), 3027.37 (Car-H), 1652 (C=O), 1622.47 (C=N-N), 1607.84
, 1549.40 (Car
N). N). 138.44 (1C, C=N), 142.84 (1C, C3′), 144.03 (2C, C3,5), 147.78 (1C, C1), 159.52 (1C, C=O). FTIR (KBr) ν cm−1: 3194.75 (N-H), 3097.19 (Car-H), 1660.58 (C=O), 1621.45 (C=N-N), 1602.24
(C
C ) 1551 49 (C
N)
,
pp
(
)
(
)
(
)
(
)
1C, C=N), 142.84 (1C, C3′), 144.03 (2C, C3,5), 147.78 (1C, C1), 159.52 (1C, C=O). KBr) ν cm−1: 3194.75 (N-H), 3097.19 (Car-H), 1660.58 (C=O), 1621.45 (C=N-N), 1602.24 UV (EtOH, 161.58 μM, 25 °C): λ = 316 nm, ε = 5551.73 dm3·mol−1·cm−1 (very poorly soluble). MS (ES, TOF, MeOH) m/z: 252.0866 [M + Na+]; 230.1049 [M + H+]. HRMS (ES TOF) m/z: [M + H+] calc for C11H12N5O: 230 1042 Found: 230 1049
OH, 38.37 μM, 25 °C): λ = 234 nm, ε = 22,666.92 dm3·mol−1·cm−1. , TOF, MeOH) m/z: 266.1046 [M + H+]. UV (EtOH, 161.58 µM, 25 ◦C): λ = 316 nm, ε = 5551.73 dm3·mol−1·cm−1 (very poorly soluble). MS (ES, TOF, MeOH) m/z: 252.0866 [M + Na+]; 230.1049 [M + H+]. (Car=Car), 1551.49 (Car
N). UV (EtOH, 161.58 μM, 25 °C): λ = 316 nm, ε = 5551.73 dm3·mol−1·cm−1 (very poorly soluble). MS (ES, TOF, MeOH) m/z: 252 0866 [M + Na+]; 230 1049 [M + H+]
, 1551.49 (Car
N). OH, 161.58 μM, 25 °C): λ = 316 nm, ε = 5551.73 dm3·mol−1·cm−1 (very poorly soluble). HRMS (ES, TOF) m/z: [M + H+] calc. for C11H12N5O: 230.1042. Found: 230.1049. ES, TOF) m/z: [M + H+] calc. for C14H12N5O: 266.1042. Found: 266.1046. HRMS (ES, TOF) m/z: [M + H+] calc. for C11H12N5O: 230.1042. Found: 230.1049. MS (ES, TOF, MeOH) m/z: 252.0866 [M + Na+]; 230.1049 [M + H+]. HRMS (ES, TOF) m/z: [M + H+] calc. for C11H12N5O: 230.1042. Found: 230.1049. TOF, MeOH) m/z: 252.0866 [M + Na+]; 230.1049 [M + H+]. 3.2.1. General Procedure for Phenolic Isonicotinoyl Hydrazones Synthesis
4.2.1. General Procedure for Phenolic Isonicotinoyl Hydrazones Synthesis ES TOF)
/
[M + H+] al
fo C H N O 230 1042 Fou d 230 1049 (E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
(E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
(E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
,
[
]
dih d
1H i d
l 5
l)
th l
)i
i
ti
h d
id (4) (E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
(E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
(E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
dih d
1H i d
l 5
l)
th l
)i
i
ti
h d
id (4) 3.2.1. General Procedure for Phenolic Isonicotinoyl Hydrazones Synthesis
4.2.1. General Procedure for Phenolic Isonicotinoyl Hydrazones Synthesis R (75 MHz, DMSO) δ ppm: 111.39 (1C, C3′), 121.98 (2C, C2,6), 122.73 (1C, C7′), 123.35 (1C,
m.p.: 299 °C (dec.). Rf: 0.1 EtOAc/MeOH (4:1 v/v). 1H-NMR (300 MHz, DMSO-d6) δ ppm: 2.43 (s, 3H, CH3), 8.42 (dd, J = 5.5, 1.8 Hz, 2H, H2,6), 8.53
(
1H H C N)
11 (
1H H )
14 (dd J
1
H
H H ) 1
(b
H N H)
9 °C (dec.). Rf: 0.1 EtOAc/MeOH (4:1 v/v). R (300 MHz, DMSO-d6) δ ppm: 2.43 (s, 3H, CH3), 8.42 (dd, J = 5.5, 1.8 Hz, 2H, H2,6), 8.53 1H-NMR (300 MHz, DMSO-d6) δ ppm: 2.43 (s, 3H, CH3), 8.42 (dd, J = 5.5, 1.8 Hz, 2H, H2,6), 8.53
(s, 1H, H-C=N), 9.11 (s, 1H, H3′), 9.14 (dd, J = 5.5, 1.8 Hz, 2H, H3,5), 15.98 (br, 2H, N-H). 13C-NMR (75 MHz, DMSO) δ ppm: 9.38 (1C, CH3), 123.60 (1C, C1′) 125.38 (2C, C2,6), 131.78 (1C, C5′),
138.44 (1C, C=N), 142.84 (1C, C3′), 144.03 (2C, C3,5), 147.78 (1C, C1), 159.52 (1C, C=O). FTIR (KBr) ν cm−1: 3194.75 (N-H), 3097.19 (Car-H), 1660.58 (C=O), 1621.45 (C=N-N), 1602.24
(Car=Car), 1551.49 (Car
N). 1H-NMR (300 MHz, DMSO-d6) δ ppm: 2.43 (s, 3H, CH3), 8.42 (dd, J = 5.5, 1.8 Hz, 2H, H2,6), 8.53
(s, 1H, H-C=N), 9.11 (s, 1H, H3′), 9.14 (dd, J = 5.5, 1.8 Hz, 2H, H3,5), 15.98 (br, 2H, N-H). 13C-NMR (75 MHz, DMSO) δ ppm: 9.38 (1C, CH3), 123.60 (1C, C1′) 125.38 (2C, C2,6), 131.78 (1C, C5′),
138.44 (1C, C=N), 142.84 (1C, C3′), 144.03 (2C, C3,5), 147.78 (1C, C1), 159.52 (1C, C=O). FTIR (KBr) ν cm−1: 3194.75 (N-H), 3097.19 (Car-H), 1660.58 (C=O), 1621.45 (C=N-N), 1602.24 (Car=Car),
1551.49 (Car
C=N), 8.79 (s, 2H, H3,5), 12.01 (s, 1H, N-H), 13.31 (s, 1H, N-Hind). R (75 MHz, DMSO) δ ppm: 111.39 (1C, C3′), 121.98 (2C, C2,6), 122.73 (1C, C7′), 123.35 (1C,
.19 (1C, C2′), 127.23 (1C, C1′), 134.99 (1C, C6′), 141.07 (1C, C1), 141.14 (1C, C8′), 150.31 (1C,
50.76 (2C, C3,5), 161.87 (1C, C=O). KBr) ν cm−1: 3188.96 (N-H), 3027.37 (Car-H), 1652 (C=O), 1622.47 (C=N-N), 1607.84
, 1549.40 (Car
N). N). m.p.: 299 C (dec.). Rf: 0.1 EtOAc/MeOH (4:1 v/v). 1H-NMR (300 MHz, DMSO-d6) δ ppm: 2.43 (s, 3H, CH3), 8.42 (dd, J = 5.5, 1.8 Hz, 2H, H2,6), 8.53
(s, 1H, H-C=N), 9.11 (s, 1H, H3′), 9.14 (dd, J = 5.5, 1.8 Hz, 2H, H3,5), 15.98 (br, 2H, N-H). E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
dih d
1H i d
l 5
l)
th l
)i
i
ti
h d
id (4) /
/
(
/ / )
R (300 MHz, DMSO-d6) δ ppm: 7.63 (d, J = 8.7 Hz, 1H, H3′), 7.84 (dd, J = 4.4, 1.6 Hz, 2H,
0 (dd, J = 8.8, 1.5 Hz, 1H, H2′), 8.03–8.10 (m, 1H, H7′), 8.17 (t, J = 1.2 Hz, 1H, H6′), 8.57 (s,
=N), 8.79 (s, 2H, H3,5), 12.01 (s, 1H, N-H), 13.31 (s, 1H, N-Hind). H2,6), 7.90 (dd, J = 8.8, 1.5 Hz, 1H, H2′), 8.03–8.10 (m, 1H, H7′), 8.17 (t, J = 1.2 Hz, 1H, H6′), 8.57 (s,
1H, H-C=N), 8.79 (s, 2H, H3,5), 12.01 (s, 1H, N-H), 13.31 (s, 1H, N-Hind). 13C-NMR (75 MHz, DMSO) δ ppm: 111.39 (1C, C3′), 121.98 (2C, C2,6), 122.73 (1C, C7′), 123.35 (1C,
1H-NMR (300 MHz, DMSO-d6) δ ppm: 7.63 (d, J = 8.7 Hz, 1H, H3′), 7.84 (dd, J = 4.4, 1.6 Hz, 2H,
H2,6), 7.90 (dd, J = 8.8, 1.5 Hz, 1H, H2′), 8.03–8.10 (m, 1H, H7′), 8.17 (t, J = 1.2 Hz, 1H, H6′), 8.57 (s,
1H, H-C=N), 8.79 (s, 2H, H3,5), 12.01 (s, 1H, N-H), 13.31 (s, 1H, N-Hind). C NMR (
MH
DMSO) δ
111 3 (1C C ) 1 1
( C C ) 1
3 (1C C ) 1 3 3 (1C
1H-NMR (300 MHz, DMSO-d6) δ ppm: 7.63 (d, J = 8.7 Hz, 1H, H3′), 7.84 (dd, J = 4.4, 1.6 Hz, 2H,
H2,6), 7.90 (dd, J = 8.8, 1.5 Hz, 1H, H2′), 8.03–8.10 (m, 1H, H7′), 8.17 (t, J = 1.2 Hz, 1H, H6′), 8.57 (s, 1H,
H-C=N), 8.79 (s, 2H, H3,5), 12.01 (s, 1H, N-H), 13.31 (s, 1H, N-Hind). (
)
R (300 MHz, DMSO-d6) δ ppm: 7.63 (d, J = 8.7 Hz, 1H, H3′), 7.84 (dd, J = 4.4, 1.6 Hz, 2H,
0 (dd, J = 8.8, 1.5 Hz, 1H, H2′), 8.03–8.10 (m, 1H, H7′), 8.17 (t, J = 1.2 Hz, 1H, H6′), 8.57 (s,
=N), 8.79 (s, 2H, H3,5), 12.01 (s, 1H, N-H), 13.31 (s, 1H, N-Hind). C9′), 124.19 (1C, C2′), 127.23 (1C, C1′), 134.99 (1C, C6′), 141.07 (1C, C1), 141.14 (1C, C8′), 150.31 (1C,
C=N), 150.76 (2C, C3,5), 161.87 (1C, C=O). E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
dih d
1H i d
l 5
l)
th l
)i
i
ti
h d
id (4) C9′), 124.19 (1C, C2′), 127.23 (1C, C1′), 134.99 (1C, C6′), 141.07 (1C, C1), 141.14 (1C, C8′), 150.31 (1C,
C=N), 150.76 (2C, C3,5), 161.87 (1C, C=O). FTIR (KBr) ν cm−1: 3188.96 (N-H), 3027.37 (Car-H), 1652 (C=O), 1622.47 (C=N-N), 1607.84
13C-NMR (75 MHz, DMSO) δ ppm: 111.39 (1C, C3′), 121.98 (2C, C2,6), 122.73 (1C, C7′), 123.35 (1C,
C9′), 124.19 (1C, C2′), 127.23 (1C, C1′), 134.99 (1C, C6′), 141.07 (1C, C1), 141.14 (1C, C8′), 150.31 (1C,
C=N), 150.76 (2C, C3,5), 161.87 (1C, C=O). FTIR (KB )
1 3188 96 (N H) 3027 37 (C
H) 1652 (C O) 1622 47 (C N N) 1607 84
,
13C-NMR (75 MHz, DMSO) δ ppm: 111.39 (1C, C3′), 121.98 (2C, C2,6), 122.73 (1C, C7′), 123.35 (1C, C9′),
124.19 (1C, C2′), 127.23 (1C, C1′), 134.99 (1C, C6′), 141.07 (1C, C1), 141.14 (1C, C8′), 150.31 (1C, C=N),
150.76 (2C, C3,5), 161.87 (1C, C=O). ),
( ,
,
, ),
( ,
,
),
( ,
,
)
R (75 MHz, DMSO) δ ppm: 111.39 (1C, C3′), 121.98 (2C, C2,6), 122.73 (1C, C7′), 123.35 (1C,
19 (1C, C2′), 127.23 (1C, C1′), 134.99 (1C, C6′), 141.07 (1C, C1), 141.14 (1C, C8′), 150.31 (1C,
50.76 (2C, C3,5), 161.87 (1C, C=O). (Car=Car), 1549.40 (Car
N). UV (EtOH, 38.37 μM, 25 °C): λ = 234 nm, ε = 22,666.92 dm3·mol−1·cm−1. MS (ES TOF M OH)
/
266 1046 [M
H ]
FTIR (KBr) ν cm−1: 3188.96 (N-H), 3027.37 (Car-H), 1652 (C=O), 1622.47 (C=N-N), 1607.84
(Car=Car), 1549.40 (Car
N). UV (EtOH 38 37 μM 25 °C): λ = 234 nm ε = 22 666 92 dm3·mol−1·cm−1
,
FTIR (KBr) ν cm−1: 3188.96 (N-H), 3027.37 (Car-H), 1652 (C=O), 1622.47 (C=N-N), 1607.84 (Car=Car),
1549.40 (Car
(
,
),
(
,
)
KBr) ν cm−1: 3188.96 (N-H), 3027.37 (Car-H), 1652 (C=O), 1622.47 (C=N-N), 1607.84
, 1549.40 (Car
N). N). MS (ES, TOF, MeOH) m/z: 266.1046 [M + H+]. HRMS (ES, TOF) m/z: [M + H+] calc. for C14H12N5O: 266.1042. Found: 266.1046. UV (EtOH, 38.37 μM, 25 C): λ = 234 nm, ε = 22,666.92 dm3·mol 1·cm 1. MS (ES, TOF, MeOH) m/z: 266.1046 [M + H+]. HRMS (ES TOF) m/z: [M + H+] calc for C14H12N5O: 266 1042 Found: 266 1046
OH, 38.37 μM, 25 °C): λ = 234 nm, ε = 22,666.92 dm3·mol−1·cm−1. , TOF, MeOH) m/z: 266.1046 [M + H+]. UV (EtOH, 38.37 µM, 25 ◦C): λ = 234 nm, ε = 22,666.92 dm3·mol−1·cm−1. 3.2.1. General Procedure for Phenolic Isonicotinoyl Hydrazones Synthesis
4.2.1. General Procedure for Phenolic Isonicotinoyl Hydrazones Synthesis R (300 MHz, DMSO-d6) δ ppm: 7.63 (d, J = 8.7 Hz, 1H
0 (dd, J = 8.8, 1.5 Hz, 1H, H2′), 8.03–8.10 (m, 1H, H7′),
/
/ m.p.: 299 °C (dec.). Rf: 0.1 EtOAc/MeOH (4:1 v/v
m.p.: 299 ◦C (dec.). Rf: 0.1 EtOAc/MeOH (4:1 v/v). R (300 MHz, DMSO-d6) δ ppm: 7.63 (d, J = 8.7 Hz, 1H
0 (dd, J = 8.8, 1.5 Hz, 1H, H2′), 8.03–8.10 (m, 1H, H7′),
299 °C (d
) R 0 1 E OA /M OH (4 1 / 1H-NMR (300 MHz, DMSO-d6) δ ppm: 2.43 (s, 3H, CH3), 8.42 (dd, J = 5.5, 1.8 Hz, 2H, H2,6), 8.53
(s, 1H, H-C=N), 9.11 (s, 1H, H3′), 9.14 (dd, J = 5.5, 1.8 Hz, 2H, H3,5), 15.98 (br, 2H, N-H). 1H-NMR (300 MHz, DMSO-d6) δ ppm: 2.43 (s, 3H, CH3), 8.42 (dd, J = 5.5, 1.8 Hz, 2H, H2,6), 8.53
(s, 1H, H-C=N), 9.11 (s, 1H, H3′), 9.14 (dd, J = 5.5, 1.8 Hz, 2H, H3,5), 15.98 (br, 2H, N-H). (
, J
,
,
,
),
(
,
,
),
( , J
,
,
),
( ,
=N), 8.79 (s, 2H, H3,5), 12.01 (s, 1H, N-H), 13.31 (s, 1H, N-Hind). R (75 MHz, DMSO) δ ppm: 111.39 (1C, C3′), 121.98 (2C, C2,6), 122.73 (1C, C7′), 123.35 (1C,
m.p.: 299 °C (dec.). Rf: 0.1 EtOAc/MeOH (4:1 v/v). 1H-NMR (300 MHz, DMSO-d6) δ ppm: 2.43 (s, 3H, CH3), 8.42 (dd, J = 5.5, 1.8 Hz, 2H, H2,6), 8.53
dd
b
9 °C (dec.). Rf: 0.1 EtOAc/MeOH (4:1 v/v). R (300 MHz, DMSO-d6) δ ppm: 2.43 (s, 3H, CH3), 8.42 (dd, J = 5.5, 1.8 Hz, 2H, H2,6), 8.53 1H-NMR (300 MHz, DMSO-d6) δ ppm: 2.43 (s, 3H, CH3), 8.42 (dd, J = 5.5, 1.8 Hz, 2H, H2,6), 8.53
(s, 1H, H-C=N), 9.11 (s, 1H, H3′), 9.14 (dd, J = 5.5, 1.8 Hz, 2H, H3,5), 15.98 (br, 2H, N-H). 1H-NMR (300 MHz, DMSO-d6) δ ppm: 2.43 (s, 3H, CH3), 8.42 (dd, J = 5.5, 1.8 Hz, 2H, H2,6), 8.53
(s, 1H, H-C=N), 9.11 (s, 1H, H3′), 9.14 (dd, J = 5.5, 1.8 Hz, 2H, H3,5), 15.98 (br, 2H, N-H). (
, J
,
,
,
),
(
,
,
),
( , J
,
,
),
( ,
=N), 8.79 (s, 2H, H3,5), 12.01 (s, 1H, N-H), 13.31 (s, 1H, N-Hind). 3.2.1. General Procedure for Phenolic Isonicotinoyl Hydrazones Synthesis
4.2.1. General Procedure for Phenolic Isonicotinoyl Hydrazones Synthesis )
(
)
UV (EtOH, 182 µM, 25 ◦C): λ = 309 nm, ε = 5495.05 dm3·mol−1·cm−1 (
MS (ES, TOF, MeOH) m/z: 238.0708 [M + Na+]; 216.0887 [M + H+]. OH, 38.37 μM, 25 °C): λ = 234 nm, ε = 22,666.92 dm3·mol−1·cm−1. TOF, MeOH) m/z: 266.1046 [M + H+]. (ES, TOF) m/z: [M + H+] calc. for C14H12N5O: 266.1042. Found: 266.1046. UV (EtOH, 182 µM, 25 ◦C): λ = 309 nm, ε = 5495.05 dm3·mol−1·cm−1 (very poorly so
MS (ES, TOF, MeOH) m/z: 238.0708 [M + Na+]; 216.0887 [M + H+]. HRMS (ES, TOF) m/z: M + H+ calc. for C10H10N5O: 216.0885. Found: 216.0887. (ES, TOF) m/z: [M + H+] calc. for C14H12N5O: 266.1042. Found: 266.1046. HRMS (ES, TOF) m/z: M + H+ calc. for C10H10N5O: 216.0885. Found: 216.0887. 16 of 27 16 of 27 Molecules 2017, 22, 1457
MS (ES, TOF,
(ES, TOF) m/z: [M + H
UV (EtOH, 182
MS (ES TOF M
, 1551.04 (Car
N),
OH, 182 μM, 25 °C): λ (E)-N′-((4-methyl-1H-imidazol-5-yl)methylene)isonicotinohydrazide (3)
(E)-N′-((4-methyl-1H-imidazol-5-yl)methylene)isonicotinohydrazide (3)
y
y
y
y
HRMS (ES, TOF) m/z: M + H+ calc. for C10H10N5O: 216.0885. Found: 2
,
,
[
];
[
]
(ES, TOF) m/z: M + H+ calc. for C10H10N5O: 216.0885. Found: 216.0887. (E)-N′-((4-methyl-1H-imidazol-5-yl)methylene)isonicotinohydrazide (3)
(E)-N′-((4-methyl-1H-imidazol-5-yl)methylene)isonicotinohydrazide (3)
HRMS (ES, TOF) m/z: M + H+ calc. for C10H10N5O: 216.0885. Found: 2
,
,
[
]
[
]
(ES, TOF) m/z: M + H+ calc. for C10H10N5O: 216.0885. Found: 216.0887. E)-N′-((4-methyl-1H-imidazol-5-yl)methylene)isonicotinohydrazide (3)
E)-N′-((4-methyl-1H-imidazol-5-yl)methylene)isonicotinohydrazide (3)
HRMS (ES, TOF) m/z: M + H+ calc. for C10H10N5O: 216.0885. Found: 2
[
]
[
]
S, TOF) m/z: M + H+ calc. for C10H10N5O: 216.0885. Found: 216.0887. eOH (5:5:3 v/v/v). y
y
y
hylene)isonicotinohydrazide (3) 5:5:3 m.p.: 299 °C (dec.). Rf: 0.1 EtOAc/MeOH (4:1 v/v). m.p.: 299 ◦C (dec.). Rf: 0.1 EtOAc/MeOH (4:1 v/v). R (300 MHz, DMSO-d6) δ ppm: 7.63 (d, J = 8.7 Hz, 1H, H3′), 7.84 (dd, J = 4.4, 1.6 Hz, 2H,
0 (dd, J = 8.8, 1.5 Hz, 1H, H2′), 8.03–8.10 (m, 1H, H7′), 8.17 (t, J = 1.2 Hz, 1H, H6′), 8.57 (s,
299 °C (d
) R 0 1 E OA /M OH (4 1 / ) m.p.: 299 °C (dec.). Rf: 0.1 EtOAc/MeOH (4:1 v/v
m.p.: 299 ◦C (dec.). Rf: 0.1 EtOAc/MeOH (4:1 v/v). E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
dih d
1H i d
l 5
l)
th l
)i
i
ti
h d
id (4) Rf: 0.55 PE/EtOAc/MeOH (5:5:3 v/v/v). 1H-NMR (300 MHz DMSO-d6) δ ppm: 2 54 (s 3H CH3) 7 12 (ddt J = 24 4 9 3 1 9 1 9 Hz 2H
m.p.: 281.1 ◦C. Rf: 0.55 PE/EtOAc/MeOH (5:5:3 v/v/v). 1 1H-NMR (300 MHz, DMSO-d6) δ ppm: 2.54 (s, 3H, C
H5′, H6′), 7.35 (tt, J = 2.4, 1.7, 0.9, 0.8 Hz, 1H, H4′), 7.85
m.p.: 281.1 °C. Rf: 0.55 PE/EtOAc/MeOH (5:5:3 v/v/v)
1H NMR (300 MH
DMSO d ) δ
2 54 (
3H C
m.p.: 281.1 ◦C. Rf: 0.55 PE/EtOAc/MeOH (5:5:3 v/v/v). 1H-NMR (300 MHz, DMSO-d6) δ ppm: 2.54 (s, 3H, C
H5′, H6′), 7.35 (tt, J = 2.4, 1.7, 0.9, 0.8 Hz, 1H, H4′), 7.85
m.p.: 281.1 °C. Rf: 0.55 PE/EtOAc/MeOH (5:5:3 v/v/v)
1H NMR (300 MH
DMSO d ) δ
2 54 (
3H C
m.p.: 281.1 ◦C. Rf: 0.55 PE/EtOAc/MeOH (5:5:3 v/v/v). 1H-NMR (300 MHz, DMSO-d6) δ ppm: 2.54 (s, 3H, C
H5′ H6′) 7 35 (tt J = 2 4 1 7 0 9 0 8 Hz 1H H4′) 7 85
m.p.: 281.1 °C. Rf: 0.55 PE/EtOAc/MeOH (5:5:3 v/v/v)
1H NMR (300 MH
DMSO d ) δ
2 54 (
3H C
m.p.: 281.1 ◦C. Rf: 0.55 PE/EtOAc/MeOH (5:5:3 v/v/v). H5, H6), 7.35 (tt, J 2.4, 1.7, 0.9, 0.8 Hz, 1H, H4), 7.85 (dd, J 4.5, 1.8 Hz, 2H, H2,6), 8.16 8.32 (m,
1H, H7′), 8.71 (s, 1H, H-C=N), 8.78 (dd, J = 4.4, 1.6 Hz, 2H, H3,5), 11.55 (d, J = 7.4 Hz, 1H, N-H),
11.67 (s, 1H, N-Hind). 13C-NMR (75 MHz, DMSO) δ ppm: 11.97 (1C, CH3), 107.84 (1C, C1′), 111.34 (1C, C4′), 120.82 (1C, C7′),
121 63(1C C5′) 121 87 (2C C2 6) 122 34 (1C C6′) 125 85 (1C C9′) 136 19 (1C C8′) 141 05 (1C C2′)
1H-NMR (300 MHz, DMSO-d6) δ ppm: 2.54 (s, 3H, CH3), 7.12 (ddt, J = 24.4, 9.3, 1.9, 1.9 Hz, 2H,
H5′, H6′), 7.35 (tt, J = 2.4, 1.7, 0.9, 0.8 Hz, 1H, H4′), 7.85 (dd, J = 4.5, 1.8 Hz, 2H, H2,6), 8.16–8.32 (m,
1H, H7′), 8.71 (s, 1H, H-C=N), 8.78 (dd, J = 4.4, 1.6 Hz, 2H, H3,5), 11.55 (d, J = 7.4 Hz, 1H, N-H),
11.67 (s, 1H, N-Hind). E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
dih d
1H i d
l 5
l)
th l
)i
i
ti
h d
id (4) 13C NMR (75 MH
DMSO) δ
110 75 (1C C ) 119 03 (1C C ) 121 51 (2C C ) 122 01 (1C C )
1H-NMR (300 MHz, DMSO-d6) δ ppm: 7.61 (dd, J = 8.5, 1.3 Hz, 1H, H7′), 7.84 (m, 4H, H2,6, H2′,
H6′), 8.13 (d, J = 1.3 Hz, 1H, H5′), 8.60 (s, 1H, H-C=N), 8.80 (br, 2H, H3,5), 12.12 (s, 1H, N-H), 13.28
(s, 1H, N-Hind). /
/
(
/ / )
R (300 MHz, DMSO-d6) δ ppm: 7.63 (d, J = 8.7 Hz, 1H, H3′), 7.84 (dd, J = 4.4, 1.6 Hz, 2H,
90 (dd, J = 8.8, 1.5 Hz, 1H, H2′), 8.03–8.10 (m, 1H, H7′), 8.17 (t, J = 1.2 Hz, 1H, H6′), 8.57 (s,
C=N), 8.79 (s, 2H, H3,5), 12.01 (s, 1H, N-H), 13.31 (s, 1H, N-Hind). m.p.: 295.2 °C. Rf: 0.45 PE/EtOAc/MeOH (5:5:3 v/v/v). 1H-NMR (300 MHz, DMSO-d6) δ ppm: 7.61 (dd, J = 8.5, 1.3 Hz, 1H, H7′), 7.84 (m, 4H, H2,6, H2′,
H6′), 8.13 (d, J = 1.3 Hz, 1H, H5′), 8.60 (s, 1H, H-C=N), 8.80 (br, 2H, H3,5), 12.12 (s, 1H, N-H), 13.28 13C-NMR (75 MHz, DMSO) δ ppm: 110.75 (1C, C2′), 119.03 (1C, C7′), 121.51 (2C, C2,6), 122.01 (1C, C6′),
124.39 (1C, C8′), 132.43 (1C, C1′), 134.21 (1C, C5′), 140.33 (1C, C1), 140.95 (1C, C9′), 150.03 (1C, C=N),
150.79 (2C, C3,5), 162.08 (1C, C=O). FTIR (KB )
1 3193 59 (N H) 3038 08 (C H ) 1648 96 (C O) 1626 02 (C N N) 1596 86
13C-NMR (75 MHz, DMSO) δ ppm: 110.75 (1C, C2′), 119.03 (1C, C7′), 121.51 (2C, C2,6), 122.01 (1C, C6′),
124.39 (1C, C8′), 132.43 (1C, C1′), 134.21 (1C, C5′), 140.33 (1C, C1), 140.95 (1C, C9′), 150.03 (1C, C=N),
150.79 (2C, C3,5), 162.08 (1C, C=O). ),
( ,
,
),
( ,
,
),
( ,
,
)
R (75 MHz, DMSO) δ ppm: 111.39 (1C, C3′), 121.98 (2C, C2,6), 122.73 (1C, C7′), 123.35 (1C,
19 (1C, C2′), 127.23 (1C, C1′), 134.99 (1C, C6′), 141.07 (1C, C1), 141.14 (1C, C8′), 150.31 (1C,
50.76 (2C, C3,5), 161.87 (1C, C=O). (s, 1H, N-Hind). 13C-NMR (75 MHz, DMSO) δ ppm: 110.75 (1C, C2′), 119.03 (1C, C7′), 121.51 (2C, C2,6), 122.01 (1C, C6′),
124.39 (1C, C8′), 132.43 (1C, C1′), 134.21 (1C, C5′), 140.33 (1C, C1), 140.95 (1C, C9′), 150.03 (1C, C=N),
m.p.: 299 °C (dec.). Rf: 0.1 EtOAc/MeOH (4:1 v/v). E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
dih d
1H i d
l 5
l)
th l
)i
i
ti
h d
id (4) FTIR (KBr) ν cm−1: 3385.07 (N-H), 3209.03 (N-H), 3049.08 (Car-H), 1655.09 (C=O), 1626.02 (C=N-
N), 1599.50 (C=Car), 1550.60 (Car
N), 1506.46 (C=N). UV (EtOH, 57.29 μM, 25 °C): λ = 224 nm, ε = 21,909.58 dm3·mol−1·cm−1. 141.56 (1C, C1), 146.10 (1C, C=N), 150.69 (2C, C3,5), 161.00 (1C, C=O). FTIR (KBr) ν cm−1: 3385.07 (N-H), 3209.03 (N-H), 3049.08 (Car-H), 1655.09 (C=O), 1626.02 (C=N-N),
1599.50 (C=Car), 1550.60 (Car
C=N), 150.76 (2C, C3,5), 161.87 (1C, C=O). FTIR (KBr) ν cm−1: 3188.96 (N-H), 3027.37 (Car-H), 1652 (C=O), 1622.47 (C=N-N), 1607.8
(Car=Car), 1549.40 (Car
N). UV (EtOH 38 37
M 25 °C) λ
234
22 666 92 d
3
ol 1
1
N), 1506.46 (C=N). UV (EtOH 57 29
M 25 ◦C) λ
224
21 909 58 d
3
l
1
1 N), 1599.50 (C Car), 1550.60 (Car
N), 1506.46 (C N). UV (EtOH, 57.29 μM, 25 °C): λ = 224 nm, ε = 21,909.58 dm3·mol−1·cm−1. MS (ES, TOF, MeOH) m/z: 279.1246 [M + H+]. FTIR (KBr) ν cm−1: 3385.07 (N-H), 3209.03 (N-H), 3049.08 (Car-H), 1655.09 (C=O), 1626.02 (C=N-
N), 1599.50 (C=Car), 1550.60 (Car
N), 1506.46 (C=N). UV (EtOH 57 29 μM 25 °C): λ = 224 nm ε = 21 909 58 dm3 mol−1 cm−1
,
FTIR (KBr) ν cm−1: 3385.07 (N-H), 3209.03 (N-H), 3049.08 (Car-H), 1655.09 (C=O), 1626.02 (C=N-N),
1599.50 (C=Car), 1550.60 (Car
)
(
)
(
)
FTIR (KBr) ν cm−1: 3188.96 (N-H), 3027.37 (Car-H), 1652 (C=O), 1622.47 (C=N-N), 1607.8
(Car=Car), 1549.40 (Car
N). N), 1506.46 (C=N). (
,
,
)
[
]
HRMS (ES, TOF) m/z: [M + H+] calc. for C16H15N4O: 279.1246. Found:
UV (EtOH, 57.29 μM, 25 C): λ = 224 nm, ε = 21,909.58 dm3·mol 1·cm 1
MS (ES TOF MeOH) m/z: 279 1246 [M + H+]
(
)
(
)
UV (EtOH, 38.37 μM, 25 °C): λ = 234 nm, ε = 22,666.92 dm3·mol−1·cm
UV (EtOH, 57.29 µM, 25 ◦C): λ = 224 nm, ε = 21,909.58 dm3·mol−1·cm−1. ,
,
[
]
HRMS (ES, TOF) m/z: [M + H+] calc. for C16H15N4O: 279.1246. Found: 279.12
UV (EtOH, 57.29 μM, 25 C): λ = 224 nm, ε = 21,909.58 dm mol
cm . MS (ES TOF MeOH) m/z: 279 1246 [M + H+]
UV (EtOH, 38.37 μM, 25 °C): λ = 234 nm, ε = 22,666.92 dm3·mol−1·cm−1. UV (EtOH, 57.29 µM, 25 ◦C): λ = 224 nm, ε = 21,909.58 dm3·mol−1·cm−1. E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
dih d
1H i d
l 5
l)
th l
)i
i
ti
h d
id (4) 1H-NMR (300 MHz, DMSO-d6) δ ppm: 2.54 (s, 3H, CH3), 7.12 (ddt, J = 24.4, 9.3, 1.9, 1.9 Hz, 2H,
H5′, H6′), 7.35 (tt, J = 2.4, 1.7, 0.9, 0.8 Hz, 1H, H4′), 7.85 (dd, J = 4.5, 1.8 Hz, 2H, H2,6), 8.16–8.32 (m,
1H, H7′), 8.71 (s, 1H, H-C=N), 8.78 (dd, J = 4.4, 1.6 Hz, 2H, H3,5), 11.55 (d, J = 7.4 Hz, 1H, N-H),
11.67 (s, 1H, N-Hind). 13C-NMR (75 MHz, DMSO) δ ppm: 11.97 (1C, CH3), 107.84 (1C, C1′), 111.34 (1C, C4′), 120.82 (1C, C7′),
m.p.: 281.1 ◦C. Rf: 0.55 PE/EtOAc/MeOH (5:5:3 v/v/v). 1H-NMR (300 MHz, DMSO-d6) δ ppm: 2.54 (s, 3H, CH3), 7.12 (ddt, J = 24.4, 9.3, 1.9, 1.9 Hz, 2H, H5′,
H6′), 7.35 (tt, J = 2.4, 1.7, 0.9, 0.8 Hz, 1H, H4′), 7.85 (dd, J = 4.5, 1.8 Hz, 2H, H2,6), 8.16–8.32 (m, 1H, H7′),
8.71 (s, 1H, H-C=N), 8.78 (dd, J = 4.4, 1.6 Hz, 2H, H3,5), 11.55 (d, J = 7.4 Hz, 1H, N-H), 11.67 (s, 1H,
N-Hind). 13C-NMR (75 MHz, DMSO) δ ppm: 11.97 (1C, CH3), 107.84 (1C, C1′), 111.34 (1C, C4′), 120.82 (1C, C7′),
MS (ES, TOF, MeOH) m/z: 252.0866 [M + Na ]; 230.1049 [M + H ]. HRMS (ES, TOF) m/z: [M + H+] calc. for C11H12N5O: 230.1042. Found: 230.1049. (E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
m.p.: 302.5 °C. Rf: 0.45 PE/EtOAc/MeOH (5:5:3 v/v/v). 1H-NMR (300 MHz, DMSO-d6) δ ppm: 7.63 (d, J = 8.7 Hz, 1H, H3′), 7.84 (dd, J = 4.4, 1.6 Hz, 2H
H2,6), 7.90 (dd, J = 8.8, 1.5 Hz, 1H, H2′), 8.03–8.10 (m, 1H, H7′), 8.17 (t, J = 1.2 Hz, 1H, H6′), 8.57 (
1H, H-C=N), 8.79 (s, 2H, H3,5), 12.01 (s, 1H, N-H), 13.31 (s, 1H, N-Hind). 13C-NMR (75 MHz DMSO) δ ppm: 111 39 (1C C3′) 121 98 (2C C2 6) 122 73 (1C C7′) 123 35 (1 (E) N ((2 methyl 1H indol 3 yl)methylene)isonicotinohydrazide (6)
(E)-N′-((2-methyl-1H-indol-3-yl)methylene)isonicotinohydrazide (6)
(E)-N′-((2-methyl-1H-indol-3-yl)methylene)isonicotinohydrazide (6)
MS (ES, TOF, MeOH) m/z: 252.0866 [M + Na ]; 230.1049 [M +
HRMS (ES, TOF) m/z: [M + H+] calc. for C11H12N5O: 230.1042. 55 PE/EtOAc/MeOH (5:5:3 v/v/v). o-1H-indazol-5-yl)methylene)isonicotinohydrazide ( EtO 1H-NMR (300 MHz, DMSO-d6) δ ppm: 2.54 (s, 3H, CH3), 7.12 (ddt, J = 24.4, 9.3, 1.9, 1.9 Hz, 2H,
H5′, H6′), 7.35 (tt, J = 2.4, 1.7, 0.9, 0.8 Hz, 1H, H4′), 7.85 (dd, J = 4.5, 1.8 Hz, 2H, H2,6), 8.16–8.32 (m,
m.p.: 281.1 °C. E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
dih d
1H i d
l 5
l)
th l
)i
i
ti
h d
id (4) 1H-NMR (300 MHz, DMSO-d6) δ ppm: 2.54 (s, 3H, CH3), 7.12 (ddt, J = 24.4,
H5′, H6′), 7.35 (tt, J = 2.4, 1.7, 0.9, 0.8 Hz, 1H, H4′), 7.85 (dd, J = 4.5, 1.8 Hz, 2H
1H, H7′), 8.71 (s, 1H, H-C=N), 8.78 (dd, J = 4.4, 1.6 Hz, 2H, H3,5), 11.55 (d, J
(E)-N′-((2-methyl-1H-indol-3-yl)methylene)isonicotinohydrazide (6)
(E)-N′-((2-methyl-1H-indol-3-yl)methylene)isonicotinohydrazide (6)
m.p.: 281.1 °C. Rf: 0.55 PE/EtOAc/MeOH (5:5:3 v/v/v). 1H-NMR (300 MHz, DMSO-d6) δ ppm: 2.54 (s, 3H, CH3), 7.12 (ddt, J = 24.4,
H5′, H6′), 7.35 (tt, J = 2.4, 1.7, 0.9, 0.8 Hz, 1H, H4′), 7.85 (dd, J = 4.5, 1.8 Hz, 2H
m.p.: 281.1 ◦C. Rf: 0.55 PE/EtOAc/MeOH (5:5:3 v/v/v). 1H-NMR (300 MHz, DMSO-d6) δ ppm: 2.54 (s, 3H, CH3), 7.12 (ddt, J = 24.4, 9.3,
H ) 7 35 (tt J
2 4 1 7 0 9 0 8 H
1H H ) 7 85 (dd J
4 5 1 8 H
2H H
) 8
MS (ES, TOF, MeOH) m/z: 252.0866 [M + Na ]; 230.1049 [M + H ]. HRMS (ES, TOF) m/z: [M + H+] calc. for C11H12N5O: 230.1042. Found: 230
(E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
m.p.: 302.5 °C. Rf: 0.45 PE/EtOAc/MeOH (5:5:3 v/v/v). d (E) N ((2 methyl 1H indol 3 yl)methylene)isonicotinohydrazide (6)
(E)-N′-((2-methyl-1H-indol-3-yl)methylene)isonicotinohydrazide (6)
(E)-N′-((2-methyl-1H-indol-3-yl)methylene)isonicotinohydrazide (6)
MS (ES, TOF, MeOH) m/z: 252.0866 [M + Na ]; 230.1049 [M +
HRMS (ES, TOF) m/z: [M + H+] calc. for C11H12N5O: 230.1042. (E) N ((2 methyl 1H indol 3 yl)methylene)isonicotinohydrazide (6)
m.p.: 281.1 °C. Rf: 0.55 PE/EtOAc/MeOH (5:5:3 v/v/v). 1H-NMR (300 MHz, DMSO-d6) δ ppm: 2.54 (s, 3H, CH3), 7.12 (ddt, J = 24.4, 9.3, 1.9, 1.9 Hz, 2H,
H5′, H6′), 7.35 (tt, J = 2.4, 1.7, 0.9, 0.8 Hz, 1H, H4′), 7.85 (dd, J = 4.5, 1.8 Hz, 2H, H2,6), 8.16–8.32 (m,
1H, H7′), 8.71 (s, 1H, H-C=N), 8.78 (dd, J = 4.4, 1.6 Hz, 2H, H3,5), 11.55 (d, J = 7.4 Hz, 1H, N-H),
11.67 (s, 1H, N-Hind). 13C-NMR (75 MHz, DMSO) δ ppm: 11.97 (1C, CH3), 107.84 (1C, C1′), 111.34 (1C, C4′), 120.82 (1C, C7′),
121.63(1C, C5′), 121.87 (2C, C2,6), 122.34 (1C, C6′), 125.85 (1C, C9′), 136.19 (1C, C8′), 141.05 (1C, C2′),
141 56 (1C C1) 146 10 (1C C=N) 150 69 (2C C3 5) 161 00 (1C C=O)
(E)-N′-((2-methyl-1H-indol-3-yl)methylene)isonicotinohydrazide (6)
(E)-N′-((2-methyl-1H-indol-3-yl)methylene)isonicotinohydrazide (6)
m.p.: 281.1 °C. Rf: 0.55 PE/EtOAc/MeOH (5:5:3 v/v/v). E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
dih d
1H i d
l 5
l)
th l
)i
i
ti
h d
id (4) MS (ES, TOF, MeOH) m/z: 266.1046 [M + H+]. MS (ES, TOF, MeOH) m/z: 266.1046 [M + H+]. HRMS (ES, TOF) m/z: [M + H+] calc. for C14H12N5O: 266.1042. Found: 266.104
UV (EtOH, 38.37 μM, 25 C): λ = 234 nm, ε = 22,666.92 dm3·mol 1·cm 1. MS (ES, TOF, MeOH) m/z: 266.1046 [M + H+]. OH, 38.37 μM, 25 °C): λ = 234 nm, ε = 22,666.92 dm3·mol−1·cm−1. TOF MeOH) m/z: 266 1046 [M + H+]
UV (EtOH, 38.37 µM, 25 ◦C): λ = 234 nm, ε = 22,666.92 dm3·mol−1·cm−1. MS (ES TOF M OH)
/
266 1046 [M
H+] HRMS (ES, TOF) m/z: [M + H ] calc. for C14H12N5O: 266.1042. Found: 266.1046
ES, TOF) m/z: [M + H+] calc. for C14H12N5O: 266.1042. Found: 266.1046. HRMS (ES, TOF) m/z: [M + H+] calc. for C14H12N5O: 266.1042. Found: 266.1046. HRMS (ES, TOF) m/z: [M + H ] calc. for C14H12N5O: 266.1042. Found: 266.1046
(ES, TOF) m/z: [M + H+] calc. for C14H12N5O: 266.1042. Found: 266.1046. HRMS (ES, TOF) m/z: [M + H+] calc. for C14H12N5O: 266.1042. Found: 266.1046. 17 of 27
16 of 2 17 of 27
16 of 2 Molecules 2017, 22, 1457
OH, 161.58 μM, 25 °C
)
/
Molecules 2017, 22, 14 (E)-N′-((2H-indazol-6-yl)methylene)isonicotinohydrazide (5)
,
,
(E)-N′-((2H-indazol-6-yl)methylene)isonicotinohydrazide (5)
ES, TOF) m/z: [M + H+] calc. for C11H12N5O: 230.1042. Found: 23
Molecules 2017, 22, 1457
FTIR (KBr) ν cm−1: 3193.59 (N-H), 3038.08 (C-Har), 1
(C=Car), 1551.04 (Car
N), 1506.46 (C=N). (E)-N′-((2H-indazol-6-yl)methylene)isonicotinohydrazide (5)
(E)-N′-((2H-indazol-6-yl)methylene)isonicotinohydrazide (5)
(ES, TOF) m/z: [M + H+] calc. for C11H12N5O: 230.1042. Found: 23
Molecules 2017, 22, 1457
FTIR (KBr) ν cm−1: 3193.59 (N-H), 3038.08 (C-Har), 1
(C=Car), 1551 04 (Car
N), 1506 46 (C=N) y )
y
)
y
( )
zol-6-yl)methylene)isonicotinohydrazide (5)
H, 182 μM, 25 C): λ = 309 nm, ε = 5495.05 dm3·mol 1·cm 1 (very poorly soluble). TOF, MeOH) m/z: 238.0708 [M + Na+]; 216.0887 [M + H+]. S, TOF) m/z: M + H+ calc. for C10H10N5O: 216.0885. Found: 216.0887. hyl-1H-imidazol-5-yl)methylene)isonicotinohydrazide (3) m.p.: 295.2 °C. Rf: 0.45 PE/EtOAc/MeOH (5:5:3 v/v/v). 1H NMR (300 MH
DMSO d ) δ
7 61 (dd J
8 5 1 3 H
1H H ) 7 84 (
4H H
H
.: 295.2 ◦C. Rf: 0.45 PE/EtOAc/MeOH (5:5:3 v/v/v). C. Rf: 0.45 PE/EtOAc/MeOH (5:5:3 v/v/v). m.p.: 295.2 °C. Rf: 0.45 PE/EtOAc/MeOH (5:5:3 v/v/v). E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
dih d
1H i d
l 5
l)
th l
)i
i
ti
h d
id (4) 1H NMR (300 MH
DMSO d ) δ
7 61 (dd J
m.p.: 295.2 ◦C. Rf: 0.45 PE/EtOAc/MeOH (5:5:3 v/v/v). 2.5 °C. Rf: 0.45 PE/EtOAc/MeOH (5:5:3 v/v/v). m.p.: 295.2 °C. Rf: 0.45 PE/EtOAc/MeOH (5:5:3 v/v/v). 1H NMR (300 MH
DMSO d ) δ
7 61 (dd J
m.p.: 295.2 ◦C. Rf: 0.45 PE/EtOAc/MeOH (5:5:3 v/v/v). 2.5 °C. Rf: 0.45 PE/EtOAc/MeOH (5:5:3 v/v/v). 1H-NMR (300 MHz, DMSO-d6) δ ppm: 7.61 (dd, J = 8.5, 1.3 Hz, 1H, H7′), 7.84 (m, 4H, H2,6, H2′,
H6′), 8.13 (d, J = 1.3 Hz, 1H, H5′), 8.60 (s, 1H, H-C=N), 8.80 (br, 2H, H3,5), 12.12 (s, 1H, N-H), 13.28
(s, 1H, N-Hind). 13C NMR (75 MH
DMSO) δ
110 75 (1C C ) 119 03 (1C C ) 121 51 (2C C ) 122 01 (1C C )
1H-NMR (300 MHz, DMSO-d6) δ ppm: 7.61 (dd, J = 8.5, 1.3 Hz, 1H, H7′), 7.84 (m, 4H, H2,6, H2′,
H6′), 8.13 (d, J = 1.3 Hz, 1H, H5′), 8.60 (s, 1H, H-C=N), 8.80 (br, 2H, H3,5), 12.12 (s, 1H, N-H), 13.28
(s, 1H, N-Hind). /
/
(
/ / )
R (300 MHz, DMSO-d6) δ ppm: 7.63 (d, J = 8.7 Hz, 1H, H3′), 7.84 (dd, J = 4.4, 1.6 Hz, 2H,
90 (dd, J = 8.8, 1.5 Hz, 1H, H2′), 8.03–8.10 (m, 1H, H7′), 8.17 (t, J = 1.2 Hz, 1H, H6′), 8.57 (s,
C=N), 8.79 (s, 2H, H3,5), 12.01 (s, 1H, N-H), 13.31 (s, 1H, N-Hind). m.p.: 295.2 °C. Rf: 0.45 PE/EtOAc/MeOH (5:5:3 v/v/v). 1H-NMR (300 MHz, DMSO-d6) δ ppm: 7.61 (dd, J = 8.5, 1.3 Hz, 1H, H7′), 7.84 (m, 4H, H2,6, H2′,
H6′), 8.13 (d, J = 1.3 Hz, 1H, H5′), 8.60 (s, 1H, H-C=N), 8.80 (br, 2H, H3,5), 12.12 (s, 1H, N-H), 13.28 1H-NMR (300 MHz, DMSO-d6) δ ppm: 7.61 (dd, J = 8.5, 1.3 Hz, 1H, H7′), 7.84 (m, 4H, H2,6, H2′,
H6′), 8.13 (d, J = 1.3 Hz, 1H, H5′), 8.60 (s, 1H, H-C=N), 8.80 (br, 2H, H3,5), 12.12 (s, 1H, N-H), 13.28
(s, 1H, N-Hind). E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
dih d
1H i d
l 5
l)
th l
)i
i
ti
h d
id (4) 1H-NMR (300 MHz, DMSO-d6) δ ppm: 2.43 (s, 3H, CH3), 8.42 (dd, J = 5.5, 1.8 Hz, 2H, H2,6), 8.5
(s 1H H C=N) 9 11 (s 1H H3′) 9 14 (dd J = 5 5 1 8 Hz 2H H3 5) 15 98 (br 2H N H) FTIR (KBr) ν cm−1: 3193.59 (N-H), 3038.08 (C-Har), 1648.96 (C=O), 1626.02 (C=N-N), 1596.86
(C=Car), 1551.04 (Car
N), 1506.46 (C=N). UV (EtOH 37 39 μM 25 °C): λ
313 nm ε
25 055 1 dm3 mol−1 cm−1
(
,
3,5),
(
,
)
FTIR (KBr) ν cm−1: 3193.59 (N-H), 3038.08 (C-Har), 1648.96 (C=O), 1626.02 (C=N-N), 1596.86 (C=Car),
1551.04 (Car
50.76 (2C, C3,5), 161.87 (1C, C O). KBr) ν cm−1: 3188.96 (N-H), 3027.37 (Car-H), 1652 (C=O), 1622.47 (C=N-N), 1607.84
, 1549.40 (Car
N). N), 1506.46 (C=N). 150.79 (2C, C3,5), 162.08 (1C, C=O). FTIR (KBr) ν cm−1: 3193.59 (N-H), 3038.08 (C-Har), 1648.96 (C=O), 1626.02 (C=N-N), 1596.86
(s, 1H, H-C=N), 9.11 (s, 1H, H3′), 9.14 (dd, J = 5.5, 1.8 Hz, 2H, H3,5), 15.98 (br, 2H, N-H). 13C-NMR (75 MHz, DMSO) δ ppm: 9.38 (1C, CH3), 123.60 (1C, C1′) 125.38 (2C, C2,6), 131.78 (1C, C5′
138 44 (1C C=N) 142 84 (1C C3′) 144 03 (2C C3 5) 147 78 (1C C1) 159 52 (1C C=O) UV (EtOH, 37.39 μM, 25 °C): λ = 313 nm, ε = 25,055.1 dm3·mol−1·cm−1
MS (ES, TOF, MeOH) m/z: 266.1047 [M + H+]. HRMS (ES TOF) m/z: [M + H+] calc for C14H12N5O: 266 1042 Found
1551.04 (Car
, 1549.40 (Car
N). OH, 38.37 μM, 25 °C): λ = 234 nm, ε = 22,666.92 dm3·mol−1·cm−1. TOF, MeOH) m/z: 266.1046 [M + H+]. N), 1506.46 (C N). UV (EtOH, 37.39 µM, 25 ◦C): λ = 313 nm, ε = 25,055.1 dm3·mol−1·cm−1. MS (ES, TOF, MeOH) m/z: 266.1047 [M + H+]. (C=Car), 1551.04 (Car
N), 1506.46 (C=N). UV (EtOH, 37.39 μM, 25 °C): λ = 313 nm, ε = 25,055.1 dm3·mol−1·cm−1
MS (ES TOF M OH)
/
266 1047 [M
H ]
138.44 (1C, C=N), 142.84 (1C, C3′), 144.03 (2C, C3,5), 147.78 (1C, C1),
FTIR (KBr) ν cm−1: 3194.75 (N-H), 3097.19 (Car-H), 1660.58 (C=
(Car=Car), 1551.49 (Car
N). UV (EtOH, 37.39 μM, 25 °C): λ = 313 nm, ε = 25,055.1 dm3·mol−1·cm−1. MS (ES, TOF, MeOH) m/z: 266.1047 [M + H+]. E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
dih d
1H i d
l 5
l)
th l
)i
i
ti
h d
id (4) FTIR (KBr) ν cm−1: 3385.07 (N-H), 3209.03 (N-H), 3049.08 (Car-H), 1655.09 (C=O), 1626.02 (C=N-N),
1599 50 (C=C ) 1550 60 (C
,
),
( ,
,
),
( ,
,
),
( ,
,
)
13C-NMR (75 MHz, DMSO) δ ppm: 111.39 (1C, C3′), 121.98 (2C, C2,6), 122.73 (1C, C7′), 123.35 (1C
C9′), 124.19 (1C, C2′), 127.23 (1C, C1′), 134.99 (1C, C6′), 141.07 (1C, C1), 141.14 (1C, C8′), 150.31 (1C
C=N), 150.76 (2C, C3,5), 161.87 (1C, C=O). FTIR (KBr) ν cm−1: 3188.96 (N-H), 3027.37 (Car-H), 1652 (C=O), 1622.47 (C=N-N), 1607.84
(C =C ) 1549 40 (C
N)
N) 1506 46 (C=N) 121.63(1C, C5), 121.87 (2C, C2,6), 122.34 (1C, C6), 125.85 (1C, C9), 136.19 (1C, C8), 141.05 (1C, C2),
141.56 (1C, C1), 146.10 (1C, C=N), 150.69 (2C, C3,5), 161.00 (1C, C=O). FTIR (KBr) ν cm−1: 3385.07 (N-H), 3209.03 (N-H), 3049.08 (Car-H), 1655.09 (C=O), 1626.02 (C=N-
N), 1599.50 (C=Car), 1550.60 (Car
N), 1506.46 (C=N). 13C-NMR (75 MHz, DMSO) δ ppm: 11.97 (1C, CH3), 107.84 (1C, C1′), 111.34 (1C, C4′), 120.82 (1C, C7′),
121.63(1C, C5′), 121.87 (2C, C2,6), 122.34 (1C, C6′), 125.85 (1C, C9′), 136.19 (1C, C8′), 141.05 (1C, C2′),
141.56 (1C, C1), 146.10 (1C, C=N), 150.69 (2C, C3,5), 161.00 (1C, C=O). FTIR (KBr) ν cm−1: 3385 07 (N H) 3209 03 (N H) 3049 08 (C
H) 1655 09 (C=O) 1626 02 (C=N
13C-NMR (75 MHz, DMSO) δ ppm: 11.97 (1C, CH3), 107.84 (1C, C1′), 111.34 (1C, C4′), 120.82 (1C, C7′),
121.63(1C, C5′), 121.87 (2C, C2,6), 122.34 (1C, C6′), 125.85 (1C, C9′), 136.19 (1C, C8′), 141.05 (1C, C2′),
141.56 (1C, C1), 146.10 (1C, C=N), 150.69 (2C, C3,5), 161.00 (1C, C=O). )
(
)
(
)
(
)
13C-NMR (75 MHz, DMSO) δ ppm: 111.39 (1C, C3′), 121.98 (2C, C2,6), 122.73 (1C, C7′), 123.35 (1C
C9′), 124.19 (1C, C2′), 127.23 (1C, C1′), 134.99 (1C, C6′), 141.07 (1C, C1), 141.14 (1C, C8′), 150.31 (1C
C=N), 150.76 (2C, C3,5), 161.87 (1C, C=O). N), 1599.50 (C=Car), 1550.60 (Car
N), 1506.46 (C=N). UV (EtOH, 57.29 μM, 25 °C): λ = 224 nm, ε = 21,909.58 dm3·mol−1·cm−1. MS (ES, TOF, MeOH) m/z: 279.1246 [M + H+]. HRMS (ES TOF)
/
[M
H ]
l
f
C H N O 279 1246 F
d 279 1246
141.56 (1C, C1), 146.10 (1C, C N), 150.69 (2C, C3,5), 161.00 (1C, C O). E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
dih d
1H i d
l 5
l)
th l
)i
i
ti
h d
id (4) HRMS (ES TOF) m/z: [M + H+] calc for C14H12N5O: 266 1042 Found: 26
(
ar
,
(
)
OH, 38.37 μM, 25 °C): λ = 234 nm, ε = 22,666.92 dm3·mol−1·cm−1. TOF, MeOH) m/z: 266.1046 [M + H+]. ),
(
)
UV (EtOH, 37.39 µM, 25 ◦C): λ = 313 nm, ε = 25,055.1 dm3·mol−1·cm−1. MS (ES, TOF, MeOH) m/z: 266.1047 [M + H+]. (C=Car), 1551.04 (Car
N), 1506.46 (C=N). UV (EtOH, 37.39 μM, 25 °C): λ = 313 nm, ε = 25,055.1 dm3·mol−1·cm−1. (E
O
O
)
/
138.44 (1C, C=N), 142.84 (1C, C3′), 144.03 (2C, C3,5), 147.78 (1C, C1), 159
FTIR (KBr) ν cm−1: 3194.75 (N-H), 3097.19 (Car-H), 1660.58 (C=O),
(Car=Car) 1551 49 (Car
N) UV (EtOH, 37.39 μM, 25 °C): λ = 313 nm, ε = 25,055.1 dm3·mol−1·cm−1. MS (ES, TOF, MeOH) m/z: 266.1047 [M + H+]. HRMS (ES TOF) m/z: [M + H+] calc for C14H12N5O: 266 1042 Found: 266 1047
(
ar
,
(
)
OH, 38.37 μM, 25 °C): λ = 234 nm, ε = 22,666.92 dm3·mol−1·cm−1. TOF, MeOH) m/z: 266.1046 [M + H+]. ),
(
)
UV (EtOH, 37.39 µM, 25 ◦C): λ = 313 nm, ε = 25,055.1 dm3·mol−1·cm−1. MS (ES, TOF, MeOH) m/z: 266.1047 [M + H+]. (C=Car), 1551.04 (Car
N), 1506.46 (C=N). UV (EtOH, 37.39 μM, 25 °C): λ = 313 nm, ε = 25,055.1 dm3·mol−1·cm−1. MS (ES TOF M OH)
/
266 1047 [M
H+]
138.44 (1C, C=N), 142.84 (1C, C3′), 144.03 (2C, C3,5), 147.78 (1C, C1), 159.52 (1C, C=O). FTIR (KBr) ν cm−1: 3194.75 (N-H), 3097.19 (Car-H), 1660.58 (C=O), 1621.45 (C=N-N), 1602.2
(Car=Car), 1551.49 (Car
N). HRMS (ES, TOF) m/z: [M + H ] calc. for C14H12N5O: 266.1042. Found: 266.1047
ES, TOF) m/z: [M + H+] calc. for C14H12N5O: 266.1042. Found: 266.1046. HRMS (ES, TOF) m/z: [M + H+] calc. for C14H12N5O: 266.1042. Found: 266.1047. MS (ES, TOF, MeOH) m/z: 266.1047 [M + H+]. HRMS (ES, TOF) m/z: [M + H+] calc. for C14H12N5O: 266.1042. Found: 266.1047
(
),
(
)
UV (EtOH, 161.58 μM, 25 °C): λ = 316 nm, ε = 5551.73 dm3·mol−1·cm−1 (very (E)-N -((2-methyl-1H-indol-3-yl)methylene)isonicotinohydrazide (6)
m.p.: 281.1 °C. Rf: 0.55 PE/EtOAc/MeOH (5:5:3 v/v/v). E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
dih d
1H i d
l 5
l)
th l
)i
i
ti
h d
id (4) 13C NMR (75 MH
DMSO) δ
11 97 (1C CH ) 107 84 (1C C ) 111 34 (1C C ) 120 82 (1C C )
1H-NMR (300 MHz, DMSO-d6) δ ppm: 2.54 (s, 3H, CH3), 7.12 (ddt, J = 24.4, 9.3, 1.9, 1.9 Hz, 2H, H5′,
H6′), 7.35 (tt, J = 2.4, 1.7, 0.9, 0.8 Hz, 1H, H4′), 7.85 (dd, J = 4.5, 1.8 Hz, 2H, H2,6), 8.16–8.32 (m, 1H, H7′),
8.71 (s, 1H, H-C=N), 8.78 (dd, J = 4.4, 1.6 Hz, 2H, H3,5), 11.55 (d, J = 7.4 Hz, 1H, N-H), 11.67 (s, 1H,
N-Hind). m.p.: 302.5 °C. Rf: 0.45 PE/EtOAc/MeOH (5:5:3 v/v/v). 1H-NMR (300 MHz, DMSO-d6) δ ppm: 7.63 (d, J = 8.7 Hz, 1H, H3′), 7.84 (dd, J = 4.4, 1.6 Hz, 2H
H2,6), 7.90 (dd, J = 8.8, 1.5 Hz, 1H, H2′), 8.03–8.10 (m, 1H, H7′), 8.17 (t, J = 1.2 Hz, 1H, H6′), 8.57 (s
1H, H-C=N), 8.79 (s, 2H, H3,5), 12.01 (s, 1H, N-H), 13.31 (s, 1H, N-Hind). 121.63(1C, C5), 121.87 (2C, C2,6), 122.34 (1C, C6), 125.85 (1C, C9), 136.19 (1C, C8), 141.05 (1C, C2),
141.56 (1C, C1), 146.10 (1C, C=N), 150.69 (2C, C3,5), 161.00 (1C, C=O). FTIR (KBr) ν cm−1: 3385.07 (N-H), 3209.03 (N-H), 3049.08 (Car-H), 1655.09 (C=O), 1626.02 (C=N-
N), 1599.50 (C=Car), 1550.60 (Car
N), 1506.46 (C=N). UV (EtOH, 57.29 μM, 25 °C): λ = 224 nm, ε = 21,909.58 dm3·mol−1·cm−1. MS (ES TOF M OH)
/
279 1246 [M
H+]
13C-NMR (75 MHz, DMSO) δ ppm: 11.97 (1C, CH3), 107.84 (1C, C1′), 111.34 (1C, C4′), 120.82 (1C, C7′),
121.63(1C, C5′), 121.87 (2C, C2,6), 122.34 (1C, C6′), 125.85 (1C, C9′), 136.19 (1C, C8′), 141.05 (1C, C2′),
141.56 (1C, C1), 146.10 (1C, C=N), 150.69 (2C, C3,5), 161.00 (1C, C=O). FTIR (KBr) ν cm−1: 3385.07 (N-H), 3209.03 (N-H), 3049.08 (Car-H), 1655.09 (C=O), 1626.02 (C=N-
N), 1599.50 (C=Car), 1550.60 (Car
N), 1506.46 (C=N). 13C-NMR (75 MHz, DMSO) δ ppm: 11.97 (1C, CH3), 107.84 (1C, C1′), 111.34 (1C, C4′), 120.82 (1C, C7′),
121.63(1C, C5′), 121.87 (2C, C2,6), 122.34 (1C, C6′), 125.85 (1C, C9′), 136.19 (1C, C8′), 141.05 (1C, C2′),
141.56 (1C, C1), 146.10 (1C, C=N), 150.69 (2C, C3,5), 161.00 (1C, C=O). E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
dih d
1H i d
l 5
l)
th l
)i
i
ti
h d
id (4) HRMS (ES, TOF) m/z: [M H ] calc. for C16H15N4O: 279.1246. Found: 279.1246
Compound 6 can also be found (commercial source; CAS No.: 113143-57-0). HRMS (ES, TOF) m/z: [M + H+] calc. for C14H12N5O: 266.1042. Found: 266.10
HRMS (ES, TOF) m/z: [M + H+] calc. for C16H15N4O: 279.1246. Found: 279.1246. p
(
Compound 6 can also be found (commercial source; CAS No.: 113143-57-0). 18 of 27
N), 1596.8 18 of 27
N), 1596.8 Molecules 2017, 22, 1457
MS (ES, TO
HRMS (ES
FTIR (KBr)
(C=Car), 155 (E)-N′-((1H-pyrrolo[2,3-b]pyridin-3-yl)methylene)isonicotinohydrazide (7)
,
,
(E)-N′-((1H-pyrrolo[2 3-b]pyridin-3-yl)methylene)isonicotinohydrazide (7)
(E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (
Molecules 2017, 22, 1457
μ
(
MS (ES, TOF, MeOH) m/z: 238.0708 [M + Na+]; 216.0887 [M + H+]. HRMS (ES TOF) m/z: M + H+ calc for C10H10N5O: 216 0885 Found: 2 (E)-N′-((1H-pyrrolo[2,3-b]pyridin-3-yl)methylene)isonicotinohydrazide (7)
(E)-N′-((1H-pyrrolo[2 3-b]pyridin-3-yl)methylene)isonicotinohydrazide (7)
(E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (
Molecules 2017, 22, 1457
μ
(
MS (ES, TOF, MeOH) m/z: 238.0708 [M + Na+]; 216.0887 [M + H+]. HRMS (ES TOF) m/z: M + H+ calc for C10H10N5O: 216 0885 Found: 2 ]pyridin-3-yl)methylene)isonicotinohydrazide (7)
midazol-5-yl)methylene)isonicotinohydrazide (3) 323.2 °C (dec.). Rf: 0.34 PE/EtAc/MeOH (5:5:3 v/v). 2 ◦C (dec.). Rf: 0.34 PE/EtAc/MeOH (5:5:3 v/v). p.: 302.5 °C. Rf: 0.45 PE/EtOAc/MeOH (5:5:3 v/v/v). m.p.: 323.2 °C (dec.). Rf: 0.34 PE/EtAc/MeOH (5:5:3 v/v
m.p.: 323.2 ◦C (dec.). Rf: 0.34 PE/EtAc/MeOH (5:5:3 v/v). m.p.: 302.5 °C. Rf: 0.45 PE/EtOAc/MeOH (5:5:3 v/v/v 1H-NMR (300 MHz, DMSO-d6) δ ppm: 77.24 (tt, J = 7.8, 4.7, 4.7 Hz, 1H, H6′), 7.84 (dd, J = 4.2, 1.7
Hz, 2H, H2,6), 8.03 (d, J = 2.3 Hz, 1H, H2′), 8.33 (dd, J = 4.7, 1.7 Hz, 1H, H7′), 8.58 (d, J = 1.6 Hz, 1H,
H5′), 8.62 (s, 1H, H-C=N), 8.78 (dd, J = 4.4, 1.7 Hz, 2H, H3,5), 11.86 (s, 1H, N-H), 12.17 (s, 1H, N-Hind). 13C-NMR (75 MHz, DMSO)δ ppm: 110.85 (1C, C1), 117,13 (1C, C9′), 117.44 (1C, C6′), 121.95 (2C,
C2,6), 130.56 (1C, C5′), 131.51 (1C, C2′), 141.39 (1C, C1), 144.56 (1C, C7′), 146.09 (1C, C=N), 149.84
(1C, C8′), 150.71 (2C, C3,5), 161.49 (1C, C=O). E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
dih d
1H i d
l 5
l)
th l
)i
i
ti
h d
id (4) (
)
O
p
(
)
f
(
)
1H-NMR (300 MHz, DMSO-d6) δ ppm: 77.24 (tt, J = 7.8, 4.7, 4.7 Hz, 1H, H6′), 7.84 (dd, J = 4.2, 1.7 Hz,
2H, H2,6), 8.03 (d, J = 2.3 Hz, 1H, H2′), 8.33 (dd, J = 4.7, 1.7 Hz, 1H, H7′), 8.58 (d, J = 1.6 Hz, 1H, H5′),
8.62 (s, 1H, H-C=N), 8.78 (dd, J = 4.4, 1.7 Hz, 2H, H3,5), 11.86 (s, 1H, N-H), 12.17 (s, 1H, N-Hind). 13C-NMR (75 MHz, DMSO)δ ppm: 110.85 (1C, C1), 117,13 (1C, C9′), 117.44 (1C, C6′), 121.95 (2C, C2,6),
130.56 (1C, C5′), 131.51 (1C, C2′), 141.39 (1C, C1), 144.56 (1C, C7′), 146.09 (1C, C=N), 149.84 (1C, C8′),
150.71 (2C, C3,5), 161.49 (1C, C=O). m.p.: 302.5 C. Rf: 0.45 PE/EtOAc/MeOH (5:5:3 v/v/v). 1H-NMR (300 MHz, DMSO-d6) δ ppm: 7.63 (d, J = 8.7 Hz, 1H, H3′), 7.84 (dd, J = 4.4, 1.6 Hz, 2H
H2,6), 7.90 (dd, J = 8.8, 1.5 Hz, 1H, H2′), 8.03–8.10 (m, 1H, H7′), 8.17 (t, J = 1.2 Hz, 1H, H6′), 8.57 (s
1H, H-C=N), 8.79 (s, 2H, H3,5), 12.01 (s, 1H, N-H), 13.31 (s, 1H, N-Hind). 13C-NMR (75 MHz, DMSO) δ ppm: 111.39 (1C, C3′), 121.98 (2C, C2,6), 122.73 (1C, C7′), 123.35 (1C
C9′), 124.19 (1C, C2′), 127.23 (1C, C1′), 134.99 (1C, C6′), 141.07 (1C, C1), 141.14 (1C, C8′), 150.31 (1C
C=N), 150.76 (2C, C3,5), 161.87 (1C, C=O). m.p.: 323.2 °C (dec.). Rf: 0.34 PE/EtAc/MeOH (5:5:3 v/v). 1H-NMR (300 MHz, DMSO-d6) δ ppm: 77.24 (tt, J = 7.8, 4.7, 4.7 Hz, 1H, H6′), 7.84 (dd, J = 4.2, 1.7
Hz, 2H, H2,6), 8.03 (d, J = 2.3 Hz, 1H, H2′), 8.33 (dd, J = 4.7, 1.7 Hz, 1H, H7′), 8.58 (d, J = 1.6 Hz, 1H,
H5′), 8.62 (s, 1H, H-C=N), 8.78 (dd, J = 4.4, 1.7 Hz, 2H, H3,5), 11.86 (s, 1H, N-H), 12.17 (s, 1H, N-Hind). 13C-NMR (75 MHz, DMSO)δ ppm: 110.85 (1C, C1), 117,13 (1C, C9′), 117.44 (1C, C6′), 121.95 (2C,
C2,6), 130.56 (1C, C5′), 131.51 (1C, C2′), 141.39 (1C, C1), 144.56 (1C, C7′), 146.09 (1C, C=N), 149.84
m.p.: 299 °C (dec.). Rf: 0.1 EtOAc/MeOH (4:1 v/v). 1H-NMR (300 MHz, DMSO-d6) δ ppm: 2.43 (s, 3H, CH3), 8.42 (dd, J = 5.5, 1.8 Hz, 2H, H2,6), 8.53
(s, 1H, H-C=N), 9.11 (s, 1H, H3′), 9.14 (dd, J = 5.5, 1.8 Hz, 2H, H3,5), 15.98 (br, 2H, N-H). E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
dih d
1H i d
l 5
l)
th l
)i
i
ti
h d
id (4) Hz, 2H, H2,6), 8.03 (d, J = 2.3 Hz, 1H, H2′), 8.33 (dd, J = 4.7, 1.7 Hz, 1H, H7′), 8.58 (d, J = 1.6 Hz, 1H,
H5′), 8.62 (s, 1H, H-C=N), 8.78 (dd, J = 4.4, 1.7 Hz, 2H, H3,5), 11.86 (s, 1H, N-H), 12.17 (s, 1H, N-Hind). 13C-NMR (75 MHz, DMSO)δ ppm: 110.85 (1C, C1), 117,13 (1C, C9′), 117.44 (1C, C6′), 121.95 (2C,
C2,6), 130.56 (1C, C5′), 131.51 (1C, C2′), 141.39 (1C, C1), 144.56 (1C, C7′), 146.09 (1C, C=N), 149.84
m.p.: 299 °C (dec.). Rf: 0.1 EtOAc/MeOH (4:1 v/v). 1H-NMR (300 MHz, DMSO-d6) δ ppm: 2.43 (s, 3H, CH3), 8.42 (dd, J = 5.5, 1.8 Hz, 2H, H2,6), 8.5
(s, 1H, H-C=N), 9.11 (s, 1H, H3′), 9.14 (dd, J = 5.5, 1.8 Hz, 2H, H3,5), 15.98 (br, 2H, N-H). 13C-NMR (75 MHz, DMSO) δ ppm: 9.38 (1C, CH3), 123.60 (1C, C1′) 125.38 (2C, C2,6), 131.78 (1C, C5′) FTIR (KBr) ν cm−1: 3454.03 (N-H), 3199.51 (N-H), 3031.09 (Car-H), 1662.68 (C=O), 1611.72 (C=N-
N), 1600.48 (C=Car), 1551.26 (Car
N), 1284.78 (C-N). UV (EtOH 58 08
M 25 °C) λ
200
18 839 92 d
3
l 1
1 λ
218
17 446 62
FTIR (KBr) ν cm−1: 3454.03 (N-H), 3199.51 (N-H), 3031.09 (Car-H), 1662.68 (C=O), 1611.72 (C=N-N),
1600.48 (C=Car), 1551.26 (Car
)
(
)
(
)
FTIR (KBr) ν cm−1: 3188.96 (N-H), 3027.37 (Car-H), 1652 (C=O), 1622.47 (C=N-N), 1607.8
(Car=Car), 1549.40 (Car
N). N), 1284.78 (C-N). (1C, C8′), 150.71 (2C, C3,5), 161.49 (1C, C=O). FTIR (KBr) ν cm−1: 3454.03 (N-H), 3199.51 (N-H), 3031.09 (Car-H), 1662.68 (C=O), 1611.72 (C=N-
N) 1600 48 (C C ) 1551 26 (C
N) 1284 78 (C N)
138.44 (1C, C=N), 142.84 (1C, C3′), 144.03 (2C, C3,5), 147.78 (1C, C1), 159.52 (1C, C=O). FTIR (KBr) ν cm−1: 3194.75 (N-H), 3097.19 (Car-H), 1660.58 (C=O), 1621.45 (C=N-N), 1602.2 UV (EtOH, 58.08 μM, 25 °C): λ = 200 nm, ε = 18,839.92 dm3·mol−1·cm−1, λ = 218 nm, ε = 17,446.62
dm3·mol−1·cm−1, λ = 322 nm, ε = 17,193.69 dm3·mol−1·cm−1. MS (ES TOF MeOH)
/
266 1045 [M + H+]
(
)
(
)
UV (EtOH, 38.37 μM, 25 °C): λ = 234 nm, ε = 22,666.92 dm3·mol−1·cm−1. MS (ES, TOF, MeOH) m/z: 266.1046 [M + H+]. UV (EtOH, 58.08 µM, 25 ◦C): λ = 200 nm, ε = 18,839.92 dm3·mol−1·cm−1, λ = 218 nm,
ε = 17,446.62 dm3·mol−1·cm−1, λ = 322 nm, ε = 17,193.69 dm3·mol−1·cm−1. E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
dih d
1H i d
l 5
l)
th l
)i
i
ti
h d
id (4) 13C-NMR (75 MHz, DMSO) δ ppm: 9.38 (1C, CH3), 123.60 (1C, C1′) 125.38 (2C, C2,6), 131.78 (1C, C5′) 1H-NMR (300 MHz, DMSO-d6) δ ppm: 77.24 (tt, J = 7.8, 4.7, 4.7 Hz, 1H, H6′), 7.84 (dd, J =
Hz, 2H, H2,6), 8.03 (d, J = 2.3 Hz, 1H, H2′), 8.33 (dd, J = 4.7, 1.7 Hz, 1H, H7′), 8.58 (d, J = 1.6 H
dd
1H-NMR (300 MHz, DMSO-d6) δ ppm: 77.24 (tt, J = 7.8, 4.7, 4.7 Hz, 1H, H6′), 7.84 (dd, J = 4.2,
2H, H2,6), 8.03 (d, J = 2.3 Hz, 1H, H2′), 8.33 (dd, J = 4.7, 1.7 Hz, 1H, H7′), 8.58 (d, J = 1.6 Hz, 1H
p
/
/
(
/ / )
1H-NMR (300 MHz, DMSO-d6) δ ppm: 7.63 (d, J = 8.7 Hz, 1H, H3′), 7.84 (dd, J = 4.4, 1. H2,6), 7.90 (dd, J = 8.8, 1.5 Hz, 1H, H2′), 8.03–8.10 (m, 1H, H7′), 8.17 (t, J = 1.2 Hz, 1H, H
m.p.: 323.2 °C (dec.). Rf: 0.34 PE/EtAc/MeOH (5:5:3 v/v). 1H-NMR (300 MHz, DMSO-d6) δ ppm: 77.24 (tt, J = 7.8, 4.7, 4.7 Hz, 1H, H6′), 7.84 (dd, J = H5′), 8.62 (s, 1H, H-C=N), 8.78 (dd, J = 4.4, 1.7 Hz, 2H, H3,5), 11.86 (s, 1H, N-H), 12.17 (s, 1H, N-Hind). 13C-NMR (75 MHz, DMSO)δ ppm: 110.85 (1C, C1), 117,13 (1C, C9′), 117.44 (1C, C6′), 121.95 (2C,
C2,6), 130.56 (1C, C5′), 131.51 (1C, C2′), 141.39 (1C, C1), 144.56 (1C, C7′), 146.09 (1C, C=N), 149.84
(1C, C8′), 150.71 (2C, C3,5), 161.49 (1C, C=O). 8.62 (s, 1H, H-C=N), 8.78 (dd, J = 4.4, 1.7 Hz, 2H, H3,5), 11.86 (s, 1H, N-H), 12.17 (s, 1H, N-Hind). 13C-NMR (75 MHz, DMSO)δ ppm: 110.85 (1C, C1), 117,13 (1C, C9′), 117.44 (1C, C6′), 121.95 (2C, C2,6),
130.56 (1C, C5′), 131.51 (1C, C2′), 141.39 (1C, C1), 144.56 (1C, C7′), 146.09 (1C, C=N), 149.84 (1C, C8′),
150.71 (2C, C3,5), 161.49 (1C, C=O). 1H, H-C=N), 8.79 (s, 2H, H3,5), 12.01 (s, 1H, N-H), 13.31 (s, 1H, N-Hind). 13C-NMR (75 MHz, DMSO) δ ppm: 111.39 (1C, C3′), 121.98 (2C, C2,6), 122.73 (1C, C7′), 123.35 (1C
C9′), 124.19 (1C, C2′), 127.23 (1C, C1′), 134.99 (1C, C6′), 141.07 (1C, C1), 141.14 (1C, C8′), 150.31 (1C
C=N), 150.76 (2C, C3,5), 161.87 (1C, C=O). E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
dih d
1H i d
l 5
l)
th l
)i
i
ti
h d
id (4) Rf: 0.45 PE/EtOAc/MeOH (5:5:3 1H-NMR (300 MHz, DMSO-d6) δ ppm: δ 7.11–7.28 (m, 2H, H5′,6′), 7.47 (dt, J = 7.9, 0.9 Hz, 1H, H4′),
7 85 (dd J
4 4 1 6 H
2H H ) 7 88 (d J
2 8 H
1H H ) 8 31 (dd J
6 8 1 5 H
1H H )
m.p.: 242 °C. Rf: 0.55 PE/EtAc/MeOH (5:5:3 v/v/v). (
O d )
d
m.p.: 242 ◦C. Rf: 0.55 PE/EtAc/MeOH (5:5:3 v/v/v). m.p.: 302.5 °C. Rf: 0.45 PE/EtOAc/MeOH (5:5:3 v/v/v). 7.85 (dd, J = 4.4, 1.6 Hz, 2H, H2,6), 7.88 (d, J = 2.8 Hz, 1H, H2′), 8.31 (dd, J = 6.8, 1.5 Hz, 1H, H9′),
8.65 (s, 1H, H-C=N), 8.78 (dd, J = 4.4, 1.6 Hz, 2H, H3, 5), 11.65 (s, 1H, N-H), 11.76 (s, 1H, N-Hind). 13C-NMR (75 MHz, DMSO) δ ppm: 111.96 (1C, C1′), 112.34 (1C, C4′), 121.00 (1C, C5′), 121.95 (2C,
1H-NMR (300 MHz, DMSO-d6) δ ppm: δ 7.11–7.28 (m, 2H, H5′,6′), 7.47 (dt, J = 7.9, 0.9 Hz, 1H, H4′),
7.85 (dd, J = 4.4, 1.6 Hz, 2H, H2,6), 7.88 (d, J = 2.8 Hz, 1H, H2′), 8.31 (dd, J = 6.8, 1.5 Hz, 1H, H9′),
8.65 (s, 1H, H-C=N), 8.78 (dd, J = 4.4, 1.6 Hz, 2H, H3, 5), 11.65 (s, 1H, N-H), 11.76 (s, 1H, N-Hind). 1H-NMR (300 MHz, DMSO-d6) δ ppm: δ 7.11–7.28 (m, 2H, H5′,6′), 7.47 (dt, J = 7.9, 0.9 Hz, 1H, H4′),
7.85 (dd, J = 4.4, 1.6 Hz, 2H, H2,6), 7.88 (d, J = 2.8 Hz, 1H, H2′), 8.31 (dd, J = 6.8, 1.5 Hz, 1H, H9′), 8.65
(s, 1H, H-C=N), 8.78 (dd, J = 4.4, 1.6 Hz, 2H, H3, 5), 11.65 (s, 1H, N-H), 11.76 (s, 1H, N-Hind). p
/
/
(
/ / )
1H-NMR (300 MHz, DMSO-d6) δ ppm: 7.63 (d, J = 8.7 Hz, 1H, H3′), 7.84 (dd, J = 4.4, 1.6 Hz, 2H
H2,6), 7.90 (dd, J = 8.8, 1.5 Hz, 1H, H2′), 8.03–8.10 (m, 1H, H7′), 8.17 (t, J = 1.2 Hz, 1H, H6′), 8.57 (s
1H, H-C=N), 8.79 (s, 2H, H3,5), 12.01 (s, 1H, N-H), 13.31 (s, 1H, N-Hind). C2,6), 122.44 (1C, C7′), 123.17 (1C, C6′), 123.35 (1C, C7′), 124.77 (1C, C9′), 131.36 (1C, C2′), 137.53 (1C,
C8′), 141.54 (1C, C1), 146.63 (1C, C=N), 150.69 (2C, C3,5), 161.33 (1C, C=O). E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
dih d
1H i d
l 5
l)
th l
)i
i
ti
h d
id (4) N), 1600.48 (C=Car), 1551.26 (Car
N), 1284.78 (C-N). UV (EtOH, 58.08 μM, 25 °C): λ = 200 nm, ε = 18,839.92 dm3·mol−1·cm−1, λ = 218 nm, ε = 17,446.62
d
3
l 1
1 λ
322
17 193 69 d
3
l 1
1
(Car=Car), 1551.49 (Car
N). UV (EtOH, 161.58 μM, 25 °C): λ = 316 nm, ε = 5551.73 dm3·mol−1·cm−1 (very poorly soluble). MS (ES, TOF, MeOH) m/z: 266.1045 [M + H
HRMS (ES TOF) m/z: [M + H+] calc for C14
HRMS (ES, TOF) m/z: [M + H+] calc. for C
MS (ES, TOF, MeOH) m/z: 266.1045 [M + H+]. dm3·mol−1·cm−1, λ = 322 nm, ε = 17,193.69 dm
MS (ES TOF MeOH) m/z: 266 1045 [M + H
MS (ES, TOF, MeOH) m/z: 252.0866 [M +
HRMS (ES TOF)
/
[M
H ]
l
f
C MS (ES, TOF, MeOH) m/z: 266.1045 [M + H+]. HRMS (ES TOF) m/z: [M + H+] calc for C14H12N5O: 266 1042 Found: 266 1045
HRMS (ES, TOF) m/z: [M + H+] calc. for C14H12N5O: 266.1042. Found: 266.1046. MS (ES, TOF, MeOH) m/z: 266.1045 [M + H+]. dm3·mol−1·cm−1, λ = 322 nm, ε = 17,193.69 dm3·mol−1·cm−1. MS (ES TOF MeOH) m/z: 266 1045 [M + H+]
MS (ES, TOF, MeOH) m/z: 252.0866 [M + Na+]; 230.1049 [M + H+]. HRMS (ES TOF)
/
[M
H+]
l
f
C H N O 230 1042 F
d 230 1049 HRMS (ES, TOF) m/z: [M + H+] calc. for C14H12N5O: 266.1042. Found: 266.1045
HRMS (ES, TOF) m/z: [M + H+] calc. for C14H12N5O: 266.1042. Found: 266.1045. MS (ES, TOF, MeOH) m/z: 266.1045 [M + H+]. HRMS (ES, TOF) m/z: [M + H+] calc. for C14H12N5O: 266.1042. Found: 266.1045
HRMS (ES, TOF) m/z: [M + H+] calc. for C11H12N5O: 230.1042. Found: 230.10 (E)-N′-((1H-indol-3-yl)methylene)isonicotinohydrazide (8)
m p : 242 °C Rf: 0 55 PE/EtAc/MeOH (5:5:3 v/v/v)
(E)-N′-((1H-indol-3-yl)methylene)isonicotinohydrazide (8)
(E)-N′-((1H-indol-3-yl)methylene)isonicotinohydrazide (8)
(E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4) (E)-N′-((1H-indol-3-yl)methylene)isonicotinohydrazide (8)
(E)-N′-((1H-indol-3-yl)methylene)isonicotinohydrazide (8)
(E)-N′-((1H-indol-3-yl)methylene)isonicotinohydrazide (8)
(E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonico (E)-N′-((1H-indol-3-yl)methylene)isonicotinohydrazide (8)
(E)-N′-((1H-indol-3-yl)methylene)isonicotinohydrazide (8)
(E)-N′-((1H-indol-3-yl)methylene)isonicotinohydrazide (8)
(E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonic 5 PE/EtAc/MeOH (5:5:3 v/v/v) A / p
(
)
1H-NMR (300 MHz, DMSO-d6) δ ppm: δ 7.11–7.2
m.p.: 242 °C. Rf: 0.55 PE/EtAc/MeOH (5:5:3 v/v/v)
m.p.: 242 ◦C. Rf: 0.55 PE/EtAc/MeOH (5:5:3 v/v/v). m.p.: 302.5 °C. Rf: 0.45 PE/EtOAc/MeOH (5:5:3 1H-NMR (300 MHz, DMSO-d6) δ ppm: δ 7.11–7.2
m.p.: 242 °C. Rf: 0.55 PE/EtAc/MeOH (5:5:3 v/v/v)
m.p.: 242 ◦C. Rf: 0.55 PE/EtAc/MeOH (5:5:3 v/v/v). m.p.: 302.5 °C. E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
dih d
1H i d
l 5
l)
th l
)i
i
ti
h d
id (4) FTIR (KBr) ν cm−1: 3543.66 (N-H), 3395.82 (N-H), 2886.55 (C-Har), 1656.52 (C=O), 1626.02 (C=N-
N) 1598 83 (C C ) 1550 54 (C
N) 1496 83 (C N)
13C-NMR (75 MHz, DMSO) δ ppm: 111.96 (1C, C1′), 112.34 (1C, C4′), 121.00 (1C, C5′), 121.95 (2C,
C2,6), 122.44 (1C, C7′), 123.17 (1C, C6′), 123.35 (1C, C7′), 124.77 (1C, C9′), 131.36 (1C, C2′), 137.53 (1C,
C8′), 141.54 (1C, C1), 146.63 (1C, C=N), 150.69 (2C, C3,5), 161.33 (1C, C=O). TIR ( B )
4 66 (
H)
(
H)
6
(C H ) 16 6
(C O) 16 6
(C
13C-NMR (75 MHz, DMSO) δ ppm: 111.96 (1C, C1′), 112.34 (1C, C4′), 121.00 (1C, C5′), 121.95 (2C, C2,6),
122.44 (1C, C7′), 123.17 (1C, C6′), 123.35 (1C, C7′), 124.77 (1C, C9′), 131.36 (1C, C2′), 137.53 (1C, C8′),
141.54 (1C, C1), 146.63 (1C, C=N), 150.69 (2C, C3,5), 161.33 (1C, C=O). ,
),
( ,
,
),
( ,
,
),
( ,
,
)
13C-NMR (75 MHz, DMSO) δ ppm: 111.39 (1C, C3′), 121.98 (2C, C2,6), 122.73 (1C, C7′), 123.35 (1C
C9′), 124.19 (1C, C2′), 127.23 (1C, C1′), 134.99 (1C, C6′), 141.07 (1C, C1), 141.14 (1C, C8′), 150.31 (1C
C=N), 150.76 (2C, C3,5), 161.87 (1C, C=O). C2,6), 122.44 (1C, C7′), 123.17 (1C, C6′), 123.35 (1C, C7′), 124.77 (1C, C9′), 131.36 (1C, C2′), 137.53 (1C,
C8′), 141.54 (1C, C1), 146.63 (1C, C=N), 150.69 (2C, C3,5), 161.33 (1C, C=O). FTIR (KBr) ν cm−1: 3543.66 (N-H), 3395.82 (N-H), 2886.55 (C-Har), 1656.52 (C=O), 1626.02 (C=N-
)
(C C )
(C
)
(C
)
13C-NMR (75 MHz, DMSO) δ ppm: 111.96 (1C, C1′), 112.34 (1C, C4′), 121.00 (1C, C5′), 121.95 (2C,
C2,6), 122.44 (1C, C7′), 123.17 (1C, C6′), 123.35 (1C, C7′), 124.77 (1C, C9′), 131.36 (1C, C2′), 137.53 (1C,
C8′), 141.54 (1C, C1), 146.63 (1C, C=N), 150.69 (2C, C3,5), 161.33 (1C, C=O). 13C-NMR (75 MHz, DMSO) δ ppm: 111.96 (1C, C1′), 112.34 (1C, C4′), 121.00 (1C, C5′), 121.95 (2C, C2,6),
122.44 (1C, C7′), 123.17 (1C, C6′), 123.35 (1C, C7′), 124.77 (1C, C9′), 131.36 (1C, C2′), 137.53 (1C, C8′),
141.54 (1C, C1), 146.63 (1C, C=N), 150.69 (2C, C3,5), 161.33 (1C, C=O). E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
dih d
1H i d
l 5
l)
th l
)i
i
ti
h d
id (4) ,
),
( ,
,
),
( ,
,
),
( ,
,
)
13C-NMR (75 MHz, DMSO) δ ppm: 111.39 (1C, C3′), 121.98 (2C, C2,6), 122.73 (1C, C7′), 123.35 (1C
C9′), 124.19 (1C, C2′), 127.23 (1C, C1′), 134.99 (1C, C6′), 141.07 (1C, C1), 141.14 (1C, C8′), 150.31 (1C
C=N), 150.76 (2C, C3,5), 161.87 (1C, C=O). N), 1598.83 (C=Car), 1550.54 (Car
N), 1496.83 (C=N). UV (EtOH, 40.01 μM, 25 °C): λ = 221 nm, ε = 22,519 dm3·mol−1·cm−1. MS (ES TOF M OH)
/
265 1092 [M
H+]
FTIR (KBr) ν cm−1: 3543.66 (N-H), 3395.82 (N-H), 2886.55 (C-Har), 1656.52 (C=O), 1626.02 (C=N-
N), 1598.83 (C=Car), 1550.54 (Car
N), 1496.83 (C=N). UV (EtOH 40 01
M 25 °C) λ
221
22 519 d
3
l 1
1
,
FTIR (KBr) ν cm−1: 3543.66 (N-H), 3395.82 (N-H), 2886.55 (C-Har), 1656.52 (C=O), 1626.02 (C=N-N),
1598.83 (C=Car), 1550.54 (Car
),
(
,
),
(
,
)
FTIR (KBr) ν cm−1: 3188.96 (N-H), 3027.37 (Car-H), 1652 (C=O), 1622.47 (C=N-N), 1607.8
(Car=Car), 1549.40 (Car
N). N), 1496.83 (C=N). N), 1598.83 (C=Car), 1550.54 (Car
N), 1496.83 (C=N). UV (EtOH, 40.01 μM, 25 °C): λ = 221 nm, ε = 22,519 dm3·mol−1·cm−1. MS (ES TOF M OH)
/
265 1092 [M
H+]
FTIR (KBr) ν cm−1: 3543.66 (N-H), 3395.82 (N-H), 2886.55 (C-Har), 1656.52 (C=O), 1626.02 (C=N-
N), 1598.83 (C=Car), 1550.54 (Car
N), 1496.83 (C=N). UV (EtOH 40 01
M 25 °C) λ
221
22 519 d
3
l 1
1
,
FTIR (KBr) ν cm−1: 3543.66 (N-H), 3395.82 (N-H), 2886.55 (C-Har), 1656.52 (C=O), 1626.02 (C=N-N),
1598.83 (C=Car), 1550.54 (Car
)
(
)
(
)
FTIR (KBr) ν cm−1: 3188.96 (N-H), 3027.37 (Car-H), 1652 (C=O), 1622.47 (C=N-N), 1607.8
(Car=Car), 1549.40 (Car
N). N), 1496.83 (C=N). MS (ES, TOF, MeOH) m/z: 265.1092 [M + H+]. HRMS (ES TOF) m/z: [M + H+] calc for C H N O: 265 1089 Found
UV (EtOH, 40.01 μM, 25 °C): λ = 221 nm, ε = 22,519 dm3·mol−1·cm−1. MS (ES TOF MeOH) m/z 265 1092 [M + H+]
(
)
(
(
)
(
)
UV (EtOH, 38.37 μM, 25 °C): λ = 234 nm, ε = 22,666.92 dm3·mol−1·c
)
(
)
UV (EtOH, 40.01 µM, 25 ◦C): λ = 221 nm, ε = 22,519 dm3·mol−1·cm−1. Compound 8 can also be found (commercial source; CAS No.: 10245-44-0). HRMS (ES, TOF) m/z: [M + H+] calc. for C15H13N4O: 265.1089. Found: 265.1092. E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
dih d
1H i d
l 5
l)
th l
)i
i
ti
h d
id (4) 1H-NMR (300 MHz, DMSO-d6) δ ppm: 7.35 (dd, J = 8.7, 2.1 Hz, 1H5′), 7.44 (d, J = 8.5 Hz, 1H, H4′),
7.84 (dd, J = 4.5, 1.9 Hz, 2H, H2,6), 7.95 (d, J = 2.7 Hz, 1H, H9′), 8.48 (s, 1H, H2′), 8.62 (s, 1H, H-C=N),
8.73–8.89 (m, 2H, H3,5), 11.83 (d, J = 6.0 Hz, 2H, N-H). 1H-NMR (300 MHz, DMSO-d6) δ ppm: 7.35 (dd, J = 8.7, 2.1 Hz, 1H5′), 7.44 (d, J = 8.5 Hz, 1H, H4′),
7.84 (dd, J = 4.5, 1.9 Hz, 2H, H2,6), 7.95 (d, J = 2.7 Hz, 1H, H9′), 8.48 (s, 1H, H2′), 8.62 (s, 1H, H-C=N),
8.73–8.89 (m, 2H, H3,5), 11.83 (d, J = 6.0 Hz, 2H, N-H). /
/
(
/ / )
R (300 MHz, DMSO-d6) δ ppm: 7.63 (d, J = 8.7 Hz, 1H, H3′), 7.84 (dd, J = 4.4, 1.6 Hz, 2H,
90 (dd, J = 8.8, 1.5 Hz, 1H, H2′), 8.03–8.10 (m, 1H, H7′), 8.17 (t, J = 1.2 Hz, 1H, H6′), 8.57 (s,
C=N), 8.79 (s, 2H, H3,5), 12.01 (s, 1H, N-H), 13.31 (s, 1H, N-Hind). m.p.: 309.3 °C (dec.). Rf: 0.61 PE/EtAc/MeOH (5:5:3 v/v). 1H-NMR (300 MHz, DMSO-d6) δ ppm: 7.35 (dd, J = 8.7, 2.1 Hz, 1H5′), 7.44 (d, J = 8.5 Hz, 1H, H4′),
7.84 (dd, J = 4.5, 1.9 Hz, 2H, H2,6), 7.95 (d, J = 2.7 Hz, 1H, H9′), 8.48 (s, 1H, H2′), 8.62 (s, 1H, H-C=N), 13C-NMR (75 MHz, DMSO) δ ppm: 111.59 (1C, C1′), 113,70 (1C, C6′), 114.42 (1C, C4′), 121.93 (2C, C2,6),
124.60 (1C, C2′), 125.71 (1C, C5′), 126.42 (1C, C9′), 132.71 (1C, C7′), 136.27 (1C, C8′), 141.38 (1C, C1),
146.13 (1C, C=N), 150.72 (2C, C3,5), 161.40 (1C, C=O). FTIR (KB )
31
(N H
)
1 3
(C H ) 166 6
(C O) 161 34 (C N N) 1 3
13C-NMR (75 MHz, DMSO) δ ppm: 111.59 (1C, C1′), 113,70 (1C, C6′), 114.42 (1C, C4′), 121.93 (2C, C2,6),
124.60 (1C, C2′), 125.71 (1C, C5′), 126.42 (1C, C9′), 132.71 (1C, C7′), 136.27 (1C, C8′), 141.38 (1C, C1),
146.13 (1C, C=N), 150.72 (2C, C3,5), 161.40 (1C, C=O). E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
dih d
1H i d
l 5
l)
th l
)i
i
ti
h d
id (4) Compound 8 can also be found (commercial source; CAS No.: 10245-44-0). HRMS (ES, TOF) m/z: [M + H+] calc. for C14H12N5O: 266.1042. Found: 266.1046. [
]
HRMS (ES, TOF) m/z: [M + H+] calc. for C15H13N4O: 265.1089. Found: 265.1092. Compound 8 can also be found (commercial source; CAS No.: 10245-44-0). Compound 8 can also be found (commercial source; CAS No.: 10245-44-0). HRMS (ES, TOF) m/z: [M + H+] calc. for C15H13N4O: 265.1089. Found: 265.1092
Compound 8 can also be found (commercial source; CAS No.: 10245-44-0). HRMS (ES, TOF) m/z: [M + H+] calc. for C14H12N5O: 266.1042. Found: 266.10
HRMS (ES, TOF) m/z: [M + H+] calc. for C15H13N4O: 265.1089. Found: 265.1092. Compound 8 can also be found (commercial source; CAS No.: 10245-44-0). HRMS (ES, TOF) m/z: [M + H+] calc. for C15H13N4O: 265.1089. Found: 265.1092. Compound 8 can also be found (commercial source; CAS No.: 10245-44-0). HRMS (ES, TOF) m/z: [M + H+] calc. for C14H12N5O: 266.1042. Found: 266.104
HRMS (ES, TOF) m/z: [M + H+] calc. for C15H13N4O: 265.1089. Found: 265.1092. Compound 8 can also be found (commercial source; CAS No.: 10245-44-0). Compound 8 can also be found (commercial source; CAS No.: 10245 44
Compound 8 can also be found (commercial source; CAS No.: 10245-44-0). 19 of 27 Molecules 2017, 22, 1457
,
)
(ES, TOF) m/z: [M + H
2C, C2,6), 134,36 (1C, (E)-N′-((5-bromo-1H-indol-3-yl)methylene)isonicotinohydrazide (9)
(E)-N′-((5-bromo-1H-indol-3-yl)methylene)isonicotinohydrazide (9)
a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
Molecules 2017, 22, 1457
, 1551.04 (Car
N), 1506.46 (C=N). OH 182 μM 25 °C): λ = 309 nm ε = 5495 05 dm3·mol−1·cm−1 (very poorly (E)-N′-((5-bromo-1H-indol-3-yl)methylene)isonicotinohydrazide (9)
(E)-N′-((5-bromo-1H-indol-3-yl)methylene)isonicotinohydrazide (9)
-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
Molecules 2017, 22, 1457
1551.04 (Car
N), 1506.46 (C=N). OH, 182 μM, 25 °C): λ = 309 nm ε = 5495 05 dm3·mol−1·cm−1 (very poorly 3 yl)methylene)isonicotinohydrazide (9)
8 [M + Na+]; 216.0887 [M + H+]. for C10H10N5O: 216.0885. Found: 216.0887. hylene)isonicotinohydrazide (3) p.: 309.3 °C (dec.). Rf: 0.61 PE/EtAc/MeOH (5:5:3 v/v). NMR (300 MH
DMSO d ) δ
7 35 (dd J
8 7 2 1 H
1H ) 7 44 (d J
8 5 H
1H H )
09.3 ◦C (dec.). Rf: 0.61 PE/EtAc/MeOH (5:5:3 v/v). f: 0.45 PE/EtOAc/MeOH (5:5:3 v/v/v). m.p.: 309.3 °C (dec.). Rf: 0.61 PE/EtAc/MeOH (5:5:3 v/v
m.p.: 309.3 ◦C (dec.). Rf: 0.61 PE/EtAc/MeOH (5:5:3 v/v). 2.5 °C. Rf: 0.45 PE/EtOAc/MeOH (5:5:3 v/v/v). (E)-N -((1H-indol-2-yl)methylene)isonicotinohydrazide (10)
(E)-N′-((1H-indol-2-yl)methylene)isonicotinohydrazide (10)
(E)-N′-((1H-indol-2-yl)methylene)isonicotinohydrazide (10)
-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4 13C-NMR (75 MHz, DMSO) δ ppm: 107.98 (1C, C2′), 112.57 (1C, C3′), 120.06 (1C, C4′), 121.31 (1C,
C6′), 122.01 (2C, C2,6), 128.05 (1C, C9′), 133.28 (1C, C1′), 138.47 (1C, C8′), 142.16 (1C, C=N), 150.79
(2C, C3, 5), 161.84 (1C, C=O). FTIR (KBr) ν cm−1: 3250.19 (N-H), 3032.16 (C-Har), 1689.09 (C=O), 1621.50 (C=N-N), 1599.80
(C C
) 1548 50 (C
N)
Hz, 1H), 7.18 (ddd, J 8.3, 7.0, 1.2 Hz, 1H), 7.47 (dq, J 8.2, 0.9 Hz, 1H), 7.58 (dd, J 7.9, 1.1 Hz, 1H),
7.86 (dd, J = 4.4, 1.6 Hz, 2H), 8.51 (s, 1H), 8.81 (dd, J = 4.4, 1.7 Hz, 2H), 11.65 (s, 1H), 12.05 (s, 1H). 13C-NMR (75 MHz, DMSO) δ ppm: 107.98 (1C, C2′), 112.57 (1C, C3′), 120.06 (1C, C4′), 121.31 (1C,
C6′), 122.01 (2C, C2,6), 128.05 (1C, C9′), 133.28 (1C, C1′), 138.47 (1C, C8′), 142.16 (1C, C=N), 150.79
(2C, C3, 5), 161.84 (1C, C=O). 1H), 7.18 (ddd, J = 8.3, 7.0, 1.2 Hz, 1H), 7.47 (dq, J = 8.2, 0.9 Hz, 1H), 7.58 (dd, J = 7.9, 1.1 Hz, 1H), 7.86
(dd, J = 4.4, 1.6 Hz, 2H), 8.51 (s, 1H), 8.81 (dd, J = 4.4, 1.7 Hz, 2H), 11.65 (s, 1H), 12.05 (s, 1H). 13C-NMR (75 MHz, DMSO) δ ppm: 107.98 (1C, C2′), 112.57 (1C, C3′), 120.06 (1C, C4′), 121.31 (1C, C6′),
122.01 (2C, C2,6), 128.05 (1C, C9′), 133.28 (1C, C1′), 138.47 (1C, C8′), 142.16 (1C, C=N), 150.79 (2C, C3, 5),
161.84 (1C, C=O). 0 (dd, J = 8.8, 1.5 Hz, 1H, H2′), 8.03–8.10 (m, 1H, H7′), 8.17 (t, J = 1.2 Hz, 1H, H6′), 8.57 (s,
C=N), 8.79 (s, 2H, H3,5), 12.01 (s, 1H, N-H), 13.31 (s, 1H, N-Hind). R (75 MHz, DMSO) δ ppm: 111.39 (1C, C3′), 121.98 (2C, C2,6), 122.73 (1C, C7′), 123.35 (1C,
.19 (1C, C2′), 127.23 (1C, C1′), 134.99 (1C, C6′), 141.07 (1C, C1), 141.14 (1C, C8′), 150.31 (1C,
50.76 (2C, C3,5), 161.87 (1C, C=O). C6′), 122.01 (2C, C2,6), 128.05 (1C, C9′), 133.28 (1C, C1′), 138.47 (1C, C8′), 142.16 (1C, C=N), 150.79
(2C, C3, 5), 161.84 (1C, C=O). FTIR (KBr) ν cm−1: 3250.19 (N-H), 3032.16 (C-Har), 1689.09 (C=O), 1621.50 (C=N-N), 1599.80
(C C
)
(C
)
13C-NMR (75 MHz, DMSO) δ ppm: 107.98 (1C, C2′), 112.57 (1C, C3′), 120.06 (1C, C4′), 121.31 (1C,
C6′), 122.01 (2C, C2,6), 128.05 (1C, C9′), 133.28 (1C, C1′), 138.47 (1C, C8′), 142.16 (1C, C=N), 150.79
(2C, C3, 5), 161.84 (1C, C=O). (E)-N -((1H-indol-2-yl)methylene)isonicotinohydrazide (10)
(E)-N′-((1H-indol-2-yl)methylene)isonicotinohydrazide (10)
(E)-N′-((1H-indol-2-yl)methylene)isonicotinohydrazide (10)
-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4 /
/
(
/ / )
R (300 MHz, DMSO-d6) δ ppm: 7.63 (d, J = 8.7 Hz, 1H, H3′), 7.84 (dd, J = 4.4, 1.6 Hz, 2H,
0 (dd, J = 8.8, 1.5 Hz, 1H, H2′), 8.03–8.10 (m, 1H, H7′), 8.17 (t, J = 1.2 Hz, 1H, H6′), 8.57 (s,
=N), 8.79 (s, 2H, H3,5), 12.01 (s, 1H, N-H), 13.31 (s, 1H, N-Hind). Hz, 1H), 7.18 (ddd, J = 8.3, 7.0, 1.2 Hz, 1H), 7.47 (dq, J = 8.2, 0.9 Hz, 1H), 7.58 (dd, J = 7.9, 1.1 Hz, 1H),
7.86 (dd, J = 4.4, 1.6 Hz, 2H), 8.51 (s, 1H), 8.81 (dd, J = 4.4, 1.7 Hz, 2H), 11.65 (s, 1H), 12.05 (s, 1H). 13C-NMR (75 MHz, DMSO) δ ppm: 107.98 (1C, C2′), 112.57 (1C, C3′), 120.06 (1C, C4′), 121.31 (1C,
1H-NMR (300 MHz, DMSO-d6) δ ppm: 76.90 (dd, J = 2.1, 0.9 Hz, 1H), 7.02 (ddd, J = 8.0, 7.0, 1.1
Hz, 1H), 7.18 (ddd, J = 8.3, 7.0, 1.2 Hz, 1H), 7.47 (dq, J = 8.2, 0.9 Hz, 1H), 7.58 (dd, J = 7.9, 1.1 Hz, 1H),
7.86 (dd, J = 4.4, 1.6 Hz, 2H), 8.51 (s, 1H), 8.81 (dd, J = 4.4, 1.7 Hz, 2H), 11.65 (s, 1H), 12.05 (s, 1H). 1H-NMR (300 MHz, DMSO-d6) δ ppm: 76.90 (dd, J = 2.1, 0.9 Hz, 1H), 7.02 (ddd, J = 8.0, 7.0, 1.1 Hz,
1H), 7.18 (ddd, J = 8.3, 7.0, 1.2 Hz, 1H), 7.47 (dq, J = 8.2, 0.9 Hz, 1H), 7.58 (dd, J = 7.9, 1.1 Hz, 1H), 7.86
(dd, J = 4.4, 1.6 Hz, 2H), 8.51 (s, 1H), 8.81 (dd, J = 4.4, 1.7 Hz, 2H), 11.65 (s, 1H), 12.05 (s, 1H). (
)
R (300 MHz, DMSO-d6) δ ppm: 7.63 (d, J = 8.7 Hz, 1H, H3′), 7.84 (dd, J = 4.4, 1.6 Hz, 2H,
0 (dd, J = 8.8, 1.5 Hz, 1H, H2′), 8.03–8.10 (m, 1H, H7′), 8.17 (t, J = 1.2 Hz, 1H, H6′), 8.57 (s,
=N), 8.79 (s, 2H, H3,5), 12.01 (s, 1H, N-H), 13.31 (s, 1H, N-Hind). 7.86 (dd, J 4.4, 1.6 Hz, 2H), 8.51 (s, 1H), 8.81 (dd, J 4.4, 1.7 Hz, 2H), 11.65 (s, 1H), 12.05 (s, 1H). (E)-N -((1H-indol-2-yl)methylene)isonicotinohydrazide (10)
(E)-N′-((1H-indol-2-yl)methylene)isonicotinohydrazide (10)
(E)-N′-((1H-indol-2-yl)methylene)isonicotinohydrazide (10)
-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4 13C-NMR (75 MHz, DMSO) δ ppm: 107.98 (1C, C2′), 112.57 (1C, C3′), 120.06 (1C, C4′), 121.31 (1C, C6′),
122.01 (2C, C2 6), 128.05 (1C, C9′), 133.28 (1C, C1′), 138.47 (1C, C8′), 142.16 (1C, C=N), 150.79 (2C, C3 5),
2.5 C. Rf: 0.45 PE/EtOAc/MeOH (5:5:3 v/v/v). R (300 MHz, DMSO-d6) δ ppm: 7.63 (d, J = 8.7 Hz, 1H, H3′), 7.84 (dd, J = 4.4, 1.6 Hz, 2H,
0 (dd, J = 8.8, 1.5 Hz, 1H, H2′), 8.03–8.10 (m, 1H, H7′), 8.17 (t, J = 1.2 Hz, 1H, H6′), 8.57 (s,
C=N), 8.79 (s, 2H, H3,5), 12.01 (s, 1H, N-H), 13.31 (s, 1H, N-Hind). R (75 MHz, DMSO) δ ppm: 111.39 (1C, C3′), 121.98 (2C, C2,6), 122.73 (1C, C7′), 123.35 (1C,
.19 (1C, C2′), 127.23 (1C, C1′), 134.99 (1C, C6′), 141.07 (1C, C1), 141.14 (1C, C8′), 150.31 (1C, Hz, 1H), 7.18 (ddd, J = 8.3, 7.0, 1.2 Hz, 1H), 7.47 (dq, J = 8.2, 0.9 Hz, 1H), 7.58 (dd, J = 7.9, 1.1 Hz, 1H),
7.86 (dd, J = 4.4, 1.6 Hz, 2H), 8.51 (s, 1H), 8.81 (dd, J = 4.4, 1.7 Hz, 2H), 11.65 (s, 1H), 12.05 (s, 1H). 13C-NMR (75 MHz, DMSO) δ ppm: 107.98 (1C, C2′), 112.57 (1C, C3′), 120.06 (1C, C4′), 121.31 (1C,
1H-NMR (300 MHz, DMSO-d6) δ ppm: 76.90 (dd, J = 2.1, 0.9 Hz, 1H), 7.02 (ddd, J = 8.0, 7.0, 1.1
Hz, 1H), 7.18 (ddd, J = 8.3, 7.0, 1.2 Hz, 1H), 7.47 (dq, J = 8.2, 0.9 Hz, 1H), 7.58 (dd, J = 7.9, 1.1 Hz, 1H),
7.86 (dd, J = 4.4, 1.6 Hz, 2H), 8.51 (s, 1H), 8.81 (dd, J = 4.4, 1.7 Hz, 2H), 11.65 (s, 1H), 12.05 (s, 1H). 1H-NMR (300 MHz, DMSO-d6) δ ppm: 76.90 (dd, J = 2.1, 0.9 Hz, 1H), 7.02 (ddd, J = 8.0, 7.0, 1.1 Hz,
1H), 7.18 (ddd, J = 8.3, 7.0, 1.2 Hz, 1H), 7.47 (dq, J = 8.2, 0.9 Hz, 1H), 7.58 (dd, J = 7.9, 1.1 Hz, 1H), 7.86
(dd, J = 4.4, 1.6 Hz, 2H), 8.51 (s, 1H), 8.81 (dd, J = 4.4, 1.7 Hz, 2H), 11.65 (s, 1H), 12.05 (s, 1H). (E)-N -((1H-indol-2-yl)methylene)isonicotinohydrazide (10)
(E)-N′-((1H-indol-2-yl)methylene)isonicotinohydrazide (10)
(E)-N′-((1H-indol-2-yl)methylene)isonicotinohydrazide (10)
-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4 13C-NMR (75 MHz, DMSO) δ ppm: 107.98 (1C, C2′), 112.57 (1C, C3′), 120.06 (1C, C4′), 121.31 (1C, C6′),
122.01 (2C, C2,6), 128.05 (1C, C9′), 133.28 (1C, C1′), 138.47 (1C, C8′), 142.16 (1C, C=N), 150.79 (2C, C3, 5),
161.84 (1C, C=O). ),
( ,
,
, ),
( ,
,
),
( ,
,
)
R (75 MHz, DMSO) δ ppm: 111.39 (1C, C3′), 121.98 (2C, C2,6), 122.73 (1C, C7′), 123.35 (1C,
.19 (1C, C2′), 127.23 (1C, C1′), 134.99 (1C, C6′), 141.07 (1C, C1), 141.14 (1C, C8′), 150.31 (1C,
50.76 (2C, C3,5), 161.87 (1C, C=O). (C=Car), 1548.50 (Car
N). UV (EtOH, 52.65 μM, 25 °C): λ = 206 nm, ε = 27,480 dm3·mol−1·cm−1, λ = 350 nm, ε = 33,825
d
3
l 1
1
FTIR (KBr) ν cm−1: 3250.19 (N-H), 3032.16 (C-Har), 1689.09 (C=O), 1621.50 (C=N-N), 1599.80
(C=Car), 1548.50 (Car
N). U
(E O
°C)
6
d
l
FTIR (KBr) ν cm−1: 3250.19 (N-H), 3032.16 (C-Har), 1689.09 (C=O), 1621.50 (C=N-N), 1599.80 (C=Car),
1548.50 (Car
(
)
(
)
KBr) ν cm−1: 3188.96 (N-H), 3027.37 (Car-H), 1652 (C=O), 1622.47 (C=N-N), 1607.84
, 1549.40 (Car
N). N). (C=Car), 1548.50 (Car
N). UV (EtOH, 52.65 μM, 25 °C): λ = 206 nm, ε = 27,480 dm3·mol−1·cm−1, λ = 350 nm, ε = 33,825
d
l
FTIR (KBr) ν cm−1: 3250.19 (N-H), 3032.16 (C-Har), 1689.09 (C=O), 1621.50 (C=N-N), 1599.80
(C=Car), 1548.50 (Car
N). FTIR (KBr) ν cm−1: 3250.19 (N-H), 3032.16 (C-Har), 1689.09 (C=O), 1621.50 (C=N-N), 1599.80 (C=Car),
1548.50 (Car
KBr) ν cm−1: 3188.96 (N-H), 3027.37 (Car-H), 1652 (C=O), 1622.47 (C=N-N), 1607.84
, 1549.40 (Car
N). N). dm3·mol−1·cm−1. MS (ES, TOF, MeOH) m/z: 265.1090 [M + H+]. HRMS (ES TOF)
/
[M
H ]
l
f
C H N O 265 1089 F
d 265 1090
UV (EtOH, 52.65 μM, 25 °C): λ = 206 nm, ε = 27,480 dm3·mol−1·cm−1, λ = 350 nm, ε = 33,825
dm3·mol−1·cm−1. S (ES
O
O
)
/
OH, 38.37 μM, 25 °C): λ = 234 nm, ε = 22,666.92 dm3·mol−1·cm−1. TOF, MeOH) m/z: 266.1046 [M + H+]. UV (EtOH, 52.65 µM, 25
◦C): λ = 206 nm, ε = 27,480 dm3·mol−1·cm−1, λ = 350 nm,
ε = 33,825 dm3·mol−1·cm−1. dm3·mol−1·cm−1. MS (ES, TOF, MeOH) m/z: 265.1090 [M + H+]. (E)-N -((1H-indol-2-yl)methylene)isonicotinohydrazide (10)
(E)-N′-((1H-indol-2-yl)methylene)isonicotinohydrazide (10)
(E)-N′-((1H-indol-2-yl)methylene)isonicotinohydrazide (10)
-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4 HRMS (ES TOF)
/
[M
H+]
l
f
C H N O 265 1089 F
d 265 1090
UV (EtOH, 52.65 μM, 25 °C): λ = 206 nm, ε = 27,480 dm3·mol−1·cm−1, λ = 350 nm, ε = 33,825
dm3·mol−1·cm−1. MS (ES TOF M OH)
/
265 1090 [M
H ]
OH, 38.37 μM, 25 °C): λ = 234 nm, ε = 22,666.92 dm3·mol−1·cm−1. TOF, MeOH) m/z: 266.1046 [M + H+]. UV (EtOH, 52.65 µM, 25
◦C): λ = 206 nm, ε = 27,480 dm3·mol−1·cm−1, λ = 350 nm,
ε = 33,825 dm3·mol−1·cm−1. HRMS (ES, TOF) m/z: [M + H+] calc. for C1
X Ray structure of this compound has been
MS (ES, TOF, MeOH) m/z: 265.1090 [M + H
HRMS (ES TOF) m/z: [M + H+] calc for C15
ES, TOF) m/z: [M + H+] calc. for C14H12N5O: 266.1
MS (ES, TOF, MeOH) m/z: 265.1090 [M + H+]. HRMS (ES, TOF) m/z: [M + H+] calc. for C1
X Ray structure of this compound has been
MS (ES, TOF, MeOH) m/z: 265.1090 [M + H
HRMS (ES TOF) m/z: [M + H+] calc for C
ES, TOF) m/z: [M + H+] calc. for C14H12N5O: 266.1
MS (ES, TOF, MeOH) m/z: 265.1090 [M + H+]. HRMS (ES, TOF) m/z: [M + H+] calc. for C15H13N4O: 265.1089. Found: 265.1090. X-Ray structure of this compound has been recently reported [83]. MS (ES, TOF, MeOH) m/z: 265.1090 [M + H+]. HRMS (ES, TOF) m/z: [M + H+] calc. for C15H13N4O: 265.1089. Found: 265.1090. X-Ray structure of this compound has been recently reported [83]. (ES, TOF) m/z: [M + H+] calc. for C14H12N5O: 266.1042. Found: 266.1046. MS (ES, TOF, MeOH) m/z: 265.1090 [M + H+]. HRMS (ES, TOF) m/z: [M + H+] calc. for C15H13N4O: 265.1089. Found: 265.1090. X Ray structure of this compound has been recently reported [83] ,
[
]
X-Ray structure of this compound has been recently reported [83]. (
,
,
)
[
]
HRMS (ES, TOF) m/z: [M + H+] calc. for C15H13N4O: 265.1089. Found: 265.1090. X-Ray structure of this compound has been recently reported [83]. (ES, TOF) m/z: [M + H+] calc. for C14H12N5O: 266.1042. Found: 266.1046. MS (ES, TOF, MeOH) m/z: 265.1090 [M + H+]. HRMS (ES, TOF) m/z: [M + H+] calc. for C15H13N4O: 265.1089. Found: 265.1090. X-Ray structure of this compound has been recently reported [83]. HRMS (ES, TOF) m/z: [M + H+] calc. (E)-N -((1H-indol-2-yl)methylene)isonicotinohydrazide (10)
(E)-N′-((1H-indol-2-yl)methylene)isonicotinohydrazide (10)
(E)-N′-((1H-indol-2-yl)methylene)isonicotinohydrazide (10)
-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4 0 82 PE/EtA /M OH (5 5 3 / / ) p
(
)
/
/
(
/ / )
1H-NMR (300 MHz, DMSO-d6) δ ppm: 76.90 (dd, J = 2.1, 0.9 Hz, 1H), 7.02 (ddd, J = 8.0, 7.0, 1.1
m.p.: 231 °C (dec.). Rf: 0.82 PE/EtAc/MeOH (5:5:3 v/v/v). m.p.: 231 ◦C (dec.). Rf: 0.82 PE/EtAc/MeOH (5:5:3 v/v/v). 2.5 °C. Rf: 0.45 PE/EtOAc/MeOH (5:5:3 v/v/v). p
(
)
(
)
1H-NMR (300 MHz, DMSO-d6) δ ppm: 76.90 (dd, J = 2
m.p.: 231 °C (dec.). Rf: 0.82 PE/EtAc/MeOH (5:5:3 v/v/v)
m.p.: 231 ◦C (dec.). Rf: 0.82 PE/EtAc/MeOH (5:5:3 v/v/v). .5 °C. Rf: 0.45 PE/EtOAc/MeOH (5:5:3 v/v/v). Hz, 1H), 7.18 (ddd, J = 8.3, 7.0, 1.2 Hz, 1H), 7.47 (dq, J = 8.2, 0.9 Hz, 1H), 7.58 (dd, J = 7.9, 1.1 Hz, 1H),
7.86 (dd, J = 4.4, 1.6 Hz, 2H), 8.51 (s, 1H), 8.81 (dd, J = 4.4, 1.7 Hz, 2H), 11.65 (s, 1H), 12.05 (s, 1H). 13C-NMR (75 MHz, DMSO) δ ppm: 107.98 (1C, C2′), 112.57 (1C, C3′), 120.06 (1C, C4′), 121.31 (1C,
C6′), 122.01 (2C, C2,6), 128.05 (1C, C9′), 133.28 (1C, C1′), 138.47 (1C, C8′), 142.16 (1C, C=N), 150.79
(2C, C3, 5), 161.84 (1C, C=O). p
(
)
(
)
1H-NMR (300 MHz, DMSO-d6) δ ppm: 76.90 (dd, J = 2.1, 0.9 Hz, 1H), 7.02 (ddd, J = 8.0, 7.0, 1.1
Hz, 1H), 7.18 (ddd, J = 8.3, 7.0, 1.2 Hz, 1H), 7.47 (dq, J = 8.2, 0.9 Hz, 1H), 7.58 (dd, J = 7.9, 1.1 Hz, 1H),
7.86 (dd, J = 4.4, 1.6 Hz, 2H), 8.51 (s, 1H), 8.81 (dd, J = 4.4, 1.7 Hz, 2H), 11.65 (s, 1H), 12.05 (s, 1H). 13C-NMR (75 MHz, DMSO) δ ppm: 107.98 (1C, C2′), 112.57 (1C, C3′), 120.06 (1C, C4′), 121.31 (1C,
C6′), 122.01 (2C, C2,6), 128.05 (1C, C9′), 133.28 (1C, C1′), 138.47 (1C, C8′), 142.16 (1C, C=N), 150.79
p
(
)
f
(
)
1H-NMR (300 MHz, DMSO-d6) δ ppm: 76.90 (dd, J = 2.1, 0.9 Hz, 1H), 7.02 (ddd, J = 8.0, 7.0, 1.1 Hz,
1H), 7.18 (ddd, J = 8.3, 7.0, 1.2 Hz, 1H), 7.47 (dq, J = 8.2, 0.9 Hz, 1H), 7.58 (dd, J = 7.9, 1.1 Hz, 1H), 7.86
(dd, J = 4.4, 1.6 Hz, 2H), 8.51 (s, 1H), 8.81 (dd, J = 4.4, 1.7 Hz, 2H), 11.65 (s, 1H), 12.05 (s, 1H). E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
dih d
1H i d
l 5
l)
th l
)i
i
ti
h d
id (4) ),
( ,
,
),
( ,
,
),
( ,
,
)
R (75 MHz, DMSO) δ ppm: 111.39 (1C, C3′), 121.98 (2C, C2,6), 122.73 (1C, C7′), 123.35 (1C,
19 (1C, C2′), 127.23 (1C, C1′), 134.99 (1C, C6′), 141.07 (1C, C1), 141.14 (1C, C8′), 150.31 (1C,
50.76 (2C, C3,5), 161.87 (1C, C=O). 8.73–8.89 (m, 2H, H3,5), 11.83 (d, J = 6.0 Hz, 2H, N-H). 13C-NMR (75 MHz, DMSO) δ ppm: 111.59 (1C, C1′), 113,70 (1C, C6′), 114.42 (1C, C4′), 121.93 (2C, C2,6),
124.60 (1C, C2′), 125.71 (1C, C5′), 126.42 (1C, C9′), 132.71 (1C, C7′), 136.27 (1C, C8′), 141.38 (1C, C1),
9 °C (dec.). Rf: 0.1 EtOAc/MeOH (4:1 v/v). R (300 MHz, DMSO-d6) δ ppm: 2.43 (s, 3H, CH3), 8.42 (dd, J = 5.5, 1.8 Hz, 2H, H2,6), 8.53 FTIR (KBr) ν cm−1: 3127.58 (N-Hind), 2891.39 (C-Har), 1662.69 (C=O), 1618.34 (C=N-N), 1538
(C=Car), 1552.13 (Car
N), 1041.12 (Car-Br). UV (EtOH 52 65
M 25 °C) λ
201
29 890 d
3
l 1
1 λ
226
25 981
,
FTIR (KBr) ν cm−1: 3127.58 (N-Hind), 2891.39 (C-Har), 1662.69 (C=O), 1618.34 (C=N-N), 1538 (C=Car),
1552.13 (Car
(
,
),
(
,
)
KBr) ν cm−1: 3188.96 (N-H), 3027.37 (Car-H), 1652 (C=O), 1622.47 (C=N-N), 1607.84
, 1549.40 (Car
N). N), 1041.12 (Car-Br). 146.13 (1C, C=N), 150.72 (2C, C3,5), 161.40 (1C, C=O). FTIR (KBr) ν cm−1: 3127.58 (N-Hind), 2891.39 (C-Har), 1662.69 (C=O), 1618.34 (C=N-N), 1538
(C C
) 1552 13 (C
N) 1041 12 (C
B )
pp
(
)
(
J
)
H-C=N), 9.11 (s, 1H, H3′), 9.14 (dd, J = 5.5, 1.8 Hz, 2H, H3,5), 15.98 (br, 2H, N-H). R (75 MHz, DMSO) δ ppm: 9.38 (1C, CH3), 123.60 (1C, C1′) 125.38 (2C, C2,6), 131.78 (1C, C5′), UV (EtOH, 52.65 μM, 25 °C): λ = 201 nm, ε = 29,890 dm3·mol−1·cm−1, λ = 226 nm, ε = 25,981
dm3·mol−1·cm−1, λ = 330 nm, ε = 18,196 dm3·mol−1·cm−1. MS (ES TOF MeOH) m/z: 343 0194 [M + H+]
(
)
OH, 38.37 μM, 25 °C): λ = 234 nm, ε = 22,666.92 dm3·mol−1·cm−1. TOF, MeOH) m/z: 266.1046 [M + H+]. UV (EtOH, 52.65 µM, 25
◦C): λ = 201 nm, ε = 29,890 dm3·mol−1·cm−1, λ = 226 nm,
ε = 25,981 dm3·mol−1·cm−1, λ = 330 nm, ε = 18,196 dm3·mol−1·cm−1. (C=Car), 1552.13 (Car
N), 1041.12 (Car-Br). E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
dih d
1H i d
l 5
l)
th l
)i
i
ti
h d
id (4) Compound 9 can also be found (CAS No.: 113143-44-5). HRMS (ES, TOF) m/z: [M + H+] calc. for C15H12BrN4O: 343.0193. Found: 343.0194. Compound 9 can also be found (CAS No.: 113143-44-5). OH, 161.58 μM, 25 C): λ 316 nm, ε 5551.73 dm mol
cm (very poorly soluble). TOF, MeOH) m/z: 252.0866 [M + Na+]; 230.1049 [M + H+]. (ES TOF) m/z: [M + H+] calc for C11H12N5O: 230 1042 Found: 230 1049 Compound 9 can also be found (CAS No.: 113143-44-5). Compound 9 can also be found (CAS No.: 113143-44-5). HRMS (ES, TOF) m/z: [M + H+] calc. for C15H12BrN4O: 343.0193. Found: 343.0194. Compound 9 can also be found (CAS No.: 113143-44-5). TOF, MeOH) m/z: 252.0866 [M + Na+]; 230.1049 [M + H+]. ES TOF) m/z: [M + H+] calc for C11H12N5O: 230 1042 Found: 230 1049 (E)-N -((1H-indol-2-yl)methylene)isonicotinohydrazide (10)
(E)-N′-((1H-indol-2-yl)methylene)isonicotinohydrazide (10)
(E)-N′-((1H-indol-2-yl)methylene)isonicotinohydrazide (10)
a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4) E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
dih d
1H i d
l 5
l)
th l
)i
i
ti
h d
id (4) UV (EtOH, 52.65 μM, 25 °C): λ = 201 nm, ε = 29,890 dm3·mol−1·cm−1, λ = 226 nm, ε = 25,981
dm3 mol 1 cm 1 λ
330 nm ε
18 196 dm3 mol 1 cm 1
1C, C=N), 142.84 (1C, C3′), 144.03 (2C, C3,5), 147.78 (1C, C1), 159.52 (1C, C=O). KBr) ν cm−1: 3194.75 (N-H), 3097.19 (Car-H), 1660.58 (C=O), 1621.45 (C=N-N), 1602.24 UV (EtOH, 52.65 μM, 25 °C): λ = 201 nm, ε = 29,890 dm3·mol−1·cm−1, λ = 226 nm, ε = 25,981
dm3·mol−1·cm−1, λ = 330 nm, ε = 18,196 dm3·mol−1·cm−1. MS (ES TOF MeOH) m/z: 343 0194 [M + H+]
OH, 38.37 μM, 25 °C): λ = 234 nm, ε = 22,666.92 dm3·mol−1·cm−1. TOF, MeOH) m/z: 266.1046 [M + H+]. UV (EtOH, 52.65 µM, 25
◦C): λ = 201 nm, ε = 29,890 dm3·mol−1·cm−1, λ = 226 nm,
ε = 25,981 dm3·mol−1·cm−1, λ = 330 nm, ε = 18,196 dm3·mol−1·cm−1. (C=Car), 1552.13 (Car
N), 1041.12 (Car-Br). UV (EtOH, 52.65 μM, 25 °C): λ = 201 nm, ε = 29,890 dm3·mol−1·cm−1, λ = 226 nm, ε = 25,981
d
3
ol 1
1 λ
330
18 196 d
3
ol 1
1
1C, C=N), 142.84 (1C, C3′), 144.03 (2C, C3,5), 147.78 (1C, C1), 159.52 (1C, C=O). KBr) ν cm−1: 3194.75 (N-H), 3097.19 (Car-H), 1660.58 (C=O), 1621.45 (C=N-N), 1602.24 MS (ES, TOF, MeOH) m/z: 343.0194 [M + H
HRMS (ES TOF) m/z: [M + H+] calc for C1
OF) m/z: [M + H+] calc. for C14H12N5O: 266.1
ES, TOF, MeOH) m/z: 343.0194 [M + H+]. dm3·mol−1·cm−1, λ = 330 nm, ε = 18,196 dm3·m
MS (ES TOF MeOH) m/z: 343 0194 [M + H
49 (Car
N). MS (ES, TOF, MeOH) m/z: 343.0194 [M + H
HRMS (ES TOF) m/z: [M + H+] calc for C15
ES, TOF) m/z: [M + H+] calc. for C14H12N5O: 266.1
MS (ES, TOF, MeOH) m/z: 343.0194 [M + H+]. dm3·mol−1·cm−1, λ = 330 nm, ε = 18,196 dm3·m
MS (ES TOF MeOH) m/z: 343 0194 [M + H
1551.49 (Car
N). H 161 8
M 2 °C) λ
316
5551 73 d MS (ES, TOF, MeOH) m/z: 343.0194 [M + H
HRMS (ES TOF) m/z: [M + H+] calc for C1
ES, TOF) m/z: [M + H+] calc. for C14H12N5O: 266.1
MS (ES, TOF, MeOH) m/z: 343.0194 [M + H+]. E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4)
dih d
1H i d
l 5
l)
th l
)i
i
ti
h d
id (4) dm3·mol−1·cm−1, λ = 330 nm, ε = 18,196 dm3·
MS (ES TOF MeOH) m/z: 343 0194 [M + H
1551.49 (Car
N). H 161 58
M 25 °C) λ
316
5551 73 d HRMS (ES, TOF) m/z: [M + H+] calc. for C15H12BrN4O: 343.0193. Found: 343.0194. Compound 9 can also be found (CAS No.: 113143-44-5). (
,
,
)
[
]
HRMS (ES, TOF) m/z: [M + H+] calc. for C15H12BrN4O: 343.0193. Found: 343.0194. Compound 9 can also be found (CAS No.: 113143-44-5). MS (ES, TOF, MeOH) m/z: 343.0194 [M + H+]. HRMS (ES, TOF) m/z: [M + H+] calc. for C15H12BrN4O: 343.0193. Found: 343.0194. Compound 9 can also be found (CAS No.: 113143-44-5). OH, 161.58 μM, 25 °C): λ = 316 nm, ε = 5551.73 dm3·mol−1·cm−1 (very poorly soluble). TOF, MeOH) m/z: 252.0866 [M + Na+]; 230.1049 [M + H+]. (ES TOF) m/z: [M + H+] calc for C11H12N5O: 230 1042 Found: 230 1049 HRMS (ES, TOF) m/z: [M + H+] calc. for C15H12BrN4O: 343.0193. Found: 343.0194. Compound 9 can also be found (CAS No.: 113143-44-5). HRMS (ES, TOF) m/z: [M + H+] calc. for C15H12BrN4O: 343.0193. Found: 343.0194. Compound 9 can also be found (CAS No.: 113143-44-5). MS (ES, TOF, MeOH) m/z: 343.0194 [M + H+]. HRMS (ES, TOF) m/z: [M + H+] calc. for C15H12BrN4O: 343.0193. Found: 343.0194. Compound 9 can also be found (CAS No : 113143-44-5)
OH, 161.58 μM, 25 °C): λ = 316 nm, ε = 5551.73 dm3·mol−1·cm−1 (very poorly soluble). TOF, MeOH) m/z: 252.0866 [M + Na+]; 230.1049 [M + H+]. ES TOF)
/
[M
H ]
l
f
C H N O 230 1042 F
d 230 1049 HRMS (ES, TOF) m/z: [M + H+] calc. for C15H12BrN4O: 343.0193. Found: 343.0194. Compound 9 can also be found (CAS No.: 113143-44-5). HRMS (ES, TOF) m/z: [M + H+] calc. for C15H12BrN4O: 343.0193. Found: 343.0194. Compound 9 can also be found (CAS No : 113143 44 5)
MS (ES, TOF, MeOH) m/z: 343.0194 [M + H+]. HRMS (ES, TOF) m/z: [M + H+] calc. for C15H12BrN4O: 343.0193. Found: 343.0194. OH, 161.58 μM, 25 °C): λ = 316 nm, ε = 5551.73 dm3·mol−1·cm−1 (very poorly soluble). , TOF, MeOH) m/z: 252.0866 [M + Na+]; 230.1049 [M + H+]. Compound 9 can also be found (CAS No.: 113143-44-5). HRMS (ES, TOF) m/z: [M + H+] calc. for C15H12BrN4O: 343.0193. Found: 343.0194. (E)-N -((1H-indol-2-yl)methylene)isonicotinohydrazide (10)
(E)-N′-((1H-indol-2-yl)methylene)isonicotinohydrazide (10)
(E)-N′-((1H-indol-2-yl)methylene)isonicotinohydrazide (10)
-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4 for C15H13N4O: 265.1089. Found: 265.1090. X Ray structure of this compound has been recently reported [83]
HRMS (ES, TOF) m/z: [M + H+] calc. for C15H13N4O: 265.1089. Found: 265.1090. X-Ray structure of this compound has been recently reported [83]. HRMS (ES, TOF) m/z: [M + H+] calc. for C15H13N4O: 265.1089. Found: 265.1090
X Ray structure of this compound has been recently reported [83]
HRMS (ES, TOF) m/z: [M + H+] calc. for C15H13N4O: 265.1089. Found: 265.1090. X-Ray structure of this compound has been recently reported [8
X-Ray structure of this compound has been recently reported [83]. X-Ray structure of this compound has been recently reported [8
X-Ray structure of this compound has been recently reported [83]. 20 of 27 20 of 27 Molecules 2017, 22, 1457
HRMS (ES, (E)-N′-((4-nitro-1H-indol-3-yl)methylene)isonicotinohydrazide (11)
(E)-N′-((4-nitro-1H-indol-3-yl)methylene)isonicotinohydrazide (11)
(E)-N′-((3a,7a-dihydro-1H-indazol-5-yl)methylene)isonicotinohyd m.p.: 317.1 °C (dec.). Rf: 0.70 PE/EtOAc/MeOH (5:5:3 v/v/v)
m.p.: 317.1 ◦C (dec.). Rf: 0.70 PE/EtOAc/MeOH (5:5:3 v/v/v). m.p.: 302.5 °C. Rf: 0.45 PE/EtOAc/MeOH (5:5:3 v/v/v). m.p.: 317.1 °C (dec.). Rf: 0.70 PE/EtOAc/MeOH (5:5:3 v/v/v). m.p.: 317.1 ◦C (dec.). Rf: 0.70 PE/EtOAc/MeOH (5:5:3 v/v/v). m.p.: 302.5 °C. Rf: 0.45 PE/EtOAc/MeOH (5:5:3 v/v/v). 1H-NMR (300 MHz, DMSO-d6) δ ppm: 7.36 (t, J = 8.0 Hz, 1H, H5′), 7.84 (dd, J = 4.4, 1.7 Hz, 2H, H2,6),
7.94 (dd, J = 11.8, 7.9 Hz, 2H, H4′,6′), 8.28 (d, J = 2.9 Hz, 1H, H2′), 8.78 (dd, J = 4.4, 1.7 Hz, 2H, H3,5),
8.91 (s, 1H, H-C=N), 12.00 (s, 1H, N-H), 12.55 (s, 1H, N-H). 1H-NMR (300 MHz, DMSO-d6) δ ppm: 7.36 (t, J = 8.0 Hz, 1H, H5′), 7.84 (dd, J = 4.4, 1.7 Hz, 2H, H2,6),
7.94 (dd, J = 11.8, 7.9 Hz, 2H, H4′,6′), 8.28 (d, J = 2.9 Hz, 1H, H2′), 8.78 (dd, J = 4.4, 1.7 Hz, 2H, H3,5), 8.91
(s, 1H, H-C=N), 12.00 (s, 1H, N-H), 12.55 (s, 1H, N-H). p
(
)
1H-NMR (300 MHz, DMSO-d6) δ ppm: 7.63 (d, J = 8.7 Hz, 1H, H3′), 7.84 (dd, J = 4.4, 1.6 Hz, 2H
H2,6), 7.90 (dd, J = 8.8, 1.5 Hz, 1H, H2′), 8.03–8.10 (m, 1H, H7′), 8.17 (t, J = 1.2 Hz, 1H, H6′), 8.57 (
1H, H-C=N), 8.79 (s, 2H, H3,5), 12.01 (s, 1H, N-H), 13.31 (s, 1H, N-Hind). Physicochemical studies: hydrolytic stability and pKa determination:
UV spectra were recorded with HP8453 (Agilent) temperature controll
Physicochemical studies: hydrolytic stability and pKa determination: The pHs of the solutions were measured at room temperature (temperature probe) with a
combined pH electrode with Seven Multi (Mettler Toledo) pHmeter. The pHs of the solutions were measured at room temperature (temperature probe) with a
combined pH electrode with Seven Multi (Mettler Toledo) pHmeter. The pHs of the solutions were measured at room temperature (temperature probe) with a
combined pH electrode with Seven Multi (Mettler Toledo) pHmeter. The pHs of the solutions were measured at room temperature (temperature probe) with a
combined pH electrode with Seven Multi (Mettler Toledo) pHmeter. 4.3.1. Hydrolytic Stability
3.3.1. Hydrolytic Stability In the case of compounds 1a, 1b, 1c and 1d, a small quantity (respectively, 1.45 mg, 1.63 mg, 1.87 mg,
and 1.79 mg) of each product was weighted and dissolved in 1 mL of EtOH. The aliquots were then placed
in 100 mL standard flask with a concentration of 28% EtOH/H2O. Final concentrations of compounds were
respectively 1a: 6.0 × 10−5 mol/L, 1b: 6.3 × 10−5 mol/L, 1c: 6.0 × 10−5 mol/L and 1d: 5.9 × 10−5 mol/L. In the case of compounds 5 and 7, a small quantity (respectively, 1.65 mg and 1.20 mg) of each
d
h
d
d d
l
d
4
L
f E OH A f
f h
l
(
l
1 30
In the case of compounds 1a, 1b, 1c and 1d, a small quantity (respectively, 1.45 mg, 1.63 mg,
1.87 mg, and 1.79 mg) of each product was weighted and dissolved in 1 mL of EtOH. The aliquots were
then placed in 100 mL standard flask with a concentration of 28% EtOH/H2O. Final concentrations of
compounds were respectively 1a: 6.0 × 10−5 mol/L, 1b: 6.3 × 10−5 mol/L, 1c: 6.0 × 10−5 mol/L and
1d: 5.9 × 10−5 mol/L. product was weighted and dissolved in 4 mL of EtOH. A fraction of this solution (respectively 1.30
mL and 1.36 mL) were placed in 50 mL standard flask and mixed with PIPES buffer (50 mM) with a
final concentration of 5% EtOH/PIPES. The solution was stirred at room temperature; pH values and λ max of absorbance of the related
d
d f
l
h
15 h
In the case of compounds 5 and 7, a small quantity (respectively, 1.65 mg and 1.20 mg) of each
product was weighted and dissolved in 4 mL of EtOH. A fraction of this solution (respectively 1.30 mL
and 1.36 mL) were placed in 50 mL standard flask and mixed with PIPES buffer (50 mM) with a final
concentration of 5% EtOH/PIPES. compounds were measured for longer than 15 h. 4 3 2 pKa Determination [84]
The solution was stirred at room temperature; pH values and λ max of absorbance of the related
compounds were measured for longer than 15 h. (E)-N -((1H-indol-2-yl)methylene)isonicotinohydrazide (10)
(E)-N′-((1H-indol-2-yl)methylene)isonicotinohydrazide (10)
(E)-N′-((1H-indol-2-yl)methylene)isonicotinohydrazide (10)
-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4 Found: 266.10
MS (ES, TOF, MeOH) m/z: 332.0760 [M + Na+]; 310.0940 [M + H+]. HRMS (ES, TOF) m/z: [M + H+] calc. for C15H12N5O3: 310.0937. Found: 310.0940. HRMS (ES, TOF) m/z: [M + H+] calc. for C15H12N5O3: 310.0937. Found: 310.0940
HRMS (ES, TOF) m/z: [M + H+] calc. for C15H12N5O3: 310.0937. Found: 310.0940. (E)-N -((1H-indol-2-yl)methylene)isonicotinohydrazide (10)
(E)-N′-((1H-indol-2-yl)methylene)isonicotinohydrazide (10)
(E)-N′-((1H-indol-2-yl)methylene)isonicotinohydrazide (10)
-dihydro-1H-indazol-5-yl)methylene)isonicotinohydrazide (4 13C-NMR (75 MHz, DMSO) δ ppm: 110.29 (1C, C9′), 117.59 (1C, C1′), 118.94 (1C, C4′), 119.92 (1C, C6′),
121.50 (1C, C5′), 122.01 (2C, C2, 6), 131.31 (1C, C2′), 139.55 (1C, C8′), 141.22 (1C, C1), 141.90 (1C, C-NO2),
146.43 (1C, C=N), 150.66 (2C, C3,5), 161.56 (1C, C=O). 13C-NMR (75 MHz, DMSO) δ ppm: 110.29 (1C, C9′), 117.59 (1C, C1′), 118.94 (1C, C4′), 119.92 (1C, C6′),
121.50 (1C, C5′), 122.01 (2C, C2, 6), 131.31 (1C, C2′), 139.55 (1C, C8′), 141.22 (1C, C1), 141.90 (1C, C-NO2),
146.43 (1C, C=N), 150.66 (2C, C3,5), 161.56 (1C, C=O). ,
),
( ,
,
, ),
( ,
,
),
( ,
,
)
13C-NMR (75 MHz, DMSO) δ ppm: 111.39 (1C, C3′), 121.98 (2C, C2,6), 122.73 (1C, C7′), 123.35 (1C
C9′), 124.19 (1C, C2′), 127.23 (1C, C1′), 134.99 (1C, C6′), 141.07 (1C, C1), 141.14 (1C, C8′), 150.31 (1C
C=N), 150.76 (2C, C3,5), 161.87 (1C, C=O). FTIR (KBr) ν cm−1: 3156.34 (N-H), 3137.68 (N-H), 3053.25 (C-Har), 1664.06 (C=O), 1628.34 (C=N-N),
1590.99 (C=Car), 1554.10 (Car
N), 1513.15 (C=N-NO2). UV (EtOH 52 64
M 25 °C) λ
214
26 971 88 d
3
l 1
1 λ
331
17 046 35
,
FTIR (KBr) ν cm−1: 3156.34 (N-H), 3137.68 (N-H), 3053.25 (C-Har), 1664.06 (C=O), 1628.34 (C=N-N),
1590.99 (C=Car), 1554.10 (Car
),
(
,
),
(
,
)
FTIR (KBr) ν cm−1: 3188.96 (N-H), 3027.37 (Car-H), 1652 (C=O), 1622.47 (C=N-N), 1607.8
(Car=Car), 1549.40 (Car
N). N), 1513.15 (C=N-NO2). UV (EtOH, 52.64 μM, 25 °C): λ = 214 nm, ε = 26,971.88 dm3·mol−1·cm−1, λ = 331 nm, ε = 17,046.35
dm3·mol−1·cm−1. UV (EtOH, 38.37 μM, 25 °C): λ = 234 nm, ε = 22,666.92 dm3·mol−1·cm−1. MS (ES, TOF, MeOH) m/z: 266.1046 [M + H+]. UV (EtOH, 52.64 µM, 25 ◦C): λ = 214 nm, ε = 26,971.88 dm3·mol−1·cm−1, λ = 331 nm,
ε = 17,046.35 dm3·mol−1·cm−1. MS (ES, TOF, MeOH) m/z: 332.0760 [M + Na+]; 310.0940 [M + H
HRMS (ES TOF) m/z: [M + H+] calc for C15H12N5O3: 310 0937 F
HRMS (ES, TOF) m/z: [M + H+] calc. for C14H12N5O: 266.1042
MS (ES, TOF, MeOH) m/z: 332.0760 [M + Na+]; 310.0940 [M + H+]. MS (ES, TOF, MeOH) m/z: 332.0760 [M + Na+]; 310.0940 [M + H+]. HRMS (ES, TOF) m/z: [M + H+] calc. for C15H12N5O3: 310.0937. Found: 310.0940
HRMS (ES, TOF) m/z: [M + H+] calc. for C14H12N5O: 266.1042. 4.3. Physicochemical Studies: Hydrolytic Stability and pKa Determination
3.3. Physicochemical Studies: Hydrolytic Stability and pKa Determination 4.3. Physicochemical Studies: Hydrolytic Stability and pKa Determination
3.3. Physicochemical Studies: Hydrolytic Stability and pKa Determination Physicochemical studies: hydrolytic stability and pKa determination:
UV spectra were recorded with HP8453 (Agilent) temperature controll
Physicochemical studies: hydrolytic stability and pKa determination: A small quantity (1–2
3.3.2. pKa Determination aliquots were then placed in 100 mL standard flask with a final concentration of 28% EtOH/H2O. The
ionic strength was fixed at 0.1 M with potassium chloride. The pH was adjusted to the required value
by adding concentrated 0.1 M KOH or 0.1 M HCl. The solution was stirred at room temperature. The
absorbance at three different wavelengths was measured. Absorbance vs. pH curves were plotted
and the pKa values were evaluated graphically by geometric method. A small quantity (1–2 mg) of each product was weighted and dissolved in a 1 mL of EtOH. The aliquots were then placed in 100 mL standard flask with a final concentration of 28% EtOH/H2O. The ionic strength was fixed at 0.1 M with potassium chloride. The pH was adjusted to the required
value by adding concentrated 0.1 M KOH or 0.1 M HCl. The solution was stirred at room temperature. The absorbance at three different wavelengths was measured. Absorbance vs. pH curves were plotted
and the pKa values were evaluated graphically by geometric method [84]. 21 of 27 21 of 27 Molecules 2017, 22, 1457 3.4.2. MIC Determination in M.tb H37Rv strain was used as the reference strain. M.tb H37Rv and IC2 clinical isolate [31] were
grown at 37 ◦C in Middlebrook 7H9 broth (Difco), supplemented with 0.05% Tween 80, or on solid
Middlebrook 7H11 medium (Difco) supplemented with oleic acid-albumin-dextrose-catalase (OADC). MICs for the compounds were determined by means of the micro-broth dilution method. Dilutions
of M.tb wild-type or mutant strain (about 105–106 cfu/mL) were streaked onto 7H11 solid medium
containing a range of drug concentrations (0.125 µg/mL to 40 µg/mL). Plates were incubated at 37 ◦C
for about 21 days and the growth was visually evaluated. The lowest drug dilution at which visible
growth failed to occur was taken as the MIC value. Results were expressed as the average of at least
three independent determinations. 3.4.3. Determination of LC50 Human primary fibroblast (MRC5 ATCC CCL171) were seeded at 5 k/well in a corning Cell
bind 96-well plate and treated with growing concentration of compounds. Seventy-two hours
post-treatment, cells were directly stained with Hoechst 33342 and imaged under a Cellomics Array
scan HCS microscope using the cell cycle algorithm. Total number of cells were assessed in each
condition and normalized over untreated wells. LC50 were determined as concentration inducing 50%
reduction in cell number. 3.3.3. DMSO stability of Compound 1d The stability of compound 1a in DMSO was assessed at 25 ◦C. To this purpose, the compound was
dissolved in DMSO, at a final concentration of 10 mM, and incubated for 16 h at 25 ◦C. The compound
was then diluted in methanol, and analysed. The mass spectra were recorded in negative ESI resolution
mode with a Thermo LTQ-XL mass spectrometer, and compared with those of compound 1a and of
INH freshly dissolved in DMSO (10 mM) and diluted in methanol. 3.4. Biological Assays 3.4. Biological Assays 3.4.1. Inhibition Kinetics in the Presence of InhA
Inhibition kinetic was performed as described [81,85]. Inhibition kinetic was performed as described [81,85]. Supplementary Materials: Supplementary Materials are available online. Acknowledgments: We thank the CNRS and University Paul Sabatier for financial support. We thank the
Minister of Industry for Ph.D. grant (P.F.M.O.); William R. Jacobs for pMV261-InhA construct and grant VEGA
1/0284/15. We thank F. Gaillardo (NeoVirTech, ITAV, Centre P. Potier, Toulouse) for the cytotoxicity evaluation of
the hydrazone compounds. Author Contributions: P.F.M.O.: Ph.D. student synthetic experiments; B.G., A.C. and M.Baron (co-director of
P.F.M.O. thesis): supervised the synthetic part; C.A.B.: NMR and DFT studies; G.M. and B.S.O. performed the
MIC experiments; L.R.C. performed MS; M.R.P. directed this part; J.M., J.K.: analysis on lipids and mycolic acids,
J.K. directed this part; C.L.: InhA inhibition experiments; C.C.: hydrolytic stability and pKa determination; S.M.:
NMR experiments; M.Baltas: conceive and direct the project, co-direct the P.F.M.O. thesis. All authors contributed
in writing the manuscript. Conflicts of Interest: The authors declare no conflict of interest. 3.4.5. Determination of Sensitivity of M.tb H37Ra Strain Overproducing InhA to Hydrazones InhA protein was overproduced in M.tb H37Ra using pMV261-InhA construct as already
described [88]. Sensitivity of InhA overproducing strain, as well as control strain carrying empty
vector to compounds 1a, 3, 5, 7 and 10 was analysed by drop dilution methods. Both cultures grown in
7H9 broth supplemented with albumin-dextrose-catalase and 0.05% Tween 80 were adjusted to OD600
0.5 and 4 µL aliquots of 100, 10−1, 10−2 and 10−3 dilutions were dropped on 7H11 agar supplemented
with oleic acid-albumin-dextrose-catalase and incubated 25 days at 37 ◦C. 4. Conclusions A series of hydrazones were synthesized through mechanochemistry and evaluated for their
ability to inhibit M.tb H37Rv strain growth, the most active being 1a and 7. Imidazole derivative 5
and indazole one 10 are also active against H37Rv with their nitro substituent. Compounds 1a and 1b
were the most effective against both M.tb H37Rv strain and drug-resistant IC2 isolate. The mechanism of anti-mycobacterial activities of selected hydrazones with the best scores
regarding the MICs and toxicities was confirmed to be through the cessation of mycolic acid synthesis
due to InhA inhibition inside the mycobacterial cell. 3.4.4. Analysis of the Effect of Hydrazones on Lipids and Mycolic Acids of M.tb H37Ra The modes of actions of selected hydrazones were analyzed by metabolic labeling of M.tb H37Ra
strain with 14C acetate as already described [34]. Briefly, M.tb H37Ra culture was grown in Middlebrook
7H9 broth (Difco) supplemented with albumin-dextrose-catalase (Difco) and 0.05% Tween 80 (MP
Biomedicals) at 37 ◦C till OD600 reached 0.24. The culture was then divided into 20 mL aliquots and
tested compounds dissolved in DMSO were added in 0.41 µM (0.1 µg/mL) and 2.05 µM (0.5 µg/mL)
final concentrations for 1a, 0.44 µM (0.1 µg/mL) and 2.2 µM (0.5 µg/mL) for 3, 0.38 µM (0.1 µg/mL)
and 1.9 µM (0.5 µg/mL) for 5, 0.38 µM (0.1 µg/mL) and 1.9 µM (0.5 µg/mL) for 7, 0.38 µM (0.1 µg/mL)
and 1.9 µM (0.5 µg/mL) for 10 and 36.5 µM (5 µg/mL) for INH. The final concentration of DMSO
was kept at 1% in each experiment. 14C acetate (specific activity 106 mCi/mmol, ARC) in the final
concentration of 0.5 µCi/mL was added to each of the cultures after 24 h of cultivation with shaking
(120 rpm) and the cells were cultivated for next 24 h. Lipids were extracted from whole cells harvested from 10 mL culture aliquots as described
earlier [34,86], dissolved in chloroform:methanol (2:1)—350 µL per 1 unit of OD600 of harvested cells. Five microliters were loaded on thin-layer chromatography (TLC) silica gel plates F254 (Merck) and the
lipids were separated in chloroform:methanol:water (20:4:0.5) and detected by autoradiography. Fatty
acid methyl esters (FAME) and mycolic acids methyl esters (MAME) were prepared from whole cells
harvested from 10 mL culture aliquots as previously described [34,87]. Dried extracts were dissolved 22 of 27 Molecules 2017, 22, 1457 in chloroform:methanol (2:1) and loaded on TLC plates as described for lipid extracts. Different forms
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Monitoring tumor response to the vascular disrupting agent CKD-516 in a rabbit VX2 intramuscular tumor model using PET/MRI: Simultaneous evaluation of vascular and metabolic parameters
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RESEARCH ARTICLE Materials and methods Editor: Gayle E. Woloschak, Northwestern
University Feinberg School of Medicine, UNITED
STATES With institutional Animal Care and Use Committee approval, 18 VX2 carcinoma tumors
implanted in bilateral back muscles of 9 rabbits were evaluated. Serial PET/MRI were per-
formed before, 4 hours after and 1-week after vascular disrupting agent, CKD-516 at a dose
of 0.7 mg/kg (treated group, n = 10) or saline (control group, n = 8) administration. PET/MRI-
derived parameters and their interval changes were compared between the treated and con-
trol group by using the linear mixed model. Each parameter within each group was also com-
pared by using the linear mixed model. Received: July 2, 2017
Accepted: January 29, 2018
Published: February 13, 2018 Copyright: © 2018 Ahn et al. This is an open
access article distributed under the terms of the
Creative Commons Attribution License, which
permits unrestricted use, distribution, and
reproduction in any medium, provided the original
author and source are credited. Objectives To determine whether the CKD-516 produces a significant change in vascular and meta-
bolic parameters in PET/MRI Abstract Citation: Ahn SY, Goo JM, Lee KH, Ha S, Paeng JC
(2018) Monitoring tumor response to the vascular
disrupting agent CKD-516 in a rabbit VX2
intramuscular tumor model using PET/MRI:
Simultaneous evaluation of vascular and metabolic
parameters. PLoS ONE 13(2): e0192706. https://
doi.org/10.1371/journal.pone.0192706 Monitoring tumor response to the vascular
disrupting agent CKD-516 in a rabbit VX2
intramuscular tumor model using PET/MRI:
Simultaneous evaluation of vascular and
metabolic parameters Su Yeon Ahn1, Jin Mo Goo1,2*, Kyung Hee Lee3, Seunggyun Ha4, Jin Chul Paeng4 a1111111111
a1111111111
a1111111111
a1111111111
a1111111111 1 Department of Radiology, Seoul National University College of Medicine, and Institute of Radiation
Medicine, Seoul National University Medical Research Center, Seoul, Korea, 2 Cancer Research Institute,
Seoul National University, Seoul, Korea, 3 Department of Radiology, Seoul National University Bundang
Hospital, Seongnam-si, Gyeonggi-do, Korea, 4 Department of Nuclear Medicine, Seoul National University
College of Medicine, Seoul, Korea * jmgoo@plaza.snu.ac.kr Conclusions PET/MRI is able to monitor the changes of vascular and metabolic parameters at different
time points simultaneously, and confirmed that vascular changes precede the metabolic
changes by VDA, CKD-516. Monitoring tumor response to the vascular disrupting agent using PET/MRI (P < 0.001), while total lesion glycolysis (TLG) did not show a significant difference between
the time points. SUVmax and SUVmean did not show significant interval changes between
time points (P > 0.05). Abbreviations: DCE-MRI, dynamic contrast-
enhanced magnetic resonance imaging; FDG,
fluorodeoxyglucose; iAUC, the initial area under the
gadolinium concentration-time curve until 60
seconds; Ktrans, the volume transfer coefficient;
MTV, metabolic tumor volume; PET, positron
emission tomography; SUVmax, the maximum
standardized uptake value; SUVmean, the average
standardized uptake value; TLG, total lesion
glycolysis; VDA, vascular disrupting agent. Results Changes of the volume transfer coefficient (Ktrans) and the initial area under the gadolinium
concentration-time curve until 60 seconds (iAUC) in the treated group were significantly
larger compared with those in the control group at 4-hour follow-up (mean, -39.91% vs. -6.04%, P = 0.018; and -49.71% vs. +6.23%, P = 0.013). Change of metabolic tumor volume
(MTV) in the treated group was significantly smaller compared with that in the control group
at 1-week follow-up (mean, +118.34% vs. +208.87%, P = 0.044). Serial measurements in
the treated group revealed that Ktrans and iAUC decreased at 4-hour follow-up (P < 0.001)
and partially recovered at 1-week follow-up (P = 0.001 and 0.024, respectively). MTV
increased at a 4-hour follow-up (P = 0.038) and further increased at a 1-week follow-up Data Availability Statement: All relevant data are
within the paper and its Supporting Information
files. Funding: This research was supported by Basic
Science Research Program through the National
Research Foundation of Korea (NRF) funded by the
Ministry of Education (NRF-2013R1A1A2063746). Competing interests: The authors have declared
that no competing interests exist. 1 / 14 PLOS ONE | https://doi.org/10.1371/journal.pone.0192706
February 13, 2018 Introduction Supply of oxygen and nutrients via the surrounding vasculature is essential for tumor growth. Therefore, tumor vasculature has been a major target for cancer treatment. Apart from antian-
giogenic drugs which compromise the formation of new blood vessels, vascular disrupting
agents (VDAs) target the established tumor vasculature and cause a shutdown of blood flow,
leading to subsequent tumor ischemia and necrosis [1]. Because of its cytostatic nature, con-
ventional assessment of tumor response based on reduction in tumor size, using Response
Evaluation Criteria in Solid Tumors [2] may not be adequate or prompt since there is a signifi-
cant latency in determining the clinical effectiveness [3]. Physiologic or metabolic responses
occur soon after the start of anticancer therapy, although clinical responses are slow. There-
fore, functional molecular imaging techniques that depict physiologic and cellular processes
within tumors such as vascularity or metabolism have been emphasized [4]. The depiction of
these post-therapeutic events earlier than clinical endpoint is helpful for choosing the right
treatment strategy, preventing unnecessarily long treatment courses with their inherent
adverse events, as well as deciding whether to go or not in the development of anticancer
pharmaceuticals [5, 6]. Several imaging techniques have been investigated to assess angiogenic
vasculature and monitor the efficacy of vascular targeting agents noninvasively [3]. The major-
ity of them were studied with dynamic contrast-enhanced magnetic resonance imaging
(DCE-MRI) parameters for assessing the therapeutic effect of vascular targeting agents [3, 6–
10]. Furthermore, only a few previous studies were performed with [18F]-fluorodeoxyglucose
(FDG) positron emission tomography (PET) for assessing metabolic change after the thera-
peutic effect of anti-vascular drugs [11–13]. However, to our knowledge, until now, no studies
dealing with post-treatment changes after VDA have been performed yet with the novel imag-
ing modality PET/MRI, which can obtain multiparametric information simultaneously. Vascular disrupting agent, CKD-516 used in this experiment is a tubulin polymerization
inhibitor that has a dual action mechanism of (a) rapid disruption of pre-existing tumor vascu-
lature, resulting in hypoxia and necrosis, and (b) arresting the cell cycle, resulting in apoptosis
[14]. Therefore, the aim of this study is to determine whether the CKD-516 produces a signifi-
cant change in vascular and metabolic parameters in PET/MRI. All experiments were approved by the Institutional Animal Care and Use Committee in
Seoul National University Hospital (SNUH-IACUC) (Permit Number: 15-0241-S1A0(1)) and Monitoring tumor response to the vascular disrupting agent using PET/MRI animals were maintained in the facility accredited AAALAC International (#001169) in accor-
dance with Guide for the Care and Use of Laboratory Animals 8th edition, National Research
Council (2010). The rabbits were monitored every 1–2 days. If one of the following conditions
occurred during the experiment, the animals were humanely killed considered: weight loss
(>20%) or if the animal became cachectic, had difficulty eating, drinking or moving around
freely. All efforts were made to minimize suffering of animals during tumor implantation and
image acquisition. Experimental protocol Sixteen rabbits were randomly allocated to receive injections of CKD-516 (Chong Kun Dang
Pharmaceutical, Seoul, Korea) at a dose of 0.7 mg/kg (n = 11) or normal saline (n = 5) (treated
group and control group, respectively). We set the dose of CKD-516 according to the safe dose
in human (9 mg/m2) and converted it to the equivalent dose in rabbits (0.75mg/kg) [9]. One
day after the baseline imaging, CKD-516 diluted in 3 mL of normal saline was administered
slowly at a rate of 1 mL/min via the auricular vein to the treated group and the same dose of
normal saline to the control group. Follow-up imaging was performed 4 hours and 1-week
after the administration. After the last PET/MR imaging session, all rabbits were sacrificed by
intravenous injection of 5 ml potassium chloride while under deep anesthesia. Animal model Sixteen male New Zealand White rabbits (Koatech Co. Ltd., Pyongtaek, Korea) weighing 3.0–
3.5 kg were used. The rationale for choosing rabbit VX2 model is as follows; rabbit VX2 tumor
model is well established for studies of tumor and histopathological features are similar to
humans [15], thus the results of animal studies can be extrapolated to humans; many previous
studies have used the rabbit VX2 model for functional imaging [9, 16]; the VX2 carcinoma
strain had been maintained by continuous transplantation into the hind limbs of carrier rab-
bits at the preclinical animal experimental center of our institute, making it easily accessible in
this study. To help the rabbits adapt to their environment, they were housed in individual
cages with freely available food and water for 1–2 weeks in accordance with our humane ani-
mal care protocol. For each rabbit, anesthesia was induced with intravenous ketamine hydro-
chloride (50 mg per kg of body weight; Ketamine, Yuhan, Korea) and 2% xylazine (0.1 mL/kg;
Rompun, Bayer, Germany). After anesthesia, bilateral back parallel to the spine was shaved and sterilized. Thereafter,
0.2 ml of VX2 tumor suspension was slowly implanted symmetrically in the bilateral paraver-
tebral muscles at the level of the kidney each using 18-gauge Chiba needle under the guidance
of ultrasonography (Accuvix XG, Samsung Medison, Seoul, Korea). Tumors were incubated
for 10–12 days after the tumor implantation prior to baseline imaging. Among the 16 rabbits,
the total number of tumors was 32. The longest diameter of the tumors on baseline
T2-weighted axial MR images was 16.2 ± 3.5 mm (range, 9.3–22.2 mm). Ethics statement All experiments were approved by the Institutional Animal Care and Use Committee in
Seoul National University Hospital (SNUH-IACUC) (Permit Number: 15-0241-S1A0(1)) and 2 / 14 PLOS ONE | https://doi.org/10.1371/journal.pone.0192706
February 13, 2018 PET/MRI image acquisition All acquisitions were performed by using an integrated PET/MRI scanner (Biograph mMR,
Siemens Healthcare, Erlangen, Germany). All animals were fasted for at least 6 hours prior to
the PET/MRI examination. Animals had an intravenous access established in the auricular
vein at the day of PET/MRI acquisition. FDG (37 MBq) was intravenously injected and 1-bed
PET image was obtained for 10 min, approximately 60 min after injection. MR acquisition was
initiated as soon as the animals were placed in a supine position in the scanner. Using three-
plane, true-fast imaging with steady-state precession (true-FISP) localizers, an axial MRI slab 3 / 14 PLOS ONE | https://doi.org/10.1371/journal.pone.0192706
February 13, 2018 Monitoring tumor response to the vascular disrupting agent using PET/MRI was placed covering the whole tumor implant in paravertebral muscles. T2-weighted images
(T2WI) were obtained with the following parameters: repetition time/echo time (TR/TE),
4230/84 ms; matrix size, 128×128; slice thickness, 3 mm; and field of view (FOV), 160×160
mm. Unenhanced T1-weighted volumetric interpolated breath-hold examination (VIBE)
images were acquired at each flip angle for T1 mapping using the following parameters: TR/
TE 3.2/1.1 ms; flip angles (α = 2˚, 5˚, 10˚ and 15˚); matrix size 128×128; slice thickness 3 mm;
number of slices 20; and FOV 160 mm. Thereafter, dynamic contrast-enhanced MR imaging
using the T1-weighted radial gradient echo sequence was then performed after an intravenous
bolus injection via the auricular vein of 0.1 mmol/kg of gadoteric acid (Dotarem; Guerbet,
Paris, France). DCE-MRI using the VIBE sequence was obtained at 5 seconds of temporal res-
olution and the parameters were TR/TE 3.2/1.1 ms, flip angles (α = 15˚), matrix size 128×128,
slice thickness 3 mm, number of slices 20, and FOV 160 mm. The total acquisition time of the
dynamic scan was 10 minutes, including the first 4 phases of pre-contrast images. During MRI acquisition, emission data were collected from a single bed position of tumor
implant level for 20 minutes and list-mode dataset was acquired for all animals. Reconstruc-
tion of PET images was performed on the mMR console using 3D-ordered subset expectation
maximization (3D-OSEM) with point spread function modeling with 3 iterations, 21 subsets,
image matrix 256, a zoom factor of 2. Image analysis The most commonly used two DCE-MRI parameters, the volume transfer coefficient (Ktrans)
and the initial area under the gadolinium concentration-time curve until 60 seconds (iAUC)
were measured, according to the consensus opinion on DCE-MRI in evaluating vascular tar-
geting agents in previous studies [1, 7, 17]. Using the DCE-MRI images, parametric maps of
Ktrans and iAUC were generated with a post-processing software program (Tissue4D; Siemens
Medical Solutions) based on Tofts model [18, 19]. We selected a representative section with
the longest diameter of tumor and drew a region of interest manually by outlining the entire
tumor boundary. The maximum and average standardized uptake value (SUVmax and SUVmean) were mea-
sured to determine FDG avidity of the tumors using commercial software (Syngo.via, Siemens
Healthcare). A sphere-shaped volume of interest (VOI) that included the entire lesion was
drawn to determine FDG avidity. Metabolic tumor volume (MTV) was defined as total tumor
volume with a margin threshold of 40% SUVmax. Total lesion glycolysis (TLG) was calculated
as (SUVmean) × (MTV) in the same isocontour VOI. Tumor size was defined as the longest diameter measured on axial T2-weighted images. In
addition, tumor volume was measured using a semi-automatic segmentation tool. Percentage
changes in PET/MRI-derived parameters relative to the baseline were calculated as follows:
Value Change = (Valuegiven time-Valuebaseline)/Valuebaseline × 100%. Sequential change in size and volume of tumor The size of tumors at baseline in the control and treated groups was 18 ± 4 mm and 16 ± 4
mm, respectively, and it showed no significant differences (P > 0.05). At 1-week follow-up,
the tumors grew to 22 ± 3 mm and 20 ± 5 mm, respectively. Percentage change of size of
tumors at 1-week follow-up did not show a significant difference between the two groups
(30.9% vs. 21.9%, P = 0.198). The volume of tumors at baseline in the control and treated group was 6.0 ± 2.9 cm3 and
4.6 ± 2.3 cm3, respectively, and it showed no significant differences (P = 0.438). At 1-week fol-
low-up, the tumors grew to 13.5 ± 5.3 cm3 and 8.1 ± 3.1 cm3, respectively. Percentage change
of volume of tumors at 1-week follow-up showed no significant differences between the treated
and control groups (139.3% vs. 89.6%, P = 0.115). Results Among 16 rabbits, data from 3 rabbits (2 in the treated group and 1 in the control group) were
incomplete because 1-week follow-up imaging was not available due to technical problems. In
addition, 4 rabbits in the treated group died unexpectedly before humane endpoints, mostly
one or two days before 1-week follow-up. Although the dose of CKD-516 was within safe limits
and we did not investigate the toxicity in our study, the toxicity may be related to animal’s
death because all dead rabbits were in the treated group. However, stressful situation such as
repeated handling, transportation and anesthesia may also be related. Therefore, 18 tumors in
9 rabbits (10 tumors in 5 rabbits in the treated group and 8 tumors in 4 rabbits in the control
group) were available for all baselines, 4 hours and 1-week follow-up. Statistical analysis To determine whether there were differences in tumor size, volume, PET/MRI imaging values
and their interval changes between the treated and control groups, the linear mixed model was
used which made it possible to analyze clustered data because each rabbit has two tumors. Two fixed effects were included: one between-subjects group (control vs. treated) effect and
one within-subject time effect (time: baseline, 4 hours, and 1 week). Spearman rank correlation
test was performed to evaluate the correlation between the changes in PET/MR imaging values
at each time point compared with the baseline. A P value of less than 0.05 was considered to 4 / 14 PLOS ONE | https://doi.org/10.1371/journal.pone.0192706
February 13, 2018 Monitoring tumor response to the vascular disrupting agent using PET/MRI indicate a significant difference. All statistical analyses were performed with SPSS version 21
(SPSS, Chicago, IL, USA). PLOS ONE | https://doi.org/10.1371/journal.pone.0192706
February 13, 2018 Monitoring tumor response to the vascular disrupting agent using PET/MRI Table 1. Comparison of vascular and metabolic parameters between the control and treated groups at each time point and comparison of each parameter between
time points in each group. Control (n = 8)
P value
Treated (n = 10)
P value
P value
4 Hours
1 Week
4 Hours
1 Week
Ktrans (min-1)
time × group: 0.023
Baseline
0.29 ± 0.13
0.137
0.049
0.28 ± 0.69
<0.001
0.001
0.816
4 Hours
0.26 ± 0.08
0.062
0.16 ± 0.05
0.081
0.055
1 Week
0.19 ± 0.06
0.20 ± 0.07
0.903
iAUC (mmol/sec)
time × group: <0.001
Baseline
27.85 ± 10.39
0.853
0.037
26.49 ± 5.82
<0.001
0.024
0.819
4 Hours
28.31 ± 8.30
0.014
12.95 ± 5.44
<0.001
0.015
1 Week
18.58 ± 5.22
21.23 ± 7.76
0.555
SUVmax
time × group: 0.143
Baseline
8.72 ± 2.91
NA
NA
6.44 ± 2.00
NA
NA
NA
4 Hours
6.91 ± 3.01
NA
5.77 ± 1.80
NA
NA
1 Week
8.79 ± 2.70
5.52 ± 2.59
NA
SUVmean
time × group: 0.237
Baseline
5.50 ± 2.02
NA
NA
4.00± 1.22
NA
NA
NA
4 Hours
4.37 ± 1.91
NA
3.50 ± 1.14
NA
NA
1 Week
5.21 ± 1.59
3.19 ± 1.56
NA
MTV (cm3)
time × group: 0.001
Baseline
3.78 ± 2.01
0.018
<0.001
2.81 ± 1.09
0.038
<0.001
0.374
4 Hours
4.65 ± 2.00
<0.001
3.66 ± 0.91
0.005
0.345
1 Week
10.69± 4.02
6.09 ± 2.17
0.035
TLG
time × group: <0.001
Baseline
23.96 ± 21.28
0.627
0.001
10.66 ±3.64
0.341
0.066
0.225
4 Hours
21.67 ± 13.47
0.001
12.41 ± 4.33
0.126
0.193
1 Week
60.23 ± 35.20
18.93 ± 12.85
0.035 differences were observed in percentage changes in SUVmax, SUVmean, TLG, Ktrans and
iAUC between the two groups at 1-week follow-up. Comparison of PET/MRI parameters at each time points and their changes
between the treated and control groups The time × group interaction effect was found in Ktrans, iAUC, MTV and TLG (P = 0.023,
<0.001, 0.001 and <0.001, respectively) on linear mixed model analysis. Mean values of vascu-
lar and metabolic parameters and comparison of each parameter between treated and control
group at each time points and comparison of each parameter between time points in each
group are shown in Table 1. Percentage changes of those relative to baseline for each group at
each time point are summarized in Table 2. There were no significant differences in all of PET/MRI parameters at baseline imaging
between the two groups. At 4-hour follow-up, Ktrans in the treated group were lower than that
in the control group, although the difference showed no statistical significance (P = 0.055). iAUC in the treated group were significantly lower than that in the control group (P = 0.015)
at 4-hour follow-up. At 1-week follow-up, MTV and TLG were significantly lower in the
treated group than those in the control group (P = 0.035). Percentage changes of PET/MRI parameters were also evaluated by using the linear mixed
model. Changes of Ktrans and iAUC in the treated group were significantly larger compared
with those in the control group at 4-hour follow-up (mean, -39.91% vs. -6.04%, P = 0.018;
and -49.71% vs. +6.23%, P = 0.013). None of the relative changes in PET-derived parameters
showed any statistically significant differences between the treated and control groups at
4-hour follow-up. MTV in the treated group is significantly less increased compared with those in the
control group at 1-week follow-up (mean, +118.34% vs. +208.87%, P = 0.003). No statistical 5 / 14 PLOS ONE | https://doi.org/10.1371/journal.pone.0192706
February 13, 2018 https://doi.org/10.1371/journal.pone.0192706.t001 Sequential change in PET/MRI parameters of tumor within each group Comparisons between different time points in each parameter are shown in Figs 1 and 2. Serial
measurements in the treated group revealed that Ktrans and iAUC decreased at 4-hour follow-
up (P < 0.001) and partially recovered at 1-week follow-up (P = 0.001 and 0.024, respectively). MTV increased at 4-hour follow-up (P = 0.038) and further increased at 1-week follow-up (P <
0.001), while TLG increased at 1-week follow-up without a significant difference (P > 0.05). In the control group, Ktrans and iAUC showed no significant differences at 4-hours follow-
up (P > 0.05) and decreased at 1-week follow-up (P = 0.049 and 0.037, respectively). MTV
increased at 4-hour follow-up (P = 0.018) and further increased at 1-week follow-up (P < 6 / 14 PLOS ONE | https://doi.org/10.1371/journal.pone.0192706
February 13, 2018 Monitoring tumor response to the vascular disrupting agent using PET/MRI Table 2. Percentage changes of vascular and metabolic parameters compared with the baseline at each time point
and P values of comparisons between the treated and control groups. Control (n = 8)
Treated (n = 10)
P Value
Ktrans (min-1)
4 Hours
-6.04(-21.04, 8.97)
-39.91(-52.64, -27.18)
0.018
1 Week
-29.90(-66.07, 6.27)
-27.35(-45.62, -9.08)
0.822
iAUC (mmol/sec)
4 Hours
6.23(-17.75,30.21)
-49.71(-65.47, -33.95)
0.013
1 Week
-24.15(-53.84,5.55)
-18.87(-38.17, 0.43)
0.797
SUVmax
4 Hours
-15.57(-52.41, 21.27)
-7.97(-25.83, 9.89)
0.757
1 Week
4.89(-23.17, 32.95)
-16.42(-35.03, 2.18)
0.299
SUVmean
4 Hours
-14.82(-51.87, 22.23)
-10.05(-30.41, 10.30)
0.852
1 Week
-0.76 (-27.03, 25.51)
-21.92(-42.63, -1.21)
0.303
MTV (cm3)
4 Hours
30.74(14.05, 47.72)
37.82(16.61, 59.03)
0.660
1 Week
208.87(145.75, 272.00)
118.34(76.59, 160.10)
0.044
TLG
4 Hours
195.96(129.96, 261.97)
42.23(2.68, 81.77)
0.623
1 Week
209.64(108.00, 311.28)
79.43(3.74, 155.14)
0.101
Data are relative percentage changes determined by comparing the value at baseline with that at follow-up. Data in
parentheses are 95% confidence intervals. Ktrans: volume transfer coefficient
iAUC: initial area under the gadolinium concentration-time curve until 60 seconds
SUV: standardized uptake value
MTV: metabolic tumor volume
TLG: total lesion glycolysis
https://doi org/10 1371/journal pone 0192706 t002 Table 2. Percentage changes of vascular and metabolic parameters compared with the baseline at each time point
and P values of comparisons between the treated and control groups. 0.001), while TLG showed no significant difference at 4-hour follow-up and increased at
1-week follow-up (P = 0.001) in the control group. Correlation analysis with tumor response To determine whether there is correlation between the percentage changes in parameters at
4-hour follow-up and change of tumor size or volume at 1-week follow-up for early prediction
of tumor response, correlation analysis was performed in the treated group. Any change of
parameters at 4-hour follow-up was not correlated with the change of size or volume at 1-week
follow-up. (P> 0.05). In addition, we have checked the correlations between vascular and met-
abolic parameters (Ktrans or iAUC and 4 metabolic parameters, respectively) and we’ve found
that there were no correlation between these parameters at any time (p>0.05). Discussion Our study demonstrated that PET/MRI can monitor serial vascular and metabolic changes of
intramuscular VX2 tumor model after the administration of VDA, CKD-516. Vascular and
metabolic parameters changed at different times and we confirmed that vascular changes pre-
cede the metabolic changes by VDA, CKD-516. Significant differences in vascular parameters
including Ktrans and iAUC occurred after 4 hours, whereas significant differences in metabolic PLOS ONE | https://doi.org/10.1371/journal.pone.0192706
February 13, 2018 7 / 14 Monitoring tumor response to the vascular disrupting agent using PET/MRI Fig 1. Serial changes of PET/MRI parameters before and after the treatment with CKD-516. (a) Axial T2-weighted
images demonstrated target tumors with high signal intensity in bilateral paravertebral muscles. (b) DCE-MRI
revealed peripheral enhancement of tumors suggesting central necrosis. (c) Ktrans map and (d) iAUC map
demonstrated a reduction of values at 4 hours and partial recovery at 1 week follow-up. (e) PET images and (f) fusion
images showed no significant differences of SUVmax or SUVmean. https://doi org/10 1371/journal pone 0192706 g001 Fig 1. Serial changes of PET/MRI parameters before and after the treatment with CKD-516. (a) Axial T2-weighted
images demonstrated target tumors with high signal intensity in bilateral paravertebral muscles. (b) DCE-MRI
revealed peripheral enhancement of tumors suggesting central necrosis. (c) Ktrans map and (d) iAUC map
demonstrated a reduction of values at 4 hours and partial recovery at 1 week follow-up. (e) PET images and (f) fusion
images showed no significant differences of SUVmax or SUVmean. Fig 1. Serial changes of PET/MRI parameters before and after the treatment with CKD-516. (a) Axial T2-weighted
images demonstrated target tumors with high signal intensity in bilateral paravertebral muscles. (b) DCE-MRI
revealed peripheral enhancement of tumors suggesting central necrosis. (c) Ktrans map and (d) iAUC map
demonstrated a reduction of values at 4 hours and partial recovery at 1 week follow-up. (e) PET images and (f) fusion
images showed no significant differences of SUVmax or SUVmean. https://doi.org/10.1371/journal.pone.0192706.g001 https://doi.org/10.1371/journal.pone.0192706.g001 parameters of MTV and TLG were noted at 1-week after VDA treatment between the control
and treated groups. Our results of vascular parameters are similar to previous studies that have demonstrated
that Ktrans and iAUC values changed within a few hours after the treatment with VDA [7–9,
20]. Both parameters reflect blood flow and permeability [3]. Discussion Tumor blood vessels are imma-
ture and highly permeable without supporting connective tissues, and VDA perturbs these
preexisting vessels, leading to collapse of tumor vasculature and subsequent necrosis [21]. PLOS ONE | https://doi.org/10.1371/journal.pone.0192706
February 13, 2018 8 / 14 Monitoring tumor response to the vascular disrupting agent using PET/MRI Fig 2. Serial measurement of (a) Ktrans, (b) iAUC, (c) SUVmax, (d) SUVmean, (e) MTV and (f) TLG at different
time points. is a significant change compared to the baseline. Ktrans: volume transfer coefficient
iAUC: initial area under the gadolinium concentration-time curve until 60 seconds
SUV: standardized uptake value
MTV: metabolic tumor volume
TLG: total lesion glycolysis. Fig 2. Serial measurement of (a) Ktrans, (b) iAUC, (c) SUVmax, (d) SUVmean, (e) MTV and (f) TLG at different
time points. is a significant change compared to the baseline. Ktrans: volume transfer coefficient
iAUC: initial area under the gadolinium concentration-time curve until 60 seconds
SUV: standardized uptake value
MTV: metabolic tumor volume
TLG: total lesion glycolysis. https://doi.org/10.1371/journal.pone.0192706.g002 Fig 2. Serial measurement of (a) Ktrans, (b) iAUC, (c) SUVmax, (d) SUVmean, (e) MTV and (f) TLG at different
time points. is a significant change compared to the baseline. Ktrans: volume transfer coefficient
iAUC i iti l
d
th
d li i
t ti
ti
til 60
d https://doi.org/10.1371/journal.pone.0192706.g002 Thus, a decrease of Ktrans and iAUC reflects a decrease in blood flow and permeability in a
tumor. Interestingly, serial measurement of Ktrans and iAUC in control group also showed
significant decrease at 1 week follow-up in our study. One of our hypothesis is that it is due to
the nature of VX2 tumors. VX2 tumor grows quickly in the first three week and showed necro-
sis and cysts at advanced stages [22]. In our study, at 1-week follow-up, control group as well
as treated group also showed areas of high signal intensity within tumors on T2 weighted
images, suggestive of necrosis (Fig 3). According to Moon et al. [23]’s study, Ktrans value of
complete necrotic area is lower than that of partial necrotic area, and Ktrans value of partial
necrotic area is lower than that of viable tumor area. It suggests that necrosis can affect the
value of Ktrans. Therefore, we assume that necrotic portion of tumors in control group at 1
week follow-up could cause the decrease of Ktrans. PLOS ONE | https://doi.org/10.1371/journal.pone.0192706
February 13, 2018 Monitoring tumor response to the vascular disrupting agent using PET/MRI expression of hypoxia-inducible factor-1 alpha, which involves in angiogenesis, glycolysis, and
microenvironment acidification of tumors [24]. Although VDA induces tumor necrosis, viable
tumors at the peripheral rim adapt to hypoxia by providing nutrients through newly formed
vessels and promote growth and proliferation. El-Emir et al. [25] demonstrated the effect of
combretastatin A-4 phosphate, one of VDA, in colorectal xenograft model and revealed that
hypoxia reaches its maximum 1 hour and is relieved and returned to normal after 24 hours. Increase of Ktrans reflects tumor resistance to VDA, recovering tumor perfusion and relapse of
tumors [24, 26]. Thus, rapid decrease of perfusion parameters might not be directly associated
with size reduction, as shown in our results. In addition to vascular parameters, we also demonstrated simultaneous changes of meta-
bolic parameters after the administration of CKD-516. Among PET-derived parameters, MTV
and TLG showed significant differences at 1-week follow-up between the two groups. Further-
more, an increase in MTV at 1-week follow-up in the treated group was smaller than in the
control group. MTV and TLG are potential biomarkers for predicting response to treatment as
well as for predicting prognosis in various solid tumors, including head and neck cancer, lung
cancer, esophageal cancer, cervical cancer, epithelial ovarian cancer, etc [27]. However, we
could not identify prognostic or predictive factors for tumor response in this experiment. None of the changes of parameters including MTV and TLG at 4 hours follow-up was corre-
lated with changes in tumor size at 1-week follow-up. This may be because the follow-up
period was too short to cause a change of size. To our knowledge, this is the first study that depicts multiparametric monitoring of
tumor response after the administration of VDA, using the novel imaging technique, PET/
MRI. Multimodality imaging is a rapidly growing field in clinical practice, but most are per-
formed on separate machines, which requires time-consuming processing and manipulating
a vast amount of imaging. Also, interpreting images side-by-side results in diagnostic inaccu-
racy [28]. Recently, the potential of simultaneous acquisition of in vivo functional informa-
tion with PET/MRI has been investigated [16]. We believe that simultaneity is one of the
advantages of PET/MR imaging in comparison with separate PET and MRI. Simultaneous
acquisition provides better alignment quality and is especially beneficial when temporally
varying multi-functional information from PET and MRI are acquired [29]. PLOS ONE | https://doi.org/10.1371/journal.pone.0192706
February 13, 2018 Discussion However, Ktrans and iAUC of baseline and
1 week follow-up did not show significant difference between the treated and control group. Significant differences of values and its changes at 4 hours are important issue in discriminat-
ing physiological response to therapy. Although histologic examination is not available in this study, there were several studies
which investigated the correlation of histologic parameters such as necrosis and microvessel
density with changes in DCE-MRI parameters. Necrosis can affect the value of Ktrans [23],
which would explain our results of changes of Ktrans. For the microvessel density, there is a
controversy whether it could be a validation biomarker for effect of VDA. Because many
counted microvessels collapsed 4 hours after CKD-516, microvessel density could not repre-
sent the functional vascular profile [9]. Despite the rapid shutdown of tumor vasculature, we could not identify the correlation
between changes of vascular parameters and tumor response. The potential mechanism is
tumor resistance to VDA. In hypoxic condition induced by VDA, tumors upregulate the 9 / 14 PLOS ONE | https://doi.org/10.1371/journal.pone.0192706
February 13, 2018 Monitoring tumor response to the vascular disrupting agent using PET/MRI Fig 3. Serial changes of PET/MRI parameters in control group. (a) Axial T2-weighted images demonstrated target tumors
with high signal intensity in bilateral paravertebral muscles. At 1-week follow-up, there were areas of high signal intensity
within tumors on T2 weighted images, suggestive of necrosis (arrows). (b) DCE-MRI, (c) Ktrans map, (d) iAUC, (e) PET images
and (f) fusion images. https://doi.org/10.1371/journal.pone.0192706.g003 Fig 3. Serial changes of PET/MRI parameters in control group. (a) Axial T2-weighted images demonstrated target tumors
with high signal intensity in bilateral paravertebral muscles. At 1-week follow-up, there were areas of high signal intensity
within tumors on T2 weighted images, suggestive of necrosis (arrows). (b) DCE-MRI, (c) Ktrans map, (d) iAUC, (e) PET images
and (f) fusion images. Fig 3. Serial changes of PET/MRI parameters in control group. (a) Axial T2-weighted images demonstrated target tumors
with high signal intensity in bilateral paravertebral muscles. At 1-week follow-up, there were areas of high signal intensity
within tumors on T2 weighted images, suggestive of necrosis (arrows). (b) DCE-MRI, (c) Ktrans map, (d) iAUC, (e) PET images
and (f) fusion images. https://doi.org/10.1371/journal.pone.0192706.g003 https://doi.org/10.1371/journal.pone.0192706.g003 10 / 14 PLOS ONE | https://doi.org/10.1371/journal.pone.0192706
February 13, 2018 Although, there
is no comparable data acquiring vascular and metabolic parameters separately and simulta-
neously, we believe that simultaneous PET/MR acquisition is suitable for monitoring multi
parametric changes after VDA treatment because they changes at different time points as
shown in our study. Our study has several limitations. First, we conducted baseline imaging 1 day before
the administration of CKD-516 considering the elimination of previously injected FDG. Because the VX2 tumor is highly aggressive and grows rapidly [30], the microenvironment
of the tumor would change within a day. Thus, changes of parameters at 4 hours after
the treatment may include not only the effect of drugs but also an intrinsic change of
tumor characteristics. Second, DCE-MRI parameters are measured with one axial cross-
sectional image, which might be less representative of the entire tumor. Third, it is not
validated whether early changes in vascular and metabolic parameters in PET/MRI after
the treatment with VDA are relevant to clinical outcome such as overall survival, so further
studies must be performed. Forth, the histopathologic examination or quantification is
not available to support the changes of vascular and metabolic of parameters. Although sev-
eral studies dealing with vascular parameters have provided the histologic correlations, fur-
ther studies on correlation between the histologic examination and PET parameters are
warranted. 11 / 14 PLOS ONE | https://doi.org/10.1371/journal.pone.0192706
February 13, 2018 Monitoring tumor response to the vascular disrupting agent using PET/MRI In conclusion, PET/MRI is able to monitor the change of vascular and metabolic parame-
ters at different time points simultaneously and confirmed that vascular changes precede the
metabolic changes by VDA, CKD-516. Conceptualization: Jin Mo Goo. Writing – original draft: Su Yeon Ahn, Jin Mo Goo. Writing – review & editing: Kyung Hee Lee, Seunggyun Ha, Jin Chul Paeng. Writing – review & editing: Kyung Hee Lee, Seunggyun Ha, Jin Chul Paeng. Writing – review & editing: Kyung Hee Lee, Seunggyun Ha, Jin Chul Paeng. 9.
Kim KW, Lee JM, Jeon YS, Lee IJ, Choi Y, Park J, et al. Vascular disrupting effect of CKD-516: preclini-
cal study using DCE-MRI. Invest New Drugs. 2013; 31:1097–106. https://doi.org/10.1007/s10637-012-
9915-6 PMID: 23299389. S1 File. Dataset for sequential changes in PET/MRI parameters of all rabbits.
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301. https://doi.org/10.1007/s00259-012-2280-z PMID: 23151913. 28. Pichler BJ, Kolb A, Nagele T, Schlemmer HP. PET/MRI: paving the way for the next generation of clini-
cal multimodality imaging applications. J Nucl Med. 2010; 51:333–6. https://doi.org/10.2967/jnumed. 109.061853 PMID: 20150252. 13 / 14 PLOS ONE | https://doi.org/10.1371/journal.pone.0192706
February 13, 2018 Monitoring tumor response to the vascular disrupting agent using PET/MRI Monitoring tumor response to the vascular disrupting agent using PET/MRI 14 / 14
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Investigation of Adding Microscopic Slide Glass Nano Particles on the Metallurgical Characterization and Mechanical Properties of Cast Aluminum 7075 Composites
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Advances in Science and Technology
Research Journal Received: 2023.03.21
Accepted: 2023.05.18
Published: 2023.06.01 Advances in Science and Technology Research Journal 2023, 17(3), 214–225
https://doi.org/10.12913/22998624/166282
ISSN 2299-8624, License CC-BY 4.0 ABSTRACT Metal matrix composite (MCC) exhibits significantly better properties, like hardness, low density, high tensile
strength, and good wear resistance compared to any alloy or other metals. In the present study, the effect of using
different proportions (2, 4, 8 and 10 wt.%) of microscopic slide glass nanoparticles (MSGNPs) on the properties
of Al-7075 alloy was investigated. The results of the experimental study of the metallurgical characterization and
mechanical properties of aluminum MMC that formed by stir casting method were obtained. Stir casting is a pro
cess of introducing a reinforcing material into a molten metal by stirring action. Also, the results of the aluminum
MMC were compared with those for the base alloy material. Optical microscopy, scanning electron microscope
(SEM), energy dispersive spectroscopy (EDS), and X-ray diffraction study (XRD) were carried out to analyze the
microstructure and the dispersion of the (MSGNPs) into the composite alloy specimens. Regarding the mechani
cal properties, the Rockwell hardness gradually increased when the addition of MSGNPs was raised from 0 to 10
wt.%. Additionally, there was a rise in the ultimate tensile strength, peaking at the incorporation rate of 4 wt.%
MSGNPs and thereafter, this strength declined. Therefore, the addition of microscopic slide glass nanoparticles to
the Al-7075 is virtuous to enhance the properties of this alloy for the engineering application. Keywords: microscopic slide glass nanoparticles, aluminum 7075, metal matrix composite. Investigation of Adding Microscopic Slide Glass Nano Particles
on the Metallurgical Characterization and Mechanical Properties
of Cast Aluminum 7075 Composites Haneen Lateef1*, Shukry H. Aghdeab1, Baha S. Mahdi1 1 Production Engineering and Metallurgy Department, University of Technology-Iraq, Baghdad, Iraq
* Corresponding author’s email: haneenlateef92@gmail.com INTRODUCTION Aluminum is an ecological agreeable materi
al because of its proficiency to be recycled as well
as its different uses proving the elevated alumi
num’s manufacture need. The solid wastes, like
the cullet (broken glasses) and the metals aren’t
water soluble and biodegradable. The recycling
of these solid wastes for making fresh products
could reduce the challenge it poses upon the natu
ral environment. Thus, the merely choice left is
to recycle them for getting rid of them from the
environment [3, 4]. The current investigation is participation to
the efforts aiming to develop the Aluminum-
based Matrix Composites (AMCs) with elevat
ed indices of performance at a decreased cost. AMCs are a class of Metal Matrix Composites
(MMCs) presently used in the industries of au
tomobile and aerospace. Aluminum is preferred
as a structural material in such applications due
to its light weight. And, among the series of alu
minum alloys, aluminum 7075 alloy possesses
numerous promising properties, such as high
stiffness, high toughness, high strength, and vir
tuous resistance to wear. Ceramic particulates
are supplemented to the aluminum base matrix
as reinforcement for fabricating AMCs, which
gave an enhanced strength [1, 2]. Glass has a predominant content of Si, so it
is one of the most widely used materials as a re
inforcing. [5]. On the Mohs scale, the oxide glass
has a hardness ranging from 5 to 7 with silica
glass having the highest hardness [6]. Therefore,
it can be used as a reinforcement that increases
the hardness of aluminum matrix composites. 214 Advances in Science and Technology Research Journal 2023, 17(3), 214–225 Investigators are vigorously experimenting and
discovering methods for strengthening the alu
minum and its alloys utilizing the particles of
ceramic.f were improved by raising the additive fraction. Also, it was noticed that the impact strength and
elongation were decreased; nevertheless, the in
vestigational analysis upon the tribological char
acteristics wasn’t assessed [20, 21]. i Numerous methods, like different casting
techniques, powder metallurgy, and mechanical
milling have been utilized in the AMCs formula
tion through the previous few decades. Amongst
the whole such methods, the method of melting
and casting is the highly favorable for the manu
facturing since it’s comparatively inexpensive and
facilitates the manufacture [7]. INTRODUCTION Besides its low
price, the method of stir casting provides a big
span of material as well as treating circumstances,
and also it can synthesize composites with up to
a (30%) reinforcement volume fraction with en
hanced bonding between the matrix of metal and
the reinforcements owing to the action of stirring. Regarding the all such advantages, the method of
stir casting was chosen, especially for such inves
tigation for the composites manufacture [8]. The literature clarifies that the aluminum al
loys and the microscopic slide glass nanoparticles
are commonly utilized in engineering. However,
no attempt has been made to stir casting AA7075/
MSGNP composites and explore the effect of
the weight percentage of MSGNPs on the physi
cal and mechanical properties of the compos
ites. The present study focuses on the evaluation
of the properties of AMCs fabrication with the
AA7075 as the matrix and the microscopic slide
glass nanoparticles (MSGNPs) sieved to 35 nm
at various percentages of weight fractions as the
reinforcements employing the technique of stir-
casting. It’s visualized that the additive’s fine
particulate reinforcement will perform better
performance than the coarse ones. The mechani
cal properties and the metallurgical features of
the specimens have been investigated utilizing
mechanical tests and SEM micrographs, respec
tively, thus raising the knowledge upon the waste
materials’ effect upon the AA7075 properties as
well as observing the AA7075/MSGNPs compos
ite properties. Utilization of SiC particulates utilization in
the AA7075 matrix manifested that the whole
mechanical properties evinced improved values,
with the exception of elongation to the failure
[9]. For the manufactured nano-composites em
ploying a stir-casting procedure via SiC carbide
nanoparticles (mechanically pulverized) into a
metal matrix of Al alloy, the outcomes of research
elucidated enhancements of 45% in ultimate ten
sile strength, 41% in yield strength, and 125%
in hardness, and also the compressive strength
enhancement from (311 MPa) to (603 MPa) at a
(5%) SiC inclusion [10]. The used SiC for rein
forcing the AA6061 illustrated the yield as well
as maximum tensile strength improvement with
(0-4 wt.%) inclusion, whereas the elongation was
noted for reducing increasingly as the content
augmented from (0) to (4%). And, it was seen that
the SiC is a virtuous strengthener in the alumi
num alloy [11]. MATERIALS The materials analyzed in the work are listed
below: •
Matrix material –Aluminum (AA7075) alloy, •
Matrix material –Aluminum (AA7075) alloy,
•
Reinforcement material – microscopic slide
glass nanoparticles (MSGNPs). •
Matrix material –Aluminum (AA7075) alloy,
•
Reinforcement material – microscopic slide
glass nanoparticles (MSGNPs). INTRODUCTION Also, other used additives in the
preceding investigations are TiC [12], WC [13],
Al2O3 [14], Si3N4 [15], and AlN [16], and the out
comes demonstrated that the supplement of such
reinforcements improved the Al and its alloys
performance. As well, the use of waste in rein
forcing and strengthening the aluminum alloys
has proved successful [17]. The use of wastes
like rice husk ash [18], and fly ash [19], and
glass, was searched. −90 μm was employed for
enhancing the Al scrap properties as well as the
outcome portrayed that the maximum compres
sive strength and the maximum tensile strength Processing of MMCs by stir casting (OES) test and the properties of base material
were taken as per ASM material data sheet. Stir casting is the simplest and least expen
sive way of making AMCs. This method includes
mechanically mixing the reinforcing particles
into a molten metal bath, and the resulting mix
ture is then transferred to a formed mold just be
fore it completely solidifies. The important issue
in this process is to get a good wetting between
the molten metal and the particle reinforcement. The composite specimen was made using stir
casting technique, whose experimental setup is
shown in Figure 2 [22], to ensure a more uniform Matrix material AA7075 alloy was used as the matrix material
because it is a precipitation hardened aluminum
alloy containing zinc, magnesium, copper, and
chromium as the main alloying elements, accord
ing to the chemical composition given in in the
Table 1 together with that for the standard alloy
for comparison purpose. It is strong and has good
mechanical properties, including strength com
parable to numerous steels, fatigue strength, and
corrosion resistance. The physical and mechani
cal properties of AA7075 are shown in the Table
2. The whole data of chemical analysis were
obtained via the optical emission spectroscopy 215 Advances in Science and Technology Research Journal 2023, 17(3), 214–225 Table 1. Chemical compositions of the used AA7075 aluminum alloy (wt.%) and standard alloy
Element
Mg
Fe
Ti
Si
Mn
Zn
Cu
Cr
Al
Wt.%
2.5
0.5
0.02
0.4
0.3
5.6
1.5
0.15
Balance
Standard alloy
2.1-2.9
0-05
0-0.2
0-0.4
0-0.3
5.1-6.1
1.2-2
0.18-0.28
Balance Table 2. Physical and mechanical properties of the
used AA7075 Table 2. Physical and mechanical properties of the
used AA7075 glass into smaller particles by a milling process
using a ball mill to obtain a powdery form. This
process was pursued by sieving process employ
ing a laboratory sieve shaker whose upper aper
ture was 2.38 mm. The fine glass powder sieved
to 35 nm was collected and then oven dried at
120°C for 24 h to remove the volatile content. Figure 1 reveals the SEM image of MSGNPs, and
the chemical composition of MSGNPs is depicted
in Table 3. The particle size, physical, mechani
cal, and thermal properties of MSGNPs are given
in Table 4. Table 2. Physical and mechanical properties of the
used AA7075
Property
Unit
Values
Density
gm/cm3
2.81
Hardness (HB 500)
HB
60
compressive strength
MPa
330
Ultimate tensile strength
MPa
200
Elongation
%
11
Modulus of elasticity
GPa
71.7
Poisson s of Ratio
--
0.33
Machinability
%
70
Melting temperature
°C
477-700
Shear modulus
GPa
26.9
Shear strength
MPa
331 Reinforcement metal Physical and mechanical properties of
MSGNPs
Property
Unit
Values
Particle size
nm
35
Density
g/cc
2.48
Hardness
Mohs
6
Light transmission, total solar
%
91.5
Reflective index at 546.07
Nm
1.517
Coefficient of expansion
°C
90.6 × 10-7
Poisson s of Ratio
--
0.2
Strain point
°C
494
Annealing temperature
°C
545
Softening temperature
°C
720 Composite preparation The proposed metal matrix composite was
fabricated at four different compositions, as listed
in Table 5, where the amount of added magne
sium was kept constant at 2%, and the added glass
proportion was varied from 0 to 10%. Thus, the
potential compositions of the novel composite are
listed in this table. In addition to that, 1wt.% of
flux was used to remove the slug. Figure 2. Stir casting setup [22] Figure 2. Stir casting setup [22] Reinforcement metal In this research, glass powder was used as the
major reinforcement in form of particles obtained
from a microscope slide. The particles were
washed thoroughly under the running water to re
move all impurities, after which they were dried
in the open air for one day. Then, these particles
were crushed and ground from microscopic-slide Figure 1. The SEM image of MSGNPs Figure 1. The SEM image of MSGNPs 216 Advances in Science and Technology Research Journal 2023, 17(3), 214–225 Table 3. Chemical composition of microscopic-slide gla
Element
SiO2
Al2O3
Fe2O3
Na2O
%
72.2
1.2
0.03
14.3
Table 4. Physical and mechanical properties of
MSGNPs
Property
Unit
Values
Particle size
nm
35
Density
g/cc
2.48
Hardness
Mohs
6
Light transmission, total solar
%
91.5
Reflective index at 546.07
Nm
1.517
Coefficient of expansion
°C
90.6 × 10-7
Poisson s of Ratio
--
0.2
Strain point
°C
494
Annealing temperature
°C
545
Softening temperature
°C
720
Figure 2. Stir casting setup [22] Table 3. Chemical composition of microscopic-slide glass nanoparticles MSGNP
Element
SiO2
Al2O3
Fe2O3
Na2O
CaO
K2O
MgO
SO3
TiO2
%
72.2
1.2
0.03
14.3
6.4
1.2
4.3
0.03
0.01 Table 4. Physical and mechanical properties of
MSGNPs
Property
Unit
Values
Particle size
nm
35
Density
g/cc
2.48
Hardness
Mohs
6
Light transmission, total solar
%
91.5
Reflective index at 546.07
Nm
1.517
Coefficient of expansion
°C
90.6 × 10-7
Poisson s of Ratio
--
0.2
Strain point
°C
494
Annealing temperature
°C
545
Softening temperature
°C
720 slurry at 720°C and stirred with a stainless steel
stirrer to avoid the agglomeration of powder and
to ensure its uniform distribution. This process
was done with the help of Argon gas that was
pumped through a side tube. The slurry tempera
ture was augmented to a totally liquid-state, and
the automatic stirring was continued to around
2 min with a (450 rpm) average stirring speed. Then, the molten composite was directly decant
ed into a steel mold (heated to 500°C) to prepare
specimens for the testing purpose. Table 4. Physical and mechanical properties of
MSGNPs Table 4. Reinforcement particles preheating Preheating the particulates is important to pre
vent the moisture from entering the particulate; oth
erwise, the moisture and gases can cause particulate
agglomeration. Before mixing with the aluminum
melt, the temperature was increased to 400°C for
one hour in a muffle furnace to improve the wet
tability and remove any type of other gases. Thus,
reducing the humidity of the particles increases the
surface energy and enhances its interaction with the
aluminum, as it produces more effective particles in
the aluminum matrix and less porosity in the casting
[23]. Care was taken to put each gram of powder in
foil before being introduced into the oven. Figure 2. Stir casting setup [22] dispersion of the reinforcing particles. The ma
trix alloy (AA7075) was initially superheated
at 700°C. After Al was completely melted, flux
powder was added as a melt aiding to remove
the slag from the molten. When the slag was re
moved, magnesium strips were added to the mol
ten, because Mg evaporates at a temperature of
450°C. The warmed glass particles of 2%, 4%,
8% and 10% (by weight) were slowly put into the Table 5: Concentrations of the composite material [%]
Sample
Al7075
Magnesium
Glass
1
100
0
0
2
96
2
2
3
94
2
4
4
90
2
8
5
88
2
10 Table 5: Concentrations of the composite material [%] 217 Advances in Science and Technology Research Journal 2023, 17(3), 214–225 Stirring speed were improved via raising the grit size of the re
inforcement particles of SiC. Therefore, the ef
fect of using various percentages of MSGNPs on
the mechanical properties (hardness and tensile
strength) of the Al7075/MSGNP composites has
been investigated in the present study. The stir casting method relies heavily on the
stirring speed parameter. The distribution of rein
forcing particles in molten metal is caused by a
vortex that is created as a result of the influence
by the speed of stirring. Therefore, it is evident
that the stirring increases the wettability. The rate
of stirring has a direct impact on the flow pattern
of molten metal [24]. High-speed rotary mechan
ical stirrers or ultrasonic stirrers can be used to
achieve effective mechanical stirring to improve
the wetting between the melted metal and the re
inforcing particles, which is considered to be a
crucial factor in the homogeneous distribution of
reinforcement particles in the molten metal [25]. Therefore, in the present work, the average used
stirring speed was selected to be 450 rpm and
continued for about 2 min. Experimental details The microstructure and mechanical proper
ties were considered for AA7075 reinforced with
0%, 2%, 4%, 8%, and 10% microscopic-slide
glass nanoparticles subjected based on the tests of
specimens. For each test, five samples from each
mix were assessed, and the mean outcome was
calculated for the analysis. Wetting element (magnesium) added to molten The wettability of aluminum melt with rein
forcement particles can be improved by adding
alloying elements, like calcium and magnesium. After the slag was removed from the molten,
magnesium strips were added to the molten to in
crease the wettability of liquid aluminum since it
lowers the surface tension. Magnesium does not
only increase the alloy’s strength but also causes
magnesium oxide to form when it reacts with
oxygen, which reduces the amount of blowholes
that appear in the casting [26]. Size of reinforcement The size of reinforcement, the distance be
tween the mold and the crucible, the pouring rate,
and the pouring temperature are all significant de
terminants in the quality of casting. To prevent
the gas entrapment, the pouring rate and tem
perature should be uniform [28]. The influence
of using different grit sizes of SiC upon the me
chanical properties of AMC (Al+4%Cu+5%Sic)
by stir casting process with changing the pouring
temperatures (700, 725, and 750°C) was studied
[29]. It was found that the mechanical properties
(impact strength, tensile strength, and hardness Mold preheating temperature A steel mold used for preparing the test speci
mens was heated to 500°C. Preheating this mold
is vital because it aids in the removal of trapped
gas from the slurry, which would otherwise cause
porosity [27]. Temperature for pouring Pouring temperature plays an important
role for improving the mechanical properties
of Aluminum-based metal matrix composites. Several researchers have studied the influence
of the pouring temperature on the mechanical
properties of AMCs using stir casting process. Investigated. The influence using three pouring
temperatures (800°C, 820°C and 840°C) of Al/
TiB2 as well as (730°C, 750°C and 770°C) of Al/
SiCp metal matrix composites manufactured em
ploying stir casting technique was investigated
[30]. It was found that a higher tensile and frac
ture strength were occurred at the MMCs of Al/
TiB2 in comparison with the Al/SiCp MMCs and
the aluminum base alloy. The maximum hardness
was reached at the pouring temperatures of 820°C
and 750°C in the MMCs of Al/TiB2 and Al/SiCp,
correspondingly. The influence of utilizing three
pouring temperatures whilst fabricating Alumi
num SiC metal matrix composites, with further
advantages of Mg and Cu by stir casting method
was studied [31]. It was concluded that the pour
ing temperature possesses a significant effect
upon the microstructure and mechanical conduct,
creating it as a vigorous factor for synthesizing
the Al/SiC/Mg/Cu composites. Thus, in the pres
ent work, the pouring temperature of the molten
composite was within the range of (700–720°C). Microstructural examination The distribution of glass particles into the
produced composites was assessed using micro
structural examination. It was intended to obtain
a fair MSGNPs distribution into the AA-7075
matrix. The microstructural characteristics of 218 Advances in Science and Technology Research Journal 2023, 17(3), 214–225 Hardness test The specimens of hardness test were prepared
by grinding with various grit sizes of grinding pa
per, followed by polishing with a polishing ma
chine to achieve mirror-like smooth surfaces. A
Rockwell hardness apparatus was used to conduct
the hardness test in accordance with ASTM E-18
standard, and the smooth-surfaced samples that
have already been prepared were indented for 10
seconds with a (100 kg) load. The value of hardness
was determined by measuring the average of four
readings that were recorded for each position on the
specimen surface. Rockwell hardness number was
calculated according to the following formula [33]. Tensile strength test the created composites were examined employ
ing an optical microscope. Using a JSM-7800F
extreme resolution analytical field emission
(SEM) fitted with EDX spectroscopy, the sur
face morphology as well as the elemental com
position was measured by (EDX) spectroscopy. The samples underwent a variety of grinding,
polishing, and gold coating procedures before
being prepared for the microscopic analysis, as
manifested in the Figure 3. In order to etch the
samples, Keller’s reagent (1.0 ml HF, 1.5 ml
HCl, 2.5 ml HNO3, and 95 ml water) was used. Tensile testing was performed in accordance
with standard (ASTM-E8) at the room tempera
ture using a machine of type WDW-200E with an
applied load capacity of (20 kN) and a strain rate
of 0.5 mm/min. The standard specimen used in
the tensile test is evinced in Figure 4. Analysis of SEM and EDX spectroscopy Figure 6 manifests the SEM image and EDX
patterns of 7075 alloy, and the EDX analysis was
carried out to examine the glass adsorption in the
aluminum matrix as well as any other elements
that might be present in the matrices. Figure 6a
views the SEM image of AA7075-8%wt.%SiO2
composite. Figure 6b displays the EDX analysis
demonstrating the increase of Si element in the
composites than that in the base material, con
firming the presence of Si. The alloying elements
of the AA7075 base matrix are represented by the
peaks for Na, C, O, Si and Al. The results of the
EDX study for all AA7075-SiO2 compositions
were similar; therefore, the 8% MSGNPs result
shown in Figure 5d was chosen to serve as an ex
ample of the oxidation and the presence of SiO2. In Table 7, the chemical composition of AA7075
is listed in accordance with the EDX. Microstructure Microstructural characterization of the com
posites was used to determine how the glass
particles were distributed inside the resulting
composites. Figure 5a illustrates the microstruc
ture of AA7075 alloy at 0 wt% microscopic-
slide glass nanoparticles, and the microstructure
of AA7075 portrayed a virtuous metallurgical
bonding among the Al particles. Figures from
5b to 5e depict the microstructure of AA7075 al
loy with different percentages of glass (2%, 4%,
8%, and 10%), and it has been observed that the
MSGNPs are found in the matrix at sites, such
as those on the grain boundaries and within the
grains. When the MSGNPs concentration was
increased to around 8% in figure 5d, the equally
scattered microscopic-slide glass nanoparticles
(MSGNPs) were found, and the open porosity de
creased in figure 5d compared to figure 5c when Chemical composition of Al7075/MSGNP The chemical composition for the fabricated
composite material is elucidated in the Table 6;
therefore the 8% was chosen, the metal matrix
composite contains aluminum, magnesium, iron
and silicon, and the last element, which increased
by the added glass, works to improve the tensile
strength, hardness, and resistance to pitting, mak
ing the composite material more resistant to cor
rosion and rupture at the elevated temperature. The sample was tested in the Central Organiza
tion for Standardization and Quality Control,
Baghdad, Iraq. XRD characterization The phases present in the composites formed
were identified using the analysis of X-Ray Dif
fraction (XRD). Samples were scanned in the
range from 10° to 90° at a speed of 2°/min while
the XRD was running at (40 kV) and (30 mA). The XRD examination of the materials was per
formed utilizing a back loading preparation tech
nique [32]. The materials were examined using
a PANalytical Empyrean diffractometer equipped
with a PIXcel detector, fixed slits, and Cu-Ka1 ra
diation with a Fe filter (= 1.540598 A). The used
software is called Crystal. Impact match was used
to identify the stage. RHN = E − 0.002 h
(1) (1) where: E – a constant relying upon the indenter
form (100 for the diamond indenter and
130 for the steel ball indenter), Figure 3. Microstructural examination: (a) grinding machine,
(b) polishing machine, and (c) gold coating machine
Figure 4. Tensile test specimen according to ASTM E8M-13a Figure 3. Microstructural examination: (a) grinding machine,
(b) polishing machine, and (c) gold coating machine Figure 3. Microstructural examination: (a) grinding machine,
(b) polishing machine, and (c) gold coating machine Figure 3. Microstructural examination: (a) grinding machine,
(b) polishing machine, and (c) gold coating machine (b) polishing machine, and (c) gold coating machine
Figure 4. Tensile test specimen according to ASTM E8M-13a Figure 4. Tensile test specimen according to ASTM E8M-13a Figure 4. Tensile test specimen according to ASTM E8M-13a 219 Advances in Science and Technology Research Journal 2023, 17(3), 214–225 h – the permanent increment in the pen
etration depth owing to the main load, in
mm. h – the permanent increment in the pen
etration depth owing to the main load, in
mm. the MSGNPs concentration was 4%. Such en
hancement was ascribed to the sufficiency of re
inforcement as well as the uniform distribution of
MSGNPs with an addition of 8 wt.%. However,
when the reinforcement (MSGNPs) content has
been increased to around 10 wt.%, Figure 5e, the
nano glass particles begin to agglomerate, creat
ing dark black regions in the AA7075 matrix. In
general, the MSGNPs have a fair distribution in
composites, which is attributable to the fact that
the quality of AMCs is controlled by the wetting
of glass particles in aluminum. There is a signifi
cant chemical reaction between the nano glass
powder and the aluminum particles. XRD Analysis Figure 7 evinces the XRD result, displaying
the various 2theta value-generated diffraction pat
terns of the phases. The phases in the composites
changed as a result of different two theta values. The phases being identified by the analysis of
XRD, which were described via their robust peak Table 6: The chemical composition of the fabricated AA7075/MSGNPs
Element
Wt.% composition
Element
Wt.% composition
Mg
1.11
Ni
0.01
Fe
0.20
Ti
0.02
Si
1.83
Ca
0.007
Cu
1.37
Ga
0.01
Mn
0.14
Zr
0.01
Zn
5.84
Al
89.2 220 Advances in Science and Technology Research Journal 2023, 17(3), 214–225 Figure 5. The microstructure image of Al 7075 MMCs (0%, 2%, 4%, 8%, and 10%):
(a) 0 wt.%, (b) 2 wt.%, (c) 4 wt.%, and (d) 8 wt.%, and (e) 10 wt.% MSGNPs at 200X Figure 5. The microstructure image of Al 7075 MMCs (0%, 2%, 4%, 8%, and 10%):
(a) 0 wt.%, (b) 2 wt.%, (c) 4 wt.%, and (d) 8 wt.%, and (e) 10 wt.% MSGNPs at 200X Figure 6. AA7075-8wt.% glass spectrum for: (a) The SEM micrographs of MMCs,
and (b) The EDX spectra result of MMCs Figure 6. AA7075-8wt.% glass spectrum for: (a) The SEM micrographs of MMCs,
and (b) The EDX spectra result of MMCs 221 Advances in Science and Technology Research Journal 2023, 17(3), 214–225 Table 7: Chemical composition of AA7075 by EDX
Element
Wt.% composition
Element
Wt.% composition
Mg
1.12
Ni
0.01
Fe
0.22
Ti
0.02
Si
1.83
Na
2.1
Cu
1.37
C
0.02
Mn
0.14
O
0.01
Zn
5.84
Al
Balance
Figure 7. The XRD analysis of MMCs Table 7: Chemical composition of AA7075 by EDX
Element
Wt.% composition
Element
Wt.% composition
Mg
1.12
Ni
0.01
Fe
0.22
Ti
0.02
Si
1.83
Na
2.1
Cu
1.37
C
0.02
Mn
0.14
O
0.01
Zn
5.84
Al
Balance Figure 7. The XRD analysis of MMCs agglomeration. When AMCs are stressed, the
particles act as agents that impede the mobility
of dislocation inside the matrix, restricting the
plastic flow. This might explain why AMCs’ ten
sile properties have improved, as well as other
mechanical qualities, such as stiffness and com
pressive strength [34]. With an increase in glass
of 10%, there was a small reduction into the
ultimate tensile strength compared to the value
achieved when adding 4%. Tensile strength Figure 8 elucidates the ultimate tensile
strength of the AA7075 specimens reinforced
with MSGNPs. The average values of tensile
strength for 0%, 2%, 4%, 8%, and 10% speci
mens were measured to be 50, 71.2, 89.16, 60,
and 58.3 MPa, respectively. The tensile strength
value of the created composite also improved, as
shown in this figure 7. The greatest ultimate ten
sile strength was found for the sample 3, which
includes 4% MSGNPs. As demonstrated in fig
ure 7, the ultimate tensile strength improves as
the proportion of MSGNPs increases. This is
owing to the high wettability of glass particles
with the aluminum melts. The bonding strength
between the aluminum alloy and the reinforc
ing particles is reduced due to the particles XRD Analysis However, 10% still
results in an improvement in yield, ultimate ten
sile strength, and the final tensile strength was
comparatively compared to the control. And, the
reason for this decrease is attributed to the ef
fect of dislocation multiplication, which leads to
the accumulation of dislocation impeding fur
ther deformation, and the result of this is up to
failure. intensities, certainly contained SiO2. Also, this
figure exhibits that the MSGNP and aluminum
are the two main components of the composite,
which is consistent with the optical microstruc
ture of the composite. Hardness analysis The Al7075/MSGNP composites were manu
factured using the stir casting technique, which
demonstrated a consistent dispersion of nano
glass particles at 8%. the porosity increased
with a proportional rise in the MSGNP. In
creased porosity can be linked to entrapped gas
and bubbles during the production process. 2. The microstructural analysis of Al-7075 re
vealed a good metallurgical bonding between
the Al particles and the microscopic slide glass
nano particles uniformly dispersed at the opti
mum addition of 8 wt.%. 3. As MSGNPs was raised, the composite’s hard
ness increased from 30 HRC to 60 HRC, while
the tensile strength having maximum value of
89 MPa at 4% of MSGNPs, where the base
metal was 50 MPa. 4. XRD manifested that the two main components
of the composite were aluminium and glass. CONCLUSIONS In this experiment, Al7075/MSGNP compos
ites were fabricated by stir casting with increas
ing volume percentage of reinforcement particles. Mechanical behaviour and microstructure of the
prepared AMMCs were analysed and obtained
the appropriate level of MSGNP reinforcement
required to produce Al-7075 composites. The
outcomes were concise below. Hardness analysis Figure 9 portrays that after adding the MS
GNP reinforcement to an aluminum alloy, the av
erage values of hardness for 0%, 2%, 4%, 8%,
and 10% specimens were measured to be 30, 35,
47, 61, and 60 RHC, respectively. The composite 222 Advances in Science and Technology Research Journal 2023, 17(3), 214–225 Figure 8. Ultimate tensile strength of aluminium MMC
Figure 9. Microhardness of aluminium MMC Figure 8. Ultimate tensile strength of aluminium MMC Figure 8. Ultimate tensile strength of aluminium MMC Figure 9. Microhardness of aluminium MMC Figure 9. Microhardness of aluminium MMC Figure 9. Microhardness of aluminium MMC with 8% MSGNP has the highest hardness val
ue in the present study. This means the hardness
of the composite material increases with the in
crease in the weight percentage of the reinforced
particles (MSGNP). This is due to the presence
of extremely hard ceramics (MSGNP) particles in
the aluminum alloy matrix, a stronger limit on the
localized matrix deformation during indentation
[35], and a homogenous distribution of MSGN
particles. Although the hardness is directly pro
portional to the weight percentage, a decrease in
the hardness was observed at 10% wt compared
value obtained at 8%wt of MSGNP, the reason is
due to nano glass particles begin to agglomerate
in the Al-7075 matrix. Thus, causing a decrease
in the hardness. 1. The Al7075/MSGNP composites were manu
factured using the stir casting technique, which
demonstrated a consistent dispersion of nano
glass particles at 8%. the porosity increased
with a proportional rise in the MSGNP. In
creased porosity can be linked to entrapped gas
and bubbles during the production process. with 8% MSGNP has the highest hardness val
ue in the present study. This means the hardness
of the composite material increases with the in
crease in the weight percentage of the reinforced
particles (MSGNP). This is due to the presence
of extremely hard ceramics (MSGNP) particles in
the aluminum alloy matrix, a stronger limit on the
localized matrix deformation during indentation
[35], and a homogenous distribution of MSGN
particles. Although the hardness is directly pro
portional to the weight percentage, a decrease in
the hardness was observed at 10% wt compared
value obtained at 8%wt of MSGNP, the reason is
due to nano glass particles begin to agglomerate
in the Al-7075 matrix. Thus, causing a decrease
in the hardness. 1. 2. Aynalem G.F., Processing methods and mechanical
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English
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The Evolving Role of Fetuin-A in Nonalcoholic Fatty Liver Disease: An Overview from Liver to the Heart
|
International journal of molecular sciences
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cc-by
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Citation: Dogru, T.; Kirik, A.; Gurel,
H.; Rizvi, A.A.; Rizzo, M.; Sonmez, A. The Evolving Role of Fetuin-A in
Nonalcoholic Fatty Liver Disease: An
Overview from Liver to the Heart. Int. J. Mol. Sci. 2021, 22, 6627. https://
doi.org/10.3390/ijms22126627 Academic Editor: Yoshio Fujitani Academic Editor: Yoshio Fujitani Keywords: NAFLD; Fetuin-A; CVD Keywords: NAFLD; Fetuin-A; CVD Received: 5 May 2021
Accepted: 17 June 2021
Published: 21 June 2021 Received: 5 May 2021
Accepted: 17 June 2021
Published: 21 June 2021 Review
The Evolving Role of Fetuin-A in Nonalcoholic Fatty Liver
Disease: An Overview from Liver to the Heart https://
doi.org/10.3390/ijms22126627
Academic Editor: Yoshio Fujitani
Received: 5 May 2021
Accepted: 17 June 2021
Published: 21 June 2021 Review
The Evolving Role of Fetuin-A in Nonalcoholic Fatty Liver
Disease: An Overview from Liver to the Heart li Kirik 2, Hasan Gurel 3
, Ali A. Rizvi 4,5
, Manfredi Rizzo 5,6
and Alper Sonmez 7,* Teoman Dogru 1, Ali Kirik 2, Hasan Gurel 3
, Ali A. Rizvi 4,5
, Manfredi Rizzo 5,6
and Alp 1
Department of Gastroenterology, Balikesir University Medical School, Cagis, Balikesir 10145, Turkey;
teomandogru@balikesir.edu.tr g
2
Department of Internal Medicine, Balikesir University Medical School, Cagis, Balikesir 10145, Turkey;
ali.kirik@balikesir.edu.tr 2
Department of Internal Medicine, Balikesir University Medical School, Cagis, Balikesir 10145, Turkey;
ali.kirik@balikesir.edu.tr 3
Department of Gastroenterology, Samsun Education and Research Hospital, University of Health Sciences,
Ilkadim, Samsun 55090, Turkey; hasan.gurel1@saglik.gov.tr y
g
g
g
4
Division of Endocrinology, Metabolism, and Lipids, Department of Medicine, Emory University,
Atlanta, GA 30322, USA; ali.abbas.rizvi@emory.edu y
5
Division of Endocrinology, Diabetes and Metabolism, Department of Medicine, University of South Carolina,
Columbia, SC 29208, USA; manfredi.rizzo@unipa.it p
6
Department of Health Promotion, Mother and Child Care, Internal Medicine and Medical Department of Health Promotion, Mother and Child Care, Internal Medicine and Medical
Specialties (PROMISE), University of Palermo, 90133 Palermo, Italy p
y
y
7
Department of Endocrinology and Metabolism, Gulhane Medical School, University of Health Sciences,
Ankara 06010, Turkey 7
Department of Endocrinology and Metabolism, Gulhane Medical School, University of Health Sciences,
A k
1
T
k *
Correspondence: yusufalper.sonmez@sbu.edu.tr Abstract: Nonalcoholic fatty liver disease (NAFLD) is strongly associated to the features of metabolic
syndrome which can progress to cirrhosis, liver failure and hepatocellular carcinoma. However,
the most common cause of mortality in people with NAFLD is not liver-related but stems from
atherosclerotic cardiovascular disease (CVD). The prevalence of NAFLD is on the rise, mainly
as a consequence of its close association with two major worldwide epidemics, obesity and type
2 diabetes (T2D). The exact pathogenesis of NAFLD and especially the mechanisms leading to
disease progression and CVD have not been completely elucidated. Human fetuin-A (alpha-2-
Heremans Schmid glycoprotein), a glycoprotein produced by the liver and abundantly secreted into
the circulation appears to play a role in insulin resistance, metabolic syndrome and inflammation. This review discusses the links between NAFLD and CVD by specifically focusing on fetuin-A’s
function in the pathogenesis of NAFLD and atherosclerotic CVD.
Citation: Dogru, T.; Kirik, A.; Gurel,
H.; Rizvi, A.A.; Rizzo, M.; Sonmez, A. The Evolving Role of Fetuin-A in
Nonalcoholic Fatty Liver Disease: An
Overview from Liver to the Heart. Int. J. Mol. Sci. 2021, 22, 6627. International Journal of
Molecular Sciences 1. Introduction On the other hand, several studies show
that atherogenic dyslipidemia, hyperinsulinemia and impaired liver glucose output are
the possible players in the interaction between NAFLD and CVD [24–26]. So far, the
pathogenesis of CVD in people with NAFLD is not clear and the search for the missing
link is still in progress. 2 of 12
cesses of hepatic lipid uptake, synthesis, oxidation and secretion is modified by the hepa-
tokines, which are proteins secreted by the liver. The alterations in the secretion and phos-
phorylation of hepatokines play a role in the pathogenesis of NAFLD [14,15]. CVD is the
most common cause of mortality in patients with NAFLD [16,17]. The focus of this article
is to explore the relation of NAFLD to increased CVD risk. A growing body of evidence suggests that NAFLD increases the risk of CVD, alt-
hough the exact pathogenesis is not clear [18–21]. Whether this is an independent effect of
NAFLD or is confounded by the shared risk factors of insulin resistance, diabetes mellitus,
dyslipidemia or hypertension is not clearly identified [16,17]. Prospective cohort studies
performed in patients with T2D reported the role of NAFLD as an independent predictor Fetuin-A, also known as alpha-2-Heremans-Schmid glycoprotein, is abundantly syn-
thesized and secreted by the liver. It is found in the extracellular space throughout the
body [27]. Fetuin-A is a multifaceted protein playing a role in various cellular pathways
including calcium and bone metabolism, insulin resistance and inflammation. The genes
encoding fetuin-A are involved in diseases like MetS and T2D [15]. It is an important in-
hibitor molecule of the insulin receptor tyrosine kinase in studies of insulin-resistant animal
model [28–30]. In addition, fetuin-A is thought to support the formation of insulin resis-
tance with its proinflammatory effect, apart from its direct effect on the insulin receptor [31]. It is thought that fetuin-A, which has a direct effect on insulin resistance, modulates for
inflammatory reactions and causes various metabolic alterations [32]. Consistent with these
findings, many epidemiologic studies showed that higher serum fetuin-A concentrations
were independently associated with T2D, insulin resistance, MetS and CVD [33–35]. On the
other hand, there are limited and conflicting data about the relationship between fetuin-A
and NAFLD. The current review focuses on the role of fetuin-A in the pathogenesis of
NAFLD and NAFLD-associated CVD risk (Figure 1). 1. Introduction NAFLD is the most common liver disorder, affecting 30–40% of the adult popula-
tion [1–3] and up to 95% of patients with obesity [4–6]. It is characterized by chronic
accumulation of fat in the liver (>5% of hepatocytes by histology) in the absence of sub-
stantial alcohol consumption or other causes of liver disease such as viral or autoimmune
hepatitis and medications. It refers to a spectrum of disorders ranging from benign simple
steatosis (SS) to potentially more rapidly progressive histological phenotype, such as non-
alcoholic steatohepatitis (NASH), which can progress to advanced fibrosis, cirrhosis and
hepatocellular carcinoma [7–9]. A large body of evidence indicates that NAFLD is closely
related to metabolic syndrome (MetS), and this association is mutual and bi-directional [10]. Insulin resistance seems to play a key role in the pathogenesis of NAFLD [11–13]. The
pathophysiologic mechanisms underlying NAFLD and its progression have not been com-
pletely elucidated so far. The interplay between the delivery of lipids to the liver and the
processes of hepatic lipid uptake, synthesis, oxidation and secretion is modified by the
hepatokines, which are proteins secreted by the liver. The alterations in the secretion and Publisher’s Note: MDPI stays neutral
with regard to jurisdictional claims in
published maps and institutional affil-
iations. Copyright: © 2021 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article
distributed
under
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terms
and
conditions of the Creative Commons
Attribution (CC BY) license (https://
creativecommons.org/licenses/by/
4.0/). https://www.mdpi.com/journal/ijms Int. J. Mol. Sci. 2021, 22, 6627. https://doi.org/10.3390/ijms22126627 Int. J. Mol. Sci. 2021, 22, 6627 2 of 12 phosphorylation of hepatokines play a role in the pathogenesis of NAFLD [14,15]. CVD
is the most common cause of mortality in patients with NAFLD [16,17]. The focus of this
article is to explore the relation of NAFLD to increased CVD risk. A growing body of evidence suggests that NAFLD increases the risk of CVD, although
the exact pathogenesis is not clear [18–21]. Whether this is an independent effect of
NAFLD or is confounded by the shared risk factors of insulin resistance, diabetes mellitus,
dyslipidemia or hypertension is not clearly identified [16,17]. Prospective cohort studies
performed in patients with T2D reported the role of NAFLD as an independent predictor
of the future risk of incident CVD [22,23]. 1. Introduction performed in patients with T2D reported the role of NAFLD as an independent predictor
of the future risk of incident CVD [22,23]. On the other hand, several studies show that
atherogenic dyslipidemia, hyperinsulinemia and impaired liver glucose output are the
possible players in the interaction between NAFLD and CVD [24–26]. So far, the patho-
genesis of CVD in people with NAFLD is not clear and the search for the missing link is
still in progress. Fetuin-A, also known as alpha-2-Heremans-Schmid glycoprotein, is abundantly syn-
thesized and secreted by the liver. It is found in the extracellular space throughout the
body [27]. Fetuin-A is a multifaceted protein playing a role in various cellular pathways
including calcium and bone metabolism, insulin resistance and inflammation. The genes
encoding fetuin-A are involved in diseases like MetS and T2D [15]. It is an important in-
hibitor molecule of the insulin receptor tyrosine kinase in studies of insulin-resistant ani-
mal model [28–30]. In addition, fetuin-A is thought to support the formation of insulin
resistance with its proinflammatory effect, apart from its direct effect on the insulin recep-
tor [31]. It is thought that fetuin-A, which has a direct effect on insulin resistance, modu-
lates for inflammatory reactions and causes various metabolic alterations [32]. Consistent
with these findings, many epidemiologic studies showed that higher serum fetuin-A con-
centrations were independently associated with T2D, insulin resistance, MetS and CVD
[33–35]. On the other hand, there are limited and conflicting data about the relationship
between fetuin-A and NAFLD. The current review focuses on the role of fetuin-A in the
pathogenesis of NAFLD and NAFLD-associated CVD risk (Figure 1) Figure 1. The pathophysiological relationship of fetuin-A with NAFLD and CVD. Increased fetuin-
A in plasma exerts an insulin pathway inhibitory effect by modulating the kinase reaction on the
Figure 1. The pathophysiological relationship of fetuin-A with NAFLD and CVD. Increased fetuin-A
in plasma exerts an insulin pathway inhibitory effect by modulating the kinase reaction on the
insulin-receptor tyrosine kinase; it leads to the development of insulin resistance in insulin-sensitive
tissues (muscle tissue, adipose tissue, liver, etc.) Furthermore, fetuin-A stimulates the release of
inflammatory cytokines through Toll-like receptor 4 (TLR4) and it causes systemic inflammation. On
the other hand, fetuin-A is an important calcium- and phosphate-binding protein and decreased
fetuin-A levels strongly correlate with excessive vascular calcification and heart failure. 2.1. Studies Investigating Fetuin-A in Subjects with Radiologically Diagnosed NAFLD In a prospective study, Lebensztejn et al. investigated circulating fetuin-A levels in
45 obese children with NAFLD diagnosed with abdominal ultrasonography (US). Serum
fetuin-A concentration was significantly higher in patients with NAFLD when compared
to 30 healthy controls. However, there was no association of fetuin-A with any other
parameters studied both in children with NAFLD and obese children without NAFLD [38]. Reinehr et al. studied the relationships between fetuin-A, NAFLD and MetS in a total of 36
obese and 14 lean children. The 12 obese children with NAFLD had significantly higher
fetuin-A levels than the 24 obese children without NAFLD and the 14 normal-weight
children. Fetuin-A levels were independent of age, pubertal stage and gender. Fetuin-A
correlated significantly with systolic and diastolic blood pressure, homeostasis model
assessment for insulin resistance (HOMA-IR) and high-density lipoprotein cholesterol
(HDL-C) [39]. In a cross-sectional case-control study, Ou HY et al. investigated the re-
lationship between serum fetuin-A levels and prediabetes in subjects with or without
ultrasound-diagnosed NAFLD. A total of 510 age- and sex-matched subjects with normal
glucose tolerance (NGT), impaired fasting glucose (IFG) and impaired glucose tolerance
(IGT) with or without NAFLD were recruited. Fetuin-A levels were significantly higher in
subjects with NAFLD when compared to subjects with NGT and prediabetes. Fetuin-A
levels were positively associated with postload 2 h glucose, body mass index (BMI), triglyc-
eride and HOMA-IR but negatively associated with age, HDL-C and adiponectin [40]. In a
population-based cross-sectional study, Huang et al. investigated the association of serum
fetuin-A with fatty liver index (FLI), the indicator of NAFLD in a total of 5219 middle-aged
and elderly participants. Fetuin-A was positively associated with FLI, alanine aminotrans-
ferase (ALT), aspartate aminotransferease (AST), and gamma-glutamyl transferase (GGT)
after adjustment for the confounding factors. Multivariate logistic regression analysis
showed that each one-standard-deviation increase in fetuin-A level was associated with
12%, 13%, and 10% increased risk of elevated FLI, ALT, and AST, respectively. Categori-
cal analysis showed that compared to the lowest quartile, the highest quartile of serum
fetuin-A was associated with a 35%, 50% and 33% increased risk of elevated FLI, ALT and
AST, respectively [41]. Thompson et al. investigated the relationship of blood fetuin-A
with fatty liver in 78 nonobese persons of African origin. Liver and abdominal fat were
evaluated using computed tomography (CT). No association was found between fetuin-A
and liver fat content [42]. Cui et al. 1. Introduction As a result,
fetuin-A protein shows a multifunctional effect in the MetS and it plays a key role in the pathogenesis
of NAFLD, T2D, obesity and CVD. Figure 1. The pathophysiological relationship of fetuin-A with NAFLD and CVD. Increased fetuin-
A in plasma exerts an insulin pathway inhibitory effect by modulating the kinase reaction on the
Figure 1. The pathophysiological relationship of fetuin-A with NAFLD and CVD. Increased fetuin-A
in plasma exerts an insulin pathway inhibitory effect by modulating the kinase reaction on the
insulin-receptor tyrosine kinase; it leads to the development of insulin resistance in insulin-sensitive
tissues (muscle tissue, adipose tissue, liver, etc.) Furthermore, fetuin-A stimulates the release of
inflammatory cytokines through Toll-like receptor 4 (TLR4) and it causes systemic inflammation. On
the other hand, fetuin-A is an important calcium- and phosphate-binding protein and decreased
fetuin-A levels strongly correlate with excessive vascular calcification and heart failure. As a result,
fetuin-A protein shows a multifunctional effect in the MetS and it plays a key role in the pathogenesis
of NAFLD, T2D, obesity and CVD. Int. J. Mol. Sci. 2021, 22, 6627 3 of 12 2. The Role of Fetuin-A in NAFLD; from Hepatic Steatosis to Inflammation
and Fibrosis NAFLD occurs due to increased uptake and deposition of lipids in the hepatocytes
which surpasses the rate of mitochondrial fatty acid oxidation and triglyceride secretion
as the very low density lipoprotein particles. The disruption of the balance between lipid
uptake and secretion is related to the impaired synthesis and secretion of hepatokines,
leading to the development of insulin resistance, glucose intolerance and inflammation [14]. Fetuin-A, the major protein of the alpha-2-globulin fraction in serum electrophoresis, is
among the hepatokines highly related to the pathogenesis of NAFLD and its metabolic com-
plications [15]. Fetuin-A expression is significantly increased in subjects with NAFLD [35,36]
and decrease after the improvement of NAFLD [37]. However, there are conflicting data re-
garding the relationship of circulating fetuin-A with NAFLD and other metabolic disorders. 2.1. Studies Investigating Fetuin-A in Subjects with Radiologically Diagnosed NAFLD investigated the association of serum fetuin-A with
NAFLD in 79 Chinese subjects. NAFLD was diagnosed and graded based on abdominal
US. Serum fetuin-A level in NAFLD patients was significantly lower than that the controls. In addition, compared with controls, mild NAFLD and moderate NAFLD had significantly
lower concentration of fetuin-A, while fetuin-A level tended to increase slightly with the
severity of NAFLD [43]. Studies investigating fetuin-A in subjects with radiologically
diagnosed NAFLD are given in Table 1. Int. J. Mol. Sci. 2021, 22, 6627 4 of 12 Table 1. Studies investigating circulating fetuin-A levels in subjects with NAFLD. Author (Reference)
Study Population
Diagnosis of
NAFLD
Fetuin-A Levels in
NAFLD (Compared to
Controls)
Association of
Fetuin-A with NAFLD
Lebensztejn et al. [38]
45 obese children with NAFLD
and 30 controls
US
Higher
None
Reinehr et al. [39]
36 obese children with NAFLD
and 14 controls
US
Higher
None
Ou HY et al. [40]
255 subjects with NAFLD and
255 controls
US
Higher
None
Huang et al. [41]
5219 middle-aged and
elderly subjects
US
NE
Positive
Cui et al. [43]
79 subjects with NAFLD and
79 controls
US
Lower
Positive
Sato et al. [44]
295 subjects with NAFLD
US
NE
Negative
Thompson et al. [42]
78 subjects with NAFLD
CT
NE
None
Yilmaz et al. [45]
99 subjects with NAFLD and
75 controls
Liver bx
Higher
Positive
Haukeland et al. [46]
111 subjects with NAFLD and
131 controls
Liver bx
Higher
Positive
Ou et al. [47]
90 subjects with NAFLD and
90 controls
Liver bx
Higher
NE
Celebi et al. [48]
105 subjects with NAFLD
Liver bx
NE
None
Kahraman et al. [49]
108 morbidly obese subjects
with NAFLD and 10 controls
Liver bx
NS
Negative
Rametta et al. [50]
137 subjects with NAFLD and
260 controls
Liver bx
Higher
Positive
Von Loeffelholz et al. [51]
58 subjects with NAFLD
Liver bx
NE
Positive
Pampanini et al. [52]
160 subjects with NAFLD and
23 controls
US and Liver bx
Higher
None
NAFLD: nonalcoholic fatty liver disease, Bx: biopsy, NE: not evaluated, NS: no significant difference, US: ultrasonography, CT: computed
tomography. Table 1. Studies investigating circulating fetuin-A levels in subjects with NAFLD. 2.2. Studies Investigating Fetuin-A in Histologically Diagnosed Subjects with NAFLD Yilmaz et al. investigated circulating fetuin-A in 99 patients with biopsy-proven
NAFLD and 75 age- and gender-matched healthy controls. 2.1. Studies Investigating Fetuin-A in Subjects with Radiologically Diagnosed NAFLD Fetuin-A serum concentrations were not different between NAFLD patients (or
subgroups) and controls. In liver tissue, expression of fetuin-A was significantly elevated in
SS compared with controls. The NASH group exhibited an even stronger increased mRNA
expression than SS patients. In correlation analysis, a significant positive association of
fetuin-A with liver mRNA was observed. In addition, a significant negative association
was found for the fibrosis stage and serum fetuin-A [49]. In a cross-sectional study, Rametta
et al. evaluated the causal relationship between fatty liver and serum fetuin-A levels in
137 patients with histologically diagnosed NAFLD and 260 healthy subjects. They also
analyzed whether the inherited PNPLA3 I148M variant modulates fetuin-A. Fetuin-A
levels were higher in NAFLD patients than in the controls, independently of age, sex,
BMI, insulin resistance, dyslipidemia, adiponectin, PNPLA3 I148M and ALT levels. In
NAFLD patients, fetuin-A was associated with steatosis severity and MetS, but not with
hepatic inflammation. At multivariate analysis, fetuin-A levels were associated with BMI,
triglycerides, hyperglycemia and PNPLA3 I148M independently also of age, sex and ALT
levels [50]. In their study, Von Loeffelholz et al. studied the role of fetuin-A in 58 patients
with NAFLD/NASH undergoing open abdominal surgery. Compared to non-NAFLD sub-
jects, fetuin-A levels were found to be significantly increased in subjects with NAFLD and
NASH. In addition, fetuin-A correlated with the extent liver steatosis and hepatocellular
ballooning degeneration [51]. However, on multivariate analysis, only hepatic steatosis
was related with fetuin-A. In their study, Peter et al. reported in 55 NAFLD subjects, hepatic
mRNA expression of fetuin-A associated positively with liver triglyceride content and
HOMA-IR. In 220 subjects who underwent precise metabolic phenotyping, circulating
fetuin-A was associated positively with liver fat content, and negatively with insulin sensi-
tivity measured with the oral glucose tolerance test (OGTT) and during the euglycemic,
hyperinsulinemic clamp [53]. Pampanini et al. studied fetuin-A levels in 81 obese children
with NAFLD diagnosed by biopsy, 79 obese children with NAFLD defined by liver US
and 23 lean subjects. Obese children with NAFLD detected by US had significantly higher
fetuin-A levels compared to those with normal liver. In obese children who underwent
liver biopsy, no significant differences were detected in fetuin-A levels between subject with
NASH and those with SS [52]. Studies investigating fetuin-A in histologically diagnosed
NAFLD are listed in Table 1. 2.1. Studies Investigating Fetuin-A in Subjects with Radiologically Diagnosed NAFLD Fetuin-A levels were signifi-
cantly higher in subjects with NAFLD when compared to the controls. Multivariate analysis
revealed a significant association of fetuin-A with insulin resistance as assessed by the
HOMA-IR and the liver fibrosis. Moreover, the relationship between fetuin-A and fibrosis
remained statistically significant even after adjustment for potential confounders, including
the insulin resistance [45]. In a randomized controlled trial, Haukeland et al. investigated
111 subjects with histologically proven NAFLD. One hundred and thirty-one healthy sub-
jects served as healthy controls. The main outcome variables were circulating levels of
fetuin-A according to the presence of NAFLD, hepatic gene expression of fetuin-A and
key enzymes in glucose and lipid metabolism. Fetuin-A levels were significantly higher
in patients with NAFLD compared to controls. NAFLD was a significant predictor of
elevated fetuin-A independent of BMI, age, sex, fasting glucose and triglycerides. Hepatic
fetuin-A mRNA levels correlated significantly with hepatic mRNA levels of key enzymes
in lipid (sterol regulatory element-binding protein-1c, carnitine palmitoyltransferase-1)
and glucose (phosphoenol pyruvate kinase-1, glucose-6-phosphatase) metabolism [46]. Ou
et al. aimed to investigate the levels of fetuin-A in 180 age- and sex-matched subjects with 5 of 12 Int. J. Mol. Sci. 2021, 22, 6627 NGT, NAFLD, newly diagnosed T2D (NDT2D) and NDT2D with NAFLD. They observed
that fetuin-A levels were significantly higher in NDT2D with NAFLD as compared with
NDT2D or NAFLD subjects [47]. In our previous study, we investigated circulating concen-
trations of fetuin-A and its possible association with hepatic and systemic inflammation in
a total of 105 nondiabetic male subjects with biopsy-proven NAFLD (NASH, n = 86 and SS,
n = 19). Plasma levels of fetuin-A and markers of inflammation [high-sensitivity C-reactive
protein (hsCRP), tumor necrosis factor alpha (TNF-α), interleukin-6 (IL-6) and adiponectin]
were determined. In multivariate analysis, fetuin-A was negatively correlated with age,
however, there was no association between fetuin-A and BMI, waist circumference (WC),
glucose, insulin, HOMA-IR, lipid parameters, and inflammatory markers. In addition, no
significant association was observed between fetuin-A and histological findings includ-
ing liver fibrosis [48]. Kahraman et al. examined the hepatic fetuin-A expression in 108
morbidly obese NAFLD patients (50 with NASH and 58 with SS) undergoing bariatric
surgery. A total of 10 subjects were used as healthy controls. In addition, primary human
hepatocytes were treated with non-esterified fatty acid (NEFA) to investigate changes in
fetuin-A expression. Treatment of hepatocytes with NEFA led to up-regulation of fetuin-A
expression. 2.1. Studies Investigating Fetuin-A in Subjects with Radiologically Diagnosed NAFLD It is clear that there are significant differences regarding the relationship of circu-
lating fetuin-A with NAFLD in literature. We suggest some possible explanations for
the conflicting findings of these studies. First, when the abovementioned studies were
analyzed separately, it can be seen that some of the subjects with NAFLD had metabolic
confounders such as morbid obesity, T2D, hypertension and MetS. It has been reported that
circulating levels of fetuin-A may be easily affected by these metabolic risk factors [31,46]. In addition, some of these patients were also using medications related to these metabolic Int. J. Mol. Sci. 2021, 22, 6627 6 of 12 problems [49,54]. It is well known that certain agents such as metformin, pioglitazone and
niacin may affect the fetuin-A concentrations. Therefore, data regarding the association
of fetuin-A with NAFLD might be affected by these confounders. Liver biopsy is the
gold standard in diagnosing NAFLD, and the most accurate tool for the determination
and grading of inflammation and fibrosis. However, in the abovementioned studies, the
diagnosis of NAFLD was mostly performed by US or CT, and not all subjects received a
liver biopsy. Therefore, the use of the various techniques for diagnosing of NAFLD may
also contribute to contradictory results regarding the association of fetuin-A with liver
inflammation and fibrosis. Circulating fetuin-A has been inversely associated with age in
subjects with NAFLD. Although it has been hypothesized that low levels of fetuin-A may
be the result of decreased hepatic fetuin-A production in older people, the exact mecha-
nism responsible for this relationship remains unclear [44,47,48]. Thus, age may be another
factor that influences the levels of circulating fetuin-A in NAFLD. The different methods of
measuring the concentrations of circulating fetuin-A (such as different ELISA kits) might be
another reason for discrepant findings in various studies [45,48,49]. Another reason might
be the polymorphisms of the fetuin-A gene which cause variations in the serum assays [55]. On the other hand, as recently reported, genetic factors may also affect the fetuin-A con-
centrations independently from inflammation [53]. Lastly, other possible confounders that
may affect the association of fetuin-A with NAFLD might include arbitrary definitions
of “apparently healthy” controls and different definitions regarding the “normal levels of
serum aminotransferases”. 2.1. Studies Investigating Fetuin-A in Subjects with Radiologically Diagnosed NAFLD In light of these data, we think that it is still uncertain whether
fetuin-A directly contributes to the development of NAFLD, whether elevated blood levels
reflect the presence or severity of NAFLD, or if other unidentified factors simultaneously
influence both. Going forward, research should investigate whether fetuin-A has a role
in the progression of liver inflammation and fibrosis that may occur during the natural
history of NAFLD. Further studies are also needed to search the modulation of fetuin-A as
a potential therapeutic strategy in this clinically relevant condition. 3. The Relationship of Fetuin-A with NAFLD Associated CVD Risk The metabolic or cardiovascular risk is not only related to the
serum levels of fetuin-A, but also to such factors such as renal function, concomitant
disorders, medications and the type of serum assay used [15]. It is noteworthy that serum
levels of fetuin-A may not clearly reflect the functionality of this hepatokine. Fetuin-A
presents in circulation in two different forms in a soluble form in plasma as well as in
colloidal fractions [71]. Phosphorylation of fetuin-A is needed for it be effective on insulin
receptors [28,29]. Fetuin-A is fully phosphorylated only when it is in colloidal fractions [30]. Thus, simply measuring serum levels of fetuin-A may not be an accurate way to assess
its functionality. y
CVD is the most common cause of mortality in individuals with NAFLD. The lat-
ter is associated with an increased risk of incident CVD that is independent of the risk
conferred by traditional cardiovascular risk factors (e.g., dyslipidemia, T2D and smok-
ing) [13]. However, there is limited and conflicting data regarding the role of fetuin-A in
the pathogenesis of increased CVD risk in NAFLD. Sato et al. investigated the relationship
between circulating fetuin-A levels and liver/vessel fibrosis-related markers (platelet count,
NAFLD fibrosis score and carotid intima–media thickness (cIMT)) in 295 subjects with
NAFLD. Multivariate analysis revealed that fetuin-A concentration was a significant and
independent determinant of platelet count, NAFLD fibrosis score and mean cIMT [44]. Our group investigated the relationship of circulating fetuin-A with markers of endothe-
lial dysfunction (asymmetric dimethyl arginine (ADMA) and adiponectin) and cIMT in
115 patients with biopsy-confirmed NAFLD and 74 age-matched healthy subjects. Fetuin-
A and ADMA levels were significantly higher and adiponectin level was significantly
lower in the NAFLD group than the control group. In addition, the NAFLD group had
greater cIMT levels than the controls. However, no difference was observed for fetuin-A,
ADMA, adiponectin and cIMT between the two groups when the findings were adjusted
for glucose, lipids and HOMA-IR index. In univariate analysis, fetuin-A was found to be
positively associated with triglyceride, HOMA-IR, ADMA and cIMT values, and negatively
associated with HDL-C and adiponectin. Multiple linear regression analysis showed that
fetuin-A was independently associated with ADMA and cIMT levels [72]. In contrast,
Ballestri et al. investigated fetuin-A levels in 70 subjects who underwent elective coronary
angiography for suspected coronary artery disease (CAD) in a prospective, cross-sectional
study. 3. The Relationship of Fetuin-A with NAFLD Associated CVD Risk 3. The Relationship of Fetuin-A with NAFLD Associated CVD Risk The relationship of fetuin-A with CVD is Janus-faced. Both low and high fetuin-A
levels have been reported to increase the risk of CVD-related mortality and morbidity [15]. Fetuin-A is a significant regulator of calcium, phosphate and bone metabolism, and a
prominent inhibitor of extraosseous calcification [56,57]. Low serum fetuin-A levels are
found in patients with chronic kidney disease (CKD), which in turn is associated with
arterial stiffness and increased all-cause and cardiovascular mortality [58,59]. On the other
hand, high fetuin-A levels may also increase the risk of CVD through effects on insulin
resistance and subclinical inflammation [15]. As NAFLD is a significant risk factor for the
development of MetS and T2D [60], the relation of fetuin-A to CVD is likely to be stronger
in the presence of NAFLD [61]. Few studies have investigated the association of circulating fetuin-A levels and risk of
CVD prospectively. In a study of 3810 individuals older than 65 years, it was reported that
higher fetuin-A levels were associated with lower risk of CVD among participants without
T2D [62]. These findings are similar to the previous Rancho Bernardo Study that showed
higher fetuin-A levels were associated with lower risk of CVD mortality in participants
without T2D [63]. On the other hand, in the Nurses’ Health Study, higher fetuin-A levels
were associated with lower CVD risk when CRP levels were high, but no association was
observed among participants with lower CRP levels [64]. Moreover, we and others have
demonstrated that fetuin-A level is inversely associated with calcification scores, CV events
and mortality from CVD in subjects with CKD [65,66]. However, contradictory to these
findings, it was reported that subjects with high fetuin-A levels had a 4-fold increased
risk for myocardial infarction and ischemic stroke compared to subjects with low fetuin-A
levels [67]. In addition, individuals with previous myocardial infarction had significantly
higher concentrations of fetuin-A than healthy controls [68]. A positive association of Int. J. Mol. Sci. 2021, 22, 6627 7 of 12 fetuin-A with arterial stiffness and increased intima–media thickness has been observed in
healthy subjects and in patients with normal renal function [68–70]. fetuin-A with arterial stiffness and increased intima–media thickness has been observed in
healthy subjects and in patients with normal renal function [68–70]. In view of the above data, it seems that the relationship between circulating fetuin-A
and CVD is complicated. 3. The Relationship of Fetuin-A with NAFLD Associated CVD Risk Twenty-four patients had no CAD (9 with and 15 without NAFLD) and 46 had CAD
(20 with and 26 without NAFLD). Fetuin-A was significantly lower in patients with CAD
compared to those without CAD. In addition, at multivariate analysis, they reported high
fetuin-A levels to be independently associated with NAFLD and a lower risk of CAD [73]. Finally, Nascimbeni et al. investigated fetuin-A values and their relationship with symp-
tomatic atherosclerosis in 149 patients with coronary artery disease (CAD) and peripheral
arterial disease (PAD). Fetuin-A levels were positively associated with both CAD and
NAFLD [74]. Studies investigating the relationship of fetuin-A with NAFLD-associated
CVD risk are given in Table 2. g
In light of these results, although the reason for the inconsistencies in the obtained
data is not clear, various explanations have been suggested. It has been suggested that as
a result of the detrimental effect of fetuin-A on insulin resistance and plasma lipid levels,
it aggravates CVD in the initial period of the disease. However, in the later stages of the
CVD, high fetuin-A levels have been observed to have a positive effect by preventing
vascular calcification [75]. Therefore, it has been shown that the deficiency of fetuin-
A, an inhibitor of vascular calcification, develops severe soft tissue and intravascular
calcifications in animal studies with fetuin-A knockout mice [76]. On the other hand, as
mentioned above, we observed a significant negative association of fetuin-A with HDL-
C and adiponectin concentrations in our NAFLD cohort [72]. Since elevated levels of
adiponectin and HDL-C are known to protect against atherosclerosis, we propose that the Int. J. Mol. Sci. 2021, 22, 6627 8 of 12 8 of 12 modulation of adiponectin and/or HDL-C by fetuin-A might be an important contributor
in the pathogenesis of atherosclerosis and CVD in NAFLD. These data suggest that the
relationship of fetuin-A with CVD is more complex than previously thought. Longitudinal
studies with a greater number of subjects are needed to determine the contributory effects
of fetuin-A on CVD risk in NAFLD. Table 2. Studies investigating the relationship of fetuin-A with CVD in subjects with and without NAFLD. Author (Reference)
Study Population
Study Design
CVD Risk
Assessment
Association of Fetuin-A
with CVD Risk
Jensen et al. [62]
3810 older subjects
Prospective
CVD event or CVD
death
Negative
Laughlin et al. [63]
1688 women
Prospective
CVD event or CVD
death
Negative
Sun et al. 3. The Relationship of Fetuin-A with NAFLD Associated CVD Risk [64]
466 patients with IS
Prospective
IS
None
Caglar et al. [65]
198 nondiabetic patients
with CKD
Retrospective
FMD and cIMT
Positive
Zhao et al. [75]
241 patients with T2D
Retrospective
Coronary
angiography
Positive
Weikert et al. [67]
227 patients with MI and
168 patients with IS
Prospective
MI or IS
Positive
Vörös et al. [68]
171 patients with CVD and
81 controls
Cross-sectional
Biomarkers of ED
Positive
Mori et al. [70]
141 healthy subjects
Cross-sectional
Carotid arterial
stiffness
Positive
Sato et al. [44]
295 subjects with NAFLD
Cross-sectional
cIMT
Negative
Dogru et al. [72]
115 subjects with NAFLD
Cross-sectional
Biomarkers of ED
and cIMT
Positive
Ballestri et al. [73]
70 subjects with and
without CVD
Cross-sectional
Coronary
angiography
Negative
Nascimbeni et al. [74]
45 patients with CVD and
104 patients with PAD
Cross-sectional
CAD PAD
Positive
NAFLD: nonalcoholic fatty liver disease, CVD: cardiovascular disease, IS: ischemic stroke, CKD: chronic kidney disease, FMD: flow
mediated dilation, cIMT: carotid intima–media thickness, T2D: type 2 diabetes, MI: myocardial infarction, ED: endothelial dysfunction,
PAD: peripheral artery disease, CAD: coronary artery disease. able 2. Studies investigating the relationship of fetuin-A with CVD in subjects with and without NAFLD. NAFLD: nonalcoholic fatty liver disease, CVD: cardiovascular disease, IS: ischemic stroke, CKD: chronic kidney disease, FMD: flow
mediated dilation, cIMT: carotid intima–media thickness, T2D: type 2 diabetes, MI: myocardial infarction, ED: endothelial dysfunction,
PAD: peripheral artery disease, CAD: coronary artery disease. Institutional Review Board Statement: Not applicable. Informed Consent Statement: Not applicable. Data Availability Statement: Not applicable. Data Availability Statement: Not applicable. Conflicts of Interest: The authors declare that the current research was conducted independently, in
the absence of any commercial or financial relationships that could be construed as a potential conflict
of interest. Rizzo is a full-time Professor of Internal Medicine at University of Palermo, Italy and
currently Medical Director, Novo Nordisk Eastern Europe; he has given lectures, received honoraria
and research support, and participated in conferences, advisory boards and clinical trials sponsored
by many pharmaceutical companies including Amgen, AstraZeneca, Boehringer Ingelheim, Kowa,
Eli Lilly, Meda, Mylan, Merck Sharp & Dohme, Novo Nordisk, Novartis, Roche Diagnostics, Sanofi
and Servier. Sonmez has received honoraria and research support, and participated in conferences,
advisory boards and clinical trials sponsored by many pharmaceutical companies including As-
traZeneca, Novo Nordisk, Novartis, Eli Lilly and Sanofi. None of the above had any role in this
article, which has been written independently, without any financial or professional help, and reflects
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A
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t l 16. Bril, F.; Cusi, K. Nonalcoholic fatty liver disease. Endocrinol. Metab. Clin. N. Am. 2016, 45, 765–781. 16. Bril, F.; Cusi, K. Nonalcoholic fatty liver disease. Endocrinol. Metab. Clin. N. Am. 2016, 45, 765–781. [CrossRef] [PubMed]
17. Armstrong, M.; Adams, L.A.; Canbay, A.; Syn, W.K. Extrahepatic complications of nonalcoholic fatty liver disease. 1.
Li, J.; Zou, B.; Yeo, Y.H.; Feng, Y.; Xie, X.; Lee, D.H.; Fujii, H.; Wu, Y.; Kam, L.Y.; Ji, F.; et al. Prevalence, incidence, and outcome of
nonalcoholic fatty liver disease in Asia, 1999–2019: A systematic review and meta-analysis. Lancet Gastroenterol. Hepatol. 2019, 4,
389–398. [CrossRef] 4. Conclusions NAFLD, considered a hepatic manifestation of MetS, independently increases the
risk of developing both T2D and CVD. Hepatokines that are mainly secreted from the
liver are known to affect glucose and lipid metabolism. They can also modulate inflam-
matory processes that in turn mediate the atherosclerotic process. Fetuin-A is a novel
hepatokine and a pleotropic molecule with diverse and well-established proinflammatory
and anti-inflammatory properties impacting a multitude of systems. As a proinflammatory
compound, fetuin-A contributes to insulin resistance and is an important link between liver,
adipose tissue and skeletal muscle. Although the significance of fetuin-A in NAFLD has
been increasingly recognized, its pathogenetic role is still not completely understood. The
relationship between circulating fetuin-A and CVD risk associated with NAFLD appears
to be complex and in need of further research. Author Contributions: T.D., A.S.—conceived the original idea; A.K., H.G.—performed the patient
data collection; T.D., A.K.—analyzed the data and designed the tables and figures; T.D., A.K., A.S.—
designed the study; T.D., A.S., M.R., A.A.R.—wrote the manuscript. All authors have read and
agreed to the published version of the manuscript. Funding: This research received no external fundings. Funding: This research received no external fundings. 9 of 12 Int. J. Mol. Sci. 2021, 22, 6627 Institutional Review Board Statement: Not applicable. References Hepatology
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Кардиоваскулярная терапия и профилактика. 2022;21(10):3446. doi:10.15829/1728-8800-2022-3446
ISSN 1728-8800 (Print)
ISSN 2619-0125 (Online) Кардиоваскулярная терапия и профилактика. 2022;21(10):3446. doi:10.15829/1728-8800-2022-3446
ISSN 1728-8800 (Print)
ISSN 2619-0125 (Online) ISSN 2619-0125 (Online) g
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[Иванова А. А. — врач-кардиолог, м.н.с. отдела фундаментальных и прикладных аспектов ожирения, ORCID: 0000-0002-2812-959X, Макогон Н. В.* — врач-кардиолог, м.н.с. отдела фундаментальных
и прикладных аспектов ожирения, ORCID: 0000-0003-3288-7315]. РОПНИЗ — Российское общество профилактики неинфекционных заболеваний. *Автор, ответственный за переписку (Corresponding author):
e-mail: nikimakogon@gmail.com
[Иванова А. А. — врач-кардиолог, м.н.с. отдела фундаментальных и прикладных аспектов ожирения, ORCID: 0000-0002-2812-959X, Макогон Н. В.* — врач-кардиолог, м.н.с. отдела фундаментальных
и прикладных аспектов ожирения, ORCID: 0000-0003-3288-7315]. Role of professional associations in the development of a young specialist Role of professional associations in the development of a young specialist
Ivanova A. A., Makogon N. V. 1National Medical Research Center for Therapy and Preventive Medicine. Moscow; 2Russian Society for the Prevention of Non-Communicable
Diseases (ROPNIZ). Moscow, Russia Role of professional associations in the development of a young specialist
Ivanova A. A., Makogon N. V. 1National Medical Research Center for Therapy and Preventive Medicine. Moscow; 2Russian Society for the Prevention of Non-Communicable
Diseases (ROPNIZ). Moscow, Russia Role of professional associations in the development of a young specialist
Ivanova A. A., Makogon N. V. 1National Medical Research Center for Therapy and Preventive Medicine. Moscow; 2Russian Society for the Prevention of Non-Communicable
Diseases (ROPNIZ). Moscow, Russia
Keywords: professional medical associations, new generation, youth
sections. Relationships and Activities: none. Ivanova A. A. ORCID: 0000-0002-2812-959X, Makogon N. V.* ORCID:
0000-0003-3288-7315. *Corresponding author: nikimakogon@gmail com
Received: 18/10-2022
Accepted: 20/10-2022
For citation: Ivanova A. A., Makogon N. V. Role of professional asso
ciations in the development of a young specialist. Cardiovascular
Therapy and Prevention. 2022;21(10):3446. doi:10.15829/1728-8800-
2022-3446. EDN RQHMBU Keywords: professional medical associations, new generation, youth
sections. Received: 18/10-2022
Accepted: 20/10-2022 For citation: Ivanova A. A., Makogon N. V. Role of professional asso
ciations in the development of a young specialist. Cardiovascular
Therapy and Prevention. 2022;21(10):3446. doi:10.15829/1728-8800-
2022-3446. EDN RQHMBU e-mail: nikimakogon@gmail.com Роль профессиональных сообществ в становлении
молодого специалиста Иванова А. А.1,2, Макогон Н. В.1,2 ГБУ "Национальный медицинский исследовательский центр терапии и профилактической медицины" Минздрава
осква; 2Российское общество профилактики неинфекционных заболеваний (РОПНИЗ). Москва, Россия 1ФГБУ "Национальный медицинский исследовательский центр терапии и профилакт ФГБУ Национальный медицинский исследовательский центр терапии и профилактической медицины Ми
Москва; 2Российское общество профилактики неинфекционных заболеваний (РОПНИЗ). Москва, Россия Москва; 2Российское общество профилактики неинфекционных заболеваний (РОПН Москва; 2Российское общество профилактики неинфекционных заболеваний (РОПНИЗ). Москва, Росс Ключевые слова: профессиональные медицинские сообщества,
новое поколение, молодежные секции. Отношения и деятельность: нет. Поступила 18/10-2022
Принята к публикации 20/10-2022 Ключевые слова: профессиональные медицинские сообщества,
новое поколение, молодежные секции. Отношения и деятельность: нет. Поступила 18/10-2022
Принята к публикации 20/10-2022 Для цитирования: Иванова А. А., Макогон Н. В. Роль профес-
сиональных сообществ в становлении молодого специалиста. Кардиоваскулярная терапия и профилактика. 2022;21(10):3446. doi:10.15829/1728-8800-2022-3446. EDN RQHMBU [Иванова А. А. — врач-кардиолог, м.н.с. отдела фундаментальных и прикладных аспектов ожирения, ORCID: 0000-0002-2812-959X, Макогон Н. В.* — врач-кардиолог, м
и прикладных аспектов ожирения, ORCID: 0000-0003-3288-7315]. *Автор, ответственный за переписку (Corresponding author):
e-mail: nikimakogon@gmail.com
[Иванова А. А. — врач-кардиолог, м.н.с. отдела фундаментальных и прикладных аспект
и прикладных аспектов ожирения, ORCID: 0000-0003-3288-7315]. • координацию деятельности специалистов по
всей стране [1]. По окончании программ профессионального
медицинского образования молодой специалист
приступает к трудовой деятельности на своем пер-
вом рабочем месте. Значительная часть выпускни-
ков программ специалитета становится врачами
первичного звена здравоохранения в амбулаторно-
поликлинических учреждениях, где научные под-
разделения часто отсутствуют. Определенная часть
выпускников становятся врачами частных меди-
цинских учреждений, где в большинстве случаев
также отсутствуют научные подразделения. На дан-
ном этапе у молодого специалиста формируется за-
прос на самореализацию, ответ на который способ-
ны дать профессиональные медицинские ассоциа-
ции, а именно, их молодежные подразделения [7]. Образовательная деятельность профессио-
нальных ассоциаций является важнейшим звеном
системы непрерывного профессионального об-
разования, играет решающую роль в поддержании
квалификации специалистов. Примером этому мо-
гут служить многочисленные программы, которые
разрабатываются ведущими университетами стра-
ны совместно с профессиональными сообществами
[2]. В большинстве случаев образовательные меро-
приятия носят односторонний характер: эксперты
делятся своими знаниями, а менее опытные моло-
дые специалисты выступают в роли слушателей. Очевидно, что для активной работы в составе про-
фессионального сообщества необходимо обладать
клиническим и научным опытом, быть экспертом
в определенной области. У молодых специалистов
также есть потребность в самореализации, пред-
ставлении собственных научных данных, практике
публичных выступлений, однако недостаток опы-
та, неуверенность в себе или отсутствие профес-
сиональных связей со старшими коллегами могут
препятствовать их развитию в профессиональных
ассоциациях. ции, а именно, их молодежные подразделения [7]. В большинстве крупных профессиональных
медицинских сообществ созданы рабочие группы,
секции и общества, которые ведут активную дея-
тельность, направленную на поддержку молодых
специалистов. Например, в составе Российского
общества профилактики неинфекционных заболе-
ваний (РОПНИЗ) функционирует секция "Специ-
алисты нового поколения", основной целью кото-
рой является формирование комфортной рабочей
и научной среды для молодых специалистов здра-
воохранения, обеспечение возможностей для само-
реализации молодежи со всей страны при помощи
очного и дистанционного взаимодействия с ис-
пользованием инновационных подходов [8]. Сре-
ди ключевых задач секции — содействие молодым
специалистам в планировании, организации и про-
ведении научных исследований и лечебной работы,
организация образовательных мероприятий для
обмена знаниями и опытом, обеспечение взаимо-
действия начинающих специалистов и экспертов
в различных областях медицины. Работа в секции
открывает возможности для взаимодействия с дру-
гими секциями РОПНИЗ, закладывает фундамент
для построения личного бренда врача, что обеспе-
чивает закономерный личностный и профессио
нальный рост [9]. В течение 2021 и 2022гг члены
секции представляли РОПНИЗ на всероссийских
конференциях и конгрессах, выступали организа-
торами ряда молодежных мероприятий и симпо-
зиумов, активно взаимодействовали с молодежны-
ми ассоциациями других профессиональных со-
обществ, становились победителями и призерами
всероссийских конкурсов и олимпиад. Российское общество профилактики неинфекционных заболеваний Российское общество профилактики неинфекционных заболеваний • координацию деятельности специалистов по
всей стране [1]. Relationships and Activities: none. Ivanova A. A. ORCID: 0000-0002-2812-959X, Makogon N. V.* ORCID:
0000-0003-3288-7315. *Corresponding author: nikimakogon@gmail.com РОПНИЗ — Российское общество профилактики неинфекционных заболеваний. важнейших функций профессиональных обществ
можно выделить: Профессиональные медицинские сообщества
объединяют специалистов различных областей ме-
дицины, ведущих активную научную и практиче-
скую деятельность. Под эгидой всероссийских об-
ществ и ассоциаций проводятся крупнейшие кон-
грессы, съезды и конференции, где специалисты
имеют возможность представлять результаты своих
исследований, обмениваться опытом, укреплять
международное и межрегиональное взаимодействие. Подобные сообщества возглавляют эксперты и ве-
дущие специалисты своих областей знаний. Среди • образовательную деятельность, • образовательную деятельность, • образовательную деятельность, • организацию тематических мероприятий, • формирование рабочих групп и секций, зани-
мающихся узкоспециализированными проблемами, • разработку клинических рекомендаций, • выявление проблем системы здравоохранения
и предложение их решений, • внедрение новых программ медицинской по-
мощи, 92 • координацию деятельности специалистов по
всей стране [1]. Члены сек-
ции "Специалисты нового поколения" отмечают,
что членство в секции открывает возможности для
реализации собственных идей, позволяет получить
опыт публичных выступлений, уникальный орга-
низаторский, научный и клинический опыт. П
ф В настоящее время медицинское образование
представляет собой непрерывный континуум, яв-
ляясь частью которого будущий специалист полу-
чает доступ к неограниченным информационным
ресурсам, а также имеет возможность восполь-
зоваться поддержкой той организации, где он по-
лучает образование [3]. В большинстве ведущих
медицинских университетов страны учреждены
многочисленные студенческие организации с раз-
нообразным функционалом. Студенческие науч-
ные общества занимаются организацией студенче-
ских научных кружков, молодежных конференций,
фестивалей и съездов, профкомы обучающихся
координируют работу общественных, культурных
и спортивных секций и сообществ, налаживают
взаимодействие профессорско-преподавательского
состава и учащихся [4]. Студенты имеют возмож-
ность обратиться за поддержкой к членам студен-
ческих организаций или вступить в их состав и по-
лучить первый опыт научной деятельности, подго-
товить свои первые публичные выступления. Более
того, во время обучения студенты могут присоеди-
ниться к работе клинических и научных подразде-
лений своего высшего учебного заведения. В рам-
ках внеучебной деятельности совершенствуются
и так называемые "soft skills" — коммуникативные
навыки, навыки презентации докладов, взаимодей-
ствие с коллегами и пациентами [5]. Во время обу
чения в ординатуре и аспирантуре молодым специ-
алистам также оказывается помощь и содействие со
стороны организации, в которой они получают об-
разование [6]. Профессиональные компетенции, которые по-
лучают участники молодежных подразделений ме-
дицинских ассоциаций, способствуют более бы-
строму профессиональному росту и всестороннему 93 Кардиоваскулярная терапия и профилактика. 2022;21 дежные секции и рабочие группы всероссийских
медицинских обществ являются важнейшим звеном
системы, которая направлена на повышение про-
фессионального уровня молодых врачей и ученых. развитию. Накопленный опыт и взаимодействие
с ведущими специалистами интересующей области
знаний обеспечивают эффективную интеграцию
в профессиональную среду. Таким образом, моло- Литература/References 1. Astanina SYu. Issues of reforming professional me-dical
education in Russia. Cardiovascular Therapy and Prevention. 2022;21(1):3192. (In Russ.) Астанина С. Ю. Вопросы рефор-
мирования профессионального медицинского образова-
ния в России. Кардиоваскулярная терапия и профилактика. 2022;21(1):3192. doi:10.15829/1728-8800-2022-3192. 6. Artyukhina AI, Chizhova VM, Chumakov VI. Personalized
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Чумаков В. И. Персонализированный подход к педагогиче-
ской подготовке кадров высшей квалификации в ординатуре
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мон Е. В., Шляхто Е. В. Вопросы качества подготовки меди-
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профессиональных экспертов. Российский кардиологический
журнал. 2016;(9):41-5. doi:10.15829/1560-4071-2016-9-41-45. 2. Sirotkina OV, Ishchuk TN, Parmon EV Shlyakhto EV. Issues
of medical specialists education. foundation of institute of
independent professional experts. Russian Journal of Cardiology. 2016;(9):41-5. (In Russ.) Сироткина О. В., Ищук Т. Н., Пар
мон Е. В., Шляхто Е. В. Вопросы качества подготовки меди-
цинских специалистов. Формирование института независимых
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журнал. 2016;(9):41-5. doi:10.15829/1560-4071-2016-9-41-45. 7. Vertkin AL. Polyclinics physician education — in the center of
a problematic triangle. Cardiovascular Therapy and Prevention. 2017;16(2):4-7. (In Russ.) Верткин А. Л. Образование поли
клинического врача — в центре треугольника проблем. Кардиоваскулярная терапия и профилактика. 2017;16(2):4-7. doi:10.15829/1728-8800-2017-2-4-7. 3. Astanina SYu. Innovations in medical education — advanta
ges and risks. Cardiovascular Therapy and Prevention. 2022;21(3S):3359. (In Russ.) Астанина С. Ю. Инновации в ме-
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нологии в кардиологии. Перспективы развития. Российский
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Пармон Е. В. и др. Совершенствование непрерывного ме-
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<i>The Turing Test as Interactive Proof</i>
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Noûs/Noûs
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cc-by
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Permanent link http://nrs.harvard.edu/urn-3:HUL.InstRepos:2027203 Terms of Use This article was downloaded from Harvard University’s DASH repository, and is made available
under the terms and conditions applicable to Other Posted Material, as set forth at http://
nrs.harvard.edu/urn-3:HUL.InstRepos:dash.current.terms-of-use#LAA Citation Stuart M. Shieber. The Turing test as interactive proof. Noûs, 41(4):686-713, December 2007. The
definitive version is available at www.blackwell-synergy.com. Published Version http://dx.doi.org/10.1111/j.1468-0068.2007.00636.x 1I take the term “sensible sequence of verbal responses” directly from Block to mean whatever
criterion of human indistinguishability that the judge in a Turing Test is verifying. It may be
that the term is not entirely felicitous for that purpose. For instance, there may be sequences of
responses that are sensible in the informal sense of the term, yet reveal the non-human character of
the generator by being stilted in some way. Under certain circumstances, even clearly nonsensical
responses are appropriate in a Turing Test, as in Block’s example of a judge requesting “Let’s see
you talk nonsense.” (Block, 1981, pages 19–20) Nonetheless, for consistency hereafter I will follow
Block in using the phrase, with the request that the reader interpret it in the intended manner. Share Your Story The Harvard community has made this article openly available. Please share how this access benefits you. Submit a story . The Harvard community has made this article openly available. Please share how this access benefits you. Submit a story . Accessibility THE TURING TEST AS INTERACTIVE PROOF STUART M. SHIEBER 1. Introduction For
instance, the underlying idea could be implemented in a simpler form, in which
a judge merely stipulates whether or not a machine has exhibited human-level
behavior, except that without some sort of forced choice, a gaming of the test
would be possible. Indeed, Turing presents this simpler more direct form in a little
known 1952 BBC interview in which he describes the test as follows: The idea of the test is that the machine has to pretend to be a
man, by answering questions put to it, and it will only pass if
the pretence is reasonably convincing. . . . We had better suppose
that each jury has to judge quite a number of times, and that
sometimes they really are dealing with a man and not a machine. That will prevent them saying “It must be a machine” every time
without proper consideration. (Newman, Turing, Jefferson, and
Braithwaite, 1952) Here, he describes the point of the Test directly in the first sentence, and makes
clear that the comparison issue (whether through repeated trials, as described in
this selection, or one-on-one, as in the original paper) is an expedient to make the
forced choice a real one. Thus, at base, the Turing Test is a test based on the idea that ability
to produce sensible verbal behavior is an indication of intelligence. The syllogism
that underlies the appropriateness of the Turing Test as a criterion for intelligence
proceeds something like this: Premise 1: If an agent passes a Turing Test, then it produces a sensible
sequence of verbal responses to a sequence of verbal stimuli. Premise 2: If an agent produces a sensible sequence of verbal responses to a
sequence of verbal stimuli, then it is intelligent. Premise 2: If an agent produces a sensible sequence of verbal responses to a
sequence of verbal stimuli, then it is intelligent. q
,
g
Conclusion: Therefore, if an agent passes a Turing Test, then it is intelligent. Block refers to a premise such as the second one as the “Turing Test
conception of intelligence”, and his (and others’) repudiation of the Turing Test
as a criterion for intelligence is based on a denial of this premise. 1.2. The Conceptual Basis for Turing-Test Denial. 1. Introduction In this paper,
I attempt to reconcile two mutually contradictory
but well-founded attitudes towards the Turing Test, Alan Turing’s proposed
replacement for the question “Can machines think?”
On the one hand is the
attitude that has become philosophical conventional wisdom, viz., that the Turing
Test is hopelessly flawed as a sufficient condition for intelligence, while on the
other hand is the overwhelming sense that were a machine to pass a real live
full-fledged Turing Test, it would be a sign of nothing but our orneriness to deny
it the attribution of intelligence. The arguments against the sufficiency of the Turing Test for determining
intelligence rely on showing that some extra conditions are logically necessary for
intelligence beyond the behavioral properties exhibited by an agent under a Turing
Test. Therefore, it cannot follow logically from passing a Turing Test that the
agent is intelligent. I will argue that these extra conditions can be revealed by
the Turing Test, so long as we allow a very slight weakening of the criterion from
one of logical proof to one of statistical proof under weak realizability assumptions. Crucially, this weakening is so slight as to make no conceivable difference from a
practical standpoint. Thus, the Gordian knot between the two opposing views of
the sufficiency of the Turing Test can be cut. 1.1. The Essence of the Turing Test. The Turing Test is, at its heart, a test
of the adequacy of an agent’s verbal behavior. Block (1981) characterizes it as a
test of the ability to “produce a sensible sequence of verbal responses to a sequence
of verbal stimuli”.1 Turing’s original presentation of the Test is couched in terms
of an imitation game between two entities, a person and a machine, with the goal
of seeing if in repeated forced choices a judge can do no better than chance at
determining which is which on the basis of verbal interactions with each. Much
of this setup (and the preliminaries that he introduces regarding a gender-based
version of the game) are incidental to the underlying goal, which is to determine if
a machine has human-level verbal behavior. The introduction of the human confederate and the forced choice merely
serve to make more clear and operational what constitutes “sensibility” of the 1 STUART M. SHIEBER 2 machine’s responses, but there are other ways to achieve the same goal. THE TURING TEST AS INTERACTIVE PROOF 3 Now imagine a scenario in which Peter has been getting straight A’s in
school and just got two 800’s on the SAT. Victoria says “Oh, Peter’s not really
intelligent; he’s just faking it to get into a good school.” Intelligence in this sense
(which is not, of course, the sense that the Turing Test is meant to test for) is
clearly like fluency in Italian, which is why the statement sounds ridiculous. Finally, imagine Victoria takes you to a Searlian “Italian room” where
you can insert slips of paper with Italian written on them through a slot in the
door and get back other slips of paper with perfectly fluent Italian responses,
sometimes clever, sometimes amusing, always insightful; the room is a brilliant
conversationalist. After an hour or so of this, you’re quite impressed, but Victoria,
ever the spoilsport, says “Oh, that room isn’t intelligent; it’s just faking it.” If you
think that sounds silly prima facie, you can see why the Turing-Test deniers’ view is
so counter-intuitive. They seem to think that one could have the symptoms without
the germ. Different philosophers diagnose this necessary causal agent differently. Searle (1980) thinks the germ is intentionality (though Dennett (1987) objects that
Searle thinks it’s consciousness); Davidson (1990) thinks it’s semantics; Gunderson
(1964) thinks it’s flexibility of behavior; Block (1981) thinks it’s “richness of
information processing”. But all (except Dennett) agree that intelligence is not
testable in purely behavioral terms. On the other hand, many find it hard to shake the intuition that
a Turing-Test-passing entity must surely be intelligent. To such Turing-Test
approvers, like Dennett (1985), no germ is necessary. “[T]he Turing test, conceived
as he conceived it, is (as he thought) plenty strong enough as a test of thinking. I defy anyone to improve upon it.” This intuition is quite strong. Nonetheless,
intuitions may be wrong and a little philosophy might be just the thing to lead us
to accept previously counterintuitive conclusions, for instance, that sentences like
“that machine is just faking intelligence” aren’t ridiculous at all. 1.3. The
Argument
Against
Behaviorist
Tests. In “Psychologism and
Behaviorism”, Block (1981) presents what I take to be the strongest argument to
date of the inadequacy of the Turing Test as a criterion of intelligence. 1. Introduction Philosophers of mind
fall, roughly speaking, into two camps, the Turing-Test deniers, who think that
passing a Turing Test cannot be used as a sufficient condition for intelligence, and
the Turing-Test approvers, who think that it can. Turing-Test deniers think of
intelligence like a bad cold. It has a hidden cause, a germ. Victoria can say of her
friend Peter without sounding ridiculous things like “Oh, Peter’s not really sick;
he’s just faking it, to get out of school.” Sickness can’t be cashed out in terms of
some disposition to exhibit sickness symptoms (coughing, complaining of stomach
pain, staying in bed). There has to be a germ. )
Turing-Test approvers, on the other hand, think of intelligence like being
fluent in Italian. (In fact, they think it’s exactly like being fluent in Italian.) Imagine
you’ve been talking for an hour with Victoria’s friend Pietro using perfect Italian. Now suppose Victoria were to say, “Oh, Pietro’s not really fluent in Italian; he’s
just faking it, to be eligible for an Italians-only scholarship.” Such a statement
is clearly silly. One can’t exhibit the symptoms of being fluent in Italian and be
faking, missing some essential “germ” of fluency; the symptoms are the fluency. THE TURING TEST AS INTERACTIVE PROOF THE TURING TEST AS INTERACTIVE PROOF Through a
series of thought experiments, Block argues that no conception of intelligence that
relies solely on external behavior (as manifested in Premise 2) can be sufficient;
some (at least minimal) internal conditions on the means by which the behavior is
generated must be included. In particular, he faults the Turing Test for failing to
demonstrate not only the fact of producing “a sensible sequence of verbal responses
to a sequence of verbal stimuli” but of a general capacity for such behavior,
and further, one derived from sufficient “richness of information processing”; the
antecedent in Premise 2 is too weak. Because I think this is the strongest argument
against the Turing Test as a sufficient condition of intelligence, it is the argument
that I address in this paper. I argue that the Turing Test can in fact provide such
a demonstration, thereby vitiating Block’s argument against the sufficiency of the
Turing Test as a test of intelligence. Searle, in his “Minds, Brains, and Programs” (1980), presents a different
argument against the Turing Test, his “Chinese room”. This argument is based on
an article of faith that is too woolly to argue against, namely, that no formal system
that merely manipulates symbols could bear intelligence. But Block doesn’t go that STUART M. SHIEBER 4 far,2 and indeed has argued against Searle on this point (Block, 1980). Block is
saying something simpler, that it is logically possible that some thing that not only
is merely a symbol manipulator but also is a trivial one could pass the Turing Test. Furthermore, it not only can pass the Turing Test, but has a general capacity to
do so. But if Block is right, why would we be inclined to attribute intelligence to
a machine that passed a Turing Test? far,2 and indeed has argued against Searle on this point (Block, 1980). Block is
saying something simpler, that it is logically possible that some thing that not only
is merely a symbol manipulator but also is a trivial one could pass the Turing Test. Furthermore, it not only can pass the Turing Test, but has a general capacity to
do so. But if Block is right, why would we be inclined to attribute intelligence to
a machine that passed a Turing Test? THE TURING TEST AS INTERACTIVE PROOF It seems to me that Block is right in principle:
Such a machine is
conceptually possible; hence the Turing Test is not logically sufficient as a condition
of intelligence. Let us suppose this view is correct and, as Block argues, some further
criterion is needed regarding the manner in which the machine works. Some further
criterion is needed, but how much of a criterion is that, and can the Turing Test
test for it? Although Block calls this further internal property ‘nonbehavioral’, I
will argue that the mere behavior of passing a Turing Test can reveal the property. Borrowing an idea from theoretical computer science, I argue that the Turing Test
can be viewed as an interactive proof not only of the fact of sensible verbal behavior,
but of a capacity to generate sensible verbal behavior, and to do so “in the right
way”. Assuming some extraordinarily weak conditions on physical realizability,
any Turing-Test-passing agent must possess a sufficient property to vitiate Block’s
argument. In summary, Block’s arguments are not sufficient to negate the Turing
Test as a criterion of intelligence, at least under a very slight weakening of the
notion of ‘criterion’. The argument I present does not demonstrate that the Turing Test is
sufficient as a criterion for intelligence. It merely shows that Block’s argument
against its sufficiency fails. However, some other argument might hold; this
possibility remains open. 2At the end of “Psychologism and Behaviorism”, Block presents claims that an agent that exhibits
intelligent behavior on the basis of exact emulation of the neurological processes of a person would
arguably still not be intelligent. 2. Motivation Before I argue for the resurrection of the Turing Test as a sufficient
condition of intelligence, it merits mention of why such an argument is worth
undertaking in the first place. Discussions such as the present one (and Block’s)
for or against the Turing Test as a definition or necessary or sufficient condition for 2At the end of “Psychologism and Behaviorism”, Block presents claims that an agent that exhibits
intelligent behavior on the basis of exact emulation of the neurological processes of a person would
arguably still not be intelligent. Consider a device that simulates you by using a theory of your psychological
processes. It is a robot that looks and acts as you would in any stimulus
situation. Instead of a brain it has a computer equipped with a description of
your psychological mechanisms. You receive a certain input, cogitate about it,
and emit a certain output. If your robot doppelganger receives that input, a
transducer converts the input into a description of the input. The computer
uses its description of your cognitive mechanisms to deduce the product of
your cogitations; it then transmits a description of your output to a mechanism
that causes the robot body to execute the output. It is hardly obvious that
the robot’s process of manipulation of descriptions of your cogitation is itself
cogitation. It is still less obvious that the robot’s manipulation of descriptions
of your experiential and emotional processes are themselves experiential and
emotional processes. It is hard to know how this claim could be distinguished in spirit from Searle’s, and Block (personal
communication, 2002) has since stated that, though the various hedges make it possibly literally
true, it goes too far. THE TURING TEST AS INTERACTIVE PROOF 5 intelligence might be denigrated (and have been) on the grounds that Turing didn’t
propose his Test as a criterion of intelligence. Rather, Turing wanted to replace the
question “Can machines think?” with the question “Can machines pass the Turing
Test?”. But philosophers just won’t listen. They insist on investigating the issue of
whether the Turing Test is a good definition of intelligence, despite Turing’s best
efforts to avoid definitions entirely. A few voices have kept up pressure to stop such useless bickering. “It
is a sad irony that Turing’s proposal has had exactly the opposite effect on the
discussion of that which he intended,” says Dennett (1985). 2. Motivation “Alas, philosophers —
amateur and professional — have instead taken Turing’s proposal as the pretext
for just the sort of definitional haggling and interminable arguing about imaginary
counterexamples he was hoping to squelch.”
Chomsky’s view is that “Turing’s
sensible admonitions should also be borne in mind, more seriously than they
sometimes have been, in my opinion.” (Chomsky, 2004) (
)
But how can we know that Turing’s test is an adequate replacement for the
question “Can machines think?” if we can’t compare the results of the Test with the
corresponding answers to the question? I could request replacing the question “Can
machines think?” with a test of their ability to perform arbitrary precision square
roots, but one would be within rights to note that this is not a useful replacement. As Moor (1976, page 250) points out, “if Turing intends that the question of the
success of the machine at the imitation game replace the question about machines
thinking, then it is difficult to understand how we are to judge the propriety and
adequacy of the replacement if the question being replaced is too meaningless to
deserve discussion. Our potential interest in the imitation game is aroused not by
the fact that a computer might learn to play yet another game, but that in some
way this test reveals a connection between possible computer activities and our
ordinary concept of human thinking.” Thus, philosophers have been inexorably led
to the question of the relationship between a machine’s passing of the test and its
thinking capacity. Turing finds himself sliding down the slippery slope from replacement to
definition for just this reason. “We cannot altogether abandon the original form of
the problem, for opinions will differ as to the appropriateness of the substitution
and we must at least listen to what has been said in this connection” (Turing, 1950). He discusses, for instance, whether the test should be thought of as a necessary or
sufficient condition for attributing intelligence, finding for the latter only. I therefore take seriously the issue as to whether passing a Turing Test
is a sufficient criterion for intelligence. (The arguments against the Turing Test
as a necessary condition, and therefore as a definition, of intelligence are simple,
clear, uncontroversial, and need not be restated. 2. Motivation The views of French (1990) are
particularly trenchant on the matter.) In the next section, I rehearse conventional
philosophical wisdom on the matter (Dennett notwithstanding). 3The conceptions highlighted here correspond roughly to Block’s “operationalist proposal”,
“neo-Turing Test conception”, and “amended neo-Turing Test conception”, respectively, except
that crucially they are phrased as conditionals to better accord with the view of the Test as
an ostensible sufficient condition, not an ostensible definition.
In particular, Block states his
conceptions in the form of definitions, e.g., “Intelligence (or more accurately, conversational
intelligence) is the capacity to produce a sensible sequence of verbal responses to a sequence
of verbal stimuli, whatever they may be.” Compare this to my capacity conception below. 3. Turing Test Conceptions of Intelligence Whether one thinks that the Turing Test is a sufficient condition for
intelligence or not depends in large part on one’s interpretation of particular
aspects of the role of the Turing Test in the stating of the condition. In Block’s
phraseology, it depends on the “Turing Test conception of intelligence” that one
has in mind. Block takes the upshot of passing a Turing Test as demonstrating STUART M. SHIEBER 6 that the subject-under-test can “produce a sensible sequence of verbal responses
to a sequence of verbal stimuli”. The Turing Test conception of intelligence thus
provides the connection between such production and the possession of intelligence. In its most direct form, the relation is expressed as in Premise 2 above, repeated
here under the name “the occasional conception of intelligence”.3 The occasional conception:
If an agent produces a sensible
sequence of verbal responses to a sequence of verbal stimuli, then
it is intelligent. The occasional conception:
If an agent produces a sensible
sequence of verbal responses to a sequence of verbal stimuli, then
it is intelligent. In particular, how could the fact of passing one or more
Turing Tests allow one to conclude the antecedent of this conception? I will pay this promissory note later. But Block is willing to grant capacities
to the Turing-Test approvers anyway, ex hypothesi, because he has an argument
even against this conception. Imagine (with Block) a hypothetical machine that stores a tree of
interactions providing a sensible response for each possible interrogator’s input in
each possible conversational context of up to, say, one hour long. (These responses
might be modeled on those that Block’s fictional Aunt Bertha would have given.)
Such a tree would undeniably be large, but processing in it would be conceptually
straightforward. By hypothesis, such an “Aunt Bertha machine” would pass a
Turing Test of up to one hour, because its responses would be indistinguishable
from that of Aunt Bertha, whose responses it recorded. Such a machine is clearly
not intelligent, by the same token that the teletype that the interrogator interacts
with in conversation with the human confederate in a Turing Test is not intelligent;
it is merely the conduit for some other person’s intelligence, the human confederate. Similarly, the Aunt Bertha machine is merely the conduit for the intelligence of Aunt
Bertha. Yet just as surely, it can pass a Turing Test, and more, has the capacity
to pass arbitrary Turing Tests of up to an hour. The mere logical possibility of an
Aunt Bertha machine is sufficient to undermine the capacity conception.4 Block pursues a number of potential objections to his argument that the
capacity conception is flawed, the most significant of which (his Objection 8) is
based on the fact that the Aunt Bertha machine is exponentially large, that is, its
size is exponential in the length of the conversation. Objection
8
leads
to
his
“amended
neo-Turing-Test
conception”:
“Intelligence is the capacity to emit sensible sequences of responses to stimuli, so
long as this is accomplished in a way that averts exponential explosion of search.”
(Emphasis in original.)
It is not exactly clear what “exponential explosion of
search” is intended to indicate in general. In the case of the Aunt Bertha Machine,
exponentiality surfaces in the size of the machine, not the time complexity of
the search. Further, the aspect of the Aunt Bertha machine that conflicts with
our intuitions about intelligence is its reliance upon memorization. 4This anti-behaviorist argument was apparently first proposed in sketch form by Shannon and
McCarthy (1956, page vi): “A disadvantage of the Turing definition of thinking is that it is
possible, in principle, to design a machine with a complete set of arbitrarily chosen responses
to all possible input stimuli. . . . With a suitable dictionary such a machine would surely satisfy
Turing’s definition but does not reflect our usual intuitive concept of thinking.”
5For this reason, adding this extra condition to the conception of intelligence is not ad hoc. It
amounts to saying, in a precise way, that the agent must have the capacity to produce sensible
responses without having memorized them. The occasional conception:
If an agent produces a sensible
sequence of verbal responses to a sequence of verbal stimuli, then
it is intelligent. This conception, together with Premise 1 — which asserts that passing a Turing
Test demonstrates the antecedent — allows the conclusion that the agent is
intelligent. It is simple to argue that this conception (admittedly a straw man, as no
one to my knowledge, including Turing, has ever claimed it) is flawed. Imagine
a machine that responds to the interrogator’s queries by emitting a random
sequence of keystrokes. (The idea is conventionally implemented using monkeys
and typewriters.)
There is some (admittedly astronomically small) probability
that these keystrokes will fortuitously spell out perfectly plausible responses to the
queries, and the interrogator would therefore be fooled into confusing the random
keystroke generator with a human. If one holds the stance that the random typing
responses were not true intelligent behavior (and why would they be?), then the
mere possibility of such an occurrence, by itself, demonstrates that passing the
Turing test is not a sufficient condition for intelligent behavior, at least under the
occasional conception. Of course, even Turing admitted as much. He thought of the test as having
a statistical component, requiring more than a single occasion of passing. This is
clear from his 1952 interview, quoted above. His statements about passing the Test
were statistical too, as in his famous prediction that “an average interrogator will
not have more than 70 per cent. chance of making the right identification after five
minutes of questioning” (Turing, 1950). But subjecting the monkeys to multiple Tests, or longer ones, doesn’t solve
this problem; it merely adjusts the odds of a false positive. Instead, what is needed
is a change in the conception of intelligence, along the lines that Block argues for in
“Psychologism and Behaviorism”. I skip ahead to his “neo-Turing-Test conception
of intelligence”, which I will call The capacity conception:
If an agent has the capacity to
produce a sensible sequence of verbal responses to a sequence of
verbal stimuli, whatever they may be, then it is intelligent. Arguably, this revised conception already gives up on a purely behaviorist
view. How could one know that an agent has a (counterfactual) capacity without
resort to analysis of its internal workings, that is, to a theory of its behavior, rather THE TURING TEST AS INTERACTIVE PROOF 7 than a mere sample of it? 6Hobbs, Stickel, Martin, and Edwards (1988) present a similar symmetrical view of the three types
of reasoning. The occasional conception:
If an agent produces a sensible
sequence of verbal responses to a sequence of verbal stimuli, then
it is intelligent. Removing the
possibility of exponential storage amounts to a prohibition against memorization.5
C
tl
i t
h
i
f thi
ti
i Consequently, an appropriate rephrasing of this conception is The compact conception:
If an agent has the capacity to
produce a sensible sequence of verbal responses to a sequence
of verbal stimuli, whatever they may be, and without requiring
storage exponential in the length of the sequence, then the agent is
intelligent. Again, Block notes that this additional condition is psychologistic in mentioning
a nonbehavioral condition, viz., that the manner of the processing must avert STUART M. SHIEBER 8 combinatorial explosion of storage. He claims that insofar as the condition is
psychologistic, a Turing Test cannot test for it. combinatorial explosion of storage. He claims that insofar as the condition is
psychologistic, a Turing Test cannot test for it. To summarize, Block’s Aunt Bertha argument forces us to pay up on
two promissory notes. For the purely behavioral Turing Test to demonstrate
intelligence, it must suffice as a demonstration of the antecedent of the compact
conception of intelligence, that is, it must indicate a general capacity to produce
a sensible sequence of verbal responses and it must demonstrate compactness of
storage of the agent. It requires us to demonstrate a basis for an alternative to
Premise 1: Premise 1′: If an agent passes a Turing Test, then it has the capacity to
produce a sensible sequence of verbal responses to a sequence of verbal
stimuli, whatever they may be, and without requiring storage exponential
in the length of the sequence. To invalidate Block’s argument, then, it is sufficient to provide a basis for the new,
stronger, view of the Turing Test codified in Premise 1′. 4. The Deductive, Inductive, and Abductive Basis
for the Turing Test (What “best” means is a tricky issue, of course; it is where all the action is
in formalizing abductive reasoning.) cases where Q →P holds because Q is a cause of P, and if there are multiple Qi
such that Qi →P, we select the Qi that serves as the “best” explanation as cause
of P. (What “best” means is a tricky issue, of course; it is where all the action is
in formalizing abductive reasoning.) In the case at hand, we take P to be the passing of the Turing Test and Q
to be the bearing of intelligence. Abduction then allows us to reason from an agent
passing the Turing Test, along with the view that intelligence (at least of a certain
sort) implies the ability to pass the Turing Test, to the conclusion that the agent
is intelligent. Stalker points out that abductive reasoning requires an argument that the
particular Q →P that one chooses must be the best explanation, not just any one,
and he thinks he has a better one, namely, that the machine is merely following
a particular computational procedure. Moor’s reply amounts to arguing that the
intelligence view is, as an abductive explanation, just as good, if not better. Abductive reasoning in general has the following problem: The explanation
that is best may still be wrong. Moor implies as much when he talks about the
possibility that new evidence can cause one to change one’s conclusions. So the
move to viewing the Turing Test as abductive evidence of intelligence probably
won’t satisfy those (like Searle) who believe themselves in possession of a priori
arguments against the possibility of mechanical intelligence. No matter how much
“evidence” of this sort accumulates, the deductive conclusion from the premise
“machines can’t think” will trump the abductive evidence to the contrary. It may also not satisfy Block, as it is hard to see how to rate the relative
quality of the explanation “the machine is intelligent” and “the machine is looking
up the replies in a table” without begging the question. Nonetheless, the attempt to salvage the Turing Test as a test for intelligence
by changing the kind of demonstration that we take it to be is a promising one. 4. The Deductive, Inductive, and Abductive Basis
for the Turing Test In
the next section, I argue that the Turing Test can serve as a proof of the antecedent
in the compact conception, and therefore a sufficient condition for intelligence,
under a notion of proof that is very slightly weakened. By going from a requirement
of deductive proof to that of interactive proof, and adding a weak condition of
physical realizability, we can resurrect the Turing Test as a criterion of intelligence. 4. The Deductive, Inductive, and Abductive Basis
for the Turing Test One potential way of salvaging the Turing Test is to change the notion of
“demonstrate” in the claim that passing a Turing Test demonstrates intelligence. For instance, James Moor’s view (1976) is that Turing Tests should be viewed not
as deductive proofs of intelligence (as Block would have it), but as “a source of
good inductive evidence”. He calls the evidence inductive evidence, but what kind of induction could a
Turing Test be evidence for? Induction, in one guise at least, is the form of reasoning
from instances of a universal to the universal. The instances we see in a Turing
Test are the agent “producing a sensible sequence of verbal responses to a sequence
of verbal stimuli” as Block would say. The natural inductive conclusion to draw
from such data is that the agent has the “capacity to produce a sensible sequence
of verbal responses to arbitrary sequences of verbal stimuli”. Moor’s inductive
evidence is evidence for the antecedent in the capacity conception of intelligence. Already, we see that by relaxing our notion of demonstration, we can make some
headway on the path from Premise 1 to 1′. Nonetheless, the Test is only inductive evidence for the consequent if the
capacity conception is sound. Thus, if Block is right, and the capacity conception
fails, so does the inductive evidence reconstruction. But what Moor is getting at goes beyond the inductive view of the Turing
Test, and is made clearer by Stalker’s reply (1978) and Moor’s response (1978). Stalker refers to the evidence not as inductive evidence, but as explanatory evidence. More properly, though Stalker doesn’t use the terminology, it appeals to reasoning
by abduction, that is, reasoning to the best explanation. We can caricature the types of reasoning as follows: Deduction is reasoning
from P and P →Q to Q; induction is reasoning from (repeated instances of) P
and Q to P →Q; abduction is reasoning from P and Q →P to Q.6 Of course, such
abductive reasoning is deductively unsound, and is appropriately limited to special THE TURING TEST AS INTERACTIVE PROOF 9 cases where Q →P holds because Q is a cause of P, and if there are multiple Qi
such that Qi →P, we select the Qi that serves as the “best” explanation as cause
of P. 5. The Interactive Proof Alternative To review, there are two psychologistic promissory notes out in the compact
conception of the Turing Test. First, we must ascertain a general capacity to pass
the test. Second, the manner of passing must satisfy a compactness limitation. I
will pay the capacity promissory note first, and then turn to the compactness issue. Certainly, there is no deductive move that allows one to go from observation
of the passing of one or more Turing Tests to a conclusion of a general capacity;
the monkeys and typewriters argument shows that. This is the Humean problem
of induction. But it does not follow that there is no method of reasoning from
the former to the latter. I will argue that the powerful notion of an interactive
proof, taken from theoretical computer science, is exactly such a reasoning method. Furthermore, as I will show in Section 6, Turing Tests bear some of the tell-tale signs
of interactive proofs that have been investigated in the computer science literature. Although interactive proof is a mathematical notion, the argument I will
provide is not a formal one. I do not propose that the Turing Test is an interactive 10 STUART M. SHIEBER proof in the mathematical sense, but rather, that interactive proofs provide the
right metaphor or analogy for thinking about what Turing Tests provide.7 Interactive
proofs
are
protocols
designed
to
convince
a
verifier
conventionally denoted V that a prover P has certain knowledge or abilities, which
we will think of as being encapsulated in an assertion s.8 In a classical (deductive)
proof system, P would merely reveal a deductive proof of s, which V then verifies. This provides V with knowledge of s and perhaps other knowledge implicit in
the proof. Interactive proofs augment classical proof systems by adding notions
of randomization and interaction between prover and verifier. (The interaction
implicit in classical proof systems — P’s presenting V
with the proof — is
essentially trivial.) Interaction is added by allowing V and P to engage in rounds
of message-passing. Randomization is introduced in two ways: First, the verifier
may make use of random bits in constructing her messages. Second, she may be
required to be satisfied with a probabilistic notion of proof. When we state that
P proves s with an interactive proof, we mean (implicitly) that s has been proved
but with a certain determinable residual probability of error. 7In independent work, Bradford and Wollowski (1994) do attempt to provide a mathematical
argument relating interactive proofs and the Turing Test, but of a quite different flavor.
For instance, they assume that the subject-under-test is polynomially bounded, and take the
subject-under-test and confederate to be the verifiers, and the judge to be the prover. It is safe
to say that the upshot of their analysis is unclear given the strong assumptions that they make.
8The roles of verifier and prover are analogous to those of Victoria and Peter/Pietro above. For
convenience in reference, we will therefore refer to them using gendered pronouns “her” and “him”
respectively.
9The probabilistic nature of interactive proof conclusions constitutes a very important distinction
between interactive proofs and general inductive evidence (as appealed to by Moor). Inductive
arguments may, like interactive proofs, be thought of as statistically founded, but they end in a
step of acceptance of the general conclusion of which the instances form the inductive evidence.
(We select many marbles from a jar and note that all are red.
Statistics and independence
assumptions allow us to compute a probability distribution over proportions of red marbles in
the jar, with 100 percent being the most likely.
By inductive acceptance, we conclude that
all of the marbles in the jar are red.)
Pollock (1990, Chapter 5) reviews problems with the
statistical foundations of induction, and in particular, the acceptance step.
But by virtue of
yielding probabilistic conclusions, interactive proofs have no acceptance step, and thus do not fall
prey to these problems. 9The probabilistic nature of interactive proof conclusions constitutes a very important distinction
between interactive proofs and general inductive evidence (as appealed to by Moor). Inductive
arguments may, like interactive proofs, be thought of as statistically founded, but they end in a
step of acceptance of the general conclusion of which the instances form the inductive evidence.
(We select many marbles from a jar and note that all are red.
Statistics and independence
assumptions allow us to compute a probability distribution over proportions of red marbles in
the jar, with 100 percent being the most likely.
By inductive acceptance, we conclude that
all of the marbles in the jar are red.)
Pollock (1990, Chapter 5) reviews problems with the
statistical foundations of induction, and in particular, the acceptance step.
But by virtue of
yielding probabilistic conclusions, interactive proofs have no acceptance step, and thus do not fall
prey to these problems. 10I digress to discuss a technical issue in order to forestall confusion about the graph
nonisomorphism protocol. In order for the interactive proof of graph nonisomorphism to be of
interest, we must assume that the verifier is computationally limited. Otherwise, the verifier could
check whether G0 is isomorphic to G1 herself. It is standard, therefore, to restrict V to amounts
of computation polynomial in the size of the graph. Under this assumption (and, again, current
assumptions in the foundations of computational complexity), the verifier cannot herself determine
if the two graphs are nonisomorphic. There is, of course, no reason to assume such computational
limitations on the prover, and it is standard not to do so. For this reason, the interactive proof
protocol can involve the prover carrying out actions for which no such computationally limited
method is known, such as the computation of graph isomorphism in Step 2. The issue is discussed
in detail by Goldreich et al. (1991). Interactive proof protocols for other problems, such as Graph
3-Colorability, are known for which computationally limited provers are sufficient.
11Informally speaking, a random permutation of a graph is just an isomorphic copy of the graph
whose relation to the original has been lost. 5. The Interactive Proof Alternative That is, the verifier
may need to be satisfied with some small and quantifiable chance that the protocol
indicates that s is true when in fact it is not, or vice versa. The residual error is
the reason that moving to a notion of interactive proofs is a weakening relative to
a view as a deductive proof. The fact that the residual error can rapidly be made
vanishingly small through repeated protocols is the reason that the weakening is
referred to as “very slight”.9 The idea of interactive proofs has been absolutely revolutionary in
computer science since their introduction by Goldwasser, Micali, and Rackoff
(1985). It has had two major payoffs. First, there are efficient interactive proofs
of assertions for which classical proofs are hopelessly inefficient. Second, there are
interactive proofs of theorems that reveal to V much less knowledge about s; in
the case of so-called zero-knowledge proofs, they reveal nothing but the fact of the
assertion’s truth. The idea is perhaps best grasped through an example, a variation on
the Graph Nonisomorphism interactive proof system of Goldreich, Micali, and
Wigderson (1991). A graph is a mathematical object consisting of a set of nodes THE TURING TEST AS INTERACTIVE PROOF THE TURING TEST AS INTERACTIVE PROOF
11 11 (a)
(b)
(c)
1
2
3
4
5
1
2
3
4
5
Figure 1. Example graphs 5 Figure 1. Example graphs and a set of edges connecting some of them. Two graphs are isomorphic if there
is a one-to-one mapping from the nodes of one to the nodes of the other such that
there is an edge between a pair of nodes in the one if and only if there is an edge
between the pair of nodes in the other that they map to. Figure 1 presents a
graphical depiction of some graphs. Although all have the same number of vertices
and edges, only graphs (a) and (b) are isomorphic, under a mapping of the vertices
given by the node numberings in the figure. Neither is isomorphic to (c). This
is easily seen, as (c) has a minimal cycle (that is, a set of vertices connected in a
cycle no subset of which forms a cycle) of four vertices, while neither (a) nor (b)
do. In the general case, determining that two graphs are nonisomorphic is not so
straightforward. 11Informally speaking, a random permutation of a graph is just an isomorphic copy of the graph
whose relation to the original has been lost. Formally, a random permutation G′ of the graph Gb is a graph isomorphic to Gb constructed as
follows: The nodes of G′ are a set of the same cardinality as the set of nodes of Gb. A one-to-one
mapping π from the nodes of Gb to the nodes of G′ is chosen at random from all possible such
mappings. For each edge in Gb connecting nodes n1 and n2, there is an edge of G′ connecting
nodes π(n1) and π(n2), and there are no other edges in G′. 5. The Interactive Proof Alternative SHIEBER assertion is true, this new graph is isomorphic to Gb but not G1−b. If the
assertion is false, G′ is isomorphic to both the original graphs.) V sends G′
to P as a message. assertion is true, this new graph is isomorphic to Gb but not G1−b. If the
assertion is false, G′ is isomorphic to both the original graphs.) V sends G′
to P as a message. (2) P checks if G′ is isomorphic to G0. If so, he sends the message “0”,
otherwise the message “1”. (2) P checks if G′ is isomorphic to G0. If so, he sends the message “0”,
otherwise the message “1”. (2) P checks if G′ is isomorphic to G0. If so, he sends the message “0”,
otherwise the message “1”. (3) V receives the bit b′ that P sent. If b′ = b, V accepts the proof; the assertion
has been proved. If b′ ̸= b, V rejects the proof. (3) V receives the bit b′ that P sent. If b′ = b, V accepts the proof; the assertion
has been proved. If b′ ̸= b, V rejects the proof. (We will call a series of messages generated according to a protocol such
as this a transcript. An accepting transcript is one in which the verifier accepts the
proof in the final step, and correspondingly for a rejecting transcript.) The protocol is a bit like a mentalist’s mind-reading trick. The verifier
thinks of a number between 0 and 1, and the prover must guess that number. The prover gets a clue, namely the knowledge that if the verifier is thinking of the
number 0, the graph she sent is isomorphic to G0, and similarly for 1. If G0 and G1
are nonisomorphic (that is, the proposition is true), the clue is enough information
to reconstruct the verifier’s number. P will be able to reconstruct the bit b and
the verifier will accept the proof. If the graphs are isomorphic (the proposition is
false), the clue provides no help in guessing the verifier’s number. In that case,
the prover can do no better than guessing randomly, and will thus be wrong about
half the time, causing V to reject the proof. The other half of the time, she will
erroneously accept the proof; the prover “got lucky”. It is in this sense that the
interactive proof is probabilistic. 5. The Interactive Proof Alternative It is important for the purposes of this example to understand
that (given current assumptions in the foundations of computational complexity)
the time required to determine if two graphs are isomorphic is exponential in the
number of nodes in each graph, that is to say, the problem is very difficult. and a set of edges connecting some of them. Two graphs are isomorphic if there
is a one-to-one mapping from the nodes of one to the nodes of the other such that
there is an edge between a pair of nodes in the one if and only if there is an edge
between the pair of nodes in the other that they map to. Figure 1 presents a
graphical depiction of some graphs. Although all have the same number of vertices
and edges, only graphs (a) and (b) are isomorphic, under a mapping of the vertices
given by the node numberings in the figure. Neither is isomorphic to (c). This
is easily seen, as (c) has a minimal cycle (that is, a set of vertices connected in a
cycle no subset of which forms a cycle) of four vertices, while neither (a) nor (b)
do. In the general case, determining that two graphs are nonisomorphic is not so
straightforward. It is important for the purposes of this example to understand
that (given current assumptions in the foundations of computational complexity)
the time required to determine if two graphs are isomorphic is exponential in the
number of nodes in each graph, that is to say, the problem is very difficult. Suppose P claims to know that the following assertion s is true: Graphs G0 and G1 are not isomorphic. Graphs G0 and G1 are not isomorphic. V wants to be convinced of this. We can imagine that the graphs G0 and G1 are
quite large, say thousands of nodes. It would thus be impractical for V to determine
by direct computation the truth of s.10 The following interactive proof protocol achieves this goal. The following interactive proof protocol achieves this goal. (1) V selects one of the two graphs G0 or G1 at random by choosing a random
bit b, a 0 or 1; the selected graph is then Gb, the unselected graph G1−b. V
then computes a random permutation11 G′ of the chosen graph Gb. (If the 12 STUART M. 5. The Interactive Proof Alternative By the time you have thrown one
hundred darts with 75 landing in the red, the likelihood that the red region is less
than 50% is, intuitively at least, much lower. This line of reasoning can be made precise and quantified. In so doing,
the intuition is proved correct, and in fact, the probability that the sample fails
to represent the whole can be shown to be exponentially small in the number
of samples. Crucially, this method allows us to reason from the behavior of a
sample (the dart throws) to the space undergoing sampling (the entire dartboard). Identical reasoning can be applied to extrapolate from a sample of verbal behavior
to a general capacity. Such reasoning is exactly what is needed to argue from the
passing of a Turing Test to the attribution of a general capacity to do so. I now describe how to use a rigorous form of the dartboard method to
generate an interactive proof of a general capacity. Suppose that P claims a general
capacity to compute a function f over possible inputs from a (presumably large and
perhaps infinite) space S. How can V verify this claim by testing P in computing
f on a sample of S? First, we must make more precise what we mean by a general
capacity to compute a function. We may not (and, in the case at hand, do not) want
to require perfect performance in computing the function; P may get the answer
wrong on occasion for incidental reasons, even though in general P can compute
the function. Let tp be the fraction of the space for which P performs correctly. We
can pick a threshold tl to serve as a lower bound on the size of the subspace. We
will say that if tp > tl, P has a general capacity to compute f. For the purpose of
concreteness, we might take tl to be 1/2. Then we are saying that if P computes f
correctly on at least 50% of all possible inputs, it has a general capacity to compute
f. Figure 2 depicts the general setup. In this way, we can make precise a notion of having a general capacity. 5. The Interactive Proof Alternative If the verifier doesn’t like these 50-50 odds of false
positives, V can rerun the test several times. The more rounds, the less likely it
is that the prover can guess right every time, unless the clues are actually helping
(that is, unless the proposition to be proved is actually true). The probability of a
false positive after k rounds of this protocol are 1 in 2k, because the prover would
have to get lucky k times in a row. 5.1. Interactive Proofs of Capacity. If a Turing Test is a kind of interactive
proof, it needs to be a proof not of knowledge, but (as argued above) of a capacity. In the parlance of theoretical computer science, it is a proof of an ability. Bellare
and Goldreich (1992) extend the notion of an interactive proof of knowledge to an
interactive proof of an ability. Their method is quite sophisticated and general;
in essence, they demonstrate that (with arbitrarily high probability) playing the
role of P successfully in a proof system to compute some function is tantamount
to computing the function itself. We don’t require such a general setup. Rather,
I present a simple mechanism for making statistical conclusions about a general
capacity based on an interactive proof. I start with an analogy. Suppose you are given a dartboard that is painted
black, except for a single region of red. You throw some darts at the board uniformly
at random, and note that 75% of them land in the red region. Intuitively, this should
indicate to you that roughly 75% of the dartboard is red, but of course this depends
on how many darts you threw. If you threw only four darts, there is a reasonable
chance that the red region is relatively small (say less than 50%), and yet three THE TURING TEST AS INTERACTIVE PROOF THE TURING TEST AS INTERACTIVE PROOF 13 Figure 2. Sampling inputs to a function to test a general capacity
for a prover to compute the function correctly on a given fraction
of inputs. Figure 2. Sampling inputs to a function to test a general capacity
for a prover to compute the function correctly on a given fraction
of inputs. of the four happened to land in that region. 5. The Interactive Proof Alternative In general, Pr[t > ts] < e−ck where c = (tl−ts)2
2(1−tl) . Thus, it has the behavior of an interactive proof: As the number
of samples k increases, the probability of a false positive decreases exponentially. where c = (tl−ts)2
2(1−tl) . Thus, it has the behavior of an interactive proof: As the number
of samples k increases, the probability of a false positive decreases exponentially. It is important to realize that the probabilities of error that we are talking
about can be literally astronomically small. For the bounds that we have been
talking about, if we let k be, say, 100, we are already in the realm of false positive
probabilities on the order of 1 in 500. At k = 300, the false positive probability is
on the order of 1 in 1010; at that rate, if a population the size of all humanity were
tested, one would expect to see no false positives. At k = 1000, the false positive
rate of some 1 in 1027 is truly astronomically small. A similar argument shows that the probability of false negatives decreases
exponentially in sample size as well. We suppose there to be another bound tu > ts
such that there is an agent that performs correctly on a fraction of the space given
by tu. A false negative occurs if t < ts for such an agent. For example, suppose
tu to be 90%, and suppose P computes f correctly on more than 90% of inputs,
yet V happens to choose more than 25% of the samples on the less than 10% of
the subspace that P fails to compute f on. Then for this sample, the apparent
performance t will be less than the sample bound ts = 3/4, a false negative. Again,
the probability of such an occurrence can be shown to be exponentially small in k. 5.2. The Turing Test as an Interactive Proof of Capacity. I view the
Turing Test as an interactive proof for the antecedent of the capacity conception
of intelligence, that is, it is a proof that P “has the capacity to produce a sensible
sequence of verbal responses to a sequence of verbal stimuli, whatever they may be”. Consider the (perhaps infinite) space of all possible sequences of verbal stimuli. 5. The Interactive Proof Alternative Nonetheless, this definition of general capacity still requires that we determine how
P performs on all possible inputs, not just a subsample, in order to (deductively)
verify that the subspace on which P performs correctly is larger than the threshold
tl. An interactive proof protocol can be used to prove this general capacity. V 14 STUART M. SHIEBER can sample k inputs x1, . . . , xk uniformly from S, and have P compute f on these
inputs. V then verifies the correctness of each f(xi). can sample k inputs x1, . . . , xk uniformly from S, and have P compute f on these
inputs. V then verifies the correctness of each f(xi). Suppose that P generates correct answers on some percentage ts of samples
greater than tl; in the case at hand, we might take ts to be 75% of the samples. Can
we conclude that P has a general capacity to compute f (in the sense of computing
f correctly on at least 50% of all inputs)? Such a conclusion does not logically
follow. Perhaps P computes f correctly on less than 50% of all inputs, but V
happened to select 75% of the samples from this smaller subspace. This would
constitute a “false positive”, reasoning incorrectly from the sample to the space as
a whole. A false positive occurs when a sample of k inputs is selected for which f is
computed correctly on t of these, where t > ts (the prover outperforms the sample
threshold on the sample), yet tp < tl (the subspace is smaller than the definitional
threshold). Using the method of Chernoffbounds (see, e.g., Chapter 5 of the text
by Motwani (1995)), it can be shown that the probability of a false positive is Pr[t > ts] < e−µδ2/2 Pr[t > ts] < e−µδ2/2
where µ = (1 −tl)k and δ = 1 −1−ts
1−tl . For the example in which tl = 1/2 and
ts = 3/4, we have µ = k/2 and δ = 1/2, so
Pr[t > 3/4] = e−(k/2)(1/2)2/2 = e−k/16
. Pr[t > ts] < e−µδ2/2
where µ = (1 −tl)k and δ = 1 −1−ts
1−tl . For the example in which tl = 1/2 and
ts = 3/4, we have µ = k/2 and δ = 1/2, so Pr[t > 3/4] = e−(k/2)(1/2)2/2 = e−k/16
. 5. The Interactive Proof Alternative An
agent without a general capacity to produce sensible sequences of responses would
fail to do so on some nontrivial fraction of this space. Block notes that a 100% THE TURING TEST AS INTERACTIVE PROOF 15 criterion is neither necessary nor appropriate. One wants to be able to “ask of a
system that fails the test whether the failure really does indicate that the system
lacks the disposition to pass the test.” Indeed, people put under similar tests would
at least occasionally perform in such a way that a judge might deem the responses
not sensible. So there is some percentage, less than 100%, such that if an agent
produced sensible sequences of responses on that percentage of the space, we can
attribute a general capacity, sufficient for the antecedent of the capacity conception. Let us say, for the sake of argument that this threshold is 50%. That is, if an agent
produces sensible responses to 50% of the space of possible verbal stimuli, we will
consider it to have a general capacity to produce such responses. Importantly, we
are not saying that the agent must merely produce sensible responses to 50% of
some subsample of possible stimuli that we confront it with, but with 50% of all
possible stimuli, in a counterfactual sense, whether we ever test it with these stimuli
or not. The interactive proof approach of the previous section is directly applicable
to this problem, with tl = 1/2. Suppose we sample k sequences of verbal stimuli uniformly from this space,
and test some agent as to whether it generates sensible sequences of responses to
them. Suppose further that the agent does so on 75% of these stimuli (that is,
ts > 3/4). On this sample, then, the agent performs well above our 50% cut-off. The analysis of the previous section shows that the probability that the agent does
not have a general capacity at the 50% level is exponentially small.12 What about false negatives? If we assume that people generate sensible
responses on, say, 99% of the space (recalling that 100% is not required here), then
again the odds of a sample showing a performance of less than 75% is exponentially
small in k. 12The bounds presented here showing exponentially vanishing probabilities of error in adjudging
capacities are predicated on the k samples being taken uniformly and independently. In the case
of repeated Turing Tests, of course, the judge is free, and apt, to construct new Tests based on the
behavior noted in previous Tests so as to maximize the information received. Such nonindependent
sampling can lead to dramatically smaller rates of error, in theory, for randomized tests of this
sort. 5. The Interactive Proof Alternative When all we know is the system’s performance on a fixed
sample of stimuli, the storage requirements to generate these responses is linear in
the length of the stimuli. But the size of any fixed fraction of the space of possible
stimuli is exponential in their length. By being able to reason from the sample to
the fraction of the space as a whole — as the interactive proof approach allows —
we can conclude that an agent using a memorization strategy (as the Aunt Bertha
machine) would require exponential storage capacity to achieve this performance. Conversely, any agent not possessing exponential storage capacity would fail the
interactive proof. Nonetheless, how can a Turing Test reveal that the machine doesn’t have
exponential storage capacity? Recall that the modified compact conception requires
that the agent pass Turing tests at least logarithmic in its storage capacity. Thus,
without bounding its storage capacity, we can’t bound the length of the Test we
would need. There is no purely logical argument against this possibility; the Aunt
Bertha argument shows this. Some further assumption must be made to pay the
compactness promissory note. I now turn to how weak an assumption is required. Suppose we could bound the amount of information in the universe. Then
any physically realizable agent that could pass Turing Tests whose length exceeded
the logarithm of this amount would satisfy the compact conception. We would be
able to bound the length of the Turing Test required under the compact conception,
at least for any agent that is no larger than the universe. (And of course, no agent
is larger than the universe.) We will call this length bound the critical Turing Test
length. One might worry that the critical Turing Test length might be centuries
or millennia long. In the paragraphs that follow, we show that the critical Turing
Test length is actually quite short. A crude upper bound on the information capacity of the universe can be
constructed by examining the fine structure of space-time itself. (We will refine the
estimate shortly.) Quantum theory predicts that the basic structure of space-time
is strongly fluctuating on length scales of order 10−35 meters (the Planck scale). Any attempt to resolve phenomena below this scale, as would be necessary to store
information, would require so much energy that the region being resolved would
collapse into a black hole. 5. The Interactive Proof Alternative In summary, a protocol in which we run k Turing Tests and receive sensible
responses on at least, say, 75% provides exponentially strong evidence that the agent
satisfies the antecedent of the capacity conception, that is, has a general capacity
to produce sensible responses to verbal stimuli, whatever they may be. Of course, one might think that a 50% capacity is insufficient to characterize
a general capacity for verbal fluency. Perhaps 80% would be better. (We had
better not get too greedy, though, as people don’t deliver 100% performance.) Or
one might think that some people, and even intelligent ones, don’t approach 99%
performance; maybe 85% is all we can guarantee. As long as there is a differential
between the two bounds, we can place the threshold ts between them and still
achieve an exponentially small rate of both false positives and negatives. The
difference between the two bounds merely determines a constant in the exponent. One can think of this as adjusting the number of samples needed before the knee
in the exponential curve. (If one doesn’t think there is a differential between the
two bounds, one is denying the capacity conception itself.) Thus, under the notion of proof provided by interactive proofs, the Turing
Test can provide a proof of a general capacity to produce a sensible sequence of STUART M. SHIEBER 16 verbal responses to a sequence of verbal stimuli, whatever they may be. It can
therefore unmask the monkeys on typewriters. 5.3. The Turing Test as an Interactive Proof of Compactness. Now to the
question of compactness. First, I rephrase the compact conception of intelligence;
rather than placing an upper limit on the size of the agent, I place an equivalent
lower limit on the length of the test. The modified compact conception: If an agent has the capacity The modified compact conception: If an agent has the capacity
to produce a sensible sequence of verbal responses to a sequence of
verbal stimuli that is at least logarithmic in the storage capacity of
the agent, whatever they may be, then the agent is intelligent. The modified compact conception is logically equivalent to the compact conception;
the difference is just in the phraseology. The interactive proof approach provides leverage for demonstrating this
compactness as well. 5. The Interactive Proof Alternative It is thus reasonable to take a volume of this linear
size as the smallest region in which one could store a bit. Let us assume one
could actually store bits uniformly at this level of granularity. (We return to this THE TURING TEST AS INTERACTIVE PROOF 17 assumption below.) This gives a volume at this primitive level of 10105 bits per
cubic meter. assumption below.) This gives a volume at this primitive level of 10105 bits per
cubic meter. To obtain a value for the information capacity of the universe as viewed
from a given location, we need a further estimate of the volume that could in
principle affect that location. For any given distance in the past, the volume of the
accessible universe is a sphere corresponding to a three-dimensional slice through
the four-dimensional space-time light cone. For example, the volume of the universe
of a minute ago accessible to a location now is a sphere centered on the location with
radius of one light-minute (approximately 17 million kilometers). As we look farther
backwards in time, the volume grows, but not without limit. The big bang serves
as a second point of reference. At that point, the universe volume was effectively
zero. The accessible volume, then starts at zero with the big bang, grows to some
maximal volume, and then shrinks again to zero as we approach the given location
in space-time. A two-dimensional depiction of the situation is given in Figure 3. The point in question is how large this maximal volume is. However large this maximal volume is, it can be no larger than a volume of
diameter given by the time since the big bang some 15×109 years ago, which is the
maximal volume if no contraction in the accessible volume occurs as we look back
in time beyond that governed by the expansion of the universe since the big bang. Thus, the maximal accessible volume of the universe — which we can think of for
our purposes, talking loosely, as the volume of the universe — must be less than
(15 × 109)3 cubic light years. Recalling that a light year is about 1016 meters, the
volume of the universe is thus bounded by 1079 cubic meters, and the total storage
capacity is bounded by 10184 bits. Call it 10200 (thereby increasing the estimate by
16 orders of magnitude). 13The estimate based on the holographic principle is far lower than our previous estimate because
it respects the fact that any attempt to store bits as densely by volume as the previous estimate
would have energy requirements that would cause the system to collapse under gravitational forces. 5. The Interactive Proof Alternative )
Descending now from these ethereal considerations to the concrete goal of
analyzing the Turing Test conceptions of intelligence, under the modified compact
conception, we would require an agent with this literally astronomical storage
capacity to have a capacity to pass Turing Tests of on the order of log2 10200 ≈670
bits. The entropy of English is about one bit per character or five bits per
word (Shannon, 1951), so we require a critical Turing Test length of around
670 characters or 140 words. At a natural speaking rate of some 200 words per
minute, a conversation of less than a minute would therefore unmask a Turing-Test
subject whose performance, like that of the Aunt Bertha machine, is based on
memorization. Current results in quantum gravity yield even smaller estimates of the
information-storage capacity of the universe. Work on the so-called holographic
principle (regarding which see the survey by Bousso (2002) for a review) limits the
information stored in a volume based on its surface area rather than volume. Thus,
the exponent in our estimate is offby a factor of 3/2; a more accurate estimate
would be some 10120. An important property of this result is that (unlike the
estimate of the previous paragraph,13 in which we assumed that we could store
only one bit per Planck volume) it does not depend on any assumptions about the
fine structure of physical theory. It is a pure principle of physics, like relativity; STUART M. SHIEBER 18 Figure 3. The volume of the universe accessible to a point in
space time (here-now). The volume grows starting with the big
bang, reaches some maximal volume, and then shrinks back to
zero at here-now. The size of the maximal volume is bounded by
a sphere whose diameter is given by the time since the big bang. Figure 3. The volume of the universe accessible to a point in
space time (here-now). The volume grows starting with the big
bang, reaches some maximal volume, and then shrinks back to
zero at here-now. The size of the maximal volume is bounded by
a sphere whose diameter is given by the time since the big bang. regardless of future discoveries of more and more finely differentiated particles, say,
this limit on information content will hold. 5. The Interactive Proof Alternative As a side note, Block claims that Nothing in contemporary physics prohibits the possibility of matter
in some part of the universe that is infinitely divisible. . . . Suppose
there is a part of the universe (possibly this one) in which matter
is infinitely divisible. In that part of the universe there need be
no upper bound on the amount of information storable in a given
finite space. So my machine could perhaps exist, its tapes stored
in a volume the size of, e.g., a human head. Current physics shows that this claim is incorrect — the holographic bound on the
information content of the universe holds regardless of the divisibility of matter —
and limitations on the information-carrying capacity of the universe can allow us to THE TURING TEST AS INTERACTIVE PROOF 19 draw conclusions from the fact of passing a Turing Test of sufficient (supercritical)
length. Further, this length is a perfectly practical one. An even smaller bound on the informational capacity of the universe has
been developed by Seth Lloyd (2002), based on the total number of distinct quantum
states in the universe. His estimate based on this methodology (which ignores the
ability to store bits using gravitational degrees of freedom) is 1090. (He notes as
well that adding in the gravitational degrees of freedom gives a limit of 10120, in
agreement with the estimate above derived above.) Thus, the critical Turing Test
length might be even smaller than the one minute we estimated initially. Nonetheless, the skeptic might wonder how sensitive our estimates of the
critical Turing Test length are to these numbers. Suppose our estimates of the
information content of the universe were offby, say, 1000 orders of magnitude, and
there might be as many as 101200 bits in the universe. Even then, the required
Turing Test length would be around 4000 characters or 800 words, the size of a
very short essay and far less than a five-minute conversation. Thus, under extraordinarily conservative (but admittedly not logically
necessary) assumptions, even quite short Turing Tests are sufficient to pay the
compactness promissory note. It might seem counterintuitive (especially to those
familiar with toy programs designed to engage in conversation on this or that topic)
that the critical Turing Test length should be so short. 6. Interactive Proof Properties Shared by the Turing Test Several previously unexplored properties of Turing Tests follow from
properties of interactive proofs that have been demonstrated in the computer
science literature. Such properties inhere to interactive proofs as opposed to
classical proofs. Their applicability to Turing Tests thus provides a further
argument for the view of Turing Tests as interactive proofs. I discuss two such
properties here: nontransferability and lack of closure under composition. 6.1. Nontransferability. Interactive proofs typically are nontransferable; they
provide proof only to the verifier and no one else. In a classical proof system,
an accepting transcript includes a record of the prover submitting to the verifier an
independently checkable proof of the proposition. Thus, the transcript can serve
as a proof to a third party as well. But a third party who is given an accepting
transcript of an interactive proof protocol does not thereby gain proof of the truth of
the proposition being proved. This follows from the fact that accepting transcripts
can be generated without knowledge of the truth of the proposition being proved. For
the graph nonisomorphism case, the only message from the prover to the verifier
in an accepting transcript is a bit the identity of which the verifier already knows. Such a transcript is therefore trivial to generate. Another reason that third parties do not gain evidence from an accepting
transcript, even if they watch it being generated, is that they do not have access
to crucial facts concerning whether the protocol is being accurately followed. The
evidence provided by an interactive proof depends, for instance, on certain bits
being generated randomly by the verifier and kept private from the prover. Only the
verifier knows that the bits were random and secret, as only the verifier generated
them and held them. If the bits were generated nonrandomly (for instance,
according to a prior collusive agreement with a “prover”14) or were not kept secret
(communicated to a “prover” after being generated randomly), the recipient could
use the knowledge of the bits to complete an accepting protocol instance without
knowledge of the proposition being proved. Turing Tests are also nontransferable in this sense. Accepting transcripts
(that is,
sensible conversations) can be generated by the verifier (judge)
independently
and
without
knowledge
that
the
prover
(subject-under-test)
possesses the ability in question. 14The quotes are used to indicate that the entity playing the prover role is not acting as a true
prover. 5. The Interactive Proof Alternative Keep in mind that the Test
here is the unrestricted Turing Test — any and all queries on any topic of any sort
are allowed — and that the machine that we are trying to unmask is of a particular
sort, namely one that has memorized answers to every possible such query. As it
turns out, the combinatorics of language are such that only a short time is required
to generate a vast number of possible queries, and the design of the Aunt Bertha
Machine is such that we need only find one that is unhandled to unmask it. It is important to understand that the physical calculations performed here,
by themselves, are insufficient to provide grounding to the compact conception. The argument requires the interactive proof notion as well, for it is the interactive
proof view of the Turing Test that lets us go from a conclusion about a sample of
verbal behavior to a conclusion about possible untested behaviors, and the storage
capacity required by a sample is merely linear in the sample size, but the storage
capacity required by the possible untested behaviors is exponential in the sample
size. What I have argued is not that one can deduce from an agent passing
a Turing Test the agent’s intelligence, but rather, that one can prove this
under a conception of proof that admits false positives with astronomically small
probability, and that makes physical assumptions of an astronomically weak nature. Further, the proof is of the strong antecedent to the compact conception of
intelligence, including the capacity requirement and the compactness limitations
on the agent. In essence, I have argued for the following recasting of the basic
syllogism supporting the sufficiency of the Turing Test: Premise 1: If an agent passes k rounds of a Turing Test of at least one
minute in length, then (with probability of error exponentially small in k)
it has the capacity to produce a sensible sequence of verbal responses to a
sequence of verbal stimuli that is logarithmic in the storage capacity of the
agent, whatever they may be. STUART M. SHIEBER 20 Premise 2 (= Modified Compact Conception): If an agent has the
capacity to produce a sensible sequence of verbal responses to a sequence
of verbal stimuli that is logarithmic in the storage capacity of the agent,
whatever they may be, then it is intelligent. 5. The Interactive Proof Alternative Conclusion: Therefore, if an agent passes k rounds of a Turing Test of at
least one minute in length, then (with probability of error exponentially
small in k) it is intelligent. 15For this reason, many of us in the natural-language-processing field have come to be healthily
skeptical of published transcripts of the behavior of natural-language-processing systems.
16An anonymous reviewer urges correctly that we not make too much of the nontransferability of
Turing Tests, noting that the same could be said about scientific proofs as documented in research
papers. “A scientist can publish a result that is incorrect or even cooked. How can published
results become knowledge for others who haven’t run the experiment?” The answer, of course,
is trust in the scholarly publishing system, a trust founded in large part on statistical evidence;
incorrect results fail to replicate and cooked results occasionally come to light, and we can note
empirically the rarity of both types of failures. In fact, the nontransferability of scientific proof
reminds us of the degree to which the scientific enterprise is founded on an interactive notion of
proof as well. 6. Interactive Proof Properties Shared by the Turing Test Similarly, if a “verifier” fails to obey the
randomness or secrecy requirements of the protocol, an accepting transcript can be
generated even though the “prover” lacks the general capacity to respond sensibly
to verbal stimuli. For example, if V restricts her questioning to a particular line of
conversation that she knows P has been programmed to handle well, the transcript THE TURING TEST AS INTERACTIVE PROOF 21 will appear to an outside observer to be an accepting one, even though it provides
no information about the general capacities of P to respond sensibly. This is
the phenomenon of the “cooked demo”, which can appear very convincing to an
observer while of course being completely unconvincing to the participants. The
observer lacks the crucial knowledge possessed by the participants that the protocol
was apparently, but not actually, being followed.15 The only way for you to know
that a demo hasn’t been cooked is to act as the verifier yourself.16 Of course, nontransferability is an intended property of typical interactive
proof protocols — the typical cryptographic applications of interactive proofs
make nontransferability a desirable property — whereas nontransferability is an
inadvertent property of Turing Tests. Nonetheless, the similarity is real. 6.2. Lack of Closure under Composition. It can easily be shown that
interactive proofs are not closed under composition. In particular, if agents
participate in multiple interactive proofs at the same time, the conclusions that
can be drawn from the set of proofs can be much weaker than those that could
have been drawn by similar proofs generated independently (that is without shared
participation). Block alludes to this issue with his example of the simultaneous
chess player. Jones plays brilliant chess against two of the world’s foremost
grandmasters at once. You think him a genius until you find out
that his method is as follows. He goes second against grandmaster
G1 and first against G2. He notes G1’s first move against him, and
then makes the same move against G2. He awaits G2’s response,
and makes the same move against G1, and so on. Since Jones’s
method itself was one he read about in a comic book, Jones’s
performance is no evidence of his intelligence. (Block, 1981) Failures of interactive proofs of this sort have been noted in the computer
science literature as well. 7. Conclusion I have argued that the Turing Test is appropriately viewed not as a
deductive or inductive proof but as an interactive proof of the intelligence of a
subject-under-test. This view is evidenced both by the similarity in form between
Turing Tests and interactive proof protocols and by the sharing of important
properties between Turing Tests and interactive proofs. In so doing, I provide a counterargument against Block’s demonstration
that
the
Turing
Test
is
not
a
sufficient
criterion
of
intelligence. Our
counterargument requires a (very slight) weakening of the conditions required of
the Turing Test — weakening the notion of proof (from classical deductive proof
to interactive proof with its exponentially small residual error probability) and
strengthening the notion of possible agent (from one of logical possibility to one
with a trivial realizability requirement essentially of nomological possibility). These
weakenings are sufficiently mild that they can be seen as providing foundation for
the view that the Turing Test is a sound sufficient condition for intelligence. Block
is right, yet Dennett may be too. It merits pointing out that this view of the Turing Test is consonant with
(though by no means implicit in) Turing’s view of the Test as presented in his
writings. His view of the Test as being statistical in nature and his pragmatic
orientation toward its efficacy are of a piece with its status as an interactive rather
than classical proof. 6. Interactive Proof Properties Shared by the Turing Test Desmedt, Goutier, and Bengio (1987), for instance,
describe what they term the “mafia fraud”, which is a failure of the Fiat-Shamir
interactive proof method for authentication (Fiat and Shamir, 1986). In an
authentication protocol, P proves his identity to V ; the Fiat-Shamir protocol does
so by proving (via interaction, and in the normal probabilistic sense) to V that P
has knowledge of a certain private key known only to P, without revealing that key
to V (or anyone else). In the “mafia fraud”, P ′, who has no knowledge of P’s private key succeeds
in authenticating himself to V by carrying out a separate authentication protocol
with P. Whatever messages V sends to P ′, P ′ sends on to P; whatever responses
P ′ receives, he sends on to V . The two instances of the protocol being carried out STUART M. SHIEBER 22 are accepting ones, hence P is authenticated to P ′ and P ′ is authenticated to V . The composition of the two protocol instances thus fails to ensure the correctness
of the conclusions (at least in the case of the authentication of P ′). This technique of composing interactive proofs and playing one participant
offagainst another can trip up Turing Tests as well. Here is a six-line program,
clearly unintelligent, that can pass two simultaneous Turing Tests. (Here,
query(judgei) returns the next query sent by the i-th judge, and respond(judgei, r)
sends a given response r to the i-th judge.) repeat
i1 := query(judge1);
respond(judge2, i1);
i2 := query(judge2);
respond(judge1, i2);
untilfinished repeat
i1 := query(judge1);
respond(judge2, i1);
i2 := query(judge2);
respond(judge1, i2);
untilfinished repeat i1 := query(judge1);
d(
d
) respond(judge2, i1);
(
) i2 := query(judge2);
(
) respond(judge1, i2);
f It merely shuttles the responses of each of the judges to the other, just as the chess
player shuttles the moves of the two grandmasters to each other and as the mafia
defrauder shuttles protocol messages from P to V . Engaging in two Turing Tests at
once does not necessarily provide twice the evidence generated by a single Turing
Test, and may provide no evidence at all, just as simultaneous Fiat-Shamir proofs
fail to provide the authentication guarantee that single Fiat-Shamir proofs do. Acknowledgments I would like to thank Ned Block, Raphael Bousso, Daniel Fisher, David
Israel, Michael Rabin, Ken Shan, Andrew Strominger, Salil Vadhan, and the
members of the Artificial Intelligence Research Group at Harvard University for THE TURING TEST AS INTERACTIVE PROOF 23 valuable discussions and insights regarding the issues discussed in this paper. I also
thank the anonymous reviewers for their comments that led to several clarifications. Much of the work on this paper was done while visiting the Centro per
la Ricerca Scientifica e Tecnologica (itc-IRST), Trento, Italy during the spring of
2002. My deep appreciation goes to Oliviero Stock and itc-IRST for space and
support to work on this material during my visit. References Bellare, Mihir, and Oded Goldreich. 1992. Proving computational ability. Available
at http://www.wisdom.weizmann.ac.il/~oded/PS/poa.ps. Block, Ned. 1980. What intuitions about homunculi don’t show. Behavioral and
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825–874. Available as hep-th/0203101. Bradford, Phillip G., and Michael Wollowski. 1994. A formalization of the Turing
test. Tech. Rep. 399, Department of Computer Science, Indiana University. Available at http://www.cs.indiana.edu/pub/techreports/TR399.html. An
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Said, W. H. Newton-Smith, R. Viale, and K. V. Wilkes, chap. 1, 1–11. Oxford,
England: Clarendon Press. Dennett, Daniel. 1985. Can machines think? In How we know, ed. Michael Shafto,
121–145. San Francisco, CA: Harper & Row. Dennett, Daniel. 1985. Can machines think? In How we know, ed. Michael Shafto,
121–145. San Francisco, CA: Harper & Row. ———. 1987. Fast thinking. In The intentional stance, chap. 9, 323–337. Cambridge, MA: MIT Press. ———. 1987. Fast thinking. In The intentional stance, chap. 9, 323–337. Cambridge, MA: MIT Press. Desmedt, Yvo, Claude Goutier, and Samy Bengio. 1987. Special uses and abuses of
the Fiat-Shamir passport protocol. In Advances in cryptology—CRYPTO ’87, ed. Carl Pomerance, vol. 293 of Lecture Notes in Computer Science, 21–39. Berlin,
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but their validity or all languages in NP have zero-knowledge proofs. Journal of
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complexity of interactive proof-systems (extended abstract). In Proceedings of
the 17th ACM Symposium on the Theory of Computing, 291–304. Providence,
RI. Gunderson, Keith. 1964. The imitation game. Mind 73(290):234–245. STUART M. SHIEBER 24 Hobbs, Jerry R., Mark Stickel, Paul Martin, and Douglas D. Edwards. 1988. Interpretation as abduction. References In Proceedings of the 26th annual meeting of the
association for computational linguistics, 95–103. Buffalo, New York. Lloyd, Seth. 2002. Computational capacity of the universe. Physical Review Letters
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433–460. Harvard University
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Expression of zebrafish Brn1.2 (Pou3f2) and two Brn-3a (Pou4f1) POU genes in brain and sensory structures
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Expression of zebrafish Brn1.2 (Pou3f2) and two Brn-3a (Pou4f1) POU genes in
brain and sensory structures
Satish Srinivas Kitambi1,2,+*, Gayathri Chandrasekar1,2
1School of Life Sciences, Södertörns University College
2Department of Biosciences and Nutrition, Karolinska Institutet
14152 Huddinge, Sweden
+Current Address:Institute for Healthcare Education and Translational Sciences,
India. Expression of zebrafish Brn1.2 (Pou3f2) and two Brn-3a (Pou4f1) POU genes in
brain and sensory structures
Satish Srinivas Kitambi1,2,+*, Gayathri Chandrasekar1,2
1School of Life Sciences, Södertörns University College
2Department of Biosciences and Nutrition, Karolinska Institutet
14152 Huddinge, Sweden
+Current Address:Institute for Healthcare Education and Translational Sciences,
India. .
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oRxiv preprint Expression of zebrafish Brn1.2 (Pou3f2) and two Brn-3a (Pou4f1) POU genes in
brain and sensory structures *Corresponding author
Professor. Satish Srinivas Kitambi,
Research Director
Institute for Healthcare Education and Translational Sciences,
10-2-311, Plot 187, Cama Manor, W. Marredpally, Sec-Bad,
India 500026. Tel: +914027805176
Email: kitambi1979@gmail.com
Keywords: retina, zebrafish, lateral line, POU, brn1.2 brn3a. *Corresponding author
Professor. Satish Srinivas Kitambi,
Research Director
Institute for Healthcare Education and Translational Sciences,
10-2-311, Plot 187, Cama Manor, W. Marredpally, Sec-Bad,
India 500026. Tel: +914027805176
Email: kitambi1979@gmail.com
Keywords: retina, zebrafish, lateral line, POU, brn1.2 brn3a. *Corresponding author Professor. Satish Srinivas Kitambi, Research Director Institute for Healthcare Education and Translational Sciences,
10-2-311, Plot 187, Cama Manor, W. Marredpally, Sec-Bad,
India 500026. Tel: +914027805176 Email: kitambi1979@gmail.com Keywords: retina, zebrafish, lateral line, POU, brn1.2 brn3a. 1 . CC-BY 4.0 International license
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bioRxiv preprint Introduction POU genes encode a subclass of sequence-specific DNA-binding proteins within the
family of homeodomain transcription factors. They are defined by the conserved POU
DNA-binding domain, that was originally identified by sequence comparison of the
mammalian Pit-1, Oct-1, Oct-2 homeodomain proteins and the Caenorhabditis
elegans transcription factor unc-86 (Herr et al., 1988). Based on their sequence
homologies, POU genes have been divided into six subclasses (I to VI) (Latchman,
1999; Ryan and Rosenfeld, 1997). Mammalian class III POU genes include four
members, Brn-1, Brn-2, Brn-4 and Oct-6/SCIP/Tst-1 that are predominantly expressed
in the developing and adult nervous system (He et al., 1989; Monuki et al., 1989;
Meijer et al., 1990; Hara et al., 1992; Mathis et al., 1992; Alvarez-Bolado et al., 1995;
Zwart et al., 1996). POU class III genes are important for the neuronal cell
differentiation. Knock out of the mouse Brn -2 gene results in the loss of neurons that
produce oxytocin, vasopressin and corticotropin-releasing hormone (Nakai et al.,
1995; Schonemann et al., 1995). Brn-4 mutants in mice show developmental defects
in the inner ear causing deafness (Phippard et al., 1999). In humans, DFN3, an X-
chromosome linked non-syndromic mixed deafness is caused by the naturally
occurring mutations in Brn-4 gene (de Kok et al., 1995). Targeted deletion of Tst-1
has shown that Tst-1 is essential for the terminal differentiation of myelinating
Schwann cells in the peripheral nervous system (Bermingham et al., 1996; Jaegle et
al., 1996). In zebrafish, five POU class III genes have been identified and characterized
(Matsuzaki et al., 1992; Sampath and Stuart 1996; Spaniol et al., 1996; Hauptmann
and Gerster 1996; Hauptmann and Gerster 2000). They include zp12, zp23, zp47,
brn1.2 and zp50. The zebrafish POU class III genes show high sequence identity with
their corresponding mammalian genes. Similar to their mammalian members,
zebrafish class III POU genes lack introns within their POU-domain encoding
sequences. zp50 is orthologous to mammalian Oct-6 (Levavasseur et al., 1998). zp12
and zp23 are the zebrafish orthologs of mammalian Brn-1 and are identical with each
other (Spaniol et al., 1996). zp47 and brn1.2 are related to each other and are the
zebrafish orthologs of mammalian Brn-2 gene (Spaniol et al., 1996; Sampath and
Stuart 1996). The presence of additional genes in zebrafish could be attributed to the
gene duplication in the genomic sequence of the teleost lineage. Abstract POU genes are characterized by a conserved POU DNA-binding domain, and are
divided into six subclasses. Class III and IV POU genes are predominantly expressed
in the developing nervous system. POU class III genes are critical for several neuronal
cell differentiation and class IV POU genes serve important functions in the
differentiation and survival of sensory neurons. In this study, we attempted to identify
POU genes in the zebrafish and pufferfish genomes by using existing bioinformatics
tools. We analysed the expression of zebrafish brn1.2 and brn3a genes (brn3a1 and
brn3a2)) using whole-mount in situ hybridisation. Similarly to the mammalian
orthologue, zebrafish brn1.2 was widely expressed in the forebrain, midbrain and
hindbrain. During the late stages of embryogenesis, brn1.2 expressing cells were
located in the preoptic area and in the auditory vesicles. Expression of both zebrafish
brn3a genes was detected in trigeminal ganglia, cranial sensory ganglia, sensory
neurons along the dorsal spinal cord, in the anterior and posterior lateral line placodes
(ALL and PLL), retinal ganglion cell layer, optic tectum and in small cell clusters in
the forebrain and hindbrain. Similar to mammalian Brn3a, zebrafish brn3a genes were
detected in the retina and sensory structures. However, different domains of
expression were also observed, namely in spinal sensory neurons, and lateral line
system. 2 2 . CC-BY 4.0 International license
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bioRxiv preprint Introduction Previously only a
partial sequence of brn1.2 was deduced and a detailed developmental expression 3 3 . CC-BY 4.0 International license
available under a
was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made
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was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made
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bioRxiv preprint analysis of this gene was not described (Sampath and Stuart et al., 1996). Therefore,
we have attempted to describe the developmental expression pattern of zebrafish
brn1.2 using whole-mount in situ hybridization. Members of the class IV group of POU genes are characterized by an additional
amino terminal consensus sequence, the POU-IV box (Gerrero et al., 1993; Xiang et
al., 1995; Xiang et al., 1993) and are known to play important roles during
development of the nervous system (Latchman, 1999; Ryan and Rosenfeld, 1997). Drosophila I-POU (Acj6) and Caenorhabditis elegans unc-86 are the invertebrate
homologues of mammalian class IV POU genes (Gruber et al., 1997). The three
mammalian class IV POU genes, POU4F1 (also called Brn-3.0, Brn-3a, RDC1),
POU4F2 (Brn-3.2, Brn-3b), and POU4F3 (Brn-3.1, Brn-3c) display high sequence
similarities and distinct but overlapping expression patterns in the developing CNS
and PNS (Latchman, 1999). Murine Brn-3a is mainly expressed in dorsal root and
trigeminal ganglia, medial habenula, red nucleus and inferior olivary nucleus (Xiang
et al., 1996). Loss of Brn-3a function by targeted deletion in mice causes loss of
neurons in the brain stem and trigeminal ganglion and leads to uncoordinated limb
movement and impaired suckling (Xiang et al., 1996). Human Brn-3a is localised on
chromosome 13 and was found expressed in subsets of peripheral nervous system
tumours (Collum et al., 1992). Human Brn-3a has been reported to activate
expression of p53 in human tumour cells (Budhram-Mahadeo et al., 2002). It has also
been shown that human Brn3a can activate the NGF1-A promoter in primary neurons
and neuronal cell lines (Smith et al., 1999). Zebrafish brn3b and brn3c homologues have recently been characterized, while a
brn3a gene of zebrafish has not been described. 1. Results and discussion 1.1 Phylogenetic analysis of the zebrafish Pou gene class. Studies on vertebrate genome evolution provide increasing evidence of a whole
genome duplication in the teleost lineage. In order to determine the effect of the
proposed teleost genome duplication on the number of POU genes, we searched the
zebrafish and pufferfish genome databases (Zebrafish version 3 and 4 (Zv3, Zv4) and
FUGU 2.0) (www.ensemble.org). Our database search revealed 18 POU genes in
zebrafish and 17 POU genes in pufferfish. To classify the identified POU genes into
different subclasses, multiple sequence alignment was performed using the identified
POU domain sequences and a phylogenetic tree was constructed (Fig 1A). The
phylogenetic tree clustered the different zebrafish and pufferfish genes into the known
six subclasses. Zebrafish and pufferfish genes corresponding to each of the six
subclasses were identified. When compared to the mammalian set of 15 POU genes, it
became eveident that several POU genes were present in two copies, while others
were missing in the two teleost genomes. Surprisingly, genes corresponding to
POU5F2 (Sprm-1) and POU3F4 (brn-4) could not be identified through the genome
search in zebrafish and pufferfish. Perhaps, zebrafish and pufferfish sprm-1 and brn-4
may be secondarily lost during evolution (Fig 1A). Introduction In zebrafish two brn3b cDNAs, a
long and a short isoform, have been cloned and their expression reported in the retina,
optic tectum, migrating posterior lateral line primordium and larval neuromast
(DeCarvalho et al., 2004). Zebrafish brn-3c has also been cloned and was found to be
expressed in the developing otic vesicle (DeCarvalho et al., 2004; Sampath and
Stuart, 1996). In an effort to determine the complete set of POU genes in teleost fish
by search through available genome sequence and EST databases, we identified two
brn3a zebrafish orthologues named brn3a1 and brn3a2,. Similarly to brn3b, brn3a2
was found to be expressed as a long (brn3a2 (l)) and a short (brn3a2(s)) isoform. The 4 . CC-BY 4.0 International license
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oRxiv preprint developmental expression patterns of the two-zebrafish brn3a genes were analyzed by
whole-mount in situ hybridisation (WISH). 1.2 Identification of zebrafish brn1.2 cDNA We identified the zebrafish brn1.2, fugu brn1.2 and zp47 gene by TBLASTN search
of the genomic zebrafish and fugu sequence at wwww.ensemble.org using zebrafish
zp47 (acc.no. P79746). The constructed sequence was used to screen the zebrafish
EST database for zebrafish brn1.2 ESTs. Two ESTS for zebrafish brn1.2 were
identified and sequenced. We found that only one of them contained the complete
open reading frame, therefore we used this clone for further analysis. This clone
contained only a partial fragment of the 5ÚTR (20nt), 1639nt 3ÚTR and 1014nt ORF. Multiple sequence comparison between the zebrafish POU class III proteins Zp47 and
Brn1.2 with the corresponding proteins of other species revealed high conservation in
the POU domain region (Fig 1B). The POU domain sequence of zp47 and brn1.2 are
highly similar to human, mouse and pufferfish. zp47 showed an overall sequence 5 . CC-BY 4.0 International license
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bioRxiv preprint identity of 97.4% to human, mouse and pufferfish while brn1.2 was 95.5% identical
to human and mouse and 96.8% identical to pufferfish. 1.3 Identification of zebrafish brn3a cDNAs. Through
the
zebrafish
genome
search
ENSDARP00000007850
and
ENSDARP00000013808 were identified. Similarity search with Blast program
followed by multiple sequence alignment of POU domain and phylogenetic tree
construction was performed to identify the class of POU genes these hits belonged. The
similarity
analyses
revealed
that
ENSDARP00000007850
and
ENSDARP00000013808 were paralogues to each other and orthologues to
mammalian Brn3a. For the murine Brn3a gene a short and a long cDNA isoform has been characterized
(acc. Nos: AAO60105, AAO60106) (Thomas et al., 2004). In order to explore the
possible existence of zebrafish brn3a1 and brn3a2 isoforms, we attempted to
theoretically construct a long and a short isoform transcript form the available genome
sequence using in silico methods. 1.2 Identification of zebrafish brn1.2 cDNA It was possible to construct a long and a short
isoform for zebrafish brn3a2 (brn3a2(l) and brn3a2(s)) but not for zebrafish brn3a1. The coding region of zebrafish brn3a2(l) was derived from two exons (E1,E2)
separated by an intron (I1). Incontrast, brn3a2(s) was made up from the 3’ region of
intron (I1) and exon E2 (Fig 1D). The genome sequence analyses of the members of
the brn3 family in zebrafish and fugu demonstrated that the mRNA was mainly
derived from two exons and some members of the family also formed shorter
isoforms (Fig 1D). The amino acid sequences from the assembled zebrafish brn3a1, brn3a2(l) and
brn3a2(s) were taken to mine the zebrafish expressed sequence tag database available
at NCBI (www.ncbi.nlm.nih.gov). One EST for zebrafish brn3a1 was identified and
sequenced. The sequence contained 165 nt 5’ UTR and 1133 nt 3’UTR and an open
reading frame encoding 344 amino acids . Two EST’s for zebrafish brn3a2(l) were
identified and sequenced. The sequence data revealed an open reading frame of 366
amino acids and 17nt 5’UTR and 1254nt 3’UTR. Similarly one EST for brn3a2(s)
was identified and sequenced revealing an open reading frame of 367 amino acid and
7nt 5’UTR and 1254nt 3’UTR. The sequences of all Ests matched the in silico
sequence prediction from the zebrafish genome. Similar in silico sequence analyses of
pufferfish genome lead to the identification and construction of pufferfish brn3a1, 6 . CC-BY 4.0 International license
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bioRxiv preprint brn3a2(l) and brn3a2(s) sequences. Sequence Identity of the POU domain region
between the zebrafish brn3a genes and mammalian Brn3a was very high (Human and
Mouse Brn3a is 93.7% identical to zebrafish brn3a1 and 96.2% identical to zebrafish
brn3a2). 1.4 Multiple sequence alignment of Pou class IV sequences. 1.4 Multiple sequence alignment of Pou class IV sequences. Multiple sequence alignment of class IV amino acid sequences revealed a high
conservation of the POU domain region (POU+Linker+Homeodomain) between
different species, but significant conservation was also observed outside of the POU
domain (Fig 1C). A poly-glycine stretch at the N-terminus of mammalian Brn-3b and
in mammalian Brn-3a was seen; this region was absent in the zebrafish and pufferfish
sequences. Distinct region specific for brn3b sequences, mammalian brn3a, brn3b
sequences were observed (Fig 1C). A specific region of 11 amino acid was identified
to be present in fish (zebrafish and pufferfish) brn3a2 and mammalian brn3a. This
region was absent from the fish brn3a1 (Fig 1C). Analysis of the genomic sequence of
Pou class IV genes from human, mouse, zebrafish, and pufferfish showed that the
coding region is derived from two exons. The position of the intron was conserved
among all the species compared. The length of the exons of different brn3 genes in
zebrafish and fugu were very similar and zebrafish brn3a2 and brn3b also formed
shorter isoforms (Fig 1D). 1.2 Identification of zebrafish brn1.2 cDNA Even higher sequence identity was found between zebrafish and pufferfish
class IV POU domain sequences (pufferfish brn3a1 is 97.5% identical to zebrafish
brn3a1 and pufferfish brn3a2 is 97.5% identical to zebrafish brn3a2). 1.5 Developmental expression pattern of zebrafish brn1.2 We performed whole-mount in situ hybridization (WISH) (Hauptmann and Gerster,
1994, 2000) to characterize the spatial expression of brn1.2 in the developing
zebrafish brain. Expression of brn1.2 was first detected at the tail bud stage in an area
that corresponds to the midbrain primordium (Fig 2A). At the 3-, 5- and 10- somite
stages the expression became quite strong in the midbrain region. From the 5-somite
stage on brn1.2 was also detected in the hindbrain and spinal cord (Fig 2B,C,D). A weak expression of brn1.2 transcripts was found in the ventral diencephalic region
at the 10-somite stage (Fig 2D). We compared the expression of brn1.2 with pax2.1
(Krauss et al., 1991) and krx-20 (Oxtoby and Jowett, 1993) in order to locate the
position of brn1.2 transcripts in the midbrain and hindbrain. Two color in situ 7 . CC-BY 4.0 International license
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bioRxiv preprint hybridisation with pax2.1 showed that brn1.2 was located anterior to pax2.1
expression domain indicating that brn1.2 expression domain was located in the
anterior midbrain (Fig 2E). Co-labelling studies with krx-20 revealed that brn1.2
expression in the hindbrain is confined to r3 and r5 (Fig 2G,H). From 24hpf on, brn1.2 showed a widespread expression in the CNS. In the forebrain,
brn1.2 was detected in the diencephalon, epiphysis, ventral thalamus, dorsal thalamus
and pretectum while the telencephalon was devoid of brn1.2 expression. At 1dpf,
brn1.2 was expressed throughout the hindbrain with strong expression levels in r3 and
r5 (Fig 2I). At 30hpf a lamda shaped expression domain with two arms were
observed in the diencephalon (Fig 2J). To define the position of the two arms more
precisely we performed whole-mount in situ hybridisation to visualize brn1.2
followed by immunohistochemistry to detect acetylated α-tubulin (Piperno and
Fueller, 1985). 1.5 Developmental expression pattern of zebrafish brn1.2 One arm of the lamba domain was found to be lying in-between the
optic recess and the tract of the postoptic commissure. The other arm extending from
the ventral thalamus was broader in shape and was widespread across the tract of the
commissure of the posterior tuberculum (Fig 2J). At 36hpf and 2dpf the expression of brn1.2 became more complex in the brain (Fig. 2K,L). At 2dpf, few brn1.2 positive cells were found scattered in the telecephalon
(Fig. 2L). Additionally, brn1.2 expression was detected for the first time in the
auditory vesicles at this stage of development (Fig. 2F). Interestingly, at 36hpf and
48dpf few cells expressing brn1.2 were concentrated in the preoptic area of the
forebrain (Fig. 2K & L). The mammalian neuro-hypophyseal hormones oxytocin and
arginine vasopressin are represented as isotocin and vasotocin in fish. Two color in
situ hybridization with zebrafish isotocin-neurophysin (itnp) and vasotocin-
neurophysin (vt) was performed to determine whether brn1.2 was co-expressed with
itnp and vt. In zebrafish, itnp mRNA is expressed as bilateral cell clusters in the dorsal
preoptic region of the brain (Unger and Glasgow, 2003). Zebrafish vt is first detected
at 24hpf in the anterior diencephalon (not shown). At 48 hpf, vt is expressed as
bilateral cell clusters in the preoptic area and in the ventral hypothalamus (Fig. 3E). Co-labelling experiments performed on 48hpf embryos revealed that brn1.2, itnp and
vt expressing cells are located in the same region in the preoptic area (Fig. 3A-F). In a
separate study it was demonstrated that the isotocin expressing cells are co-distributed
with corticotropin-releasing hormone (CRH) producing cells in the preoptic region of 8 . CC-BY 4.0 International license
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bioRxiv preprint the forebrain (Fig. 3G-I) (Chandrasekar et al., 2007). Therefore it is likely that the
CRH expression domain lies within the brn1.2 expression domain in the preoptic area. 1.5 Developmental expression pattern of zebrafish brn1.2 In mammals, so far, four transcription factors, namely, Sim1, Arnt 2, Otp and Brn-2
have been known to be required for the development of specific neuroendocrine cell
types located within the paraventricular nuclei (PVN) and supraoptic nuclei (SON) of
the hypothalamus. Sim1 and its heterodimerization partner Arnt2 belong to the bHLH-
PAS family of transcription factors. Both Sim1 and Arnt2 are critical for the
development of the neurosecretory cell types that produce oxytocin (OT), arginine
vasopressin (AVP), corticotropin-releasing hormone (CRH), thyrotropin-releasing
hormone (TRH) and somatostatin (Keith et al., 2001; Michaud et al., 2000; Michaud
et al., 1998). Brn-2 is the downstream target of Sim1 and is required for the terminal
differentiation of OT, AVP and CRH expressing neurons (Nakai et al., 1995;
Schonemann et al., 1995). Brn-2 also regulates the transcription of CRH by binding
to its promoter (Li et al., 1993). The homeobox gene orthopedia (Otp) function in
parallel with Sim1 and both are required for the maintenance of Brn-2 expression
(Acampora et al., 1999). A recent study in zebrafish shows that sim1 and otp are
required for isotocin cell development and they act in parallel to direct the
differentiation of isotocin cells in zebrafish (Eaton and Glasgow, 2006; Eaton and
Glasgow, 2007). Considering our results from the co-expression studies we are
tempted to speculate that similar to the mammalian Brn-2 gene, zebrafish brn1.2
could also have a role in the differentiation of isotocin, vasotocin and CRH producing
cell types. In conclusion, we have analyzed the developmental expression pattern of brn1.2 in
the embryonic brain. Our results show that zebrafish brn1.2 exhibits a very complex
expression pattern in the developing brain very much similar to its paralog zp47
(Hauptmann and Gerster, 2000a). Overlapping expression domains of brn1.2, itnp and
vtnp in the preoptic area suggests a possible role for brn1.2 in the development of
specific neuroendocrine cell types. 1.6 Expression of zebrafish brn3a genes during development. From the 7 somite stage onwards to 15 somite stage, brn3a1 expression was
also found in the forming anterior and posterior lateral line placodes (ALL and PLL)
(Fig. 4J,K,M,N, 5I) in addition to the longitudinal stripes along the developing spinal
cord. At 25 hpf, brn3a1 expression had spread to various cranial sensory placodes,
including anterior dorsal (AD), anterior ventral (AV), facial (F), middle lateral line
placode (M) and posterior lateral line placode (PLL) Fig. (5A-C) and remained
unchanged at 30 hpf and 36h pf (Fig 5F, G, J, K). By 48hpf, brn3a1 expression in
cranial ganglia was decreased and restricted to the neuromast of ALL and PLL (Fig
5L). Apart from these regions, brn3a1 was also expressed in cluster of cells in the
forebrain and hindbrain (fig. 5J). The expression of brn3a1 in Rohan Beard neurons
was transient and disappeared by 30 hpf. The retinal ganglion cells (RGC) are the first neurons to become post mitotic (Brown
et al., 2001; Hu and Easter, 1999; Kay et al., 2001; Wang et al., 2001). The laminar
pattern of the eye is formed by 60hpf (Hu and Easter, 1999) and the RGC’s are the
first neurons to be born (Brown et al., 2001; Hu and Easter, 1999; Kay et al., 2001;
Wang et al., 2001) and require Ath5 expression for its determination (Brown et al.,
2001; Kay et al., 2001; Liu et al., 2000; Liu et al., 2001; Wang et al., 2001). In
mammals Brn3a is expressed in the RGC cells (Xiang et al., 1996). Zebrafish brn3a1
was found to be expressed in the ventronasal region of the retina at 25 hpf (Fig 5D). Retinal brn3a1 expression spread dorsally and temporally and throughout the RGC
layer by 36hpf (Fig. 5J). The three retinal layers (ganglion cell layer, inner nuclear
layer and outer nuclear layer) are clearly visible at 48hpf, and intense expression of
brn3a1 was seen throughout the RGC layer (Fig 5M-N). The early expression profile
of zebrafish brn3a1 indicated that brn3a1 may precede the expression of brn3b and
brn3c. The sequence of expression of Brn3a, Brn3b and Brn3c is different in mouse
where the expression of Brn3b precedes the expression of Brn3a and Brn3c (Xiang,
1998). Axonal projections from the RGC’s exit the retina by 34hpf and innervate
optic tectum by 72hpf (Burrill and Easter, 1995). Expression of brn3a1 was also
found in the optic tectum. 1.6 Expression of zebrafish brn3a genes during development. Whole-mount in situ hybridization was used to study the developmental expression
profile of brn3a1 and brn3a2. Fluorescein labelled neuroD was used to identify the
sensory structures (Blader et al., 1997; Kim et al., 1997; Korzh et al., 1998). Initial
expression of brn3a1 was detected at the tailbud stage. brn3a1 expression was 9 . CC-BY 4.0 International license
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bioRxiv preprint confined to the trigeminal placode and to longitudinal stripes along the lateral aspects
of the neural plate, presumably Rohon beard sensory neuron precursors (Fig. 4A-C,
5H). This expression pattern stayed essentially the same up to the 5 somite stage (Fig. 4D-I). From the 7 somite stage onwards to 15 somite stage, brn3a1 expression was
also found in the forming anterior and posterior lateral line placodes (ALL and PLL)
(Fig. 4J,K,M,N, 5I) in addition to the longitudinal stripes along the developing spinal
cord. At 25 hpf, brn3a1 expression had spread to various cranial sensory placodes,
including anterior dorsal (AD), anterior ventral (AV), facial (F), middle lateral line
placode (M) and posterior lateral line placode (PLL) Fig. (5A-C) and remained
unchanged at 30 hpf and 36h pf (Fig 5F, G, J, K). By 48hpf, brn3a1 expression in
cranial ganglia was decreased and restricted to the neuromast of ALL and PLL (Fig
5L). Apart from these regions, brn3a1 was also expressed in cluster of cells in the
forebrain and hindbrain (fig. 5J). The expression of brn3a1 in Rohan Beard neurons
was transient and disappeared by 30 hpf. confined to the trigeminal placode and to longitudinal stripes along the lateral aspects
of the neural plate, presumably Rohon beard sensory neuron precursors (Fig. 4A-C,
5H). This expression pattern stayed essentially the same up to the 5 somite stage (Fig. 4D-I). 2.1 Zebrafish maintenance Wild type Zebrafish were maintained at 28.5 °C and under standard conditions of
feeding, care and egg collection. Embryos were collected by natural mating . The
collected embryos were staged according to Kimmel et al. (1995). Embryos were
staged in hours post fertilization (hpf) and days post fertilization (dpf), and embryo
stages older than 24hpf were subjected to 0.03% phenylthiourea treatment. The
collected embryos were fixed at different stages in 4% paraformaldehyde overnight
and then washed with phosphate buffered saline containing 0.1% Tween-20 (PBSTw)
and stored in 100% methanol until usage for in situ hybridization. 1.6 Expression of zebrafish brn3a genes during development. Tectal expression of brn3a1 was detected at 30 hpf (Fig 5F) 10 . CC-BY 4.0 International license
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bioRxiv preprint and fully established by 48 hpf (Fig 5L-M), Zebrafish brn3a2 was very similarly
expressed as brn3a1. Expression of brn3a2(l) in the trigeminal placode and presumed Rohon Beard sensory
neurons started around the 7 somite stage (Fig. 6A,B) and became stronger by 10
somite stage (Fig 6C,D). Expression in the trigeminal ganglion ceased at 24 hpf. Expression of brn3a2(l) was detected in the anterior lateral line (ALL) and posterior
lateral line (PLL) by 15 somites and continued to be expressed there until 48hpf (Fig
6E-J, 7A-M). Clusters of cells expressing brn3a2(l) were also seen in the forebrain,
hindbrain (Fig 7A,D,G,I) and along the dorsal cells of the spinal cord (Fig 7C,F). The
expression in the spinal cord goes down by 48hpf (Fig 7M).In the midrain tectum and
RGC layer, brn3a2(l) expression was established by 48hpf (Fig 7I,J,L,M). In
summary, apart from expression of both brn3a genes in the RGC layer and sensory
ganglia, expression of these genes was also detected in sensory neurons along the
dorsal spinal cord and in small cell clusters within the forebrain and hindbrain. Similar to zebrafish brn3b (DeCarvalho et al., 2004), brn3a1 and brn3a2(l) were also
detected in the lateral line system. 2.2 Sequence analysis Zebrafish and Pufferfish genome sequence databases were mined to identify and
construct POU class genes. Mammalian POU genes were used as query. A database
using Filemaker Pro software was developed to collect and maintain the assembled
POU sequences from zebrafish and pufferfish as well as published sequences from
other species. The assembled sequences were translated and POU, Linker region and 11 . CC-BY 4.0 International license
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bioRxiv preprint Homeodomain were extracted and multiple sequence alignments were performed with
the Clustal X program (Thompson et al., 1997). A neighbour joining tree with
bootstrap value of 1000 was constructed based on the multiple sequence alignment
obtained in the Clustal X program. The neighbour joining tree helped to cluster the
newly found zebrafish and pufferfish sequences to their mammalian counterparts. The
tree was viewed with NJ plot software (Perriere and Gouy, 1996). Zebrafish brn1.2, brn3a1 and brn3a2 genomic sequences (ENSDARG00000023662,
ENSDARP00000007850 and ENSDARP00000013808) were identified using
zebrafish zp47 for brn1.2 and murine Brn3a protein sequences (acc No P79746 and
acc. Nos. S69350) as query against the ongoing zebrafish genome project (Zv3) using
TBLASTN search. The long and the short isoforms of brn3a2 were assembled
manually using conceptual translation. Amino acid sequences of brn3a1, brn3a2(l),
brn3a2(s) were obtained by conceptual translation. The constructed zebrafish protein
sequence of brn1.2, brn3a1, brn3a2(l) and brn3a2(s) were used as query to identify
corresponding cDNAs from the zebrafish EST database. The database search revealed
two EST’s for brn1.2 (LLKMp964N034Q2, IMAGp998L14324Q3), two EST’s for
brn3a1 (IMAGp998K1214311Q3, IMAGp998I1314318Q3), one EST for brn3a2(l)
(IMAGp998P1314603Q3) and one EST for brn3a2(s) (IMAGp998A1414316Q1). The ESTs were purchased from the German Resource Center for Genome Research
(www.rzpd.de), fully sequenced by MWG and submitted to GenBank (acc. Nos.). The zebrafish Brn3a1 and Brn3a2 protein sequences were compared to the Brn3
sequences of other species. 2.2 Sequence analysis Multiple sequence alignments were performed with the
Clustal X program (Thompson et al., 1997). The accession numbers for the used
sequences were as follows: AAU13951, NP_620395, NP_620394 of (Mm) Mus
musculus, NP_006228, NP_002691, NP_004566 (Hs) Homo sapiens, NP_571353,
NP_997972, ENSDARP00000007850, ENSDARP00000013808 (Dr) Danio rerio,
SINFRUP00000143813,
SINFRUP00000162286,
SINFRUP00000133796,
SINFRUP00000133155 (Fr) Fugu rubripes. 2.3 Whole-mount in situ hybridisation (WISH) Single color and two-color WISH was performed as described previously (Hauptmann
and Gerster, 1994; 2000). brn1.2, brn3a1 and brn3a2(l) specific digoxigenin-labeled
antisense riboprobes were synthesized by KpnI (ASP718) linearization and T7
polymerase transcription. brn1.2, brn3a1 and brn3a2(l) transcripts were visualized 12 . CC-BY 4.0 International license
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bioRxiv preprint with anti digoxigenin-alkaline phosphatase conjugates and BCIP/NBT or BM purple
substrates (Roche). For two color WISH krx-20 (Oxytoby and Jowett, 1993), neuroD
(Blader et al., 1997; Kim et al., 1997; Korzh et al., 1998) and pax2.1 (Krauss et al.,
1991) fluorescein labelled probe was used. The fluorescein labelled probe was
detected with anti-fluorescein-alkaline phosphatase conjugates and Fast Red substrate. A Zeiss Axioplan DIC compound microscope and a Leica MZ16 dissecting
microscope were used to view the embryos. Embryos were photographed with a Zeiss
Axiocam digital camera and Leica DFC300FX digital camera. Image processing and
composite figures were assembled with Adobe Photoshop 7.0 software. 2.4 Immunohistochemistry Some embryos processed for WISH to visualize brn1.2 were further processed for
immunohistochemical detection of the position of the primary axons using a
monoclonal antibody against acetylated alpha-tubulin (Piperno and Fuller, 1985). The
experiments were performed as described previously (Hauptmann and Gerster, 1996). Axon tracts were visualized in red using Fast red as alkaline phosphatase substrate. Reference: Acampora, D., Postiglione, M.P., Avantaggiato, V., Di Bonito, M., Vaccarino,
F.M., Michaud, J., Simeone, A., 1999. Progressive impairment of developing
neuroendocrine cell lineages in the hypothalamus of mice lacking the
orthopedia gene. Genes dev. 13, 2787-2800. Alvarez-Bolado, G., Rosenfeld, M.G., Swanson, L.W., 1995. Model of forebrain
regionalization based on spatiotemporal patterns of POU-III homeobox gene
expression, birthdates, and morphological features. J.Comp.Neurol. 355,
237-295. Bermingham, J.R.Jr., Scherer, S., O’Connell, S., Arroyo, E., Kalla, K.A., Powell,
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this version posted May 27, 2021. Figure 1: POU Family tree and sequence analyses of POU class III and IV. a) Phylogenetic tree showing the clustering of new zebrafish and pufferfish POU
sequences into six different classes. Multiple sequence alignment of POU domain and
phylogenetic tree was done with CLUSTAL X software and the phylogenetic tree was
viewed with NJ plot software. Zebrafish oct2b could not be fully assembled and hence
not included in the tree. B) Multiple sequence alignment of mammalian brn2 with
zp47 and brn1.2 from zebrafish and fugu. The POU-specific (POU-S), linker and the
POU-homeodomain (POU-Hs) are demarcated below the sequence and showed high
degree of conservation. C) Multiple sequence alignment of POU class IV protein
sequences. The arrowhead indicates the intron position. Arrows indicate POUIV box,
POU specific, linker and homeobox domain region. The black box indicates region
specific for mammalian brn3a class and the green box indicates region specific to
mammalian Brn3a and fish brn3a2, brn3a1 of zebrafish and pufferfish lacks this
region. The red box indicated the glycine rich region specific to mammalian Brn3b
and the blue box indicates region specific for Brn3b. D) Zebrafish brn3 family gene
structure. The arrows indicate that all members of brn3 form mRNA with two exons
(lon form) and some of them form a shorter isoform. Zebrafish brn3b and brn3a2
forms a longer (l) and shorter (s) isoforms, the full length coding sequence is made up
of two exons and the shorter isoform is made up of one exon and a part of intron. The
length of nucleotides (nt) of the exons and the part of the intron from different brn3
sequences of zebrafish and fugu is indicated below. Reference: Targeted deletion of
the mouse POU domain gene Brn-3a causes selective loss of neurons in the
brainstem and trigeminal ganglion, uncoordinated limb movement, and
impaired suckling. Proc Natl Acad Sci U S A 93, 11950-11955. Xiang, M., Zhou, L., Macke, J.P., Yoshioka, T., Hendry, S.H., Eddy, R.L.,
Shows, T.B.Nathans, J., 1995. The Brn-3 family of POU-domain factors:
primary structure, binding specificity, and expression in subsets of retinal
ganglion cells and somatosensory neurons. J Neurosci 15, 4762-4785. g
g
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Xiang, M., Zhou, L., Peng, Y.W., Eddy, R.L., Shows, T.B.Nathans, J., 1993. Brn-
3b: a POU domain gene expressed in a subset of retinal ganglion cells. Neuron 11, 689-701. Zwart, R., Broos, L., Grosveld, G., Meijer, D., 1996. The restricted expression
pattern of the POU factor Oct-6 during early development of the mouse
nervous system. Mech. Dev. 54, 185-194. 17 . CC-BY 4.0 International license
available under a
was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made
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bioRxiv preprint Figure 4: Early expression of zebrafish brn3a1. Anterior to the left. Lateral (A,D,G,J,M) and dorsal (B,C,E,F,H,I,K,L,N,O) views are
shown. Expression is observed in Rohon beard neurons (Rb) and in the trigeminal (t),
anterior lateral line ganglia (a), posterior lateral line ganglia (p). Figure 2: Expression of brn1.2 in the developing zebrafish brain. Embryos were subjected to WISH to visualize brn 1.2 in blue, pax2.1 in red (E) and
krx-20 in red (G, H). Embryo in panel J was subjected to immunohistochemistry to
visualize the primary axons in red after detecting brn1.2 in blue via WISH. Panels A,
B, C, D, G, I, J, K, L show lateral views with the anterior to the left. Panels E, F, H
show dorsal views with the anterior to the left. Developmental stages are indicated on
the right hand corner of each panel. Arrowhead in panel K and L indicate the preoptic
region of the brain. Abbreviations: ce, cerebellum, dt, dorsal thalamus, h, hindbrain,
hy, hypothalamus, m, midbrain, ov, otic vesicle, pr, pretectum, r3, rhombomere 3, r5, 18 . CC-BY 4.0 International license
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Rxiv preprint . CC-BY 4.0 International license
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bioRxiv preprint rhombomere 5, sc, spinal cord, tc, tectum, tg, tegmentum, t, telencephalon, vt, ventral
thalamus. Figure 3: Localization of brn1.2 in the preoptic area of the hypothalamus. Two-color in situ hybridization was performed to examine co-expression of brn 1.2
with itnp and vt and also crh with itnp. Embryos were subjected to WISH to visualize
brn 1.2 in blue (A, C, D, F), itnp in blue (B, H) and in red (C, I), vt in blue (E) and in
red (F) and crh in blue (G, I). Dorsal views of 48hpf embryos are shown (A-I). Anterior is facing up. itnp and vt expression domain in the preoptic area are indicated
by arrowheads (B, D). Arrows in (C, F) indicates the localization of itnp and vtnp
within brn1.2 expression domain in the preoptic area. Abbreviations: po, preoptic
area. Figure 5: Late spatial expression of zebrafish brn3a1 In all panels, anterior is to the left. Lateral (D, E, F, H, I, J, K, L), dorsal (A, M, N)
and oblique lateral (B, C, G) views of embryos are shown. Expression is seen in the
anterior dorsal (ad), anterior ventral (av), glossopharyngeal (g), posterior lateral line
(p), rohan beard neurons (Rb), optic tectum (ot), ganglion cell layer (GCL),. Images H
and I show expression in trigeminal ganglia (t), Arrowheads indicate expression in
ventronasal region (image D), cluster of hindbrain cells (image J), neuromast (image
L). Zebrafish brn3a1 is stained in blue and zebrafish neuroD in red (C, G, H, I, K). Figure 6: Expression of zebrafish brn3a2(l) from 7 to 20 somite stage. Images present lateral (A, C, E, G, I) and dorsal (B, D, F, H, J) views of the embryos. The figures are arranged with anterior to the left. Arrowheads indicate trigeminal
ganglia (A, C, E) and otic placode (G, H, I). Arrows mark dorsal cells of the
spinalcord. Expression is seen in the trigeminal ganglia (t), dorsal cells of the spinal 19 . CC-BY 4.0 International license
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bioRxiv preprint cord (represented by arrows), anterior lateral line (a), posterior lateral line (p). Eye is
represented by (e). Figure 7: Expression of zebrafish brn3a2(l) from 25 hpf - 48 hpf . Embryos are arranged with anterior to the left. Expression is seen in anterior dorsal
(ad), anterior ventral (av), otic (o), glassopharyngeal (g), posterior lateral line (p),
optic tectum (ot), ganglion cell layer (GCL), dorsal cells of the spinal cord
(represented by arrows), cluster of cells of the fore-, mid-, and hind brain (represented
by double sided arrows). Lense of the eye is represented by (L). Expression of
zebrafish brn3a2(l) is visualized in blue and zebrafish neuroD is shown in red. 20 . CC-BY 4.0 International license
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Latin
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In‐depth echocardiographic analysis of left atrial function in healthy adults using speckle tracking echocardiography and volumetric analysis
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Echocardiography
| 2,018
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cc-by
| 6,549
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Received: 13 August 2018 | Revised: 25 September 2018 | Accepted: 27 September 2018
DOI: 10.1111/echo.14174 Received: 13 August 2018 | Revised: 25 September 2018 | Accepted: 27 September 2018
DOI: 10.1111/echo.14174 3 August 2018 | Revised: 25 September 2018 | Accepted: 27 September 2018 DOI: 10.1111/echo.14174 O R I G I N A L I N V E S T I G AT I O N O R I G I N A L I N V E S T I G AT I O N wileyonlinelibrary.com/journal/echo | 1 Roderick W. J. van Grootel MD1
| Mihai Strachinaru MD1 | Myrthe E. Menting PhD2 |
Jackie McGhie MSc1 | Jolien W. Roos-Hesselink PhD1 | Annemien E. van den Bosch PhD1 Roderick W. J. van Grootel MD1
| Mihai Strachinaru MD1 | Myrthe E. Menting PhD2 |
Jackie McGhie MSc1 | Jolien W. Roos-Hesselink PhD1 | Annemien E. van den Bosch PhD1 Roderick W. J. van Grootel MD1
| Mihai Strachinaru MD1 | Myrthe E. Menting PhD2 |
Jackie McGhie MSc1 | Jolien W. Roos-Hesselink PhD1 | Annemien E. van den Bosch PhD1 1Department of Cardiology, Erasmus MC,
Rotterdam, The Netherlands
2Department of Radiology, Erasmus MC,
Rotterdam, The Netherlands 1Department of Cardiology, Erasmus MC,
Rotterdam, The Netherlands
2Department of Radiology, Erasmus MC,
Rotterdam, The Netherlands 1Department of Cardiology, Erasmus MC,
Rotterdam, The Netherlands Purpose: Left atrial (LA) dilatation is predictive for complications in a multitude of
cardiac diseases; therefore, adequate assessment is essential. Technological ad-
vances have made it possible to quantify LA function with Speckle Tracking
Echocardiography (STE); however, there are currently no recommendations for nor-
mal values with regard to LA function. We aimed to assess LA myocardial and volu-
metric function in a healthy cohort and investigate correlations with baseline
characteristics. 2Department of Radiology, Erasmus MC,
Rotterdam, The Netherlands Correspondence Conclusion: This study provides normal values for the three phasic functions of the
LA, assessed with STE and volumetric function. Our results suggest the need for age-
specific reference ranges, and normal values for this cohort have been calculated. K E Y W O R D S Conclusion: This study provides normal values for the three phasic functions of the
LA, assessed with STE and volumetric function. Our results suggest the need for age-
specific reference ranges, and normal values for this cohort have been calculated. Correspondence Correspondence
Annemien E. van den Bosch, Department
of Cardiology, Erasmus University Medical
Center, Rotterdam, The Netherlands. Email: a.e.vandenbosch@erasmusmc.nl Methods: This prospective cohort study included 147 (aged 20–72) healthy individu-
als and assessed LA volumetric function using maximum, minimum and pre-a-wave
volumes and myocardial function using reservoir function using peak strain in LA
relaxation (LA-strain), conduit function using peak strain rate in early LA contraction
(LA-SRe) and pump function using peak strain rate in late LA contraction (LA-SRa). Results: Mean LA-strain was 39.7 ± 6.2%, LA-SRe −2.78 ± 0.62 s−1 and LA-SRa
−2.56 ± 0.62 s−1. Subjects were divided into 5 age decades (each 50% female). LA-
strain and LA-SRe were lower in the oldest groups, whereas LA-SRa was higher. LA-
SRa was higher in males(−2.69 ± 0.68 s−1 vs −2.42 ± 0.52 s−1). Age-specific values are
provided. Age proved to be an independent predictor for LA-SRa after correction for
blood pressure and heart rate. LA expansion index and passive emptying fraction
decreased with age, while active emptying fraction increased with age. LA maximum
volume did not increase with age. Methods: This prospective cohort study included 147 (aged 20–72) healthy individu-
als and assessed LA volumetric function using maximum, minimum and pre-a-wave
volumes and myocardial function using reservoir function using peak strain in LA
relaxation (LA-strain), conduit function using peak strain rate in early LA contraction
(LA-SRe) and pump function using peak strain rate in late LA contraction (LA-SRa). Funding information
This manuscript is supported by a grant from
the ErasmusMC Thorax Foundation. Funding information
This manuscript is supported by a grant from
the ErasmusMC Thorax Foundation. (LA SRe) and pump function using peak strain rate in late LA contraction (LA SRa). Results: Mean LA-strain was 39.7 ± 6.2%, LA-SRe −2.78 ± 0.62 s−1 and LA-SRa
−2.56 ± 0.62 s−1. Subjects were divided into 5 age decades (each 50% female). LA-
strain and LA-SRe were lower in the oldest groups, whereas LA-SRa was higher. LA-
SRa was higher in males(−2.69 ± 0.68 s−1 vs −2.42 ± 0.52 s−1). Age-specific values are
provided. Age proved to be an independent predictor for LA-SRa after correction for
blood pressure and heart rate. LA expansion index and passive emptying fraction
decreased with age, while active emptying fraction increased with age. LA maximum
volume did not increase with age. K E Y W O R D S atrial function, left atrium, myocardial function, reference values, speckle tracking
echocardiography All authors take responsibility for all aspects of the reliability and freedom from bias of the data presented and their discussed interpretation. Echocardiography. 2018;1–10. wileyonlinelibrary.com/journal/echo | 1
All authors take responsibility for all aspects of the reliability and freedom from bias of the data presented and their discussed interpretation. This is an open access article under the terms of the Creative Commons Attribution License, which permits use, distribution and reproduction in any medium,
provided the original work is properly cited. © 2018 The Authors. Echocardiography Published by Wiley Periodicals, Inc. he terms of the Creative Commons Attribution License, which permits use, distribution and reproduction in any medium,
y cited. wileyonlinelibrary.com/journal/echo | 1 Echocardiography. 2018;1–10. 2 | METHODS • Left atrial expansion index = TEV/LA minimum volume. Left atrial conduit function: Left atrial conduit function: 2 |
1 | INTRODUCTION van GROOTEL et al. 2.1 | Study design and population • Left atrial passive emptying volume (PEV) = LA maximum vol-
ume–LA pre-a-wave volume. Healthy volunteers were enrolled in 2014–2015 for this prospective
cross-sectional study and stratified into 5 age groups: 20–29, 30–39,
40–49, 50–59, 60–72 years (n ≥ 28 for each group, each 50% female). Details have been published earlier.13 Briefly, subjects were recruited
via advertisement and underwent a questionnaire regarding medi-
cal history and current health status, physical examination, venous
blood sampling, 12-lead ECG, and an echocardiogram. Subjects were
excluded if one or more of the following criteria were present: (prior)
cardiovascular disease, systemic disease, the finding of cardiac abnor-
malities during the examination (including any valvular abnormalities)
or risk factors including hypertension (cutoff values: 140/80 mm Hg),
diabetes mellitus, impaired renal function or hypercholesterolemia. In
case of elevated blood pressures, follow-up measurements were per-
formed by the general practitioner to confirm this. If follow-up revealed
normal blood pressures, the subject was included. Reasons for exclu-
sion due to abnormalities on ECG were conduction disorders: Atrial
fibrillation, right or left bundle branch block, prolonged PR interval,
and prolonged QRS. Professional athletes, people who were morbidly
obese (BMI > 40 kg/m2), having breast implants or pregnant were ex-
cluded. This study was carried out according to the principles of the
Declaration of Helsinki and approved by the local ethics committee. Written informed consent was obtained from every participant. • Left atrial passive emptying fraction = PEV/LA maximum volume. Left atrial pump function: Left atrial pump function: • Left atrial active emptying volume (AEV) = LA pre-a-wave vol-
ume–LA minimum volume. • Left atrial active emptying fraction = AEV/LA pre-a-wave volume. • Left atrial active emptying fraction = AEV/LA pre-a-wave volume. All reported volumes are indexed for BSA. Since the Dutch popula-
tion is the tallest in the world,15 we indexed for an allometric function
of height2.7.16 LV diastolic function was assessed according to the EAE-
ASE recommendations for diastolic function.17 2.3 | Volumetric analysis In order to assess LA maximum volume, the revised recommenda-
tions for cardiac chamber quantification were used.1 LA minimum
volume (measured at mitral valve closure) and pre-a-wave volume
(one frame before atrial contraction starts) were measured using
the biplane method-of-disk summation technique (Figure 1) and the
area-length method. All measurements were performed with Xcelera
(Philips Medical Systems). Using the above volumes, LA function can
be assessed as follows: The clinical value of LA volumetric and myocardial function has
not been translated into recommendations to be used in clinical
practice. This is in part because solid reference ranges have not been
established, neither for volumetric measurements4–6 nor for strain
measurements.7–12 Left atrial reservoir function: Therefore this study aims to provide reference ranges for LA
myocardial and volumetric function in healthy adults and investi-
gates the impact of age, sex, and BSA. • Left atrial total emptying volume (TEV) = LA maximum volume–
LA minimum volume. • Left atrial total emptying volume (TEV) = LA maximum volume–
LA minimum volume. • Left atrial total emptying fraction = TEV/LA maximum volume. 2.2 | Echocardiographic image acquisition Echocardiographic studies were performed by one of two experi-
enced sonographers. Two-dimensional grayscale harmonic images
were obtained in the left lateral decubitus position using a iE33
or EPIQ7 ultrasound system (Philips Medical Systems, Best, The
Netherlands) equipped with a transthoracic broadband X5-1 matrix
transducer (composed of 3040 elements with 1–5 MHz). The LA
was acquired in dedicated apical four- and two-chamber views with
frame rates ≥ 50 frames/s.14 At least 2 consecutive heartbeats were
recorded. Assessment of the left atrium (LA) is gaining increased attention as it
reflects the severity and chronicity of many different conditions and
is associated with significant morbidity and mortality.1 In the absence of valvular disease, LA volume reflects the
presence of elevated left ventricular (LV) diastolic pressure and
dysfunction.2 LA maximum volume is the most often described pa-
rameter, but LA phasic function could be a more sensitive measure
in patients with heart failure, valvular disease, and atrial fibrilla-
tion. LA function can be assessed by volumetric measurements
and includes reservoir, conduit, and pump function which can
be expressed as absolute volumes or fractions. Recently speckle
tracking echocardiography (STE) has been validated for LA mea-
surements3; LA strain and strain rate can be measured which re-
flect LA myocardial function without the need for geometrical
assumptions. 2.4 | Speckle tracking analysis Offline analysis was performed using QLAB10 (Philips Medical
Systems). LA myocardial function was assessed according to an earlier
published guideline and a recent validation study,18,19 using the api-
cal four- and two-chamber views and the R-wave as reference point. LA reservoir function can be expressed as peak strain (LA-strain) and van GROOTEL et al. FI G U R E 1 Example of the volumetric
measurements using the method-of-disk
summation technique in dedicated apical
four- and two-chamber views. From
top to bottom: the left atrial minimum,
maximum, and pre-a-wave volume van GROOTEL et al. 3 3.3 | Correlations Besides age, LA reservoir function did not correlate with baseline
characteristics (Table 6). Conduit function decreased slightly with
increasing weight, BMI, and blood pressure, while pump function in-
creased with BMI, heart rate, and blood pressure. Conduit and pump
function correlated well with LV diastolic parameters. LA-strain, LA-
Sre, and LA-Sra correlated well with their volumetric counterparts,
LA expansion index and passive and active emptying fraction(r:
0.471 P: <0.001, r: −0.613 P: <0.001, r: −0.541 P: <0.001). 4 | van GROOTEL et al. LA conduit and pump function with LA strain rate. The negative peak
in early diastole represents LA conduit function (LA-SRe) and the
negative peak in late diastole represents LA pump function (LA-SRa)
(Figure 2). 3 | RESULTS Out of the 155 eligible subjects, 147 subjects were included (me-
dian age 43.8 [32.7–56.2], 50% female) into 5 age groups (n ≥ 28 per
group). In total, 8 subjects were excluded: 2 due to having breast
implants, 2 subjects had valvular pathology, 1 had a surgically closed
ductus, 1 had hypertension, 1 with morbid obesity, and 1 with a right
bundle branch block. Table 1 shows the baseline characteristics of
the study population. 2.5 | Statistical analysis Normal distribution was checked using histograms and Shapiro-Wilk
tests. Depending on data distribution, continuous data are presented
as mean ± standard deviation (SD) or median with first-third quar-
tile. Categorical data are presented as frequencies and percentages. Student’s t-test, the Mann–Whitney U test, chi-square test or Fisher’s
exact test was used when appropriate. Correlations between LA meas-
urements and baseline characteristics were assessed using the Pearson
correlation test. When a variable was statistically significant and did not
show collinearity with another variable, they were included in a multi-
variable linear regression model. In case of collinearity, the one with
the strongest correlation was selected. Statistical analysis was done
with the Statistical Package for Social Sciences version 21 (IBM DPDD
Statistics for Windows, Armonk, NY, USA). A P-value of ≤0.05 (two-
sided) was considered statistically significant. 3.2 | LA myocardial function Left atrial-strain analysis results are shown in Table 4, including the
feasibility, which ranged from 78.2% to 80.3%. LA-strain was low-
est in the oldest age groups as was LA-Sre, but LA-Sra increased
with age (Figure 3). LA-Sra was significantly more negative in men
than women, no sex-dependent differences were found in LA-strain
and LA-Sre (Figure 4). The limits of normal (mean ± 2 SD) were also
calculated (Table 5). Interobserver (RG, MS) agreement was assessed for LA volumet-
ric and strain parameters using Bland–Altman plots in a sample of 30
random subjects.20 Measurements were done while being blinded
for the other measurement approximately 1 month later. Agreement
between two measurements was determined as the mean of the
difference ± 1.96 SD. | 3 | 3 FI G U R E 1 Example of the volumetric
measurements using the method-of-disk
summation technique in dedicated apical
four- and two-chamber views. From
top to bottom: the left atrial minimum,
maximum, and pre-a-wave volume FI G U R E 1 Example of the volumetric
measurements using the method-of-disk
summation technique in dedicated apical
four- and two-chamber views. From
top to bottom: the left atrial minimum,
maximum, and pre-a-wave volume
FI G U R E 2 Example of left atrial (LA)-strain measurement in a apical four-chamber view. LA-strain(A) is measured as the maximum strain
value during atrial diastole. Conduit (B) and pump (C) function are measured using strain rate FI G U R E 1 Example of the volumetric
measurements using the method-of-disk
summation technique in dedicated apical
four- and two-chamber views. From
top to bottom: the left atrial minimum,
maximum, and pre-a-wave volume FI G U R E 2 Example of left atrial (LA)-strain measurement in a apical four-chamber view. LA-strain(A) is measured as the maximum strain
value during atrial diastole. Conduit (B) and pump (C) function are measured using strain rate FI G U R E 2 Example of left atrial (LA)-strain measurement in a apical four-chamber view. LA-strain(A) is measured as the maximum strain
value during atrial diastole. Conduit (B) and pump (C) function are measured using strain rate FI G U R E 2 Example of left atrial (LA)-strain measurement in a apical four-chamber view. LA-strain(A) is measured as the maximum strain
value during atrial diastole. Conduit (B) and pump (C) function are measured using strain rate 3.1 Feasibility for volumetric measurements was good, ranging from
92.5% to 95.9% (Table 2). LA volumes were indexed for BSA (Table 2),
and an additional analysis was performed with height indexed pa-
rameters (Table 3). Changes in volumes can be seen between the
age groups regardless of the indexation method. LA minimum and
pre-a-wave volumes increased with each age decade. With regard to
function, LA reservoir and conduit function decreased while pump
function increased with age (Table 4). 4 | DISCUSSION This prospective study shows that LA function assessed with volu-
metric and myocardial methods is feasible in a healthy population
and that age and LV diastolic function are important determinants
of LA function. This study presents values per age decade for LA
volumetric and myocardial function in a healthy population. The largest body of evidence with regard to LA assessment is
on LA maximum volume; this reflects remodeling due to increased
LV filling pressures. The upper limit of normal is set at 34 mL/m2,
regardless of age, though recent studies showed that LA maximum
volume increases with age.3–5,21 This is especially true in the elderly;
no correlation was found in our cohort which included individuals
up to 72 years old. We speculated that by using STE, LA dysfunction
could be detected earlier, which suggests that LV diastolic dysfunc-
tion can be detected before apparent LA dilatation, providing clini-
cians a possibility to intervene earlier. Our results show that LA peak
strain did increase with age, which may implicate that strain is a more
sensitive marker for LA remodeling in an earlier stage. A recent study
also demonstrated that LA myocardial function was diminished in
patients with LV diastolic dysfunction while there was no apparent
LA dilatation.19 4.1 | LA volumetric vs myocardial function This study demonstrates that LA volumetric and myocardial assess-
ment is highly feasible. We recognize that the BSA-indexed maxi-
mum volume in our study was large according to current guidelines. However, with parameters such as LA expansion index, passive
and active emptying fraction this is no longer relevant, since these
measurements are relative.22 Therefore, the reference values of LA
volumetric and myocardial function can be extrapolated to other
populations. However, there are certain disadvantages to volumetric
assessment, like the assumption of geometrical shapes and relatively
low reproducibility of especially smaller volumes. STE can overcome
these shortcomings because strain analysis does not rely on geo-
metrical assumptions. measurements, mean difference for LA peak strain, early and late
strain rate were 1.83 ± 7.91%, −0.04 ± 0.63, and 0.03 ± 0.67 s−1,
respectively. measurements, mean difference for LA peak strain, early and late
strain rate were 1.83 ± 7.91%, −0.04 ± 0.63, and 0.03 ± 0.67 s−1,
respectively. TA B LE 2 Left atrial echocardiographic volumes indexed for BSA per age decade
Feasibility (%)
Entire study
20–29 y
30–39 y
40–49 y
50–59 y
60–72 y
r
P-value
n = 147
n = 32
n = 28
n = 28
n = 31
n = 28
Method-of-disk summation technique
LA maximum volume (mL/m²)
n = 136 (92.5%)
28.8 ± 7.2
27.8 ± 5.7
28.1 ± 6.6
29.0 ± 9.2
29.4 ± 5.5
30.0 ± 9.1
ns
ns
LA minimum volume (mL/m²)
n = 141 (95.9%)
10.1 ± 3.7
8.7 ± 2.5
9.4 ± 2.8
10.8 ± 4.0
10.4 ± 3.2
11.9 ± 5.2
0.252
0.003
LA pre-a-wave volume (mL/m²)
n = 141 (95.9%)
18.1 ± 5.5
14.5 ± 3.8
16.4 ± 3.9
18.8 ± 5.9
19.4 ± 4.0
21.9 ± 6.9
0.437
<0.001
Area-length method
LA maximum volume (mL/m²)
n = 136 (92.5%)
31.0 ± 7.5
29.9 ± 6.0
30.2 ± 6.7
31.1 ± 9.4
31.7 ± 6.1
32.3 ± 9.6
ns
ns
LA minimum volume (mL/m²)
n = 141 (95.9%)
10.9 ± 3.9
9.4 ± 2.8
10.0 ± 3.1
11.5 ± 4.2
11.3 ± 3.3
13.0 ± 5.4
0.273
0.001
LA pre-a-wave volume (mL/m²)
n = 141 (95.9%)
19.4 ± 5.7
15.8 ± 3.9
17.5 ± 3.9
19.9 ± 6.1
21.0 ± 4.2
23.7 ± 7.1
0.463
<0.001
C
l ti
ith
d
di
P
l
t d 3.4 | Reproducibility Interobserver agreement was assessed for volumetric and strain
measurements: Mean difference for LA maximum volume was
−5.2 ± 12.1 mL. For pre-a-wave and minimum volume, this was
−0.9 ± 10.2 and −1.0 ± 8.4 mL, respectively. Regarding strain TA B LE 1 Baseline table Total n = 147
Male n = 73
Female n = 74
P-value
Age (years)
44.6 ± 13.8
44.0 ± 13.7
45.3 ± 13.8
ns
Height (cm)
175 ± 9
181 ± 7
169 ± 6
<0.001
Weight (kg)
74.6 ± 12.8
82.4 ± 11.2
66.9 ± 9.0
<0.001
Body mass index (kg/
m²)
24.4 ± 3.3
25.2 ± 3.3
23.6 ± 3.0
0.002
Body surface area
(m²)
1.89 ± 0.19
2.03 ± 0.15
1.76 ± 0.12
<0.001
Systolic blood
pressure (mm Hg)
127 ± 15
131 ± 16
123 ± 12
0.001
Diastolic blood
pressure (mm Hg)
80 ± 9
82 ± 9
77 ± 9
<0.001
Creatinine (μmol/L)
78 ± 12
85 ± 10
71 ± 10
<0.001
Bold means statistically significant difference between both groups. van GROOTEL et al. | 5 4.4 | Limitations This was a single-center study including Dutch Caucasian subjects. Extrapolation to other ethnicities should be done with caution. We
used QLAB for the strain analysis, though a recent study found no dif-
ferences between vendors for LA measurements,29 comparison with
other vendors should be done with caution. Also, subjects had no re-
strictions regarding food intake prior to the echocardiographic examina-
tion. This could influence tissue- and pulsed-Doppler measurements.30 TA B LE 3 Left atrial echocardiographic volumes indexed for an allometric function of height2.7 Entire study
20–29 y
30–39 y
40–49 y
50–59 y
60–72 y
r
P-value
n = 147
n = 32
n = 28
n = 28
n = 31
n = 28
LA maximum volume (mL/m2.7)
12.2 ± 3.4
11.2 ± 2.5
11.7 ± 2.7
12.2 ± 4.4
12.6 ± 2.7
13.1 ± 4.4
0.202
0.018
LA minimum volume (mL/m2.7)
4.3 ± 1.7
3.5 ± 1.0
4.0 ± 1.1
4.5 ± 1.9
4.4 ± 1.3
5.2 ± 2.5
0.307
<0.001
LA pre-a-wave volume (mL/m2.7)
7.7 ± 2.6
5.9 ± 1.6
6.9 ± 1.5
7.9 ± 2.7
8.3 ± 1.9
9.5 ± 3.4
0.474
<0.001
Values are presented per age group and the correlation with age and corresponding P-value are reported. Bold means statistically significant correlation with age as a continuous variable. Values are presented per age group and the correlation with age and corresponding P-value are reported. Bold means statistically significant correlation with age as a continuous variable. Left ventricular diastolic dysfunction is closely related with LA
function, and our results reflect that as well. E- and A-wave velocity
correlated well with LA conduit and pump function, regardless of
the method used. An increase in LV stiffness leads to a reduction in
LA conduit function, which is compensated by an increase in pump
function. This can be witnessed by the E/A-ratio, which inverses
with age. This was seen for the LA myocardial function parameters. indexed using BSA. In our study, we no longer found differences
between men and women after correcting for BSA but we did find
relatively high values; a quarter of these volunteers had a LA max
volume above the upper limit of normal.1 This might be explained
by the fact that height and weight are not both as important for LA
volume. The Dutch are the tallest people in the world15 which is why
an additional analysis was done correcting for height as done previ-
ously by Eshoo et al.16 We found no differences when comparing
these results with the BSA corrected volumes. The only exception
was that LA maximum volume became significantly but weakly cor-
related with age (r: 0.202, P: 0.018). 4.3 | Effects of age and LV diastolic function on
LA function Several studies have looked at possible age-related effects on LA
size and function, with mixed results.3–6,23 The idea that age influ-
ences LA function is not new; Benjamin et al24 stated that E-wave
velocity decreases while A-wave velocity increases with advanc-
ing age. Our study demonstrates that age influences LA myocardial
function. LA-strain and LA-Sre are lowest in older subjects while
LA-Sra is higher, which is as expected. This is partly in line with the
study of Morris et al,19 who implicated as much for LA-strain meas-
urements. In our study, LA-Sre and LA-Sra also changed with age,
though the values that we found for LA-strain were slightly lower
than reported earlier.19 This may be due to age differences between
studies or intervendor differences, as a recent study showed that
QLAB10 reports slightly lower values for GLS than other software
packages.25 The study of Miglioranza et al,26 which looked at influ-
ences due to age, showed similar effects, though the actual results
cannot be compared as the P-wave was used as onset. 4.5 | Clinical implications The results from this study may add to the foundation to formulate
reference values regarding LA functional analysis, in preparation
for studies to determine potential diagnostic and prognostic value
which may eventually be used to assess patients in a clinical set-
ting. In our experience, LA functional analysis, especially myocardial
deformation, is easy and quick to perform. As expected, age plays
an important role, which is why we propose age-dependent refer-
ence ranges. The fact that LA maximum volume did not correlate
with age but LA-strain did indicates that functional assessment is a
more sensitive marker. Future studies should investigate the potential prognostic value
of LA function and which technique, myocardial deformation or vol-
umetric assessment, is most valuable. Currently, there is no consensus on how to assess LA phasic func-
tion with STE. In this study, we used R-wave as onset because that
would allow extrapolation of our data to patients with atrial fibrillation. There are other recent studies that used either the R-wave or the P-
wave as onset showing that both these techniques are possible.19,26,27
We choose for strain rate to assess LA booster pump function instead
of peak strain, as this was found to be superior.27,28 Pathan et al29 per-
formed a meta-analysis to formulate normal values for LA function. Reservoir function was 39.4% which corresponds very well with our
findings, unfortunately for conduit and pump function, strain instead of
strain rate was used, which makes it impossible to compare our findings. 4.2 | Factors influencing LA function There are a lot of factors that could influence LA volume and con-
sequently function. We have assessed the LA through volumetric
function with total emptying fraction, a sort of ejection fraction of
the LA. It is well known that this is divided into a passive and active
phase and that a portion will flow back into the pulmonary veins. Therefore, we also provided LA expansion index, which better de-
scribes reservoir function. Instances that influence LA volumes are
age, sex, height, and weight. To address these, LA volumes are often 6 | van GROOTEL et al. E 3 Left atrial echocardiographic volumes indexed for an allometric function of height2.7 5 | CONCLUSION Left atrial volumetric and myocardial function measurement is a
viable option, and age-dependent reference ranges for LA phasic
function are presented. LA myocardial and volumetric function pa-
rameters have proven to be age- but not sex-dependent. Considering
the high feasibility and clinical relevance of LA myocardial function | 7 van GROOTEL et al. an GROOTEL et al. 5 | CONCLUSION TA B LE 4 Left atrial function per age decade
Feasibility (%)
Entire study
20–29 y
30–39 y
40–49 y
50–59 y
60–72 y
r
P-value
n = 147
n = 32
n = 28
n = 28
n = 31
n = 28
LA volumetric function
n = 136 (92.5%)
LA reservoir function
(%)
Total emptying volume
18.7 ± 4.8
19.2 ± 4.7
18.7 ± 4.5
18.3 ± 6.3
19.0 ± 4.1
18.1 ± 4.7
ns
ns
Expansion index
201.2 ± 71.4
238.5 ± 83.5
206.2 ± 46.2
184.2 ± 70.8
199.4 ± 77.2
169.3 ± 51.8
−0.262
0.002
Total emptying
fraction
65.9 ± 7.7
68.8 ± 7.3
66.6 ± 5.0
62.9 ± 8.5
64.8 ± 7.8
61.5 ± 7.4
−0.279
0.001
LA conduit function
(%)
Passive emptying
volume
10.8 ± 4.2
13.3 ± 3.1
11.7 ± 4.0
10.3 ± 4.6
10.0 ± 3.6
8.1 ± 3.9
−0.399
<0.001
Passive emptying
fraction
37.1 ± 11.3
47.9 ± 6.9
40.8 ± 9.4
34.7 ± 8.7
33.8 ± 9.4
26.6 ± 9.4
−0.613
<0.001
LA pump function (%)
Active emptying
volume
8.0 ± 2.9
5.9 ± 2.3
7.0 ± 1.8
8.0 ± 3.0
9.0 ± 2.6
10.0 ± 2.8
0.512
<0.001
Active emptying
fraction
44.2 ± 10.0
40.3 ± 10.5
43.1 ± 7.5
43.3 ± 9.8
46.7 ± 10.2
47.1 ± 10.3
0.281
0.001
LA myocardial deformation analysis
LA-strain (%)
n = 118 (80.3%)
39.6 ± 6.3
41.7 ± 6.5
40.4 ± 5.3
39.1 ± 5.8
38.7 ± 6.9
37.1 ± 6.3
−0.227
0.014
LA-Sre (s−1)
n = 115 (78.2%)
−2.76 ± 0.63
−3.29 ± 0.54
−3.06 ± 0.32
−2.77 ± 0.38
−2.23 ± 0.45
−2.16 ± 0.45
−0.715
<0.001
LA-Sra (s−1)
n = 118 (80.3%)
−2.57 ± 0.62
−2.33 ± 0.52
−2.35 ± 0.40
−2.65 ± 0.55
−2.83 ± 0.80
−2.81 ± 0.63
0.348
<0.001
LV function
E-wave (m/s)
0.69 ± 0.16
0.79 ± 0.15
0.75 ± 0.16
0.66 ± 0.15
0.65 ± 0.11
0.59 ± 0.13
−0.457
<0.001
A-wave (m/s)
0.49 ± 0.15
0.38 ± 0.14
0.43 ± 0.09
0.47 ± 0.10
0.57 ± 0.11
0.62 ± 0.17
0.582
<0.001
E/A-ratio
1.6 ± 0.7
2.3 ± 0.8
1.8 ± 0.4
1.4 ± 0.4
1.2 ± 0.3
1.0 ± 0.3
−0.68
<0.001
Deceleration time
(ms)
190 ± 41
178 ± 28
181 ± 32
185 ± 29
195 ± 32
216 ± 64
0.313
<0.001
E′ (LV septum) (cm/s)
9.5 ± 2.6
12.5 ± 1.8
10.4 ± 1.6
9.2 ± 1.6
8.2 ± 1.8
6.9 ± 1.7
−0.756
<0.001
E/E′-ratio
7.6 ± 1.9
6.5 ± 0.2
7.3 ± 1.5
7.3 ± 1.7
8.1 ± 1.4
9.1 ± 2.4
0.472
<0.001
LV ejection fraction
(%)
60 ± 5
60 ± 3.6
61 ± 5
59 ± 5
62 ± 5
59 ± 5
ns
ns
The upper part of the table present volumetric assessment, followed by LA myocardial function. 5 | CONCLUSION Additionally, LV diastolic and systolic values are presented. Correlations with age and corresponding P-values
are given. Bold means statistically significant correlation with age as a continuous variable. 8 |
van GROOTEL et a
FI G U R E 3 Correlations between left atrial (LA)-strain, LA-Sre and LA-Sra and age. Each dot represents one individual’s measurement. The fitted lines and r2 values are given. All three variables were significantly correlated with age 8 | van GROOTEL et al. FI G U R E 3 Correlations between left atrial (LA)-strain, LA-Sre and LA-Sra and age. Each dot represent
The fitted lines and r2 values are given. All three variables were significantly correlated with age FI G U R E 3 Correlations between left atrial (LA)-strain, LA-Sre and LA-Sra and age. Each dot represents one individual’s measurement. The fitted lines and r2 values are given. All three variables were significantly correlated with age FI G U R E 4 Three graphs showing left atrial myocardial function per sex for each age group FI G U R E 4 Three graphs showing left atrial myocardial function per sex for each age group TA B LE 5 Limits of normal for LA function assessed with volumetric and myocardial deformation
Entire study
20–29 y
30–39 y
40–49 y
50–59 y
60–72 y
LLN
ULN
LLN
ULN
LLN
ULN
LLN
ULN
LLN
ULN
LLN
ULN
LA volumetric function
Total emptying
volume (mL/m2)
9.1
28.3
9.8
28.6
9.7
27.7
5.7
30.9
10.8
27.2
8.7
27.5
Total emptying
fraction (%)
50.5
81.3
54.2
83.4
56.6
76.6
45.9
79.9
49.2
80.4
46.7
76.3
Expansion index (%)
58.4
344
71.5
405.5
113.8
298.6
42.6
325.8
45
353.8
65.7
272.9
Passive emptying
volume (mL/m2)
2.4
19.2
7.1
19.5
3.7
19.7
1.1
19.5
2.8
17.2
0.3
15.9
Passive emptying
fraction (%)
14.5
59.7
34.1
61.7
22
59.6
17.3
52.1
15
52.6
7.8
45.4
Active emptying
volume (mL/m2)
2.2
13.8
1.3
10.5
3.4
10.6
2
14
3.8
14.2
4.4
15.6
Active emptying
fraction (%)
24.2
64.2
19.3
61.3
28.1
58.1
23.7
62.9
26.3
67.1
26.5
67.7
LA myocardial deformation analysis
LA-strain (%)
27
52.2
28.7
54.7
29.8
51
27.5
50.7
24.9
52.5
−49.7
−24.5
LA-Sre (s−1)
−4.02
−1.5
−4.37
−2.21
−3.7
−2.42
−3.53
−2.01
−3.13
−1.33
−3.06
−1.26
LA-Sra (s−1)
−3.81
−1.33
−3.37
−1.29
−3.15
−1.55
−3.75
−1.55
−4.43
−1.23
−4.07
−1.55
LLN = lower limit of normal; ULN = upper limit of normal. TA B LE 6 Table describing correlations between LA function
(volumetric and myocardial) and baseline characteristics TA B LE 6 Table describing correlations between LA function
(volumetric and myocardial) and baseline characteristics TA B LE 6 Table describing correlations between LA function
(volumetric and myocardial) and baseline characteristics
LA-strain
LA-Sre
LA-Sra
r
r
r
Age
−0.227*
0.715**
−0.348**
Height
−0.045
0.011
−0.012
Weight
−0.068
0.246*
−0.153
Body mass index
−0.043
0.307*
−0.197*
Body surface area
−0.067
0.185*
−0.119
Heart rate
−0.052
0.076
−0.254*
Systolic blood pressure
−0.081
0.186*
−0.275*
Diastolic blood pressure
−0.1
0.333*
−0.295*
E-wave
0.331**
−0.566**
0.182*
A-wave
−0.004
0.422**
−0.367**
E′
0.331**
−0.697**
0.268*
E/e′
−0.111
0.298*
−0.128
Left atrial expansion
index
0.468**
−0.381**
−0.257*
Left atrial passive
emptying fraction
0.354**
−0.590**
0.249*
Left atrial active
emptying fraction
0.198*
0.115
−0.545**
LA-Sra
−0.478**
–
–
Bold mean statistically significant, *P-value < 0.05, **P-value < 0.001 6. Kou S, Caballero L, Dulgheru R, et al. Echocardiographic reference
ranges for normal cardiac chamber size: results from the NORRE
study. Eur Heart J Cardiovasc Imaging. 2014;15:680–690. 7. Cameli M, Caputo M, Mondillo S, et al. Feasibility and reference
values of left atrial longitudinal strain imaging by two-dimensional
speckle tracking. Cardiovasc Ultrasound. 2009;7:6. 8. Vianna-Pinton R, Moreno CA, Baxter CM, et al. Two-dimensional
speckle-tracking echocardiography of the left atrium: feasibility
and regional contraction and relaxation differences in normal sub-
jects. J Am Soc Echocardiogr. 2009;22:299–305. 9. Kim DG, Lee KJ, Lee S, et al. Feasibility of two-dimensional global
longitudinal strain and strain rate imaging for the assessment of left
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measured by two-dimensional speckle tracking represents a
new tool to evaluate left atrial function. J Am Soc Echocardiogr. 2010;23:172–180. 11. Sun JP, Yang Y, Guo R, et al. Left atrial regional phasic strain, strain
rate and velocity by speckle-tracking echocardiography: normal
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dial strain values using 2D speckle tracking echocardiogra-
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rate on two-dimensional speckle-tracking strain measurements: a
study on silico-simulated models and images recorded in patients. Eur Heart J Cardiovasc Imaging. 2015;16:1137–1147. measurements, these results can help integrate LA STE analysis into
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atrial size and function. Circ Cardiovasc Imaging. 2009;2:93–99. CONFLICT OF INTEREST 17. Nagueh SF, Smiseth OA, Appleton CP, et al. Recommendations for
the evaluation of left ventricular diastolic function by echocardiog-
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J Cardiovasc Imaging. 2016;17:1321–1360. None declared. 5 | CONCLUSION TA B LE 5 Limits of normal for LA function assessed with volumetric and myocardial deformation 9 van GROOTEL et al. REFERENCES 18. Mor-Avi V, Lang RM, Badano LP, et al. Current and evolving echo-
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AE. In-depth echocardiographic analysis of left atrial function
in healthy adults using speckle tracking echocardiography
and volumetric analysis. Echocardiography. 2018;00:1–10. https://doi.org/10.1111/echo.14174 27. Rimbas RC, Mihaila S, Vinereanu D. Sources of variation in assess-
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Inkjet Printing of Functional Electronic Memory Cells: A Step Forward to Green Electronics
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Micromachines
| 2,019
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cc-by
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Inkjet Printing of Functional Electronic Memory
Cells: A Step Forward to Green Electronics Iulia Salaoru *, Salah Maswoud and Shashi Paul
Emerging Technologies Research Centre, De Montfort University, Hawthorn Building, The Gateway,
Leicester LE1 9BH, UK; P12049171@email.dmu.ac.uk (S.M.); spaul@dmu.ac.uk (S.P.)
* Correspondence: iulia.salaoru@dmu.ac.uk; Tel.: +44-(0)116-250-6008 Iulia Salaoru *, Salah Maswoud and Shashi Received: 21 May 2019; Accepted: 18 June 2019; Published: 22 June 2019 Abstract: Nowadays, the environmental issues surrounding the production of electronics, from the
perspectives of both the materials used and the manufacturing process, are of major concern. The
usage, storage, disposal protocol and volume of waste material continue to increase the environmental
footprint of our increasingly “throw away society”. Almost ironically, society is increasingly involved
in pollution prevention, resource consumption issues and post-consumer waste management. Clearly,
a dichotomy between environmentally aware usage and consumerism exists. The current technology
used to manufacture functional materials and electronic devices requires high temperatures for material
deposition processes, which results in the generation of harmful chemicals and radiation. With such
issues in mind, it is imperative to explore new electronic functional materials and new manufacturing
pathways. Here, we explore the potential of additive layer manufacturing, inkjet printing technology
which provides an innovative manufacturing pathway for functional materials (metal nanoparticles
and polymers), and explore a fully printed two terminal electronic memory cell. In this work, inkjetable
materials (silver (Ag) and poly(3,4-ethylenedioxythiophene)-poly(styrenesulfonate) (PEDOT:PSS))
were first printed by a piezoelectric Epson Stylus P50 inkjet printer as stand-alone layers, and secondly
as part of a metal (Ag)/active layer (PEDOT:PSS)/metal (Ag) crossbar architecture. The quality of the
individual multi-layers of the printed Ag and PEDOT:PSS was first evaluated via optical microscopy
and scanning electron microscopy (SEM). Furthermore, an electrical characterisation of the printed
memory elements was performed using an HP4140B picoammeter. Keywords: inkjet; printing; functional materials; silver; PEDOT:PSS; memory cells; green processes micromachines micromachines micromachines micromachines Article
Inkjet Printing of Functional Electronic Memory
Cells: A Step Forward to Green Electronics
Iulia Salaoru *, Salah Maswoud and Shashi Paul
Emerging Technologies Research Centre, De Montfort University, Hawthorn Building, The Gateway,
Leicester LE1 9BH, UK; P12049171@email.dmu.ac.uk (S.M.); spaul@dmu.ac.uk (S.P.)
* Correspondence: iulia.salaoru@dmu.ac.uk; Tel.: +44-(0)116-250-6008 Micromachines 2019, 10, 417; doi:10.3390/mi10060417 1. Introduction Inkjet printing technology is an additive manufacturing technique that works by generating small
ink droplets and propelling those droplets onto a substrate. This digital printing technology consists of
three main features: ink, printhead and substrate. First, from the ink perspective the chemical and
physical properties of the solution play a crucial role, mainly in the formation and ejection of the
ink. Secondly, the appropriate printhead (thermal and piezoelectric) and a suitable driving voltage
waveform (the width and amplitude of the pulse) are essential for accurate, reliable and reproducible
drop ejection. Furthermore, equally important in the printing process is the substrate, which has a
strong impact on achieving high quality printed patterns. There has been immense and continuous
interest in the digital printing technique, which can be attributed to its cost effectiveness, efficacy of
material use, compatibility with a wide range of substrates, digital and additive deposition, maskless
nature and suitability for small to large area deposition. Some of these advantages are presented in
Figure 1. Micromachines 2019, 10, 417; doi:10.3390/mi10060417 www.mdpi.com/journal/micromachines 2 of 10
2
f 10 Micromachines 2019, 10, 417
Mi
hi
1
10 Figure 1. Main features of digital manufacturing technologies. Figure 1. Main features of digital manufacturing technologies. Figure 1. Main features of digital manufacturing technologies. Figure 1. Main features of digital manufacturing technologies. In a nutshell, digital printing technology, which is defined as “the printing of things (PoTs)”, is
capable of revolutionizing the whole system of manufacturing functional materials and electronic
devices, therefore creating a “digital industrial revolution” or a pathway to large area and high
throughput flexible electronics. As part of this digital revolution, both inorganic and organic
polymers have been exploited. Printing conductive metal nanomaterial inks, such as copper (Cu),
gold (Au), silver (Ag) and aluminium (Al) inks, is one of the directions that has been extensively
investigated and the core findings have been presented in comprehensive review papers [1–3]. Copper [4–6] and aluminium [7] are highly abundant metals, but unfortunately suffer from rapid
oxidation at room temperature in air. These metals are still being used in the electronics industry as
contact materials, and the deposition is carried out in an inert environment. Thus, the interest in the
use of such metals for digital printing is diminishing. As we know, gold [8–10] is a very good
conductor and does not have an oxidation issue, but is rather expensive. 1. Introduction Due to the aforementioned
problems, nanoparticle based silver ink [11–14] has attracted special attention, due to its stability,
compatibility with the required ink additives, relatively high resistance to oxidation, high electrical
conductivity and very competitive price. Hence, based on all of these factors we can safely conclude
that silver is currently the best metal for printing conductive patterns. Such patterns can be used in
flexible and large area electronics. Organic materials are also currently being studied as an alternative
to metallic conductors for printing conductive paths, for example polypyrroles [15], graphene
[16–19], polyanilines [19] and poly(3,4-ethylenedioxythiophene)-poly(styrenesulfonate) PEDOT:PSS
In a nutshell, digital printing technology, which is defined as “the printing of things (PoTs)”, is
capable of revolutionizing the whole system of manufacturing functional materials and electronic
devices, therefore creating a “digital industrial revolution” or a pathway to large area and high
throughput flexible electronics. As part of this digital revolution, both inorganic and organic polymers
have been exploited. Printing conductive metal nanomaterial inks, such as copper (Cu), gold (Au),
silver (Ag) and aluminium (Al) inks, is one of the directions that has been extensively investigated
and the core findings have been presented in comprehensive review papers [1–3]. Copper [4–6] and
aluminium [7] are highly abundant metals, but unfortunately suffer from rapid oxidation at room
temperature in air. These metals are still being used in the electronics industry as contact materials,
and the deposition is carried out in an inert environment. Thus, the interest in the use of such metals
for digital printing is diminishing. As we know, gold [8–10] is a very good conductor and does not
have an oxidation issue, but is rather expensive. Due to the aforementioned problems, nanoparticle
based silver ink [11–14] has attracted special attention, due to its stability, compatibility with the
required ink additives, relatively high resistance to oxidation, high electrical conductivity and very
competitive price. Hence, based on all of these factors we can safely conclude that silver is currently
the best metal for printing conductive patterns. Such patterns can be used in flexible and large area
electronics. Organic materials are also currently being studied as an alternative to metallic conductors
for printing conductive paths, for example polypyrroles [15], graphene [16–19], polyanilines [19] and
poly(3,4-ethylenedioxythiophene)-poly(styrenesulfonate) PEDOT:PSS [20,21]. 1. Introduction [ 6
9], po ya i i es [ 9] a d po y(3,
et y e edio yt iop e e) po y(sty e esu o ate)
E O
SS
[20,21]. As we have discussed previously, digital printing can bring a number of benefits to the
electronics industry. The printing of electronic memory is a thriving field that attracts the interest of
not only the academic community, but industry as well. From the academic perspective, Hubber et
al. [22] reported fully inkjet printed stand-alone resistive memory cells. In another report, Porro and
Ricciardi [23] fabricated an asymmetric metal-insulator-metal (MIM) type memristor based on
graphene oxide, in which only the active layer (graphene oxide) was deposited via inkjet printing
and the top Al contact was deposited using a conventional thermal vacuum evaporation method. On
the other hand, from an industrial perspective, a Norwegian company, Thinfilm, developed a flexible,
rewritable, ferroelectric, polymer-based memory and recently this technology was transferred to
As we have discussed previously, digital printing can bring a number of benefits to the electronics
industry. The printing of electronic memory is a thriving field that attracts the interest of not only the
academic community, but industry as well. From the academic perspective, Hubber et al. [22] reported
fully inkjet printed stand-alone resistive memory cells. In another report, Porro and Ricciardi [23]
fabricated an asymmetric metal-insulator-metal (MIM) type memristor based on graphene oxide, in
which only the active layer (graphene oxide) was deposited via inkjet printing and the top Al contact
was deposited using a conventional thermal vacuum evaporation method. On the other hand, from an
industrial perspective, a Norwegian company, Thinfilm, developed a flexible, rewritable, ferroelectric,
polymer-based memory and recently this technology was transferred to Xerox Corp for up-scaling
and manufacturing. rewritable, ferroelectric, polymer based memory and recently this technology was transferred to
Xerox Corp for up-scaling and manufacturing. In this study, all components (the electrodes and the active core of the two terminal devices)
were fabricated using digital inkjet printing technology, and hence a fully printed crossbar memory
array was achieved. To realise such a pathway, the main physical properties of the silver and
PEDOT:PSS based inks, such as the viscosity, surface tension and pH, and their wettability on both
rigid and flexible substrates were first investigated. 2. Experimental Section The silver and PEDOT:PSS inks were evaluated and deposited via inkjet printing. The silver
nanoparticle (AgNP) ink (Drycure Ag-j) was a mixture of 8–22% silver by weight, 18–52% water by
weight, 20–65% glycerol by weight and a small amount of alcohol. The PEDOT:PSS ink was purchased
from Sigma-Aldrich (St. Louis, MO, USA), and was composed of 2% PEDOT:PSS in an ethylene glycol
monobutyl ether:water (3:2) mixture. In order to validate that the inks were suitable for printing, their
main properties such as the surface tension, viscosity and pH, were tested. The surface tension of the
inks was measured using a torsion balance model “OS” (Weston-super-Mare, UK) and the viscosity
was evaluated by a Brookfield DV2T viscometer (Brookfield, Toronto, ON, Canada). In addition, a
3520 pH meter was used to test the pH of the inks. Secondly, in order to ensure good adhesion of the ink to the substrate, the wetting behaviour
of both inks on rigid and flexible substrates was evaluated by measuring the ink/substrate contact
angle via the sessile drop analysis method (Attention Theta Optical Tensiometer, Biolin Scientific,
Gothenburg, Sweden). A commercial desktop inkjet printer, the Epson Stylus P50, was employed to deposit Ag and
PEDOT:PSS multi-layer patterns. The Epson Stylus P50 is a piezoelectric printer with a printhead that
has 90 nozzles with a 65 µm nozzle diameter, 1.5 pL drop size and 360 dpi resolution. Both the printer
and silver ink were purchased from Printed Electronics Limited (PEL) (Tamworth, UK). Moreover, PEL
optimised the ink to match the requirements of the printer. Printing functional materials based ink. Both the Ag and PEDOT:PSS inks were kept in an ultrasonic
bath for several hours before printing to ensure good homogeneity and to prevent sedimentation or
aggregation of the particles. Then, the inks were filtered using a 5 µm filter to eliminate any large
particles (Ag) or undissolved polymer (PEDOT:PSS) and hence avoid blocking the nozzles. Then, the
cartridge was filled with ink and different numbers of layers were printed. In the case of the Ag ink,
the printed patterns were cured at 120 ◦C for 5 min, and curing at 70 ◦C for 3 h was performed for the
PEDOT:PSS ink. In this work, a ceramic (inorganic coating, 60 nm pore size) coated paper was used as
a substrate and was purchased from PEL. 2. Experimental Section The quality and thickness of the inkjet printed silver and PEDOT:PSS stand-alone multi-layers
were assessed using an optical microscope (LAOPHOT-2) fitted with a Nikon camera DS-Fi1 (Nikon,
Tokyo, Japan) and scanning electron microscopy (SEM). Adhesive tape tests were performed in
order to understand the adhesion properties of the Ag and PEDOT:PSS printed patterns to the
selected substrates. Printing a full two terminal memory device. The memory cells fabricated and investigated in this
work were deposited on ceramic coated paper. The conductive tracks of Ag (5 passes) were first
printed on the paper to define the bottom electrode (BE) of the final devices. After printing the Ag
conductive paths, curing took place at 120 ◦C for 5 min. Then, the PEDOT:PSS active layer (10 passes)
was deposited onto a paper marked with Ag tracks and then cured (70 ◦C, 3 h). Finally, in order to
achieve a crossbar architecture, the top electrode (TE)–Ag (5 passes) was printed. The current–voltage
(I–V) characteristics and retention time tests for the two terminal memory cells were measured in a
screened sample chamber in the dark at room temperature using a PC-driven HP4140B picoammeter. 1. Introduction Secondly, both Ag and PEDOT:PSS stand-alone
multi-layers were printed using an Epson Stylus P50, a commonly used desktop printer (Epson,
Suwa, Nagano, Japan) and the quality and surface thickness were evaluated by optical microscopy
In this study, all components (the electrodes and the active core of the two terminal devices) were
fabricated using digital inkjet printing technology, and hence a fully printed crossbar memory array
was achieved. To realise such a pathway, the main physical properties of the silver and PEDOT:PSS
based inks, such as the viscosity, surface tension and pH, and their wettability on both rigid and
flexible substrates were first investigated. Secondly, both Ag and PEDOT:PSS stand-alone multi-layers
were printed using an Epson Stylus P50, a commonly used desktop printer (Epson, Suwa, Nagano,
Japan) and the quality and surface thickness were evaluated by optical microscopy and scanning
electron microscopy (SEM). Furthermore, adhesive tape tests were performed in order to understand 3 of 10 Micromachines 2019, 10, 417 the adhesion properties of the printed patterns on the selected substrates. Finally, a two terminal
Ag/PEDOT:PSS/Ag crossbar structure was prototyped using inkjet printing alone, and in-depth
electrical characterisations (i.e., current–voltage characteristic and memory retention time tests) were
performed using a HP4140B-pico-ammeter (Keysight, Santa Rosa, CA, USA). 3. Results and Discussion The contact angle can be easily influenced by the nature of the substrate, mainly
the surface. In addition to ensuring surface wetting, (i.e., ink/substrate perfect match), the surface energy of
the substrate should exceed the surface tension of the ink by 10–15 mN/m. The surface energy of the
ceramic coated paper was reported as 45 mN/m [24] and corroborates with the surface tension values
(Table 1). Both inks were compatible with the ceramic coated paper. Thus, this substrate was selected
to be used in this work. Furthermore, one of the main features of this substrate is that the ceramic
layer helps to absorb the solvent from the ink. More specifically, in the case of Ag ink, the
incorporation of the nanoparticles into the ceramic coating results in the formation of ceramic/Ag
d
h
In addition to ensuring surface wetting, (i.e., ink/substrate perfect match), the surface energy of
the substrate should exceed the surface tension of the ink by 10–15 mN/m. The surface energy of the
ceramic coated paper was reported as 45 mN/m [24] and corroborates with the surface tension values
(Table 1). Both inks were compatible with the ceramic coated paper. Thus, this substrate was selected
to be used in this work. Furthermore, one of the main features of this substrate is that the ceramic layer
helps to absorb the solvent from the ink. More specifically, in the case of Ag ink, the incorporation of
the nanoparticles into the ceramic coating results in the formation of ceramic/Ag composites during
the sintering process. In addition to ensuring surface wetting, (i.e., ink/substrate perfect match), the surface energy of
the substrate should exceed the surface tension of the ink by 10–15 mN/m. The surface energy of the
ceramic coated paper was reported as 45 mN/m [24] and corroborates with the surface tension values
(Table 1). Both inks were compatible with the ceramic coated paper. Thus, this substrate was selected
to be used in this work. Furthermore, one of the main features of this substrate is that the ceramic
layer helps to absorb the solvent from the ink. More specifically, in the case of Ag ink, the
incorporation of the nanoparticles into the ceramic coating results in the formation of ceramic/Ag
composites during the sintering process. s during the sintering process. Table 1. Measured parameters of the Ag and PEDOT:PSS inks. 3. Results and Discussion Wetting behaviour can be described as the interaction between the ink droplets and substrate. It
should be highlighted that the printed quality is linked to the wettability of the ink and hence, the
wettability of both inks on different substrates was investigated. In this study, four potential substrates 4 of 10
4
f 10 Micromachines 2019, 10, 417 were tested and the contact angle measurement results are presented in Figure 2. Two rigid (silicon
and glass) and two flexible (paper and polyethylene terephthalate (PET)) substrates were studied. The
paper substrate used in this work is ceramic coated (non-organic) and can be heated to 150 ◦C with
minimal discolouration. i o a
i e
,
,
were studied. The paper substrate used in this work is ceramic coated (non-organic) and can be
heated to 150 °C with minimal discolouration. were studied. The paper substrate used in this work is ceramic coated (non-organic) and can be
heated to 150 °C with minimal discolouration. Figure 2. Contact angles measured via the sessile drop analysis method for the silver nanoparticles
(AgNPs) and poly(3,4-ethylenedioxythiophene)-poly(styrenesulfonate) (PEDOT:PSS) inks and four
potential substrates. The contact angle can be easily influenced by the nature of the substrate, mainly
the surface
Figure 2. Contact angles measured via the sessile drop analysis method for the silver nanoparticles
(AgNPs) and poly(3,4-ethylenedioxythiophene)-poly(styrenesulfonate) (PEDOT:PSS) inks and four
potential substrates. The contact angle can be easily influenced by the nature of the substrate, mainly
the surface. Figure 2. Contact angles measured via the sessile drop analysis method for the silver nanoparticles
(AgNPs) and poly(3,4-ethylenedioxythiophene)-poly(styrenesulfonate) (PEDOT:PSS) inks and four
potential substrates. The contact angle can be easily influenced by the nature of the substrate, mainly
the surface. Figure 2. Contact angles measured via the sessile drop analysis method for the silver nanoparticles
(AgNPs) and poly(3,4-ethylenedioxythiophene)-poly(styrenesulfonate) (PEDOT:PSS) inks and four
potential substrates. The contact angle can be easily influenced by the nature of the substrate, mainly
th
f
Figure 2. Contact angles measured via the sessile drop analysis method for the silver nanoparticles
(AgNPs) and poly(3,4-ethylenedioxythiophene)-poly(styrenesulfonate) (PEDOT:PSS) inks and four
potential substrates. The contact angle can be easily influenced by the nature of the substrate, mainly
the surface. Figure 2. Contact angles measured via the sessile drop analysis method for the silver nanoparticles
(AgNPs) and poly(3,4-ethylenedioxythiophene)-poly(styrenesulfonate) (PEDOT:PSS) inks and four
potential substrates. 3. Results and Discussion Parameters
Silver Ink
PEDOT:PSS Ink
Surface tension (mN/m)
35
30
Viscosity (cP)
6
14
pH
9
2 9
Table 1. Measured parameters of the Ag and PEDOT:PSS inks. Parameters
Silver Ink
PEDOT:PSS Ink
Surface tension (mN/m)
35
30
Viscosity (cP)
6
14
pH
9
2.9
Table 1. Measured parameters of the Ag and PEDOT:PSS inks. Parameters
Silver Ink
PEDOT:PSS Ink
Surface tension (mN/m)
35
30
Viscosity (cP)
6
14
pH
9
2.9 e i
e i g p o e
Table 1. Measured parameters of the Ag and PEDOT:PSS inks. Table 1. Measured parameters of the Ag and PEDOT:PSS inks. We have further investigated the spreading behaviour of both the silver and PEDOT:PSS inks
(i.e., the evolution of the contact angle with time). As can be seen in Figure 3, in the case of the Ag ink
the de
ea e of the o ta t a
le take
la e i
t
o te
o e at 5
a d a othe at 10
We have further investigated the spreading behaviour of both the silver and PEDOT:PSS inks (i.e.,
the evolution of the contact angle with time). As can be seen in Figure 3, in the case of the Ag ink the
decrease of the contact angle takes place in two steps, one at 5 s and another at 10 s. We have further investigated the spreading behaviour of both the silver and PEDOT:PSS inks
(i.e., the evolution of the contact angle with time). As can be seen in Figure 3, in the case of the Ag ink
the decrease of the contact angle takes place in two steps, one at 5 s and another at 10 s. We have further investigated the spreading behaviour of both the silver and PEDOT:PSS inks
(i.e., the evolution of the contact angle with time). As can be seen in Figure 3, in the case of the Ag ink
th d
f th
t
t
l t k
l
i
t
t
t 5
d
th
t 10
We have further investigated the spreading behaviour of both the silver and PEDOT:PSS inks (i.e.,
the evolution of the contact angle with time). As can be seen in Figure 3, in the case of the Ag ink the
decrease of the contact angle takes place in two steps, one at 5 s and another at 10 s. 3. Results and Discussion We have further investigated the spreading behaviour of both the silver and PEDOT:PSS inks
(i.e., the evolution of the contact angle with time). As can be seen in Figure 3, in the case of the Ag ink
the decrease of the contact angle takes place in two steps, one at 5 s and another at 10 s. We have further investigated the spreading behaviour of both the silver and PEDOT:PSS inks
(i.e., the evolution of the contact angle with time). As can be seen in Figure 3, in the case of the Ag ink
th d
f th
t
t
l t k
l
i
t
t
t 5
d
th
t 10
We have further investigated the spreading behaviour of both the silver and PEDOT:PSS inks (i.e.,
the evolution of the contact angle with time). As can be seen in Figure 3, in the case of the Ag ink the
decrease of the contact angle takes place in two steps, one at 5 s and another at 10 s. We have further investigated the spreading behaviour of both the silver and PEDOT:PSS inks
(i.e., the evolution of the contact angle with time). As can be seen in Figure 3, in the case of the Ag ink
the decrease of the contact angle takes place in two steps, one at 5 s and another at 10 s. g
p
p ,
(a)
(b)
Figure 3. Contact angle versus time for the (a) Ag ink and (b) PEDOT:PSS ink on paper. (a)
(b)
Figure 3. Contact angle versus time for the (a) Ag ink and (b) PEDOT:PSS ink on paper. Figure 3. Contact angle versus time for the (a) Ag ink and (b) PEDOT:PSS ink on paper. (b)
(b) (a)
(a) (a)
(b)
Figure 3. Contact angle versus time for the (a) Ag ink and (b) PEDOT:PSS ink on paper
Figure 3. Contact angle versus time for the (a) Ag ink and (b) PEDOT:PSS ink on paper. Figure 3. Contact angle versus time for the (a) Ag ink and (b) PEDOT:PSS ink on paper. 5 of 10
5 of 10 Micromachines 2019, 10, 417
Micromachines 2019 10 x After 10 s of contact between the ink droplet and the substrate, the contact angle is quite constant
with a value of 38◦for the Ag ink (Figure 4). 3. Results and Discussion Interestingly, for the PEDOT:PSS ink the evolution of
the contact angle is smoother, and there is no large variation between the first drop and the drops
immediately following it. The behaviour observed for both of the inks is quite different. These
differences arise due to the different constituents of the inks, as was discussed in the experimental
section. Furthermore, the drop–surface interaction is a complex process that is governed by different
forces, such as inertial, capillary and gravitational forces, a comprehensive study of which was
published by Derby [25]. After 10 s of contact between the ink droplet and the substrate, the contact angle is quite constant
with a value of 38° for the Ag ink (Figure 4). Interestingly, for the PEDOT:PSS ink the evolution of the
contact angle is smoother, and there is no large variation between the first drop and the drops
immediately following it. The behaviour observed for both of the inks is quite different. These
differences arise due to the different constituents of the inks, as was discussed in the experimental
section. Furthermore, the drop–surface interaction is a complex process that is governed by different
forces, such as inertial, capillary and gravitational forces, a comprehensive study of which was
published by Derby [25]. (a)
(b)
Figure 4. Images of the (a) AgNP and (b) PEDOT:PSS ink droplets on ceramic coated paper after
achieving equilibrium during the contact angle measurements. Figure 4. Images of the (a) AgNP and (b) PEDOT:PSS ink droplets on ceramic coated paper after
achieving equilibrium during the contact angle measurements. (b) (b) (a) Figure 4. Images of the (a) AgNP and (b) PEDOT:PSS ink droplets on ceramic coated paper after
achieving equilibrium during the contact angle measurements. Figure 4. Images of the (a) AgNP and (b) PEDOT:PSS ink droplets on ceramic coated paper after
achieving equilibrium during the contact angle measurements. We suggest that the decrease in the contact angle over time may be associated with the rapid
infiltration of solvent into the porous paper substrate controlled by capillary forces. This effect is
more evident in the case of the PEDOT:PSS ink, which has only one solution phase and hence absorbs
into the substrate more easily
We suggest that the decrease in the contact angle over time may be associated with the rapid
infiltration of solvent into the porous paper substrate controlled by capillary forces. 3. Results and Discussion This effect is more
evident in the case of the PEDOT:PSS ink, which has only one solution phase and hence absorbs into
the substrate more easily. into the substrate more easily. Ag Printing Pattern. In the case of a single printed Ag layer (one pass), a large number of
disconnected particles can be seen in the optical microscopy image (Figure 5a). However, when more
layers were printed, better connectivity or coverage is observed, as expected, as shown in Figure 5b. It is important to highlight that, along with the printability of the inks and the quality of the printed
layers, another very important characteristic is the electrical behaviour of the printed patterns. Indeed, the continuity of the printed multi-layers has a crucial impact on the electrical properties (i.e.,
the conductivity of the printed-pattern). As expected, the patterns made by fewer passes were not
electrically conductive, mainly due to the poor coverage or continuity of the silver particles, and
hence were below the percolation threshold. However, in the case of five passes the coverage was
much better and the resistivity was around 2.91 × 10−8 Ω·m, which is close to the values which have
been reported previously [26]
Ag Printing Pattern. In the case of a single printed Ag layer (one pass), a large number of
disconnected particles can be seen in the optical microscopy image (Figure 5a). However, when
more layers were printed, better connectivity or coverage is observed, as expected, as shown in
Figure 5b. It is important to highlight that, along with the printability of the inks and the quality of the
printed layers, another very important characteristic is the electrical behaviour of the printed patterns. Indeed, the continuity of the printed multi-layers has a crucial impact on the electrical properties (i.e.,
the conductivity of the printed-pattern). As expected, the patterns made by fewer passes were not
electrically conductive, mainly due to the poor coverage or continuity of the silver particles, and hence
were below the percolation threshold. However, in the case of five passes the coverage was much
better and the resistivity was around 2.91 × 10−8 Ω·m, which is close to the values which have been
reported previously [26]. been reported previously [26]. The thickness of the printed layers was evaluated by taking a cross-sectional optical image and
was found to be in the range of 1.1 and 1.8 µm for five passes (Figure 5d). 3. Results and Discussion Interestingly, the SEM image
revealed penetration of the solvent into the paper [27], and hence validated our statement relating to
the fast decrease of the contact angle. Printing PEDOT:PSS. The correlation between the number of passes and the quality of the printed
layers was evaluated by optical microscopy. 6 of 10
h have Micromachines 2019, 10, 417
much better and the re
been reported previous Figure 5. Optical micrograph of the inkjet printed Ag pattern after (a) 1 pass and (b) 10 passes. (c) SEM
image of 10 passes. (d) SEM cross-sectional image of the Ag printed pattern after 5 passes. romachines 2019, 10, x
6 of
Figure 5. Optical micrograph of the inkjet printed Ag pattern after (a) 1 pass and (b) 10 passes. (c)
SEM image of 10 passes. (d) SEM cross-sectional image of the Ag printed pattern after 5 passes. The thickness of the printed layers was evaluated by taking a cross-sectional optical image an
s found to be in the range of 1.1 and 1.8 μm for five passes (Figure 5d). Interestingly, the SE
age revealed penetration of the solvent into the paper [27], and hence validated our stateme
ating to the fast decrease of the contact angle. Printing PEDOT:PSS. The correlation between the number of passes and the quality of t
nted layers was evaluated by optical microscopy. 9, 10, x Figure 5. Optical micrograph of the inkjet printed Ag pattern after (a) 1 pass and (b) 10 passes. (c) SEM
image of 10 passes. (d) SEM cross-sectional image of the Ag printed pattern after 5 passes. ing to the fast decrease of the contact angle. Printing PEDOT:PSS. The correlation between the number of passes and the quality of t
ted layers was evaluated by optical microscopy. Both the optical microscopy and SEM images of the PEDOT:PSS ink revealed excellent coverage
Figure 6 clearly shows the high quality of the PEDOT:PSS printed pattern, and we postulate that
the observed results are completely determined by the nature of the functional material (i.e., the
polymer-based solution). Thus, the ink is homogenous without any dispersion component and the
wetting is therefore better when compared to ink containing particle dispersions (Ag). In addition, the
value of the surface tension of the PEDOT:PSS ink is slightly smaller than that of the Ag based ink and
hence, better wetting behaviour is observed. 3. Results and Discussion Both the optical microscopy and SEM images of the PEDOT:PSS ink revealed excellent coverage. Figure 6 clearly shows the high quality of the PEDOT:PSS printed pattern, and we postulate that the
observed results are completely determined by the nature of the functional material (i.e., the polymer-
based solution). Thus, the ink is homogenous without any dispersion component and the wetting is
therefore better when compared to ink containing particle dispersions (Ag). In addition, the value of
the surface tension of the PEDOT:PSS ink is slightly smaller than that of the Ag based ink and hence,
better wetting behaviour is observed. Figure 6. Optical micrograph of the inkjet printed PEDOT:PSS pattern after (a) two passes and (b) five
passes (c) SEM image of 5 passes of PEDOT:PSS ink pattern
Figure 6. Optical micrograph of the inkjet printed PEDOT:PSS pattern after (a) two passes and (b) five
passes. (c) SEM image of 5 passes of PEDOT:PSS ink pattern. Figure 6. Optical micrograph of the inkjet printed PEDOT:PSS pattern after (a) two passes and (b) five
passes (c) SEM image of 5 passes of PEDOT:PSS ink pattern
Figure 6. Optical micrograph of the inkjet printed PEDOT:PSS pattern after (a) two passes and (b) five
passes. (c) SEM image of 5 passes of PEDOT:PSS ink pattern. Furthermore, the electrical properties of the PEDOT:PSS ink patterns after 5 and 10 passes were
investigated. The printed patterns display high resistive behaviour with resistance values of 1 GΩ for
5 passes and 50 MΩ for 10 passes. It is quite clear that an increase in the number of printing passes
Furthermore, the electrical properties of the PEDOT:PSS ink patterns after 5 and 10 passes were
investigated. The printed patterns display high resistive behaviour with resistance values of 1 GΩfor
5 passes and 50 MΩfor 10 passes. It is quite clear that an increase in the number of printing passes
results in a decrease in the electrical resistance. This effect has also been observed by Sankir [28]. results in a decrease in the electrical resistance. This effect has also been observed by Sankir [28]. Additionally, the adhesion behaviour of the printed patterns on a paper substrate was tested. Good adhesion between the printed patterns and the substrate is an essential requirement for
achieving optimal performance and reliability in this technology, and hence for real potential
exploitation of inkjet printing technology in flexible electronics. 3. Results and Discussion Secondly, the experimental results show that by increasing the number of
printed layers the cohesive force between the substrate and the printed pattern decreases. Micromachines 2019, 10, x
7 of 10
Micromachines 2019, 10, x
7 of 10 Figure 7. Optical microscopy images of the PEDOT:PSS ink pattern after one pass (a) before and (b)
after removal of adhesion tape, and after five passes (c) before and (b) after removal of the adhesive
Figure 7. Optical microscopy images of the PEDOT:PSS ink pattern after one pass (a) before and (b) after
removal of adhesion tape, and after five passes (c) before and (d) after removal of the adhesive tape. Figure 7. Optical microscopy images of the PEDOT:PSS ink pattern after one pass (a) before and (b)
after removal of adhesion tape, and after five passes (c) before and (b) after removal of the adhesive
tape. Figure 7. Optical microscopy images of the PEDOT:PSS ink pattern after one pass (a) before and (b)
after removal of adhesion tape and after five passes (c) before and (b) after removal of the adhesive
Figure 7. Optical microscopy images of the PEDOT:PSS ink pattern after one pass (a) before and (b) after
removal of adhesion tape, and after five passes (c) before and (d) after removal of the adhesive tape. after removal of adhesion tape, and after five passes (c) before and (b) after removal of the adhesive
tape. tape. Furthermore, no delamination was observed when the adhesion tape test was performed on the
silver pattern (five passes), and images of the pattern before and after the test are presented in
Figure 8a,b, respectively. Interestingly, as can be seen in Figure 8c, in this case the adhesive layer
from the tape has been transferred and attached to the top of the printed Ag. In this situation, both
the cohesion force between the silver layers and the adhesive force between the deposited layers and
the solid substrate surface were very strong. Martínez-Sánchez et al. [29] demonstrated that the
inclusion of silver nanoparticles in ceramic greatly enhances the mechanical properties, i.e., fracture
toughness, while maintaining the levels of hardness and elasticity. We conclude that the high
Furthermore, no delamination was observed when the adhesion tape test was performed on
the silver pattern (five passes), and images of the pattern before and after the test are presented in
Figure 8a,b, respectively. 3. Results and Discussion Interestingly, as can be seen in Figure 8c, in this case the adhesive layer from
the tape has been transferred and attached to the top of the printed Ag. In this situation, both the
cohesion force between the silver layers and the adhesive force between the deposited layers and the
solid substrate surface were very strong. Martínez-Sánchez et al. [29] demonstrated that the inclusion
of silver nanoparticles in ceramic greatly enhances the mechanical properties, i.e., fracture toughness,
while maintaining the levels of hardness and elasticity. We conclude that the high adhesion strength is
due to the formation of ceramic–silver composites during the sintering process. Furthermore, no delamination was observed when the adhesion tape test was performed on the
silver pattern (five passes), and images of the pattern before and after the test are presented in
Figure 8a,b, respectively. Interestingly, as can be seen in Figure 8c, in this case the adhesive layer
from the tape has been transferred and attached to the top of the printed Ag. In this situation, both
the cohesion force between the silver layers and the adhesive force between the deposited layers and
the solid substrate surface were very strong. Martínez-Sánchez et al. [29] demonstrated that the
inclusion of silver nanoparticles in ceramic greatly enhances the mechanical properties, i.e., fracture
toughness, while maintaining the levels of hardness and elasticity. We conclude that the high
adhesion strength is due to the formation of ceramic–silver composites during the sintering process. hesion strength is due to the formation of ceramic–silver composites during the sintering proce
Figure 8. Optical microscopy images of printed Ag patterns after five passes (a) before and (b) after
the removal of the adhesion tape (c) Photograph of the Ag surface where the adhesive part of the
Figure 8. Optical microscopy images of printed Ag patterns after five passes (a) before and (b) after
the removal of the adhesion tape. (c) Photograph of the Ag surface where the adhesive part of the
tape was attached. Figure 8. Optical microscopy images of printed Ag patterns after five passes (a) before and (b) after the
removal of the adhesion tape. (c) Photograph of the Ag surface where the adhesive part of the tape
was attached. ceramic–silver composites during the sintering proc Figure 8. 3. Results and Discussion The adhesion tape test was
performed for both PEDOT:PSS and silver ink patterns. In this test, an adhesive tape is applied to the
surface and then pulled off. The patterns were evaluated in the same area before and after the tape
was removed. First, the adhesion features of the PEDOT:PSS ink pattern after one pass were
e aluated A
a
be ee
i
Fi u e 7a b
o dela
i atio
of the
i ted
atte
i ob e
ed O
the
Additionally, the adhesion behaviour of the printed patterns on a paper substrate was tested. Good adhesion between the printed patterns and the substrate is an essential requirement for achieving
optimal performance and reliability in this technology, and hence for real potential exploitation of inkjet
printing technology in flexible electronics. The adhesion tape test was performed for both PEDOT:PSS
and silver ink patterns. In this test, an adhesive tape is applied to the surface and then pulled off. The
patterns were evaluated in the same area before and after the tape was removed. First, the adhesion
features of the PEDOT:PSS ink pattern after one pass were evaluated. As can be seen in Figure 7a,b,
no delamination of the printed pattern is observed. On the other hand, the pattern with five printed 7 of 10 Micromachines 2019, 10, 417 layers delaminates partially, as is illustrated in Figure 7c,d. Interestingly, the detached part is covered
in paper, indicating that there is a strong cohesion among the PEDOT:PSS printed layers and weak
adhesion between the paper and PEDOT:PSS, which could cause this failure. The strong cohesion
among the printed PEDOT:PSS layers is very important for its applications to electronic devices, as it
is acting as a single unit. Secondly, the experimental results show that by increasing the number of
printed layers the cohesive force between the substrate and the printed pattern decreases. Micromachines 2019, 10, x
7 of 10
Micromachines 2019, 10, x
7 of 10 layers delaminates partially, as is illustrated in Figure 7c,d. Interestingly, the detached part is covered
in paper, indicating that there is a strong cohesion among the PEDOT:PSS printed layers and weak
adhesion between the paper and PEDOT:PSS, which could cause this failure. The strong cohesion
among the printed PEDOT:PSS layers is very important for its applications to electronic devices, as it
is acting as a single unit. C
l
i
4. Conclusions . Conclusions
In this paper, we demonstrate that inkjet printing technology is capable of depositing full two
erminal crossbar memory elements on a flexible substrate. Two functional materials, i.e., silver and
PEDOT:PSS, as well as Ag/PEDOT:PSS/Ag structures were deposited by a commonplace Epson Sylus
P50 desktop printer (Epson, Suwa, Nagano, Japan). The quality of the individual Ag and PEDOT:PSS
printed patterns was investigated. It was found that in the case of the nanoparticulate ink the
overage was improved by increasing the number of printed layers. However, for the polymer, i.e.,
PEDOT:PSS, based ink a good surface profile was achieved even for a low number of passes. The
ross-sectional image of the printed layers indicated that the structure was continuously built, with
no sign of a barrier between individual passes being observed. The electrical properties of both of the
printed patterns were investigated and the expected conductive behaviour of silver and high
esistance for PEDOT:PSS were observed. Furthermore, adhesion tests for both inks were conducted. The experimental results showed excellent adhesion between the silver patterns and the flexible
paper substrate. This is an effect of the ceramic–nanoparticle composites formed during the sintering
process. On the other hand, the adhesion between PEDOT:PSS and the substrate is not desirable, and
urther work is required. Furthermore, a fully printed crossbar memory array was fabricated and the
In this paper, we demonstrate that inkjet printing technology is capable of depositing full two
terminal crossbar memory elements on a flexible substrate. Two functional materials, i.e., silver and
PEDOT:PSS, as well as Ag/PEDOT:PSS/Ag structures were deposited by a commonplace Epson Stylus
P50 desktop printer (Epson, Suwa, Nagano, Japan). The quality of the individual Ag and PEDOT:PSS
printed patterns was investigated. It was found that in the case of the nanoparticulate ink the coverage
was improved by increasing the number of printed layers. However, for the polymer, i.e., PEDOT:PSS,
based ink a good surface profile was achieved even for a low number of passes. The cross-sectional
image of the printed layers indicated that the structure was continuously built, with no sign of a barrier
between individual passes being observed. The electrical properties of both of the printed patterns
were investigated and the expected conductive behaviour of silver and high resistance for PEDOT:PSS
were observed. Furthermore, adhesion tests for both inks were conducted. The experimental results
showed excellent adhesion between the silver patterns and the flexible paper substrate. 3. Results and Discussion Optical microscopy images of printed Ag patterns after five passes (a) before and (b) after
h
l
f h
dh
i
( ) Ph
h
f h
A
f
h
h
dh
i
f h
Figure 8. Optical microscopy images of printed Ag patterns after five passes (a) before and (b) after
the removal of the adhesion tape. (c) Photograph of the Ag surface where the adhesive part of the
tape was attached. Figure 8. Optical microscopy images of printed Ag patterns after five passes (a) before and (b) after the
removal of the adhesion tape. (c) Photograph of the Ag surface where the adhesive part of the tape
was attached. Micromachines 2019, 10, 417 8 of 10 Fully Printed Two Terminal Memory Devices. Two terminal crossbar structure memory elements
were fully fabricated at room temperature on a flexible substrate using only a commonplace desktop
inkjet printer. Figure 9a shows an optical microscopy image of the fabricated crossbar array. First,
in order to validate that our printed devices exhibit memory behaviour, the current–voltage (I–V)
characteristics were analysed. Typical I–V behaviour can be observed for five consecutive scans of the
Ag/PEDOT:PSS/Ag memory cell, as can be seen in Figure 9b. The printed device shows hysteresis in
the I–V behaviour, which is an indication of electrical bistability in these devices. Additionally, Vset,
Vreset and Vread have been identified from the I–V curves, and these values were further used when the
memory retention time test was performed. The low conductivity state was programmed by applying
one pulse at +10 V with a 1 ms width. The state was then read by decreasing the voltage to 6 V, where
it was held for 4000 pulses while the current was monitored. Then, by applying a −8 V pulse for 1 ms
the device was switched to a high conductivity state and the state was then read at 6 V. The high and
low conductivity states remained distinguishable, as can be seen from Figure 9c. Micromachines 2019, 10, x
8 of 10
n the I–V behaviour, which is an indication of electrical bistability in these devices. Additionally,
Vset, Vreset and Vread have been identified from the I–V curves, and these values were further used
when the memory retention time test was performed. The low conductivity state was programmed
by applying one pulse at +10 V with a 1 ms width. 3. Results and Discussion The state was then read by decreasing the voltage
o 6 V, where it was held for 4000 pulses while the current was monitored. Then, by applying a −8 V
pulse for 1 ms the device was switched to a high conductivity state and the state was then read at
V. The high and low conductivity states remained distinguishable, as can be seen from Figure 9c. Figure 9. (a) Optical microscopy image of the printed crossbar memory cells. (b) I–V characteristics of
five consecutive runs of the Ag/PEDOT:PSS/Ag memory elements. (c) The memory retention time of
the printed cells
Figure 9. (a) Optical microscopy image of the printed crossbar memory cells. (b) I–V characteristics of
five consecutive runs of the Ag/PEDOT:PSS/Ag memory elements. (c) The memory retention time of
the printed cells. igure 9. (a) Optical microscopy image of the printed crossbar memory cells. (b) I–V characteristics of
ve consecutive runs of the Ag/PEDOT:PSS/Ag memory elements. (c) The memory retention time of
h
i t d
ll
Figure 9. (a) Optical microscopy image of the printed crossbar memory cells. (b) I–V characteristics of
five consecutive runs of the Ag/PEDOT:PSS/Ag memory elements. (c) The memory retention time of
the printed cells. p
In a nutshell, both the current–voltage and retention time tests validate that the fully printed
devices are indeed exhibiting memory behaviour
In a nutshell, both the current–voltage and retention time tests validate that the fully printed
devices are indeed exhibiting memory behaviour. C
l
i
4. Conclusions This is an
effect of the ceramic–nanoparticle composites formed during the sintering process. On the other hand,
the adhesion between PEDOT:PSS and the substrate is not desirable, and further work is required. Furthermore, a fully printed crossbar memory array was fabricated and the electrical behaviour of
these cells was investigated. q
y p
y
y
electrical behaviour of these cells was investigated. We envision that this study will provide a novel platform for the deposition of functional
materials and electronic devices, which has the potential to gradually replace conventional
b
h
l
d
k
f
d
l
g
We envision that this study will provide a novel platform for the deposition of functional
materials and electronic devices, which has the potential to gradually replace conventional subtractive
technologies and make a step forward to greener electronics. Micromachines 2019, 10, 417 9 of 10 Author Contributions: I.S. conceived the experiments, I.S. and S.M. printed the functional materials and performed
all the tests. All authors contributed in the analysis of the results and in writing the manuscript. Funding: This work was supported by the Higher Education Innovation Fund (HE00.11 and HE.0042.04) De
Montfort University. Acknowledgments: S.M. likes to thank Libyan Cultural Bureau London for supporting his doctoral studies at De
Montfort University. The authors also recognise and thank Neil Chilton and Clare Conboy of Printed Electronics
Ltd. for their assistance. Acknowledgments: S.M. likes to thank Libyan Cultural Bureau London for supporting his doctoral studies at De
Montfort University. The authors also recognise and thank Neil Chilton and Clare Conboy of Printed Electronics
Ltd. for their assistance. Conflicts of Interest: The authors declare no conflict of interest. Conflicts of Interest: The authors declare no conflict of interest. Conflicts of Interest: The authors declare no conflict of interest. References 1. Naghdi, S.; Rhee, K.; Hui, D.; Park, J.S. A review of conductive nanomaterials as conductive, transparent, and
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interdiffusion in screen printed metal contacts for silicon based solar cells applications. Energy Procedia 2013,
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substrates. Mater. Today Proc. 2015, 2, 3891–3900. [CrossRef] 12. Fuller, S.B.; Wilhelm, E.J.; Jacobson, J.M. Ink-jet printed nanoparticle microelectromechanical systems. J. Microelectromech. Syst. 2002, 11, 54–60. [CrossRef] 13. Rajan, K.; Roppolo, I.; Chiappone, A.; Bocchini, S.; Perrone, D.; Chiolerio, A. Silver nanoparticle ink
technology: State of the art. Nanotechnol. Sci. Appl. 2016, 9, 1–13. [CrossRef] [PubMed] 14. Lee, H.; Chou, K.; Huang, K. Inkjet printing of nanosized silver colloids. Nanotechnology 2005, 16, 2436. [CrossRef] [PubMed] 15. Koezuka, H.; Tsumura, A.; Fuchigami, H.; Kuramoto, K. Fully patterned all-organic thin film transistors. Appl. Phys. Lett. 1993, 62, 1794. [CrossRef] 6. Arapov, K.; Abbel, R.; de With, G.; Friedrich, H. Inkjet printing of graphene. Faraday Discuss. 2014,
323–336. [CrossRef] [PubMed] 17. Huang, S.; Shen, R.; Qian, B.; Li, L.; Wang, W.; Lin, G.; Zhang, X.; Li, P.; Xie, Y. Thermal bubble inkjet printing
of water-based graphene oxide and graphene inkson heated substrate. J. Phys. D Appl. Phys. 2018, 51, 135302. [CrossRef] 18. Torrisi, F.; Hasan, T.; Wu, W.; Sun, Z.; Lombardo, A.; Kulmala, T.; Hshieh, G.W.; Jung, S.J.; Bonaccorso, F.;
Paul, P.J.; et al. Ink-jet printed graphene electronics. ACS Nano 2012, 6, 2992–3006. [CrossRef] [PubMed] Micromachines 2019, 10, 417 10 of 10 10 of 10 19. Drury, J.; Mutsaers, C.M.J.; Hart, C.M.; Maters, M.; de Leeuw, D.M. Low-cost all-polymer integrated circuits. Appl. Phys. Lett. 1998, 73, 108. [CrossRef] 20. Halik, M.; Klauk, H.; Zschieschang, U.; Schmid, G.; Radlik, W.; Werner, W. Relationship between molecular
structure and electrical performance of oligothiophene organic thin film transistors. Adv. Mater. 2002, 14,
1717. [CrossRef] 21. Sirringhaus, H.; Kawasem, T.; Friend, R.H.; Shimoda, T.; Inbasekaran, M.; Wu, W.; Woo, E.P. High-resolution
inkjet printing of all-polymer transistor circuits. Science 2000, 290, 2123. [CrossRef] 22. References Huber, B.; Popp, P.B.; Kaiser, M.; Ruediger, A.; Schindler, C. Fully inkjet printed flexible resistive memory. Appl. Phys. Lett. 2017, 110, 143503. [CrossRef] 23. Porro, S.; Ricciardi, C. Memristive behaviour in inkjet printed graphene oxide thin layers. RSC Adv. 2015, 5,
68565. [CrossRef] 24. Salaoru, I.; Zhou, Z.; Morris, P.; Gibbons, G.J. Inkjet printing of polyvinyl alcohol multilayers for additive
manufacturing applications. J. Appl. Polym. Sci. 2016, 133. [CrossRef] 25. Derby, B. Inkjet printing of functional and structural materials: Fluid property requirements, feature stability,
and resolution. Annu. Rev. Mater. Res. 2010, 40, 395. [CrossRef] 26. Shen, W.; Zhang, X.; Huang, Q.; Xu, Q.; Song, W. Preparation of solid silver nanoparticles for inkjet printed
flexible electronics with high conductivity. Nanoscale 2014, 6, 1622. [CrossRef] 27. Hsiao, W.; Hoath, S.; Martin, G.; Hutchings, I.; Chilton, N.; Jones, S. Imbibition dynamics of nano-particulate
ink-jet drops on micro-porous media. In Proceedings of the Nanotech 2011 Conference, Boston, MA, USA,
13–16 June 2011. 28. Sankir, N.D. Selective deposition of PEDOT/PSS on to flexible substrates and tailoring the electrical resistivity
by post treatment. Circuit World 2008, 34, 32–37. [CrossRef] 29. Rocha-Rangel, E.; Pérez-de la Fuente, A.; Rodríguez-García, J.A.; Estrada-Guel, I.; Martínez-Sánchez, R. Effect of silver nanoparticles on the microstructure and mechanical properties of alumina ceramics. Can. Metall. Q. 2017, 56, 332–339. [CrossRef] © 2019 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access
article distributed under the terms and conditions of the Creative Commons Attribution
(CC BY) license (http://creativecommons.org/licenses/by/4.0/).
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PENENTUAN TINGKAT BAHAYA EROSI DI WILAYAH DAS BEDADUNG KABUPATEN JEMBER
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Jurnal Ilmiah Rekayasa Pertanian dan Biosistem
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cc-by-sa
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ABSTRACT The development conditions of Watershed (DAS) in Jember Regency currently need to be
evaluated because the conditions have been damaged start from 1999. Thus causing natural
disasters in the watershed area such as landslides, erosion and floods which claimed lives. The
purpose of this study was to determine the level of erosion hazard which was influenced by
several erosion parameter values using the Revised Universal Soil Loss Equation (RUSLE)
method in Bedadung watershed. The input data used in this study were 2004 – 2014 rainfall,
soil type maps, yearly RBI land use maps 2014, and Digital Elevation Model data (DEM) from
ASTER-GDEM. The results showed that the erosivity parameters of rainfall (R) in Bedadung
watershed was an average erosion value of 1708.70 MJ.cm/year. The parameters of soil
erodibility (K) were dominated by latosol soil types with a K value of 0.26. The parameters of
length and slope (LS) were dominated by a flat class which was with a slope of large 0-8%. The parameters of land cover vegetation and soil management (CP) were dominated by
irrigated rice fields with a CP value of 0.02. The erosion rate of Bedadung watershed was
160.57 tons/ha.year, the erosion rate was included in the medium condition. The erosion
hazard level in the Bedadung watershed was dominated at very low levels, i.e. the size of the
erosion ranges from 0 – 15 (tons/ha.year) or 62.20% of the total area. Keywords: watershed, erosion rate, RUSLE, erosion hazard level Keywords: watershed, erosion rate, RUSLE, erosion hazard level JRPB, Vol. 8, No. 1, Maret 2020, Hal. 1-11 JRPB, Vol. 8, No. 1, Maret 2020, Hal. 1-11 DOI: 10.29303/jrpb.v8i1.122
ISSN 2301-8119, e-ISSN 2443-1354
Tersedia online di http://jrpb.unram.ac.id DOI: 10.29303/jrpb.v8i1.122
ISSN 2301-8119, e-ISSN 2443-1354
Tersedia online di http://jrpb.unram.ac.id Idah Andriyani*), Sri Wahyuningsih, Rosalina Sekar Arumsari Program Studi Teknik Pertanian Fakultas Teknologi Pertanian, Universitas Jember
Kampus Tegal Boto, Jl. Kalimantan No. 37, Jember 68121, Indonesia Email*): idahandriyani32@gmail.com Email*): idahandriyani32@gmail.com Email*): idahandriyani32@gmail.com Diterima: Juli 2019
Disetujui: September 2019 Keywords: watershed, erosion rate, RUSLE, erosion hazard level PENDAHULUAN memiliki karakteristik mengalir dari tempat
yang lebih tinggi ke tempat yang lebih
rendah. ABSTRAK Kondisi perkembangan Daerah Aliran Sungai (DAS) di wilayah Kabupaten Jember untuk saat
ini perlu dievaluasi karena kondisinya sudah rusak mulai dari tahun 1999. Hal ini dapat
menimbulkan bencana alam di kawasan DAS seperti tanah longsor, erosi dan banjir yang
memakan korban jiwa. Tujuan dari penelitian ini adalah mengetahui besarnya tingkat bahaya
erosi yang dipengaruhi oleh beberapa nilai parameter erosi menggunakan metode Revised
Universal Soil Loss Equation (RUSLE) di DAS Bedadung. Data input yang digunakan pada
penelitian ini, yaitu curah hujan tahun 2004 – 2014, peta jenis tanah, peta penggunaan lahan
RBI tahun 2014, dan data Digital Elevation Model (DEM) dari ASTER-GDEM. Hasil 1 JRPB, Vol. 8, No. 1, Maret 2020, Hal. 1-11 penelitian menunjukkan bahwa nilai parameter erosivitas hujan (R) DAS Bedadung rata-rata
1708,70 MJ.cm/tahun. Parameter erodibilitas tanah (K) didominasi jenis tanah latosol dengan
nilai K sebesar 0,26. Parameter panjang dan kemiringan lereng (LS) didominasi kelas datar
yaitu dengan besar kemiringan 0-8%. Parameter vegetasi penutupan lahan dan pengelolaan
tanah (CP) didominasi sawah irigasi dengan nilai CP sebesar 0,02. Laju erosi DAS Bedadung
sebesar 160,57 ton/ha.tahun, laju erosi ini termasuk pada kondisi sedang. Tingkat bahaya erosi
pada DAS Bedadung didominasi pada tingkat sangat rendah, yaitu besar erosi berkisar 0 – 15
(ton/ha.tahun) atau 62,20% dari luas wilayahnya. Kata kunci: DAS, laju erosi, RUSLE, tingkat bahaya erosi Kata kunci: DAS, laju erosi, RUSLE, tingkat bahaya erosi Latar Belakang DAS Bedadung merupakan salah satu
DAS
terbesar
di
Kabupaten
Jember
(Santoso, dkk., 2013). DAS Bedadung
dibedakan menjadi dua area antara lain:
DAS Bedadung dengan panjang sungai
92.752 meter dengan melewati kali Sumber
Pakem, kali Bunut, kali Kramat Agung, kali
Mojo, dan kali Antirogo; serta DAS
bedadung hilir dengan panjang sungai
69.680
meter
dengan
melewati
kali
Penggung, kali Besini, kali Glundengan, dan
kali Bedadung (Badan Pusat Statistik,
2013). Erosi yang terjadi di DAS Bedadung
rata-rata sebesar 1-3 ton/ha.tahun (Dinas
Lingkungan Hidup Provinsi Jawa Timur,
2010). Erosi terjadi disebabkan intensitas
curah hujan yang tinggi dan alih fungsi
lahan. Erosi
merupakan
suatu
proses
hilangnya lapisan permukaan tanah bagian
atas, yang disebabkan oleh pergerakan air
maupun angin (Suripin, 2004). Erosi tanah
dapat terjadi melalui dua proses, yaitu
pertama proses penghancuran partikel tanah
dan kedua proses pengangkutan partikel
tanah yang telah dihancurkan. Kedua proses
ini terjadi akibat hujan dan aliran permukaan
yang dipengaruhi oleh berbagai parameter
antara lain curah hujan (intensitas, diameter,
lama, dan jumlah hujan), karakteristik tanah
(sifat fisik), penutupan lahan, kemiringan
lereng, panjang lereng dan sebagainya
(Wischmeier dan Smith, 1978). Parameter-
parameter yang dijelaskan oleh Wischmeier
dan Smith (1978) tersebut satu sama lain
akan
bekerja
secara
simultan
dalam
mempengaruhi laju erosi (Banuwa, 2008). Dengan kondisi DAS Bedadung saat
ini, perlu dilakukan penelitian tentang
parameter-parameter yang mempengaruhi
erosi dan memprediksi besarnya erosi serta
tingkat bahaya erosi di wilayah DAS. Salah
satu metode yang dapat digunakan untuk
memprediksi besarnya erosi, yaitu metode
RUSLE (Revised Universal Soil Loss
Equation). Metode RUSLE merupakan
suatu pemodelan erosi yang digunakan
untuk memprediksi rata-rata besarnya laju
erosi tahunan akibat percikan air hujan dan
aliran permukaan dari suatu bentang lereng
yang ada dengan tanaman dan pengolahan
tertentu (Renard, dkk., 1997). Parameter
erosivitas hujan (R), parameter erodibilitas
tanah
(K),
parameter
panjang
dan
kemiringan lereng (LS), serta parameter Menurut
Peraturan
Pemerintah
Republik Indonesia No 37 (2012) Daerah
Aliran Sungai adalah suatu wilayah daratan
yang terdiri dari satu kesatuan ekosistem
sungai dengan anak sungainya yang dibatasi
oleh batas-batas topografi secara alami
sedemikian rupa sehingga setiap air hujan
yang jatuh dalam DAS tersebut akan
mengalir
melalui
titik
tertentu
(titik
pengukuran di sungai) dalam DAS tersebut. Apabila terdapat suatu kegiatan pada
wilayah DAS mulai dari bagian hulu sampai
hilir yang dapat mempengaruhi baik dari
segi kualitas maupun kuantitas, maka akan
menimbulkan dampak pada DAS. Erosi
dapat mempengaruhi DAS karena air
sebagai media pembawa butir-butir tanah 2 JRPB, Vol. 8, No. 1, Maret 2020, Hal. Metode Pengolahan Data Perhitungan laju erosi menggunakan
metode RUSLE dengan menggunakan
software GIS. Berikut tahapan pengolahan
dan perhitungan menggunakan metode
RUSLE dan software GIS: a.
Parameter erosivitas hujan (R) Data curah hujan yang digunakan
dalam penelitian, yaitu data curah hujan dari
tahun 2004 – 2014. Data curah hujan yang
digunakan pada DAS Bedadung terdiri dari
15 stasiun hujan. Data curah hujan harian
diolah terlebih dahulu untuk mendapatkan
nilai
hujan
maksimum
30
menit
menggunakan
metode
mononobe,
(Persamaan 1). I = (R24/24) (24/t)2/3 ................................ (1) I = (R24/24) (24/t)2/3 ................................ (1) . (1) Tujuan Tujuan dari penelitian ini adalah
mengetahui besar laju erosi dan tingkat
bahaya
erosi
yang
dipengaruhi
oleh
beberapa
nilai
parameter
erosi
menggunakan metode Revised Soil Loss
Equation (RUSLE) di DAS Bedadung. Latar Belakang 1-11 pengelolaan
tanaman
dan
tindakan
konservasi tanah (CP) merupakan parameter
yang ada dalam perhitungan laju erosi
menggunakan metode RUSLE. merupakan data sekunder. Peta diolah
menggunakan aplikasi GIS yaitu ArcGIS
10. Selain itu, ArcGIS 10 digunakan untuk
menghitung besar erosi dan tingkat bahaya
erosi menggunakan metode RUSLE. Alat
yang digunakan pada penelitian ini, yaitu
laptop dilengkapi software GIS ArcMap
10.4.1. Waktu dan Tempat Penelitian Waktu dan Tempat Penelitian
Penelitian ini terletak di daerah aliran
sungai
(DAS)
Bedadung,
Kabupaten
Jember. Kegiatan
penelitian
ini
dilaksanakan pada bulan Mei hingga bulan
Juli 2018. DAS Bedadung adalah suatu DAS
yang secara geografis terletak antara
113o38’24.45” sampai 114o01’97.00” BT
dan 7o95’65.85” sampai 8o43’52.61” LS. DAS Bedadung memiliki luas sebesar
102.434,1 ha. Lokasi DAS Bedadung
disajikan pada Gambar 1. f
1. Pengumpulan data dan interpretasi
parameter erosi 1. Pengumpulan data dan interpretasi
parameter erosi Alat dan Bahan Data yang digunakan dalam penelitian
ini, yaitu data curah hujan durasi 10 tahun,
peta tataguna lahan tahun 2014, peta jenis
tanah, peta batas wilayah dan peta DEM di
wilayah DAS Bedadung. Data tersebut Keterangan: g
= Intensitas curah hujan mm/jam Gambar 1. Peta wilayah DAS Bedadung Gambar 1. Peta wilayah DAS Bedadung 3 3 JRPB, Vol. 8, No. 1, Maret 2020, Hal. 1-11 t = lamanya waktu hujan (menit) Tabel 1. Nilai K berdasarkan jenis tanah
No. Jenis Tanah
(Type of Soil)
Nilai K
(K Index)
1
Alluvial
0,29
2
Andosol
0,28
3
Brown Forest
0,28
4
Glei
0,29
5
Grumusol
0,16
6
Latosol
0,26
7
Litosol
0,13
8
Mediteran
0,16
9
Organosol
0,29
10
Podsolik
merah
0,2
11
Regosol
0,31
Sumber: Bappenas (2012) Tabel 1. Nilai K berdasarkan jenis tanah Keterangan:
EK
= Energi kinetik (MJ/ha.cm hujan)
I-30
= intensitas hujan maksimum 30 menit Parameter Indeks erosivitas hujan (R,
EI-30) merupakan penjumlahan nilai-nilai
indeks erosi hujan bulanan dan dihitung
berdasarkan Persamaan 3 (Renard, dkk.,
1997). parameter
LS
menggunakan
ArcGIS
memerlukan data Slope dan arah aliran
(Flow Accumulation). Parameter panjang
dan
kemiringan
dihitung
menurut
Persamaan 4 (Wischmeier dan Smith, 1978)
untuk kemiringan kurang dari 9%. Untuk
lahan dengan kemiringan di atas 9%
menggunakan Persamaan 5. parameter
LS
menggunakan
ArcGIS
memerlukan data Slope dan arah aliran
(Flow Accumulation). Parameter panjang
dan
kemiringan
dihitung
menurut
Persamaan 4 (Wischmeier dan Smith, 1978)
untuk kemiringan kurang dari 9%. Untuk
lahan dengan kemiringan di atas 9%
menggunakan Persamaan 5. EI-30 = EK x (I-30 x 10-2) ...................... (3) EI-30 = EK x (I-30 x 10-2) ...................... (3)
Keterangan:
EI-30 = Indeks erosivitas I-30
EK
= Energi kinetik (MJ/ha.cm hujan)
I-30
= intensitas hujan maksimum 30 menit
(cm) Keterangan:
EI-30 = Indeks erosivitas I-30
EK
= Energi kinetik (MJ/ha.cm hujan)
I-30
= intensitas hujan maksimum 30 menit
(cm) LS = (X/22)0,50 (0,0138 + 0,00965S +
0,00138S2) ............................................ (4)
LS = (X/22)0,50(S/9)1,35 .......................... (5) LS = (X/22)0,50 (0,0138 + 0,00965S +
0,00138S2) ............................................ (4) Nilai erosivitas hujan dari 15 stasiun
hujan yang ada di wilayah DAS Bedadung
kemudian diinput pada layer stasiun hujan
menggunakan software ArcGIS. Untuk
mengetahui daerah dengan nilai erosivitas
berdasarkan luas wilayah menggunakan
metode Poligon Theissen. Keterangan:
X = panjang lereng (m)
S = kecuraman lereng (%) b. Parameter erodibilitas tanah (K) b. Parameter erodibilitas tanah (K) d. Parameter vegetasi pengolahan lahan
dan konservasi tanah (CP) d. Parameter vegetasi pengolahan lahan
dan konservasi tanah (CP) Parameter
erodibilitas
tanah
(K)
adalah resistensi partikel tanah terhadap
pengelupasan dan pengangkutan partikel-
partikel tanah dari kekuatan air hujan. Nilai
erodibilitas tanah dapat dilihat pada Tabel 1
berdasarkan Bappenas (2012). Pengelolaan vegetasi penutupan lahan
dan konservasi tanah ini mempengaruhi
erosi dengan mengubah pola aliran dan arah
dari
limpasan
permukaan
dengan
mengurangi jumlah dan laju limpasan
(Devatha, dkk., 2015). Peta tata guna lahan
digunakan
untuk
mengetahui
kondisi
pemanfaatan lahan di wilayah penelitian. Adapun peta tata guna lahan dapat ditinjau
dari peta Rupa Bumi Indonesia (RBI) pada
tahun 2014 skala 1:25.000. Parameter CP
dapat ditentukan berdasarkan penelitian di
Jawa seperti Tabel 2 menurut Bappenas
(2012). Nilai CP kemudian diinput pada c.
Parameter panjang dan kemiringan
lereng (LS) c. Parameter panjang dan kemiringan
lereng (LS) c. Parameter panjang dan kemiringan
lereng (LS) Parameter panjang dan kemiringan
lereng (LS) merupakan dua unsur topografi
yang berpengaruh besar terhadap aliran
permukaan dan besarnya laju erosi. Analisis
spasial LS memanfaatkan data DEM
(Digital Elevation Model). Perhitungan 4 JRPB, Vol. 8, No. 1, Maret 2020, Hal. 1-11 interpretasi
parameter
erosi
kemudian
dihitung laju erosi menggunakan metode
RUSLE dengan integrasi software GIS. Perhitungan laju erosi disajikan pada
Persamaan (Wischmeier dan Smith, 1978). layer tata guna lahan menggunakan software
GIS. Selanjutnya, dikonversi menggunakan
tools “polygon to raster” pada software GIS. Sebagai standar penentuan parameter C dan
P, berikut disajikan nilai faktor C dan P
maupun CP (Tabel 2). p
(
)
Tabel 2. Prakiraan parameter CP pada berbagai
jenis penggunaan lahan
No. Konservasi dan pengelolaan
tanaman
Nilai
CP
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
Kebun
Tanah Kosong/Padang
Rumput
Ladang
Hutan
Sawah Irigasi
Semak Belukar
Sungai
Pemukiman
Sawah Tadah Hujan
Empang
Rawa/Hutan Rawa
Danau/Bendungan
Pasir
Penggaraman
Pabrik/Gedung
Bandar Udara/ Pelabuhan
0,30
0,02
0,28
0,001
0,02
0,10
0,001
1
0,05
0,001
0,01
0,001
1
1
1
1
Sumber: Bappenas (2012)
2. Prediksi Laju Erosi
Dari
keseluruhan
layer
yang
dihasilkan pada pengumpulan data dan
Tabel 3. Nilai erosivitas hujan (R) pada Wilaya
No
Nama
I-30 (cm/tahun)
1
Rambipuji
368
2
Rawatamtu
492,8
3
Curah Malang
460,8
4
Puger
278,4
5
Grenden
256
6
Gumelar Timur
310,4
7
Tamansari
464
8
Glundengan
339,2
9
Lojejer
342,4
10
Ampel
300,8
11
Sukowono
316,8
12
Sumberkalong
416
13
Sumberjambe
454,4
14
Cumedak
473,6
15
Kottok
531,2
Rata – rata
386,98 (6) 𝐴= 𝑅. 𝐾. 𝐿𝑆. 𝐶𝑃..................................... (6)
Keterangan:
A
= Jumlah tanah yang tererosi (ton/ha.tahun)
R = Parameter erosivitas curah hujan tahunan
rata-rata (cm/tahun)
K = Parameter erodibilitas tanah;
LS = Parameter panjang dan kemiringan lereng
(%)
CP = Parameter vegetasi dan pengelolaan
konservasi lahan 𝐴= 𝑅. 𝐾. 𝐿𝑆. 𝐶𝑃..................................... (6)
Keterangan:
A
= Jumlah tanah yang tererosi (ton/ha.tahun)
R = Parameter erosivitas curah hujan tahunan
rata-rata (cm/tahun)
K = Parameter erodibilitas tanah;
LS = Parameter panjang dan kemiringan lereng
(%)
CP = Parameter vegetasi dan pengelolaan
konservasi lahan Tabel 2. Prakiraan parameter CP pada berbagai
jenis penggunaan lahan Keterangan: HASIL DAN PEMBAHASAN Parameter Erosivitas Hujan (R) Parameter Erosivitas Hujan (R) Stasiun hujan yang ada pada wilayah
DAS Bedadung sebanyak 15 stasiun. Perhitungan
data
curah
hujan
yang
digunakan untuk mengetahui sebaran nilai R
di wilayah tersebut. Nilai erosivitas hujan
pada wilayah DAS Bedadung disajikan pada
Tabel 3 dan Gambar 2 memperlihatkan peta
erovitas hujan di DAS Bedadung. Tabel 3. Nilai erosivitas hujan (R) pada Wilayah DAS Bedadung Tabel 3. Nilai erosivitas hujan (R) pada Wilayah DAS Bedadung
No
Nama
I-30 (cm/tahun)
Energi Kinetik (MJ/ha.cm)
R (MJ.cm/ tahun)
1
Rambipuji
368
438,66
1614,27
2
Rawatamtu
492,8
449,95
2217,34
3
Curah Malang
460,8
447,35
2061,4
4
Puger
278,4
427,88
1191,21
5
Grenden
256
424,63
1087,06
6
Gumelar Timur
310,4
432,08
1341,18
7
Tamansari
464
447,62
2076,96
8
Glundengan
339,2
435,51
1477,25
9
Lojejer
342,4
435,87
1492,43
10
Ampel
300,8
430,87
1296,05
11
Sukowono
316,8
432,87
1371,33
12
Sumberkalong
416
443,4
1844,54
13
Sumberjambe
454,4
446,81
2030,31
14
Cumedak
473,6
448,41
2123,68
15
Kottok
531,2
452,85
2405,53
Rata – rata
386,98
439,65
1708,70 5 5 JRPB, Vol. 8, No. 1, Maret 2020, Hal. 1-11 Gambar 2. Peta erosivitas hujan (R) DAS Bedadung Gambar 2. Peta erosivitas hujan (R) DAS Bedadung dengan pertambahan waktu dan akumulasi
intensitas
hujan
tersebut
akan
mendatangkan erosi (Kironoto, 2000 dalam
Suripin, 2004). Nilai energi kinetik terendah pada
wilayah DAS Bedadung, yaitu pada stasiun
hujan Grenden sebesar 424,63 MJ/ha.cm,
dengan nilai erosivitas hujan 1087,06
MJ.cm/tahun. Hal ini karena pada wilayah
tersebut jarang terjadi hujan atau curah
hujannya rendah. Sedangkan nilai energi
kinetik tertinggi, yaitu pada stasiun hujan
Kottok sebesar 452,85 MJ/ha.cm, dengan
nilai erosivitas hujan 2405,53 MJ.cm/tahun. Hal ini karena pada wilayah tersebut sering
terjadi hujan atau curah hujannya tinggi. Nilai erosivitas tergantung curah
hujan bulanan rerata pada setiap stasiun
hujan. Semakin tinggi curah hujan, maka
semakin
tinggi
nilai
erosivitas
yang
dihasilkan. Nilai erosivitas yang tinggi
belum tentu menyebabkan terjadinya erosi
yang tinggi pula, jika erosi terjadi pada tanah
yang mempunyai nilai erodibilitas rendah,
terletak
pada
daerah
yang
memiliki
kemiringan lereng rendah (landai) serta
pengelolaan lahan yang baik (Kartika, dkk.,
2016). Dengan rata-rata erosivitas hujan
selama 10 tahun, yaitu sebesar 1844,278
MJ.cm/ha, curah hujan yang jatuh secara
langsung
atau
tidak
langsung
dapat
mengikis permukaan tanah secara perlahan Gambar 3. Peta erodibilitas tanah (K) DAS Bedadung Gambar 3. Peta erodibilitas tanah (K) DAS Bedadung 6 JRPB, Vol. 8, No. 1, Maret 2020, Hal. 1-11 Tabel 4. Parameter Erosivitas Hujan (R) Sebaran jenis tanah dan tingkat erodibilitas tanah di wilayah DAS Bedadung
No
Jenis Tanah
Nilai K (ton/Mj.c)
Luas (ha)
Luas (%)
Tingkat Erodibilitas
1
Regosol
0,301
256316,4
25,03
Sedang
2
Andosol
0,28
159447,6
15,57
Sedang
3
Latosol
0,26
480700,8
46,94
Sedang
4
Aluvial
0,29
10712,7
1,05
Sedang
5
Glei
0,29
74962,8
7,32
Sedang
6
Mediteran
0,16
42016,5
4,10
Rendah
Total
102.434,1
100 bel 4. Sebaran jenis tanah dan tingkat erodibilitas tanah di wilayah DAS Bedadung Parameter Erodibilitas Tanah (K) Parameter Erodibilitas Tanah (K) 74962,8 ha, andosol dengan nilai K sebesar
0,28 ton/MJ.cm dan luas 159447,6 ha,
aluvial dengan nilai K sebesar 0,29
ton/MJ.cm dan luas 10712,7 ha, serta
regosol dengan nilai K sebesar 0,31
ton/MJ.cm dan luas 256316,4 ha. Semakin
besar nilai K, maka kepekaan tanah terhadap
erosi
semakin
tinggi. Begitu
juga
sebaliknya, jika semakin kecil nilai K maka
kepekaan tanah terhadap erosi semakin kecil
pula. Menurut Arsyad (1989) berbagai jenis
tanah memiliki tingkat kepekaan terhadap
erosi yang berbeda-beda. Parameter Erodibilitas Tanah (K)
Gambar
3
menyajikan
Peta
erodibilitas tanah (K) DAS Bedadung. Menurut Wischmeier dan Smith (1978),
Parameter erodibilitas tanah (K) adalah
resistensi
partikel
tanah
terhadap
pengelupasan dan pengangkutan partikel-
partikel tanah dari kekuatan air hujan. Tanah
akan semakin peka terhadap erosi jika curah
hujan tinggi, karena curah hujan di
Indonesia pada umumnya tinggi, berkisar
dari 1500 – 3000 mm/tahun atau lebih setiap
tahunnya, dengan intensitas yang juga tinggi
(Dariah, dkk., 2004). 16777 Parameter Panjang dan Kemiringan
Lereng (LS) Berdasarkan Tabel 4, jenis tanah yang
memiliki tingkat erodibilitas rendah, yaitu
mediteran dengan nilai K sebesar 0,16
ton/MJ.mm dan luas 42016,5 ha. Jenis tanah
yang memiliki tingkat erodibilitas sedang,
yaitu latosol dengan nilai K sebesar 0,26
ton/MJ.cm dan luas 480700,8 ha, glei
dengan nilai K 0,29 ton/MJ.cm dan luas g
Gambar
4
memperlihatkan
Peta
Parameter
LS
(Lenght
Slope)
DAS
Bedadung. Berdasarkan Tabel 5, DAS
Bedadung didominasi oleh nilai LS kelas 0
– 8 seluas 77208,40 ha atau 75,53% dengan
deskripsi kemiringan lereng yang datar dari Gambar 4. Peta Parameter LS (Length Slope) DAS Bedadung Gambar 4. Peta Parameter LS (Length Slope) DAS Bedadung 7 JRPB, Vol. 8, No. 1, Maret 2020, Hal. 1-11 Gambar 5. Peta nilai CP Tahun 2014 DAS Bedadung Gambar 5. Peta nilai CP Tahun 2014 DAS Bedadung luas total DAS Bedadung. Sedangkan nilai
LS pada kelas 8 – 15 seluas 8328,78 ha atau
8,148% dengan deskripsi kemiringan lereng
yang landai. Nilai LS pada kelas 15-25
seluas 6252,39 ha atau 6,117% dengan
deskripsi
kemiringan
lereng
yang
bergelombang. Nilai LS pada kelas 25-45
seluas 5658,038 ha atau 5,53% dengan
deskripsi kemiringan lereng yang curam. aliran permukaan menjadi lebih tinggi
kedalaman maupun kecepatannya. Parameter Vegetasi Penutupan Lahan
dan Konservasi Tanah (CP) Dari hasil analisis peta RBI tahun
2014 di wilayah DAS Bedadung diperoleh
12 jenis penggunaan lahan. Nilai CP dan
luas setiap penggunaan lahan pada wilayah
DAS disajikan pada Gambar 5 dan Tabel 6
memperlihatkan peta nilai CP tahun 2014
DAS Bedadung. Tabel 5. Parameter LS pada DAS Bedadung
No
Kemiringan
(%)
Luas
(Ha)
Luas
(%)
Deskripsi
1
0 – 8
77208,40
75,533
Datar
2
8 – 15
8328,78
8,148
Landai
3
15 – 25
6252,39
6,117
Bergelombang
4
25 – 45
5658,03
5,535
Curam
5
> 45
4771,08
4,668
Sangat Curam
Total
102.434,1
100,00 Tabel 5. Parameter LS pada DAS Bedadung Tabel 6. Penggunaan lahan tahun 2014 pada
DAS Bedadung
No
Peruntukan Lahan
Nilai
CP
Luas
(ha)
Luas
(%)
1
Kebun
0,3
18701,6
18,26
2
Tanah Kosong
0,02
416,3
0,40
3
Ladang
0,28
10061,3
9,82
4
Hutan
0,001
20598,2
20,12
5
Sawah Irigasi
0,02
29084,6
28,41
6
Semak Belukar
0,1
4135,8
4,04
7
Sungai
0,001
263,7
0,25
8
Pemukiman
1
14269,8
13,94
9
Sawah Tadah
Hujan
0,05
4742,1
4,63
10
Pasir
0,001
55,89
0,05
11
Danau/Bendungan
1
6,57
0,006
12
Tanah Campur
0,02
29,61
0,029
Jumlah
102434,1
100 Tabel 6. Penggunaan lahan tahun 2014 pada
DAS Bedadung Nilai LS pada kelas > 45 seluas
4771,08 ha atau 4,66% dengan deskripsi
kemiringan lereng yang sangat curam. Seperti yang dikatakan oleh Kartasapoetra,
dkk., (2005), bahwa kemiringan dan
panjang lereng yang besar pada tanah
menyebabkan semakin besar pula kecepatan
aliran air di permukaannya sehingga
pengikisan terhadap bagian-bagian tanah
juga semakin besar. Semakin panjang lereng
suatu lahan menyebabkan semakin banyak
air permukaan yang terakumulasi, sehingga 8 8 JRPB, Vol. 8, No. 1, Maret 2020, Hal. 1-11 Tabel 7. Hasil perhitungan laju erosi DAS Bedadung
No
Besar Erosi
(ton/ha.thn)
Luas (ha)
Laju Erosi
(ton/ha.tahun)
Luas
(%)
TBE
1
0 – 15
63510
1,86
62,2
Sangat rendah
2
15 – 60
9542
31,40
9,35
Ringan
3
60 – 180
6169
110,22
6,04
Sedang
4
180 – 480
7799
315,80
7,64
Berat
5
> 480
15075
1966,33
14,7
Sangat berat
Jumlah
102.434,1
2425,62
100
Rata-rata Laju Erosi (ton/ha.tahun)
160,57 Tabel 7. Hasil perhitungan laju erosi DAS Bedadung merupakan parameter yang ada dalam
perhitungan laju erosi menggunakan metode
RUSLE. Pemodelan RUSLE menggunakan
software ArcGIS dilakukan dengan tool
raster calculator. Perhitungan laju erosi
menggunakan raster calculator dilakukan
setelah semua peta parameter erosi telah
menjadi format raster dan di-overlay
(tumpang susun) antara parameter R, K, LS
dan CP. Parameter Vegetasi Penutupan Lahan
dan Konservasi Tanah (CP) Berdasarkan Tabel 6, penggunaan
lahan 2014 di DAS Bedadung didominasi
oleh sawah irigasi dengan luas 29084,58 ha
atau 28,41% dari total luas wilayahnya. DAS Bedadung juga didominasi oleh kebun,
hutan, dan pemukiman. Kebun pada DAS
Bedadung memiliki luas sebesar 18701,6 ha. pemukiman memiliki luas sebesar 14269,8
ha, serta hutan memiliki luas sebesar
20598,2 ha. Apabila nilai parameter CP
besar maka penggunaan lahan pada daerah
tersebut akan besar, Oleh karena, itu besar
potensinya untuk terjadi erosi karena tanah
menjadi rusak akibat pengelolaan yang
berlebihan
dan
tanah
tidak
tertutupi
sepenuhnya oleh vegetasi. DAS Bedadung memiliki luas sebesar
102.434,1
ha;
terdiri
dari
beberapa
kecamatan memiki potensi erosi yang cukup
besar. Laju erosi dihitung berdasarkan data
hujan,
data
penggunaan
lahan,
data
kemiringan lereng dan data jenis tanah. Besar laju erosi pada DAS Bedadung yang
dihitung menggunakan persamaan metode
RUSLE ditunjukkan pada Tabel 7. Adapun
Gambar 6 memperlihatkan Peta laju erosi
DAS Bedadung. Sedangkan untuk daerah dengan
sedikit pengelolaan dari manusia dan
terdapat vegetasi penutup lahan maka akan
memiliki nilai parameter CP yang kecil. Seperti yang disampaikan Devatha, dkk.,
(2015), jika pada suatu daerah terdapat
banyak kegiatan pengelolaan lahan yang
mengurangi vegetasi penutup lahan, maka
air hujan akan langsung jatuh ke tanah,
sehingga besar kemungkinan terjadinya
erosi. Besar rata-rata laju erosi pada wilayah
DAS Bedadung pertahunnya sebesar 160,57
ton/ha.tahun. Wilayah DAS Bedadung
didominasi pada tingkat bahaya erosi sangat
rendah, yaitu besar erosi berkisar 0-15
(ton/ha.tahun). Besar laju erosi pertahunnya
berkisar 1,86 ton/ha.tahun atau 62,20% dari
luas wilayahnya. Pada tingkat bahaya erosi
ringan
laju
erosinya,
yaitu
31,40
ton/ha.tahun atau 9,35% dari luas wilayah
yang ada. Pada tingkat bahaya erosi sedang
laju erosinya, yaitu 110,22 ton/ha.tahun atau
6,04% dari luas wilayah yang ada. Pada
tingkat bahaya erosi berat laju erosinya,
yaitu 315,80 ton/ha.tahun atau 7,64% dari
luas wilayah yang ada. Pada tingkat bahaya
erosi sangat berat laju erosinya, yaitu UCAPAN TERIMA KASIH 1966,33 ton/ha.tahn atau 14,76% dari luas
wilayah yang ada. 1966,33 ton/ha.tahn atau 14,76% dari luas
wilayah yang ada. Ucapan
terima
kasih
terutama
ditujukan kepada pemberi dana penelitian
atau donatur (Hibah Keris Batch 1 tahun
2018)
dan
kepada
pihak-pihak
yang
membantu pelaksanaan penelitian. Laju Erosi dan Tingkat Bahaya Erosi (TBE) Laju Erosi dan Tingkat Bahaya Erosi (TBE)
Pendugaan laju erosi pada penelitian
ini menggunakan metode RUSLE dengan
menggunakan software ArcGIS. Nilai laju
erosi dipengaruhi oleh parameter-parameter
penyebab erosi. Parameter erosivitas hujan
(R), parameter erodibilitas tanah (K),
parameter panjang dan kemiringan lereng
(LS), serta parameter pengelolaan tanaman
dan
tindakan
konservasi
tanah
(CP) 9 9 JRPB, Vol. 8, No. 1, Maret 2020, Hal. 1-11 Gambar 6. Peta laju erosi DAS Bedadung Gambar 6. Peta laju erosi DAS Bedadung Kesimpulan Berdasarkan pembahasan yang telah
dijelaskan di atas, dapat disimpulkan bahwa
besar laju erosi DAS Bedadung sebesar
160,57 ton/ha.tahun. Tingkat bahaya erosi
pada DAS Bedadung didominasi oleh kelas
1, yaitu 0 – 15 ton/ha.tahun sebesar 62,2%
dari total wilayah luas DAS. Pada tingkat
bahaya erosi ringan 15-60 ton/ha.tahun
sebesar 9,35%, tingkat bahaya erosi sedang
60-180 ton/ha.tahun sebesar 6,04% dari luas
wilayah yang ada. Pada tingkat bahaya erosi
berat 180-480 ton/ha.tahun sebesar 7,64%,
tingkat bahaya erosi sangat berat laju
erosinya, yaitu > 480 ton/ha.tahun sebesar
14,76% dari luas wilayah yang ada. DAFTAR REFERENSI Arsyad, S. (1989). Konservasi Tanah dan
Air. Bogor: IPB Press. Badan Pusat Statistik. (2013). Jember
Dalam Angka. Jember: BPS. Banuwa,
I.S. (2008). Erosi. Jakarta:
Kencana Prenada Media Group. Bappenas. (2012). Analisa Perubahan
Penggunaan Lahan di Ekosistem DAS
dalam Menunjang Ketahanan Air dan
Ketahanan Pangan. E-book. Jakarta:
Direktorat Kehutanan dan Konservasi
Sumber Daya Air. Saran Data hasil penelitian yang telah
dilakukan
sebaiknya
perlu
dilakukan
perhitungan langsung terkait nilai laju erosi
untuk
membandingkan
dengan
hasil
pendugaan erosi menggunakan Sistem
Informasi Geografis (SIG). Dariah, A., Rachman, A., & Kurnia, U. (2004). Erosi dan Degradasi Lahan
Kering
di
Indonesia,
dalam:
Teknologi Konservasi Tanah pada
Lahan Kering Berlereng. Bogor:
Puslittanah, BP3 Deptan. 10 JRPB, Vol. 8, No. 1, Maret 2020, Hal. 1-11 Devatha,
P.C.,
Deshpande,
V.,
&
Renukaprasad,
M.S. (2015). Estimation of Soil loss using USLE
model
for
Kulhan
Watershed,
Chattisgarh-
A
case
study. International Conference On Water
Resources,
Coastal
and
Ocean
Engineering
(ICWRCOE
2015). Aquatic Procedia, 4, 1429-1436. tentang Pengelolaan Daerah Aliran
Sungai. Diakses 4 April 2018, dari
http://www.bphn.go.id/data/document
s /12pp037.pdf. Renard, K.G., Foster, G.R., Weesies, G.A.,
McCool, D.K., & Yoder, D.C. (1997). Predicting Soil Erosion by Water: A
Guide to Conservation Planning with
the Revised Universal Soil Loss
Equation
(RUSLE). USDA
Agriculture Handbook No. 703. Dinas Lingkungan Hidup Provinsi Jawa
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Pengelolaan
Lingkungan
Hidup
Daerah Provinsi Jawa Timur Tahun
2010. Surabaya: DIKPLHD. Santoso, B., Hendrijanto, K., Rahmawati,
A., Jannah, R., & Tyas, M.R. (2013). Model Intervensi Pengelolaan Daerah
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pada
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Bedadung
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Jember). Jember: Program Studi Sosiologi
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Sutedjo, M.M. (2005). Teknologi
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A. (2016). Pemetaan Tingkat Bahaya
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Agroteknologi, 10(01), 117-128. Suripin. (2004). Drainase Perkotaan yang
Berkelanjutan. Yogyakarta: ANDI
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Indonesia Nomor 37 Tahun 2012 Wischmeier, W.H., & Smith, D.D. (1978). Predicting Rainfall Erosion Losses. USDA Agriculture Handbook. 11
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Hacia el desarrollo sostenible: La educación en derechos humanos en la formación de especialistas en Derecho Penal
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REVISTA EDUCACIÓN Y DERECHO. I NÚMERO EXTRAORDINARIO
Hacia
el
desarrollo
sostenible:
La
educación en derechos humanos en la
formación de especialistas en Derecho
Penal
Towards Sustainable Development: Human
Rights Education in the Training of Criminal
Law Specialists
Darina Ortega León
Profesora Titular de Derecho Procesal Penal y Criminología
145
145
Facultad de Derecho
Universidad de Oriente (Cuba)
E-mail: darina@uo.edu.cu
María Elvira Batista Ojeda
Profesora Titular de Derecho Procesal Penal
Facultad de Derecho
Universidad de Oriente (Cuba)
E-mail: melvira@uo.edu.cu
Resumen: La educación como derecho humano y su dimensionamiento dentro de los
objetivos para el desarrollo sostenible, han encontrado un punto de convergencia dentro
de la educación en valores en lo que se ha denominado la educación en derechos. Desde
esta idea, se promueve el desarrollo de una cultura de respeto a los derechos humanos a
la que se debe contribuir desde todos los niveles de formación, incluyendo el posgrado.
Como parte de estas aspiraciones adquiere especial significación la formación de
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DARINA ORTEGA LEÓN Y MARÍA ELVIRA BATISTA OJEDA. Hacia el desarrollo sostenible: La…
especialistas en Derecho penal, al ser en este ámbito donde más comprometidos se pueden
ver los derechos humanos. De ahí la necesidad de formar no sólo profesionales con vastos
conocimientos, sino también, sujetos de derecho que promuevan el respeto a la dignidad
humana desde su actuación. Desde estas premisas nos acercamos a la experiencia
desarrollada por el Programa de Formación de Especialistas en Derecho penal de la
Facultad de Derecho de la Universidad de Oriente de Cuba con el objetivo de valorar si
su concepción y ejecución responde a la educación en derechos humanos como expresión
de la educación en valores y la transferencia de los objetivos de desarrollo sostenible a la
sociedad civil, profesional y académica.
Palabras clave: Derechos humanos, educación, derecho penal, desarrollo sostenible.
Abstract: Education as human right, and its dimension within the sustainable
development objectives, have found a convergent point in education in values, in what
has been denominated education in rights. From this idea, it is promoted a human right
respect culture, to which it ought be a contribution from all the education levels, including
post degree. As a part of this aims, the post degree formation in criminal law
specialization has a special significance, for the criminal law may be considered the area
of most human right jeopardy. Therefore, is needed to form a well and vast knowledge
professional, but also acting subjects of rights who promotes human dignity respect.
Form this assumptions, we approach to the experience of the Criminal Law Specialists
program of degree, developed in the Faculty Law of the University off the Oriente in
Cuba, to evaluate if its conception and execution responds to education in human rights,
as an expression of the education in values, and the transference of sustainable
development objectives into the academic, professional and civil society.
Keywords: Human rights, education, criminal law, development sustainable.
Sumario: 1. Derechos humanos, educación y desarrollo sostenible: Fundamentos
teóricos para definir su convergencia. 2. La educación en derechos humanos en la
formación de posgrado. 3. La formación de la educación en derechos humamos para
especialistas en Derecho penal: Una experiencia. 4. Conclusiones. 5. Bibliografía.
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146
DARINA ORTEGA LEÓN Y MARÍA ELVIRA BATISTA OJEDA. Hacia el desarrollo sostenible: La…
1. Derechos humanos, educación y desarrollo sostenible: Fundamentos teóricos para
definir su convergencia
Las luchas por la defensa de los derechos humanos y su consagración en los instrumentos
jurídicos internacionales que hoy sirven como fundamento y referente a los
ordenamientos jurídicos, ha sido una de las más importantes conquistas de la humanidad
en pos de preservar la dignidad humana. Así se refiere en la Declaración Universal de los
Derechos Humanos la necesidad de que todos los pueblos y naciones promuevan
mediante la enseñanza y la educación el respeto a los derechos humanos.
Un hito importante lo marcó la Conferencia Mundial de Derechos Humanos de Viena de
1993, espacio en el que se declaró la indivisibilidad, interdependencia e interconexión de
todos los derechos humanos. Como un pilar esencial no sólo para el reconocimiento sino
también para el control de las garantías de estos derechos, se definió la igualdad desde
una dimensión asociada a la dignidad, configurándose a posteriori como principio,
derecho y garantía, no sólo en la doctrina sino también en los ordenamientos jurídicos.
Es la igualdad uno de los fundamentos a partir del cual se estructuran los denominados
derechos de carácter colectivo de segunda generación. Derechos en los que el Estado está
compelido a asumir un papel activo con la consecuente obligación de crear las
condiciones necesarias para la satisfacción de las necesidades sociales, culturales y
económicas de todas las personas por igual. De lo que se trata es, de reivindicar los
derechos económicos, sociales y culturales. Ello implica un proceso social, político y
legal en el que se pretende comprometer al Estado en el cumplimiento de sus
responsabilidades.
Dentro de los derechos que el Estado debe garantizar se encuentra el derecho a la
educación. El reconocimiento de este derecho y su efectiva realización, ha sido, una
constante en el esfuerzo de la Naciones Unidas para conseguir una educación sostenible
y de calidad para todos los seres humanos. Ejemplo de ello es como en la Declaración
Universal de los Derechos Humanos de 1948, en su artículo 26, se señala que toda persona
tiene derecho a la educación y que esta tendrá como objeto el pleno desarrollo de la
personalidad humana y el fortalecimiento y respeto de los derechos humanos.
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DARINA ORTEGA LEÓN Y MARÍA ELVIRA BATISTA OJEDA. Hacia el desarrollo sostenible: La…
En el reconocimiento y protección jurídica internacional del derecho a la educación se
reconocen varios hitos importantes: la Convención de los Derechos del Niño (1989) y la
Conferencia Mundial sobre la Educación para Todos (EPT)77 celebrada en Jomtien
(1990). Como resultado de esta última, se promueve la Declaración Mundial sobre
Educación para Todos, contentiva de una declaración de buenos principios; y en la que
se establecen diez artículos que promueven la eficacia de la cooperación para la obtención
de una educación universal sostenible. En su plan de acción, se señalan las pautas, los
objetivos y los recursos a invertir por los gobiernos para la mejora de las necesidades
básicas de aprendizaje a nivel global.
Otros referentes se encuentran en el Foro Mundial sobre Educación (2000), a través del
cual se adoptó el: Marco de Acción de Dakar como compromiso de acción conjunto para
proponer soluciones concretas a las carencias de la educación. En el mismo año 2000, en
septiembre, en la 55th sesión de la Asamblea General de las Naciones Unidas se suscribió,
por parte de todos los gobiernos participantes, la Declaración del Milenio. Con esta
Declaración, se establecieron ocho Objetivos de Desarrollo del Milenio (ODM), los que
se convirtieron en un marco de referencia para la comunidad internacional, el segundo de
ellos dedicado a la educación.
La Cumbre Mundial sobre Desarrollo Sostenible, celebrada en Johannesburgo en el 2002,
fue de suma importancia para reforzar el desarrollo sostenible, tanto a nivel local como
mundial. Fue en este espacio donde se promovió la idea de crear un Decenio para la
Educación con miras al Desarrollo Sostenible78. En diciembre de este propio año,
siguiendo las pautas de lo acontecido en Johannesburgo, la Asamblea General de las
Naciones Unidas proclamó el Decenio de las Naciones Unidas de la Educación para el
Desarrollo Sostenible (DEDS), y nombró a la Unesco como el organismo rector de la
77
Esta conferencia dio un impulso significativo para promocionar una enseñanza primaria universal y
erradicar el analfabetismo en el mundo. Durante el tiempo que duró la cumbre, los/as representantes de 155
Estados se reunieron para detectar y analizar los obstáculos que impedían el avance en la consecución de
la educación en todo el planeta, y se establecieron medidas y acciones para que todas las personas pudieran
favorecerse de una educación que les permitiera un mayor progreso personal y social.
78
El uso generalizado del término «Desarrollo Sostenible», tal y como afirma GUTIÉRREZ, es un concepto
que ha sido impulsado y acuñado por primera vez en la Conferencia de las Naciones Unidas para el Medio
Ambiente y el Desarrollo, celebrada en 1992 en Rio de Janeiro (GUTIÉRREZ et al. 2006). Pero también
es cierto que ya desde 1987 las Naciones Unidas comienzan a utilizar este vocablo (Informe Brundtland).
Se define “desarrollo sostenible” por primera vez en Oxford en el Informe Brundtland: “el desarrollo que
satisface las necesidades actuales de las personas sin comprometer la capacidad de las futuras generaciones
para satisfacer las suyas” (Naciones Unidas, 1987).
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DARINA ORTEGA LEÓN Y MARÍA ELVIRA BATISTA OJEDA. Hacia el desarrollo sostenible: La…
promoción del Decenio y el encargado de elaborar un plan, con la finalidad de subrayar
y enfatizar el papel de la educación como motor fundamental para promover el desarrollo
sostenible.
El objetivo prioritario de este decenio 2005-2014 fue integrar los principios y valores del
desarrollo sostenible en todos los aspectos de la educación y el aprendizaje, con el fin de
conseguir cambios de comportamiento que garantizaran la integridad del medio ambiente
y la viabilidad del planeta. La educación, desde esta perspectiva, se considera, uno de los
fundamentos de la sociedad, es decir, una herramienta sin la cual no es posible ni el
desarrollo de los pueblos, ni la sostenibilidad del planeta.
En este devenir no podemos perder de vista la relación existente entre los DEDS, los
ODM y los EPT. En los Objetivos de Desarrollo del Milenio, se reconoce la educación
como un indicador mensurable de gran importancia para la erradicación de la pobreza.
Por su parte, la EPT, se centra en buscar vías para lograr oportunidades de educación de
calidad; y el DEDS promueve una serie de valores y comportamientos que deben estar
presentes en el aprendizaje de todos los seres humanos.
149
En septiembre de 2015, 150 jefes de Estado se reunieron en la Cumbre de Desarrollo
Sostenible para aprobar la Agenda 2030, también llamada la agenda Post- 2015, como
sucesora de la Agenda del Milenio. Su objetivo fundamental fue conseguir aquellas metas
que no fueron logradas con los ODM. Esta nueva agenda contó con 17 Objetivos de
Desarrollo Sostenible (ODS) que debían cumplirse para el año 2030, compuestos por 169
metas y por, aproximadamente, 300 indicadores para su cumplimiento.
La Agenda 2030, en su objetivo 4, plantea la importancia de promover una educación y
aprendizaje inclusivo y de calidad para todos y todas. En su meta 4.7 proclama la
necesidad de promover el desarrollo sostenible mediante la educación y la promoción de
una cultura de paz, la ciudadanía mundial y la contribución de la cultura al desarrollo
sostenible. Este objetivo transversaliza todo el documento, y se pueden constatar
referencias a él en otros ODS. Para su consecución se proponen 7 metas de vital
importancia que deben cumplirse al llegar al 2030. Entre ellos se establece el acceso
igualitario de todos los hombres y las mujeres a una formación, incluida la enseñanza
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DARINA ORTEGA LEÓN Y MARÍA ELVIRA BATISTA OJEDA. Hacia el desarrollo sostenible: La…
universitaria y que los/as alumnos/as se formen en la promoción del desarrollo sostenible
y la justicia.
Estos pronunciamientos fundamentan una educación inclusiva, equitativa y de calidad
para dimensionar la igualdad de oportunidades de aprendizaje durante toda la vida, para
todas las personas. Así mismo, ha quedado asentada como una pauta importante, la idea
de que para obtener el desarrollo sostenible, debemos estar conscientes de que hay
cambios que deben producirse, tanto en los estilos de vida y de desarrollo, como en los
estilos de pensamiento y conocimiento. Cambios que sólo serán dables, como se ha
sostenido: “…desde procesos educativos que promuevan la concientización pública, la
participación ciudadana bien informada y el desarrollo de capacidades para que la gente
sepa tomar decisiones en todos aquellos asuntos que afecten su calidad de vida”.
(GONZÁLEZ, 2003,1).
La visión de la educación dentro de estas aspiraciones rebasa las concepciones
tradicionales de la instrucción. Se aboga por una nueva dimensión en la que como afirma
Ramos, se define a la educación como un proceso social que tiene que responder a las
características de la sociedad en la que está inscrita y a través de la cual las soluciones no
tienen que ser sólo técnicas sino que tienen una dimensión ética porque está en juego el
destino del hombre. Este autor afirma además que: “La dimensión ética implica que los
individuos necesitan un grupo de valores que orienten su comportamiento social en un
mundo cambiante, enfrentar los problemas con sentido ciudadano, con autonomía
personal, conciencia de sus deberes y derechos y sentimiento positivo de vínculos con
todo ser humano comprometido en la búsqueda de una sociedad más justa y solidaria”
(RAMOS, 2000, 121-122).
A partir de las pautas enunciadas la relación: Derechos humanos - Educación – Desarrollo
Sostenible, no supone una suerte o mera conjugación de palabras, sino una concepción
holística y humanista. Es el resultado de comprender la imbricación de cada uno de sus
contenidos como parte de objetivos y metas comunes, y que se ha articulado dentro de lo
que se ha denominado: la educación en derechos humanos.
Este concepto se ha estructurado y reconocido como parte de la denominada educación
en valores. Educar en valores no es sólo un compromiso, de lo que se trata es de
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DARINA ORTEGA LEÓN Y MARÍA ELVIRA BATISTA OJEDA. Hacia el desarrollo sostenible: La…
dimensionar y llevar a vías de hecho un proyecto humano de transformación de aquellas
condiciones sociales, culturales, políticas y pedagógicas que se estiman como deseables
e ideales para el logro de una sociedad inclusiva y de formas de vida basadas en la
felicidad, la justicia, la libertad y la dignidad humana.
GARZA y PATIÑO al definir la educación en valores se refieren a: “… un
replanteamiento cuya finalidad esencial es humanizar la educación. Coincidimos con
estos autores en que una educación en valores es necesaria para ayudarnos a ser mejores
personas en lo individual y mejores integrantes de los espacios sociales en los que nos
desarrollamos” (GARZA y PATIÑO, 2000, 25). Desde esta perspectiva, la formación en
valores se estructura sobre la base de cuatro aspectos fundamentales:”… la persona, las
relaciones humanas, la realidad y la espiritualidad” (JUÁREZ y MORENO, 2000, 47).
Como parte de esta concepción, el rol del educador, es conducir al educando para
desarrollar sus potencialidades bajo una dimensión moral y ética, en el marco de su
realidad social, de manera que pueda interpretarla, asumir la responsabilidad de sus actos
y participar proactivamente.
En este sentido, se ha concebido, desde el año 2004, un Programa mundial para la
educación en derechos humanos de la ONU, a través del cual se reconoce que la
educación en derechos humanos tiene por objeto fomentar el entendimiento de que cada
persona comparte la responsabilidad de lograr que los derechos humanos sean una
realidad en cada comunidad y en la sociedad en su conjunto. Pretensiones que contribuyen
a la promoción de la igualdad y devienen congruentes con los ODS.
Como parte de esta construcción, el derecho a la educación, viene a definir el pleno
desarrollo de la personalidad humana, el sentido de la dignidad y como consecuencia de
ello, fortalece el respeto por los derechos humanos. Si bien toda persona tiene derecho a
una educación de calidad, integral, permanente y en igualdad de condiciones y
oportunidades; la educación que recibe debe ser capaz de capacitarla para participar en la
sociedad y favorecer su comprensión y tolerancia. De lo que se trata es de fomentar una
cultura del respeto a la dignidad. Una cultura sustentada en tres pilares fundamentales: el
derecho a la integridad personal, a la libertad de expresión y a no sufrir discriminación.
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DARINA ORTEGA LEÓN Y MARÍA ELVIRA BATISTA OJEDA. Hacia el desarrollo sostenible: La…
El fomento de esta cultura a través de la educación debe estructurarse a través del
desarrollo de las capacidades éticas creando los espacios en ello a los valores, es decir,
dimensionar la denominada educación en valores dentro del contexto del desarrollo
sostenible. Suscribimos la idea de que la educación así concebida hace referencia a los
valores y principios éticos y cívicos que se intenta inculcar a las personas para la
construcción de una ciudadanía crítica, que sea capaz de analizar y reflexionar sobre los
cambios acontecidos y liderar un cambio que mejore nuestro mundo y lo haga viable y
sostenible.
De manera que no basta con reconocer jurídicamente los derechos humanos, sino de
necesario crear las condiciones para sus garantías, enseñarlos y crear una cultura de y
para los derechos humanos que se internalice por las personas y se exprese en su hacer
diario en aras de una convivencia social de justicia y humanismo.
2. La educación en derechos humanos en la formación de posgrado
La meta 4.4 de los ODS está referida a las competencias técnicas y vocacionales; y plantea
que hasta el 2030, se debe incrementar sustancialmente el número de jóvenes y adultos
que posean las competencias necesarias, en particular técnicas y profesionales, para
acceder al empleo, el trabajo decente y el emprendimiento.
Por su parte, la meta 4.7, se refiere a una formación de calidad, tanto teórica como práctica
encaminada a garantizar que todos los alumnos adquieran los conocimientos teóricos y
prácticos necesarios mediante la educación, la adopción de estilos de vida sostenibles, el
respeto a los derechos humanos y la igualdad de género, la promoción de una cultura de
paz y no violencia, la valoración de la diversidad cultural y la contribución de la cultura
al desarrollo sostenible.
Se nos plantea así, un paradigma que propone propiciar nuevos modos de reflexión y de
pensamiento, con el propósito de crear un movimiento crítico, capaz de influenciar en las
decisiones a todos los niveles. Y en este proceso, si bien todos los niveles de enseñanza
devienen en importantes, el papel de la Universidad es crucial como organismo encargado
de formar a personas en el liderazgo social. Para el logro de la formación de un profesional
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DARINA ORTEGA LEÓN Y MARÍA ELVIRA BATISTA OJEDA. Hacia el desarrollo sostenible: La…
participativo, responsable y respetuoso de los derechos humanos que contribuya a
transformar la sociedad, la Agenda 2030, define a la Universidad como actor relevante.
En este sentido, se reafirma la Declaración Mundial sobre la Educación Superior de la
Unesco al establecer, que se ha de prestar especial atención a las funciones de la
educación superior al servicio de la sociedad, y más concretamente a las actividades
encaminadas a eliminar la pobreza, la intolerancia, la violencia, el analfabetismo, el
hambre, el deterioro del medio ambiente y las enfermedades, y a las actividades enfocadas
en el fomento de la paz, mediante un planteamiento interdisciplinario y transdisciplinario.
Se trata de garantizar una formación universitaria que prevea la adquisición de los
conocimientos teóricos y prácticos necesarios para promover el desarrollo sostenible, la
adopción de estilos de vida sostenibles, el respeto a los derechos humanos, la igualdad de
género y la promoción de una cultura de paz y no violencia.
Desde esta visión integral se plantea que la formación en la Universidad, no sólo debe
diseñarse en función de la incorporación del sujeto a la vida productiva a través del
empleo, sino a partir de una formación profesional que desarrolle habilidades,
conocimientos, actitudes, aptitudes y valores en función de lograr un papel proactivo del
sujeto en su contexto en función del cambio, la transformación y el respecto a los derechos
humanos.
Un papel importante para el logro de tales propósitos, lo viene a desempeñar la
proyección del Ministerio de Educación Superior en Cuba, pues se ha abocado en los
últimos años a perfeccionar los planes de estudios. En el caso de la formación del
profesional del Derecho, ha implementado el Plan E, en el que se postula que un
profesional del Derecho debe formarse no solo desde el punto de vista técnico, sino
también, en los valores esenciales de nuestra sociedad como paradigma conductual para
ejercer las funciones propias de la profesión. Por lo que a través de este plan de estudio
se deben educar juristas dotados de un alto sentido humanista y de sensibilidad social,
conscientes de su papel transformador de la realidad en la que se desenvuelven y de la
importancia de la investigación para el desarrollo del conocimiento jurídico.
En esta concepción juega un rol fundamental la denominada formación continua, definida
por la Red Universitaria de Educación Continua como la actividad docente universitaria
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DARINA ORTEGA LEÓN Y MARÍA ELVIRA BATISTA OJEDA. Hacia el desarrollo sostenible: La…
cuya misión es vincularse con el medio a través de programas de formación y capacitación
que posibiliten educar de por vida a las personas (licenciados, profesionales, no
profesionales) que desean o requieran profundizar, mantenerse al día en los
conocimientos, habilidades, actitudes y destrezas que caracterizan a su disciplina, o bien
requieran extender su conocimiento hacia áreas complementarias, acceder al manejo de
nuevos procedimientos y/o tecnologías que les permitan lograr un mejor desempeño o
posición laboral o bien crecer en su desarrollo personal o espiritual.
Este tipo de formación, asumida por el sistema de educación superior cubano, de forma
intencionada y coherentemente estructurada desde la relación universidad – sociedad,
procura también la referida sostenibilidad. Dentro de este diseño, desde cada una de las
áreas del conocimiento científico, se habrá de dimensionar, no sólo la adquisición de las
herramientas teórico prácticas para un mejor desempeño una vez egresados de la
enseñanza superior, sino también, potenciar una cultura de respeto a los derechos
humanos, con la convicción de que no son privativos de las ciencias humanísticas,
independientemente que estas los potencien y visualicen con mayor claridad.
De manera que el reto, desde el prisma que hemos planteado, es incorporar las
competencias propias de la especialización desde una concepción en la que se conjuguen
la sostenibilidad, la responsabilidad y el compromiso social. Con ella se aspira no sólo a
satisfacer los intereses formativos de la entidad en pos de un profesional competente
desde su saber y su campo de acción, sino también, dotarlo de una visión encaminada
hacia el debate público y abierto en torno al desarrollo sostenible.
En esta concepción, no debemos perder de vista, que la competencia es algo más que una
habilidad, es el dominio de procesos y métodos para aprender de la práctica, la
experiencia y la intersubjetividad. Vistas así, las competencias permiten adquirir una
capacidad, donde se combina la pericia con el comportamiento social79; y suponen, como
se ha reconocido en el ámbito de la pedagogía, cultivar también cualidades humanas para
79
Por ejemplo, se puede considerar competencia la aptitud para trabajar en equipo, la capacidad de
iniciativa y la de asumir riesgos. Las competencias no sólo se aprenden en la escuela, resultan también del
empeño y el desempeño del trabajador que, por sus cualidades innatas o subjetivas adquiridas, combina los
conocimientos teóricos y los prácticos que lo llevan a adquirir la capacidad de comunicarse, de trabajar con
los demás, de afrontar y de solucionar problemas y de mejorar la aptitud para las relaciones interpersonales.
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obtener la capacidad de establecer y mantener relaciones estables y eficaces entre las
personas.
Para nuestros análisis merece una especial referencia las denominadas competencias
específicas, definidas como la base particular del ejercicio profesional, y vinculadas a
condiciones específicas de ejecución. En este sentido, a través de la educación de
posgrado, se debe cumplir el importante reto de desarrollar la capacidad para relacionar
los saberes teóricos, prácticos y valorativos. Estos últimos, vienen a desplegar las
actitudes que se relacionan con la predisposición y motivación para el autoaprendizaje, y
el saber convivir. De manera que devienen en esenciales, no sólo para que el profesional
pueda establecer y desarrollar relaciones sociales; sino también, para convertirse en un
sujeto garante desde su actuar del respeto a los derechos humanos.
Es importante distinguir dentro de este diseño: la calidad y la cualidad. De ahí que en el
proceso de formación posgraduada no sólo se dimensione la calidad del conocimiento
para el desempeño, sino también, las cualidades que se aprecian desde la actuación del
profesional y de este para con los otros actores sociales. Son estos aspectos los que deben
tenerse en cuenta a la hora de determinar los niveles de desempeño y los criterios para su
evaluación. Resulta así necesario promover una formación posgraduada a través de
situaciones problemáticas que le permitan el perfeccionamiento de sus competencias
desde la educación en derechos humanos.
Para la formación en derechos humanos en la formación posgraduada se necesita una
educación donde el profesorado adquiera un compromiso social y ético. Este ha de
colaborar con los educandos, para facilitarles la creación y el desarrollo de capacidades
que intervengan en el juicio y la acción moral, de manera que se posibilite la formación
de actitudes, la integración, la aplicación y la valoración crítica de las normas que rigen
en una sociedad.
Dentro de esta concepción cobran especial significación, las estrategias didácticas como
herramientas individuales o grupales que facilitan la sistematización de la organización y
el procesamiento de los aspectos cognoscitivos, afectivos y motores, implicados en los
objetivos propuestos.
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Para desarrollar estas competencias, se debe lograr que el profesional, a partir de las
habilidades adquiridas en la formación de pre grado, y el desempeño en su campo y modo
de actuación, perfeccione aquellas y encuentren para su vida un conjunto significativo de
comportamientos, que sea capaz de llevar a vías de hecho en el ámbito laboral. Es formar
sujetos de derecho desde una perspectiva en la que se deben poseer los conocimientos de
los cuerpos normativos relativos a los derechos humanos, y utilizarlos como fundamento
para aplicarlos en la promoción y defensa de sus derechos y de los del resto de los actores
sociales.
Por ello los programas de formación posgraduada deben identificar los conocimientos,
habilidades, aptitudes y valores que promuevan la formación de un sujeto de derecho de
manera que responda a una educación en derechos humanos. Así mismo, definir su
formación con la finalidad de que adquieran las competencias y contribuya a expandir
sus capacidades y posibilidades de acción; y en consecuencia, incrementar el poder de
actuar en el contexto social donde se desenvuelven.
El reto en la educación de posgrado, es lograr a través de una metodología vivencial
operativa, un desempeño que estimule no sólo la adquisición de conocimientos sino
también de comportamientos. Ello favorece el desarrollo de la capacidad de empatía y
capacidades operativas para la promoción, defensa y ejercicio de los derechos humanos.
Es formar a un profesional que sea capaz de actuar con argumentos fundamentados e
informados, con un discurso asertivo, articulado y racionalmente convincente; en el que,
sin incumplir con la legalidad, se manifieste su esencia humanista y el respeto a la justicia.
Coincidimos con la idea de que no es sólo fortalecer las habilidades comunicativas. Se
trata de desarrollar un pensamiento autónomo estructurado reflexivamente y con
disposición a la crítica y al dialogo, y sobre todo, de respeto y aceptación de los puntos
de vista divergentes, apreciando el aporte de estas actitudes para la formación personal.
Este tipo de formación, le va a conferir la posibilidad de formular afirmaciones y juicios
así como, ampliar sus posibilidades de actuar no sólo desde la égida de la norma, sino
también, lograr que la argumentación se convierta en una herramienta para convencer
razonadamente y persuadir efectivamente a los demás acerca de la validez de sus
afirmaciones, con el pleno respeto de la dignidad humana.
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Estas ideas dentro de la formación de posgrado no pueden quedar en un discurso. Se
deben establecer los estándares que posibiliten evaluar si el aprendizaje refleja la relación:
conocimientos- competencias- actitudes en correspondencia con la defensa de los
derechos humanos. Por lo que se ha de formar y evaluar a través del programa que cursa:
el conocimiento de los derechos humanos, y que sus actitudes reflejen valores de derechos
humanos como la igualdad, la no discriminación, la inclusión, la participación en la
sociedad, el respeto y la compasión hacia los demás (especialmente hacia las personas
más vulnerables y marginadas), es decir, la vocación por la justicia. De lo que se trata es
que sean capaces de promover los derechos y analizar el propio entorno usando una
perspectiva de derechos humanos así como trabajar colectivamente para abordar
problemas.
Para ello se deben concebir dentro de los programas de formación posgraduada: métodos
de enseñanza participativos, el debate abierto, el aprendizaje colaborativo así como la
utilización de casos y técnicas de simulación y los materiales audiovisuales que reflejen
situaciones de la vida real del personal encargado de hacer cumplir la ley. En este sentido,
el rendimiento relativo a la educación en derechos humanos se monitorea como parte de
evaluaciones continuas de rendimiento. Como parte del programa se deben articular
evaluaciones coordinadas con los empleadores que posibiliten constatar que la formación
adquirida eleva la calidad de su desempeño desde el respeto a la dignidad humana.
3. La formación de la educación en derechos humamos para especialistas en Derecho
penal: Una experiencia
La enseñanza en derechos humanos en las Universidades españolas ha sido acusada de
graves insuficiencias desde principios del siglo XXI, pese al compromiso teórico de
España de desarrollarla tras apoyar todas las iniciativas internacionales vistas
anteriormente.
Desde la perspectiva planteada, si bien en el escenario actual deviene en esencial el
desarrollo de competencias, no se debe renunciar al trabajo sistemático durante el proceso
formativo en el posgrado de la educación en valores, prestando especial atención a
aquellos cuya incidencia recae sobre el respeto a los derechos humanos. Para el
profesional que se desempeña en el campo del Derecho penal, rama del ordenamiento
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jurídico cuyos efectos se hacen sentir sobre las personas titulares de los referidos
derechos, una cultura encaminada a su preservación y respeto se muestra como
primordial, pues se trata del ámbito en el que con mayor frecuencia son susceptibles de
ser vulnerados.
No se puede asumir que por el hecho de ser graduado del Derecho, el egresado lleva
implícita en su formación una educación en derechos humanos. Si bien es cierto, que
conoce de derechos y sus instrumentos jurídicos internacionales, su reconocimiento y la
importancia de sus garantías; el primer debate que se le plantea consiste en eliminar la
jerarquización de los derechos e internalizar que todos son derechos humanos. Otras
veces en el ejercicio de la profesión, determinadas prácticas, asumidas y asentadas e
incorporadas a los recién graduados por aquellos que los guían y orientan en sus primeros
pasos como profesionales, abren una brecha cada vez más acentuada para lograr una
educación en derechos humanos. Asimilar esta concepción trasciende a la forma de actuar
del profesional y de percibir cuándo se ha vulnerado un derecho y cuándo las garantías
previstas son insuficientes dentro del diseño de justicia y, más allá de lo que prevé la
norma, comprender que es necesario perfeccionar y transformar su modo de hacer.
Se trata de conjugar en la formación de competencias de los profesionales del Derecho,
y en particular, de aquellos que se desempeñan en el campo penal, la idea de
VALLAEYS: “… establecer de qué modo la enseñanza superior puede dar respuesta a la
sociedad y contribuir así a un mundo más justo y sostenible” (VALLAEYS, 2008, 191220). Ello implica que los profesionales que ejercen el Derecho penal, reciban una
formación a través de los programas de especialización, que le permita no sólo contribuir
al perfeccionamiento de su actuación, sino también, que los convierta de forma efectiva
en un actor con conocimientos, y una visión del Derecho penal que no sólo queda saldada
con la comprensión de lo que significa la condición de última ratio de este, sino también,
respetuoso y garante de los derechos humanos en todos los momentos de su actuación
respecto a todas las personas.
Pensar en cómo se han de implementar las ideas enunciadas nos direccionó hacia un
programa de especialización teniendo en cuenta que en Cuba los programas de
Especialidad tienen como finalidad la actualización, profundización, perfeccionamiento
o ampliación de la competencia laboral para el desempeño profesional especializado y la
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innovación en los escenarios inherentes, que requiere de un puesto de trabajo o familia
de estos, la solución de problemas específicos de la profesión en correspondencia con las
necesidades de la producción y los servicios, así como del desarrollo económico, social,
tecnológico y cultural del país.
En la Facultad de Derecho de la Universidad de Oriente, en Santiago de Cuba, desde el
año 1999 se desarrolla la formación posgraduada de Especialistas en Derecho penal.
Durante este período se han formado un total de 599 fiscales, abogados defensores,
jueces, investigadores penales y profesores, incorporados a un total de 20 ediciones
concluidas.
En la fundamentación del programa se plantea como meta: desempeñar una eficaz
contribución a la progresiva elevación teórica y práctica para los profesionales que lo
cursan, así como coadyuvar, de modo concreto al perfeccionamiento de la práctica
jurídica en la esfera de la justicia penal.
La justicia penal constituye un amplio y coherente sistema de concepciones teóricas y de
regulaciones normativas, en el que se hallan asociadas, de manera estrecha, materias
pertenecientes a diversos campos de las ciencias penales. A ello adiciona la pertinencia
del programa teniendo en cuenta que el sistema integral de la justicia penal cubano ha
alcanzado, en la actualidad, un relevante desarrollo e importancia. Ello exige, como
necesidad impostergable, la adopción de medidas de índole diversa, entre ellas las
dirigidas a la permanente, apropiada y activa elevación de los conocimientos y a la
adquisición de nuevas y consecuentes competencias de los profesionales relacionados,
precisamente, con la justicia penal, o sea, jueces, fiscales, abogados, instructores penales,
profesores universitarios y especialistas del sistema del Ministerio de Justicia que
tramitan los procesos de revisión en materia penal, que constituyen, los destinatarios de
este programa de Especialidad de Postgrado.
El objetivo general se encamina a proporcionar una amplia y profunda preparación en el
campo de las ciencias penales que califique y capacite teórica y prácticamente a los
egresados para el ejercicio de la esfera de esta rama jurídica, afianzar los elementos
metodológicos fundamentales en el terreno de las investigaciones relacionadas con las
ciencias penales, así como desarrollar en los egresados modos de actuación que se
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correspondan con los avances alcanzados en el campo de la justicia penal y con las
exigencias que demanda el nivel de las actuales necesidades de la justicia penal.
Ubicar a los profesionales que ejercen el Derecho penal en las complejidades con que han
de desarrollar sus competencias profesionales constituye un objetivo esencial del
programa. Es esta una rama del ordenamiento jurídico cubano, que no por haber sido
considerada por algunos como la vedette del Derecho, esa de la que todos quieren saber
o al menos opinar; se encuentra hoy carente de profundos debates y complejidades,
muchos de los cuales, pueden trascender a los derechos humanos que han de ser
respetados y protegidos. De ahí, la necesidad de que los graduados de este programa
requieran además de conocimientos, de un buen trabajo en equipo, iniciativas que se
fundamenten en el principio de legalidad e igualdad y asumir conscientemente los riesgos
que puedan derivar de sus actos, ninguno de los cuales puede sustentarse en la
oportunidad de lesionar un derecho humano.
Para el logro de los objetivos propuestos se desarrollan un total de 6 Módulos, que abarcan
16 cursos, cuyos contenidos esenciales versan sobre: Las teorías sobre el Derecho penal
en general y las manifestaciones actuales en algunas figuras delictivas como son las que
afectan la economía nacional, las contribuciones de la ciencia criminalística y la medicina
legal al esclarecimiento de los hechos delictivos con el aporte que a ellas ofrecen las
nuevas tecnologías de la investigación criminal, la criminología y sus tendencias, y dentro
de estas la delincuencia organizada y los debates sobre ella en el contexto cubano. Se
destaca en su concepción un Módulo: Constitución, Derecho penal y derechos humanos,
expresión de la significación y el alcance que la temática de los derechos humanos
adquiere para los profesionales que han de egresar de este programa teniendo en cuenta
su relevancia para el campo del Derecho penal.
El contenido esencial de los cursos que componen cada uno de los módulos del programa,
de la Especialidad en Derecho penal desarrollado por la Facultad de Derecho de la
Universidad de Oriente de Cuba, no deja lugar a dudas de la presencia de la educación en
derechos humanos. Así, todos los cursos están direccionados, no sólo a adquirir los
conocimientos que debe tener un profesional del Derecho penal competente, sino también
a promover una cultura de respeto a los derechos humanos, particular que es objeto de
constatación por los miembros del claustro en la evaluación de los tres componentes
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esenciales que lo integran: a saber, el componente académico, el componente laboral y el
componente investigativo.
Se ha concebido un sistema de evaluación que se lleva a cabo mediante la periódica
realización de exámenes, seminarios-debates, solución de complejos problemas prácticos,
elaboración de trabajos prácticos sobre los temas concretos abordados durante el curso,
la realización de mesas redondas, talleres de aplicación práctica así como otras
modalidades evaluativas, que colocan al cursista ante las actuales complejidades del
ejercicio del Derecho penal. A través de estas formas evaluativas se conjugan los
conocimientos teóricos y jurídicos con su experiencia profesional con la finalidad de
desplegar sus iniciativas para la solución de un complejo y polémico asunto de la práctica
jurídica, y dar las soluciones al mismo, las que se debaten de manera colectiva para el
logro del trabajo en equipo, socializar los conocimientos y promover el debate reflexivo.
Una de las formas evaluativas más frecuente son los talleres. Es esta una forma
organizativa del proceso docente en la enseñanza posgraduada, que posibilita el debate a
partir de las teorías, estudios comparados e investigaciones realizadas, así como el análisis
del desempeño en la práctica del cursista. Para ello se orienta con antelación la selección
de las sentencias o casos para que a través de una valoración crítica de su propio
desempeño, sean capaces de analizar las instituciones teóricas que se utilizaron en el caso,
las tendencias en el ámbito del derecho comparado que solucionan este tipo de situación
jurídica; y las afectaciones a los derechos humanos y garantías de estos que se producen
a través de su actuación.
Interesante resulta para el desarrollo de los talleres, la experiencia del claustro, pues el
100 % de sus miembros cuenta con experiencia práctica en el ejercicio del Derecho penal.
Ello permite enriquecer los debates que se originan entre los cursistas como resultado de
las especificidades de su modo de actuación; bien como fiscal, como abogado defensor,
como juez o como investigador criminal. Valoraciones en las que se ubica como centro,
los límites que deben de existir como garantía para la afectación de los derechos humanos
de otros en su actuación profesional.
Los talleres también pueden realizarse también a través de los comentarios de sentencias.
Para ello se les indica la selección de la sentencia conforme a la institución que se analiza,
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el análisis teórico, el análisis de otras sentencias emitidas por órganos judiciales
internacionales, referentes del derecho comparado y sus valoraciones, las que van
indicando a los profesionales el camino que como tendencia siguen las interpretaciones
del órgano superior de justicia en Cuba y su visión frente a la afectación de los derechos
humanos así como desde los estándares que se han delimitado en el ámbito internacional.
Ofrece este ejercicio la posibilidad de promover el análisis y respeto a los instrumentos
jurídicos internacionales en materia de derechos humanos y de otros pronunciamientos,
que formando parte de la política penal guían el respeto a estos derechos.
Un ejercicio importante dentro de las actividades evaluativas para el desarrollo de una
cultura en derechos humanos se logra a través del intercambio de roles en la solución de
casos. Ello le posibilita al cursista responder a una situación jurídica desde otro modo de
actuación que no es desde el cual se desempeña en su ejercicio profesional. Es decir, se
le entrega un caso y se le pide, por ejemplo, si es fiscal, que lo solucione como abogado
defensor, si es juez como fiscal, y si es abogado como juez. Luego, se intercambian los
roles, siempre evitando que le corresponda desde el rol que desempeña en el ejercicio
profesional. Este tipo de actividad posibilita el análisis no sólo de las instituciones en el
orden teórico y normativo, sino también, desarrolla la empatía, la justicia social y el
humanismo en los cursistas. Estos se verán compelidos a abordar sus soluciones desde el
respeto a los derechos y garantías de los demás sujetos intervinientes en el proceso penal.
Se trata de lograr que el cursista no sólo se interese porque se le respete su verdad, sino
que valore, hasta donde es respetable la verdad de otro que puede ser su contrario en la
relación jurídica.
Un momento importante para la educación en derechos humanos dentro del programa lo
constituye la evaluación del componente laboral. En el componente laboral del programa
define en su objetivo: Perfeccionar las competencias del ejercicio profesional como
jueces, fiscales, abogados, instructores penales o especialistas del sistema del Ministerio
de Justicia que tramitan los procedimientos de revisión en materia penal y dotarlos de las
técnicas y métodos para la ampliación de sus conocimientos en las respectivas funciones,
con la finalidad de que éstas se desenvuelvan con elevada profesionalidad, de manera que
se alcance una creciente elevación de la calidad en la esfera de la justicia penal.
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El cursista frente a un tribunal, presenta y discute a través de casos previamente
seleccionados, su desempeño conforme a las competencias que forma el programa.
Pensemos en algo básico dentro del ámbito del Derecho penal como lo es la
determinación de la medida de la pena, en la que subyacen importantes manifestaciones
de humanismo para las partes involucradas en los hechos, incluida la sociedad, frente a
la oportunidad de una pena que afecta el derecho a la libertad en determinada medida y
la posibilidad de la búsqueda de otras satisfacciones para los perjudicados que pueden
privilegiar el sentido sobre la justicia y dimensionar los valores de esos sujetos en materia
de derechos humanos.
El trabajo final constituye otro momento de constatación de la forma en que los futuros
Especialistas en Derecho Penal se han apropiado como parte de sus competencias de la
educación en derechos humanos. Los métodos para las investigaciones socio jurídicas
resultan de utilidad para el desarrollo por los cursistas de los trabajos finales
correspondientes al componente investigativo del programa y el estudio de las
particularidades con que se desarrolla el proceso penal cubano en los tiempos actuales.
Este ejercicio está dirigido, en lo fundamental, a resolver una problemática de la práctica
profesional. El tema deberá ser examinado no solo desde un punto de vista práctico, sino
también teórico, por lo que deberán conjugarse la teoría con la práctica.
Así mismo, la cuestión tratada en el trabajo final concluye ofreciendo soluciones que
contribuyen al perfeccionamiento de la justicia penal cubana y al cumplimiento de las
exigencias demandadas por el desarrollo social, económico y político del país. No pueden
por supuesto las soluciones ofrecidas por el optante al título de Especialista en Derecho
penal encontrarse alejadas del sistema de valores propios del etos de la profesión y
especialmente de aquellos que son expresión de los derechos humanos.
4. Conclusiones
El reconocimiento del derecho a la educación en todos sus niveles y su efectiva
realización como contribución a los esfuerzos de las Naciones Unidas en este campo,
constituye un elemento esencial en la calidad de vida de los seres humanos, especialmente
dimensionada en la educación posgraduada, a la que se ha prestado por los Estados
especial atención en el orden político, normativo y a través de espacios de reflexión y
REVISTA DE EDUCACIÓN Y DERECHO. EDUCATION AND LAW REVIEW
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163
DARINA ORTEGA LEÓN Y MARÍA ELVIRA BATISTA OJEDA. Hacia el desarrollo sostenible: La…
análisis internacionales y nacionales dedicados a este tema tan sensible para el logro de
un desarrollo sostenible.
Es la formación de cuarto nivel, a la que corresponde cerrar el ciclo por el que se
visualicen los derechos humanos como transversalizadores en todas las relaciones que se
establecen entre las universidades y la sociedad en las complejas y diversas áreas del
conocimiento humano. A través del desarrollo de su objeto social, ha de llevar un
importante mensaje: los derechos humanos y la educación en derechos humanos no son
temas privativos de las ciencias sociales y humanísticas, aún y cuando, pueda ser en ellas
en las que por razones de sus objetos de estudio, se hagan más ostensibles.
El Derecho, ciencia humanística en su esencia, tiene en el Derecho penal la rama del
ordenamiento jurídico su rama más sensible frente al tema de los derechos humanos. Pues
hace recaer sus efectos, tanto los positivos como los negativos, fundamentalmente, sobre
los seres humanos. Razones que justifican que como parte de la superación posgraduada,
se incluya el dimensionamiento de la educación en derechos humanos de manera que
trascienda al desempeño de los profesionales que se desempeñan en este capo del
Derecho. De lo que se trata es que el profesional del Derecho penal adquiera una
formación posgraduada encaminada no solo al desarrollo de sus competencias sino
también al respeto de los más elementales derechos humanos en cada actuación.
Las experiencias que exponemos forman parte, como se ha referido, de las que desarrolla
el Claustro del programa de Especialidad en Derecho penal que se imparte por la Facultad
de Derecho de la Universidad de Oriente en Santiago de Cuba, República de Cuba. Los
resultados obtenidos en este tipo de formación fueron evaluados por la Junta de
Acreditación Nacional de la República de Cuba en el año 2019 con la finalidad de a través
de la validación de un patrón de calidad, medir esta, tomando como referente los
resultados obtenidos en los mismos, vistos a través de su claustro, de sus egresados, de
sus beneficiarios y de los cursistas en formación al momento de aplicar el referido patrón
de calidad.
Se pudo constatar a través entrevistas con egresados de la Especialidad, Empleadores,
profesionales que cursaban el programa en el momento de la evaluación y docentes del
claustro el alto nivel del programa para la formación de competencias profesionales; y se
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164
DARINA ORTEGA LEÓN Y MARÍA ELVIRA BATISTA OJEDA. Hacia el desarrollo sostenible: La…
destaca, dentro de los elementos aportados por los entrevistados, la contribución del
programa a la formación de un profesional del Derecho penal competente y
comprometido con la justicia social y más humanista.
Dentro de los egresados del programa se logró corroborar los elevados niveles de
satisfacción de los egresados del programa con la calidad de su proceso formativo y una
valoración positiva sobre la repercusión de los mismos en la calidad de su desempeño
profesional, criterio que fue corroborado además por los empleadores de los referidos
egresados.
Estos aspectos, unido a otros que fueron analizados, trajo como resultado que el programa
fuera evaluado con la categoría de Excelencia. Este resultado no sólo habla de su
pertinencia, demostrada por la cantidad de ediciones que se han desarrollado y concluido
con altos niveles de eficiencia, veinte ya concluidas y por los intereses que hoy se
extienden hasta el territorio centro oriental del país, sino por el reconocimiento de sus
resultados dentro del Ministerio de Educación Superior cubano y de los organismos del
sector jurídico que son sus principales beneficiarios.
165
Como valor añadido, desde el año 2020 hasta la fecha, en Cuba se desarrolla un intenso
programa legislativo en el cual participa activamente los egresados del programa y
cursistas. Este programa legislativo está encaminado a lograr, tal y como plantea el texto
Constitucional cubano aprobado en febrero del 2019, en su artículo 40 que la dignidad
humana se constituya en el valor supremo que sustente el reconocimiento y ejercicio de
los derechos y deberes consagrados en la Constitución, los tratados y las leyes.
Así mismo, se realza, como fundamento jurídico, contenido en el artículo 41 de la ley de
leyes cubana la responsabilidad del Estado en el reconocimiento y garantía a las personas
del
goce
y ejercicio irrenunciable, imprescriptible, indivisible, universal e
interdependiente de los derechos humanos, en correspondencia con los principios de
progresividad, igualdad y no discriminación. Su respeto y garantía es de obligatorio
cumplimiento para todos. Como colofón a ello en el artículo 42 se plantea que todas las
personas son iguales ante la ley, reciben la misma protección y trato de las autoridades y
gozan de los mismos derechos, libertades y oportunidades, sin ninguna discriminación.
El establecimiento de las garantías jurídicas y su particularización para el proceso penal
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DARINA ORTEGA LEÓN Y MARÍA ELVIRA BATISTA OJEDA. Hacia el desarrollo sostenible: La…
como garantías para el debido proceso, es otro de los importantes contenidos de la norma
constitucional, al que hacen referencia sus artículos 94 y 95 y que indudablemente ofrecen
vialidad al cumplimiento de todos y cada uno de los derechos humanos a que desde el
mandato constitucional se les ofrece protección.
Estos fundamentos jurídicos, si bien han marcado tradicionalmente la formación de
nuestro programa de formación de Especialistas en Derecho penal, hoy se dimensionan y
presuponen importantes transformaciones en el diseño de justicia penal cubano. Se
impone así, que en aras de proteger cada vez más las garantías de los derechos humanos
y ser consecuentes con la educación en derechos humanos que suscribimos en
correspondencia con las metas trazadas por los ODS, se perfeccione la contribución que
se realiza hoy desde el programa de referencia, a través de su constante perfeccionamiento
como lo viene realizando el claustro que lo imparte. Es la participación activa a través de
nuestro programa y nuestro compromiso lograr un jurista comprometido con los cambios
y transformaciones a que se aspiran en el diseño cubano, en función de la preservación y
cumplimiento de las garantías de los derechos humanos. Se nos avizoran nuevos tiempos
en los que la educación en derechos humanos habrá de constituir, sin lugar a dudas, el eje
transverzalizador de la formación de los especialistas en Derecho penal. Este es sin lugar
a dudas el aporte de este programa a las aspiraciones planteadas por los ODS, en la
construcción de un mundo de derechos humanos y para los derechos humanos.
5. Bibliografía
GARZA, T. J. y PATIÑO, G. S. (2000). Educación en Valores. México Editorial Trillas.
GONZÁLEZ GUDIANO. E. (2003). Hacia un Decenio de la Educación para el
Desarrollo
Sustentable,
México,
Agua
y
Desarrollo
Sustentable.
https://antigo.mma.gov.br/estruturas/educamb/_arquivos/20_11122008091528.pdf.
GUTIÉRREZ. J., BENAYAS. J., y CALVO, S. (2006). Educación para el desarrollo
sostenible: evaluación de retos y oportunidades del decenio 2005-2014, Revista
Ibeoramericana De Educación, 40, 25-69. DOI: https://doi.org/10.35362/rie400781
REVISTA DE EDUCACIÓN Y DERECHO. EDUCATION AND LAW REVIEW
FECHA DE ENTRADA: 16-04-2021
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FECHA DE ACEPTACIÓN: 15-09-2021
166
DARINA ORTEGA LEÓN Y MARÍA ELVIRA BATISTA OJEDA. Hacia el desarrollo sostenible: La…
JUÁREZ, J. F, MORENO, M. A (2000). Una Nueva Propuesta para la Educación en
Valores. Guía Teórica – Práctica. Colección Valores para Vivir, Caracas (Venezuela).
RAMOS, M. G. (2000). Para Educar en Valores. Teoría y Práctica. Valencia-Venezuela.
Editorial El Viaje del Pez. Dirección de Medios y Publicaciones. Universidad de
Carabobo.
VALLAEYS, F. (2008). Responsabilidad Social Universitaria: una nueva filosofía de
gestión Ética e Inteligente para las Universidades. Revista Educación Superior y
Sociedad, 13 (2), 191-220.
167
REVISTA DE EDUCACIÓN Y DERECHO. EDUCATION AND LAW REVIEW
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https://openalex.org/W2809151631
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https://europepmc.org/articles/pmc6015082?pdf=render
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English
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LINC complex-Lis1 interplay controls MT1-MMP matrix digest-on-demand response for confined tumor cell migration
|
Nature communications
| 2,018
|
cc-by
| 15,778
|
ARTICLE ARTICLE ARTICLE With decreasing matrix pore size, cancer cell invasion
critically depends on MT1-MMP surface expression to enlarge
matrix pores2,11. Inhibition of MT1-MMP function impairs
confined cell movement and correlates with increased nuclear
deformation,
nuclear
envelope
(NE)
rupture
and
DNA
damage2,15,17. Physical features of the matrix and cellular parameters can
affect cancer cell motility such as matrix porosity and nuclear
stiffness, respectively1–4. We explored potential relations between
these parameters and MT1-MMP-dependent pericellular collage-
nolysis. Matrix pore size was increased by reducing collagen
polymerization temperature to 20 °C instead of 37 °C, the
condition used so far, while keeping collagen concentration
constant (2.0 mg/ml); this led to a ~2-fold increase in the distance
between fibrils (Supplementary Fig. 1d, e)2,21. GM treatment did
not result in a significant increase of nuclear deformation in cells
invading through the gel of higher porosity (Fig. 1d). In addition,
invasion speed in the large pore size gel was not affected by GM
treatment contrasting with inhibition observed in the smaller
pore size gel (Fig. 1e). These data indicated that in a permissive
large pore size collagen environment causing reduced nuclear
constriction,
MT1-MMP
was
dispensable
for
invasion,
in
agreement with previous observation2. Strikingly, we found that
invasion through the higher porosity gel correlated with a ~60%
reduction of pericellular collagenolysis as compared to the small
pore size collagen network and a lack of proteolysis anterior of
the nucleus (Fig. 1b, c, f and Supplementary Fig. 1b). Similarly,
pore size enlargement correlated with a significant decrease of
collagenolysis by HT-1080 fibrosarcoma cells, while invasion
speed was similar in large and small pore size gels (Supplemen-
tary Fig. 1f–h). These data indicated that modulation of cell
confinement correlated with changes in MT1-MMP-dependent
pericellular proteolysis of constricting collagen fibrils. g
Cancer cells adjust their levels of surface-exposed MT1-MMP
through trafficking from late endosomal/lysosomal storage com-
partments18. Whether and how matrix porosity and cell con-
finement
influence
MT1-MMP
surface
localization
remain
unexplored. To address these outstanding questions, we used live
cell imaging of breast carcinoma and fibrosarcoma cells invading
through 3D collagen gels of controlled porosity. We report that
invasion through small pore size collagen meshwork triggers an
adaptive response with polarized centrosome-centered distribu-
tion of MT1-MMP-positive storage endosomes ahead of the
nucleus and enhanced MT1-MMP-based pericellular proteolysis
of confining collagen fibrils. In contrast, endosome polarization is
lost and collagenolysis decreases in cells invading through a
permissive large pore size collagen environment. ARTICLE ARTICLE NATURE COMMUNICATIONS | DOI: 10.1038/s41467-018-04865-7 R
e
n
n degradation in front of the nucleus and cleared collagen from the
cell path probably through the action of collagenases, consistent
with previous observations20. Importantly, when fluorescence
intensity of cleaved collagen was measured along the long cell axis
of several invasive cells and averaged, a robust pericellular col-
lagenolysis in association with the bulky part of the cell anterior
to the nucleus was observed, while collagen degradation was
minimal at the cell front (Fig. 1b). In agreement with previous
findings2,3,17, we observed that 28 ± 2.9% of invasive cells in the
3D collagen gel presented various degrees of nuclear deformation
as the nucleus moved through constricting spaces (Fig. 1d and
Supplementary Fig. 1a). Moreover, inhibition of MMP activity
upon GM6001 (GM) treatment, which reduced invasion speed in
3D collagen by ~2-fold and interfered with pericellular col-
lagenolysis (Fig. 1e, f and Supplementary Fig. 1b), correlated with
a
strong
enhancement
of
nuclear
deformation
(~55–60%
deformed nuclei, see Fig. 1d and Supplementary Fig. 1c). Simi-
larly, MT1-MMP silencing using small interfering (si)RNA led to
a robust inhibition of pericellular collagenolysis and increased
nuclear deformation (Fig. 1d, g and Supplementary Fig. 1b). Altogether, these findings indicated that surface-exposed MT1-
MMP enabled efficient cell movement in confinement by med-
iating proteolysis anterior of the nucleus. R
ecent studies revealed that limited deformability of the
nucleus prevents constricted cell movement and that
nuclear stiffness is a critical element for the ability of
normal and cancer cells to migrate through confined extracellular
matrix (ECM) environments1–4. Nuclear rigidity depends on
lamin A (LMNA) levels, component of the nuclear lamina acting
as a rigid and protective shell underneath the inner nuclear
membrane5,6. Down-modulation of LMNA in cancer cells cor-
relates with increased nuclear deformability and enhanced cell
migration in confined environments by facilitating nucleus
squeezing through ECM pores1–4,7–9. q
g
g
p
Also critical for metastasis is the capacity of cancer cells
to remodel ECM barriers10. Invasion by carcinoma cells is
potentiated by pericellular matrix proteolysis, executed by trans-
membrane
membrane-type
1
matrix
metalloproteinase
(MT1-MMP)11,12. MT1-MMP is up-regulated during tumor
progression and its up-regulation predicts the invasive potential
of cancerous breast lesions13,14. In 3D type I collagen network,
pericellular ECM proteolysis is associated with the invasive cell
protrusion ahead of the nucleus, and is reduced at the cell leading
edge, involved in cell-matrix adhesion to support 3D migra-
tion15,16. ARTICLE Importantly,
modulating LMNA levels with known consequences on nuclear
stiffness impinges on MT1-MMP-positive endosome polarity and
collagenolysis. We provide evidence that endosome polarization
and MT1-MMP-dependent collagenolysis require integrity of the
linker of nucleoskeleton and cytoskeleton (LINC) complex that
connects the nuclear lamina to cytoskeletal elements in the
cytoplasm and the dynein regulator Lis1 involved in nucleus-
microtubule cytoskeleton linkage19. Our data support a model
whereby focal MT1-MMP-mediated ECM proteolysis response is
engaged by mechanical signals during confined migration to
facilitate nuclear movement and promote tumor cell invasion. p
p
y
g
g
Next, the influence of lamin A expression levels, with well
described relationship with nuclear stiffness and deformability
was tested on MT1-MMP-dependent response. Nuclei from
GFPLMNA-overexpressing cells slowed down or even stalled
within the 2.5 μm-diameter constrictions of microfabricated
channels as compared to GFPH2B-expressing cell nuclei that
crossed the constriction in 1–2 h (Supplementary Fig. 2a–d). These findings are in agreement with increased nuclear stiffness
induced by elevated LMNA levels1,5. GFPLMNA overexpression
did not affect MT1-MMP level nor association of LINC complex
components Nesprin-1 and SUN1 to the NE (Supplementary
Fig. 2a and e, f). Invasion speed of MDA-MB-231 cells in 20 °C
polymerized collagen gel (large pore size) was not affected by
overexpression of GFPLMNA as compared to GFPH2B (Fig. 1h). However, contrasting with the reduction of collagenolysis by
MDA-MB-231 cells in the permissive large pore size collagen gel LINC complex-Lis1 interplay controls MT1-MMP
matrix digest-on-demand response for confined
tumor cell migration Elvira Infante1, Alessia Castagnino1, Robin Ferrari1, Pedro Monteiro1, Sonia Agüera
Perrine Paul-Gilloteaux
1,2, Mélanie J. Domingues1, Paolo Maiuri
3, Matthew Raa
Alexandre Baffet1, Matthieu Piel
1, Edgar R. Gomes
5 & Philippe Chavrier
1 Elvira Infante1, Alessia Castagnino1, Robin Ferrari1, Pedro Monteiro1, Sonia Agüera-González1,
Perrine Paul-Gilloteaux
1,2, Mélanie J. Domingues1, Paolo Maiuri
3, Matthew Raab1, Catherine M. Shanahan4,
Alexandre Baffet1, Matthieu Piel
1, Edgar R. Gomes
5 & Philippe Chavrier
1 Cancer cells’ ability to migrate through constricting pores in the tissue matrix is limited by
nuclear stiffness. MT1-MMP contributes to metastasis by widening matrix pores, facilitating
confined migration. Here, we show that modulation of matrix pore size or of lamin A
expression known to modulate nuclear stiffness directly impinges on levels of MT1-MMP-
mediated pericellular collagenolysis by cancer cells. A component of this adaptive response is
the centrosome-centered distribution of MT1-MMP intracellular storage compartments
ahead of the nucleus. We further show that this response, including invadopodia formation in
association with confining matrix fibrils, requires an intact connection between the nucleus
and the centrosome via the linker of nucleoskeleton and cytoskeleton (LINC) complex protein
nesprin-2 and dynein adaptor Lis1. Our results uncover a digest-on-demand strategy for
nuclear translocation through constricted spaces whereby confined migration triggers
polarization of MT1-MMP storage compartments and matrix proteolysis in front of the
nucleus depending on nucleus-microtubule linkage. 1 Institut Curie, PSL Research University, CNRS, UMR 144, 26 rue d’Ulm, F-75005 Paris, France. 2 Institut Curie, Cell and Tissue Imaging Facility (PICT-IBiSA),
26 rue d’Ulm, F-75005 Paris, France. 3 IFOM, the FIRC Institute of Molecular Oncology, Via Adamello 16, 20139 Milan, Italy. 4 BHF Centre of Research
Excellence, Cardiovascular Division, King’s College, 125 Coldharbour Lane, SE5 9NU London, UK. 5 Instituto de Medicina Molecular, Faculdade de Medicina,
Universidade de Lisboa, Avenida Professor Egas Moniz, 1649-028 Lisboa, Portugal. These authors contributed equally: Elvira Infante, Alessia Castagnino,
Robin Ferrari, Pedro Monteiro. Correspondence and requests for materials should be addressed to E.I. (email: elvira.infante@kcl.ac.uk)
or to P.C. (email: philippe.chavrier@curie.fr) 1 NATURE COMMUNICATIONS | (2018) 9:2443 | DOI: 10.1038/s41467-018-04865-7 | www.nature.com/naturecommunications NATURE COMMUNICATIONS | DOI: 10.1038/s41467-018-04865-7 ARTICLE (Fig. 1f), collagenolysis levels of GFPLMNA-overexpressing cells
remained elevated in large, as compared to small, pore size
collagen environment (Fig. 1i and Supplementary Fig. 2g). These observations revealed a relationship between LMNA
overexpression, known to increase nuclear stiffness and elevated levels of MT1-MMP-mediated ECM proteolysis during 3D
invasion. Reciprocally, reduction of LMNA levels has been shown to
increase nuclear deformability4,22,23. Results
C
fi Confinement and nuclear stiffness regulate collagenolysis. The
morphology and collagenolysis activity of invasive MDA-MB-231
cells embedded in the 3D fibrillar type I collagen network were
analyzed by staining for microtubules and a cleaved collagen
neoepitope. After a short 2.5 hrs incubation, different cell
morphologies were observed (Fig. 1a): (i) pre-invasive rounded
cells with collagen degradation surrounding the cell edge, (ii) cells
that initiated invasion as exemplified by limited collagen degra-
dation track behind the cell and at the basis of the nascent pro-
trusion ahead of the nucleus, (iii) fully invasive cells showing
typical
elongated
mesenchymal
organization
with
collagen NATURE COMMUNICATIONS | (2018) 9:2443 | DOI: 10.1038/s41467-018-04865-7 | www.nature.com/naturecommunications 2 NATURE COMMUNICATIONS | DOI: 10.1038/s41467-018-04865-7 NATURE COMMUNICATIONS | DOI: 10.1038/s41467-018-04865-7 Collectively,
these
findings
suggested
that
endosome
polarization in front of the nucleus is part of the response to
adjust pericellular collagenolysis and widen constricting pores in
the matrix. Polarization
of
MT1-MMP
endosomes
during
confined
migration. In order to identify the mechanism underlying
increased collagenolysis during constricted migration, we looked
at the dynamic distribution of MT1-MMP-positive storage
endosomes in MDA-MB-231 cells invading in 3D collagen by
automated endosome tracking over time. In cells invading
through the small pore size collagen gel, MT1-MMP-containing
endosomes clustered in a region anterior to the nucleus relative to
the direction of movement (Fig. 2a and Supplementary Movie 1); The centrosome is positioned ahead of the nucleus. We
observed that the centrosome was located in front of the nucleus
in cells invading through the 3D small pore size collagen gel and
noticed that the centrosome was often located in the vicinity of
maximal nuclear constriction when invasion was impaired upon
MMP inhibition (Fig. 3a, b). MT1-MMP endosome positioning
and clustering around the centrosome are controlled by interac-
tions with the microtubule network and dynein and kinesin
motor
activity24. Thus,
nucleus-centrosome
linkage
and Fig. 1 MT1-MMP-dependent pericellular collagenolysis is an adaptive response to matrix porosity. a MDA-MB-231 cells were embedded in 2.0 mg/ml
fluorescent type I collagen (cyan) and polymerization was induced at neutral pH at 37 °C. Cells were fixed after 2.5 hrs and stained for cleaved collagen
neoepitope (Col1-3⁄4C antibody, red), α-tubulin (green) and DAPI (blue). Dashed box indicates the region used for line-scan analysis in panel b with yellow,
orange and pink dots indicating nucleus center, posterior and anterior limits of regions used for line-scan analysis. Dashed lines indicate initial cell position
(thick) and cell rear (thin), respectively. Inset shows nucleus and cleaved collagen signal and arrowheads point to nucleo-anterior collagenolysis. b Averaged maximal fluorescence intensity profiles of cleaved collagen in 37 °C (orange curve) or 20 °C (purple curve) polymerized collagen±SD (left Y-
axis) and DAPI (right Y-axis) along cell axis. n, number of cells used to calculate averaged intensity profiles from three independent experiments; “0” on
X-axis corresponds to nucleus center. c MDA-MB-231 cells embedded in 20 °C polymerized gel analyzed as in a. d Morphological analysis of DAPI-stained
nuclei (see Supplementary Fig. 1a for nucleus shape scoring criteria) in MDA-MB-231 cells in 3D collagen matrix under indicated experimental conditions. NATURE COMMUNICATIONS | DOI: 10.1038/s41467-018-04865-7 Data are mean % ± SEM from three independent experiments (except Ctrl at [37 °C], N = 2 and siNT, N = 6); (n), number of cells analyzed. P-values of Kruskal–Wallis test as compared to control condition in each dataset. e MDA-MB-231 cells expressing H2BGFP were embedded in 3D 37 °C or
20 °C polymerized gels. Cells were treated with ethanol (Ctrl) or GM as indicated. Nuclei were automatically tracked from time-lapse sequences obtained
from three independent experiments and plot shows the distribution of nuclei speed. n, number of cells analyzed from three independent experiments. Data
were transformed using the log transformation y = log(y) to make data conform to normality and analyzed using one-way ANOVA test. f, g Pericellular
collagenolysis by MDA-MB-231 cells treated with GM (f) or silenced for MT1-MMP (g) in 37 °C or 20 °C polymerized gels measured as mean intensity of
Col1-3⁄4C signal per cell (see Supplementary Fig. 1b for representative images). Values for vehicle-treated (panel f) or siNT-treated cells in 37 °C
polymerized gel (g) were set to 100%. n, number of cells analyzed from three to five independent experiments (except experiments in 20 °C polymerized
gel, N = 2); Kruskal–Wallis (f) and Mann-Whitney (g) tests. h MDA-MB-231 cells expressing H2BGFP or GFPLMNA were embedded in 3D collagen gel
polymerized at 20 °C and invasion speed was analyzed as in e. n number of cells analyzed from three independent experiments. Unpaired t-test. i
Pericellular collagenolysis by MDA-MB-231 cells expressing GFPLMNA in 37 °C (set to 100%) or 20 °C polymerized gels (see Supplementary Fig. 2g for
representative images). n, number of cells analyzed from three independent experiments; Mann-Whitney test. j Analysis of nuclear deformation in MDA-
MB-231 cells knocked down for LMNA in 37 °C polymerized gel as in d. Data are mean % ± SEM from three independent experiments (except siNT, N = 6);
(n), number of cells analyzed. P-values of One-way ANOVA test as compared to control condition. k Pericellular collagenolysis by MDA-MB-231 cells
knocked down for LMNA in 37 °C polymerized gel normalized to mean intensity of siNT-treated cells ± SEM (see Supplementary Fig. 3c for representative
images); n number of cells analyzed from three independent experiments; Kruskal–Wallis test. l Relative invasion of cells penetrating 3D collagen to
depths ≥30 μm (see Supplementary Fig. 3d for representative images). NATURE COMMUNICATIONS | DOI: 10.1038/s41467-018-04865-7 3a, b). Reduced
LMNA levels correlated with increased nuclear deformation in
3D collagen gel polymerized at 37 °C (55–65% deformed nuclei
including 25% polymorphic lobulated nuclei, Fig. 1j) and in cells
plated on a thick fibrous collagen layer (Supplementary Fig. 3b). In addition, LMNA KD correlated with increased migration speed
of GFPH2B-expressing cells in microchannels (Supplementary
Fig. 2c, d). Collectively these data indicated that LMNA-depleted
cells had more deformable nuclei and retained full migratory
capacity. Remarkably,
MT1-MMP-dependent
collagenolytic
activity in the small pore size collagen gel decreased by ~2-fold
upon LMNA KD (Fig. 1k and Supplementary Fig. 3c). Despite
reduced collagenolysis, silencing of LMNA correlated with a
1.5–1.7-fold increase of invasion (Fig. 1l and Supplementary
Fig. 3d). Thus, reduced LMNA expression enhanced the invasive
potential of breast tumor cells by increasing nucleus deformability
and its capacity to squeeze through constricted spaces, while
MT1-MMP response was lowered down. All together, these
findings indicated that MT1-MMP-mediated pericellular collage-
nolysis is an adaptive response that is switched on during
confined migration in the dense ECM environment, suggesting a
relationship between environment, nuclear biomechanics and
modulation of active MT1-MMP at the cell surface. ~50% of MT1-MMP-positive endosomes polarized in a 90°
quadrant in front of the nucleus relative to movement with a non-
uniform distribution as demonstrated by Rao’s Spacing test (P <
0.001, Fig. 2b). In contrast, we observed a striking uniform
endosome distribution in MDA-MB-231 cells invading in the
large pore size collagen gel polymerized at 20 °C (P > 0.1, Fig. 2d,
e and Supplementary Movie 2). Relationship between MT1-MMP
endosome polarity and collagen gel porosity was similarly
observed in HT-1080 cells (Fig. 2c, f). Then, we examined the
consequences of modulating LMNA levels, nuclear deformability
and gel porosity on endosome polarization in MDA-MB-231
cells. In
the
permissive
gel
polymerized
at
20 °C,
decreased nuclear deformability upon LMNAGFP overexpression
correlated with a remarkable polarization of MT1-MMP endo-
somes in front of the nucleus (Fig. 2g, h, compare to Fig. 2d, e,
and see Supplementary Movie 3). Conversely, silencing of LMNA
correlated with a loss of endosome polarization in front of the
nucleus in cells invading through the confining gel polymerized at
37 °C and instead a bimodal endosome distribution was obser-
ved (Fig. 2i, j, compare to 2a, b, and see Supplementary Movie 4). NATURE COMMUNICATIONS | DOI: 10.1038/s41467-018-04865-7 LMNA was silenced to ≤5%
of endogenous levels using two independent siRNAs with no p
xpression, known to increase nuclear stiffness and elevated
y
of endogenous levels using two independent siRNAs with
Invasion speed (μm/min)
e
Ctrl
GM
Ctrl
GM
0
0.2
0.4
0.6
0.8
****
ns
ns
n=12 20
21
10
[37 °C]
[20 °C]
(iii) Invasive
a
0
0.1
0.2
0.3
0.4
0.5
0.6
0.7
0.8
0.9
1.0
–0.1
–0.2
–0.3
–0.4
–0.5
–0.6
–0.7
–0.8
–0.9
Mean DAPI intensity (a.u.)
0
50
100
150
200
[37 °C] n=24
[20 °C] n=24
Distance to nucleus center (a.u.)
25
50
125
150
Mean collagen degradation (a.u.)
100
75
REAR
FRONT
b
0
Collagen I [37°C]/Col1-3/4C/α-tubulin/DAPI
(i) Pre-invasive
(ii) Early invasive
Collagen I [20 °C]
c
Ctrl
GM
Ctrl
GM
[37 °C]
[20 °C]
Collagen degradation (% ctrl)
0
100
50
f
0
50
100
150
n=
1191 909
****
siNT
siMT1-MMPS
Collagen degradation (% siNT)
[37 °C]
g
****
ns
n=
2152 2095 849 830
100
20
60
Ctrl
GM
Ctrl
GM
[37 °C]
[20°C]
[20 °C]
siNT
siMT1-MMPS
[37 °C]
Deformed nuclei (%)
***
***
ns
n=
221
281
611 312
330 274
d
0
GFPLMNA
H2BGFP
Invasion speed (μm/min)
0
0.2
0.4
0.6
0.8
n=10
n=10
ns
h
[20°C]
[20 °C]
0
50
100
150
Collagen degradation (% [37 °C])
MDA-MB-231
GFPLMNA
ns
1153
n =
872
i
[37°C]
[20°C]
[20°C]
100
20
60
0
siNT
siLMNA_02
siLMNA_01
j
Deformed nuclei (%)
n=
611 329 239
[37 °C]
****
****
0
50
100
150
1191 575
n =
948
***
***
siNT
siLMNA_02
siLMNA_01
Collagen degradation (% siNT)
k
[37 °C]
0
50
100
150
200
n =
111
43
51
siNT
siLMNA_01
siLMNA_02
3D invasion (% siNT)
****
**
l
250
[37 °C]
E COMMUNICATIONS | (2018) 9:2443 | DOI: 10.1038/s41467-018-04865-7 | www.nature.com/naturecommunications 0
0.1
0.2
0.3
0.4
0.5
0.6
0.7
0.8
0.9
1.0
–0.1
–0.2
–0.3
–0.4
–0.5
–0.6
–0.7
–0.8
–0.9
Mean DAPI intensity (a.u.)
0
50
100
150
200
[37 °C] n=24
[20 °C] n=24
Distance to nucleus center (a.u.)
25
50
125
150
Mean collagen degradation (a.u.)
100
75
REAR
FRONT
b
0 (iii) Invasive
a
Collagen I [37°C]/Col1-3/4C/α-tubulin/DAPI
(i) Pre-invasive
(ii) Early invasive b a c (
)
Collagen I [20 °C]
c Ctrl
GM
Ctrl
GM
Collagen degradation (% ctrl)
0
100
50
f
****
ns
n=
2152 2095 849 830 Invasion speed (μm/min)
e
Ctrl
GM
Ctrl
GM
0
0.2
0.4
0.6
0.8
****
ns
ns
n=12 20
21
10 100
20
60
Ctrl
GM
Ctrl
GM
siNT
-MMPS
Deformed nuclei (%)
***
***
ns
n=
221
281
611 312
330 274
d
0 f f d e g 0
50
100
150
n=
1191 909
****
siNT
1-MMPS
Collagen degradation (% siNT)
g Collagen degradation (% siNT) Deformed nuclei (%) si
siMT1-MM
[37 °C]
l [37 °C]
[20°C]
[20 °C]
s
siMT1-MM
[37 °C]
h
i [37 °C]
[37 °C]
h 100
20
60
0
siNT
siLMNA_02
siLMNA_01
j
Deformed nuclei (%)
n=
611 329 239
[37 °C]
****
**** [
GFPLMNA
H2BGFP
Invasion speed (μm/min)
0
0.2
0.4
0.6
0.8
n=10
n=10
ns
h
[20°C]
[20 °C] i l j i h k 0
50
100
150
200
n =
111
43
51
siNT
iLMNA_01
iLMNA_02
3D invasion (% siNT)
****
**
250 Collagen degradation (% siNT) 3D invasion (% siNT) NATURE COMMUNICATIONS | (2018) 9:2443 | DOI: 10.1038/s41467-018-04865-7 | www.nature.com/naturecommunications 3 ARTICLE NATURE COMMUNICATIONS | DOI: 10.1038/s41467-018-04865-7 change in MT1-MMP expression nor visible alteration in
cytoskeletal organization (Supplementary Fig. Fig. 1 MT1-MMP-dependent pericellular collagenolysis is an adaptive response to matrix porosity. a MDA-MB-231 cells were embedded in 2.0 mg/ml
fluorescent type I collagen (cyan) and polymerization was induced at neutral pH at 37 °C. Cells were fixed after 2.5 hrs and stained for cleaved collagen
neoepitope (Col1-3⁄4C antibody, red), α-tubulin (green) and DAPI (blue). Dashed box indicates the region used for line-scan analysis in panel b with yellow,
orange and pink dots indicating nucleus center, posterior and anterior limits of regions used for line-scan analysis. Dashed lines indicate initial cell position
(thick) and cell rear (thin), respectively. Inset shows nucleus and cleaved collagen signal and arrowheads point to nucleo-anterior collagenolysis.
b Averaged maximal fluorescence intensity profiles of cleaved collagen in 37 °C (orange curve) or 20 °C (purple curve) polymerized collagen±SD (left Y-
axis) and DAPI (right Y-axis) along cell axis. n, number of cells used to calculate averaged intensity profiles from three independent experiments; “0” on
X-axis corresponds to nucleus center. c MDA-MB-231 cells embedded in 20 °C polymerized gel analyzed as in a. d Morphological analysis of DAPI-stained
nuclei (see Supplementary Fig. 1a for nucleus shape scoring criteria) in MDA-MB-231 cells in 3D collagen matrix under indicated experimental conditions.
Data are mean % ± SEM from three independent experiments (except Ctrl at [37 °C], N = 2 and siNT, N = 6); (n), number of cells analyzed.
P-values of Kruskal–Wallis test as compared to control condition in each dataset. e MDA-MB-231 cells expressing H2BGFP were embedded in 3D 37 °C or
20 °C polymerized gels. Cells were treated with ethanol (Ctrl) or GM as indicated. Nuclei were automatically tracked from time-lapse sequences obtained
from three independent experiments and plot shows the distribution of nuclei speed. n, number of cells analyzed from three independent experiments. Data
were transformed using the log transformation y = log(y) to make data conform to normality and analyzed using one-way ANOVA test. f, g Pericellular
collagenolysis by MDA-MB-231 cells treated with GM (f) or silenced for MT1-MMP (g) in 37 °C or 20 °C polymerized gels measured as mean intensity of
Col1-3⁄4C signal per cell (see Supplementary Fig. 1b for representative images). Values for vehicle-treated (panel f) or siNT-treated cells in 37 °C
polymerized gel (g) were set to 100%. n, number of cells analyzed from three to five independent experiments (except experiments in 20 °C polymerized
gel, N = 2); Kruskal–Wallis (f) and Mann-Whitney (g) tests. h MDA-MB-231 cells expressing H2BGFP or GFPLMNA were embedded in 3D collagen gel
polymerized at 20 °C and invasion speed was analyzed as in e. n number of cells analyzed from three independent experiments. Unpaired t-test. i
Pericellular collagenolysis by MDA-MB-231 cells expressing GFPLMNA in 37 °C (set to 100%) or 20 °C polymerized gels (see Supplementary Fig. 2g for
representative images). n, number of cells analyzed from three independent experiments; Mann-Whitney test. j Analysis of nuclear deformation in MDA-
MB-231 cells knocked down for LMNA in 37 °C polymerized gel as in d. Data are mean % ± SEM from three independent experiments (except siNT, N = 6);
(n), number of cells analyzed. P-values of One-way ANOVA test as compared to control condition. k Pericellular collagenolysis by MDA-MB-231 cells
knocked down for LMNA in 37 °C polymerized gel normalized to mean intensity of siNT-treated cells ± SEM (see Supplementary Fig. 3c for representative
images); n number of cells analyzed from three independent experiments; Kruskal–Wallis test. l Relative invasion of cells penetrating 3D collagen to
depths ≥30 μm (see Supplementary Fig. 3d for representative images). Data represent mean ± SEM normalized to invasion of control cells from three
independent experiments. n number of cells analyzed from three independent experiments; Kruskal-Wallis test. **P < 0.01; ***P < 0.001; ****P < 0.0001; ns,
not significant. Scale bar=10 μm NATURE COMMUNICATIONS | DOI: 10.1038/s41467-018-04865-7 05:10
0°
180°
90°
270°
5
10
c: 12
e: 5031
MDA-MB-231/H2BGFP/
MT1-MMP
mCh/siLMNA_01
j
Collagen [37 °C]
0.001<P<0.01
i
00:00
00:20
01:00
Collagen [37 °C]
MDA-MB-231/siLMNA_01
H2BGFP/MT1-MMPmCh
0°
180°
90°
270°
5
10
15
c: 11
e: 3041
MDA-MB-231/ GFPLMNA/MT1-MMPmCh
h
Collagen [20 °C]
01:49
03:29
04:00
05:20
Collagen [20 °C]
05:49
GFPLMNA/MT1-MMPmCh
g
MDA-MB-231/ GFPLMNA/MT1-MMPmCh
d
Collagen [20 °C]
03:21
04:43
07:28
09:22
09:32
H2BGFP/MT1-MMPmCh
MDA-MB-231-H2BGFP/MT1-MMPmCh
5
10
15
HT-1080
H2BGFP/MT1-MMPmCh
c: 14
e: 2056
c
0°
90°
270°
180°
P<0.001
5
10
0°
180°
90°
270°
c: 15
e: 2174
f
HT-1080
H2B
GFP/MT1-MMP
mCh
P>0.1
0°
180°
90°
270°
5
10
15
c: 18
e: 4538
e
Collagen [20 °C]
P >0.1
MDA-MB-231
H2BGFP/MT1-MMPmCh
5
10
15
0°
180°
90°
270°
c: 17
e: 4067
b
Collagen [37 °C]
P<0.001
MDA-MB-231
H2BGFP/MT1-MMPmCh
a
00:40
Collagen [37 °C]
01:25
02:05
03:45
H2BGFP/MT1-MMPmCh
MDA-MB-231-H2BGFP/MT1-MMPmCh
0.001<P<0.01
MT1-MMPmCh endosome angular distribution
olarization of MT1-MMP endosomes is part of the adaptive MT1-MMP-dependent collagenolysis response during confined invasion. a
expressing MT1-MMPmCh (red) and H2BGFP (green) were embedded in the 3D small pore size collagen gel and analyzed by time-lap
-disk microscopy (see Supplementary Movie 1). The gallery shows representative non-consecutive frames from a representative mov
ee independent experiments (time in h:min). Arrows show the direction of migration. b, c Rose plots showing the percentage of MT
mes in 15° segments relative to the direction of nucleus movement (0°) scored from time-lapse sequences of MDA-MB-231
T-1080 (c) cells. c number of cells, e number of endosomes analyzed from three independent experiments. P-values for circular unifo
test are provided. d Representative frames from a time-lapse sequence of MDA-MB-231 cells invading in the large pore size collage
mentary Movie 2). e, f Angular distribution of MT1-MMP endosomes relative to the direction of nuclear movement as in b, c. NATURE COMMUNICATIONS | DOI: 10.1038/s41467-018-04865-7 Data represent mean ± SEM normalized to invasion of control cells from three
independent experiments. n number of cells analyzed from three independent experiments; Kruskal-Wallis test. **P < 0.01; ***P < 0.001; ****P < 0.0001; ns,
not significant. Scale bar=10 μm NATURE COMMUNICATIONS | (2018) 9:2443 | DOI: 10.1038/s41467-018-04865-7 | www.nature.com/naturecommunications 4 4 NATURE COMMUNICATIONS | DOI: 10.1038/s41467-018-04865-7 ARTICLE NATURE COMMUNICATIONS | DOI: 10.1038/s41467-018-04865-7 g Galle
ntative time-lapse sequence of MDA-MB-231 cells expressing MT1-MMPmCh (red) and GFPLMNA (green) embedded in the large po
pplementary Movie 3) h Rose plot of MT1 MMP endosome angular distribution from three independent experiments i Representative a
00:40
Collagen [37 °C]
01:25
02:05
03:45
H2BGFP/MT1-MMPmCh
MDA-MB-231-H2BGFP/MT1-MMPmCh 5
10
15
HT-1080
H2BGFP/MT1-MMPmCh
c: 14
e: 2056
c
0°
90°
270°
180°
P<0.001
f
5
10
15
0°
180°
90°
270°
c: 17
e: 4067
b
Collagen [37 °C]
P<0.001
MDA-MB-231
H2BGFP/MT1-MMPmCh
MT1-MMPmCh endosome angular distribution 5
10
15
0°
180°
90°
2
c: 17
e: 4067
b
C
P<
MDA-MB-231
H2BGFP/MT1-MMPmCh
MT1 MMP
endos 5
10
15
HT-1080
H2BGFP/MT1-MMPmCh
c: 14
e: 2056
c
0°
90°
270°
180°
P<0.001
0°
lagen [37 °C]
.001 b a d
Collagen [20 °C]
03:21
04:43
07:28
09:22
09:32
H2BGFP/MT1-MMPmCh
MDA-MB-231-H2BGFP/MT1-MMPmCh f 5
10
0°
180°
90°
270°
c: 15
e: 2174
f
HT-1080
H2B
GFP/MT1-MMP
mCh
P>0.1
0°
lagen [20 °C]
.1 e d h
0°
180°
90°
2
5
10
15
c: 18
e: 4538
e
Co
P >
MDA-MB-231
H2BGFP/MT1-MMPmCh h
5
10
0°
180°
90°
270°
c: 15
e: 2174
f
HT-1080
H2B
GFP/MT1-MMP
mCh
P>0.1
0°
180°
90°
270°
5
10
15
c: 18
e: 4538
e
Collagen [20 °C]
P >0.1
MDA-MB-231
H2BGFP/MT1-MMPmCh MDA-MB-231
H2BGFP/MT1-MMPmCh 90° 15 i
00:00
00:20
01:00
Collagen [37 °C]
MDA-MB-231/siLMNA_01
H2BGFP/MT1-MMPmCh
01:49
03:29
04:00
05:20
Collagen [20 °C]
05:49
GFPLMNA/MT1-MMPmCh
g
MDA-MB-231/ GFPLMNA/MT1-MMPmCh i
01:49
03:29
04:00
05:20
Collagen [20 °C]
05:49
GFPLMNA/MT1-MMPmCh
g
MDA-MB-231/ GFPLMNA/MT1-MMPmCh 180° h 180° 180° g
MD 0°
180°
90°
270°
5
10
15
c: 11
e: 3041
MDA-MB-231/ GFPLMNA/MT1-MMPmCh
Collagen [20 °C]
0.001<P<0.01 90° 15 i 180° i
00:00
00:20
01:00
Collagen [37 °C]
MDA-MB-231/siLMNA_01
H2BGFP/MT1-MMPmCh 01:00
2BGFP/MT1-MMPmCh j 05:10
0°
180°
90°
270°
5
10
c: 12
e: 5031
MDA-MB-231/H2BGFP/
MT1-MMP
mCh/siLMNA_01
Collagen [37 °C]
0.001<P<0.01 180° Fig. 2 Polarization of MT1-MMP endosomes is part of the adaptive MT1-MMP-dependent collagenolysis response during confined invasion. a MDA-MB-
231 cells expressing MT1-MMPmCh (red) and H2BGFP (green) were embedded in the 3D small pore size collagen gel and analyzed by time-lapse confocal
spinning-disk microscopy (see Supplementary Movie 1). The gallery shows representative non-consecutive frames from a representative movie obtained
from three independent experiments (time in h:min). Arrows show the direction of migration. NATURE COMMUNICATIONS | DOI: 10.1038/s41467-018-04865-7 b, c Rose plots showing the percentage of MT1-MMP
endosomes in 15° segments relative to the direction of nucleus movement (0°) scored from time-lapse sequences of MDA-MB-231
(b) or HT-1080 (c) cells. c number of cells, e number of endosomes analyzed from three independent experiments. P-values for circular uniformity Rao’s
Spacing test are provided. d Representative frames from a time-lapse sequence of MDA-MB-231 cells invading in the large pore size collagen gel (see
Supplementary Movie 2). e, f Angular distribution of MT1-MMP endosomes relative to the direction of nuclear movement as in b, c. g Gallery from a
representative time-lapse sequence of MDA-MB-231 cells expressing MT1-MMPmCh (red) and GFPLMNA (green) embedded in the large pore size gel
(see Supplementary Movie 3). h Rose plot of MT1-MMP endosome angular distribution from three independent experiments. i Representative frames of a
movie of MDA-MB-231 cells treated with siRNA against LMNA invading through 37 °C polymerized gel (see time-lapse in Supplementary Movie 4). j Rose
plot of MT1-MMP endosome angular distribution from three independent experiments. Scale bars=10 μm (b) or HT-1080 (c) cells. c number of cells, e number of endosomes analyzed from three independent experiments. P-values for circular uniformity Rao’s
Spacing test are provided. d Representative frames from a time-lapse sequence of MDA-MB-231 cells invading in the large pore size collagen gel (see
Supplementary Movie 2). e, f Angular distribution of MT1-MMP endosomes relative to the direction of nuclear movement as in b, c. g Gallery from a
representative time-lapse sequence of MDA-MB-231 cells expressing MT1-MMPmCh (red) and GFPLMNA (green) embedded in the large pore size gel
(see Supplementary Movie 3). h Rose plot of MT1-MMP endosome angular distribution from three independent experiments. i Representative frames of a
movie of MDA-MB-231 cells treated with siRNA against LMNA invading through 37 °C polymerized gel (see time-lapse in Supplementary Movie 4). j Rose
plot of MT1-MMP endosome angular distribution from three independent experiments. Scale bars=10 μm centrosome positioning in front of the nucleus could underlie
polarization
of
MT1-MMP
endosomes
during
constricted
migration. Anchoring of the nucleus to the centrosome involves
LINC complex components SUN and nesprins, which interact with cytoskeletal elements including microtubules25–28. We used
overexpression of the dominant negative KASH domain of
nesprin-2 (GFPDN-KASH) known to antagonize SUN-nesprin
interactions, which displaced nesprin-1 and -2 from the NE of with cytoskeletal elements including microtubules25–28. TURE COMMUNICATIONS | (2018) 9:2443 | DOI: 10.1038/s41467-018-04865-7 | www.nature.com/naturecommunications NATURE COMMUNICATIONS | DOI: 10.1038/s41467-018-04865-7 We used
overexpression of the dominant negative KASH domain of
nesprin-2 (GFPDN-KASH) known to antagonize SUN-nesprin
interactions, which displaced nesprin-1 and -2 from the NE of NATURE COMMUNICATIONS | (2018) 9:2443 | DOI: 10.1038/s41467-018-04865-7 | www.nature.com/naturecommunications 5 ARTICLE NATURE COMMUNICATIONS | DOI: 10.1038/s41467-018-04865-7 NATURE COMMUNICATIONS | DOI: 10.1038/s41467-018-04865-7 Scale bars=10 µm H2BmCherry/GFPCentrin
10
0
50
100
200
300
Ctrl
GM
Time (min)
b DAPI/α-tubulin/Pericentrin
GM
Ctrl
a b 4
00:00
00:20
00:59
d
Collagen [37 °C]
H2BGFP + GFPDN-KASH/MT1-MMPmCh
GFPDN-KASH
H2BmCherry/GFPCentrin
10
0
50
100
200
300
Ctrl
GM
Time (min)
b Deformed nuclei (%)
0
20
60
100
Ctrl
GM
Ctrl
GM
Ctrl
GM
GFPKASHext
GFPDN-KASH
GFP
c
****
n=
256 166 304 192 223 164
ns
ns
ns
** Deformed nuclei (%)
c 00:00
00:20
00:59
d
Collagen [37 °C]
H2BGFP + GFPDN-KASH/MT1-MMPmCh
GFPDN-KASH d c 0
50
100
150
576 460
n=
f
**
GFPDN-KASH
GFPKASHext
Collagen degradation
(% GFPKASHext) 0°
90°
270°
e
Collagen [37 °C]
H2BGFP/GFPDN-KASH
c: 22
e: 13151
10
5
0.01<P<0.05
G 0
50
100
150
45
43
n=
g
****
GFPDN-KASH
GFPKASHext
3D invasion
(% GFPKASHext) g e Fig. 3 Nucleus-centrosome linkage through LINC complex is involved in MT1-MMP endosome polarization and collagenolysis-based invasion. a MDA-MB-
231 cells in 3D collagen I polymerized at 37 °C treated or not with GM MMP inhibitor and stained for α-tubulin (green), centrosomal pericentrin (red) and
nucleus (blue). b Galleries from representative time-lapse sequences of MDA-MB-231 cells expressing H2BmCherry (magenta) and GFPCentrin-1 (yellow)
invading through type I collagen gel as in a. c Morphological analysis of DAPI-stained nuclei as in Fig. 1d. Data are mean % ± SEM from three independent
experiments. (n), number of cells analyzed. P-values of Kruskal–Wallis test as compared to non-treated GFP-expressing cells. d Representative frames of a
movie of MDA-MB-231 cells expressing MT1-MMPmCh (red) and H2BGFP together with GFPDN-KASH (green) invading through the small pore size
collagen gel polymerized at 37 °C (see time-lapse sequence in Supplementary Movie 5). e Rose plots of endosome angular distribution from three
independent experiments as in Fig. 2b. P-value for circular uniformity Rao’s Spacing test is provided. f Pericellular collagenolysis by MDA-MB-231 cells
expressing GFPDN-KASH in 37 °C polymerized gel normalized to mean intensity of GFPKASHext-expressing cells ± SEM (see Supplementary Fig. 4e for
representative images); n, number of cells analyzed from three independent experiments; Mann–Whitney test. g 3D invasion of GFPDN-KASH-expressing
cells in the small pore size gel normalized to invasion of GFPKASHext-expressing cells ± SEM from three independent experiments as in Fig. 1l. n number of
cells analyzed from three independent experiments (see Supplementary Fig. 4f for representative images); Mann–Whitney test. **P < 0.01; ****P < 0.0001;
ns non significant. NATURE COMMUNICATIONS | DOI: 10.1038/s41467-018-04865-7 0°
90°
270°
e
Collagen [37 °C]
H2BGFP/GFPDN-KASH
c: 22
e: 13151
10
5
0.01<P<0.05
Deformed nuclei (%)
0
20
60
100
Ctrl
GM
Ctrl
GM
Ctrl
GM
GFPKASHext
GFPDN-KASH
GFP
c
****
n=
256 166 304 192 223 164
ns
ns
ns
**
0
50
100
150
45
43
n=
g
****
0
50
100
150
576 460
n=
f
**
GFPDN-KASH
GFPKASHext
GFPDN-KASH
GFPKASHext
Collagen degradation
(% GFPKASHext)
3D invasion
(% GFPKASHext)
00:00
00:20
00:59
d
Collagen [37 °C]
H2BGFP + GFPDN-KASH/MT1-MMPmCh
GFPDN-KASH
DAPI/α-tubulin/Pericentrin
GM
Ctrl
a
H2BmCherry/GFPCentrin
10
0
50
100
200
300
Ctrl
GM
Time (min)
b
Fig. 3 Nucleus-centrosome linkage through LINC complex is involved in MT1-MMP endosome polarization and collagenolysis-based invasion. a MDA-MB-
231 cells in 3D collagen I polymerized at 37 °C treated or not with GM MMP inhibitor and stained for α-tubulin (green), centrosomal pericentrin (red) and
nucleus (blue). b Galleries from representative time-lapse sequences of MDA-MB-231 cells expressing H2BmCherry (magenta) and GFPCentrin-1 (yellow)
invading through type I collagen gel as in a. c Morphological analysis of DAPI-stained nuclei as in Fig. 1d. Data are mean % ± SEM from three independent
experiments. (n), number of cells analyzed. P-values of Kruskal–Wallis test as compared to non-treated GFP-expressing cells. d Representative frames of a
movie of MDA-MB-231 cells expressing MT1-MMPmCh (red) and H2BGFP together with GFPDN-KASH (green) invading through the small pore size
collagen gel polymerized at 37 °C (see time-lapse sequence in Supplementary Movie 5). e Rose plots of endosome angular distribution from three
independent experiments as in Fig. 2b. P-value for circular uniformity Rao’s Spacing test is provided. f Pericellular collagenolysis by MDA-MB-231 cells
expressing GFPDN-KASH in 37 °C polymerized gel normalized to mean intensity of GFPKASHext-expressing cells ± SEM (see Supplementary Fig. 4e for
representative images); n, number of cells analyzed from three independent experiments; Mann–Whitney test. g 3D invasion of GFPDN-KASH-expressing
cells in the small pore size gel normalized to invasion of GFPKASHext-expressing cells ± SEM from three independent experiments as in Fig. 1l. n number of
cells analyzed from three independent experiments (see Supplementary Fig. 4f for representative images); Mann–Whitney test. **P < 0.01; ****P < 0.0001;
ns non significant. NATURE COMMUNICATIONS | DOI: 10.1038/s41467-018-04865-7 Centrosome displacement was measured before (pre) and after Laser beam
Pre
Pre
Post
–0.2
0.0
0.2
0.4
0.6
1.4
1.6
Centrosome displacement (μm)
n=18
a
***
Post
Centrosome
position
Microchannel
Nucleus a c
Lis1
Lis1/Nesprin-2 0
50
–50
0
50
–50
Time (s)
Laser
ablation
Laser
ablation
Laser
ablation
2 μm
20 μm
30 μm
0
50
–50
b
H2BmCh/siR-Tubulin
Pre
Pre
Pre
Post
Post
Post b Centrosome displacement (μm) d Lis1
LMNA
siNT
siNesprin2 #10
Lis1
LMNA
d siNT
siLis1 #06
siLis1 #07
0
1
2
Centrosome-nucleus (μm)
**
123
107 123
f
n=
3
siNesprin-2 #09
siNesprin-2 #10
*
**
****
103
107
siNT
siNesp2 #09
siNesp2 #10
siLis1 #06
siLis1 #07
Pericentrin
DAPI siNT
siLis1 #06
siLis1 #07
0
1
2
Centrosome-nucleus (μm)
**
123
107 123
f
n=
3
siNesprin-2 #09
siNesprin-2 #10
*
**
****
103
107
e
Pre
Post
siNT
siNesp2 #09
siNesp2 #10
siLis1 #06
siLis1 #07
Pericentrin
DAPI
0
20
40
60
80
100
Lis1 localization (% of cells)
siNT
n=165 163
175
**** ****
GFPKASHext
GFPDN-KASH
NE + cytoplasm
Cytoplasm
140
145
****
siNesprin-2 #09
siNesprin-2 #10 siNT
siLis1 #06
siLis1 #07
0
1
2
Centrosome-nucleus (μm)
**
123
107 123
f
n=
3
siNesprin-2 #09
siNesprin-2 #10
*
**
****
103
107
e
Pr
Pos
Nucleus
Ce
A
+
g
siNT
siNesp2 #09
siNesp2 #10
siLis1 #06
siLis1 #07
Pericentrin
DAPI
0
20
40
60
80
100
iNT
is1S
% of frames with centrosome
ahead of nucleus
n=55
n=7
***
0
20
40
60
80
100
Lis1 localization (% of cells)
siNT
n=165 163
175
**** ****
GFPKASHext
GFPDN-KASH
NE + cytoplasm
Cytoplasm
140
145
****
siNesprin-2 #09
siNesprin-2 #10 e
P
Po
0
20
40
60
80
100
Lis1 localization (% of cells)
siNT
n=165 163
175
**** ****
GFPKASHext
GFPDN-KASH
NE + cytoplasm
Cytoplasm
140
145
****
siNesprin-2 #09
siNesprin-2 #10 e e Nucleus
Centrosome
Ahead
+
g g Lis1 localization (% of cells) Centrosome-nucleus (μm) 0
20
40
60
80
100
siNT
siLis1S
% of frames with centrosome
ahead of nucleus
n=55
n=77
**** Fig. 4 Lis1 contributes to nucleus-centrosome linkage in MDA-MB-231 cells. a Schematic representation of MDA-MB-231 cell expressing H2BmCherry and
with SiR-tubulin-labeled microtubules migrating through the microfabricated channel. Centrosome displacement was measured before (pre) and after
(post) irradiation with the laser beam (blue dots) focused between the nucleus and the centrosome. NATURE COMMUNICATIONS | DOI: 10.1038/s41467-018-04865-7 siNT
siLis1 #06
siLis1 #07
0
1
2
Centrosome-nucleus (μm)
**
123
107 123
f
n=
3
siNesprin-2 #09
siNesprin-2 #10
*
**
****
103
107
Lis1
LMNA
siNT
siNesprin2 #10
Lis1
Lis1
Lis1
LMNA
c
Lis1
Lis1/Nesprin-2
e
Laser beam
Pre
Pre
Post
–0.2
0.0
0.2
0.4
0.6
1.4
1.6
Centrosome displacement (μm)
n=18
a
***
0
50
–50
0
50
–50
Time (s)
Laser
ablation
Laser
ablation
Laser
ablation
2 μm
20 μm
30 μm
0
50
–50
b
H2BmCh/siR-Tubulin
Post
Centrosome
position
Microchannel
Nucleus
Nucleus
Centrosome
Ahead
+
g
d
siNT
siNesp2 #09
siNesp2 #10
siLis1 #06
siLis1 #07
Pericentrin
DAPI
0
20
40
60
80
100
siNT
siLis1S
% of frames with centrosome
ahead of nucleus
n=55
n=77
****
0
20
40
60
80
100
Lis1 localization (% of cells)
siNT
n=165 163
175
**** ****
GFPKASHext
GFPDN-KASH
NE + cytoplasm
Cytoplasm
140
145
****
siNesprin-2 #09
siNesprin-2 #10
Pre
Pre
Pre
Post
Post
Post
Fig. 4 Lis1 contributes to nucleus-centrosome linkage in MDA-MB-231 cells. a Schematic representation of MDA-MB-231 cell expressing H2BmCherry and
with SiR-tubulin-labeled microtubules migrating through the microfabricated channel. NATURE COMMUNICATIONS | DOI: 10.1038/s41467-018-04865-7 Scale bars=10 µm MDA-MB-231 cells (Supplementary Fig. 4a–c), and correlated
with a ~10-fold increase in centrosome-nucleus distance (Sup-
plementary Fig. 4d)29,30. In contrast, GFPKASHext with a C-
terminal extension preventing binding to SUN did not affect
nesprin association to the NE nor nucleus-centrosome linkage
(Supplementary Fig. 4a–d). Increase in nuclear deformation
during 3D invasion in the 37 °C polymerized gel upon MT1-
MMP inhibition was suppressed when nucleus-centrosome
linkage was loosened by GFPDN-KASH expression but not by
GFPKASHext (Fig. 3c). Moreover, front polarization of MT1-
MMP-positive endosomes was lost upon GFPDN-KASH over-
expression in MDA-MB-231 cells in the small pore size collagen
gel (Fig. 3d, e and Supplementary Movie 5). These effects were
accompanied by a ~50% reduction of pericellular collagenolysis and invasive potential upon GFPDN-KASH overexpression as
compared to GFPKASHext (Fig. 3f, g and Supplementary Fig. 4e,
f). To rule out some global cytoskeletal defects due to perturba-
tion of nucleus-cytoskeletal linkage induced upon DN-KASH
expression,
we
compared
cytoskeletal
changes
induced
by constitutively active Rac1 in cells expressing GFPDN-KASH or
not. Expression of activated MycRac1L61 in MDA-MB-231 cells
induced the archetypical cortactin-positive lamellipodial exten-
sion and cell spreading phenotype (Supplementary Fig. 4g, h). DN-KASH, like the inactive KASHext construct, did not interfere
with Rac1L61-induced effects (Supplementary Fig. 4g, h). Thus
we concluded that interfering with LINC complex function did
not prevent actin filament assembly induced by Rac1 activation at
the cell cortex. All together, these findings suggested that NATURE COMMUNICATIONS | (2018) 9:2443 | DOI: 10.1038/s41467-018-04865-7 | www.nature.com/naturecommunications 6 NATURE COMMUNICATIONS | DOI: 10.1038/s41467-018-04865-7 ARTICLE NATURE COMMUNICATIONS | DOI: 10.1038/s41467-018-04865-7 NATURE COMMUNICATIONS | DOI: 10.1038/s41467-018-04865-7 counterbalancing forces are exerted on the centrosome through
cortically anchored microtubules31–33. We used laser ablation to
probe forces in the nucleus-centrosome axis during confined
migration of MDA-MB-231 cells in microfabricated channels
(Fig. 4a). Centrosome movement was recorded by time-lapse imaging, revealing low-amplitude oscillatory movement (Fig. 4a, b,
pre). NATURE COMMUNICATIONS | DOI: 10.1038/s41467-018-04865-7 Dashed green circles, positions of the centrosome
before laser irradiation; green dot, centrosome position after irradiation. For each cell analyzed (n = 18), the graph shows paired mean centrosome
displacements (in μm) before (pre) and after (post) irradiation; Wilcoxon signed rank test. b Kymographs showing elastic recoil of the centrosome after
laser irradiation (time 0). H2BmCherry-labeled nucleus is shown in red, SiR-tubulin-labeled microtubules and the centrosome are in green. c Lis1 and
Nesprin-2 immunostaining in MDA-MB-231 cells treated with nocodazole. d MDA-MB-231 cells treated or not with nesprin-2 siRNA were treated with
nocodazole and immunostained for Lis1 and LMNA. Insets in c and d represent Lis1 signal of the boxed regions. Arrowheads point at regions of Lis1
association with the NE. e Percentage of cells with Lis1 association with the NE was scored in cells treated with indicated siRNA. n, number of cells analyzed
from three independent experiments; Fisher exact test. f Pericentrin and DAPI immunostaining. Scale bars=5 μm. Mean centrosome-nucleus distance (μm)
in MDA-MB-231 cells in 3D collagen under indicated conditions ± SEM; n, number of cells analyzed from three (siLis1 and siNesprin-2) or two (siLMNA)
independent experiments; Kruskal–Wallis test. g Centrosome position related to the nucleus was scored as schematized from time-lapse sequences of
MDA-MB-231 cells expressing GFPcentrin-1 and H2BmCherry and treated with Lis1 siRNA or with control siNT during invasion through the small pore size
collagen gel. The graph represents the percentage of frames with the centrosome ahead of the front edge of the nucleus for each cell analyzed and the
corresponding Box-and-whisker plot. n, number of cells analyzed from three independent experiments; Mann-–Whitney test. *P < 0.05; **P < 0.01; ***P <
0.001; ****P < 0.0001. Scale bars=10 μm perturbation of LINC complex function and nucleus-centrosome
linkage interfered with front polarization of MT1-MMP storage
compartments and with pericellular collagenolysis during con-
fined migration in 3D. perturbation of LINC complex function and nucleus-centrosome
linkage interfered with front polarization of MT1-MMP storage
compartments and with pericellular collagenolysis during con-
fined migration in 3D. Nesprin-2 and Lis1 mediate nucleo-centrosome attachment. Current models in neuronal cells suggest that nucleus-centrosome
linkage involves interaction of cytoplasmic dynein anchored
at
the
NE
with
centrosome-anchored
microtubules,
while 7 NATURE COMMUNICATIONS | (2018) 9:2443 | DOI: 10.1038/s41467-018-04865-7 | www.nature.com/naturecommunications 7 ARTICLE NATURE COMMUNICATIONS | DOI: 10.1038/s41467-018-04865-7 In addition, when centrosome position was scored
relative to the nucleus based on movies of MDA-MB-231 cells
invading through the small pore size collagen gel polymerized at
37 °C, we found that the centrosome was at ~50% of the time
positioned ahead of the nucleus in control cells in agreement with
data described above (Fig. 4g). Conversely, the centrosome was
only at ~15% of the time positioned in front of the nucleus in cells
knocked down for Lis1 (Fig. 4g). Based on these observations we
concluded that interfering with Lis1 function affected centrosome
positioning in front of the nucleus during confined migration in
the collagen matrix, suggesting a role for Lis1 in nucleus-
centrosome linkage in MDA-MB-231 cells. g
Collagen degradation is mediated by F-actin, Tks5-positive
invadopodia forming at the cell cortex in association with collagen
fibrils, where MT1-MMP accumulates43–47. MDA-MB-231 cells
embedded in a small pore size 3D collagen network formed typical
Tks5-positive structures in association with nucleus-constricting
fibrils and with collagenolysis (Fig. 5d, e, siNT). In contrast, cells
knocked down for nesprin-2 or Lis1 showed reduced accumula-
tion of Tks5 and collagen degradation in front of the nucleus
(Fig. 5e), in agreement with global decrease in collagenolysis
(Fig. 5b). Cortactin- and Tks5-positive structures were also visible
at the ventral surface of MDA-MB-231 cells in contact with a
~5–10 µm thick (2.5D) layer of fibrous collagen polymerized at 37
°C
allowing
quantification
of
invadopodia
formation
(Fig. 5f)46,47. Silencing of Lis1 in MDA-MB-231 or HT-1080 cells
resulted in a strong inhibition of the formation of Tks5-positive
structures (Fig. 5f, g). Total level of Tks5 or MT1-MMP proteins
were not affected by Lis1 silencing (Supplementary Fig. 5e). Endogenous Lis1 protein was silenced and Lis1 levels were
restored by transfection with a cDNA encoding a siRNA-resistant
variant of Lis1GFP (Lis1R#06/GFP, Supplementary Fig. 5f, g). Lis1R#06/GFP rescued assembly of Tks5-positive structures in
knocked down cells similar to control levels arguing for a specific
effect of Lis1 depletion (Supplementary Fig. 5h). Silencing of
Nesprin-2 similarly interfered with formation of Tks5 structures
(Fig. 5g), as did disruption of LINC complex function by DN-
KASH (Fig. 5h). Altogether, our findings indicated that interfering
with LINC complex and Lis1 function in nucleus-centrosome
attachment affects pericellular collagenoysis in association with
cortical cell-matrix contact sites (see model in Fig. 6). Nesprin-2 and Lis1 regulate nucleo-anterior collagenolysis. The
consequences of Lis1 silencing on MT1-MMP-based invasion
were analyzed. NATURE COMMUNICATIONS | DOI: 10.1038/s41467-018-04865-7 5b). In addition, we found that Lis1 depletion
interfered with MT1-MMP endosome polarization ahead of the
nucleus during confined migration in the small pore size collagen
gel (Fig. 5c and Supplementary Movie 6). Endosome polarization
was lost in the large pore size gel irrespective of Lis1 expression
(Fig. 5c). Of note, silencing of Lis1 in MDA-MB-231 cells did not
alter the overall distribution of MT1-MMP endosomes (Supple-
mentary Fig. 5d). In contrast, overexpression of the p50Glued/
dynamitin subunit known to disrupt dynactin complex function
led to a dramatic redistribution of MT1-MMP endosomes to the
cell periphery (Supplementary Fig. 5d)24,42. Therefore, we con-
cluded that Lis1 was unlikely to play a significant role in
microtubule-based traffic of MT1-MMP-containing endosomes
and that it mainly contributed to MT1-MMP-dependent invasion
through the regulation of nucleus/centrosome linkage and cen-
trosome positioning. advancing cell protrusion (Fig. 4a, b, post). All together, these data
supported the existence of tension forces in the nucleus-centrosome
axis during confined migration of MDA-MB-231 cells. Dynein motor and its regulator Lis1, which is essential for
high-load dynein functions, have been implicated in nucleus-
centrosome linkage during neuronal migration34–37. The prevail-
ing model is that SUN-nesprin1/2 complexes mediate nucleo-
centrosome attachment by providing anchors to cytoplasmic
dynein/Lis1 complexes to pull the nucleus toward the centro-
some38. Strong enrichment of Lis1 at the NE has been reported in
different cell types upon nocodazole treatment39–41. Using similar
conditions, we observed partial co-localization of Lis1 and
Nesprin-2 at the NE in MDA-MB-231 cells (Fig. 4c). Lis1 was
also associated with cytoplasmic vesicles (Fig. 4c, d). Interestingly,
Nesprin-2 KD or GFPDN-KASH expression correlated with a
significant reduction of Lis1 association with the NE (Fig. 4d, e). Collectively, these data suggested a contribution of nesprin-2 and
LINC complex to Lis1 association with the NE. These observa-
tions also highlighted a possible function for Lis1 at the NE. Silencing of Lis1 in MDA-MB-231 cells (85-90% depletion by two
independent siRNAs, Supplementary Fig. 5a, b) resulted in a
significant 3-4-fold increase of centrosome-nucleus distance
(Fig. 4f), similar to findings in Lis1-deficient neurons19,34,35. Silencing of Nesprin-2 (Supplementary Fig. 5c) also increased
centrosome-nucleus distance (Fig. 4f), although to a lesser extent
as compared to DN-KASH overexpression (Supplementary
Fig. 4d). NATURE COMMUNICATIONS | DOI: 10.1038/s41467-018-04865-7 Microtubules located between the nucleus and the centrosome
were then ablated by UV laser irradiation; the centrosome under-
went elastic recoil towards the cell leading edge probably due to
unbalanced pulling forces exerted from cortical sites in the g
y
p
p
g
0
Fluorescence (a.u.)
Distance (px)
0
10
50
100
Fluorescence DAPI (a.u.)
200
250
300
350
50
100
200
siNesprin-2 #09
1
0
50
100
200
Fluorescence (a.u.)
Distance (px)
10
50
100
150
0
10
50
100
Fluorescence DAPI (a.u.)
siLIS1 #06
1
0
100
200
3D collagen - Tks5GFP/Col1-3/4C/DAPI
Fluorescence (a.u.)
Distance (px)
50
10
50
100
0
10
50
100
Fluorescence DAPI (a.u.)
siNT
1
siNT
siLIS1 #06
1
136
siNesprin-2
#09
1
155
350
1
e
355
siLIS1 #06
Tks5/Coll I
Cortactin/Tks5
Tks5/Coll I
Cortactin/Tks5
siNT
2.5D collagen - Cortactin/Tks5/Collagen I/DAPI
f
1
2
3
1
2
3
3D collagen [37 °C] - Tks5GFP/Col1-3/4C/Coll I [37 °C]/DAPI
d
Col1-3/4C/Collagen I
Tks5/Collagen I
Tks5/Col1-3/4C
1
2
2
2
2
siNT
siLis1 #06
siLis1 #07
siNesprin-2 #09
siNesprin-2 #10
0
50
100
150
****
****
****
****
****
****
****
****
MDA-MB-231
Tks5+ invadopodia (% of siNT)
HT-1080
200
110
94
109
88
100
107
110
111
96
n=
g
**
GFPKASHext
GFPDN-KASH
0
50
100
150
Tks5+ invadopodia (% of GFPKASHext)
h
50
n=
41
50
100
150
HT-1080
siNT
siLis1 #06
siLis1 #07
0
50
100
150
Collagen degradation (% of siNT)
MDA-MB-231
3272
2372
1547
1797
b
n=
2453
1324
siNesprin-2 #09
siNesprin-2 #10
1333
1382
1551
921
***
***
***
***
***
***
***
*
Invasion speed (μm/min)
ns
0
0.5
1.0
1.5
siNT
siLis1S
n=28
53
25
28
[37 °C]
[20 °C]
siNT
siLis1S
MDA-MB-231
H2BGFP
***
a
0°
180°
90°
270°
5
10
c: 30
e: 16730
Collagen [37 °C]
0°
180°
90°
270°
5
10
c: 74
e: 44137
0°
180°
90°
270°
5
10
c: 31
e: 16378
Collagen [20 °C]
0°
180°
90°
270°
5
10
c: 28
e: 12259
P<0.001
siNT
siNT
siLis1S
siLis1S
P<0.001
P>0.1
P>0.05
MDA-MB-231/H2BGFP/MT1-MMPmCh
c
1
[37 °C]
[20 °C]
NATURE COMMUNICATIONS | (2018) 9:2443 | DOI: 10.1038/s41467-018-04865-7 | www.nature.com/naturecommunications 3D collagen [37
d
Invasion speed (μm/min)
ns
0
0.5
1.0
1.5
siNT
siLis1S
n=28
53
25
28
[37 °C]
[20 °C]
siNT
siLis1S
MDA-MB-231
H2BGFP
***
a
[37 °C]
[20 °C] 0°
180°
90°
270°
5
10
c: 30
e: 16730
Collagen [37 °C]
0°
180°
90°
270°
5
10
c: 74
e: 44137
0°
180°
90°
270°
5
10
c: 31
e: 16378
Collagen [20 °C]
0°
180°
90°
270°
5
10
c: 28
e: 12259
P<0.001
siNT
siNT
siLis1S
siLis1S
P<0.001
P>0.1
P>0.05
MDA-MB-231/H2BGFP/MT1-MMPmCh
c 0°
180°
90°
27
5
10
c: 30
e: 16730
Collagen [37 °C]
0°
180°
90°
27
5
10
c: 74
e: 44137
P<0.001
siNT
siLis1S
P<0.001
MDA-MB-231/H
c a c HT-1080
siNT
siLis1 #06
siLis1 #07
0
50
100
150
Collagen degradation (% of siNT)
MDA-MB-231
3272
2372
1547
1797
b
n=
2453
1324
siNesprin-2 #09
siNesprin-2 #10
1333
1382
1551
921
***
***
***
***
***
***
***
*
Invasion speed (μm/min)
ns
0
0.5
1.0
1.5
siNT
siLis1S
n=28
53
25
28
[37 °C]
[20 °C]
siNT
siLis1S
MDA-MB-231
H2BGFP
***
a
[37 °C]
[20 °C] 70°
70°
0°
180°
90°
270°
5
10
c: 31
e: 16378
Collagen [20 °C]
0°
180°
90°
270°
5
10
c: 28
e: 12259
1
siNT
siLis1S
1
P>0.1
P>0.05
H2BGFP/MT1-MMPmCh HT-1080
siNT
siLis1 #06
siLis1 #07
0
50
100
150
Collagen degradation (% of siNT)
MDA-MB-231
3272
2372
1547
1797
b
n=
2453
1324
siNesprin-2 #09
siNesprin-2 #10
1333
1382
1551
921
***
***
***
***
***
***
***
* b P>0.1 Collagen degradation (% of siNT) 0°
0°
180°
90°
270°
5
10
c: 28
e: 12259
siLis1S
P>0.05 0°
siLis1S c: 28
e: 12259 siLIS1 #06
Tks5/Coll I
Cortactin/Tks5
Tks5/Coll I
Cortactin/Tks5
siNT
2.5D collagen - Cortactin/Tks5/Collagen I/DAPI
f
1
2
3
1
2
3 f 3D collagen [37 °C] - Tks5GFP/Col1-3/4C/Coll I [37 °C]/DAPI
d
Col1-3/4C/Collagen I
Tks5/Collagen I
Tks5/Col1-3/4C
1
2
2
2
2
1 d f 0
Fluorescence (a.u.)
Distance (px)
0
10
50
100
Fluorescence DAPI (a.u.)
200
250
300
350
50
100
200
siNesprin-2 #09
1
0
50
100
200
Fluorescence (a.u.)
Distance (px)
10
50
100
150
0
10
50
100
Fluorescence DAPI (a.u.)
siLIS1 #06
1
0
100
200
3D collagen - Tks5GFP/Col1-3/4C/DAPI
Fluorescence (a.u.)
Distance (px)
50
10
50
100
0
10
50
100
Fluorescence DAPI (a.u.)
siNT
1
NT
LIS1 #06
1
136
Nesprin-2
09
1
155
350
1
355
Cortactin/Tks5
Cortactin/Tks5
3
2
2
2
siNT
siLis1 #06
siLis1 #07
siNesprin-2 #09
siNesprin-2 #10
0
50
100
150
****
****
****
****
****
****
****
****
MDA-MB-231
Tks5+ invadopodia (% of siNT)
HT-1080
200
110
94
109
88
100
107
110
111
96
n=
g
Tks5+ invadopodia (% of GFPKASHext)
h
50
100
150 0
Fluorescence (a.u.)
Distance (px)
0
10
50
100
Fluorescence DAPI (a.u.)
200
250
300
350
50
100
200
siNesprin-2 #09
1
0
50
100
200
Fluorescence (a.u.)
Distance (px)
10
50
100
150
0
10
50
100
Fluorescence DAPI (a.u.)
siLIS1 #06
1
0
100
200
3D collagen - Tks5GFP/Col1-3/4C/DAPI
Fluorescence (a.u.)
Distance (px)
50
10
50
100
0
10
50
100
Fluorescence DAPI (a.u.)
siNT
1
1
1
350
355
50
100
150 e siNT
siLis1 #06
siLis1 #07
siNesprin-2 #09
siNesprin-2 #10
0
50
100
150
****
****
****
****
****
****
****
****
MDA-MB-231
Tks5+ invadopodia (% of siNT)
HT-1080
200
110
94
109
88
100
107
110
111
96
n=
g
***
GFPKASHext
GFPDN-KASH
0
50
100
150
Tks5+ invadopodia (% of GFPKASHext)
h
50
n=
41 ***
GFPKASHext
GFPDN-KASH
0
50
100
150
Tks5+ invadopodia (% of GFPKASHext)
h
50
n=
41 h g Tks5+ invadopodia (% of siNT) NATURE COMMUNICATIONS | (2018) 9:2443 | DOI: 10.1038/s41467-018-04865-7 | www.nature.com/naturecommunications 8 ARTICLE NATURE COMMUNICATIONS | DOI: 10.1038/s41467-018-04865-7 MDA-MB-231 and HT-1080 cells in the confining collagen
environment similar to silencing of LINC complex component
Nesprin-2 (Fig. Fig. 5 Lis1 and LINC complex function is required for invadopodia assembly and activity. a Effect of Lis1 KD on invasion speed of MDA-MB-231 cells
expressing H2BGFP in 3D collagen gels polymerized at 37 °C or 20 °C (as in Fig. 1e). n, number of cells analyzed from three independent experiments. Data
were transformed using the log transformation y = log(y) to make data conform to normality and analyzed using one-way ANOVA test. b Pericellular
collagenolysis (mean Col1-3⁄4C signal per cell normalized to mean intensity of siNT-treated cells ± SEM) by MDA-MB-231 and HT-1080 cells silenced for
Lis1 or Nesprin-2 in collagen polymerized at 37 °C (as in Fig. 1k). n, number of cells analyzed from three independent experiments. Kruskal–Wallis test as
compared to siNT. c Angular distribution of MT1-MMPmCh endosomes in Lis1-depleted cells in 37 °C or 20 °C polymerized collagen gel (as in Fig. 2b). See
Supplementary Movie 6. d Maximal projection of a series of sixteen confocal sections (7.5 μm width) of MDA-MB-231 cells expressing Tks5GFP (green) in
3D collagen gel polymerized at 37 °C (Cyan) stained for cleaved collagen (red) and nucleus (blue). Scale bars, 10 μm. Bottom row, two-by-two channel
combinations corresponding to boxed region #2. Scale bar=5 μm. e MDA-MB-231 cells silenced for Lis1 or nesprin-2 embedded in 3D collagen as in
d, stained for Tks5GFP (green) and cleaved collagen (red). Right row shows intensity profiles of Tks5GFP, Col1-3⁄4C and DAPI maximum intensities along the
long-cell axis (dotted line-enclosed regions). f MDA-MB-231 cells silenced for Lis1 were incubated on a thick fibrous type I collagen layer (cyan).
Invadopodia in association with collagen fibrils are labeled for cortactin (green) and Tks5 (red). Insets, two-by-two channel combinations of boxed regions.
Tks5 is excluded from cortactin-positive lamellipodia (inset #2). Scale bars=10 μm. g Quantification of Tks5 signal in MDA-MB-231 and HT-1080 cells
treated with indicated siRNAs plated on a thick layer of type I collagen. Y-axis indicates ratio of Tks5 area to total cell area normalized to mean value in
siNT-treated cells (as percentage) ± SEM. n, number of cells analyzed from three independent experiments. Kruskal–Wallis test. h Quantification of
Tks5 signal in MDA-MB-231 expressing GFPKASHext or GFPDN-KASH as in panel g from two independent experiments; Mann–Whitney test. *P < 0.05;
***P < 0.001; ****P < 0.0001 Discussion
S
l physical constraints and confinement. Noticeably, a previous
study reported no effect of SUN1 or nesprin-2 KD on invado-
podia formation and function in a melanoma cell line55. This
discrepancy with our data may be related to difference in matrix
environment, i.e., 2D non-fibrillar denatured collagen (gelatin) vs. fibrous native type I collagen in our study with distinct collagenic
receptors contributing to invadopodia formation55–59. Several converging studies revealed that nuclear stiffness and
nuclear deformability are critical factors that limit confined cell
migration through adjacent tissue and basement membrane
transmigration by carcinoma cells1–4,7. In addition, recent reports
have shown that confinement can generate mechanical stress on
the nucleus as exemplified by nuclear deformations and loss of
NE integrity and DNA damage3,17,48,49. Increased nucleus
deformability as a consequence of LMNA down-modulation can
facilitate the migration of cancer cells through small constrictions
in reconstituted 3D matrix environments2–4,8,9. Nucleus migra-
tion through constricted spaces is also central to several devel-
opmental processes50. g
Additional mechanisms of tumor cells have been described that
lead to nuclear deformation through formation of perinuclear
actin- and actomyosin-based structures in association with LINC
complex components including nesprin-family proteins. These
mechanisms enable nucleus squeezing through narrow spaces and
correlate with increased invasiveness and metastatic potential60–
63. In addition, a nuclear piston mechanism based on actomyosin
contractility has been described, which generates high pressure
within the anterior cytoplasmic compartment and enables
migration through the 3D confining matrix64. This mechanism
was recently reported to represent a strategy for nuclear forward
movement through confining 3D environments that could com-
pensate for low MMP activity65. The adaptive MT1-MMP-based
collagenolysis response to confinement that we described here
and the nuclear piston mechanism may represent different
molecular systems consequential to nuclear stiffness and nuclear
forward movement during confined migration. An intriguing
possibility is whether the nuclear piston mechanism may con-
tribute to nucleo-anterior polarization of MT1-MMP compart-
ments. More work will be needed to determine the contribution
and integration of these mechanisms to the metastatic program to
tumor cell plasticity. Future studies should also unravel how these
mechanisms are integrated with and possibly control invadopodia
formation and targeted delivery of MT1-MMP to the cell surface
for dissolution of confining ECM fibrils. p
p
Our findings reveal a novel mechanism in which tumor cells
adapt to the 3D matrix environment based on a digest-on-
demand response to support confined migration in the tissue
matrix. NATURE COMMUNICATIONS | DOI: 10.1038/s41467-018-04865-7 Nucleus-microtubule cytoskeleton linkage
through LINC complex and dynein heavy load factor Lis1 and cortical anchoring of microtubules is required for centrosome and MT1-MMP endosome
positioning and for targeted delivery of MT1-MMP to invadopodia. Nucleus movement is facilitated by localized invadopodia-based pericellular proteolysis
of confining fibrils ahead of the nucleus. Open arrows represent nuclear pulling force and counteracting forces from the matrix. Inset, scheme of nucleus-
cytoskeletal linkage through LINC complex components nesprin and SUN in association with lamins. Lis1, probably in complex with dynein associates to the
NE depending on Nesprin-2 and is involved in nucleus-microtubule linkage Discussion
S
l This mechanism depends on LINC complex-mediated
linkage of the nucleus to the microtubule-centrosome network
and to high-load dynein adaptor Lis1 (see Fig. 6). It is known that
mechanical coupling of the nucleus to the cell cortex through
cytoskeletal elements enables force transmission to the nucleus in
a LINC complex-dependent manner30,51. Our data suggest a
model whereby anchoring of dynein and its regulator Lis1 to the
NE mediated by the LINC complex is involved in generation of
forward nucleus pulling force on the microtubule-centrosome
system19,26,35,52–54. We hypothesize that nucleus forward-pulling
forces generate nuclear deformation due to the resistance opposed
by constricting matrix fibrils during confined cell migration and
that nucleo-cortex linkage may contribute to the assembly of
invadopodial structures at plasma membrane-matrix contact sites
resulting in focal degradation of confining fibrils (Fig. 6). It may
seem paradoxical that interfering with LINC complex or Lis1
function affects invadopodia formation in cells cultured on top of
a 2D collagen layer (see Fig. 5f–h). However, under these con-
ditions we observed some pulling and pushing activities of cells
on the surrounding collagen fibrils, and cells also squeezed
through fibrils, all situations that may lead to some level of NATURE COMMUNICATIONS | DOI: 10.1038/s41467-018-04865-7 Lis1 KD significantly reduced the invasion speed
of MDA-MB-231 cells in the small pore size gel, while it did not
affect invasion in the permissive 20 °C polymerized collagen
environment (Fig. 5a). Correlating with the reduction of invasive
potential in the small pore size collagen gel, depletion of Lis1
resulted in a strong reduction of pericellular collagenolysis by NATURE COMMUNICATIONS | (2018) 9:2443 | DOI: 10.1038/s41467-018-04865-7 | www.nature.com/naturecommunications 9 9 ARTICLE NATURE COMMUNICATIONS | DOI: 10.1038/s41467-018-04865-7 Nucleus
Nucleus
SUN
LMNA
Nesprin
(KASH)
Dynein/Lis1
Dynein/Lis1
Endosome MT1-MMP+
Invadopodia
Microtubules
Centrosome
Cleaved fibrils
ECM fibrils
Fig. 6 Model of LINC complex-, Lis1-dependent nucleus-centrosome linkage control of MT1-MMP matrix digest-on-demand response. Confined migration
of tumor cells through dense 3D collagen network results in nucleus confinement by constricting collagen fibrils. Nucleus-microtubule cytoskeleton linkage
through LINC complex and dynein heavy load factor Lis1 and cortical anchoring of microtubules is required for centrosome and MT1-MMP endosome
positioning and for targeted delivery of MT1-MMP to invadopodia. Nucleus movement is facilitated by localized invadopodia-based pericellular proteolysis
of confining fibrils ahead of the nucleus. Open arrows represent nuclear pulling force and counteracting forces from the matrix. Inset, scheme of nucleus-
cytoskeletal linkage through LINC complex components nesprin and SUN in association with lamins. Lis1, probably in complex with dynein associates to the
NE depending on Nesprin-2 and is involved in nucleus-microtubule linkage Nucleus
Nucleus
SUN
LMNA
Dynein/Lis1
Endosome MT1-MMP+
Invadopodia
Microtubules
Centrosome
Cleaved fibrils
ECM fibrils Fig. 6 Model of LINC complex-, Lis1-dependent nucleus-centrosome linkage control of MT1-MMP matrix digest-on-demand response. Confined migration
of tumor cells through dense 3D collagen network results in nucleus confinement by constricting collagen fibrils. Nucleus-microtubule cytoskeleton linkage
through LINC complex and dynein heavy load factor Lis1 and cortical anchoring of microtubules is required for centrosome and MT1-MMP endosome
positioning and for targeted delivery of MT1-MMP to invadopodia. Nucleus movement is facilitated by localized invadopodia-based pericellular proteolysis
of confining fibrils ahead of the nucleus. Open arrows represent nuclear pulling force and counteracting forces from the matrix. Inset, scheme of nucleus-
cytoskeletal linkage through LINC complex components nesprin and SUN in association with lamins. Lis1, probably in complex with dynein associates to the
NE depending on Nesprin-2 and is involved in nucleus-microtubule linkage Fig. 6 Model of LINC complex-, Lis1-dependent nucleus-centrosome linkage control of MT1-MMP matrix digest-on-demand response. Confined migration
of tumor cells through dense 3D collagen network results in nucleus confinement by constricting collagen fibrils. Methods
Plasmid constructs. Construct expressing Tks5GFP was a kind gift of Dr S.
Courtneidge (OHSU, Portland, OR). Retroviral vector encoding H2BGFP and
GFPLMNA were provided by F. A. Dick (UWO, London, ON, Canada) and T. ARTICLE For
transient expression, MDA-MB-231 cells or HT-1080 cells were transfected with
plasmid constructs using AMAXA nucleofection (Lonza). Cells were analyzed by
live cell imaging 24–48 h after transfection. For knockdown, MDA-MB-231 cells
were treated with the indicated siRNA (50 nM, Dharmacon) using Lullaby (OZ
Biosciences, France) and analyzed after 72 h of transfection. The following siRNAs
were used: siNT (Non Targeting), siLMNA-01: 5′-GGUGGUGACGAUC
UGGGCU-3′; siLMNA-02: 5′-CUGGGCAGGUGGUGACGAU-3′; siMT1-MMPS
(Smartpool): 5′-GGAUGGACACGGAGAAUUU-3′; 5′-GGAAACAAGUACUAC 3D type I collagen invasion assay. 200 μl of 2.0 mg/ml Collagen I was allowed to
polymerize in transwell inserts (Corning) for 2 h at 37 °C as above. Cells were
seeded on top of the collagen gel in complete medium and 20 ng/ml HGF was
added to the medium in the bottom chamber of the transwell as chemoattractant. After 48 h of seeding, cells were fixed and stained with DAPI and visualized by
confocal microscopy with serial optical sections captured at 10-µm intervals with a
×10 objective on a Zeiss LSM510 confocal microscope. Invasion was measured by
dividing the sum of DAPI signal intensity of all slides beyond 30 μm (invading
cells) by the sum of the intensity of all slides (total cells). Antibodies and reagents. The source and working dilution of commercial anti-
bodies used for this study are listed in Supplementary Table 1. Monoclonal anti-
body against Nesprin-2A has been previously described66,67. Nocodazole (Sigma)
was diluted in DMSO and used at a concentration of 10 μM. GM6001 (Millipore)
diluted in ethanol was used at a concentration of 40 μM. Hepatocyte growth factor
(HGF) was purchased from PeproTech Inc. and used at 20 ng/ml. Live-cell imaging in 3D type I collagen. For Inter-fibril distance estimation, a 50
µl drop of 2.0 mg/ml fluorescently-labeled Collagen I was allowed to polymerize for
2 h at 37 °C or 20 °C as described above. Distances between collagen fibrils were
measured from stacks of 30 optical sections acquired at 0.5 μm-interval with a SP8
Leica laser confocal microscope in the xy, xz, and yz planes (15 µm depth) using a
63 × 1.4NA oil objective, 4 detection channels (2 PMTs and 2 hybrid Detectors)
and 405, 488, 561 and 633 nm laser lines. The system was steered by Leica
Application Suite (LAS-X) software. ARTICLE For live cell imaging, glass bottom dishes
(MatTek Corporation) were layered with 10 µl of a solution of 5 mg/ml unlabeled
type I collagen mixed with 1/20-40 volume of Alexa Fluor 647-labeled collagen. Polymerization was induced at 37 °C or 20 °C for 3 min as described above, and the
bottom collagen layer was washed gently in PBS and 1 ml of cell suspension
(1.5–2.5 × 105 cells/ml) in complete medium was added. Cultures were incubated
for 30 min at 37 °C, then medium was gently removed and two drops of a mix of
Alexa Fluor 647-labeled type I collagen/unlabeled type I collagen at 2.0 mg/ml final
concentration were added on top of the cells (top layer). After polymerization at 37
°C or 20 °C for 90 min as described above, 1 ml of medium containing 20 ng/ml
HGF was added to the cultures. z-staks of images were acquired every 5 min (150
ms exposure time) during 16 h by confocal spinning disk microscopy (Roper
Scientific) using a CSU22 Yokogawa head mounted on the lateral port of an
inverted TE-2000U Nikon microscope equipped with a 40 × 1.4NA Plan-Apo
objective lens and a dual-output laser launch, which included 491 nm and 561 nm
50 mW DPSS lasers (Roper Scientific). Images were acquired with a CoolSNAP
HQ2 CCD camera (Roper Scientific). The system was steered by Metamorph
7 software. Western blot analysis. Cells were lysed in SDS sample buffer, separated by
SDS-PAGE, and detected by immunoblotting analysis with the indicated anti-
bodies. Antibodies were visualized using the ECL detection system (GE Healthcare) Indirect immunofluorescence microscopy. Samples were fixed with 4% paraf-
ormaldehyde, permeabilized with 0.1% Triton X-100, and then incubated with
indicated antibodies. For alpha-tubulin staining samples were fixed with 4% par-
aformaldehyde at 37 °C for 30 min. For better visualization of Lis1 association with
the NE, cells were incubated for 1 h in nocodazole (10 μM) prior to fixation35,39–
41,68. The analysis of MT1-MMPmCh endosome position relative to the cell center/
cell periphery axis was performed, as described in ref. 24. Invadopodia formation assay. Coverslips were layered with 200 µl of ice-cold 2.0
mg/ml acidic extracted collagen I solution (Corning) in 1 × MEM mixed with Alexa
Fluor 647-conjugated type I collagen (5% final). The collagen solution was adjusted
to pH7.5 using 0.34 N NaOH and Hepes was added to 25 µM final concentration. ARTICLE NATURE COMMUNICATIONS | DOI: 10.1038/s41467-018-04865-7 Misteli (Addgene #17662), respectively. Lentiviral vector encoding H2BmCh was
from M. Mercola (Addgene #21217). The GFPCentrin-1 plasmid was obtained from
M. Bornens (Institut Curie, Paris, France). pRK5mycRac1L61 was a kind gift of Dr
S. Etienne-Manneville (Institut Pasteur, Paris, France). GFPDN-KASH and
GFPKASHext were generated by inserting the C-terminal domain of Nesprin-2
(corresponding to the last 331 amino acids) into the XhoI–BamHI site of pECFP-
C1 (Takara Bio Inc.). KASHext was derived from the DN-KASH construct by
adding a C-terminal VDGTAGPGSTGSR amino acid extension29. For Lis1 rescue
experiment, LIS1GFP construct was mutagenized to make it resistant to
siLIS1#06 siRNA using the QuikChange Primer Design kit (Agilent) using: forward
primer; 5′-CTCTGCTTCcGAGGATGCTACTATcAAaGTtTGGGAcTACGAGAC
TGGAGATTTTGAA-3′; reverse primer: 5′-AAAATCTCCAGTCTCGTAgTCCC
AaACtTTgATAGTAGCATCCTCgGAAGCAGAG-3′. Quantification of pericellular collagenolysis. Cells treated with indicated siRNAs
and expressing indicated GFP-tagged constructs were trypsinized and resuspended
(2.5 × 105 cells/ml) in 0.2 ml of ice-cold (
)
2.0 mg/ml acidic extracted collagen I solution in 1 × MEM, pH 7.5 buffer. The pH
of the collagen solution was raised to 7.5 using 0.34 N NaOH and Hepes was added
to 25 µM final concentration. 40 µl of the cell suspension in collagen was added on to 25 µM final concentration. 40 µl of the cell suspension in collagen was added on
a 18 mm-diameter glass coverslip and collagen polymerization was induced by
incubation for 90 min at 20 °C or 30 min at 37 °C. After polymerization, complete
medium was added and collagen-embedded cells were incubated for 16 h at 37 °C. After fixation in 4% paraformaldehyde in PBS at 37 °C for 30 min, samples were
incubated with anti–Col1-3/4C antibodies (2.5 µg/ml) for 2 h at 4 °C, washed
extensively with PBS and counterstained with Cy3-conjugated anti-rabbit IgG
antibodies and with Phalloïdin-Alexa488 to visualize cell shape and with DAPI. Image acquisition was performed with an A1r Nikon confocal microscope with a
40 × NA 1.3 oil objective using high-sensitivity GaASP PMT detector and a 595 ±
50 nm band-pass filter. Quantification of degradation spots was performed as
previously described47. Briefly, maximal projection of 10 optical sections with 2 μm
interval from confocal microscope z-stacks (20 µm depth) were preprocessed by a
laplacian of Gaussian filter using a homemade ImageJ macro (available as sup-
plementary information in47). Detected spots were then counted and saved for
visual verification. No manual correction was done. ARTICLE Degradation index was the
number of degradation spots divided by the number of cells present in the field,
normalized to the degradation index of control cells set to 100. Nuclear defor-
mation was visually and qualitatively assessed from maximal projection of 10
optical sections of DAPI signal from confocal microscope z-stacks (20 µm depth)
by scoring nuclei as “normal” or “deformed” using criteria as described in Sup-
plementary Fig. 1a. µ
µ
p
g
a 18 mm-diameter glass coverslip and collagen polymerization was induced by
incubation for 90 min at 20 °C or 30 min at 37 °C. After polymerization, complete
medium was added and collagen-embedded cells were incubated for 16 h at 37 °C. After fixation in 4% paraformaldehyde in PBS at 37 °C for 30 min, samples were
3/4 Cell culture, stable and transient transfection and siRNA treatment. MDA-
MB-231 cells (ATCC HTB-26) were grown in L15 medium supplemented with
15% foetal calf serum and 2 mM glutamine at 37 °C in 1% CO2. HT-1080 fibro-
sarcoma cells (ATCC CCL-121) were grown in DMEM GlutaMAX supplemented
with 10% foetal calf serum. Cell lines were obtained from ATCC and were routinely
tested for mycoplasma contamination. MDA-MB-231 cells stably expressing
H2BGFP/mCh, MT1-MMPmCh or GFPLMNA and MT1-MMPmCh or HT-1080 cells
stably expressing MT1-MMPmCh were generated by lentiviral transduction. For
transient expression, MDA-MB-231 cells or HT-1080 cells were transfected with
plasmid constructs using AMAXA nucleofection (Lonza). Cells were analyzed by
live cell imaging 24–48 h after transfection. For knockdown, MDA-MB-231 cells
were treated with the indicated siRNA (50 nM, Dharmacon) using Lullaby (OZ
Biosciences, France) and analyzed after 72 h of transfection. The following siRNAs
were used: siNT (Non Targeting), siLMNA-01: 5′-GGUGGUGACGAUC
UGGGCU-3′; siLMNA-02: 5′-CUGGGCAGGUGGUGACGAU-3′; siMT1-MMPS
(Smartpool): 5′-GGAUGGACACGGAGAAUUU-3′; 5′-GGAAACAAGUACUAC
CGUU-3′; 5′-GGUCUCAAAUGGCAACAUA-3′; 5′-GAUCAAGGCCAAUGUU
CGA-3′; siLis1S (Smartpool): 5′-CAAUUAAGGUGUGGGAUUA-3′ (siLis1#06);
5′-UGAACUAAAUCGAGCUAUA-3′ (siLis1#07); 5′-GGAGUGCCGUUGAUUG
UGU-3′; 5′-UGACAAGACCCUACGCGUA-3′; siNesprin-2S (Smartpool): 5′AGG
AAUUUCUGCAAACCGA-3′ (siNesprin-2#09); 5′GGUAGAACGUCAACCUCA
A-3′ (siNesprin-2#10); 5′CCUAGAGUGUCGGAGGGAA-3′; 5′CACAGGAGCU
UCACAAUAA-3′. Cell culture, stable and transient transfection and siRNA treatment. MDA-
MB-231 cells (ATCC HTB-26) were grown in L15 medium supplemented with
15% foetal calf serum and 2 mM glutamine at 37 °C in 1% CO2. HT-1080 fibro-
sarcoma cells (ATCC CCL-121) were grown in DMEM GlutaMAX supplemented
with 10% foetal calf serum. Cell lines were obtained from ATCC and were routinely
tested for mycoplasma contamination. MDA-MB-231 cells stably expressing
H2BGFP/mCh, MT1-MMPmCh or GFPLMNA and MT1-MMPmCh or HT-1080 cells
stably expressing MT1-MMPmCh were generated by lentiviral transduction. Methods Plasmid constructs. Construct expressing Tks5GFP was a kind gift of Dr S. Courtneidge (OHSU, Portland, OR). Retroviral vector encoding H2BGFP and
GFPLMNA were provided by F. A. Dick (UWO, London, ON, Canada) and T. NATURE COMMUNICATIONS | (2018) 9:2443 | DOI: 10.1038/s41467-018-04865-7 | www.nature.com/naturecommunications 10 ARTICLE NATURE COMMUNICATIONS | DOI: 10.1038/s41467-018-04865-7 2. Wolf, K. et al. Physical limits of cell migration: control by ECM space and
nuclear deformation and tuning by proteolysis and traction force. J. Cell. Biol. 201, 1069–1084 (2013). were then converted to this nucleus velocity-dependent coordinate system. Endosomes exactly in front of the nucleus in the direction of movement are then at
0° and endosomes exactly at the rear of the displacement vector are at 180°. All data
created for endosomes for all processed nuclei and all movies for one condition
were then pooled to create a polar histogram (radar plot), showing the distribution
of endosomes relative to the direction of nuclear movement. 3. Harada, T. et al. Nuclear lamin stiffness is a barrier to 3D migration, but
softness can limit survival. J. Cell. Biol. 204, 669–682 (2014). 4. Davidson, P. M., Denais, C., Bakshi, M. C. & Lammerding, J. Nuclear
deformability constitutes a rate-limiting step during cell migration in 3-D
environments. Cell Mol. Bioeng. 7, 293–306 (2014). Averaged Col1-3/4C intensity profiles. Col1-3/4C neoepitope (collagen degra-
dation) and DAPI (nucleus) intensity profiles were obtained using the line-scan
function (maximal intensity) of Metamorph analyzing the back-to-front cell region
including the nucleus for both signals (see Fig. 1a, c). Then, we used a homemade
Matlab program (available on demand) to normalize line-scans to correct for line-
scan length difference. Briefly, three reference points were manually defined based
on the DAPI signal profile; the nucleus center and the back and front of the cell,
respectively. These reference points were used to define a linear transformation
such that they became 0, −1, and 1 coordinates, respectively on the normalized
curves, allowing direct comparison of different profiles. 5. Lammerding, J. et al. Lamins A and C but not lamin B1 regulate nuclear
mechanics. J. Biol. Chem. 281, 25768–25780 (2006). 6. Swift, J. et al. Nuclear lamin-A scales with tissue stiffness and enhances
matrix-directed differentiation. Science 341, 1240104 (2013). 7. Fu, Y., Chin, L. K., Bourouina, T., Liu, A. Q. & VanDongen, A. M. Nuclear
deformation during breast cancer cell transmigration. Lab Chip 12, 3774–3778
(2012). 8. Bell, E. S. & Lammerding, J. Causes and consequences of nuclear
envelope alterations in tumour progression. Eur. J. Cell Biol. 95, 449–464
(2016). (
)
9. Irianto, J., Pfeifer, C. R., Ivanovska, I. L., Swift, J. & Discher, D. E. Nuclear
lamins in cancer. Cell Mol. Bioeng. 9, 258–267 (2016). ARTICLE Centrosome-nucleus distance measurement. Cells were embedded in 2.0 mg/ml
type I collagen polymerized at 37 °C as above. After 16 h, cultures were fixed with
4% paraformaldehyde and stained using polyclonal rabbit anti-pericentrin anti-
bodies. Detection was performed with fluorescently-labeled anti-rabbit antibody. DNA was stained with DAPI. Centrosome-to-nucleus distance was determined by
overlaying pericentrin and DAPI images and extending a line from the centrosome
(center of pericentrin staining) to the nearest point of the nucleus rim; length of
this line was measured using ImageJ software tools. 10. Rowe, R. G. & Weiss, S. J. Breaching the basement membrane: who, when and
how? Trends Cell Biol. 18, 560–574 (2008). 11. Sabeh, F., Shimizu-Hirota, R. & Weiss, S. J. Protease-dependent versus
-independent cancer cell invasion programs: three-dimensional amoeboid
movement revisited. J. Cell. Biol. 185, 11–19 (2009). 12. Kessenbrock, K., Plaks, V. & Werb, Z. Matrix metalloproteinases: regulators of
the tumor microenvironment. Cell 141, 52–67 (2010). 13. Perentes, J. Y. et al. Cancer cell-associated MT1-MMP promotes blood vessel
invasion and distant metastasis in triple-negative mammary tumors. Cancer
Res. 71, 4527–4538 (2011). Microfabrication of microchannels. Micro-channels were prepared as previously
described69. Briefly, polydimethylsiloxane (PDMS) (GE Silicones, 10/1 w/w PDMS
A/crosslinker B) was used to prepare 7 µm-wide micro-channels with 2.5 µm
constrictions from a self-made mold. Channels with constrictions were washed
with PBS at least three times and incubated with complete medium for at least 5 h
before adding the cells. 14. Lodillinsky, C. et al. p63/MT1-MMP axis is required for in situ to invasive
transition in basal-like breast cancer. Oncogene 35, 344–357 (2016). 15. Wolf, K. et al. Multi-step pericellular proteolysis controls the transition from
individual to collective cancer cell invasion. Nat. Cell Biol. 9, 893–904 (2007). 16. Doyle, A. D. & Yamada, K. M. Mechanosensing via cell-matrix adhesions in
3D microenvironments. Exp. Cell Res. 343, 60–66 (2016). Laser ablation. MDA-MB-231 cells expressing H2BmCh migrating in PDMS
channels were labeled with 50 mM SiR-tubulin-Cy5 (Spirochrome) in medium
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through the constrictions were selected. Z stacks (4 images, 0.5 µm z-step) images
were acquired at 5 s interval during 75 s (pre-ablation). For photoablation, the 355
nm laser beam was focused to a region of interest selected between the nucleus and
SiR-tubulin-labeled centrosome during a 40–80 ms pulse at 50–80% laser power. ARTICLE The conditions of ablation were monitored by the absence of recovery of SiR-
tubulin signal. Z stacks were acquired as above for 25 s (post-ablation). The cen-
trosome displacement was measured before and after laser ablation over 25 s
periods of time and scored as positive in the direction of cell movement or negative
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18. Castro-Castro, A. et al. Cellular and molecular mechanisms of MT1-MMP-
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(2013). 1.
Rowat, A. C. et al. Nuclear envelope composition determines the ability of
neutrophil-type cells to passage through micron-scale constrictions. J. Biol.
Chem. 288, 8610–8618 (2013). ARTICLE After 3 min of polymerization at 37 °C, the collagen layer was washed gently in PBS
and 1 ml of the cell suspension in L15 medium with 15% FCS (105 cells/ml) was
added. Cells were incubated for 90 min at 37 °C in 1% CO2 before fixation. Cells
were pre-extracted with 0.5% Triton X-100 in 4% paraformaldehyde in PBS during
90 s and then fixed in 4% paraformaldehyde in PBS for 20 min and stained for
immunofluorescence microscopy with Tks5 and Cortactin antibodies. Images were
acquired with a wide-field microscope (Eclipse 90i Upright; Nikon) using a 100 ×
Plan Apo VC 1.4 oil objective and a highly sensitive cooled interlined charge-
coupled device (CCD) camera (CoolSnap HQ2; Roper Scientific). A z-dimension
series of images was taken every 0.2 µm by means of a piezoelectric motor (Physik
Instrumente). For quantification of Tks5 associated with curvilinear invadopodia in
cells plated on collagen fibers, five consecutive z-planes corresponding to the
plasma membrane in contact with collagen fibers were projected and surface
covered by Tks5 signal was determined using the thresholding command of ImageJ
excluding regions <8 pixels to avoid non-invadopodial structures. Surface
covered by Tks5 was normalized to the total cell surface and values normalized
to control cells. Automated tracking of endosome angular distribution. A homemade Matlab
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staining and create a velocity-dependent coordinate system to analyze MT1-MMP
endosomes relative to the direction of displacement of the nucleus. Nuclei were
automatically segmented from maximal z-stack projection of sequential time
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tracked based on the distance from their previous position. From the trajectory of
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each consecutive pair of frames. A new polar coordinate system was defined such
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changing for each time point and was different for each nucleus. Endosomes
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We thank the Nikon Imaging Centre @ Institut Curie-CNRS and Cell and Tissue
Imaging Facility of Institut Curie, member of the France Bio Imaging national research
infrastructure (ANR-10-INBS-04) for help with image acquisition, Drs M. Bornens, S. Courtneidge, S. Etienne-Manneville, A-M Lennon-Duménil, F. Perez, M. Mercola, T. Mistelli, Q. Zhang and R. Vallee for providing reagents for this study and Dr I. Brito for
help with statistical analysis. E.I. was supported by a postdoctoral fellowship from Ligue
Nationale contre le Cancer, P.M. by a fellowship from Fondation ARC pour la Recherche
contre le Cancer, R.F. by a fellowship from Ministère de l’Education Nationale, de
l’Enseignement supérieur et de la Recherche, A.C. by a grant from Worldwide Cancer
Research (Grant 16-1235 to P.C.) and S.A.G. by a grant provided by the program
«Investissements d’Avenir» launched by the French Government and implemented by
Agence Nationale pour la Recherche (ANR) with the reference ANR-10-LBX-0038
(Labex CelTisPhyBio) part of the IDEX PSL (ANR-10-IDEX-0001-02 PSL). Funding for
this work was provided by the program «Investissements d’Avenir» launched by the
French Government and implemented by Agence Nationale pour la Recherche (ANR)
with the reference ANR-10-LBX-0038 (Labex CelTisPhyBio) part of the IDEX PSL
(ANR-10-IDEX-0001-02 PSL) and by grants from Ligue Nationale contre le Cancer
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Attribution 4.0 International License, which permits use, sharing,
adaptation, distribution and reproduction in any medium or format, as long as you give
appropriate credit to the original author(s) and the source, provide a link to the Creative
Commons license, and indicate if changes were made. The images or other third party
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indicated otherwise in a credit line to the material. If material is not included in the
article’s Creative Commons license and your intended use is not permitted by statutory
regulation or exceeds the permitted use, you will need to obtain permission directly from
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USO DO MÉTODO ELECTRE III PARA ESCOLHA DE UMA ESTRATÉGIA DE NAVEGAÇÃO DE BARCOS DE APOIO ÀS UNIDADES MARÍTIMAS
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Simpósio de Pesquisa Operacional e Logística da Marinha - Publicação Online
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USO DO MÉTODO ELECTRE III PARA ESCOLHA DE UMA ESTRATÉGIA DE
NAVEGAÇÃO DE BARCOS DE APOIO ÀS UNIDADES MARÍTIMAS
Pablo Tentempo Steiner
Programa de Engenharia de Produção/Coppe – UFRJ -Rio de Janeiro -RJ
Av. Horácio Macedo, 2030 - Cidade Universitária
pablo.stb@gmail.com
Ayala Liberato Braga
Programa de Engenharia de Produção/Coppe – UFRJ -Rio de Janeiro -RJ
Av. Horácio Macedo, 2030 - Cidade Universitária
ayala.braga@gmail.com
Alexandre Portela de Abreu
Programa de Engenharia de Produção/Coppe – UFRJ -Rio de Janeiro -RJ
Av. Horácio Macedo, 2030 - Cidade Universitária
Alexandre30portela@gmail.com
Igor Girão Peres Vianna
Programa de Engenharia de Produção/Coppe – UFRJ -Rio de Janeiro -RJ
Av. Horácio Macedo, 2030 - Cidade Universitária
igor_gpv@poli.ufrj.br
Tharcisio Cotta Fontainha
Programa de Engenharia de Produção/Coppe – UFRJ -Rio de Janeiro -RJ
Av. Horácio Macedo, 2030 - Cidade Universitária
tharcisio.fontainha@gmail.com Tharcisio Cotta Fontainha
Programa de Engenharia de Produção/Coppe – UFRJ -Rio de Janeiro -RJ
Av. Horácio Macedo, 2030 - Cidade Universitária
tharcisio.fontainha@gmail.com Como Citar: STEINER, P.T.; BRAGA, A.L.; DE ABREU, A.P., VIANNA, I.G.P.; FONTAINHA, T.C. Uso do método electre iii para escolha de uma estratégia de navegação de barcos de apoio às
unidades marítimas. In: SIMPÓSIO DE PESQUISA OPERACIONAL E LOGÍSTICA DA
MARINHA, 19., 2019, Rio de Janeiro, RJ. Anais […]. Rio de Janeiro: Centro de Análises
de Sistemas Navais, 2019. Palavra-chave: ELECTRE III; Logística; Multicritério; Unidades Marítimas; Simulação. Palavra-chave: ELECTRE III; Logística; Multicritério; Unidades Marítimas; Simulação. alavra-chave: ELECTRE III; Logística; Multicritério; Unidades Marítimas; Simulação. ABSTRACT With the growth of the oil sector in the world and Brazil, activities in the offshore
environment show that there is a range of difficulties in logistics operations in this
production environment. Given a large number of variables and data used in the activities
that integrate the entire operational chain in the offshore area, operational research models
can be used to find optimized solutions. For these cases, it is necessary to use a multicriteria
analysis, which can then be considered economic factors, sustainable factors among others. Thus, this work seeks to contribute to the scheduling of three strategies of the selection of
the navigation speed of the fleet of PSVs (Platform Supply Vessels), boats that supply the
demands of the Maritime Units, based on economic, environmental and crew welfare,
analyzed by a multicriteria model. To achieve this goal, a decision support tool called
APOLO was used, which combines a discrete event simulator with a PSVs heuristic for
cargo and marine units allocation. The ELECTRE III model was selected for the
multicriteria analysis, then the relevant indicators for the problem were defined. As a result,
we obtained the third strategy as the winner, presenting the agreement indices and the
preference relations between the navigation strategies. Thus, the results obtained by the
model can contribute to take decisions. The multicriteria method was relevant and applicable
to decision-making processes that involve subjective and quantitative variables. Keywords: ELECTRE III; Logistic; Multicriteria; Maritime Units; Simulation. RESUMO Com o crescimento do setor de petróleo no mundo e no Brasil as atividades em
ambiente offshore mostram que existe uma gama de dificuldades nas operações logísticas
neste meio produtivo. Dada a grande quantidade de variáveis e de dados utilizados nas
atividades que integram toda a cadeia operacional na área offshore podem ser utilizados
modelos de pesquisa operacional a fim de encontrar soluções otimizadas. Para estes casos se
faz necessária o uso de uma análise multicritério, podendo então ser considerados fatores
econômicos, fatores sustentáveis dentre outros. Assim, o trabalho busca contribuir no
ordenamento de três estratégias de seleção da velocidade de navegação da frota de PSVs
(Plataform Supply Vessels) que são barcos que suprem as demandas das Unidades Marítimas
(UMs), baseando-se em critérios econômicos, ambientais e de bem-estar da tripulação,
analisados por um modelo multicritério. Para alcançar este objetivo, foi utilizada uma
ferramenta de apoio à decisão denominada APOLO, que combina um simulador de eventos
discretos com uma heurística de alocação dos PSVs às cargas e às unidades marítimas. Foi
selecionado o modelo ELECTRE III para a realização da análise multicritério e depois foram
definidos os indicadores relevantes para o problema. Como resultado obteve-se a terceira
estratégia como vencedora, apresentando os índices de concordância e as relações de
preferência entre as estratégias de navegação. Deste modo, as informações obtidas pelo
modelo podem contribuir para a tomada de decisão e que realçam a viabilidade do emprego
do método para análise de tal problema. O método multicritério se mostrou relevante e
aplicável a processos de tomada de decisão que envolvam variáveis de caráter subjetivo e 1 quantitativo. recursos e infraestrutura logísticos, que são áreas fundamentais para a sua continuidade
operacional, podendo causar, por exemplo, paradas de produção e atraso no cronograma de
perfuração de determinado poço (ARES, 2013). Nesse contexto, a logística de apoio
offshore, ou apenas logística offshore pode ser dividida em três grandes tipos de operações:
logística de cargas, logística de passageiros e serviços. Para as operações de transporte e abastecimento, que se encontram dentro da
logística de cargas, realizadas para as unidades marítimas (UMs), são utilizadas
embarcações supridoras, chamadas de barcos de apoio ou de PSVs (Plataform Supply
Vessels), sendo um dos elementos mais custosos de cadeia logística offshore. O aumento das operações offshore se não for planejado e bem coordenado, pode
gerar inúmeros problemas econômicos e também sustentáveis como: atrasos nas entregas dos
produtos; maior consumo de combustível por parte da frota e consequentemente maior
emissão de gases poluentes; maiores períodos embarcados da tripulação; dentre outros. Muitos desses problemas são impactados diretamente pela velocidade de navegação do PSV. Dada a importância do setor de E&P, a grande quantidade de variáveis e de dados
utilizados e as atividades que integram toda a cadeia operacional na área offshore, o
planejamento pode se tornar extremamente complexo, sendo necessária a utilização de
modelos de pesquisa operacional a fim de encontrar soluções otimizadas para o
empreendimento. Esta abordagem se faz ainda mais necessária quando se visa avaliar
indicadores, que, a priori, não poderiam ser analisados em conjunto. Para estes casos se faz
necessário o uso de uma análise multicritério de avaliação, podendo então considerar fatores
econômicos e fatores sustentáveis ao mesmo tempo. A principal contribuição deste trabalho é o ordenamento de diferentes estratégias de
seleção da velocidade de navegação da frota, baseando-se em critérios econômicos,
ambientais e de bem-estar, analisados por um modelo multicritério. Para alcançar este objetivo, cabe identificar primeiramente o método de apoio à
decisão mais adequando. Watrobski et al. (2019) discute a existência de diversos métodos,
tais como AHP, ELECTRE I, ELECTRE II, ELECTRE III, PROMETHEE I, PROMETHEE
II, etc, e que sua utilização é indicada de acordo com características do problema, de
precisão/incerteza das variáveis envolvidas, etc. A partir das características do problema,
verifica-se como adequada a utilização uma ferramenta de apoio à decisão, denominada
APOLO e apresentada em Vianna (2019), que combina um simulador de eventos discretos
com uma heurística de alocação dos PSVs às cargas e às unidades marítimas. No que tange o
método de apoio à decisão, é selecionado o modelo ELECTRE III para a realização da
análise multicritério, depois são definidos os indicadores relevantes para o problema, um
para cada um dos critérios propostos. Então são definidas três estratégias de determinação da
velocidade de navegação do PSV. Na sequência deste artigo é apresentada uma revisão sobre a logística offshore e
métodos multicritérios, seguida pela definição do problema estudado. Na seção 4 são
apresentados os experimentos computacionais conduzidos. Encerra o artigo as conclusões e
sugestões de trabalhos futuros. 1.
INTRODUÇÃO O setor de petróleo vem crescendo continuamente no mundo e no Brasil, com um
crescimento de 3,2% na comparação anual. Porém, com o passar dos anos as reservas de
mais fácil exploração foram se esgotando. No atual cenário brasileiro, a grande maioria da
produção atual, 94% do total, e das futuras reservas se encontra em ambiente offshore, sendo
o pré-sal responsável por 40,6% da produção nacional, que é um dos mais complicados de
serem explorados devido as grandes profundidades a serem perfuradas e aos efeitos do mar
na corrosão de equipamentos e tubos e na instabilidade ocasionada pelas ondas (ANP,2017). Além de todos os complicadores mencionados, ainda há uma gama de dificuldades na
logística de operação em grande escala nesse ambiente. Dessa forma, as atividades de Exploração e Produção de Óleo e Gás (E&P) no setor
offshore têm imposto grandes desafios relacionados à área de planejamento e operação de 2 geral (peças de reposição, equipamentos, tubos, etc.), óleo diesel e outros. O suporte
marítimo destaca-se como um elo importante na cadeia logística que garante o nível de
serviço desejado nas operações de suprimento Di Luccio e Dores (2016), sendo vital o
planejamento eficiente da logística para suprimento de material para a exploração e produção
Arpini e Rosa (2015), no qual atrasos ou falhas nas entregas podem acarretar enormes
prejuízos financeiros e ambientais (BRAGA, 2017). Assim, essa logística de apoio vem se tornando uma nova área de conhecimento no
segmento de Óleo e Gás (O&G), onde cada vez mais as empresas de E&P de petróleo
demandam elevados níveis de serviço nas atividades de suporte à operação de exploração e
produção (COSTA, 2015). Para atender essa demanda, Almeida (2002) demonstra que métodos multicritérios
de apoio à decisão se adequam às situações em que nem todos os dados de um determinado
problema prático podem ser facilmente quantificados, por medição ou estimativa e, onde tais
situações frequentes nos processos decisórios das empresas e são geralmente complexos. A
aplicação de métodos Múltiplos Critérios é pertinente em situações em que se necessita da
análise de múltiplos (dois ou mais) critérios, ou múltiplos atributos (MARTINS e COELHO,
2012). Visando entregar esses elevados níveis de serviços se faz necessário também a
utilização de simuladores de eventos para minimizar os erros. Dessa forma, Silva et al. (2015) compararam várias políticas de transporte marítimo, empregando a simulação de
eventos discretos para estimar o dimensionamento da frota e a infraestrutura necessárias para
suprir a demanda de carga. De acordo com Pinto et al. (2015), grandes distâncias no deslocamento e o alto
custo envolvido nessas operações demonstram a importância de se trabalhar com a
otimização do dimensionamento de barcos de apoio marítimo e do roteamento desta frota,
melhorando o nível de serviço. Assim, eles propõem um modelo matemático baseado no
Problema de Roteamento de Veículos Periódicos (PRVP) para elaboração de viagens diárias
de barcos às plataformas offshore, bem como a definição de tamanho e composição da frota
para atender a demanda. Silva et al. (2015) comparam várias políticas de transporte marítimo, empregando a
simulação de eventos discretos para estimar o dimensionamento da frota e a infraestrutura
necessárias para suprir a demanda de carga. Moreira (2017) mostra como é possível unir frotas de navios e carga geral, sem
deteriorar o nível de serviço. Vários cenários são avaliados utilizando-se a simulação de
eventos discretos. 2.
REVISÃO BIBLIOGRÁFICA Aguiar (2013) apresenta as atividades de apoio offshore como as atividades de
transporte e armazenagem de cargas realizadas por embarcações de apoio para realizar
serviços de E&P nas plataformas offshore. Segundo Almeida (2009), as atividades de E&P offshore de petróleo e gás
demandam uma logística muito complexa no suprimento de alimentação, água, cargas em 3 3.1.
DEFINIÇÃO CONCEITUAL As UMs são responsáveis pelas operações de E&P da indústria de petróleo e
necessitam de uma gama grande e variada de cargas, denominadas de carga geral, que
apresentam datas de entrega definidas, elas também produzem cargas que precisam ser
retornadas para terra, as cargas de backload. Além disso, as UMs apresentam demandas por
diesel para combustível e água para suas operações internas, sendo possível que algumas
delas sejam capazes de produzir uma parte da água utilizada para consumo. As demandas e necessidades das UMs são sanadas por uma frota heterogênea de
PSVs, responsável pelo transporte de todas as cargas. Para que seja possível o abastecimento
dos PSVs, é necessário que um porto faça parte da cadeia. O porto apresenta uma limitação
física no número de berços disponíveis para uso e um conjunto de horários restritos,
chamado de cronogramas, nos quais os PSVs podem atracar no porto e realizar suas
operações. Devido ao grande número de UMs e às grandes distâncias até a costa, se faz
necessário que mais de uma UM seja atendida em cada viagem. Em decorrência desse fato,
as UMs são separadas em clusters, sendo a clusterização e o roteamento do sistema pré-
definidos. A frota de PSVs é a maior responsável pelas emissões de poluentes, como o dióxido
de carbono, óxido de nitrogênio, óxido de enxofre e partículas, de todo o setor upstream de
petróleo (NORLUND et al., 2015). Estas emissões são provenientes do consumo de
combustível e das condições dos equipamentos. O principal fator que impacta no consumo de combustível de uma embarcação é a
velocidade de navegação, outros fatores que também têm influência nesse consumo são as
condições meteorológicas, o tipo de embarcação e o peso de navegação. Para este trabalho é
considerado apenas o impacto da velocidade no consumo de diesel. O consumo de combustível e a sua relação com a velocidade de navegação podem
ser aproximados pela relação〖con〗_ij=(B+A*v_ij^n )*t_ij, onde〖con〗_ij é a quantidade de
combustível consumido para fazer o trajeto de i até j, v_ij é a velocidade de navegação do
ponto i ao ponto j, t_ij é o tempo do decorrido para ir do ponto i até o ponto j e B, A e n
parâmetros que dependem do tipo de embarcação e das condições de operação, sendo sempre
B ≥ 0, A > 0 e n ≥ 3, segundo (PSARAFTIS e KONTOVAS 2013). Kisialiou et al. (2018) visam minimizar o número de embarcações e o gasto com
combustíveis ao mesmo tempo que mantém um nível mínimo de serviço. Vianna (2019) analisa diferentes estratégias, entre heurísticas gulosas e modelo de
otimização, de alocação de PSVs às cargas e às unidades marítimas com o auxílio de
simulação de eventos discretos baseados nas operações da Petrobras no litoral do Rio de
Janeiro e de Espírito Santo. Como resultado, uma notável redução dos custos é observada, graças ao
significante corte na frota original de PSVs estimada pelo trabalho. Em Norlund et al. (2015) é analisado como a otimização da velocidade das
embarcações pode reduzir o consumo de combustível e emissões de CO2. Em um trabalho
posterior, Norlund e Gribkovskaia (2017) estendem essa análise em como a programação do
porto pode ser construída visando diminuir o consumo de combustível baseado em diferentes
técnicas de otimização de velocidade das embarcações. Em ambos os trabalhos, a condições
meteorológicas é levada em conta na simulação. Eskandari e Mahmoodi (2016) também utilizam um simulador de eventos discretos
que leva em conta condições ambientais e uma estratégia de otimização baseada em
simulação para achar a composição da frota que minimize o custo total mantendo um nível
de serviço mínimo. Norstad et al. (2017) apresentam um estudo feito para o mar do ártico onde são
simulados vários formatos dos navios e composições de frota respeitando alguns
requerimentos de segurança, preparações emergenciais e indicadores ambientais levando em
conta o impacto do clima nos tempos de navegação e no consumo de combustíveis. 4 4 3.
DEFINIÇÃO DO PROBLEMA Para uma melhor definição do problema, ele é dividido em três partes principa Para uma melhor definição do problema, ele é dividido em três partes principais:
a) Definição conceitual: é apresentada uma definição geral do problema e das etapas
propostas para a solução do mesmo; a) Definição conceitual: é apresentada uma definição geral do problema e das etapas
propostas para a solução do mesmo; p
p
p
ç
;
b) Modelagem da operação offshore: explicita as operações relevantes para este
trabalho; b) Modelagem da operação offshore: explicita as operações relevantes para este
trabalho; c) Modelo multicritério: É apresentado o modelo multicritério a ser utilizado. c) Modelo multicritério: É apresentado o modelo multicritério a ser utilizado. comumente utilizadas, com B = 0 e n = 3 e não dependência do peso da carga. É utilizado o
valor de A = 0,75, como meio de validar o consumo do modelo com os valores reais de
consumo de combustível da frota analisada. A importância cada vez maior de buscar reduções nas emissões de poluentes nas
operações, ao mesmo tempo em que não haja prejuízo no nível do serviço prestado e levando
em conta o bem-estar da tripulação das embarcações, leva a uma necessidade de conciliar
esses três aspectos muito distintos e de difícil comparação. Para que seja possível a avaliação
conjunta destes fatores, é necessária a utilização de ferramentas multicritérios, que sejam
capazes de avaliar todos os indicadores com suas devidas importâncias. Assim, são abordadas três diferentes estratégias para determinar a velocidade de
gação dos PSVs: ç
•
Estratégia 1: a velocidade utilizada segue o padrão observado nas operações da •
Estratégia 1: a velocidade utilizada segue o padrão observado nas operações da
Petrobras nas Bacias de Campos e Espírito Santo; •
Estratégia 1: a velocidade utilizada segue o padrão obse
Petrobras nas Bacias de Campos e Espírito Santo; Petrobras nas Bacias de Campos e Espírito Santo; Petrobras nas Bacias de Campos e Espírito Santo; p
p
•
Estratégia 2: a velocidade de navegação é reduzida em relação a Estratégia 1; e •
Estratégia 3: a velocidade de navegação é aumentada em relação a Estratégia 1. Ao se definir um grupo de estratégias que se quer comparar, é necessário definir os
meios que permitiram que estas comparações sejam realizadas. São utilizados dois métodos
considerados adequados para realizar a comparação: o primeiro é a utilização de um
simulador de eventos discretos, conhecido como APOLO de Vianna (2019), que permite a
implementação de detalhes pormenorizados da operação, embutindo por meios de
distribuições de probabilidade as incertezas inerentes a operação e que são conhecidas; e o
segundo é a utilização do modelo ELECTRE III, que é responsável pela análise multicritério
da operação. Para possibilitar a comparação entre as diferentes estratégias de determinação da
velocidade de embarcação, é necessária a utilização de indicadores que retratem os três
aspectos aqui abordados e que devem ser avaliados pelo método multicritério: Fator econômico: é representado pelo nível de serviço de entrega de carga geral,
que consiste na proporção de pedidos entregues no prazo pelo total de pedidos entregues (no
prazo mais atrasados). Este indicador é de suma importância econômica, pois atrasos nas
entregas dos pedidos podem acarretar paralização das operações nas unidades marítimas,
gerando grandes prejuízos para as empresas envolvidas; Fator sustentável: é caracterizado pelo total de combustível consumido pela frota de
PSVs, já que o mesmo tem ligação direta com a quantidade de poluentes emitidos; e Fator sustentável: é caracterizado pelo total de combustível consumido pela frota de
PSVs, já que o mesmo tem ligação direta com a quantidade de poluentes emitidos; e Fator de bem-estar: é representado pelo tempo total de viagem, ou seja, quanto
tempo é gasto do momento que o PSV sai do fundeio para o porto até o momento que ele
volta para o fundeio. Este período pode ser considerado como sendo de trabalho ininterrupto
da tripulação do PSV, longos períodos de trabalho isolado podem apresentar malefícios para
a tripulação. 3.1.
DEFINIÇÃO CONCEITUAL Psaraftis e Kontovas
(2013) ainda dizem que a maioria dos artigos na literatura assumem uma função cúbica,
por ser uma boa aproximação para o consumo de PSVs nas velocidades operacionais 5 •
Velocidade do PSV: Para o cálculo da velocidade de navegação em cada uma
das etapas da viagem, é levado em conta uma distância crítica, ou seja, quando a
viagem tiver uma distância maior que a crítica, é sorteada a velocidade de 3.3.
MODELO MULTICRITÉRIO Na literatura da decisão, um sistema é muitas vezes definido em termos das
interações existentes entre os elementos que o formam. Segundo Tomlinson e Kiss (1984),
um processo de apoio à tomada de decisão é um sistema aberto. Para adaptar-se a
complexidade do mundo real, é necessária uma simplificação a um modelo quantificável. Assim, a teoria da decisão é a convergência entre as escolhas, as alternativas e as respostas,
referentes a diversos contextos de análise. A análise de problemas multicritério para o
processo decisório passa pela consideração dos modelos referentes às qualidades dos
operadores/atores diretamente envolvidos. Essas qualidades se referem a
transdisciplinaridade e a multidisciplinaridade. Dentre os modelos de apoio a tomada de decisão destacam-se os ELECTRE. Os
modelos ELECTRE (Elimination et Choix Traduisant la Réalité) são um agrupado de
métodos pertencentes à área de Auxílio Multicritério à Tomada de Decisão (AMD). O
modelo ELECTRE III é desenvolvido por Roy (1978). Este modelo incorpora a natureza
imprecisa e incerta na ordenação de alternativas de melhor para pior, utilizando os limiares
de indiferença e preferência. Este modelo é o mais indicado para integrar diferentes variáveis
linguísticas dentro de diferentes alternativas e, ainda, classificar e selecionar a melhor dentre
tais alternativas. navegação a partir de uma determinada distribuição e, por outro lado, quando a
distância for menor que a crítica é sorteada uma velocidade de navegação a
partir de outra distribuição. Para ambas as velocidades há um limite superior e
inferior, que se forem alcançados a velocidade é sorteada novamente; •
Consumo de combustível do PSV: Para cada uma das atividades que o PSV
realizou, há um consumo de combustível relacionado ao tempo que ele realizou
essa tarefa. Os consumos são divididos entre: fundeio; berço; atravessando o
canal; navegando, único caso que o consumo não é fixo, sendo dependente da
velocidade de navegação; e na UM, que engloba o tempo que ele espera na fila
para atracar, o tempo de espera para o começo das operações e o tempo de
operação na UM. Não se considera que o PSV esteja consumindo combustível
enquanto estiver em inoperância. •
Consumo de combustível do PSV: Para cada uma das atividades que o PSV
realizou, há um consumo de combustível relacionado ao tempo que ele realizou
essa tarefa. Os consumos são divididos entre: fundeio; berço; atravessando o
canal; navegando, único caso que o consumo não é fixo, sendo dependente da
velocidade de navegação; e na UM, que engloba o tempo que ele espera na fila
para atracar, o tempo de espera para o começo das operações e o tempo de
operação na UM. Não se considera que o PSV esteja consumindo combustível
enquanto estiver em inoperância. 3.2.
MODELAGEM DA OPERAÇÃO OFFSHORE A operação offshore é composta por uma grande quantidade de etapas, que podem
ser vistas em pormenores em Vianna (2019). Porém, apenas dois destes aspectos da
modelagem são de maior relevância para este trabalho e devem ser detalhados: •
Velocidade do PSV: Para o cálculo da velocidade de navegação em cada uma
das etapas da viagem, é levado em conta uma distância crítica, ou seja, quando a
viagem tiver uma distância maior que a crítica, é sorteada a velocidade de •
Velocidade do PSV: Para o cálculo da velocidade de navegação em cada uma
das etapas da viagem, é levado em conta uma distância crítica, ou seja, quando a
viagem tiver uma distância maior que a crítica, é sorteada a velocidade de 6 6 cj(a,b)= =]0,1[,se gj (a)+ q j [gj (a)]< gj (b)< gj (a)+ p j [gj (a)]
(1)
= 1, se gj (a) + q j [gj (a)] gj (b) cj(a,b)= =]0,1[,se gj (a)+ q j [gj (a)]< gj (b)< gj (a)+ p j [gj (a)]
(1) -Índices de concordância global c(a, b): que expressam a concordância que existe em
se afirmar que a subordinada b, à luz de todos os critérios. kj é o peso associado a cada
critério, obtendo assim a equação (2):
m
j
j
j
m
j
j
k
b
a
c
k
b
a
c
1
1
))
,
(
. (
,
(2)
m
j
j
j
m
j
j
k
b
a
c
k
b
a
c
1
1
))
,
(
. (
, (2) A partir dos índices Gc(a, b), constrói-se uma sucessão de relações de subordinação. Utilizam-se planos de corte k [0,1] e um limite de discriminação s() = ’ ’ k. A fim
de impedir a utilização inadequada da função s() os valores recomendados para os
parâmetros ’ e ’ são, respectivamente, 0 e 0 (o decisor experiente pode alterá-los, se
desejar ). Se D0 o conjunto das melhores alternativas de A. No primeiro passo k=0:
(3) Se D0 o conjunto das melhores alternativas de A. No primeiro passo k=0: (3) (3)
(4) Obtém-se a primeira relação a
1
0
D
S
b se e apenas: Obtém-se a primeira relação a
1
0
D
S
b se e apenas: Gc(a,b)1 e Gc(a,b) Gc(b,a) + ’ ’Gc(a,b) Gc(a,b)1 e Gc(a,b) Gc(b,a) + ’ ’Gc(a,b)
(5) (5) 3.3.1. Breve Descrição do Método ELECTRE III Em relação um conjunto A = {a1, a2, ..., am} de alternativas avaliadas em relação a
uma família de critérios F= {g1, ..., gn}, o método ELECTRE III de Roy (1985) se propõe a
estabelecer uma ordenação de preferência de alternativas. Neste método, a atribuição relativa
dos pesos (importância) dos critérios é considerada de fundamental importância na
modelagem. O método é estruturado em duas etapas: para cada par de alternativas (a, b),
estas relações expressam a intensidade com que se pode afirmar que a subordinada b
(intensidade com que a é ao menos tão boa quanto b). Se gj (a) é o valor de desempenho da
alternativa a à luz do critério j, então calculam-se: - Índices de concordância parcial cj (a, b): que expressam a intensidade com que se
pode afirmar que, sob o critério j, a é ao menos tão boa quanto b. cj (a, b) pode assumir os
valores da equação (1): =0, se gj (a) +p j [gj (a)] gj (b) 7 7 divididas em 23 clusters, o porto possui 6 berços com um total de 46 cronogramas
disponíveis por semana. A Tabela 1 apresenta os resultados dos indicadores para as três estratégias de
velocidade adotadas. Tabela 1 - Resultados das três estratégias. Estratégia
Nível de serviço
Consumo de diesel
(m3)
Tampo de viagem
(dias)
1
86,35%
33673
4,304
2
75,00%
24247
4,629
3
88,20%
39725
4,175
Fonte: Os autores Fonte: Os autores Para a construção dos cenários considera-se os pesos dos critérios econômico,
ambiental e bem-estar da tripulação. As estratégias são as apresentadas em Vianna (2019). A
Tabela 2 apresenta os resultados da matriz de concordância dos cenários um, dois, três e
quatro. No primeiro cenário é dada igualdade de importância aos critérios econômico,
ambiental e bem-estar da tripulação. No segundo cenário é dada maior importância ao
critério econômico. No terceiro cenário é dada maior importância ao critério ambiental. Já no
quarto cenário, é dada maior importância ao critério bem-estar. Para a matriz de concordância não é possível dizer a preferências dentre as
estratégias propostas, pois os índices de concordância são distintos. Neste caso, os valores
muito diferentes entre as duas matrizes revelam forte influência dos índices de discordância,
enfraquecendo a noção de concordância da preferência entre as alternativas. Tabela 2 – Matriz de concordância dos cenários 1, 2, 3 e 4. CENÁRIO 1
ECONÔMICO
AMBIENTAL
BEM-ESTAR
ESTRATÉGIA 1
1,0
0,6
0,3
ESTRATÉGIA 2
0,3
1,0
0,3
ESTRATÉGIA 3
0,6
0,6
1,0
CENÁRIO 2
ECONÔMICO
AMBIENTAL
BEM-ESTAR
ESTRATÉGIA 1
1,0
0,6
0,3
ESTRATÉGIA 2
0,3
1,0
0,3
ESTRATÉGIA 3
0,6
0,6
1,0
CENÁRIO 3
ECONÔMICO
AMBIENTAL
BEM-ESTAR
ESTRATÉGIA 1
1,0
0,6
0,4
ESTRATÉGIA 2
0,4
1,0
0,4
ESTRATÉGIA 3
0,6
0,6
1,0
CENÁRIO 4
ECONÔMICO
AMBIENTAL
BEM-ESTAR
ESTRATÉGIA 1
1.0
0,5
0,5
ESTRATÉGIA 2
0,5
1,0
0,5
ESTRATÉGIA 3
0,5
0,5
1
Fonte: Os autores Tabela 2 – Matriz de concordância dos cenários 1, 2, 3 e 4. CENÁRIO 1 Tabela 2 – Matriz de concordância dos cenários 1, 2, 3 e 4. CENÁRIO 1 A Tabela 3 apresenta os resultados da matriz de preferência dos cenários um, dois,
três e quatro. No cenário 1, a estratégia vencedora é a estratégia 3 tendo preferência de
utilizando os critérios ambiental e bem-estar. No cenário 2, a estratégia vencedora é a
estratégia 3. 4.
RESULTADOS A partir da matriz de subordinação, calculam-se: a eficácia de a (nº de alternativas
que a subordinada), a fraqueza de a (nº de alternativas que subordinam a) e a qualificação de
a (a eficácia de a – a fraqueza de a). Após a qualificação, selecionam-se a(s) melhor(es)
seleção(ões) descendente ou a(s) pior(es) seleção(ões) ascendente, das quais extraem-se as
alternativas restantes. Todos os testes realizados nessa etapa são executados em uma máquina equipada
com Windows Server® Intel® Xeon® CPU E5-2620 v4 @ 2.10GHz com 2 processadores e
256 GB de memória RAM. É utilizado o Python 3.6 para a utilização do simulador APOLO. Para obtenção dos resultados utilizando o ELECTRE III, utiliza-se o software RStudio
versão 3.5.3. Para os resultados iniciais são simuladas no APOLO as três estratégias apresentadas
previamente, com a Estratégia 2 apresentando valores de velocidade 20% menores e a
Estratégia 3 com valores 20% maiores, comparadas a Estratégia 1. O cenário utilizado foi retirado de Vianna (2019), sendo o cenário base das operações
e dos testes feitos, sendo utilizada a Estratégia 3B de alocação com um total de 32 PSVs na
frota. Para todas as estratégias de seleção de velocidade, foram realizadas 30 replicações
com duração de 180 dias de simulação com 90 dias de aquecimento. Neste cenário o espaço
reservado no PSV para o primeiro backload é de 10 unidades, com um total de 90 UMs 8 5.
CONCLUSÃO O presente trabalho contextualiza o crescimento do setor de petróleo no mundo e no
Brasil, indicando que as atividades em ambiente offshore possuem uma gama de dificuldades
nas operações logísticas neste meio produtivo. Dada a grande quantidade de variáveis e de
dados utilizados, nas atividades que integram toda a cadeia operacional na área offshore
podem ser utilizar utilizados modelos de pesquisa operacional a fim de encontrar soluções
otimizadas. Para estes casos se faz necessária o uso de uma análise multicritério, podendo
então serem considerados fatores econômicos, fatores sustentáveis dentre outros. Tabela 3 – Matriz de Preferência dos cenários 1,2, 3 e 4. CENÁRIO 1
ESTRATÉGIA 1
ESTRATÉGIA 2
ESTRATÉGIA 3
ESTRATÉGIA 1
I
P
P
ESTRATÉGIA 2
NP
I
P
ESTRATÉGIA 3
NP
NP
I
CENÁRIO 2
ESTRATÉGIA 1
ESTRATÉGIA 2
ESTRATÉGIA 3
ESTRATÉGIA 1
I
P
P
ESTRATÉGIA 2
NP
I
P
ESTRATÉGIA 3
NP
NP
I
CENÁRIO 3
ESTRATÉGIA 1
ESTRATÉGIA 2
ESTRATÉGIA 3
ESTRATÉGIA 1
I
I
I
ESTRATÉGIA 2
I
I
I
ESTRATÉGIA 3
I
I
I
CENÁRIO 4
ESTRATÉGIA 1
ESTRATÉGIA 2
ESTRATÉGIA 3
ESTRATÉGIA 1
I
I
I
ESTRATÉGIA 2
I
I
I
ESTRATÉGIA 3
I
I
I
Fonte: Os autores Tabela 3 – Matriz de Preferência dos cenários 1,2, 3 e 4. CENÁRIO 1 Tabela 3 – Matriz de Preferência dos cenários 1,2, 3 e 4. Á Fonte: Os autores Assim, o trabalho busca contribuir no ordenamento de três estratégias de seleção da
velocidade de navegação da frota de PSVs (Plataform Supply Vessels) que são barcos que suprem as
demandas das Unidades Marítimas (UMs), baseando-se em critérios econômicos, ambientais e de
bem-estar da tripulação, analisados por um modelo multicritério. Para alcançar este objetivo, é
utilizada uma ferramenta de apoio à decisão, denominada APOLO, que combina um simulador de
eventos discretos com uma heurística de alocação dos PSVs às cargas e às unidades marítimas. É
selecionado o modelo ELECTRE III para a realização da análise multicritério, depois são definidos os
indicadores relevantes para o problema. Como resultado, obtém-se a terceira estratégia como
vencedora, apresentando os índices de concordância e as relações de preferência entre as estratégias
de navegação. Deste modo, as informações obtidas pelo modelo podem contribuir para a tomada de
decisão e que realçam a viabilidade do emprego do método para análise de tal problema. Já para os cenários 3 e 4, não há como determinar qual estratégia será utilizada
pois há indiferença de utilização das três estratégias para os cenários propostos. 9 A seleção de uma estratégia de movimentação de embarcações tipo PSV envolve
muitos critérios, o que normalmente faz com que o decisor tenha dificuldades neste
processo. Deste modo, a presente pesquisa utilizou o Método ELECTRE III para estabelecer
um critério de escolha à luz de um conjunto de critérios (econômico, ambiental e bem-estar). São apresentados, os índices de concordância e as relações de preferência entre as estratégias
de navegação, informações que podem contribuir para a tomada de decisão e que realçam a
viabilidade do emprego do método para análise de tal problema. 1.
REFERÊNCIAS [1]
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Aumento da Capacidade Operacional de uma Base de Apoio Offshore. Dissertação (Mestrado em Engenharia Civil) – Programa de Pós-Graduação em
Engenharia Civil. Universidade Federal do Espírito Santo, Vitória, 2013. [2]
ALMEIDA, M. R. de. Algoritmos Genéticos Aplicados a Programação de
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ALMEIDA, P. P. de. Aplicação do método AHP - Processo Analítico Hierárquico -
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"offshore". Dissertação (mestrado) - Universidade Federal de Santa Catarina, Centro
Tecnológico. Programa de Pós-Graduação em Engenharia de Produção. 2002. [4]
AGÊNCIA NACIONAL DO PETRÓLEO - ANP. Anuário Estatístico 2017. 2017. Rio de Janeiro. Disponível em: <http://www.anp.gov.br/wwwanp/images/publicacoes/
anuario-estatistico/2017/ anuário {_} 2017.pdf.>. Acessado em 15 de abr de 2019. [5]
ARES, G. Logística de apoio offshore - integração e sincronização da cadeia de
atendimento às unidades marítimas. 2013. Disponível em: <http://www.ilos.com.br/
web/logistica-de-apoio-offshore-integracao-e-sincronizacao-da-cadeia-de-
atendimento-as-unidades-maritimas/.eferência>. Acessado em 15 de abr de 2019. [6]
ARPINI, B. P.; ROSA, R. DE A. Planejamento da logística de suprimento de
plataformas Offshore por meio de um modelo matemático 2L-CVRP com frota
heterogênea e equilíbrio náutico. Transportes, v. 23, n.4, p. 67-78. 2015. [7]
BRAGA, A. A. Uma análise de um sistema de transporte de passageiros para
plataformas offshore. Monografia apresentada na Graduação em Engenharia Naval e
Oceânica da Escola Politécnica, Universidade Federal do Rio de Janeiro, Rio de
Janeiro, 2017. [8]
COSTA, P. F. F da. Otimização da logística de operação de navios aliviadores de
petróleo usando programação matemática. Dissertação de mestrado do
Departamento de Engenharia Industrial, Pontifícia Universidade Católica do Rio de
Janeiro, 2015. [9]
DI LUCCIO, F.B.; DORES, P.B.DAS. O mercado de apoio offshore: panorama e
perspectivas. BNDES Setorial, Rio de Janeiro, n.43, p. 295-323, março, 2016. [10] ESKANDARI, H.; MAHMOODI, E. A simulation-based multi-Objective optimization
study of the fleet sizing problem in the offshore industry. Maritime Economics and
Logistics, v.18, p.436–457, 2016. [11] KISIALIOU, Y.; GRIBKOVSKAIA, I.; LAPORTE, G. Robust supply vessel routing
and scheduling. Transportation Research Part C: Emerging Technologies, v.90,
p.366–378, 2018. [12] MARTINS, F.G.; COELHO L.S. Aplicação do método de análise hierárquica do
processo para o planejamento de ordens de manutenção em dutovias. Revista GRPOS,
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CONCLUSÃO O método
multicritério se mostra relevante e aplicável a processos de tomada de decisão que envolvam
variáveis de caráter subjetivo e quantitativo 10 1.
REFERÊNCIAS C. M. Análise de aumento da eficiência do sistema marítimo
offshore de transporte de carga por meio de simulação probabilística. Dissertação 11 As Referências Bibliográficas devem seguir as normas da ABNT/NBR 6023. de Mestrado no Programa de Engenharia de Transportes, Universidade Federal do Rio
de Janeiro, 2017. de Mestrado no Programa de Engenharia de Transportes, Universidade Federal do Rio
de Janeiro, 2017. de Mestrado no Programa de Engenharia de Transportes, Universidade Federal do Rio
de Janeiro, 2017. [14] NORLUND, E.K.; GRIBKOVSKAIA, I.; LAPORTE, G. Supply vessel planning
under cost, environment and robustness considerations. Omega, v. 57, p. 271–281,
2015. [15] NORLUND, E.K.; GRIBKOVSKAIA, I. Environmental performance of speed
optimization strategies in offshore supply vessel planning under weather uncertainty. Transportation Research Part D: Transport and Environment, v. 57, p.10–22,
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E. Simulation-Based Evaluation of Upstream Logistics System Concepts for Offshore
Operations in Remote Areas. ASME 2017 36th International Conference on Ocean,
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in Pre-Salt Basin Fields. Offshore Technology Conference, Rio de Janeiro, Brazil,
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n.1, p. 3-24, 1978. [21] ROY, B. Méthodologie multicritère d’aide à la décision. Paris: Economica. 1985. [22] TOMLINSON, R.; KISS, I. Rethinking the Process of Operational Research and
Systems Analysis. United Kingdom: Pergamon Press, 1984. [23] VIANNA, I. G. P. Análise da alocação de embarcações de apoio offshore com o
uso de heurísticas e simulação de eventos discretos. Dissertação de Mestrado do
Programa de Engenharia de Produção, Universidade Federal do Rio de Janeiro, 2019. [24] WATROBSKI, J.; JANKOWSKI, J.; ZIEMBA, P.; KARCZMARCZYK, A.; ZIOLO,
M. Generalised framework for multi-criteria method selection. Omega, v.86, p. 107-
124, 2019. 12 12
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https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0029306&type=printable
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English
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Conditional Gene Expression in Mycobacterium abscessus
|
PloS one
| 2,011
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cc-by
| 8,676
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Abstract The authors gratefully acknowledge Conseil Re´gional d’Ile de France and INSERM for funding this project. The funders had no role in study design,
data collection and analysis, decision to publish, or preparation of the manuscript. Competing Interests: The authors have declared that no competing interests exist. * E-mail: jean-louis.herrmann@rpc.aphp.fr increased pathogenicity in various in vitro and in vivo models
[13,14,15,16]. With the recent availability of its complete genome
sequence [17], M. abscessus is now a particularly relevant model for
studying pathogenic mechanisms of mycobacterial disease [10]. However, research molecular microbiology and pathophysiology
of diseases caused by M. abscessus has been hampered by the lack of
genetic tools working on this agent, and the absence of knock-out
mutants, with only one described so far from an S isotype [18]. Several genetic tools for mutagenesis by homologous recombina-
tion and conditional gene expression have been extensively
modified and engineered for use in mycobacteria. Two thermo-
sensitive systems [19,20] and a plasmid encoding phage-recombi-
nases [21] were used for homologous recombination. Several
regulated expression systems were developed to control gene
expression in mycobacteria. The first described expression system
was based on the acetamide-inducible promoter of M. smegmatis
[22]. Other systems used for modulating gene expression in M. tuberculosis were based on the TetR repressor [23,24,25] and
revTetR [26,27]. Alternate systems included the Streptomyces
coelicolor pristinamycin I repressor Pip [28], the Rhodococcus
rhodochrous nitrilase repressor NitR [29] and the recently described
TetR/PipOFF double repressor system [30]. Conditional Gene Expression in Mycobacterium
abscessus Me´lanie Cortes1,2, Anil Kumar Singh1,2, Jean-Marc Reyrat1,2{, Jean-Louis Gaillard3, Xavier Nassif1,2, Jean-
Louis Herrmann3* 1 Universite´ Paris Descartes, Faculte´ de me´decine, Paris, France, 2 INSERM (U-1002), Paris, France, 3 EA 3647 Physiopathologie et diagnostic des infections microbiennes,
Universite´ Versailles St Quentin, and Laboratoire de Microbiologie, Hoˆpital Raymond Poincare´, AP-HP, Garches, France Abstract Mycobacterium abscessus is an emerging human pathogen responsible for lung infections, skin and soft-tissue infections and
disseminated infections in immunocompromised patients. It may exist either as a smooth (S) or rough (R) morphotype, the
latter being associated with increased pathogenicity in various models. Genetic tools for homologous recombination and
conditional gene expression are desperately needed to allow the study of M. abscessus virulence. However, descriptions of
knock-out (KO) mutants in M. abscessus are rare, with only one KO mutant from an S strain described so far. Moreover, of the
three major tools developed for homologous recombination in mycobacteria, only the one based on expression of phage
recombinases is working. Several conditional gene expression tools have recently been engineered for Mycobacterium
tuberculosis and Mycobacterium smegmatis, but none have been tested yet in M. abscessus. Based on previous experience with
genetic tools allowing homologous recombination and their failure in M. abscessus, we evaluated the potential interest of
a conditional gene expression approach using a system derived from the two repressors system, TetR/PipOFF. After several
steps necessary to adapt TetR/PipOFF for M. abscessus, we have shown the efficiency of this system for conditional expression of
an essential mycobacterial gene, fadD32. Inhibition of fadD32 was demonstrated for both the S and R isotypes, with marginally
better efficiency for the R isotype. Conditional gene expression using the dedicated TetR/PipOFF system vectors developed here
is effective in S and R M. abscessus, and may constitute an interesting approach for future genetic studies in this pathogen. Citation: Cortes M, Singh AK, Reyrat J-M, Gaillard J-L, Nassif X, et al. (2011) Conditional Gene Expression in Mycobacterium abscessus. PLoS ONE 6(12): e29306. doi:10.1371/journal.pone.0029306 Editor: Olivier Neyrolles, Institut de Pharmacologie et de Biologie Structurale, France Editor: Olivier Neyrolles, Institut de Pharmacologie et de Biologie Structurale, France Received September 12, 2011; Accepted November 24, 2011; Published December 15, 2011 Received September 12, 2011; Accepted November 24, 2011; Published December 15, 2011 Copyright: 2011 Cortes et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits
unrestricted use, distribution, and rep
duction in any medium, provided the original author and source are credited. ro Funding: MC is funded by a postdoctoral grant from DIM Malinf. AKS was funded by Marie-Curie IIF fellowship. This work was supported by grants from Re´gion
Ile-de-France. PLoS ONE | www.plosone.org Citation: Cortes M, Singh AK, Reyrat J-M, Gaillard J-L, Nassif X, et al. (2011) Conditional Gene Expression in Mycobacterium abscessus. PLoS ONE 6(12): e29306.
doi:10.1371/journal.pone.0029306 Functionality of the TetR/PipOFF constructs in M.
abscessus S isotype y
Once the functionality of pMC30A and pMC30B were
confirmed in M. smegmatis as compared to pFRA42A, pMC30A
and pMC30B plasmids were then electroporated in M. abscessus
strain CIP 104536T (S isotype), in addition to pMVlac as a positive
control. b-galactosidase activity was expressed as the ratio of the
activity observed in presence of ATc (100, 200 and 300 ng/ml) to
the
activity
obtained
in
the
absence
of
ATc. Such
ATc
concentrations were well below tetracycline MIC described towards
M. abscessus (range 8 to 128 mg/ml) [31]. This activity was measured
and expressed as a percentage at 24, 48 and 72 h. M. abscessus S
strain had no b-galactosidase activity. b-galactosidase activity in M. abscessus - pMC30A S isotype was decreased by 52% at 24 h, 62% at
48 h and nearly 67% at 72 h in the presence of 100 ng/ml of ATc
as compared to the b-galactosidase activity measured in absence of
ATc. Increasing ATc concentrations had only a slight negative
effect on the b-galactosidase activity in M. abscessus S isotype. b-
galactosidase activity in M. abscessus - pMC30A S isotype was
decreased by 60% fold at 24 h, 72% fold at 48 h and at 72 h at
a concentration of 200 ng/ml of ATc as compared to the b-
galactosidase activity in the absence of ATc. Similar results were
obtained at 300 ng/ml of ATc compared to 200 ng/ml. M. abscessus
- pMVlac S isotype demonstrate of a b-galactosidase activity 8 times
higher compared to M. abscessus - pMC30A S isotype in the absence
of ATc (data not shown), and kept this activity throughout the
experiment (data not shown). Similar results were obtained with
both integrative plasmids pMC30A and pMC30B (Figure 3A). Therefore research into M. abscessus, an emerging virulent
pathogen, is still hampered by the lack of effective genetic tools. For this reason, we have considered the key role of regulated
expression systems for studying mycobacteria pathogenesis, as we
felt it was of outmost importance to test and adapt one of the last
described repressor system in this mycobacterium. Previous
experiments performed on tools for homologous recombination
in our laboratory required us to modify the existing TetR/PipOFF
system and to clone the different promoters in integrative vectors
known to work in M. abscessus. We then studied the efficiency of
the adapted TetR/PipOFF system firstly by controlling lacZ
expression in M. Functionality of the TetR/PipOFF constructs in M.
smegmatis pMC30A, pMC30B, pMVlac plasmids, and the pFRA42A
(kindly provided by Boldrin et al.) [30] were electroporated into M. smegmatis mc2155 strain, to demonstrate their respective function-
ality (Figure S1). As a negative control, M. smegmatis mc2155 strain
was shown to have no b-galactosidase activity (Figure 2). By
comparison,
b-galactosidase
activity
was
obtained
in
each
transformant, with activity ranging from 123, 67 and 71 Miller
units
without
ATc
respectively
for
mc2155-pFRA42A
and
mc2155-pMC30A
or
-pMC30B
respectively
(Figure
2). By
comparison, b-galactosidase activity was high in mc2155-pMVlac,
with 8396228 Miller units in absence of ATc (Figure 2). Similarly,
b-galactosidase activity decreased by 12 and 10-fold respectively in
mc2155-pMC30A and mc2155-pMC30B after 24 h and 42 h of
incubation in presence of ATc (Figure 2). By comparison, the
presence of ATc had no impact on the b-galactosidase activity of Introduction Mycobacterium abscessus is an emerging, rapidly growing mycobac-
terium (RGM) that causes a wide spectrum of disease in humans,
including chronic lung disease, skin and soft tissue disease, meningitis,
meningoencephalitis, and disseminated disease in patients receiving
immunosuppressive therapy [1,2,3]. M. abscessus lung disease is highly
prevalent in patients with cystic fibrosis (CF) and is becoming a major
issue for most CF centres worldwide [4,5,6]. M. abscessus is also
a leading cause of sporadic and epidemic cases of skin and soft-tissue
infections after surgery or following the use of contaminated syringes
and needles [7,8], with reports of several large outbreaks associated
with injection of adrenal cortex extract, abdominoplasty, laparo-
scopic surgeries, mesotherapy, tattooing and piercing [9]. M. abscessus
is one of the most antibiotic-resistant RGM species: it is naturally
resistant to conventional anti-tuberculous drugs and only very few
drugs are potentially active [1,10]. Although a rapid grower, M. abscessus has the ability to induce
a chronic disease associated with granuloma formation and on
occasion caseous lesions [11,12,13]. Moreover, this species may
exist in the form of a smooth (S) or rough (R) isotype, the latter
being associated with more severe disease [4,12], and with 1 December 2011 | Volume 6 | Issue 12 | e29306 PLoS ONE | www.plosone.org Conditional Gene Expression in M. abscessus mc2155-pMVlac, with 781695 Miller units and 864689 Miller
units after 24 h and 42 h of incubation (Figure 2). These genetics tools working on Mycobacterium tuberculosis,
Mycobacterium bovis strain BCG or M. smegmatis are generally
considered to be able to work in virtually all mycobacteria. However, this was recently found not to be the case for M. abscessus
for the tools devoted to mutagenesis by homologous recombina-
tion. Indeed poor results were obtained with the thermosensitive
counterselectable plasmid based on sucrose sensitivity [19] and the
thermosensitive mycobacteriophage [20]. Only the most recently
developed mycobacterial recombinase-based system [21] was used
successfully in M. abscessus [18]. Despite this, the percentage of
recombinants by homologous recombination with a double
crossing-over was very low as compared to M. smegmatis, which
still renders this tool cumbersome for the development of M. abscessus knock-outs [18]. Functionality of the TetR/PipOFF constructs in M.
abscessus S isotype abscessus, and secondly by characterizing its role
as an essential gene of fadD32 in M. abscessus. Our results have
shown the difficulties encountered in adapting existing mycobac-
terial tools for M. abscessus, and we describe for the first time its
success in this mycobacterium and confirmed the efficacy of the
plasmid encoding phage – recombinases in creating recombinant
by single cross-over in M. abscessus. Construction of TetR/PipOFF system vectors for M.
abscessus The same series of experiments were performed using a well-
documented R isotype from M. abscessus CIP 104536T [15]. b-
galactosidase activity in the presence of 100 ng/ml of ATc in M. abscessus - pMC30A R isotype was decreased by 54% at 24 h, and
76% at 48 h and at 72 h which closely corresponded to b-
galactosidase values obtained for the isotype S in the presence of
200 ng/ml of ATc (Figure 3B). In fact, the inhibition of the b-
galactosidase activity in M. abscessus R isotype was slightly more
efficient at low ATc concentrations as compared to the S isotype
(Figure 3B). Increasing the ATc concentrations also increased the
inhibition of b-galactosidase activity as shown by decreased values
observed in the presence of 200 ng/ml or 300 ng/ml of ATc
(Figure 3B). b-galactosidase activity in M. abscessus - pMC30A R
isotype was decreased by nearly 64% at 24 h and 82% at 48 h and
at 72 h respectively as compared to the b-galactosidase activity in
the absence of ATc. Similar results were obtained with both
integrative plasmids pMC30A and pMC30B (Figures 3A and 3B). Future described experiments will be performed using plasmid
pMC30A and an ATc concentration of 200 ng/ml, where we
have obtained satisfactory gene repression. The TetR/PipOFF repressible system was cloned into the
vector pMV306, which is an integrative vector coding for the
kanamycin resistance, and which has demonstrated of its efficiency
in M. abscessus. Two integrative constructs were prepared and
inserted in the M. abscessus genome: pMC30A (lacZ(R);tetR(r);
pip(r)) and pMC30B (lacZ(R);tetR(R);pip(r)) (Table 1 and
Figure 1). To control the potential effect the integrative plasmid
had by itself we also inserted the integrative vector pMVlac
(pMV306 with Pptr-lacZ) described above (Table 1 and Figure 1). Results Construction of TetR/PipOFF system vectors for M. abscessus Construction of fadD32 conditional mutants (fad32c) in
M. abscessus S and R isotypes The results presented above demonstrated that the regulated
TetR/PipOFF system works in M. abscessus S and R isotypes, with
a marginally better efficiency in the R isotype. These results
prompted us to test the ability of the TetR/PipOFF system to
unravel essential genes by creating conditional mutants. fadD32,
a gene involved in fatty acid biosynthesis, was chosen as a test- PLoS ONE | www.plosone.org PLoS ONE | www.plosone.org December 2011 | Volume 6 | Issue 12 | e29306 2 Conditional Gene Expression in M. abscessus Table 1. Strains and plasmids used in this study. Strains or plasmid
Relevant characteristics or sequence
Reference or source
E. coli DH5a
Invitrogen (Paisley, UK)
M. smegmatis mc2155
[38]
M. abscessus S
CIP 104536T ( = ATCC19977T), Smooth
[15]
M. abscessus R
CIP 104536T ( = ATCC19977T), Rough
[15]
M. abscessus S fadD32C
S Pptr-fadD32
This study
M. abscessus R fadD32C
R Pptr-fadD32
This study
pJV53
chec9 genes gp60_61 under the control of the acetamidase promoter
[21]
pBSKIISK (+)
Cloning vector; AmpR
Stratagene
pLYG204.Zeo
Plasmid encoding a ZeoR cassette
[45]
pMV306
KnR, int, attP integrates at attB site on mycobacterial chromosome
[46]
pMVlac
pMV306 containing lacZ under Pptr promoter
This study
pMC30A
pMVlac containing PfurA102tetO-pip and Psmyc-tetR in the same sense
This study
pMC30B
pMVlac containing PfurA102tetO-pip and Psmyc-tetR in the opposite sense
This study
pFRA42A
Psmyc-tetR; PfurA102tetO-pip; Pptr-lacZ; int; SmR
[30]
pFRA61
Psmyc-tetR; PfurA102tetO-pip (Sm)
From R. Manganelli
pFRA50
pSM240 derivative; Pptr; (Hyg)
[30]
pMC14
pFRA50 with ZeoR cassette
This study
pMC18
pMC14 with Pptr-first 953 bp of M. abscessus fadD32
This study
AmpR, ampicillin resistance; HygR, Hygromycin resistance; KnR, kanamycin resistance; ZeoR, zeocin resistance; SmR, Streptomycin resistance. doi:10.1371/journal.pone.0029306.t001 Relevant characteristics or sequence mpicillin resistance; HygR, Hygromycin resistance; KnR, kanamycin resistance; ZeoR, zeocin resistance; SmR, Streptomycin resistance. 371/journal.pone.0029306.t001 and fadV (Table 2) giving the expected fragment of 1700 bp. This
PCR was negative in the wild type strain and on plasmid pMC18 (see
Figure 4B lanes 1–4). Replacements were performed in both S and R
isotypes giving strains S fadD32C and R fadD32C. gene, as it has been reported to be essential in mycobacteria
[28,32]. The fadD32 gene of M. tuberculosis (Rv3801c) has orthologs
in M. smegmatis (MSMEG_6393, Blastp: 76% identities and 87 %
positives) and M. abscessus (MAB_0179, BlastP: 66% identities and
81 % positives). Genomic organization in the fad32 region was
similar in all three mycobacterial species. fadD32C growth characteristics in presence of ATc To create the conditional fadD32 mutant in M. abscessus, we cloned
the 59 region of fadD32 under the control of Pptr giving plasmid pMC18
(Figure 4A). After electroporation and zeocin selection, we checked for
recombinants with a single cross-over in all the clones growing in the
presence of zeocin. Such single cross-over allows replacement of the
wild-type gene under the control of its own promoter by the 59
truncated part of fadD32 under the control of Pptr (Figure 4A). Conditional mutants were searched for by PCR using primers MC77 After transformation of plasmid pMC30A or pMVlac in fadD32C
S and R strains, growth analysis was performed in the presence or
absence of 200 ng/ml of ATc by spotting 5 ml of the liquid cultures
of each conditional mutant and wild type strain (Figure 5A). The
growth of wild type M. abscessus strain (S and R isotype) was similar
with or without ATc (Figure 5A, lane 1 and 5). For S fadD32C and R fadD32C strains containing the plasmid
pMVlac or not, their growth was unchanged in the presence of Figure 1. Schematic representation of plasmids pMVlac, pMC30A and pMC30B. Plasmids are derivative of the empty vector pMV306. In
pMVlac, the Pptr promoter and lacZ was cloned in pMV306. In pMC30A or pMC30B, Psmyc-tetR and PfurA102tetO-pip were cloned in pMVlac in the same
or opposite direction. int: gene coding for an integrase; knR: kanamycin resistance gene; oriE: replication origin in E.coli; attP: site-specific
recombination; lacZ: gene coding for b-galactosidase; pip: gene coding for the protein Pip, a repressor of the Pptr promoter; tetR: gene coding for
TetR, a repressor of the PfurA102tetO promoter in absence of ATc; Psmyc: constitutive promoter; PfurA102tetO: promoter repress by TetR; Pptr: promoter
repress by the protein Pip. doi:10.1371/journal.pone.0029306.g001 Figure 1. Schematic representation of plasmids pMVlac, pMC30A and pMC30B. Plasmids are derivative of the empty vector pMV306. In
pMVlac, the Pptr promoter and lacZ was cloned in pMV306. In pMC30A or pMC30B, Psmyc-tetR and PfurA102tetO-pip were cloned in pMVlac in the same
or opposite direction. fadD32C growth characteristics in presence of ATc int: gene coding for an integrase; knR: kanamycin resistance gene; oriE: replication origin in E.coli; attP: site-specific
recombination; lacZ: gene coding for b-galactosidase; pip: gene coding for the protein Pip, a repressor of the Pptr promoter; tetR: gene coding for
TetR, a repressor of the PfurA102tetO promoter in absence of ATc; Psmyc: constitutive promoter; PfurA102tetO: promoter repress by TetR; Pptr: promoter
repress by the protein Pip. doi:10.1371/journal.pone.0029306.g001 December 2011 | Volume 6 | Issue 12 | e29306 PLoS ONE | www.plosone.org 3 Conditional Gene Expression in M. abscessus Figure 2. Assays with vectors pMC30A and pMC30B containing TetR/Pip OFF system in M. smegmatis. mc2155 and mc2155- pMVlac, -
pFRA42A, -pMC30A and pMC30B were cultured in Luria-Bertani broth, and their respective b-Galactosidase activity was measured at 0 h, 24 h and
42 h in presence of 50 ng/ml ATc. Results were expressed in Miller units. mc2155 with or without pFRA42A serve as negative and positive control
respectively. doi:10.1371/journal.pone.0029306.g002
Conditional Gene Expression in M. abscessus Figure 2. Assays with vectors pMC30A and pMC30B containing TetR/Pip OFF system in M. smegmatis. mc2155 and mc2155- pMVlac, -
pFRA42A, -pMC30A and pMC30B were cultured in Luria-Bertani broth, and their respective b-Galactosidase activity was measured at 0 h, 24 h and
42 h in presence of 50 ng/ml ATc. Results were expressed in Miller units. mc2155 with or without pFRA42A serve as negative and positive control
respectively. doi:10.1371/journal.pone.0029306.g002 200 ng/ml ATc, demonstrating the correct control of fadD32 by
the Pptr promoter (Figure 5A, lane 2, 3, 6 and 7). own promoter. When the TetR/PipOFF system was introduced
(via pMC30A) into this construct, the expression of fadD32 was
decreased but was still higher than in the wild type strain. In the
presence of 200 ng/ml of ATc, qRT-PCR confirmed the total
absence of fadD32 mRNA and by so the inhibitory activity linked
to the TetR/PipOFF system. Similar results were obtained in the
R strain (Figure 6B). p
Strains S fadD32C-pMC30A and R fadD32C-pMC30A growth
were similar as the wild type strain growth in absence of ATc. Reduction of growth was observed in presence of 200 ng/ml ATc
for the S fadD32C-pMC30A as shown by the absence of colonies
after spotting 5 ml at dilutions 1022 and 1023 respectively
(Figure 5A, lane 4). fadD32C growth characteristics in presence of ATc The absence of growth was observed for the
R fadD32C-pMC30A, as shown by the non-existence of any
colonies from pure and 1021 dilution (figure 5A, lane 8). Such
results confirmed the inhibitory role of Pip towards Pptr promoter
in presence of ATc. These experiments demonstrate the inability
of M. abscessus fad32C to grow in the presence of ATc,
demonstrating its essential role in M. abscessus. In conclusion, these experiments have demonstrated for the first
time the functionality of the TetR/PipOFF regulated system in M. abscessus on lacZ and fadD32 genes. We have confirmed that fadD32
is also an essential gene in M. abscessus. PLoS ONE | www.plosone.org Conditional Gene Expression in M. abscessus December 2011 | Volume 6 | Issue 12 | e29306 Discussion Ever since the recognition recently in 1992 of M. abscessus as
a species, the number of clinical reports of infections due to M. abscessus has increased annually, mainly but not exclusively
affecting
subjects
with
predisposing
conditions
(e.g.,
Cystic
Fibrosis, or those receiving immunosuppressive therapy). Aside
from its role as an emerging pathogen, M. abscessus may function
as a suitable surrogate host for the study of mycobacterial
infections in general. Like M. smegmatis, it grows rapidly on
conventional culture media and is a level 2 pathogen. However, it
shares a number of traits with slow-growing mycobacterial
pathogens, such as the formation of caseous lesions [13] and the
ability to persist silently for decades in the human host [10]. Several relevant in vivo and ex vivo models of infections have
already been developed [13,14,15,33] and its complete genome
sequence is now available [17]. Growth with or without ATc was also controlled in liquid
culture. Diluted liquid culture aliquots of S fadD32C-pMC30A and
R fadD32C-pMC30A were separated into two cultures: one
without ATc and one with 200 ng/ml ATc. After 48 h, OD600nm
was measured and CFU counts were numbered on LB agar plates
(Figure 5B). CFU counts showed that S fadD32C-pMC30A and R
fadD32C-pMC30A growths were decreased, in the presence of
ATc, by 93 and 99% of the values of the initial inocula respectively
(Figure 5B). Optical density values at 600 nm were similar, with or
without ATc, for both S/R fadD32C-pMC30A variants (data not
shown). These results were in agreement with data obtained on
solid medium. To confirm these results, the expression level of fadD32 was
measured by quantitative RT-PCR (qRT-PCR) in both fadD32C
strains after 48 h with or without 200 ng/ml ATc. As shown in
figure 6A, when fadD32 was positioned under the Pptr promoter
(strain S fadD32C), its expression was 5-fold higher than with its However, a true understanding of the genetics of M. abscessus is
still in its infancy with only one KO mutant described so far [18]. M. abscessus is indeed one of the most resistant of the mycobacteria, December 2011 | Volume 6 | Issue 12 | e29306 December 2011 | Volume 6 | Issue 12 | e29306 4 Conditional Gene Expression in M. abscessus Conditional Gene Expression in M. Discussion abscessus was associated with the loss of a surface molecule
named glycopeptidolipid (GPL) [13,15,33,37]. The difference
between the S and R strains of M. abscessus might thus be due to
changes of surface properties and the degree of permeability from
the
loss
of
GPL. However,
nothing
is
known
regarding
comparative MICs towards ATc for both isotypes. In addition,
the induction of efflux systems was demonstrated to be responsible
for the lower efficiency of ATc used at high concentrations [25]. Having taken into account all of these mycobacterial properties,
we decided to test the recently developed TetR/PipOFF system,
which has previously proven to be extremely useful in the
detection and study of conditional mutants in M. tuberculosis and M. smegmatis [30,35]. The TetR/PipOFF system allows repression to
be achieved by the addition of ATc rather than its removal from
the culture medium. The ATc based induction of the Pip-encoding
gene permits a tight repression of the gene under investigation
[30]. Several steps were necessary to adapt the TetR/PipOFF
system to M. abscessus. Firstly, it was necessary to use different and
integrative vectors coding for the zeocin resistance. This resistance
marker was shown to be more efficient than the kanamycin
resistance marker, by selecting far fewer spontaneous antibiotic-
resistant mutants [18], and was used at a concentration of less than
50 mg/ml. The second step was to achieve a recombination event,
by single cross-over. We firstly electroporated the recently
developed mycobacterial recombinase-based system pJV53 [21]
in M. abscessus S and R isotypes. Plasmid pMC18 was then
electroporated in both S and R isotypes – pJV53 and integration
by single cross-over was checked by amplification. The success of Several leads might enable us to improve the adapted TetR/
PipOFF system, for example by isolating highly efficient M. abscessus strains for electroporation, as described several years ago
for M. smegmatis with the isolation of the mc2155 strain [38]. R
strains form aggregates and tend to stick to plastic surfaces, which
hampered electroporation efficiency. The other improvement Figure 4. Construction of conditional mutants. (A) Schematic representation of the recombination event used to get the conditional mutant
fadD32C after a single crossover. The size of PCR product using primers MC77 and fadV is 1700 bp. (B) PCR analysis of construction obtaining for
conditional mutant. Lane 1, 2, 3 and 4: PCR with primer MC77 and fadV. Discussion abscessus does not grow above 39uC (the temperature for its
optimal growth being 28uC), rendering the 40uC counterselection
impossible. Finally, its S to R switch may modify the permeability
of the outer layer, and the presence of a DNA degradation locus
[34], a full plasmid and a complete phage [17] might restrict the
efficiency of foreign DNA integration and/or recombination into
the chromosome, either by DNA degradation or incompatibility. with a high frequency of spontaneous antibiotic-resistant clones
when selecting for recombinants, which has hampered the use of
common resistance markers. In addition, its metabolism and the
optimal temperature for growth may differ between M. abscessus
and other mycobacterial species. For example, the absence of
a sucrose import system in M. abscessus would explain the lack of
toxicity in the presence of sucrose; even if the sacB gene is
expressed. This makes the thermosensitive counterselectable
plasmid based on sucrose sensitivity inefficient [19]. In addition,
M. abscessus does not grow above 39uC (the temperature for its
optimal growth being 28uC), rendering the 40uC counterselection
impossible. Finally, its S to R switch may modify the permeability
of the outer layer, and the presence of a DNA degradation locus
[34], a full plasmid and a complete phage [17] might restrict the
efficiency of foreign DNA integration and/or recombination into
the chromosome, either by DNA degradation or incompatibility. However if gene expression can be dramatically reduced in M. smegmatis and M. tuberculosis with 50 ng/ml and 200 ng/ml of ATc
respectively ([30] and our study), we were unable to obtain
a
similar
reduction
in
M. abscessus,
even
at
the
highest
concentration of ATc (200 ng/ml). Previous studies have shown
that the MIC for tetracycline is low in M. smegmatis, but higher in
M. tuberculosis,
thus
explaining
the
use
of
a
higher
ATc
concentration to induce the TetR repression in M. tuberculosis
[25]. Less is known about resistance of M. abscessus towards
tetracycline. Several studies have previously shown that M. abscessus possesses a number of resistance determinants, which
makes this bacterium more resistant than M. smegmatis or M. tuberculosis towards ATc [36]. We have also identified a difference
between S and R strains, the R isotype showing a higher level of
lacZ repression for similar ATc concentrations, compared to S
strain. A number of recent studies have shown that the S/R switch
in M. Discussion absces
PLoS ONE | www.plosone.org
5
December 2011 | Volume 6 | Issue 12 | e293 PLoS ONE | www.plosone.org
5
December 2011 | Volume 6 | Issue 12 | e2 December 2011 | Volume 6 | Issue 12 | e29306 PLoS ONE | www.plosone.org PLoS ONE | www.plosone.org Conditional Gene Expression in M. abscessus Conditional Gene Expression in M. abscessus Figure 3. Characterization of the TetR/Pip OFF system in M. abscessus. M. abscessus S (A) and R (B) strains with pMC30A or pMC30B were
grown in Luria-Bertani broth and b-Galactosidase activity was measured in absence or in presence of 100, 200 or 300 ng/ml ATc at three time points
(24, 48 and 72 h). b-Galactosidase activity was expressed as the percentage of the residual activity in presence of ATc to the normal activity observed
in absence of ATc. Black bars 24 h; grey bars: 48 h; white bars: 72 h. doi:10.1371/journal.pone.0029306.g003 Figure 3. Characterization of the TetR/Pip OFF system in M. abscessus. M. abscessus S (A) and R (B) strains with pMC30A or pMC30B were
grown in Luria-Bertani broth and b-Galactosidase activity was measured in absence or in presence of 100, 200 or 300 ng/ml ATc at three time points
(24, 48 and 72 h). b-Galactosidase activity was expressed as the percentage of the residual activity in presence of ATc to the normal activity observed
in absence of ATc. Black bars 24 h; grey bars: 48 h; white bars: 72 h. doi:10.1371/journal.pone.0029306.g003 this gene replacement, which represents only the second published
description so far in M. abscessus, has allowed us to demonstrate,
once again, the efficacy of pJV53 and its recombinases in both
isotypes. Finally, lacZ as a simple marker of expression, and fadD32
as
an
example
of
an
essential
gene
have
confirmed
the
functionality of the adapted TetR/PipOFF in M. abscessus. with a high frequency of spontaneous antibiotic-resistant clones
when selecting for recombinants, which has hampered the use of
common resistance markers. In addition, its metabolism and the
optimal temperature for growth may differ between M. abscessus
and other mycobacterial species. For example, the absence of
a sucrose import system in M. abscessus would explain the lack of
toxicity in the presence of sucrose; even if the sacB gene is
expressed. This makes the thermosensitive counterselectable
plasmid based on sucrose sensitivity inefficient [19]. In addition,
M. Plasmids construction Restriction endonucleases and modification enzymes (phospha-
tase and Klenow fragment) (New England Biolabs, Ipswich, UK)
were used according to the manufacturer’s instructions. PCRs
were performed using 1 U DyNazyme DNA polymerase (Finn-
zymes, Espoo, Finland) in 1X buffer, 200 mM concentration of
each deoxynucleoside triphosphate (MP biomedicals, Illkirch,
France), 0.8 mM concentration of each primer (Eurogentec,
Seraing, Belgium), and 10 ng of chromosomal DNA in a 50-ml
reaction volume. Cycling conditions were as follows: 1 cycle of
5 min at 94uC; 30 cycles of 20 s at 94uC, 20 s at 55uC, and 40 s/
kb at 72uC; with a final extension of 10 min at 72uC. PCR
products were separated in 1% agarose gels for 1 h at 10 V/cm of
gel. DNA fragments were purified from agarose gel by use of
a WizardH SV gel and PCR Clean-Up system (Promega, Madison,
WI, USA). E. coli DH5a strain (Invitrogen, Paisley, UK) was used
for cloning experiments. doi:10.1371/journal.pone.0029306.t002 might be the counter selective marker. One recently developed
antibiotic, Nourtheothricin (http://www.webioage.com/) (Jun-
Rong Wei and Eric Rubin, personal communication) was shown
to be active against M. abscessus, and might represent only the
second efficient counterselective agent to be developed for use as
a genetic tool for M. abscessus. This further demonstrates the
difficulties encountered when working on M. abscessus, and
henceforth might impede the development of genetic tools
dedicated to this species. Plasmid pMVlac was constructed starting with the restriction of
pMV306 plasmid by EcoRV followed by the ligation with the PCR
product Pptr-lacZ purified after amplification using primers MC77
and lacZ-3 using plasmid pFRA42A as target (Figure 1 and S2 and
Table 1 and 2). Plasmid pMC30A (Figure 1 and S2) was
constructed as a derivative of pMVlac after restriction by NcoI
followed by ligation of the restricted fragments PfurA102tetO-pip and
Psmyc-tetR both purified after SphI-EcoRI digestion of pFRA61
plasmid (Table 1). Plasmid pMC30B (Figure 1 and S2) represents
the opposite of pMC30A with PfurA102tetO-pip and Psmyc-tetR ligated
in opposite orientation in the NcoI site of pMV306 plasmid
(Table 1). Using the TetR/PipOFF system, we have demonstrated the
essential role of the fadD32 in M. abscessus. Although predictable -
fadD32 does plays an important role in the formation of the outer
membrane and in cell-wall permeability [39] making it essential
for M. tuberculosis and M. Construction of conditional mutants in M. abscessus Plasmid pMC18 (Table 1), which contains the first 953 bases of
fadD32 (MAB_0179) under the control of the Pptr promoter, was
electroporated into M. abscessus strain bearing pJV53 (Table 1). After a single cross-over event, pMC18 was integrated into the
chromosome giving the entire fad32 gene under the control of Pptr
promoter and a deleted part of fad32 gene under the control its
own promoter (strain fadD32C, see Table 1). M. abscessus
recombinants were isolated afterwards on LB agar plates after
zeocin selection (50 mg/ml). Plasmid pMC18 integration by single
cross-over was checked by amplification using primers MC77 (on
Pptr promoter) and fadV (on 39end of fadD32) (Table 2). After
elimination of plasmid pJV53, plasmids pMC30A and pMC30B
(Table 1) were electroporated to obtain the final conditional
mutant fad32. After kanamycin (50 mg/ml) and X-gal (50 mg/ml)
selection on LB agar, strains S or R fadD32C-pMC30A or –
pMC30B were obtained. Transformation with pMVlac (Table 1)
was performed (strains S or R fadD32C-pMVlac) to control for
functionality of the plasmid without the two regulatory genes pip
and tetR. Conditional Gene Expression in M. abscessus Conditional Gene Expression in M. abscessus Table 2. Primers used in this study. Primer Name
Sequence
fadF
cgatgcatgcgttcgacaacccgttc
fadR
cgatgcatattgatgatcgagtggatgt
fadV
cggtgtattcgatgtcttg
lacZ-3
ttattattatttttgacaccagac
MC77
cgcatatgagatctccatcctgacgg
ZeoF
ccgctagctcgagcac
ZeoR
cgactagtgatccccgggaattc
MC82
agcgtgagctgctacaggac
MC83
tggatttccagcaccttctc
MC84
acatcgaatacaccgcacaa
MC85
ggattgtcgaaaaccacctg
doi:10.1371/journal.pone.0029306.t002 abscessus. This plasmid is used to induce the crossing-over as
described previously [10]. After several sub-cultures in the absence
of a selective marker, the pJV53 plasmid can be lost by the strain,
as checked by kanamycin sensitivity. Table 2. Primers used in this study. Materials and Methods Bacterial strains, transformation condition and growth
conditions Plasmids construction smegmatis [32] - this result nonetheless
proves the functionality of the adapted TetR/PipOFF system in
M. abscessus. This will permit further investigation of candidate
genes, such as those identified recently using a transcriptomic
approach to unravel the molecular mechanisms of the S/R switch
(Herrmann et al., unpublished, and [16]). Indeed, while we know
that the S/R switch is essential for M. abscessus to modulate the
innate immune response of the host [13,16], nothing is currently
known about the precise mechanisms involved. The development
of the TetR/PipOFF system may also allow the characterization of
the respective roles of candidate virulence genes recently identified
in the M. abscessus genome [17]. Zeocin, as a selective marker, was inserted by amplification with
primers ZeoF and ZeoR from the plasmid pLYG204-Zeo, then
restricted by SpeI and ligated into the plasmid pFRA50 previously
restricted by SpeI and purified, to create pMC14 (Table 1). 953 bp
of the 59 end of fadD32 (MAB_0179) was amplified using primers
fadF and fadR (Table 2) and then cloned into the NsiI site of
pMC14 which is located downstream of the Pptr promoter giving
plasmid pMC18 (Table 1 and Figure S1). Discussion Lane 1: CIP-S fadD32C; lane 2: CIP-R fadD32C; lane 3: CIP-S; lane 4: pMC18; lane
MW: molecular size standard. doi:10.1371/journal.pone.0029306.g004 Figure 4. Construction of conditional mutants. (A) Schematic representation of the recombination event used to get the conditional mutant
fadD32C after a single crossover. The size of PCR product using primers MC77 and fadV is 1700 bp. (B) PCR analysis of construction obtaining for
conditional mutant. Lane 1, 2, 3 and 4: PCR with primer MC77 and fadV. Lane 1: CIP-S fadD32C; lane 2: CIP-R fadD32C; lane 3: CIP-S; lane 4: pMC18; lane
MW: molecular size standard. doi:10.1371/journal.pone.0029306.g004 December 2011 | Volume 6 | Issue 12 | e29306 December 2011 | Volume 6 | Issue 12 | e29306 PLoS ONE | www.plosone.org 6 Figure 5. Characterization of growth for conditional mutants in M. abscessus. (A) Bacteria were grown to exponential phase and 5 ml of 10-
fold serial dilutions were spotted onto LB agar medium supplemented or not with ATc 200 ng/ml. Plates were incubated at 37uC. Pictures were taken
after five days. Arrows indicate the difference of growth in presence or absence of ATc. (B) Diluted liquid culture of S fadD32C-pMC30A and R fadD32C-
pMC30A were separated in two cultures (one without ATc and one with 200 ng/ml ATc). After 48 h, cfu was numbered on LB agar plates. Results are
expressed in percentage of growth in comparison with the same strain culture without ATc. doi:10.1371/journal.pone.0029306.g005 Figure 5. Characterization of growth for conditional mutants in M. abscessus. (A) Bacteria were grown to exponential phase and 5 ml of 10-
fold serial dilutions were spotted onto LB agar medium supplemented or not with ATc 200 ng/ml. Plates were incubated at 37uC. Pictures were taken
after five days. Arrows indicate the difference of growth in presence or absence of ATc. (B) Diluted liquid culture of S fadD32C-pMC30A and R fadD32C-
pMC30A were separated in two cultures (one without ATc and one with 200 ng/ml ATc). After 48 h, cfu was numbered on LB agar plates. Results are
expressed in percentage of growth in comparison with the same strain culture without ATc. doi:10.1371/journal.pone.0029306.g005 Bacterial strains, transformation condition and growth
conditions Bacterial strains and plasmids are described in table 1 and on
figure 1. Bacteria were grown in Luria-Bertani (LB) broth at 37uC
with agitation. Ampicillin (100 mg/ml, Sigma, Saint-Louis, MO,
USA), kanamycin (50 mg/ml, Sigma, Saint-Louis, MO, USA),
zeocin
(25 mg/ml
for
E. coli;
50 mg/ml
for
mycobacteria,
Invitrogen, Paisley, UK), hygromycin (200 mg/ml, Roche Diag-
nostics, Mannheim, Germany), streptomycin (50 mg/ml, Sigma,
Saint-Louis, MO, USA) and X-gal (50 mg/ml, MP biomedicals,
Illkirch, France) were added when necessary. ATc (Sigma, Saint-
Louis, MO, USA) was added as required at concentrations starting
at 0 and up to 300 ng/ml. Preparation of electrocompetent cells,
electroporation and preparation of mycobacterial genomic DNA
were performed as previously described [40,41]. The plasmid
pJV53, which express recombinases [21], was electroporated in M. PLoS ONE | www.plosone.org December 2011 | Volume 6 | Issue 12 | e29306 7 Conditional Gene Expression in M. abscessus b-galactosidase activity assay
percentage of Miller unit for the tested strain at a give time versus
Figure 5. Characterization of growth for conditional mutants in M. abscessus. (A) Bacteria were grown to exponential phase and 5 ml of 10-
fold serial dilutions were spotted onto LB agar medium supplemented or not with ATc 200 ng/ml. Plates were incubated at 37uC. Pictures were taken
after five days. Arrows indicate the difference of growth in presence or absence of ATc. (B) Diluted liquid culture of S fadD32C-pMC30A and R fadD32C-
pMC30A were separated in two cultures (one without ATc and one with 200 ng/ml ATc). After 48 h, cfu was numbered on LB agar plates. Results are
expressed in percentage of growth in comparison with the same strain culture without ATc. doi:10.1371/journal.pone.0029306.g005 PLoS ONE | www.plosone.org 2. Talati NJ, Rouphael N, Kuppalli K, Franco-Paredes C (2008) Spectrum of
CNS disease caused by rapidly growing mycobacteria. Lancet Infect Dis 8:
390–398. Growth analysis 10-fold serial dilutions were made from exponentially grown
cultures (37uC with agitation) in the absence of ATc, and 5 ml of Conditional Gene Expression in M. abscessus Growth analysis
10-fold serial dilutions were made from exponentially grown
cultures (37uC with agitation) in the absence of ATc, and 5 ml of
Figure 6. Quantification of fadD32 expression in conditional
mutant. Expression of fadD32 was measured by quantitative real-time
PCR as described in Materials and Methods, using sigA gene as
a housekeeping gene standard. Results are relative expression ratios
compared to expression in wild type strain (S or R). Expression was
measured in wild type strain, fadD32C strains and fadD32C pMC30A
strains with or without 200 ng/ml ATc after 48 h culture. (A) results in S
fadD32C derivative strains; (B) results in R fadD32C derivative strains. doi:10.1371/journal.pone.0029306.g006 each dilution was plated on LB agar in the presence or absence of
ATc (200 ng/ml). After five days, the presence of growth was
checked for each condition and comparison was performed between
plate with or without ATc. Each assay was performed in triplicate. Supporting Information Figure S1
TetR/Pip OFF system mechanism and function of
plasmids used in this system. (TIF) Figure S2
Construction of pMC18, pMVlac, pMC30A and
pMC30B. (TIF) Figure S2
Construction of pMC18, pMVlac, pMC30A and
pMC30B. Figure 6. Quantification of fadD32 expression in conditional
mutant. Expression of fadD32 was measured by quantitative real-time
PCR as described in Materials and Methods, using sigA gene as
a housekeeping gene standard. Results are relative expression ratios
compared to expression in wild type strain (S or R). Expression was
measured in wild type strain, fadD32C strains and fadD32C pMC30A
strains with or without 200 ng/ml ATc after 48 h culture. (A) results in S
fadD32C derivative strains; (B) results in R fadD32C derivative strains. doi:10.1371/journal.pone.0029306.g006 Acknowledgments We greatly acknowledge Dr Ben Marshall (Southampton University
Hospitals Trust, UK) for careful review of the manuscript. We thank
Francesca Boldrin and Riccardo Manganelli for providing us with plasmid
pFRA42A and pFRA61. Author Contributions Conceived and designed the experiments: MC AKS J-MR . Performed the
experiments: MC AKS. Analyzed the data: MC J-LG XN J-LH. Contributed reagents/materials/analysis tools: MC J-MR. Wrote the
paper: MC J-LG XN J-LH. Conceived and designed the experiments: MC AKS J-MR . Performed the
experiments: MC AKS. Analyzed the data: MC J-LG XN J-LH. Contributed reagents/materials/analysis tools: MC J-MR. Wrote the
paper: MC J-LG XN J-LH. 1. Brown-Elliott BA, Wallace RJ, Jr. (2002) Clinical and taxonomic status of
pathogenic nonpigmented or late-pigmenting rapidly growing mycobacteria.
Clin Microbiol Rev 15: 716–746. RNA extraction Total RNA was extracted from 10 ml of bacteria in liquid culture
(with or without ATc at 200 ng/ml). Pellet of bacteria was mixed
with 1 ml of Trizol (Invitrogen, Paisley, UK) and placed in lysing
matrix B tubes (MP Biomedicals, Illkirch, France). Bacteria were
lysed by shaking in a Fastprep FP120 apparatus (MP Biomedicals,
Illkirch, France). Two hundred microliters of 1-bromo-3-chloro-
propane were added and tubes were centrifuged for 10 min at 10
000 g. The aqueous phase was recovered, and RNAs were
precipitated with 500 ml of isopropyl alcohol and washed with
ethanol 75%. RNAs were then resuspended in 50 ml of water,
treated with DNase I, and purified on RNeasy minicolumns
(Qiagen). The quantity and the quality of the RNAs were verified
spectrophotometrically (Nanodrop ND-1000) and on agarose gels. qRT-PCR Reverse transcriptase PCR (RT-PCR) was performed with
Superscript RT II (Invitrogen) using gene specific primer (MC83
and MC85, Table 2). The primer sequences were designed with
Primer3Plus online software [43]. Samples without RT were prepared
concurrently and analysed for the absence of contaminating genomic
DNA. Real-time quantitative PCR analysis was performed using
FastStart SYBR Green Master (Roche Diagnostics, Mannheim,
Germany). cDNAs obtained as described above were diluted ten-fold
in nuclease-free water before qPCR. The PCR program consisted of
35 amplifications/quantification cycles of 95uC for 15s and 60uC for 1
min, with signal acquisition at the end of each cycle. MC82 and MC83
were used to amplify sigA and MC84 and MC85 to amplify fadD32
(Table 2). Equation 1 from Pfaffl [44] was used to analyse the statistical
significance of the data, using sigA as a reference gene standard. Each
assay was performed in duplicate and repeated at least twice. b-galactosidase activity assay percentage of Miller unit for the tested strain at a give time versus
Miller unit for the tested strain in the absence of ATc. percentage of Miller unit for the tested strain at a give time versus
Miller unit for the tested strain in the absence of ATc. Assays
on
M. smegmatis
mc2155
derivative
strains
were
performed on culture prepared like described by Boldrin et al. [30]. Briefly, cultures in liquid medium were grown 18 h with or
without ATc (50 ng/ml). After, culture without ATc was diluted in
new culture +/2 ATc (50 ng/ml), and culture with ATc was
diluted in same condition (with ATc). After 24 h, enzymatic
activity
of
b-galactosidase
was
measured. Each
assay
was
performed in triplicate. b-galactosidase activity assay was performed as previously
described and enzymatic activity expressed in Miller units [42]. For M. abscessus R strains, OD600 nm was taken after sonication to
represent
a homogenous
suspension. Exponentially growing
culture cultivated at 37uC with agitation were diluted in new
media in the presence of 0, 100, 200, or 300 ng/ml of ATc and
incubated in similar conditions. At 24, 48 and 72 h, an aliquot was
taken to perform b-galactosidase activity assay. Each assay was
performed in triplicate. Results were expressed as the relative Assays
on
M. smegmatis
mc2155
derivative
strains
were
performed on culture prepared like described by Boldrin et al. [30]. Briefly, cultures in liquid medium were grown 18 h with or
without ATc (50 ng/ml). After, culture without ATc was diluted in
new culture +/2 ATc (50 ng/ml), and culture with ATc was
diluted in same condition (with ATc). After 24 h, enzymatic
activity
of
b-galactosidase
was
measured. Each
assay
was
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English
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THE CONTRIBUTION OF INFORMATION TECHNOLOGIES TO THE PROTECTION OF WORLD CULTURAL AND NATURAL HERITAGE MONUMENTS "THE CASE OF ANCIENT PHILIPPI, GREECE"
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Zenodo (CERN European Organization for Nuclear Research)
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cc-by
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Received: 23/12/2021
Accepted: 23/03/2022 Received: 23/12/2021
Accepted: 23/03/2022 Corresponding author:K.Kravari ( kkravari@ihu.gr) SCIENTIFIC CULTURE, Vol. 8, No. 3, (2022), pp. 169-178
Open Access. Online & Print SCIENTIFIC CULTURE, Vol. 8, No. 3, (2022), pp. 169-178
Open Access. Online & Print THE CONTRIBUTION OF INFORMATION
TECHNOLOGIES TO THE PROTECTION OF WORLD
CULTURAL AND NATURAL HERITAGE MONUMENTS
“THE CASE OF ANCIENT PHILIPPI, GREECE” 1*Kalliopi Kravari, 1Dimitrios Emmanouloudis, 2Elena Korka & 3Aglaia Vlachopoulou
1UNESCO Chair on Conservation and Ecotourism of Riparian and Deltaic Ecosystems,
International Hellenic University, Greece
2 Hellenic Committee of the Blue Shield, 29 Archimidous Str., Athens 116 36, Greece
3International Hellenic University, Greece 1UNESCO Chair on Conservation and Ecotourism of Riparian and Deltaic Ecosystems,
International Hellenic University, Greece
2 Hellenic Committee of the Blue Shield, 29 Archimidous Str., Athens 116 36, Greece
3International Hellenic University, Greece Received: 23/12/2021
Accepted: 23/03/2022 2. THE INBO APPROACH The INBO approach, developed by members of this
team, brings forward a holistic and easily adaptable
methodology that combines edge technology with
risk assessment techniques. The main purpose of
INBO is to prevent potential damage to the Cultural
and Natural heritage sites by enabling the right prog-
nosis leading to timely and smart decisions. Follow-
ing this methodology, first responders, heritage
stakeholders, as well as visitors will be able to im-
prove the way, in which they react and handle the
provided information. The current work designs, develops and presents
the first steps of INBO, a methodology that brings to-
gether artificial intelligence, risk assessment tech-
niques and even stakeholders. The proposed smart
awareness and management solution, based on accu-
rate information and the right knowledge, will be able
to automatically make or propose the right actions
and decisions. More specifically, the article clarifies
the added value of the approach focusing on augment
reality and the intelligent agent technology that acts
as a virtual alter ego of our world without the limita-
tions of the human factor. INBO is a three-stage methodology that includes
an INDEX and an IT Booklet, (INDEX + BOOKLET =
INBO) which allows both monument monitoring and
real-time emergency response. Fig. 1 depicts the main
stages of the methodology. The first stage aims at the
monument studying. The second stage reproduces
the site purposes of public awareness. The third stage
monitors and manages the site using Artificial Intelli-
gence (AI) technologies, such as the Intelligent Agents
and the Internet of Things (IoT) (Kravari & Bassili-
ades, 2019). This holistic smart awareness and man-
agement approach will be able to automatically make
or propose the right actions and decisions, supporting
managers and stakeholders. The first stage of the methodology includes the de-
velopment of an INDEX for each monument and its
potential hazard levels, including monument features
such as marshlands in the ancient city of Philippi, and
potential types of hazards such as floods. The risks
will be classified and prioritized, customizing the
protection actions. The next stage involves the devel-
opment of the IT Booklet, where initially with the use
of augmented and virtual reality the monument will
be reproduced, providing awareness to the public
and visitors. This part will demonstrate risky loca-
tions while evacuation plans will be provided. ABSTRACT Natural and man-made disasters are happening more and more often, leading to hundreds of casualties and
significant catastrophic consequences. Unfortunately, they are affecting not only urban centers, outdoor set-
tlements, and infrastructure, but also world cultural and natural heritage sites. Many of these monuments,
which are included in the UNESCO World Heritage List, are at risk due to even moderate natural or man-
made hazards, given the structural vulnerability created over the course of their hundreds or even millennia
of existence. In this context, for several years, the issue of the risks of World Heritage sites has been of concern
to UNESCO and in particular the World Heritage Center. Following this effort, the present work aims to enrich
methods and techniques with the help of advanced information technologies and in particular a combination
of Artificial Intelligence (AI), Virtual and Augmented Reality, and the Internet of Things (IoT). The article
presents the first steps towards a holistic and easily adaptable methodology, forming the so-called INBO (IN-
DEX + BOOKLET = INBO), a novel combination of INDEX (catalogue) and IT Booklet, which will allow both
monument monitoring and real-time emergency response. This methodology will improve the way in which
first responders and monument managers, even visitors, react and handle the information provided. INBO
will allow the right prognosis to be achieved by leading to timely and smart decisions that will help prevent
potential damage to the cultural heritage. The Ancient City of Philippi will serve as a pilot study for the ap-
proach. The archaeological site of Philippi, located in Northern Greece, is one of the heritage sites, listed on
the UNESCO World Heritage List. DS: Artificial Intelligence, Risk Assessment, Heritage Protection, INDEX, UNESCO, Monument Copyright: © 2022. This is an open-access article distributed under the terms of the Creative Commons Attribution License. (https://cre-
ativecommons.org/licenses/by/4.0/). K. KRAVARI et al 170 1. INTRODUCTION and software. This pert will include the appropriate
IoT equipment, collecting and reasoning on data,
smart real-time control applications, as well as AI
techniques for stakeholders. In recent decades the number of disastrous natural
phenomena (floods, fires, earthquakes and others) as
well as man-made disasters has increased, causing
both social and economic problems and adverse ef-
fects on cultural heritage, affecting world Cultural
and Natural heritage sites. Many of these Monuments
are at risk due to even moderate natural or man-made
hazards, given the structural vulnerability created
over the course of their hundreds or even millennia of
existence. To this end, novel approaches that could as-
sist on protecting them is undoubtedly imperative. In
this context, for several years, the issue of the risks of
World Heritage sites has been of concern to UNESCO
and in particular the World Heritage Center. The re-
sult of the effort was the compilation of a manual
guide, written with the help of experts. This guide
lists the hazards, their special features and their im-
pact on cultural monuments and people. Following
this effort, the present work aims to enrich methods
and techniques with the help of advanced infor-
mation technologies and in particular a combination
of Artificial Intelligence (AI), Virtual and Augmented
Reality, and the Internet of Things (IoT). This paper discusses upon the first INDEX stage as
well as the first step of the second stage, that of the
Augment and Virtual reality module. Furthermore,
the Ancient City of Philippi serves as a pilot study for
the approach. The archaeological site of Philippi, lo-
cated in Northern Greece, is one of the heritage sites,
listed on the UNESCO World Heritage List. This
monument is endangered not by common natural
risks but by a particular phenomenon that of the
flooding of the Marshlands of Philippi. The article is organized as follows, section 2 pre-
sents an overview of the INBO methodology, and sec-
tion 3 discusses augment and virtual reality. Section 4
presents an overview of IoT in the context of INBO
approach while section 5 discusses the case of Ancient
Philippi, Greece. Finally, section 6 discusses related
work while section 7 summarizes the added value of
the article with some final remarks. 3. INDEX The first phase of the methodology includes the de-
velopment of an INDEX for each Monument. This
stage will identify, record, classify and prioritize the
dangers that threaten a Monument or an Archaeolog-
ical site. To this end, an appropriate questionnaire
will be shared to site managers and responsible stake-
holders. The first page of the questionnaire is pre-
sented below indicatively (Fig. 2). This questionnaire
will collect data related to natural hazards, such as
hurricanes, lightning, flash floods, landslides etc., nat-
ural-human induced hazards, such as agro and forest
fires, man – made hazards, such as air, water pollu-
tion, and technological risks, such as IT Protection
Systems failure. Upon the completion of the question-
naires, referred to a specific heritage site, INBO meth-
odology proceeds with the analysis based on artificial
intelligence (AI) techniques. Beyond the assessment
and forecast results, INBO will also provide brief
guides (Behavior Codes) for visitors and site stake-
holders that will contain instructions for protection
and/or survival from all the important and most fre-
quently occurring risks of Natural and Technological
Disasters. In this context, the advice offered through
these Guides will be supervisorial enhanced with the
help of technologies such as augmented reality (AR)
videos and animations. This way, stakeholders and
visitors will be better prepared and more familiar
with what they should do in case of the Monument,
the Archaeological site, and the wider area or even
their life is threatened. 2. THE INBO APPROACH Next,
IoT and Artificial Intelligence will support the de-
signed and developed of a smart real-time control ap-
plication that will enable monitoring and manage-
ment of the monument using appropriate equipment SCIENTIFIC CULTURE, Vol. 8, No 3, (2022), pp. 169-178 THE CONTRIBUTION OF IT TO THE PROTECTION OF WORLD CULTURAL AND NATURAL HERITAGE MONUMENTS 171 Figure 1. The overview of the INBO methodology. Figure 1. The overview of the INBO methodology. 4. IT BOOKLET and software (Astorga González et al., 2020). This part
will include the appropriate IoT equipment, collect-
ing and reasoning on data, smart real-time applica-
tions, and AI techniques for stakeholders. As a result,
INBO provides a custom-made smart real-time sys-
tem, which included five (5) modules, namely Haz-
ard Analysis, Risk Analysis, Preparedness, Response
and Recovery. Yet, it is out of the scope of this article
to analyze each of these modules and technologies;
hence this article discusses further mainly on the pre-
paredness and response modules. and software (Astorga González et al., 2020). This part
will include the appropriate IoT equipment, collect-
ing and reasoning on data, smart real-time applica-
tions, and AI techniques for stakeholders. As a result,
INBO provides a custom-made smart real-time sys-
tem, which included five (5) modules, namely Haz-
ard Analysis, Risk Analysis, Preparedness, Response
and Recovery. Yet, it is out of the scope of this article
to analyze each of these modules and technologies;
hence this article discusses further mainly on the pre-
paredness and response modules. The second phase of the methodology includes the
development of a two-stage IT Booklet, where ini-
tially with the use of augmented and virtual reality
the Monument will be reproduced, providing aware-
ness to the public and visitors, as well as stakeholders. This part will demonstrate risky locations while evac-
uation plans will be provided. Next, the Internet of
Things and Artificial Intelligence will support the de-
sign and development of a smart real-time control ap-
plication that will enable monitoring and manage-
ment of the Monument using appropriate equipment Figure 3. INBO Smart real-time system main technologies. Figure 3. INBO Smart real-time system main technologies. Furthermore, access to cultural objects and e-learn-
ing gains more attention by providing (a) production
of virtual and mixed reality applications, documenta-
tion, videos, 3D models, hiking trails, b) production
of audiovisual material and 3D movies, and c) visit to
virtual museums. Moreover, digitizing the material
and developing tools for analyzing and searching for
information can support cultural heritage institu-
tions, such as libraries and museums, creating large
data repositories that will allow access to the preser-
vation of cultural heritage. To this end, IT techniques
can even support research upon revealing hidden in-
formation of the past, bringing to light hidden collec-
tions, or uniting antiquities that are spatially remote. Figure 2. Part of the INBO questionnaire. Figure 2. Part of the INBO questionnaire. SCIENTIFIC CULTURE, Vol. 8, No 3, (2022), pp. 169-178 K. KRAVARI et al 172 4. IT BOOKLET However, since technology is constantly changing,
the imperative need is to develop local Smart Cultural
Heritage strategies and tools to enhance and preserve
cultural and environmental resources, which will be
integrated with the local Smart City plans (Jelinčić &
Glivetić, 2019). In this context, augmented (AR) and
virtual (VR) reality technology is able to provide a sig-
nificant advantage in the field of monument manage-
ment and protection. 5. AUGMENT AND VIRTUAL REALITY Figure 4. AR tour Kavala Helexpo (2014) Figure 4. AR tour Kavala Helexpo (2014) Figure 4. AR tour Kavala Helexpo (2014) Virtual schools make use of high-end technology to
achieve the aforementioned goals while, at the same
time, it makes technology free for schools. This Vir-
tual application led us to think about using it for mu-
seums and archaeological sites starting from the area
of Philippi. In this context, firstly, was implemented
an Augmented Reality (AR) tour for Kavala (Greece)
Helexpo 2014 (Fig. 4). Virtual schools make use of high-end technology to
achieve the aforementioned goals while, at the same
time, it makes technology free for schools. This Vir-
tual application led us to think about using it for mu-
seums and archaeological sites starting from the area
of Philippi. In this context, firstly, was implemented
an Augmented Reality (AR) tour for Kavala (Greece)
Helexpo 2014 (Fig. 4). A case in that VR was successfully used for educa-
tional purposes was when the IHU AETMA Lab al-
lowed students to design their own school models,
helping them to understand better how they should
react to a potential threat, such as an earthquake. This
project is called Virtual School and uses augmented
and mixed reality experiences in order to raise stu-
dents’ awareness of natural disaster management. Figure 5. CARMA AR project in the ancient area of Philippi, Greece by AETMA Lab IHU Figure 5. CARMA AR project in the ancient area of Philippi, Greece by AETMA Lab IHU Following the AR tour, an AR approach for the
museum was implemented, too. This approach is
called CARMA (Fig. 5) and it is able to inform the vis-
itors of the Museum of Philippi or of an open space,
for their location and the optimum exploration paths,
or evacuation plans in case of a risk. Things. Things able to make decisions and communi-
cate. However, the open and distributed network
combined with the enormous heterogeneity of things
raises important challenges. Challenges that can find
an answer to Artificial Intelligence, which can add au-
tonomy, context awareness and intelligence, realizing
the vision of IoT. On the other hand, every year mil-
lions of people visit monuments, museums and art ex-
hibitions, hence the need for novel monitoring and
protecting heritage solutions is obvious. 5. AUGMENT AND VIRTUAL REALITY In this con-
text, the IoT has already shown tremendous potential
in monitoring cultural heritage environments (Khan
et al., 2020). It has been successfully used to monitor
the structural health of buildings, cultural preserva-
tion and revitalization as well as to improve the expe-
rience of users of the cultural environment. 5. AUGMENT AND VIRTUAL REALITY Over the past years, many initiatives have been fo-
cusing on Information Technology (IT) and its poten-
tial use for the management and protection of herit-
age in a variety of aspects. Such an initiative is the so-
called Smart Heritage, a relatively new system and
management media that initiated by INTACH Herit-
age Academy to answer the challenge that addresses
the Cultural Heritage Conservation in the Smart City
Era by using the advancement of Information Com-
munication Technology (ICT) (Mehta & Piplani,
2017). The aim of the Smart Cultural Heritage is to
serve the preservation of identity, tangible and intan-
gible, of sites and communities using smart technolo-
gies, since technological advancements have already
led to a variety of achievements (Siountri et al., 2018). In this context, digital networking of institutes, asso-
ciations and organizations, visitors, and cultural ob-
jects is already common while crowdsourcing infor-
mation, related to monuments, trails, customs, an-
thropogeography provides databases and digital
paths. SCIENTIFIC CULTURE, Vol. 8, No 3, (2022), pp. 169-178 THE CONTRIBUTION OF IT TO THE PROTECTION OF WORLD CULTURAL AND NATURAL HERITAGE MONUMEN 173 Figure 4. AR tour Kavala Helexpo (2014)
A case in that VR was successfully used for educa-
nal purposes was when the IHU AETMA Lab al-
wed students to design their own school models,
lping them to understand better how they should
act to a potential threat, such as an earthquake. This
oject is called Virtual School and uses augmented
d mixed reality experiences in order to raise stu-
nts’ awareness of natural disaster management. Virtual schools make use of high-end technology to
achieve the aforementioned goals while, at the same
time, it makes technology free for schools. This Vir-
tual application led us to think about using it for mu-
seums and archaeological sites starting from the area
of Philippi. In this context, firstly, was implemented
an Augmented Reality (AR) tour for Kavala (Greece)
Helexpo 2014 (Fig. 4). r Kavala Helexpo (2014)
ca-
al-
ls,
ld
his
ed
u-
nt. Virtual schools make use of high-end technology to
achieve the aforementioned goals while, at the same
time, it makes technology free for schools. This Vir-
tual application led us to think about using it for mu-
seums and archaeological sites starting from the area
of Philippi. In this context, firstly, was implemented
an Augmented Reality (AR) tour for Kavala (Greece)
Helexpo 2014 (Fig. 4). 6. INTERNET OF THINGS & INBO SYSTEM The Internet of Things (IoT) aims to create a world
where everyone and everything, called Things, will
be connected and the knowledge will be effortlessly
diffused in every direction (Mukhopadhyay & Surya-
devara, 2014). It has the potential to change our daily
lives. It is a world, although still at an early stage, that
forms a huge, open and distributed network of SCIENTIFIC CULTURE, Vol. 8, No 3, (2022), pp. 169-178 K. KRAVARI et al 174 Figure 6. UNESCO Relationships of natural hazards and man-made hazards Figure 6. UNESCO Relationships of natural hazards and man-made hazards In this context, INBO uses the IoT, combined with
Artificial Intelligence, in order to form the final stage
of its contribution (Fig 1). The first step towards this
direction was to reveal relationships of natural and
man-made hazards to potential risks. For this pur-
poses, UNESCO classifications were studied (Fig. 6),
revealing that IoT could deal with various challenges
based on these categories. INBO proposes each herit-
age site, based on a custom study, to be equipped
with appropriate IoT devices, enabling a smart net-
work in which all entities will communicate and share
knowledge. Yet, although IoT technologies cannot
stop disasters from happening, they can be very use-
ful for disaster preparedness, by prediction and early
warning systems, and response by organizing re-
sponse and recovery. So far, INBO includes a variety
of IoT solutions that can be adapted to specific monu-
ment cases based on the risks that they face. The INBO
IoT study mitigates many of the emergency chal-
lenges, such as a weak communication network and
delays due to lack of information and data. Various
hazard sensors, such as fire, flood, earthquake, and so
on, can be used while local emergency rescue services
can be alerted via a cloud service where everything
will be connected. Mention that the decision upon
which IoT solution is appropriate for a specific case is the result of the first INDEX stage of INBO methodol-
ogy. For instance, regarding the monitoring and man-
agement of meteorological - hydrological hazards a
synergy of GIS and IoT could deal with weather dis-
asters. Smart devices and applications from daily life
could be used for such cases. Data is usually meas-
ured and collected by distributed sensors, placed in
different locations. The collected data will be pro-
cessed by INBO IoT applications while the system
generates alerts. 6. INTERNET OF THINGS & INBO SYSTEM A critical component is to provide
dissemination via multiple mechanisms in near real-
time to responsible entities and the public. Natural
weather, such as hurricanes, forest fires, floods, vol-
canoes, tornadoes and earthquakes can be addressed
through the aforementioned synergy. Usually, IoT
(sensors) monitors natural weather events and notify
about critical safety information. Sensor technology
offers real-time information during and after a natu-
ral weather event occurs. For example, sensors capa-
ble of monitoring, are able to detect increased water
levels before a hurricane and to track how quickly a
forest fire is spreading. However, we have to go beyond that. We use IoT
not only to forecast but also to deal with issues related
to hazards. For instance, pollution affect harbor sea SCIENTIFIC CULTURE, Vol. 8, No 3, (2022), pp. 169-178 THE CONTRIBUTION OF IT TO THE PROTECTION OF WORLD CULTURAL AND NATURAL HERITAGE MONUMENTS 175 that allows stakeholders and experts to prioritize lo-
cal response efforts and manage their resources, mov-
ing smart automation a step further. Monitoring is the
module that enables hazard identification, up-to-date
environmental track changes in order to reflect the se-
verity and expected outcome of the natural disaster. Warning communication is based on multi-channel
communication protocols while response capability
reveals that information alone cannot assure a posi-
tive outcome, hence we need technology and collabo-
ration among involved parties. water and entire area ecosystem which makes ex-
tremely important a constant and reliable monitoring
of the (sea) waters. For example, hurricanes can in-
crease in speed and intensity as they pass over warm
water, which may pose a heightened risk to coastal
cities. To this end, monitoring and warning systems
including both hardware and software could be the
answer. Such a system, developed by EVAE lab of In-
ternational Hellenic University, provides a light-
weighted ROUV (Remotely Operated Underwater
Vehicle) equipped with a complete set of sensors in
order to collect data and samples (Fig. 7) and a smart
monitoring platform that will enable autonomous de-
cision making/suggestion using artificial intelli-
gence. 7. PILOT STUDY - THE ANCIENT CITY OF
PHILIPPI IN KAVALA, GREECE The Ancient City of Philippi is the 16th and chron-
ologically speaking the last Monument of Greece that
was included in this list of UNESCO. This site serves
as pilot study for our proposed approach. The archae-
ological site of Philippi, located in Northern Greece,
is one of the heritage sites, listed on the UNESCO
World Heritage List, which strongly consolidates its
reputation as a unique place of extraordinary value
for human civilization. It is an exceptional testimony
to different historic periods and civilizations, from
prehistoric times to Byzantine periods. What makes it
unique is the assembly of the architectural heritage
preserved at the site, representing various architec-
tural types of monuments expressing the develop-
ment of architecture during the Roman, Christianity,
and Byzantine periods. The remains of the ancient
city of Philippi represent a unique example of Roman
architecture, with its specific configuration giving it
attributes of a “small Rome”. Undoubtedly, the most
impressive building of this period, despite the
changes that it has undergone over the centuries, is
the ancient theatre of Philippi (Fig. 8) Figure 7. ROUV (Electric Vehicles and Automotive Elec-
tronics Lab of IHU) Figure 7. ROUV (Electric Vehicles and Automotive Elec-
tronics Lab of IHU) Hence, INBO, based on the aforementioned tech-
nologies and AI techniques, proposes among others
an early warning systems that includes four compo-
nents, namely risk knowledge, monitoring, warning
communication
and
response
capability. Risk
knowledge is a categorical system of hazard analysis Figure 8. Ancient theatre of Philippi Figure 8. Ancient theatre of Philippi SCIENTIFIC CULTURE, Vol. 8, No 3, (2022), pp. 169-178 SCIENTIFIC CULTURE, Vol. 8, No 3, (2022), pp. 169-178 K. KRAVARI et al 176 Figure 9. Flooding of the Marshlands of Philippi, Greece This monument is significantly endangered neither
by common natural disasters, e.g. fire, flood (from
Flash Floods) or earthquake, nor by atmospheric pol-
lution or other major pollutants. However, it is at risk
because of a particular phenomenon of the flooding
of the Marshlands of Philippi (Fig. 9) which are lo-
cated both all around and just a few hundred meters
away. This flood is periodic, every winter, while dur-
ing the summer there is a total drought of the marsh-
lands. 7. PILOT STUDY - THE ANCIENT CITY OF
PHILIPPI IN KAVALA, GREECE The phenomenon of the constant rising and
lowering of the surface water body for ongoing years
with a particular increasing rate during the last dec-
ades is quite possible to lead to the activation of the
subsurface soil water table circumferentially the An-
cient Town. Thus, this activation could lead to the
peril of the overall Geostationary Balance of the area
with innumerous repercussions for the Ancient Set-
tlement. Figure 9. Flooding of the Marshlands of Philippi, Greece Consequently, all-year-round thorough measure-
ments both of several soil and climate parameters but
also, and most importantly, of soil and subsoil de-
tailed factors are essential. The development of these
measurements and their progress also determines ei-
ther the existence, or lack, of a direct danger but also
the course of the works for protection, even the way
visitors may affect the area, especially when there is a
load of 5,000-6,000 people with vehicles nearby (An-
cient Theater Performances). Philippi Case study
leads to the obvious as well as useful inference that all
the natural and human-induced dangers do not ap-
pear in the same extent of threat for every Natural or
Cultural Monument. So, in our case, the Ancient
Town does not seem to be threatened by an extended
forest fire or air pollution. On the contrary, Ancient
Olympia, Greece is clearly threatened by an extended
and uncontrollable Forest Fire, while the Acropolis in
Athens faces problems with air pollution. Figure 9. Flooding of the Marshlands of Philippi, Greece 8. USING INBO AT THE ANCIENT CITY OF
PHILIPPI IN KAVALA, GREECE First, a study is conducted about the ancient city of
Philippi in Kavala and the marshlands, including
among other the aforementioned questionnaire. The
result is an INDEX which will be uploaded on a plat-
form. There, it will be real-time updated through the
continuous flow of incoming answers from question-
naires, as well as the analysis outcomes of these an-
swers. Following this stage, proper AR guides for vis-
itors and site stakeholders will be also uploaded (such
as those discussed in section 3). Fig. 10 depicts a case
of emergency in the museum of Kavala where there
are important archeological findings of the ancient
city. This example will depict better the added-value
of the approach. SCIENTIFIC CULTURE, Vol. 8, No 3, (2022), pp. 169-178 SCIENTIFIC CULTURE, Vol. 8, No 3, (2022), pp. 169-178 CONTRIBUTION OF IT TO THE PROTECTION OF WORLD CULTURAL AND NATURAL HERITAGE MONUMENTS 177 Figure 10. Emergency in the museum Figure 10. Emergency in the museum ago by Ministry of Environment (LIFE-IP AdaptInGR
Project, 2021), but in fact is different. In Life – IP pro-
ject five of the total 18 Greek Heritage sites investi-
gated and only in relevance with the factors that affect
Climate Change. Moreover, the proposed INDEX is
something different from ICOMS – GOOGLE plat-
form where five Heritage Sites presented and their
Risks and Dangers are measured, monitored and an-
alyzed. The proposed by us INDEX is much broader
with a Universal character, aiming to include all mon-
uments, but of course due to the huge information
size, with a brief format. Hence, there is still a lack of
a combination of an INDEX with monuments and
their degree of threat from hazards and the Artificial
Intelligence in order to provide a complete, fairly gen-
eral-purpose smart system. Suppose that suddenly a fire breaks out in a closed
hall. The security guard is outside checking an incom-
ing vehicle, without a clue about the fire. Unfortu-
nately, till the guard releases that a fire emergency oc-
curs, the fire extends to the adjacent hall where there
are visitors and significant historical findings. The se-
curity guard panicked, forgets to call the fire depart-
ment, and the situation is out of control. The existence
of an INBO installation on the other hand could pro-
vide better results. INBO provided intelligent soft-
ware that can communicate and act upon goals. As a
result, a variety of IoT sensors and devices such as
cameras or automatic door mechanisms are automat-
ically controlled. In this context, as soon as, the AI-
based INBO devices detect the first fire, inform the
appropriate AI-based INBO entity, e.g. the virtual
guard in charge (line 1). On its turn, that entity rea-
sons upon the data and extracts the conclusion that
the hall must be sealed and the fire station should be
informed. 10. CONCLUSION This article discussed upon INBO, a two-phase
methodology that consists of an INDEX and an IT
Booklet. INBO realizes an intelligent-based approach
where both technical and practical guidelines and
tools support the protection of Monuments and hu-
man lives. It limits the common disadvantages of the
existing distributed human-based approaches, by
combining distributed sensors with AI technologies,
forming a custom-made IoT system able monitor,
forecast and take decisions protecting monuments
and lives. Yet, although this broad methodology pro-
vides valuable edge technologies, it needs the syn-
ergy of organization and stakeholders in order to pro-
vide accurate policies, prioritizing the needs of all in-
volved stakeholders. In this endeavor, assistance
from local, national, and international committees
and organizations is needed, since we firmly believe
that it is absolutely necessary to cooperate with those SCIENTIFIC CULTURE, Vol. 8, No 3, (2022), pp. 169-178 Hence, sends a message request to the ap-
propriate device of the group A to close the door, ac-
tivate the fire extinguishing system and play a voice
message to visitors at the adjacent halls to move
calmly outside the building (line 2) while another
message is sent to the appropriate gateway (group C)
asking it to inform the fire station (line 3), which is
done immediately (line 4). Meanwhile, the human se-
curity guard. All-in-all, the INBO evaluated the situ-
ation real-time, communicated with the appropriate
stakeholders coordinating their actions and informed
the visitors, eliminating the human factor without
time waste. 9. RELATED WORK This proposal seems to have similarities with the
LIFE – IP project that has been announced two years SCIENTIFIC CULTURE, Vol. 8, No 3, (2022), pp. 169-178 K. KRAVARI et al 178 system. Hence, the proposed methodology will be
further improved, in an attempt to reduce among oth-
ers its complexity. To this end, our intention is to fur-
ther study each module involved the INBO proposal. that face the everyday practical or policy challenges. As for future directions, our priority is to study the
scalability the complexity of the methodology and the
involved technologies as well as the scalability of the that face the everyday practical or policy challenges. As for future directions, our priority is to study the
scalability the complexity of the methodology and the
involved technologies as well as the scalability of the ACKNOWLEDGEMENT Part of this research has received funding from the European Union´s UCPM-2020-KN-AG under grant agree-
ment No 101017819 with the acronym RESISTANT. Part of this research has received funding from the European Union´s UCPM-2020-KN-AG under grant agree-
ment No 101017819 with the acronym RESISTANT. REFERENCES Astorga González, E. M., Municio, E., Noriega Alemán, M., & Marquez-Barja, J. M. (2020). Cultural Heritage
and Internet of Things. In Proceedings of the 6th EAI International Conference on Smart Objects and
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policies for durable and self-sustainable projects in the cultural heritage sector, INORDE – Institute
for Economic Development of Ourense Province, INTERREG Europe project, financed by the Euro-
pean Regional Development Fund, Spain. Kravari, K., & Bassiliades, N. (2019). StoRM: A social agent-based trust model for the internet of things adopt-
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ination. 3. 20-35. 10.34624/jdmi.v3i7.16212. j
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Mukhopadhyay, S. C., & Suryadevara, N. K. (2014). Internet of Things: Challenges and Opportunities. Internet
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Mukhopadhyay, S. C., & Suryadevara, N. K. (2014). Internet of Things: Challenges and Opportunities. Internet
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Siountri, K., Skondras, E., & Vergados D.D. (2018), Smart Cultural Heritage in Digital Cities, Journal Sustainable
Development, Culture, Traditions, Volume 1b/2018, DOI: 10.26341/issn.2241-4002-2018-1b-2. g
Siountri, K., Skondras, E., & Vergados D.D. (2018), Smart Cultural Heritage in Digital Cities, Journal Sustainable
Development, Culture, Traditions, Volume 1b/2018, DOI: 10.26341/issn.2241-4002-2018-1b-2. SCIENTIFIC CULTURE, Vol. 8, No 3, (2022), pp. 169-178 SCIENTIFIC CULTURE, Vol. 8, No 3, (2022), pp. 169-178 SCIENTIFIC CULTURE, Vol. 8, No 3, (2022), pp. 169-178
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https://openalex.org/W4200283604
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https://www.frontiersin.org/articles/10.3389/fpsyt.2021.789344/pdf
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English
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How Is the History of Early Traumatic Exposure Associated With the Psychopathological Outcomes of COVID-19 Related Lockdown and Subsequent Re-opening in People With Eating Disorders?
|
Frontiers in psychiatry
| 2,021
|
cc-by
| 8,942
|
Edited by:
Tomasz M. Gondek,
Self-employed, Wroclaw, Poland y
Tomasz M. Gondek,
Self-employed, Wroclaw, Poland Reviewed by:
Alfonso Tortorella,
University of Perugia, Italy
Ekin Sönmez Güngör,
Istanbul Erenkoy Training and
Research Hospital for Psychiatric and
Neurological Diseases, Turkey 1 Department of Medicine, Surgery and Dentistry “Scuola Medica Salernitana”, University of Salerno, Salerno, Italy,
2 Department of Neuroscience, Eating Disorders Center for Treatment and Research, University of Turin, Turin, Italy, 3 Unit of
Psychiatry, DAME, University of Udine, Udine, Italy, 4 Department of Mental Health, ASST Santi Paolo e Carlo, Milan, Italy,
5 Section of Psychiatry, Department of Medical Sciences and Public Health, University of Cagliari, Cagliari, Italy, 6 Department
of Mental Health, Asl Salerno, Salerno, Italy, 7 Department of Neuroscience, University of Padova, Padua, Italy, 8 Mental
Health Department, Center for the Treatment and Research on Eating Disorders, ASL Lecce, Lecce, Italy, 9 Psychiatry Unit,
Department of Neurological and Psychiatric Sciences, University of Florence, Florence, Italy, 10 Eating Disorders Centre
Portogruaro, AULSS 4 Veneto Orientale, San Donà di Piave, Italy, 11 Department of Medical and Surgical Sciences, University
Magna Graecia of Catanzaro, Catanzaro, Italy, 12 Eating Disorders Unit, Casa di Cura “Villa Margherita”, Arcugnano, Italy,
13 Section of Clinical Psychiatry, Department of Clinical Neurosciences/DIMSC, Università Politecnica delle Marche, Ancona,
Italy, 14 Department of Translational Medicine, Psychiatry Institute, Università del Piemonte Orientale, Novara, Italy,
15 Department of Psychiatry, University of Campania L. Vanvitelli, Naples, Italy *Correspondence:
Giammarco Cascino
gcascino14@gmail.com Specialty section:
This article was submitted to
Public Mental Health,
a section of the journal
Frontiers in Psychiatry Specialty section:
This article was submitted to
Public Mental Health,
a section of the journal
Frontiers in Psychiatry
Received: 04 October 2021
Accepted: 15 November 2021
Published: 08 December 2021 The negative impact of COVID-19 pandemic on people with Eating Disorders (EDs)
has been documented. The aim of this study was to evaluate whether a history of
traumatic experiences during childhood or adolescence was associated with a higher
degree of psychopathological worsening during COVID-19 related lockdown and in the
following re-opening period in this group of people. People with EDs undergoing a
specialist ED treatment in different Italian services before the spreading of COVID-19
pandemic (n = 312) filled in an online survey to retrospectively evaluate ED specific and
general psychopathology changes after COVID-19 quarantine. ORIGINAL RESEARCH
published: 08 December 2021
doi: 10.3389/fpsyt.2021.789344 How Is the History of Early Traumatic
Exposure Associated With the
Psychopathological Outcomes of
COVID-19 Related Lockdown and
Subsequent Re-opening in People
With Eating Disorders? Giammarco Cascino 1*, Francesca Marciello 1, Giovanni Abbate-Daga 2,
Matteo Balestrieri 3, Sara Bertelli 4, Bernardo Carpiniello 5, Giulio Corrivetti 6,
Angela Favaro 7, Caterina Renna 8, Valdo Ricca 9, Pierandrea Salvo 10,
Cristina Segura-Garcia 11, Patrizia Todisco 12, Umberto Volpe 13, Patrizia Zeppegno 1
Palmiero Monteleone 1 and Alessio Maria Monteleone 15 Giammarco Cascino 1*, Francesca Marciello 1, Giovanni Abbate-Daga 2,
Matteo Balestrieri 3, Sara Bertelli 4, Bernardo Carpiniello 5, Giulio Corrivetti 6,
Angela Favaro 7, Caterina Renna 8, Valdo Ricca 9, Pierandrea Salvo 10,
Cristina Segura-Garcia 11, Patrizia Todisco 12, Umberto Volpe 13, Patrizia Zeppegno 14,
Palmiero Monteleone 1 and Alessio Maria Monteleone 15 Based on the presence
of self-reported traumatic experiences, the participants were split into three groups:
patients with EDs and no traumatic experiences, patients with EDs and childhood
traumatic experiences, patients with EDs and adolescent traumatic experiences. Both
people with or without early traumatic experiences reported retrospectively a worsening
of general and ED-specific psychopathology during the COVID 19-induced lockdown
and in the following re-opening period. Compared to ED participants without early
traumatic experiences, those with a self-reported history of early traumatic experiences
reported heightened anxious and post-traumatic stress symptoms, ineffectiveness, body Received: 04 October 2021
Accepted: 15 November 2021
Published: 08 December 2021 INTRODUCTION an earlier age at symptom onset, a greater symptom severity and
a more frequent concomitance of other psychiatric conditions
(60), a poorer treatment response (61), as well as a heightened
biological and emotional vulnerability to acute social stress
exposure (62) and specific gray and white matter alterations (63),
highlighting the need of a multidisciplinary approach to their
management (64). The outbreak of coronavirus disease 2019 (COVID-19) pandemic
has led to a dramatic loss of human life worldwide and presents
an unprecedented challenge to public health, food systems and
the world of work. The economic and social disruption caused
by the pandemic was devastating and led countries around the
world to adopt social and physical distancing to contain virus
transmission (1). Closures and restrictions worldwide promoted
social isolation and loneliness (2–7). Increased exposition to the
Internet and social media messages contributed to the fear of
being infected (8–12). As a result of such a stressful situation,
a clear-cut increased prevalence of anxiety and depression
occurred in the general population (13–25), while people
with a pre-existing psychiatric condition showed a heightened
vulnerability in terms of physical and mental distress (26–31)
as well as a higher frequency of most severe outcomes of the
infection (32, 33), emphasizing the need to involve psychiatrists
in the management of the emergency (34–41). As the COVID-19 pandemic encompasses different types of
stressors, ranging from family and social to health and economic
adversities, it may provide the opportunity to explore in vivo the
effects of an acute traumatic event in people with a potential
vulnerability to acute stressors (65–68). According to the
maltreated ecophenotype hypothesis, an increased vulnerability
to the pandemic distress may be hypothesized in people with
EDs and a history of early maltreatment. Thus, the aim of
this study was to evaluate whether a history of traumatic
experiences during childhood or adolescence was associated with
a higher degree of psychopathological worsening during COVID-
19 related lockdown and in the following re-opening period. Among vulnerable psychiatric patients, people with eating
disorders (EDs) have been reported to experience a worsening
of their specific psychopathology, although variability in
the
degree
of
worsening
has
been
observed
across
the
studies (42–53). Furthermore, a marked impairment in general
psychopathological symptoms has been observed in these
patients, which tended to persist after the easing of COVID-
19 related restrictions (54, 55). Citation: Citation:
Cascino G, Marciello F,
Abbate-Daga G, Balestrieri M,
Bertelli S, Carpiniello B, Corrivetti G,
Favaro A, Renna C, Ricca V, Salvo P,
Segura-Garcia C, Todisco P, Volpe U,
Zeppegno P, Monteleone P and
Monteleone AM (2021) How Is the
History of Early Traumatic Exposure
Associated With the
Psychopathological Outcomes of
COVID-19 Related Lockdown and
Subsequent Re-opening in People
With Eating Disorders? Front. Psychiatry 12:789344. doi: 10.3389/fpsyt.2021.789344 December 2021 | Volume 12 | Article 789344 Frontiers in Psychiatry | www.frontiersin.org 1 Cascino et al. COVID-19 and Eating Disorders dissatisfaction, and purging behaviors. These differences were seen before COVID-
19 related restrictions as well as during the lockdown period and after the easing of
COVID-19 related restrictions. In line with the “maltreated ecophenotype” theory, these
results may suggest a clinical vulnerability of maltreated people with EDs leading to a
greater severity in both general and ED-specific symptomatology experienced during
the exposure to the COVID-19 pandemic. INTRODUCTION Several factors, such as
social isolation, family conflict, disruption in routine activities,
and everyday life, heightened exposure to ED-specific media
messages and fear of contagion, may have contributed to the
vulnerability of people with EDs to the impact of COVID-19
pandemic (50, 56). We conducted a secondary analysis of data obtained through
an online survey filled in by Italian participants with EDs after
the easing of lockdown measures (54). We hypothesized that
people with EDs and history of early traumatic experiences
would exhibit greater worsening of general and ED-related
psychopathology during the COVID-19 lockdown and the
following re-opening compared to people without early exposure
to adverse experiences. Frontiers in Psychiatry | www.frontiersin.org Keywords: COVID-19, eating disorder, childhood maltreatment, stress, psychopathology Participants p
Patients previously admitted to specialist ED units located
in different regions of Italy and diagnosed with anorexia
nervosa (AN), atypical AN, bulimia nervosa (BN), binge-eating
disorder (BED), and other specified feeding or eating disorders
(OSFED) according to the DSM-5 criteria were asked to fill
in an anonymous online survey. The diagnosis was made by
expert psychiatrists through face-to-face clinical interviews at
admission. Participants had to meet the following inclusion
criteria: (a) no comorbid schizophrenia or bipolar disorder; (b)
no intellectual disability; (c) absence of physical comorbidity
not related to the ED. Participants were invited to participate
in the survey during a 20-day period from 1st June 2020 up
to and including 21st June 2020. The local ethical committee
communicated us that, in line with local legislation and national
guidelines, the completion of an anonymous online survey did Traumatic
experiences
during
development
have
been
acknowledged as important risk factors for several psychiatric
disorders (57), including EDs (58). Clinical features (for
instance, in terms of age at onset of the disorder and psychiatric
comorbidity) as well as the identification of specific biological
markers in patients with childhood maltreatment led Teicher and
Samson (57) to suggest the existence across individuals suffering
from a psychiatric condition of a “maltreated ecophenotype”
subgroup with possibly different clinical presentation, biological
underpinning, and prognosis. This perspective offers a functional
understanding of symptoms highlighting their developmental
influences (59). In accordance with this hypothesis, people with EDs and a
history of childhood maltreatment have been reported to show December 2021 | Volume 12 | Article 789344 Frontiers in Psychiatry | www.frontiersin.org 2 COVID-19 and Eating Disorders Cascino et al. not require their approval. The consent was to be considered
implicit when participants accepted to fill in the survey. experience as between-subject factors and post-hoc Tukey’s test
were performed. Greenhouse-Geisser sphericity correction was
applied where appropriate. Demographic variables that differed
among groups were added as covariates in the analyses. A
statistical threshold of p < 0.05 was set as significant. General Psychopathology Two way ANOVA with repeated measures showed a significant
effect of time for symptoms of anxiety [F(2,614) = 12.27, p = 5.93
× 10−6], depression [F(2,614) = 4.19, p = 0.01], PTSS [F(1.95,599.16)
= 6.16, p = 0.002], panic [F(2,614) = 3.41, p = 0.03], insomnia
[F(2,614) = 3.72, p = 0.02], suicide ideation [F(1.87,573.74) = 6.08,
p = 0.003], but not for OCS [F(1.57,480.1) = 1.13, p = 0.31]. Indeed, compared to the pre-pandemic phase all but OCS scores
were significantly higher after the start of COVID-19 related
restrictions (Figure 1). Participants were also asked if they had suffered any kind of
traumatic experience such as sexual, physical, or emotional abuse
or physical or emotional neglect (e.g., my family said hurtful
things, I got hit badly enough to be noticed, I was sexually
abused, I did not feel loved, I didn’t have enough to eat), and if
so if they had suffered it in childhood (up to the age of 10) or
adolescence (age between 11 and 18 years). Based on the history
of traumatic experiences, the participants were split into three
groups: patients with EDs and no traumatic experiences, patients
with EDs and childhood traumatic experiences, and patients with
EDs and adolescent traumatic experiences. Between-group comparisons and post-hoc Tukey’s test are
summarized in Table 2. Post-hoc Tukey’s tests showed that anxiety and PTSS scores
were significantly lower in noMal participants compared to both
childMal (t = 2.54, p = 0.03 for anxiety and t = 2.44, p = 0.03
for PTSS) and adoMal groups (t = 2.29, p = 0.04 for anxiety and
t = 3.91, p < 0.01 for PTSS), while OCS were significantly lower
in noMal participants than in adoMal group (t = 2.52, p = 0.03)
and panic was significantly lower in noMal participants than in
childMal ones (t = 2.73, p = 0.02). Clinical and Demographic Characteristics Based
on
the
self-reported
traumatic
experience,
91
participants were included in the group without traumatic
experience (noMal), 119 participants in the group with a self-
reported traumatic experience during childhood (childMal),
and 102 participants in the group with a self-reported traumatic
experience
during
adolescence
(adoMal). The
diagnostic
composition of the sample was the following: 179 participants
(57.4%) had a current AN or atypical AN, 63 (20.2%) had a
current BN, 48 (15.4%) had a current BED, 22 (7.05%) had a
current OSFED. No statistically significant difference emerged
in the diagnostic composition of the three groups (χ2 = 5.29,
p = 0.51). The groups differed in age and self-reported illness
duration [F(2,309) = 3.38, p = 0.03 and F(2,309) = 4.12, p = 0.02,
respectively], but not in body mass index (BMI) and treatment
duration [F(2,309) = 0.09, p = 0.91 and F(2,309) = 2.19, p =
0.11, respectively] (Table 1). Post-hoc Tukey’s test revealed that
noMal participants had an older age than adoMal participants
(t = 2.58, p = 0.03) while childMal participants had a longer
illness duration than adoMal participants (t = 2.85, p = 0.01). Therefore, age and treatment duration were entered as covariates
in the ANOVA with repeated measures. The survey included a range of quantitative questions
regarding both general and ED-specific psychopathology and
it took ∼20 min to be completed. Explored dimensions were
anxiety, depression, post-traumatic stress symptoms (PTSS),
obsessive-compulsive
symptoms
(OCS),
panic
symptoms,
insomnia, suicide ideation. Questions related to these dimensions
were adapted from the following questionnaires: Generalized
Anxiety Disorder 7 (69), Patient Health Questionnaire 9 (70),
PTSD Checklist for DSM-5 (71), and Obsessive-Compulsive
Inventory (72). Items included were selected as the most
consistent with the DSM-5 criteria for each psychiatric disorder. Questions specifically related to EDs psychopathology and
behaviors included in the survey were adapted from the Eating
Disorders Inventory [EDI-2; (73)]. The selected questions were
representative of each EDI-2 subscale. Moreover, participants
were asked to account for the use of laxatives and diuretics
and the level of physical activity, which were reported as
episode/week and hours/day, respectively. Questions referred to three different time periods: 2 weeks
before the spread of COVID-19 emergency; the lockdown period
or “Phase 1” (that in Italy covered the months of March and
April 2020); 2 weeks after the end of lockdown or “Phase 2” (that
in Italy started on May 4, 2020). Study Design and Measures The online survey included a broad range of items aimed to assess
the impact of the COVID-19 pandemic on the mental health of
people with EDs. The online survey included a broad range of items aimed to assess
the impact of the COVID-19 pandemic on the mental health of
people with EDs. Clinical and Demographic Characteristics Each general psychopathology
item was rated on a 10-point scale (0: not at all, 10: maximum),
while ED specific items were rated on a 6-point scale, which was
consistent with the original version of the EDI-2. RESULTS Participants were asked to report their age, gender identity,
geographic location (Italian Region), duration of illness, and
undergoing treatments. Four different survey data collectors (one
for each main ED diagnosis) were created. Each local investigator
sent to the patients of her/his ED unit an email including a hyper-
link to the survey from data collectors of the corresponding
diagnosis and received completion feedback from patients. Clinical and Demographic Characteristics
Clinical and demographic characteristics of the whole sample and
changes in general psychopathological dimensions over the three
explored time periods are reported in Monteleone et al. (54). Statistical Analysis TABLE 1 | Demographic characteristics of participants according to self-reported traumatic experiences. ted general and specific psychopathology and symptoms in participants with eating disorders according to self-reported history of
S, obsessive-compulsive symptoms; PTSS, post-traumatic stress symptoms. *Group effect: p < 0.05; §time effect: p < 0.05. FIGURE 1 | Scores of self-reported general and specific psychopathology and symptoms in participants with eating disorders ac
early traumatic experiences. OCS, obsessive-compulsive symptoms; PTSS, post-traumatic stress symptoms. *Group effect: p < significantly these results with the exception for a marginal effect
of age on OCS [F(1,307) = 4.51, p = 0.04]. 2.69, p = 0.02) and purge-vomit was lower in noMal group than
in adoMal group (t = 2.69, p = 0.04). No significant time X group interaction emerged from the
analyses. Participants’ age and illness duration did not affect
significantly these results except for the effects of age on binge
[F(1,307) = 12.15, p = 0.001], emotional alienation [F(1,307) =
13.69, p = 0.001] and laxative/diuretics abuse [F(1,307) = 5.00, p
= 0.02] and the effect of illness duration on emotional alienation
[F(1,307) = 10.15, p = 0.002]. ED-Related Psychopathology Two way ANOVA with repeated measures showed a significant
effect of time for ineffectiveness [F(2,614) = 7.33, p = 0.001], social
security [F(2,614) = 9.57, p = 0.001], weight concern [F(1.8,569.15)
= 5.55, p = 0.005], emotional alienation [F(2,614) = 8.35, p =
0.001], and physical activity [F(1.9,588.45) = 5.23, p = 0.006],
but not for body satisfaction [F(1.76,541.93) = 1.12, p = 0.32],
perfectionism [F(2,614) = 0.25, p = 0.77], impulsivity [F(2,614) =
1.26, p = 0.28], binge [F(2,614) = 2.70, p = 0.07], purge-vomit
[F(2,614) = 2.19, p = 0.11], shame of body needs [F(1.89,580.5) =
0.71, p = 0.49], and laxative/diuretics abuse [F(1.7,521.4) = 0.36,
p = 0.66], demonstrating that, compared to the pre-pandemic
period, these symptoms were significantly more severe after the
beginning of COVID-19 related restrictions (Figure 1). Between-
group comparisons and post-hoc Tukey’s test are summarized in
Table 2. Post-hoc Tukey’s tests showed that ineffectiveness was
lower in noMal participants compared to both childMal (t = 3.67,
p < 0.01) and adoMal groups (t = 3.37, p < 0.01), while body
satisfaction was lower in adoMal group than in noMal group (t = Statistical Analysis Statistical analyses were performed using JASP software (2020). Analysis of variance (ANOVA) was performed to test significant
differences among groups in demographic and clinical variables. ANOVA with repeated measures and self-report traumatic No significant time X group interaction emerged from the
analyses. Participants’ age and illness duration did not affect December 2021 | Volume 12 | Article 789344 Frontiers in Psychiatry | www.frontiersin.org 3 COVID-19 and Eating Disorders Cascino et al. TABLE 1 | Demographic characteristics of participants according to self-reported traumatic experiences. No trauma (n = 91)
Childhood trauma (n = 119)
Adolescence trauma (n = 102)
F(2,308)
p
Age
31.71 ± 13.65
28.91 ± 11.97
27.26 ± 10.21
3.38
0.03
Body mass index
20.69 ± 7.48
20.98 ± 9.19
21.22 ± 8.27
0.09
0.91
Illness duration
8.69 ± 9.69
10.73 ± 10.71
7.17 ± 6.73
4.12
0.02
Treatment duration
4.85 ± 7.32
3.94 ± 4.81
3.23 ± 3.65
2.19
0.11
Anorexia nervosa
61 (34%)
64 (36%)
54 (30%)
Bulimia nervosa
14 (22%)
27 (43%)
22 (35%)
Binge eating disorder
11 (23%)
20 (42%)
17 (35%)
OSFED
5 (23%)
8 (36%)
9 (41%)
OSFED, Other specified feeding and eating disorders. FIGURE 1 | Scores of self-reported general and specific psychopathology and symptoms in participants with eating disorders according to self-reported history of
early traumatic experiences. OCS, obsessive-compulsive symptoms; PTSS, post-traumatic stress symptoms. *Group effect: p < 0.05; §time effect: p < 0.05. TABLE 1 | Demographic characteristics of participants according to self-reported traumatic experiences. No trauma (n = 91)
Childhood trauma (n = 119)
Adolescence trauma (n = 102)
F(2,308)
p
Age
31.71 ± 13.65
28.91 ± 11.97
27.26 ± 10.21
3.38
0.03
Body mass index
20.69 ± 7.48
20.98 ± 9.19
21.22 ± 8.27
0.09
0.91
Illness duration
8.69 ± 9.69
10.73 ± 10.71
7.17 ± 6.73
4.12
0.02
Treatment duration
4.85 ± 7.32
3.94 ± 4.81
3.23 ± 3.65
2.19
0.11
Anorexia nervosa
61 (34%)
64 (36%)
54 (30%)
Bulimia nervosa
14 (22%)
27 (43%)
22 (35%)
Binge eating disorder
11 (23%)
20 (42%)
17 (35%)
OSFED
5 (23%)
8 (36%)
9 (41%)
OSFED, Other specified feeding and eating disorders. FIGURE 1 | Scores of self-reported general and specific psychopathology and symptoms in participants with eating disorders according to self-reported history of
early traumatic experiences. OCS, obsessive-compulsive symptoms; PTSS, post-traumatic stress symptoms. *Group effect: p < 0.05; §time effect: p < 0.05. Frontiers in Psychiatry | www.frontiersin.org DISCUSSION These data are in line with research findings
demonstrating that a greater symptoms severity characterize
people with EDs and history of early traumatic experiences
(60) and support the existence of a “maltreated ecophenotype”
clinically different from non-maltreated patients (57). and heightened family conflict, disruption in routine activities
and everyday life, heightened exposure to social media messages,
and fear of contagion, may have contributed to the vulnerability
of people with EDs to the impact of COVID-19 pandemic
(50, 56). In line with our study hypothesis, participants with
EDs and a history of early traumatic experiences showed
higher scores in general and ED-related psychopathology
in the pre-pandemic period, during the pandemic-induced
lockdown and in the following re-opening period compared
to participants with EDs without early traumatic experiences. To our knowledge, only one previous study (51) investigated
the effect of childhood maltreatment on the psychopathology
course during the COVID-19 related lockdown. The authors
found that childhood trauma significantly predicted COVID-19-
related post-traumatic symptomatology in patients with AN. In
line with these data, we observed significantly higher PTS scores
in our population of participants with mixed ED diagnoses and
history of early traumatic experiences. Furthermore, compared to
participants with EDs without trauma history, people with EDs
and history of childhood or adolescent traumatic experiences
reported higher levels of anxiety, panic, and OCS also in the pre-
pandemic period. These data are in line with research findings
demonstrating that a greater symptoms severity characterize
people with EDs and history of early traumatic experiences
(60) and support the existence of a “maltreated ecophenotype”
clinically different from non-maltreated patients (57). Other
ED
specific
psychopathological
variables
(social
security,
perfectionism,
impulsivity,
weight
concern,
binge eating, shame of body needs, physical activity, and
laxative/diuretics abuse) did not differ between participants
with and without history of early maltreatment. In a previous
analysis (54), these psychopathological variables worsened
during the COVID-19 lockdown but, differently from general
psychopatholgical symptoms, they returned to pre-pandemic
levels in the re-opening period. This could be related to the
fact that the easing of COVID-19 related restrictions could not
mean real changes in the everyday life conditions, even if the
survey was taken during June 2020 when the daily number
of COVID-19 cases has dropped significantly in Italy. DISCUSSION The present study investigated changes in general and specific
psychopathology during the COVID-19 related restrictions and
in the following re-opening period in a large population of
Italian patients with EDs with or without a history of early
traumatic experiences. Compared to the pre-pandemic phase, both people with
or without exposure to early traumatic experiences reported a
worsening of general and ED-specific psychopathology during
the COVID 19-induced lockdown and in the following re-
opening period. Perceived social isolation, forced cohabitation Frontiers in Psychiatry | www.frontiersin.org December 2021 | Volume 12 | Article 789344 4 COVID-19 and Eating Disorders Cascino et al. TABLE 2 | Between-group comparison of general and eating disorder related
psychopathology scores. F(2,307)
p
Tukey post-hoc
Anxiety
3.81
0.02
noMal < childMal, adoMal
Depression
1.25
0.29
PTSS
7.7
5.46 × 10−4
noMal < childMal, adoMal
OCS
3.18
0.04
noMal < adoMal
Panic (frequency)
4.07
0.02
noMal < childMal
Insomnia
2.61
0.08
Suicide ideation
1.01
0.37
Ineffectiveness
8.05
0.001
noMal < childMal, adoMal
Social security
1.29
0.28
Body satisfaction
3.83
0.02
adoMal < noMal
Perfectionism
1.92
0.14
Impulsivity
0.61
0.54
Weight concern
2.21
0.11
Binge
0.61
0.55
Purge (vomit)
3.21
0.04
noMal < adoMal
Emotion alienation
1.47
0.23
Shame for body needs
1.57
0.21
Physical Activity
0.52
0.59
Laxative/diuretics
0.06
0.94
PTSS, Post-traumatic stress symptoms; OCS, obsessive-compulsive symptoms; noMal,
patients without history of trauma; childMal, patients with self-reported childhood trauma;
adoMal, patients with self-reported adolescence trauma. TABLE 2 | Between-group comparison of general and eating disorder related
psychopathology scores. isolation, impairment in the family, and/or individual’s economic
condition and fear of being infected. Therefore, the increased
severity of anxious symptoms observed in maltreated patients
with EDs is also consistent with recent experimental research
(62), which hypothesized a biological and emotional vulnerability
to stressful events in this subgroup of people with EDs. Previous
studies identified an altered emotion regulation and cognitive
bias toward social negative stimuli in people with EDs and
early adverse experiences (74, 75). Thus, heightened rejection
sensitivity and emotion regulation difficulties promoted by early
traumatic experiences may contribute to explain the association
of these experiences with a more severe psychopathology. This is
also in line with the research evidence supporting the central role
of affect regulation for mental health (76). Surprisingly, people with EDs and a history of early traumatic
experiences did not differ in depression, insomnia, or suicidal
ideation from those without childhood adverse experiences. Frontiers in Psychiatry | www.frontiersin.org DISCUSSION This
may point to an increased vulnerability of maltreated people with
EDs to anxiety symptoms rather than to depressive ones and/or
may indicate that the COVID-19 pandemic may exacerbate one
type of symptoms more than others, although these hypotheses
remain speculative. However, depressive symptoms have been
found to be worsened during the lockdown in all people with
EDs, suggesting the need for clinicians to address them with ad
hoc interventions (77). PTSS, Post-traumatic stress symptoms; OCS, obsessive-compulsive symptoms; noMal,
patients without history of trauma; childMal, patients with self-reported childhood trauma;
adoMal, patients with self-reported adolescence trauma. As
for
ED-specific
psychopathology,
participants
with
early traumatic experiences reported heightened levels of
ineffectiveness, body dissatisfaction, and purging behavior
(namely, self-induced vomiting). These results are in line
with previous research data. Indeed, low self-esteem and
ineffectiveness have been proposed as possible mediators
between childhood maltreatment and ED-specific symptoms
(78–82). In addition, some studies (83, 84) have reported that
a more severe purging behavior may be promoted by the need
to regulate trauma-induced negative emotions by engaging in
rash actions and risky behaviors. Finally, an association between
childhood maltreatment and body dissatisfaction in adulthood
has been reported in both community samples (85) and people
with EDs (66, 86). and heightened family conflict, disruption in routine activities
and everyday life, heightened exposure to social media messages,
and fear of contagion, may have contributed to the vulnerability
of people with EDs to the impact of COVID-19 pandemic
(50, 56). In line with our study hypothesis, participants with
EDs and a history of early traumatic experiences showed
higher scores in general and ED-related psychopathology
in the pre-pandemic period, during the pandemic-induced
lockdown and in the following re-opening period compared
to participants with EDs without early traumatic experiences. To our knowledge, only one previous study (51) investigated
the effect of childhood maltreatment on the psychopathology
course during the COVID-19 related lockdown. The authors
found that childhood trauma significantly predicted COVID-19-
related post-traumatic symptomatology in patients with AN. In
line with these data, we observed significantly higher PTS scores
in our population of participants with mixed ED diagnoses and
history of early traumatic experiences. Furthermore, compared to
participants with EDs without trauma history, people with EDs
and history of childhood or adolescent traumatic experiences
reported higher levels of anxiety, panic, and OCS also in the pre-
pandemic period. 1. European Commission. New Report: Loneliness Doubles in Europe During the
Pandemic (2021). ETHICS STATEMENT Ethical review and approval was not required for the study
on human participants in accordance with the local legislation
and institutional requirements. Written informed consent from
the participants’ legal guardian/next of kin was not required
to participate in this study in accordance with the national
legislation and the institutional requirements. AUTHOR CONTRIBUTIONS AM, FM, GCa, and PM designed the study, wrote the protocol,
and wrote the manuscript. GA-D, MB, SB, BC, GCo, AF, CR,
VR, PS, CS-G, PT, UV, and PZ collected data. GCa did statistical
analyses. All authors contributed to the article and approved the
submitted version. CONCLUSIONS People with EDs and history of early traumatic experiences
reported heightened anxious and PTS symptoms, ineffectiveness,
body dissatisfaction, and purging behaviors than those without
early adverse experiences, regardless of the age when trauma
occurred. These differences were seen before COVID-19 related
restrictions as well as during the lockdown period and after
the easing of COVID-19 related restrictions. In line with the
“maltreated ecophenotype” theory, it is possible to hypothesize
a vulnerability of maltreated people with EDs, leading to a
greater severity in both general and ED-specific symptomatology
experienced during the exposure to the stressful lockdown related
to the COVID-19 pandemic. The persistence of this detrimental
effect in the following re-opening period may suggest either a
slower recover or a heightened sensitivity to the restoring social
exposure in this patient subgroup. From a clinical perspective, these findings confirm the
need to systematically assess the presence of adverse traumatic
experiences in patients with EDs and to therapeutically address
the ability to adapt to and face adversities (87, 88), likely impaired
in this subgroup of patients with EDs. This may promote more
personalized psychotherapeutic approaches (89–93), possibly
allowing to overcome treatment resistance (94, 95). The
widespread implementation of Internet-delivered psychological
treatments (96–99), associated with the relatively positive
attitudes toward e-therapies in people with eating problems
(100), may be a way to increase access to psychological treatment
for people with EDs. Finally, the important role of general
psychopathological symptoms in maltreated people with EDs
may support the transdiagnostic perspective recently proposed
(101, 102) for the treatment of various emotional disorders. DATA AVAILABILITY STATEMENT The raw data supporting the conclusions of this article will be
made available by the authors, without undue reservation. Some
limitations
of
the
present
study
need
to
be
acknowledged. First, the retrospective design of our assessment
does not allow to exclude recall biases. Indeed, early traumatic
experiences were retrospective and self-reported: however, this is
the most common methodology of early trauma data collection
in EDs (103). Moreover, the survey was proposed and retrieved
clinicians who were following the participants with EDs,
which might lead to a bias on reporting traumatic experiences. Regarding psychopathology assessment, the short duration of
time that elapsed between the beginning of COVID-19 outbreak
and data collection partially reduced this bias. Second, in line
with the transdiagnostic ED perspective (104, 105) and with
experimentally shown lack of differences among different ED
diagnoses in the symptom response to stress exposure (62),
we did not account for possible differences between the main
(AN, BN, BED and OSFED) ED diagnoses. This area needs
to be addressed by future studies. Moreover, the methodology
of data collection may have affected the study findings, and DISCUSSION In the
light of the high pre-pandemic symptom levels in people with
EDs, we suggest that the observed lack of differences in those
ED-related psychopathological variables between maltreated and
non-maltreated people with EDs may be explained by a sort of
ceiling effect, which hides a higher vulnerability in maltreated The present data were collected during a traumatic event
which included many kinds of stressors such as social December 2021 | Volume 12 | Article 789344 5 COVID-19 and Eating Disorders Cascino et al. the use of a new online survey may also underpin aspects of
subjectivity. However, since we built the survey by adopting
questions from validated psychometric questionnaires, we
are confident that this limitation had a slight impact on our
findings, although we cannot completely rule out this bias. The relatively small sample size, in particular the low number
of participants with ED diagnosis other than AN, and the
self-reported illness duration may affect the generalizability of
our results. Finally, the cross-sectional design does not allow to
make causal interpretations. people with ED. Since for patients with EDs and history of
early adverse experiences social situations could be stressful
(62), this hypothesis can also be aligned with the observed
lack of difference in the reactivity (e.g., time × group effect) of
maltreated people with EDs to the pandemic restrictions as well
as to the easing of COVID-19 related restrictions: the higher
pre-pandemic levels of psychopathology seen in maltreated
people with EDs may persist, hiding a different reactivity. Remarkably, the age at the trauma occurrence (e.g., childhood
or adolescence) did not contribute to the psychopathological
differences observed in maltreated people with EDs. Previous
studies have suggested that the time of the trauma occurrence
may promote different biological sequelae (57), although no data
have confirmed this hypothesis from a clinical perspective in EDs. However, the retrospective nature of our assessment may affect
this finding, suggesting that further research is needed to explore
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and do not necessarily represent those of their affiliated organizations, or those of
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Corrivetti, Favaro, Renna, Ricca, Salvo, Segura-Garcia, Todisco, Volpe, Zeppegno,
Monteleone and Monteleone. This is an open-access article distributed under the
terms of the Creative Commons Attribution License (CC BY). The use, distribution
or reproduction in other forums is permitted, provided the original author(s) and
the copyright owner(s) are credited and that the original publication in this journal
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Apresentação
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Anais do Museu Paulista
| 2,009
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cc-by
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Apresentação Cecilia Helena de Salles Oliveira
Diretora do Museu Paulista Cecilia Helena de Salles Oliveira
Diretora do Museu Paulista Na obra Combats pour
l’histoire, Lucien Fevbre não somente
convidou os historiadores a proble-
matizar e “complicar” o que parecia
simples, como apontou o necessário
alargamento dos horizontes em que,
até então, a disciplina da história se
situava. Essas lições, enunciadas em
1952, ainda se mantêm pertinentes
e podem ser encontradas, de modo
atualizado, no elenco de artigos que
compõem este volume dos Anais do
Museu Paulista. duzidos. Este é, sem dúvida, o caso
das fontes cartográficas. Os artigos apresentados nesta
edição completam e desdobram o
Dossiê publicado no número anterior
dos Anais (vol. 17, n. 1), igualmente
dedicado à divulgação dos resulta-
dos obtidos com o projeto de pesqui-
sa e a exposição Cartografia de uma
história – São Paulo colonial: mapas
e relatos. Fruto de uma exitosa parceria
multidisciplinar entre pesquisadores
da Universidade de São Paulo, liga-
dos ao Museu Paulista, ao Departa-
mento de História da Faculdade de
Filosofia Letras e Ciências Humanas,
à Cátedra Jaime Cortesão e à Facul-
dade de Arquitetura e Urbanismo, a
investigação resultou, como o leitor
poderá observar, em contribuições
importantes para a discussão dos
sentidos políticos, culturais e simbóli-
cos dos mapas, particularmente no
âmbito da configuração de redes de Alargar horizontes significa
incorporar temas e questões possibi-
litados pelo distanciamento temporal
e pelo acúmulo de conhecimentos. Representa, também, elevar à condi-
ção de documentos certos vestígios
e sinais que, passaram despercebi-
dos quer sob o ponto de vista daqui-
lo que registraram, quer em termos
das práticas e concepções a partir
das quais foram historicamente pro- poder, no período colonial, a entre-
laçar Portugal e a América portugue-
sa. Mais do que isso, porém, os
mapas suscitam interrogações a res-
peito das condições políticas e cien-
tíficas de sua feitura e difusão, bem
como sobre os nexos entre o esqua-
drinhamento dos espaços coloniais
e a definição empírica e conceitual
de um “território”, em especial duran-
te o século XVIII. Nesse sentido, o
mapa e o território ali fixado emer-
gem na condição de artefatos cons-
truídos sob circunstâncias históricas
precisas, a demarcar conhecimentos
e, particularmente, formas de domi-
nação e de intervenção na terra e na
gente que a habitava. Anais do Museu Paulista. v. 16. n.1. jan.-jun. 2008. Cecilia Helena de Salles Oliveira
Diretora do Museu Paulista debate em torno da realização do
parque do Ibirapuera, na primeira me-
tade da década de 1950, quando a
Prefeitura Municipal de São Paulo, com
o apoio do Governo do Estado, deci-
diu concretizar o projeto, com o obje-
tivo de nele sediar as comemorações
do 400º aniversário de fundação da
cidade. Entretanto, o artigo discute, em
outro momento da História e sob pers-
pectivas metodológicas específicas, de
que modo se criou, no espaço urbano
paulistano, um “território” atravessado
de intenções políticas e simbólicas que,
aos poucos, transformou-se e foi reco-
nhecido como referência do solo da
metrópole paulista. Mais uma vez, os Anais trazem
a público artigos que iluminam os lia-
mes entre História e Cultura Material,
valorizando o exercício da curadoria
e o ofício do historiador nas instituições
museológicas. Mas, ao lado do Dossiê, o lei-
tor encontrará um artigo que, à pri-
meira vista, pouca articulação teria
com o restante deste volume da revis-
ta. Trata-se de texto voltado para o 8
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Comparative study of root and soil microbiological activity in individual and co-cultivation of cabbage (Brassica oleraceae L. var. capitata L.)
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Rastenievʺdni nauki
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Растениевъдни науки, 2024, 61 (2)
Bulgarian Journal of Crop Science, 2024, 61 (2)
https://doi.org/10.61308/EKVR9826
Сравнително проучване на коренова и почвена микробиологична
активност при самостоятелно и съвместно отглеждане на зеле
(Вrassicа oleraceae L. var. capitata L.)
Гергана Младенова, Милена Йорданова, Бойка Малчева*
Лесотехнически университет, София, България
*E-mail: boika.malcheva@gmail.com
Резюме: Проведено е сравнително проучване на коренова и почвена микробиологична активност при
самостоятелно и съвместно отглеждане на зеле с други култури: праз, фасул, тагетес, копър и цветен
микс. Взаимното отглеждане на зеле и цветен микс повишава количеството на микроорганизмите
в непосредствена близост до корените на зелето в най-висока степен. Най-ниска е биогенността
на кореновата зона при варианта със зеле и тагетес. При самостоятелното отглеждане на зеле се
установява по-висока стойност на общата микрофлора спрямо вариантите с основна култура зеле и
допълнителни култури тагетес или праз. Комбинирането на зелето с цветен микс, фасул или копър
повишава количеството на микроорганизмите от ризоплана и ризосферата в по-висока степен
отколкото самостоятелното отглеждане на зеле. Основен дял в състава на общата микрофлора заемат
неспорообразуващите бактерии, следвани от бацилите. Прегрупиране се установява при съвместното
отглеждане на зеле и цветен микс, като при този вариант количеството на спорообразуващите бактерии
е по-високо от това на неспорообразуващите бактерии. По-слабо представени са актиномицетите
и плесенните гъби. Каталазната активност е най-висока при контролата, следвана от варианта със
съвместно отглеждане на зеле и праз, а най-ниска при зеле и цветен микс, и зеле и копър, като зависи
значително от влажността на вариантите. Целулазната активност е по-висока при вариантите с култури
спрямо контролата – най-висока при съвместно отглеждане на зеле и праз, и зеле и тагетес, а най-ниска
при зеле и фасул, като зависи значително от общата микрофлора.
Ключови думи: коренова микрофлора; почвена биогенност; ензимни активности
Comparative study of root and soil microbiological activity in individual and
co-cultivation of cabbage (Brassica oleraceae L. var. capitata L.)
Gergana Mladenova, Milena Yordanova, Boyka Malcheva*
University of Forestry, Sofia, Bulgaria
*E-mail: boika.malcheva@gmail.com
Citation: Mladenova, G., Yordanova, M., & Malcheva, B. (2024). Comparative study of root and soil
microbiological activity in individual and co-cultivation of cabbage (Brassica oleraceae L. var. capitata L.)
Bulgarian Journal of Crop Science, 61(2) 37-46 (Bg).
Abstract: A comparative study of root and soil microbiological activity was carried out during independent
and co-cultivation of cabbage with other crops: leeks, beans, tagetes, fennel and flower mix. The intercropping
of cabbage and flower mix increases the amount of microorganisms in the immediate vicinity of the cabbage
roots to the highest degree. The biogenicity of the root zone is the lowest in the variant with cabbage and tagetes.
In the independent cultivation of cabbage, a higher value of the total microflora is established compared to the
variants with the main cabbage crop and additional tagetes or leek crops. Combining cabbage with flower mix,
37
Растениевъдни науки, 2024, 61 (2)
Bulgarian Journal of Crop Science, 2024, 61 (2)
beans or fennel increased the amount of microorganisms from the rhizoplane and rhizosphere to a higher degree
than growing cabbage alone. The main share in the composition of the total microflora is occupied by non-sporeforming bacteria, followed by bacilli. Regrouping was found in the co-cultivation of cabbage and flower mix,
and in this variant the amount of spore-forming bacteria was higher than that of non-spore-forming bacteria.
Actinomycetes and mold fungi are less represented. Catalase activity was highest in the control, followed by the
variant with co-cultivation of cabbage and leek, and lowest in cabbage and flower mix, and cabbage and fennel,
depending significantly on the humidity of the variants. Cellulase activity was higher in the variants with crops
compared to the control - highest in the co-cultivation of cabbage and leek, and cabbage and tagetes, and lowest
in cabbage and beans, depending significantly on the total microflora.
Key words: root microflora; soil biogenicity; enzyme activities
ВЪВЕДЕНИЕ
Проучването на взаимодействията корени-почва-микроорганизми в земеделската поч
вена екосистема е от съществено значение
за повишаване плодородието на почвата, качеството и добива на селскостопанските култури. Корените на растенията са колонизирани от удивителен брой микроорганизми,
като броят на микробните гени в ризосферата
далеч надвишава броя на растителните гени
(Mendes et al., 2013). При проучване на ризосферната бактериална общност на 14 растителни вида са установени повече от 1200 различими бактериални таксони от 35 различни
таксономични разреда, като Proteobacteria е
най-доминиращият тип (Hawkes et al., 2007).
Миксомицетите и свързаните с тях микроорганизми (бактерии, гъбички) са по-изобилни
в кореновата зона на зеле (Brassica oleracea) и
боб (Vicia faba), отколкото в почва извън кореновата зона (Amewowor & Madelin, 1991).
Според друго изследване (Ling et al., 2022) в
реалните селскостопански системи има спад
в микробното разнообразие в близост до ризосферата. През последните години има доказателства, че няколко полезни за растенията ризосферни бактерии не само се свързват
с растенията, но и с насекоми, като по този
начин взаимодействията на тези бактерии с
тяхната среда са дори по-сложни, отколкото
се смяташе досега и могат да се разпрострат
далеч извън ризосферата (Pronk et al., 2022).
Интересът към използването на полезни ри38
зосферни микроорганизми става глобален,
тъй като може да представлява екологична
алтернатива на химизацията в ерата на заплахи за отглеждането на културите в съвременния свят (Paliwoda & Mikiciuk, 2020). Ризосферните микроорганизми имат жизненоважна функция за развитието и здравето на
растенията (Fan et al., 2017).
Главестото зеле Вrassicа oleraceae L. var.
capitata L. принадлежи към семейство Brassicaceae. Кореновата му система се състои
от централен корен и голям брой странични
коренови разклонения, които са разположени
на дълбочина 40 – 50 cm. Отделни разклонения могат да проникнат и по-дълбоко до около 75 – 100 cm. Кореновата система има добра
възстановителна способност, при загърляне
на стъблото се образуват адвентивни корени,
които допринасят за увеличаване на нейния
обем (Shaban et al., 2014).
Ризосферните микробни съобщества са мно
го разнообразни и силно зависещи от типа растителност, кореновите ексудати и фактори на
почвената среда – температура, влажност, рН,
тип почва, механичен състав на почвата, наторяване, обработка на почвата и други фактори. В ризосферната почва при отглеждане на
китайско зеле Proteobacteria, Acidobacteriota,
Actinobacteriota и Bacteroidota са доминиращите бактериални типове, докато Olpidiomycota,
Ascomycota, Mortierellomycota и Basidiomycota
са преобладаващите гъбични типове (Wei et al.,
2023). Изследването на ризосферната почвена
микробна общност и нейната връзка с основна-
Растениевъдни науки, 2024, 61 (2)
та почвена микробна общност е от решаващо
значение за поддържане на здравето и плодородието на почвата и подобряване на добивите
от селскостопански култури. Общо 20 морфологично различни, култивирани бактериални
щама са възстановени от ризосферната почва
на зеле, култивирано в биофумигирано поле,
като най-голямата част от изолатите принадлежат към род Bacillus, а другите изолирани
бактериални родове са Pseudomonas, Serratia,
Stenotrophomonas, Microbacterium и Priestia
(Al-Daghari et al., 2023). При изследване на ризосферната микрофлора на диво зеле (Brassica
oleracea L.) Gols et al. (2023) установяват, че гъбичните общности се различават по-силно отколкото бактериалните общности. По-високото количество на Bacillus subtilis в почвената и
ризосферна зони на зеле може да насърчи растежа на растенията чрез отделяне на биоактивни съединения (гиберилини) (Kang et al., 2019).
Установени разлики в качеството на отделните
растения при отглеждане на зеле според някои
автори се дължат на варирането на микробните съобщества в почвата, ризосфера и ризоплана (Gols et al., 2023; Lundberg et al., 2012).
Микробната общност притежава потенциал за по-бърз растеж и обмен, поради което
е по-реактивен компонент на земната екосистема за външен стрес, отколкото растенията и
животните (Panikov, 1999). Почвените микроорганизми са чувствителни към промени в заобикалящата ги среда (Schinner & Sonnletner,
1996). Микробната биомаса и ензимните активности са признати за ранни показатели за
настъпващи промени в резултат на различни
земеделски практики. Освен това, съществуват значителни доказателства, че те могат
да бъдат използвани за оценка на влиянието
на управлението и използването на почвите
(Caravaca et al., 2002; Saggar et al., 1999). Почвената микробна общност произвежда извънклетъчни ензими, които имат основна роля за
разграждането на растителните остатъци и
поддържането на кръговратите на хранителните вещества в почвата. Взаимното отглеждане на селскостопански култури значително
повишава ензимната активност със средно
Bulgarian Journal of Crop Science, 2024, 61 (2)
13% (P <0,001), като ефектът зависи от вида на
основната и междинните култури, категорията на ензима, експериментални и екологични
фактори (Curtright & Tiemann, 2021).
Ризосферните почвени микроорганизми и
ензими са най-активните компоненти в почвата, които са тясно свързани с почвения въглероден цикъл и могат да отразяват чувствително динамиката на почвения органичен
въглерод (Qu et al., 2022). Ризосферата, в която може да се отдели значително количество
нетен фиксиран въглерод, е сферата за микробна активност, където кореновите ексудати и други ризоотлагания играят важна роля
при определяне на състава на микробната
общност в ризоплана и ризосфера (Jones et al.,
2009; Raaijmakers et al., 2009).
Повечето проучвания са фокусирани върху
бактериални и гъбични съобщества (Zhang et
al., 2017) и има ограничени изследвания върху
свойствата на микробните съобщества в ризосферата (Fan et al., 2018). Микробите от ризоплана и ризосфера, които директно взаимодействат с корените на растението, влияят положително или отрицателно на растението (Gols et
al., 2023). Ризобактериите и арбускуларните
микоризни гъби могат да стимулират растежа
на растенията, докато патогенните микроби
могат да имат вреден ефект върху растенията
(Lugtenberg & Kamilova, 2009; Whipps, 2001;
Barea et al., 2005; Raaijmakers et al., 2009).
Целта на изследването беше проучване и
анализ на количеството, състава и активността на микрофлората в ризоплана и ризосфера
на зеле при самостоятелно и съвместно отглеждане с други култури. Проучването беше
фокусирано върху изследване на микробната
общност в зоните най-близо до корените на
растенията, а не в почвата като цяло, която
микрофлора е определяща за почвеното плодородие и добива от културите.
МАТЕРИАЛИ И МЕТОДИ
Експерименталната работа е проведена
през втората половина на 2022 година в Учеб39
Растениевъдни науки, 2024, 61 (2)
но опитно поле “Враждебна” към Лесотехнически университет, София, България, върху
алувиално-ливадна, слабо каменлива почва.
Опитът е заложен по метода на рандомизираните парцели с по четири повторения, с
големина на опитната парцелка от 3,5m на
5m. Основната култура е бяло късно главесто зеле (Вrassicа oleraceae L. var. capitata L.),
сорт „Балкан“.
Изследването на микрофлората е проведено на корени и полепналите непосредствено
върху корените почвени частици (микрофлора от ризоплана и ризосфера) при отглеждане на основна култура зеле – самостоятелно
и при съвместно отглеждане с други култури
по схемата представена в Таблица 1.
Корените на зелето са извадени и съхранени по-малко от 24 часа в стерилни хартиени пликове и в хладилник при температура 4
℃. Смлени са без отстраняване на почвените
частици по тях.
Bulgarian Journal of Crop Science, 2024, 61 (2)
Микробиологичните изследвания включват определяне на аеробни, мезофилни групи микроорганизми. Използван е метод на
пределните разреждания, направени са повърхностни плътни посевки върху твърди хранителни среди (месопептонен агар
за неспорообразуващи бактерии и бацили;
Actinomycetes isolation agar за актиномицети
и бактерии, усвояващи минерален азот; Чапек-Докс агар за плесенни гъби) и последващо
култивиране в термостат при 25 ℃ и отчитане
на колониеобразуващи единици. Резултатите
са преизчислени за 1 гр. абсолютно сух субстрат (Мishustin & Emtsev, 1989). Определена
е обща микрофлора и минерализационен коефициент (Мishustin & Runov, 1957; Мalcheva
& Naskova, 2018).
Каталазната активност е определена по
мангано-метричен метод (Khaziev, 1976).
Целулазната активност е определена в динамика чрез залагане на филтърни ленти вър-
Таблица 1. Варианти на изследване
Table 1. Research variants
№ на вариант/
Variant №
В0
Основна култура/
Basic culture
Контрола – почва без растителност/
Control – soil without vegetation
В1
В2
В3
В4
В5
В6
40
Зеле/
Cabbage
Brassica oleraceae L. var. capitate L.
Допълнителна култура/
Additional culture
Без допълнителна култура/
No additional culture
Праз/
Leek
Allium porrum L.
Фасул/
Beans
Phaseolus vulgaris L.
Тагетес/
Tagetes
Tagetes patula L.
Цветен микс: невен (Calendula officinalis L.),
копър (Anethum graveolens L.), бораго (Borago
officinalis L.), синя метличина (Centaurea
cyanus L.), фацелия (Phacelia sp. Jus.), елда
(Fagopyrum esculentum Mill.)/
Flower mix: calendula, borage, blue cornflower,
phacelia, buckwheat
Копър/Dill
Anethum graveolens L.
Растениевъдни науки, 2024, 61 (2)
Bulgarian Journal of Crop Science, 2024, 61 (2)
ху смлените корени и полепналата почва по
тях в петри, и последващо отчитане на процента разградена площ (Khaziev, 1976).
Влажността на пробите е определена на
влагомерна везна, марка DBS.
Статистическата обработка на резултатите
включва осредняване на стойностите за микробиологичните показатели от три повторения и корелационен анализ на MS Excel, показващ зависимости между някои от изследваните показатели.
РЕЗУЛТАТИ И ДИСКУСИЯ
Биогенността на вариантите показва различия при самостоятелно и съвместно отглеждане на зеле (Tаблица 2).
Самостоятелното и съвместно отглеждане
на зеле повишава общото количество на микрофлората от ризоплана и ризосфера спрямо
контролата (без растителност) - 1,6 пъти при
самостоятелно отглеждане на зеле и от 0,8 до
1,6 пъти при съвместно култивиране на зеле
с други култури. Съвместното отглеждане на
зеле и цветен микс повишава биогенността на
този вариант (В5) в най-висока степен. Следват вариантите: В3 (зеле и фасул), В6 (зеле и
копър), В1 (зеле). Най-ниска е стойността на
общата микрофлора при взаимното отглеждане на зеле и тагетес. Минерализационната
активност е най-висока при контролата. Съвместното отглеждане на зеле с други култури повишава скоростта на разграждане на
органичните вещества в почвата спрямо самостоятелното отглеждане на зеле с изключение при В5 (зеле и цветен микс). Най-висока е
стойността на минерализационния коефициент при В4 (зеле и тагетес), при който вариант
общата микрофлора е с най-ниска стойност.
Следователно активността на микроорганизмите не зависи еднозначно само от количеството на микроорганизмите. Кореновите
разклонения на зелето могат достигнат до 100
Таблица 2. Количество и състав на микрофлора от ризоплана и ризосфера (КОЕ/g)
Table 2. Amount and composition of microflora from the rhizoplane and rhizosphere (CFU/g)
Вариант/
Variant
В0 Контрола - без
растителност/
Control - without
vegetation
В1 Зеле/
Cabbage
В2 Зеле+праз/
Cabbage + leek
В3 Зеле+фасул/
Cabbage + beans
В4 Зеле+тагетес/
Cabbage + tagetes
В5 Зеле+цветен микс/
Cabbage+flower mix
В6 Зеле+копър/
Cabbage + fennel
Микромицети/
Micromycetes
Бактерии,
усвояващи
минерален
азот/
Bacteria
assimilating
mineral
nitrogen
Минерализационен
коефициент/
Mineralization
coefficient
694200
53400
4722933
4,063
1287000
54000
9000
1453500
0,499
1679600
884000
81600
54400
5895600
2,300
3273600
2198400
984000
62400
28800
3187200
1,002
2018500
1100000
775500
93500
49500
5214000
2,780
3460200
1576800
1664400
51100
167900
1299400
0,401
3218400
1728000
1339200
113400
37800
2894400
0,944
Обща
микрофлора/
Total
microflora
Неспорообразуващи
бактерии/
Бацили/
Non-spore- Bacilli
forming
bacteria
Актиномицети/
Actinomycetes
1909940
1085800
76540
2974500
1624500
2699600
41
Растениевъдни науки, 2024, 61 (2)
Bulgarian Journal of Crop Science, 2024, 61 (2)
сm дълбочина, което увеличава и разпространението на микроорганизми от ризоплана и
ризосферата (Shaban et al., 2014). Amewowor
& Madelin (1991) установяват, че бактерии
и гъбички са по-изобилни в кореновата зона
на зеле (Brassica oleracea), отколкото в почва
извън кореновата зона, като гъбичните общности при диво зеле се различават по-силно
отколкото бактериалните общности (Gols et
al., 2023). Други автори (Ling et al., 2022) установяват, че в реалните селскостопански
системи има спад в микробното разнообразие в близост до ризосферата. В ризосферната почва при отглеждане на китайско зеле
Proteobacteria, Acidobacteriota, Actinobacteriota
и Bacteroidota са доминиращите бактериални
типове, докато Olpidiomycota, Ascomycota,
Mortierellomycota и Basidiomycota са преобладаващите гъбични типове (Wei et al., 2023).
Други автори (Al-Daghari et al., 2023) установяват, че в ризосферната почва на зеле доминира род Bacillus, а другите изолирани бактериални родове са Pseudomonas, Serratia,
Stenotrophomonas, Microbacterium и Priestia.
Bacillus subtilis в почвената и ризосферна зони
на зеле може да насърчи растежа на растенията чрез отделяне на биоактивни съединения
(гиберилини) (Kang et al., 2019). Установени
разлики в качеството на отделните растения
при отглеждане на зеле според някои автори
се дължат на варирането на микробните съобщества в почвата, ризосфера и ризоплана
(Gols et al., 2023; Lundberg et al., 2012).
Основен дял в състава на общата микрофлора заемат неспорообразуващите бактерии
(57% при контролата; най-висок процент при
В3 зеле и фасул – 67%) при всички варианти,
с изключение при съвместното отглеждане на
зеле и цветен микс (В5), при който вариант
количеството на бацилите е по-високо от това
на неспорообразуващите бактерии. При контролата следват актиномицетите (2-ро място), бацилите (3-то място) и най-слабо представени са микромицетите (плесенни гъби).
При вариантите с растителност след неспорообразуващите бактерии следват бацилите
(2-ро място), актиномицетите (трето място)
и най-слабо представени са плесенните гъби.
Изключение от тази тенденция се установява
при взаимното участие на зеле и цветен микс
1,8
1,6
1,4
1,2
1
0,8
0,6
0,4
0,2
0
В0 Контрола
В1 Зеле
В2 Зеле+праз В3 Зеле+фасул
В4
Зеле+тагетес
В5
В6 Зеле+копър
Зеле+цветен
микс
Фигура 1. Каталазна активност (ml O2/30 min) на кореновата и почвена микрофлора
Figure 1. Catalase activity (ml O2/30 min) of root and soil microflora
42
Растениевъдни науки, 2024, 61 (2)
Bulgarian Journal of Crop Science, 2024, 61 (2)
(В5), където количеството на плесенните
гъби е по-високо от това на актиномицетите.
Каталазната активност на кореновата и почвена микрофлора е представена на Фигура 1.
Резултатите показват, че самостоятелното
и съвместно отглеждане на зеле не повишава каталазната активност на микрофлората от
ризоплана и ризосфера – стойностите на ензима са по-ниски при вариантите с растителност спрямо контролата (без растителност).
При вариантите с растителност най-висока е
каталазната активност при съвместното отглеждане на зеле и праз (В2), по-висока от
тази при самостоятелно отглеждане на зеле
(В1). Най-ниски са стойностите на каталазата
при съвместно отглеждане на зеле и цветен
микс (В5), и зеле и копър (В6). Каталазната
активност на почвените микроорганизми не
зависи само от тяхното количество. Значение
за общата каталазна активност има и каталазата от растителен произход. Активността на
каталазата зависи от много фактори, влияещи
поотделно и в комплекс – количество на микроорганизмите, подходяща влажност, тем-
пература, запасеност с хранителни вещества
на почвите, както и от типа растителност.
При експеримент с рапица също се установява по-ниска каталазна активност при вариантите с растителност спрямо контролата без
растителност (Malcheva et al., 2019).
За разлика от калазата целулазната активност се повишава при вариантите с растителност спрямо контролата (без растителност)
(Фигура 2).
Разграждането на целулозата до 100% протича най-бързо при съвместното отглеждане
на зеле и праз (В2), и зеле и тагетес (В4) – 45
дни. Следват вариантите със самостоятелно
отглеждане на зеле (В1) и съвместно отглеждане на зеле и цветен микс (В5), и зеле и копър
(В6) – 60 дни. При вариантите със съвместно
отглеждане най-ниска е целулазната активност при комбинирането на зеле и фасул (В3).
Корелационните зависимости за някои от
изследваните показатели са представени в
следващата Таблица 3.
Значителна положителна корелация се установява като влияние на целулазната актив-
100
90
80
70
60
50
40
30
20
10
0
В0 Контрола
В1 Зеле
В2
Зеле+праз
15-ти ден
В3
В4
В5
В6
Зеле+фасул Зеле+тагетес Зеле+цветен Зеле+копър
микс
30-ти ден
45-ти ден
60-ти ден
Фигура 2. Целулазна активност (% разградена площ) на кореновата и почвена микрофлора
Figure 2. Cellulase activity (% degraded area) of root and soil microflora
43
Растениевъдни науки, 2024, 61 (2)
Bulgarian Journal of Crop Science, 2024, 61 (2)
Таблица 3. Корелационни зависимости
Table 3. Correlational dependencies
Показател/
Indicator
Обща микрофлора/
Total microflora
Влажност/
Humidity
Каталаза/
Catalase
Целулаза/
Cellulase
Обща микрофлора/
Total microflora
Каталаза/
Catalase
Целулаза/
Cellulase
1
-0,424959371
1
-0,535037984
0,5343006
1
0,507441364
-0,6270208
-0,668104
ност от общото количество микроорганизми,
а на каталазната активност от влажността на
почвата и корените.
ИЗВОДИ
Самостоятелното и съвместно отглеждане
на зеле повишава общото количество на микрофлората от ризоплана и ризосфера на зеле,
в най-висока степен при взаимно отглеждане
на зеле и цветен микс. Най-ниска е биогенността на кореновата зона при варианта със
зеле и тагетес. При самостоятелното отглеждане на зеле се установява по-висока стойност
на общата микрофлора спрямо вариантите с
основна култура зеле и допълнителни култури тагетес или праз. Докато комбинирането на
зелето с цветен микс, фасул и копър повишава биогенността на почвата в непосредствена
близост до корените в по-висока степен отколкото самостоятелното отглеждане на зеле.
Основен дял в състава на общата микрофлора заемат неспорообразуващите бактерии
(с изключение при съвместното отглеждане на зеле и цветен микс, при който вариант
спорообразуващите бактерии доминират), а
най-слабо представени като цяло са плесенните гъби. Неспорообразуващите бактерии
и бацилите участват в началните етапи на
разграждане на органичните вещества в почвата, а актиномицетите и плесенните гъби
в по-крайните етапи на деструкция на орга44
Влажност/
Humidity
1
ничната материя. Скоростта на разграждане
на органичните вещества в почвата не зависи
еднозначно от общото количество на микроорганизмите.
Каталазната активност на кореновата и
почвена микрофлора не се повишава при самостоятелно и съвместно отглеждане на зеле
спрямо контролата без растителност. При вариантите с растителност най-висока е каталазната активност при съвместното отглеждане на зеле и праз, по-висока от тази при самостоятелно отглеждане на зеле. Най-ниски
са стойностите на каталазата при съвместно
отглеждане на зеле и цветен микс, и зеле и копър. Каталазната активност зависи значително от влажността на почвата и корените.
Целулазната активност на кореновата и
почвена микрофлора е най-висока при съвместното отглеждане на зеле и праз, и зеле
и тагетес. Следват вариантите със самостоятелно отглеждане на зеле и съвместно отглеждане на зеле и цветен микс, и зеле и копър. Най-ниска е целулазната активност при
съвместното отглеждане на зеле и фасул. Целулазната активност зависи значително от общата микрофлора.
БЛАГОДАРНОСТИ
Настоящото изследване е подкрепено от
МОН по НП „Млади учени и постдокторанти - 2“.
Растениевъдни науки, 2024, 61 (2)
Конфликт на интереси: Авторите декларират, че липсва конфликт на интереси.
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Panax ginseng and salvia miltiorrhiza supplementation abolishes eccentric exercise-induced vascular stiffening: a double-blind randomized control trial
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© 2016 The Author(s). Open Access This article is distributed under the terms of the Creative Commons Attribution 4.0
International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and
reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to
the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver
(http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated. Lin et al. BMC Complementary and Alternative Medicine (2016) 16:168
DOI 10.1186/s12906-016-1139-4 Lin et al. BMC Complementary and Alternative Medicine (2016) 16:168
DOI 10.1186/s12906-016-1139-4 Lin et al. BMC Complementary and Alternative Medicine (2016) 16:168
DOI 10.1186/s12906-016-1139-4 Panax ginseng and salvia miltiorrhiza
supplementation abolishes eccentric
exercise-induced vascular stiffening: a
double-blind randomized control trial Hsin-Fu Lin1,6, Kang Tung2, Chun-Chung Chou3, Ching-Che Lin4, Jaung-Geng Lin5 and Hirofumi Tanaka6* * Correspondence: htanaka@austin.utexas.edu
6Department of Kinesiology and Health Education, The University of Texas at
Austin, 2109 San Jacinto Blvd, D3700, Austin, TX 78712, USA
Full list of author information is available at the end of the article Abstract Background: Muscle damage induced by unaccustomed or eccentric exercise results in delayed onset vascular
stiffening. We tested the hypothesis that a 7-day supplementation of panax ginseng and salvia miltiorrhiza prior to
an acute eccentric exercise could attenuate arterial stiffening. Methods: By using a double-blind study placebo-controlled randomized design, subjects were randomly assigned
to either the Chinese herb (N = 12) or the placebo group (N = 11) and performed a downhill running (eccentric
exercise) trial and a control (seated rest) trial. Results: Muscle soreness increased 1–2 days after exercise similarly in both groups, whereas the herb group
demonstrated a faster recovery on active range of motion. Plasma creatine kinase concentration increased significantly
at 24 h in both groups but the magnitude of increase was attenuated in the herb group. Arterial stiffness as measured
by carotid-femoral pulse wave velocity increased significantly at 24 h in the placebo group but such increase was
absent in the herb group. Flow-mediated dilation did not change in either group. Plasma concentrations of CRP and
IL-6 increased in the placebo group but no such increases were observed in the herb group. Changes in arterial
stiffness induced by eccentric exercise were associated with the corresponding changes in IL-6 (r = 0.46, P < 0.05). Conclusions: A short-term Chinese herb supplementation of panax ginseng and salvia miltiorrhiza ameliorated the
delayed onset vascular stiffening induced by acute downhill running exercise. Trial registration: ClinicalTrials.gov: NCT02007304. Registered Dec. 5, 2013) Keywords: muscle damage, inflammation, arterial stiffness Participants A total of 24 apparently healthy young male adults sur-
rounding by National Taiwan University community
were recruited. Exclusions from the study participation
were due to: (1) obesity (BMI >30 kg/m2); (2) smoking
within past six months; (3) hypertension (high blood
pressure >140/90 mmHg); (4) personal history of dia-
betes (fasting blood glucose >126 mg/dL), history of
heart disease or other cardiovascular problems; (5)
orthopedic injury that may prevent him or her from
completing the exercise; or (6) the use of over-the-
counter supplements or vitamins. Subjects must have
been sedentary or recreational active, but not been par-
ticipating in any type of resistance or endurance training. All subjects gave their inform written consent prior to
study participation and procedures were reviewed and
approved by Institutional Review Board of National
Taiwan University Hospital. This study is listed in Clini-
calTrial.gov (NCT02007304). Both Chinese herb and placebo capsules were identical in
appearance and stored in identical bottles with labeled
numbers generated by a study-independent researcher. All
supplement products were prepared by the Brion Research
Institute, Sun Ten Pharmaceutical Co. Analyses of ginseno-
sides of panax ginseng as well as Salvianolic acid B and Background onset muscle soreness. An impairment in microcircula-
tion [4, 5], an increase in vascular resistance [6], and a
reduction in vascular reactivity [7, 8] have been observed
after acute eccentric exercise. We [9] and others [10]
have demonstrated that acute eccentric exercise induced
significant increases in central arterial stiffness and arter-
ial stiffening after eccentric exercise was associated with
indicators of muscle damage [9]. Muscle damage induced by unaccustomed or eccentric
exercise is associated with increases in oxidative stress,
inflammatory response, and delayed onset muscle sore-
ness [1]. The increases in circulating pro-inflammatory
cytokine and C-reactive protein (CRP) are the character-
istic responses induced by eccentric exercise [2, 3]. A
growing body of evidence indicates that muscle damage
may also exert adverse influences on vascular function a
day or two days later on a similar time frame to delayed In Chinese Medicine, Ginseng is one of the most com-
monly used herbs in over thousands of years [11]. Ginse-
nosides, the major compounds of ginseng, and its
metabolites are considered to exert protective effects on
the vasculature, acting as a free radical scavenger [12]
and increasing nitric oxide production and antioxidant Lin et al. BMC Complementary and Alternative Medicine (2016) 16:168 Page 2 of 10 Page 2 of 10 effects [13]. There have been a number of animal studies
demonstrating that supplementation with either Asian
ginseng (panax ginseng C. A. Meyer) or American ginseng
(panax quinquefolium L.) could protect against eccentric
or strenuous exercise-induced muscle damage by attenu-
ating CK release [14, 15] and inflammatory responses [16]. Danshen (salvia miltiorrhiza) is another widely used
Chinese medicinal herb with diverse pharmacological
properties to improve circulation and blood stasis [17], in-
cluding dilating coronary arteries, increasing blood flow,
and scavenging free radicals in ischemic diseases [18]. In-
deed danshen has been prescribed to treat angina pectoris,
hyperlipidemia, acute ischemic stroke [19], and coronary
heart disease [20]. The major compounds of danshen,
Tanshinone IIA and salvianolical acid B, have been shown
to suppress vasoconstrictor endothelin-1 production [21]
and reduce the expression of vascular adhesion molecules
in vitro [22, 23]. Panax ginseng and danshen are often
mixed in herb formulas in Chinese medicine, which is
characterized by adapting several types of herbs or min-
erals as a combination of multiple components that could
synergistically attack different pathological targets [24]. Body composition Percent body fat was measured noninvasively by using a
bioimpedance analyzer Inbody 2.0 (Biospace Co. Ltd.,
Seoul, South Korea). To avoid the hydration effects, the
test was performed in the morning when subjects were
fasted. Supplement administration pp
Following the pre-testing sessions, subjects were asked
to take a total of 7 capsules of either Chinese herb or
placebo per day for seven days. Herb supplement was
prepared in capsules consisting of 250 mg of panax ginseng
and 250 mg salvia miltiorrhiza via the water-extraction
method, whereas placebo capsules contained microcrystal-
line cellulose. According to the pharmacopoeia of the Peo-
ple’s Republic of China [26], the use of 1–3 g danshen
extract per day is recommended [27]. A dosage of 1.75 g
per day (~60 % of the maximal suggested dosage) was
chosen for danshen in order to avoid unexpected adverse
event and to take consideration that this was a combin-
ation herb therapy. To the best of our knowledge, a
combination of panax ginseng and salvia miltiorrhiza
together has not been investigated on humans in the
literature [24]. Accordingly, we decided to adopt the
1:1 ratio (i.e., the same dosage) of panax ginseng and
salvia miltiorrhiza as the supplementation. Similar to
danshen, this particular dosage of panax ginseng has
been shown to be effective. Hence, the total daily sup-
plementation dosage was 3.5 g together. Background Panax ginseng and danshen has been practiced as a for-
mula to treat cardiovascular disease in Chinese Medicine
[24, 25]; however, scientific evidence to support its use is
still lacking. In this study we tested the hypothesis that the
supplementation with a combination of panax ginseng
and danshen could exert protective effects on the vascula-
ture following eccentric exercise. effects [13]. There have been a number of animal studies
demonstrating that supplementation with either Asian
ginseng (panax ginseng C. A. Meyer) or American ginseng
(panax quinquefolium L.) could protect against eccentric
or strenuous exercise-induced muscle damage by attenu-
ating CK release [14, 15] and inflammatory responses [16]. Danshen (salvia miltiorrhiza) is another widely used
Chinese medicinal herb with diverse pharmacological
properties to improve circulation and blood stasis [17], in-
cluding dilating coronary arteries, increasing blood flow,
and scavenging free radicals in ischemic diseases [18]. In-
deed danshen has been prescribed to treat angina pectoris,
hyperlipidemia, acute ischemic stroke [19], and coronary
heart disease [20]. The major compounds of danshen,
Tanshinone IIA and salvianolical acid B, have been shown
to suppress vasoconstrictor endothelin-1 production [21]
and reduce the expression of vascular adhesion molecules
in vitro [22, 23]. Panax ginseng and danshen are often
mixed in herb formulas in Chinese medicine, which is
characterized by adapting several types of herbs or min-
erals as a combination of multiple components that could
synergistically attack different pathological targets [24]. Panax ginseng and danshen has been practiced as a for-
mula to treat cardiovascular disease in Chinese Medicine
[24, 25]; however, scientific evidence to support its use is
still lacking. In this study we tested the hypothesis that the
supplementation with a combination of panax ginseng
and danshen could exert protective effects on the vascula-
ture following eccentric exercise. and familiarization. In each group, subjects underwent
two familiarization sessions followed by a pre-testing ses-
sion that consists of the measurements of aerobic power
and body composition. Eccentric exercise trials took place
following a 7-day supplementation. Subjects were asked to
keep their regular diet and sedentary lifestyle throughout
the testing sessions. Aerobic power
d
d
l
k Individual peak aerobic power (VO2peak) was determined
using standard American College of Sports Medicine
protocol. After a 5-min warm-up on the treadmill, sub-
jects walked or ran while treadmill slope was increased
1 % every minute until the subjects could not continue
the test. A mouthpiece and heart rate monitor were worn
to collect expired air and assess heart rate throughout the
test. VO2peak was used to set the exercise intensity during
the eccentric exercise. Exercise protocol Subjects were instructed to fast at least 8 h and refrain
from any strenuous exercise for at least 72 h before the
test. Experimental trial consisted of baseline measure-
ments, downhill running (eccentric exercise) or seated rest
(control), and measurements during the recovery period. In order to eliminate diurnal variation of inflammatory re-
sponse to eccentric exercise, participants were asked to
perform both eccentric exercise and control trials at the
same time of day. Subjects warmed up on treadmill on a
level grade at the speed that could elicit 75 % of pre-
determined individual VO2peak [29] for 5 min. Each sub-
ject performed downhill running exercise on treadmill
with the same speed at −10° of slope for 30 min. Similar
protocols have been successfully used elsewhere to induce
delayed onset muscle soreness [10, 30]. Arterial stiffness Arterial stiffness was measured using carotid-femoral
pulse wave velocity (cfPWV), which was calculated from
the traveling distance and foot-to-foot wave transit time
between the two arterial recording sites in the supine
position [33], and was the primary outcome measure of
this study. Non-invasive pulse tonometer (SPT-301,
Millar Inc. Houston TX) connected to a physiological
signaling processing system (MP36, Biopac, Goleta CA)
was used to detect pulse waves on the carotid and fem-
oral arteries. The coefficient of variation for cfPWV in
our laboratory were 6.2 %. Measurements The measurements were made 5 times: 30 min pre,
90 min post, 24 h post, 48 h post, and 72 h post. Sub-
jects were studied at the same time of day, during the
morning hours to minimize the inconvenience of the 8-
h fast and to avoid diurnal effects. Blood samples were collected to determine metabolic
risk factors, markers of muscle damage, inflammation,
and redox state. Serum CK was used as an indicator of
muscle membrane permeability or muscle damage [31]. Inflammatory markers (TNF-α, IL-6) as well as blood
redox status marker, tiobarbituric acid-reactive substances
(TBARS), were analyzed with the use of commercial
ELISA kits. Due to the financial constraints, TNF-α, IL-6,
and TBARS were measured only in the eccentric exercise
condition. The inter- and intra-assay coefficients of vari-
ation were less than 10 % in all assays performed. Experimental design Subjects were randomly assigned into either the Chinese
herb supplement or the placebo group after pre-screening Lin et al. BMC Complementary and Alternative Medicine (2016) 16:168 Lin et al. BMC Complementary and Alternative Medicine (2016) 16:168 Lin et al. BMC Complementary and Alternative Medicine (2016) 16:168 Page 3 of 10 and blood pressure was measured using an automatic
blood pressure monitor (Omron HEM907). Tanshinone IIA in Radix salvia miltiorrhiza were per-
formed by using high-performance liquid chromatography-
electrospray mass (HPLC-MS) spectrometry method as
previously described [26, 28]. These chromatographic
quantification results of active compounds in herb supple-
ment are shown in Table 1 and Fig. 1. Tanshinone IIA in Radix salvia miltiorrhiza were per-
formed by using high-performance liquid chromatography-
electrospray mass (HPLC-MS) spectrometry method as
previously described [26, 28]. These chromatographic
quantification results of active compounds in herb supple-
ment are shown in Table 1 and Fig. 1. Muscle soreness Subjects were asked to rate the perception of muscle
soreness using a Visual Analog Scale of 0–10 with 0 de-
scribing no soreness and 10 describing unbearable sore-
ness immediately after a downhill running [32]. In
addition, active range of motion was measured while the
subjects were placed on bed in prone position with full
knee extension and then moved both legs gradually to
the flexion point where pain in quadriceps muscle
groups was experienced. A manual goniometer was used
to measure the knee angle difference from full extension
to flexion point with the initiation of pain. This test was
repeated three times, and the average was used for stat-
istical analysis. Vascular reactivity Flow-mediated dilatation, the secondary outcome meas-
ure, was obtained noninvasively at the brachial artery
using standardized procedure [34]. Brachial artery diam-
eter was measured using an ultrasound machine (Sonosite
Ultrasound System; Bothell, WA) equipped with a high-
resolution linear array transducer. A blood pressure cuff
was placed on the forearm 3–5 cm distal to the antecubi-
tal fossa, and longitudinal images of the brachial artery
were acquired 5–10 cm proximal to the antecubital fossa. After the acquisition of baseline measurement, the probe
position was clearly marked to ensure that the image was
acquired from the same location throughout the test. The
blood pressure cuff was inflated to 100 mmHg above
resting systolic blood pressure for 5 min by using a cus-
tomized rapid inflation system. After cuff deflation,
ultrasound-derived measurements of artery diameters
were taken for 3 min. FMD was calculated by the follow-
ing equation: (maximum diameter – baseline diameter)/
baseline diameter × 100. All ultrasound images were re-
corded and analyzed by the same investigator who was
blinded to the groups and the conditions. Our coefficient Heart rate and blood pressure were measured in the
supine position. Heart rate was measured using an ECG, Table 1 Quantitative analyses of major compounds of the herb
supplement used in the present study
Compound
Content (mg/g)
Panax ginseng
Rb1
2.24
Re
1.13
Rg1
1.47
Salvia miltiorrhiza
Salvianolia acid B
28.2
Tanshinone IIA
0.6 Table 1 Quantitative analyses of major compounds of the herb
supplement used in the present study Lin et al. BMC Complementary and Alternative Medicine (2016) 16:168 Page 4 of 10 of variation of baseline diameter, maximal diameter, and
FMD in our laboratory were 3.7, 4.0, and 14 %. 0.05) and accounting for a 10 % attrition rate, a total of 24
subjects were to be recruited and tested. Fig. 1 High-performance thin-layer chromatography fingerprints of Panax ginseng (a) and Salvia miltiorrhiza (b) f
f b
l
d
l d
d
)
d
f
l f
Fig. 1 High-performance thin-layer chromatography fingerprints of Panax ginseng (a) and Salvia miltiorrhiza (b) 0.05) and accounting for a 10 % attrition rate, a total of 24
subjects were to be recruited and tested. of variation of baseline diameter, maximal diameter, and
FMD in our laboratory were 3.7, 4.0, and 14 %. Results Allocation to the herb or placebo supplementation was
based on a computer-generated randomization list that
was prepared by a study-independent researcher. Block-
randomization with a block size of four was used; the
group assignment was concealed in an envelope and re-
vealed after all data analysis was performed. During
study, researchers were blinded and unaware of subjects’
allocation. Subjects were instructed not to reveal any in-
formation regarding supplement and exercise treatment
during intervention. After screening, twenty-four subjects were eligible and
entered into the study (Fig. 2); one subject withdrew
from the study during intervention due to time commit-
ment unrelated to the study. Selected subject character-
istics are presented in Table 2. All the subjects were
non-obese, normolipidemic, and normotensive. There
were no significant differences in body composition,
lipid profile, and baseline hemodynamic parameters be-
tween the placebo and the Chinese herb groups. An acute bout of downhill running exercise increased
muscle soreness significantly at 90 min, 24 and 48 h post
exercise (Fig. 3). Active range of motion decreased sig-
nificantly at 24 and 48 h post exercise in both groups,
but remained significant at 72 h in the placebo group
(Fig. 3). As shown in Fig. 4, the magnitude of the in-
crease in plasma CK concentration was significantly
greater in the placebo group than in the herb group. Statistical analyses Descriptive statistics were used for the analyses of subject
characteristics using SPSS statistical package (version 16.0;
Chicago, IL). Dependent variables were analyzed within
each treatment to determine the time effect (pre, 90 min,
24 h, 48 h, and 72 h post exercise) using repeated mea-
sures ANOVA. A 2-way mixed model ANOVA was used
for analyses of time and treatment effects. Bonferroni
post-hoc analysis was performed when significance was
achieved. Associations were determined by Spearman
rank correlations. To detect difference in cfPWV of 5 % at
a SD of 4.5 % unit change with 80 % power (α was set at An acute bout of eccentric exercise increased cfPWV
at 24 h post exercise in the placebo group (Fig. 5). No
such significant increase in cfPWV was observed in the
herb group. There were no changes in blood pressure in
either group (Table 3). As shown in Fig. 6, there were no
significant changes in FMD. Lin et al. BMC Complementary and Alternative Medicine (2016) 16:168 Page 5 of 10 Fig. 2 Study flow chart with changes in cfPWV at 24 to 48 h after exercise
(r = 0.57 ~ 0.60, P < 0.05). Plasma CRP concentration increased significantly at
24 h post eccentric exercise in both groups (Table 4). Plasma TBARs and TNF-α concentrations did not
change in either group. Plasma IL-6 concentration in-
creased significantly at 90 min after eccentric exercise
in the placebo group. Discussion The major findings of this study are as follows. Seven
days of herb supplementation of panax ginseng and
salvia miltiorrhiza prior to downhill running exercise
did not affect muscle soreness, but prevented the significant
and transient increase in arterial stiffness, and facilitated
the recovery of active range of motion induced by muscle
damage. This "destiffening" effect was independent of blood The associations between changes in cfPWV and
changes in selected biomarkers in combined groups
are shown in Table 5. Changes in IL-6 were associated
with changes in cfPWV at 48 h post exercise (r = 0.46,
P < 0.05). In addition, changes in TNF-α were associated Lin et al. BMC Complementary and Alternative Medicine (2016) 16:168 Page 6 of 10 Page 6 of 10 Table 2 Selected subject characteristics
Placebo
Herb
(n = 11)
(n = 12)
Age, yr
24 ± 1
26 ± 5
Height, cm
173 ± 1
174 ± 3
Body mass, kg
68 ± 2
68 ± 3
BMI, kg/m2
23 ± 1
22 ± 1
Body fat percentage, %
19 ± 1
18 ± 2
Waist-hip ratio
0.85 ± 0.01
0.85 ± 0.01
Heart rate at rest, bpm
67 ± 3
58 ± 3
Systolic BP, mmHg
118 ± 2
112 ± 3
Diastolic BP, mmHg
66 ± 2
62 ± 2
VO2peak, ml/kg/min
47 ± 2
47 ± 2
HDL cholesterol, mg/dL
53 ± 2
53 ± 3
LDL cholesterol, mg/dL
97 ± 9
86 ± 5
Total cholesterol, mg/dL
180 ± 9
192 ± 8
Triglyceride, mg/dL
78 ± 9
58 ± 8
HbA1C, %
5.4 ± 0.1
5.4 ± 0.1
Values are means ± SEM
BMI body mass index, BP blood pressure, VO2peak peak oxygen consumption,
HbA1c glycosylated hemoglobin A1c Table 2 Selected subject characteristics the placebo group at 24 h post exercise than in the herb
group. Previous studies in animal models reported that
North American ginseng, panax ginseng or panax quinque-
folus, decreased plasma CK levels after eccentric exercise
[15, 37] and preserved mitochondria integrity [14] and de-
creased macrophage infiltration [16] in skeletal muscle. One recent human study [38] also found that American
ginseng decreased CK concentration at 72 h post exercise
when compared with the placebo control. Collectively,
these results suggest that Chinese herb supplementa-
tion may have reduced the amount of muscle damage
induced by eccentric exercise. Discussion Pre in the
same condition Lin et al. BMC Complementary and Alternative Medicine (2016) 16:168 Page 7 of 10 Table 3 Hemodynamic responses in control (seated rest) and
eccentric exercise sessions
Pre
90 min
24 h
48 h
72 h
cfPWV, cm/s
Placebo
Control
530 ± 19
535 ± 17
546 ± 16
547 ± 15
513 ± 13
Exercise
531 ± 12
548 ± 19
577 ± 20*
570 ± 24
552 ± 22
Herb
Control
482 ± 14
491 ± 17
490 ± 14
487 ± 13
505 ± 19
Exercise
523 ± 20
497 ± 17
503 ± 16
500 ± 13
505 ± 23
Heart rate, bpm
Placebo
Control
63 ± 4
58 ± 3
62 ± 3
66 ± 3
65 ± 3
Exercise
62 ± 3
69 ± 4*
66 ± 3
63 ± 3
59 ± 5
Herb
Control
57 ± 3
54 ± 1
56 ± 3
59 ± 4
55 ± 3
Exercise
56 ± 2
65 ± 4*
56 ± 3
55 ± 2
53 ± 3
Systolic BP, mmHg
Placebo
Control
119 ± 2
116 ± 2
118 ± 2
119 ± 2
119 ± 2
Exercise
119 ± 2
114 ± 2
120 ± 2
120 ± 3
117 ± 2
Herb
Control
114 ± 2
111 ± 2
114 ± 2
115 ± 3
115 ± 2
Exercise
116 ± 3
114 ± 3
115 ± 2
112 ± 2
111 ± 3
Diastolic BP, mmHg
Placebo
Control
66 ± 2
67 ± 1
67 ± 2
64 ± 2
67 ± 2
Exercise
66 ± 3
65 ± 2
65 ± 3
66 ± 2
64 ± 2
Herb
Control
63 ± 3
63 ± 1
62 ± 2
62 ± 1
62 ± 1
Exercise
63 ± 3
61 ± 2
62 ± 1
63 ± 3
60 ± 1
Pulse pressure, mmHg
Placebo
Control
52 ± 2
49 ± 1
51 ± 2
55 ± 2
53 ± 2
Exercise
53 ± 2
48 ± 2
55 ± 2
53 ± 2
53 ± 1
Herb
Control
51 ± 3
48 ± 3
52 ± 3
54 ± 3
53 ± 3
Exercise
53 ± 3
52 ± 3
53 ± 2
49 ± 3
51 ± 3
Values are means ± SEM
cfPWV carotid-femoral pulse wave velocity, BP blood pressure
*P<0.05 vs. Discussion In the present study, arterial stiffening effects were at-
tenuated when the subjects were supplemented with
Chinese herbs for 7 days before the unaccustomed exer-
cise was performed. These effects were not related to
changes in blood pressure in either group. To our know-
ledge, this is the first study to demonstrate that Chinese
herb supplementation effectively prevented the adverse
effects on vascular stiffening induced by eccentric exer-
cise. Specifically, downhill running increased arterial
stiffness significantly as early as 24 h after the eccentric
exercise in the placebo group. In the previous study [10]
including ours [9], the increase in arterial stiffness was
somewhat delayed showing up at 48 h after exercise. The exact reasons for the slight differences in the time
course are not known. But compared with our previous
study [9] that used localized resistance exercise as an
eccentric stimulus, in the present study, we used more
systemic downhill running exercise that elicit greater
and more robust responses [39]. Moreover, compared
with the previous study that utilized moderately-trained
young adults [10], the subjects in the current study were
mainly sedentary adults. Current literature indicates that
people who repeatedly perform eccentric muscle contrac-
tions demonstrate so-called “repeated bout effect” or adap-
tation in skeletal muscle that inflammatory and muscle
biomarker responses were substantially lowered in the pressure changes as arterial pressure did not change in
either group. A lack of changes in arterial stiffness with
the herb supplementation was in part associated with
the attenuated increases in inflammatory markers. These
results suggest that the Chinese herb supplementation
may be an effective strategy to minimize the delayed onset
vascular stiffening induced by eccentric exercise. The presence of elevated plasma CK has been recognized
a marker of increased sarcolemma permeability or muscle
damage resulted from unaccustomed exercise or eccentric
muscle contractions [31, 35, 36]. In the present study, an
acute bout of downhill running exercise increased plasma
CK concentration significantly following eccentric exercise. The increase in plasma CK concentration was greater in on (AROM) (b) following downhill running exercise. *P < 0.05 vs. Pre in the Fig. 3 Delayed onset muscle soreness (a) and active range of motion (AROM) (b) following downhill running exercise. *P < 0.05 vs. Pre in the
same condition Fig. 3 Delayed onset muscle soreness (a) and active range of motion (AROM) (b) following downhill running exercise. *P < 0.05 vs. Discussion BMC Complementary and Alternative Medicine (2016) 16:168 Page 8 of 10 Page 8 of 10 d
h h
d
h
l
Table 4 Changes in muscle damage markers, inflammatory and
oxidative stress markers in response to downhill running
exercise in the placebo and herb group
Pre
90 min
24 h
48 h
72 h
Placebo
CRP, mg/dL
Control
0.07 ± 0.04
0.07 ± 0.04
0.07 ± 0.03
0.06 ± 0.02
0.05 ± 0.02
Exercise
0.08 ± 0.02
0.11 ± 0.05
0.15 ± 0.05*
0.11 ± 0.05
0.10 ± 0.03
CK, U/L
Control
94 ± 10
98 ± 8
89 ± 8
87 ± 9
90 ± 11
Exercise
93 ± 8
126 ± 13
396 ± 72*, **
257 ± 48*, **
192 ± 32*
Herb
CRP, mg/dL
Control
0.13 ± 0.05
0.14 ± 0.05
0.11 ± 0.04
0.11 ± 0.04
0.11 ± 0.03
Exercise
0.10 ± 0.03
0.09 ± 0.03
0.15 ± 0.03*
0.10 ± 0.02
0.10 ± 0.02
CK, U/L
Control
110 ± 12
108 ± 9
119 ± 17
109 ± 11
113 ± 16
Exercise
106 ± 9
195 ± 51*
291 ± 35*, **
204 ± 26*, **
151 ± 20
TBARs, μM
Placebo
7.1 ± 1.1
8.1 ± 1.5
7.9 ± 1.0
6.5 ± 1.0
-
Herb
7.0 ± 1.0
6.6 ± 0.8
8.1 ± 0.9
5.7 ± 0.6
-
IL-6, pg/ml
Placebo
0.44 ± 0.1
0.69 ± 0.1*
0.32 ± 0.1
0.46 ± 0.1
-
Herb
0.50 ± 0.2
0.45 ± 0.1
0.23 ± 0.1*
0.29 ± 0.1
-
TNF-α, pg/ml
Placebo
0.45 ± 0.14
0.28 ± 0.06
0.30 ± 0.06
0.30 ± 0.06
-
Herb
0.44 ± 0.06
0.34 ± 0.06
0.38 ± 0.08
0.34 ± 0.06
-
Values are means ± SEM. TBARs, IL-6, and TNF-α were measured only during
the eccentric exercise session
CRP C-reactive protein, CK creatine kinase, TBARs thiobarbituric acid reactive
substances, IL-6 interleukin-6, TNF-α tumor necrosis factor-α
*P<0.05 vs. Pre in the same condition. **P<0.05 vs. Control or Placebo at the
same time point minimized the arterial stiffening effects. Our present results
using Chinese herbs as “cocktail” anti-oxidants are in ac-
cordance with a previous study [43] that supplementation
with the mixture of vitamins C and E attenuated the IL-6
mRNA expression and CRP response to long-duration
muscle contractions in humans. In addition to central arterial stiffness, endothelium-
dependent vascular reactivity was also measured in this
study. Discussion Eccentric resistance exercise has been shown to im-
pair FMD and linked with the increase in reactive oxygen
species and a subsequent reduction in NO [7, 8]. In the
present study, however, there were no significant reduc-
tions in FMD in either the placebo or the herb group. The
increases in oxidative stress and inflammation have been
documented in association with endothelial dysfunction
[44, 45], and anti-oxidant status could play a role in
modulating vascular function after eccentric exercise [46]. There were significant increases in inflammatory markers
after eccentric exercise in the present study. However,
FMD did not change. The discrepancy between our find-
ings and others could be attributed to the difference in ex-
ercise mode and measured time points. Acute resistance
exercise [47, 48] has been shown to reduce FMD, whereas
FMD increases after an acute bout of aerobic exercise
[49, 50]. The present study utilized acute downhill run-
ning exercise as a mode of eccentric exercise. FMD is also
known to display biphasic response after acute exercise in
that FMD decreases immediately but increases 1 to 24 h
following exercise and reversed to the baseline in 48 h
[46]. In the study [7] that found reductions in FMD after
eccentric resistance exercise, measurements were made
45 min after exercise. We performed the measurement of
FMD at 90 min post exercise. Additionally, the differ-
ence in subject characteristics may be another factor
since FMD may respond differently following exercise in
people of different physical fitness levels [46, 50]. associated with the corresponding changes in plasma IL-
6 concentrations after 48 h post exercise. It is possible to
speculate that the supplementation using panax ginseng
and salvia miltiorrhiza reduced systemic inflammation
induced by eccentric exercise and through such effect, There are a number of limitations in the present study
that should be mentioned. First, the number of subjects
studied is relatively small. Second, even though pharmaco-
logical compounds of panax ginseng and salvia miltior-
rhiza were identified, it is unknown which compound of
the herb supplementation was effective. Additionally,
pharmacological interactions between the compounds are
also unknown. Lastly, correlations between inflammatory
markers and arterial stiffness were found only at selected
time points. Additionally, some inflammatory markers
(e.g., TNF- α) did not change with eccentric exercise. Thus, the associations should be interpreted with caution. Discussion Pre in the same condition Fig. 4 Relative changes in serum creatine kinase (CK) concentration
in response to eccentric exercise sessions. *P < 0.05 vs. Pre in the
same condition. †P < 0.05 vs. Placebo at the same time point Table 3 Hemodynamic responses in control (seated rest) and
eccentric exercise sessions Fig. 4 Relative changes in serum creatine kinase (CK) concentration
in response to eccentric exercise sessions. *P < 0.05 vs. Pre in the
same condition. †P < 0.05 vs. Placebo at the same time point following challenge [1], suggesting that exercise training
status plays a role in determining the response to this exer-
cise challenge. The underlying mechanisms by which muscle damage
induced by eccentric exercise results in increased arterial
stiffness remain unclear. However, arterial stiffening follow-
ing eccentric exercise has been associated with increases in
subjective muscle soreness [10], a marker of muscle dam-
age (i.e., plasma CK) [9]. In the present study, plasma IL-6
levels increased significantly after eccentric exercise in the
placebo group. Previous studies have demonstrated that
the acute inflammation induced by a vaccination increased
not only IL-6 and CRP concentrations [40, 41] but also ar-
terial stiffness [42]. Collectively, these results suggest
that arterial stiffening induced by muscle damage is
associated with markers of muscle damage and/or
systemic inflammation. Consistent with this concept, we found that Chinese
herb supplementation minimized the increases in IL-6
levels. Additionally, changes in arterial stiffness were Fig. 5 Effects of Chinese herb supplementation on carotid-femoral
pulse wave velocity (cfPWV). *P < 0.05 vs. Pre. †P < 0.05 vs. Herb supplementation Fig. 6 Changes in flow-mediated vasodilatation in response to the
eccentric exercise
Fig. 5 Effects of Chinese herb supplementation on carotid-femoral
pulse wave velocity (cfPWV). *P < 0.05 vs. Pre. †P < 0.05 vs. Herb supplementation Fig. 5 Effects of Chinese herb supplementation on carotid-femoral
pulse wave velocity (cfPWV). *P < 0.05 vs. Pre. †P < 0.05 vs. Herb supplementation Fig. 6 Changes in flow-mediated vasodilatation in response to the
eccentric exercise Fig. 5 Effects of Chinese herb supplementation on carotid-femoral
pulse wave velocity (cfPWV). *P < 0.05 vs. Pre. †P < 0.05 vs. Herb supplementation Fig. 6 Changes in flow-mediated vasodilatation in response to the
eccentric exercise Lin et al. Discussion Table 5 Associations between relative changes (%) in arterial
stiffness and selected biomarkers
ΔcfPWV 24 h
ΔcfPWV 48 h
ΔCK
0.05
0.08
CRP
0.17
0.21
ΔIL-6
0.11
0.46*
ΔTNF-α
0.60*
0.57*
ΔTBARs
0.09
0.36
cfPWV carotid-femoral pulse wave velocity, CK creatine kinase, CRP C-reactive
protein, IL-6 interlukin-6, TNF-α tumor necrosis factor-α, TBARs thiobarbituric
acid reactive substances
*P<0.05 Table 5 Associations between relative changes (%) in arterial Funding
h
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This study was supported by a research grant from the Ministry of Science
and Technology in Taiwan (MOST-101-2410-H-002-201-MY2 and MOST
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analysis: HL, TK, CC, CL; data interpretation: HL, TK, JL, HT; manuscript
drafting: HL, HT; revising manuscript critically for important intellectual
content: HL, TK, CC, CL, JL. HT. All authors have read, edited, approved the
final manuscript, and have agreed to be held accountable for all aspects of
manuscript in ensuring that questions related to the accuracy or integrity of
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and reperfusion. Pharmacol Ther. 2008;117(2):280–95. 17. Han JY, Fan JY, Horie Y, Miura S, Cui DH, Ishii H, Hibi T, Tsuneki H, Kimura I. Ameliorating effects of compounds derived from salvia miltiorrhiza root
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production in TNF-alpha-induced brain microvascular endothelial cells
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Not applicable. 19. Zhou L, Zuo Z, Chow MS. Danshen: an overview of its chemistry, pharmacology,
pharmacokinetics, and clinical use. J Clin Pharmacol. 2005;45(12):1345–59. Received: 17 September 2015 Accepted: 25 May 2016 25. Liang X, Chen X, Wang Y, Liang Q, Wu J, Luo G. Effect of compatibilities and
proportions of Shuanglong formula on acute myocardial infarction in rats. Zhongguo Zhong Yao Za Zhi. 2011;36(22):3176–9. Conclusions A short-term Chinese herb supplementation incorporat-
ing panax ginseng and salvia miltiorrhiza was effective
in ameliorating the delayed onset vascular stiffening Lin et al. BMC Complementary and Alternative Medicine (2016) 16:168 Page 9 of 10 Page 9 of 10 induced by acute eccentric exercise, possibly via the re-
ductions in oxidative stress and systemic inflammation. induced by acute eccentric exercise, possibly via the re-
ductions in oxidative stress and systemic inflammation. 5. Kano Y, Sampei K, Matsudo H. Time course of capillary structure changes in
rat skeletal muscle following strenuous eccentric exercise. Acta Physiol
Scand. 2004;180(3):291–9. 6. Ray CA, Mahoney ET, Hume KM. Exercise-induced muscle injury
augments forearm vascular resistance during leg exercise. Am J Physiol. 1998;275(2 Pt 2):H443–7. Abbreviations BMI, body mass index; BP, blood pressure; cfPWV, carotid-femoral pulse
wave velocity; CK, creatine kinase; CRP, C-reactive protein; HbA1c, glycosylated
hemoglobin A1c; IL-6, interleukin-6; TBARs, thiobarbituric acid reactive substances;
TNF-α, tumor necrosis factor-α; VO2peak, peak oxygen consumption 7. Choi Y, Akazawa N, Miyaki A, Ra SG, Shiraki H, Ajisaka R, Maeda S. Acute
effect of high-intensity eccentric exercise on vascular endothelial function in
young men. J Strength Cond Res. In press. 7. Choi Y, Akazawa N, Miyaki A, Ra SG, Shiraki H, Ajisaka R, Maeda S. Acute
effect of high-intensity eccentric exercise on vascular endothelial function in
young men. J Strength Cond Res. In press. y
8. Franklin NC, Ali MM, Robinson AT, Norkeviciute E, Phillips SA. Massage
therapy restores peripheral vascular function after exertion. Arch Phys Med
Rehabil. 2014;95(6):1127–34. 8. Franklin NC, Ali MM, Robinson AT, Norkeviciute E, Phillips SA. Massage
therapy restores peripheral vascular function after exertion. Arch Phys Med
Rehabil. 2014;95(6):1127–34. Competing interests The authors declare that they have no competing interests. 18. Ji XY, Tan BK, Zhu YZ. Salvia miltiorrhiza and ischemic diseases. Acta
Pharmacol Sin. 2000;21(12):1089–94. Acknowledgements We would like to thank Han-Jen Lin from Molecular Biology Laboratory in De-
partment of Animal Science of National Taiwan University, Dr. Hao-Min
Cheng and Dr. Chen-Huan Chen from Taipei Veterans General Hospital for
their technical assistance on biomarker and hemodynamic analysis. 9. Barnes JN, Trombold JR, Dhindsa M, Lin HF, Tanaka H. Arterial stiffening
following eccentric exercise-induced muscle damage. J Appl Physiol. 2010;109(4):1102–8. 10. Burr JF, Boulter M, Beck K. Arterial stiffness results from eccentrically biased
downhill running exercise. J Sci Med Sport. 2015;18(2):230–5. 10. Burr JF, Boulter M, Beck K. Arterial stiffness results from eccentrically biased
downhill running exercise. J Sci Med Sport. 2015;18(2):230–5. Author details
1
f 1Department of Athletics, National Taiwan University, Taipei, Taiwan. 2Department of Physical Education, National Taiwan Normal University,
Taipei, Taiwan. 3Physical Education Office, National Taipei University of
Technology, Taipei, Taiwan. 4Brion Research Institute, Taipei, Taiwan. 5School
of Chinese Medicine, China Medical University, Taichung City, Taiwan. 6Department of Kinesiology and Health Education, The University of Texas at
Austin, 2109 San Jacinto Blvd, D3700, Austin, TX 78712, USA. 22. Tang C, Xue HL, Bai CL, Fu R. Regulation of adhesion molecules expression in
TNF-α-stimulated brain microvascular endothelial cells by Tanshinone Iia:
Involvement of NF-κb and ROS generation. Phytother Res. 2011;25(3):376–80. 23. Chen YH, Lin SJ, Ku HH, Shiao MS, Lin FY, Chen JW, Chen YL. Salvianolic
acid B attenuates VCAM-1 and ICAM-1 expression in TNF-alpha-treated
human aortic endothelial cells. J Cell Biochem. 2001;82(3):512–21. 24. Liang X, Chen X, Liang Q, Zhang H, Hu P, Wang Y, Luo G. Metabonomic
study of Chinese medicine Shuanglong formula as an effective treatment
for myocardial infarction in rats. J Proteome Res. 2011;10(2):790–9. References
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English
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Overriding TKI resistance of renal cell carcinoma by combination therapy with IL-6 receptor blockade
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Oncotarget
| 2,017
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cc-by
| 10,351
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Correspondence to: Walburgis Brenner, email: brenner@uni-mainz.de
Kei Ishibashi, email: keikun@fmu.ac.jp Keywords: renal cell carcinoma, tyrosine kinase inhibitor, resistance, IL-6, tocilizumab
Received: March 01, 2017 Accepted: July 12, 2017 Published: July 21, 2017 Copyright: Ishibashi et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License 3.0 (CC BY
3.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. Copyright: Ishibashi et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License 3.0 (CC BY
3.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. www.impactjournals.com/oncotarget Overriding TKI resistance of renal cell carcinoma by combination
therapy with IL-6 receptor blockade
p Kei Ishibashi1,2, Tobias Haber2, Ines Breuksch3, Susanne Gebhard3, Takashi Sugino4,
Hitoshi Kubo5, Junya Hata1, Tomoyuki Koguchi1, Michihiro Yabe1, Masao Kataoka1,
Soichiro Ogawa1, Hiroyuki Hiraki1, Tomohiko Yanagida1, Nobuhiro Haga1, Joachim
W. Thüroff2, Dirk Prawitt6,*, Walburgis Brenner2,3,* and Yoshiyuki Kojima1,*
1Department of Urology, Fukushima Medical University, Fukushima, Japan
2Department of Urology, Johannes Gutenberg University Medical Center, Mainz, Germany
3Department of Gynecology and Obstetrics, Johannes Gutenberg University Medical Center, Mainz, Germany
4Department of Pathology, Shizuoka Cancer Center, Shizuoka, Japan
5Advanced Clinical Research Center, Fukushima Medical University, Fukushima, Japan
6Center for Pediatrics and Adolescent Medicine, Johannes Gutenberg University Medical Center, Mainz, Germany
*These authors contributed equally to this work Correspondence to: Walburgis Brenner, email: brenner@uni-mainz.de
Kei Ishibashi, email: keikun@fmu.ac.jp www.impactjournals.com/oncotarget/ www.impactjournals.com/oncotarget/ ABSTRACT Metastatic renal cell carcinoma (RCC) is a tumor entity with poor prognosis due
to limited therapy options. Tyrosine kinase inhibitors (TKI) represent the standard of
care for RCCs, however a significant proportion of RCC patients develop resistance to
this therapy. Interleukin-6 (IL-6) is considered to be associated with poor prognosis
in RCCs. We therefore hypothesized that TKI resistance and IL-6 secretion are
causally connected. We first analyzed IL-6 expression after TKI treatment in RCC
cells and RCC tumor specimens. Cell proliferation and signal transduction activity
were then quantified after co-treatment with tocilizumab, an IL-6R inhibitor,
in vitro and in vivo. 786-O RCC cells secrete high IL-6 levels after low dose stimulation
with the TKIs sorafenib, sunitinib and pazopanib, inducing activation of AKT-mTOR
pathway, NFκB, HIF-2α and VEGF expression. Tocilizumab neutralizes the AKT-mTOR
pathway activation and results in reduced proliferation. Using a mouse xenograft
model we can show that a combination therapy with tocilizumab and low dosage of
sorafenib suppresses 786-O tumor growth, reduces AKT-mTOR pathway and inhibits
angiogenesis in vivo more efficient than sorafenib alone. Furthermore FDG-PET
imaging detected early decrease of maximum standardized uptake values prior to
extended central necrosis. i Our findings suggest that a combination therapy of IL-6R inhibitors and TKIs
may represent a novel therapeutic approach for RCC treatment. INTRODUCTION the mammalian target of rapamycin (mTOR) pathways
represents the standard of care in metastatic RCC. Multitargeted tyrosine kinase inhibitors (TKIs) lead to
clearly prolonged overall and progression-free survival
[2]. The TKI sorafenib inhibits VEGFR-2, VEGFR-3, the
platelet-derived growth factor receptor family (PDGFR-β
and Kit) as well as both C-RAF and B-RAF [3]. Sunitinib Renal cell carcinomas (RCC) account for about
85 percent of renal cancers and a quarter of the patients
present with advanced disease, including locally invasive
or metastatic renal cell carcinoma [1]. Currently, therapy
targets the vascular endothelial growth factor (VEGF) and www.impactjournals.com/oncotarget Oncotarget 55230 is a highly potent, selective inhibitor of VEGF-R types
1 to 3, PDGF-Rα, and PDGFR-β [4]. Pazopanib also
inhibits all the VEGFR subtypes and the PDGFR subtypes. In addition, it inhibits the fibroblast growth factor
receptor, as well as transmembrane glycoprotein receptor
tyrosine kinases [5]. However, despite the development
of many types of TKIs, their effects are still limited and
have been shown to be not curative [6]. A number of
approved molecular targeted agents allow the sequential
use of these drugs as empirical standard of care, although
the optimum order of application has not been defined
[7, 8]. Moreover, treatment has been associated with the
development of resistance after a median of 6–15 months
[9]. Alternative signaling pathway activation has been
shown to be responsible for this resistance for most of the
listed targeted RCC therapies. According to these studies,
one of the central effects involved in TKI resistance [10]
is probably due to sphingosine kinase-1 (SK1) activation,
that stabilizes HIF-1α via enhanced AKT and ERK
signaling [11]. To date it is not clear which mechanisms
lead to these enhanced signaling activities. The finding
that IL-6 seems to be involved in the development of TKI
resistance [12, 13] suggests that cytokines are important in
this process. IL-6-induced AKT phosphorylation activates
mTOR that consequently activates its downstream targets
p70S6 kinase (p70S6K), 40S ribosomal protein S6 (S6RP)
and the eukaryotic initiation factor 4E binding protein-1
(4EBP1), that control mRNA translation and protein
synthesis [14]. Consequently, IL-6-induced activation of
AKT is involved in protection against apoptosis, as well
as in enhanced proliferation in some cancer cells [15–17]. a strong (10-fold) enhanced secretion of IL-6 in 786-O
cells, even at a low concentration (Figure 1A). VEGF
secretion was also strongly increased in 786-O cells after
stimulation with each of the three TKIs (Figure 1B). Gene expression of IL-6 and VEGF in 786-O cells To find out if the enhanced secretion of IL-6 and
VEGF proteins in 786-O cells corresponds to an enhanced
mRNA level of the respective genes, we investigated
the influence of TKIs on IL-6 and VEGF expression. All
TKIs used (sorafenib, sunitinib and pazopanib), induced
increased IL-6 and VEGF mRNA expression one hour after
stimulation, with exception of pazopanib treatment, that
did not result in a significant VEGF induction. Increased
mRNA expression levels after TKI treatment sustained
until 24 hours after TKI stimulation (Figure 1C) with the
exception of IL-6 expression after pazopanib treatment. INTRODUCTION In
all other RCC cell lines tested, TKI treatment caused no
significant changes in cytokine secretion (data not shown). IL-6 expression in RCC surgical specimens We retrospectively analyzed the expression of
IL-6 in RCC specimens from 15 patients who underwent
radical nephrectomy. Among the 15 patients, 3 were
neoadjuvantly treated with TKIs (two with sorafenib, one
with sunitinib) before they were referred to our institution
for surgery. The surgical specimens from these 3 patients
showed strong IL-6 expression. In contrast, weak or no
IL-6 expression was observed in specimens from non-
TKIs treated patients (Figure 2). Tocilizumab, a humanized antihuman IL-6 receptor
(IL-6R) antibody, is currently available as one of the
therapeutically effective reagents against inflammatory
diseases such as rheumatoid arthritis [18]. We have
previously reported the effect of a combination therapy
using the antihuman IL-6R antibody together with
IFN-α, that suggests a novel therapeutic approach for the
treatment of RCC [19]. Impact of TKI stimulation on the IL-6 signaling Since we observe a high expression of IL-6R in
786-O cells (Figure 3), we studied the impact of TKI
stimulation on the associated IL-6 signaling pathway. We examined the pathway activation by Western blot,
monitoring phospho-AKT, phospho-mTOR, phospho-
4EBP1, phospho-S6RP, phospho-p70S6, phospho-NFκB,
phospho-STAT3 and HIF-2α in 786-O cells treated
with TKIs in combination with or without the blocking
antihuman IL-6R antibody tocilizumab. In 786-O cells we
found a concentration depend enhanced phosphorylation
of AKT, mTOR, 4EBP1, S6RP, p70S6, NFκB and STAT3
after treatment with all of the TKIs tested, with exception
of 4EBP1 and S6RP after pazopanib treatment. Sorafenib
in a concentration of 0.5 µM significantly activated all
investigated signaling molecules. STAT3 was additionally
activated by sorafenib in a concentration of 1 µM,
whereas the activity of p70S6K, mTOR and HIF2α was
enhanced after sorafenib treatment in all concentrations
investigated. Sunitinib treatment in a concentration of 0.5
µM resulted in an enhanced, but slightly non-significant,
activity of AKT and a significant enhanced activity of
all other signaling molecules investigated. Additionally, In the presented study, we analyzed the impact of
cytokines during TKI treatment of RCC cells. We show
that the autocrine secretion of IL-6 induced by TKIs-
stimulation causes the activation of AKT, mTOR and
STAT3, which consequently lead to VEGF expression
in 786-O RCC cells. We also show that a combination
therapy with tocilizumab, a humanized anti-IL-6 receptor
antibody, and TKI can effectively suppress 786-O RCC
tumor growth. www.impactjournals.com/oncotarget TKIs induce IL-6 secretion by 768-O cells Comprising all cytokines analyzed, IL-6 and VEGF
secretion by 786-O cells were remarkably enhanced after
TKI treatment. Sorafenib, sunitinib and pazopanib induced www.impactjournals.com/oncotarget Oncotarget 55231 sunitinib induced activation of p70S6, STAT3, mTOR,
S6RP and HIF-2α in a concentration of 1 µM. In a
concentration of 5 µM p70S6 and in a concentration
of 10 µM mTOR was activated. Although all signaling
mediators with exception of S6RP were activated
by pazopanib treatment, the enhancement was only
significant in case of AKT by treatment with 0.5 µM and
of mTOR and HIF-2α in concentrations between 0.5 and 5
µM. The enhanced phosphorylation of the named proteins
after TKI treatment at all concentrations used was also associated with enhanced HIF-2α protein amounts, one
of the transcription factors of VEGF (Figure 4). Treatment
with the IL6-R blocking tocilizumab abolished the effect
of the TKIs on the activation of AKT, mTOR, 4EBP1,
S6RP, p70S6, NFκB, STAT3 and HIF-2α (Figure 4),
arguing that the observed TKI effects depend on the
enhanced IL-6 signaling in 786-O cells. In addition,
treatment with tocilizumab alone did not influence the
activation of any of the signaling molecules investigated
(Figure 4). gure 1: TKI-induced IL-6 and VEGF expression in RCC cells. RCC cell line 786-O was cultured with sorafenib, sunitinib
ib f
h
d
l
d b
V
MAP D
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t S
t
i
th
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t ki
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t t d tj
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/
t
t
e 1: TKI-induced IL-6 and VEGF expression in RCC cells. RCC cell line 786-O was cultured with sorafenib, suni
opanib for one hour, and analyzed by VersaMAP Development System concerning the secretion of cytokines. Demonstrated
nes with clear changes in secretion compared to untreated cells: IL-6 (A), and VEGF (B). Untreated cells served as control. Rel
expressions (C) of TKI treated (two concentrations, three time points) compared with those of non-treated cells are indicated
p-regulate IL-6 and VEGF mRNA expression up to 400 fold (for IL-6) and 25 fold (for VEGF), irrespective of their concentrat Figure 1: TKI-induced IL-6 and VEGF expression in RCC cells. RCC cell line 786-O was cultured with sorafenib, sunitinib
or pazopanib for one hour, and analyzed by VersaMAP Development System concerning the secretion of cytokines. Demonstrated are
cytokines with clear changes in secretion compared to untreated cells: IL-6 (A), and VEGF (B). Untreated cells served as control. Alteration on susceptibility to TKIs by IL-6
pathway blockade To confirm that tocilizumab improves the effect of
low dose TKIs in the MTT assay, we employed a nude
mice xenograft model, applying low dose sorafenib with
or without tocilizumab. The growth of tumors in athymic
mice receiving a combination therapy with tocilizumab
and sorafenib was retarded in comparison to those in the
sorafenib-alone and non-treated (PBS) groups (Figure 6A). In the earlier stage of the challenge (up to 30 days),
growth of tumors in the group treated with tocilizumab
alone seemed to be retarded, yet there was no significant
difference to the control / sorafenib treated groups at the
time of sacrifice (41 days). However, the tumor volume
in the group with combination therapy (sorafenib and
tocilizumab) was significantly lower compared with other
groups at the end of the study (p = 0.044). Our data suggested that 786-O cells are resistant
to a sole TKI treatment and most likely proliferate due
to the increased IL-6 secretion. To study the impact of
IL-6 on cell proliferation, we determined the effect of
TKIs on 786-O cells under the blockade of IL-6 signaling
by tocilizumab in a MTT assay. TKIs in low doses
and tocilizumab alone (value of 0.93±0.09, relative to
control) did not influence the cell count. The addition of
tocilizumab to TKIs results in a significant reduction of the
786-O cell count (Figure 5A). i We quantified the protein secretion levels of VEGF by
ELISA in 786-O cells treated with tocilizumab. As suggested
by the STAT3 and HIF-2α Western blot analyses described
above, sorafenib treatment resulted in a strongly enhanced
VEGF secretion. Treatment with the other TKIs sunitinib
or pazopanib also induced an enhanced VEGF secretion in
this cell line (Figure 5B). However blocking of the IL-6R by
tocilizumab attenuated the effect of sorafenib and sunitinib
significantly (p = 0.035 for sorafenib 1 µM, p = 0.019 for
sunitinib 1 µM and p = 0.044 for sunitinib 5 µM). Subsequently,
tumors
were
processed
for
microscopic morphological description. The tumors from
the control mice displayed a clear cell-type, specific for
renal cell carcinoma. Immunohistochemical examination
confirmed the absence of IL-6 and negligible activation of Figure 2: Immunohistochemical staining of IL-6 in specimens of RCC patients treated with TKIs or without therapy
before nephrectomy. HE and immunohistochemical staining of IL-6 of surgical RCC specimens diagnosed with over pT3 clear cell
renal cell carcinoma. TKIs induce IL-6 secretion by 768-O cells Relative
mRNA expressions (C) of TKI treated (two concentrations, three time points) compared with those of non-treated cells are indicated. All
TKIs up-regulate IL-6 and VEGF mRNA expression up to 400 fold (for IL-6) and 25 fold (for VEGF), irrespective of their concentration. www.impactjournals.com/oncotarget Oncotarget 55232 Alteration on susceptibility to TKIs by IL-6
pathway blockade Three patients were treated with TKIs for two months prior to surgery. The surgical specimens from the three patients
showed strong IL-6 expression (Figure 2 framed blue). In contrast, all of 12 patients without TKIs treatment before surgery did not show
IL-6 expression in the tumor parenchyma. Figure 2: Immunohistochemical staining of IL-6 in specimens of RCC patients treated with TKIs or without therapy
before nephrectomy. HE and immunohistochemical staining of IL-6 of surgical RCC specimens diagnosed with over pT3 clear cell
renal cell carcinoma. Three patients were treated with TKIs for two months prior to surgery. The surgical specimens from the three patients
showed strong IL-6 expression (Figure 2 framed blue). In contrast, all of 12 patients without TKIs treatment before surgery did not show
IL-6 expression in the tumor parenchyma. www.impactjournals.com/oncotarget Oncotarget 55233 mTOR signaling in the tumor cells of non-treated mice. No
remarkable differences were observed in the tumors treated
with tocilizumab alone. Tumor sections obtained from the
mice after sorafenib-only treatment showed enhanced
expression of p-S6RP, p-p70S6K and p-4EBP1 as a result
of an activation of the mTOR pathway. In contrast, the
combination therapy with sorafenib and tocilizumab
blocked the enhanced activation of the mTOR signaling
cascade and showed lower amounts of p-S6RP, p-p70S6K
and p-4EBP1 compared to tumors treated with sorafenib-
only (Figure 7B). The vascularization of the xenograft
tumors was also dependent on the treatment. Tumors of
mice treated with sorafenib or tocilizumab alone showed
a slightly reduced vascularization of the tumor, determined
by CD31 staining (Figure 6C). However, a remarkable
reduction of angiogenesis (compared with PBS-control,
sorafenib- or tocilizumab-only) was observed when mice
were treated with tocilizumab in combination with low
dose sorafenib (Figure 6C). differences were found on day 3 between the two groups,
despite decreased CD31 positive cells and significantly
lower signal intensity on the FDG-PET in the mice treated
with combination therapy (Figure 7C). After 21 days,
hematoxylin-eosin staining showed extensive necrosis,
both in mice treated with sorafenib monotherapy and
sorafenib / tocilizumab combination therapy (Figure 7C). However, there still remain viable tumor cells within the
necrotic area of tumors in the mice treated with sorafenib
monotherapy. Also, the CD31 positive cells increased
again in the tumor region treated with sorafenib along
on the day 21. In contrast, when tocilizumab was given
in combination with sorafenib, the tumors showed
extensive central necrosis with absence of CD31 positive
cells (Figure 7C). Alteration on susceptibility to TKIs by IL-6
pathway blockade Immunohistochemical examination
confirmed suppressed activation of S6RP, p70S6K and
4EBP1 in the tumors after combination therapy, although
IL-6 was detected (Figure 8). FDG-PET imaging The
present
study
demonstrates
that
low
concentration TKI treatment induces IL-6 and VEGF
expression and secretion only in 786-O cells, whereas
other RCC cell lines were not affected by TKI concerning
cytokine secretion. The finding that in all cases of
neoadjuvant TKI treated patient’s RCC specimens
IL-6 was highly expressed, whereas in patients without
TKI treatment no or only very low IL-6 expression was
detectable, suggests that the cell line 786-O reflects the
situation in vivo and we therefore used it for all further
investigations. 786-O cells differ from the other cell lines
by simultaneous mutations of VHL and HIF-1α [20]. HIF-
1α and HIF-2α are known to reciprocally influence each
other concerning VEGF expression and in renal cancer, To investigate TKI resistance in RCC and the
possibility of its prevention by combination therapy
with sorafenib and tocilizumab in vivo, we employed
FDG-PET imaging. Tumor viability, determined by
maximum standardized uptake value (SUVmax), of mice
treated with sorafenib alone remained unchanged with a
tendency to enhanced viability at day 21 (Figure 7A). In
the mice treated by combination therapy, tumor viability
was significantly decreased after 3 days compared to the
mice treated with sorafenib alone (p = 0.04). Also on day
21, the tumor viability of mice treated with sorafenib in
combination with tocilizumab was clearly lower than
that of sorafenib treated mice, although this difference
was not significant (Figure 7B). No histopathological Figure 3: Immunohistochemical staining of IL-6R in 768-O cells. Cells show a clear positive IL-6R staining, whereas the
negative control remains unstained. Figure 3: Immunohistochemical staining of IL-6R in 768-O cells. Cells show a clear positive IL-6R staining, whereas the
negative control remains unstained. www.impactjournals.com/oncotarget Oncotarget 55234 ffects of IL-6 signaling blockade on activity of the AKT-mTOR pathway after (A) sorafenib, (B) sunitinib or (C) pazopanib
fluence of tocilizumab (50 µg/ml) on activation of AKT-mTOR pathway in 786-O cells after treatment with TKI was determined
ot. The concentrations of TKIs are indicated on the X axis of each graph. In combinational treatment (right part of each graph)
was used in a concentration of 50 µg/ml. The column labeled by 0 µg/ml in the right part of each graph represents treatment with
lone. Phosphorylation of AKT, mTOR, 4EBP1, S6RP, NFκB, and STAT3 was enhanced after TKI treatment at concentration
IF-2α was enhanced by treatment with TKIs in all concentrations used. Tocilizumab neutralized these effects. FDG-PET imaging The results are
he relative mean value ± standard deviation of three independent analyses, each in triplicate, related to untreated control cells. mpared with the control cells. Figure 4: Effects of IL-6 signaling blockade on activity of the AKT-mTOR pathway after (A) sorafenib, (B) sunitinib or (C) pazopanib
treatment. Influence of tocilizumab (50 µg/ml) on activation of AKT-mTOR pathway in 786-O cells after treatment with TKI was determined
by Western blot. The concentrations of TKIs are indicated on the X axis of each graph. In combinational treatment (right part of each graph)
tocilizumab was used in a concentration of 50 µg/ml. The column labeled by 0 µg/ml in the right part of each graph represents treatment with
tocilizumab alone. Phosphorylation of AKT, mTOR, 4EBP1, S6RP, NFκB, and STAT3 was enhanced after TKI treatment at concentration
of 0.5 µM. HIF-2α was enhanced by treatment with TKIs in all concentrations used. Tocilizumab neutralized these effects. The results are
presented as the relative mean value ± standard deviation of three independent analyses, each in triplicate, related to untreated control cells. *p < 0.05 compared with the control cells. www.impactjournals.com/oncotarget Oncotarget 55235 VEGF secretion particularly is regulated by HIF-2α
[21]. Due to the VHL mutation in 786-O cells, HIF-2α
is persistently highly expressed [22] and due to the loss
of HIF-1α, the reciprocal interaction between HIF-1α and
HIF-2α probably is abolished, suggestively leading to a
higher secretion of VEGF. This coincidence may cause the
here described strong IL-6-VEGF vicious circle especially
in 786-O cells. from RCC patients who were treated with TKIs prior
to surgery showed strong IL-6 expression in the tumor
parenchyma, although the number of the patients was
quite small. One can assume that tumor necrosis due to
TKI treatment causes inflammatory changes and leads to
cytokine secretion. Inflammatory cytokines such as IL-6
might then affect the viability of the cells which survive
after TKI treatment. IL-6 is a pleiotropic cytokine with widespread
effects on hematopoietic lineages [23, 24] and is
considered to be a key mediator of inflammation [25]. Dysregulation of IL-6 signaling contributes to the onset
and maintenance of several diseases including some
types of cancer, i.e. multiple myeloma, gastric cancer
and prostate cancer [26, 27]. IL-6 induces activation of
the PI3K/AKT pathway, and is involved in protection
against apoptosis and in enhanced proliferation of multiple
myeloma cells [15, 16]. FDG-PET imaging In this context it is not surprising
that inflammation dependent secretion of IL-6 induces
TKI resistance in lung cancer [28]. It has been described,
that in RCC circulating cytokine levels, including IL-6, are
increased in advanced RCC patients treated with sunitinib
from baseline values before tumor progression [29]. Interestingly, all three clinical specimens we obtained We found that the elevated IL-6 secretion is correlated
with an increased VEGF secretion, suggesting a functional
coupling of the two events. A mandatory requirement for
such a loop is the expression of the IL-6 receptor, which
we observed in 786-O cells in our study. It is known, that
in response to IL-6R stimulation, cytoplasmic STAT3, an
independent prognostic marker in RCC [30], gets activated. STAT3 is known to play an important role in tumor
progression of several high-malignant cancer entities. In
intrahepatic cholangiocarcinoma STAT3 overexpression
negatively correlates with the outcome of the patients
[31], and in breast and lung cancer STAT3 has a key
role in metastatic processes [32, 33]. Phosphorylation
of STAT3 triggers a transcriptional response favoring
survival, proliferation and angiogenesis. Phosphorylated
STAT3 rapidly accumulates in the nucleus [34] and igure 5: Cell viability as well as VEGF secretion after IL-6 signaling inhibition. (A) Antihuman IL-6R antibody, tocilizumab
50 µg/ml), was used for the inhibition of IL-6 signaling. Cell count was determined by an MTT assay. Tocilizumab significantly increased
usceptibility to TKIs, especially at low dosage of 5 µM for sorafenib, 1 µM for sunitinib and 1 and 5 µM for pazopanib. *p < 0.05 for
wo-tailed paired t-test compared with combination with tocilizumab and TKIs. (B) Tocilizumab inhibits low dosage TKI-induced VEGF
xpression, determined by ELISA. *p < 0.05 for two-tailed paired t-test compared with the TKI treated cells. Figure 5: Cell viability as well as VEGF secretion after IL-6 signaling inhibition. (A) Antihuman IL-6R antibody, tocilizumab
(50 µg/ml), was used for the inhibition of IL-6 signaling. Cell count was determined by an MTT assay. Tocilizumab significantly increased
susceptibility to TKIs, especially at low dosage of 5 µM for sorafenib, 1 µM for sunitinib and 1 and 5 µM for pazopanib. *p < 0.05 for
two-tailed paired t-test compared with combination with tocilizumab and TKIs. (B) Tocilizumab inhibits low dosage TKI-induced VEGF
expression, determined by ELISA. *p < 0.05 for two-tailed paired t-test compared with the TKI treated cells. FDG-PET imaging www.impactjournals.com/oncotarget Oncotarget 55236 Figure 6: Effect of combination therapy with sorafenib and tocilizumab on a nude mice xenografts model of 786-O cells
Mice were treated three times a week with tocilizumab (100 µg i.p.) or control PBS (n = 5 each) followed by daily sorafenib administratio
at 10 mg/kg/day as described elsewhere [54]. Phosphate-buffered saline (PBS) was used in the control (non-treated) mouse group (n = 5)
Tocilizumab alone was used in another group of mice (n = 5). Mice were sacrificed after 40 days and tumors were analyzed. (A) Time cours
of tumor volume was analyzed by ellipsoid volume formulas (pi/6 x L x W x H). The tumor volumes by low-dose sorafenib + tocilizuma
herapy were significantly decreased compared to sorafenib therapy alone (p < 0.05). A repeated experiment yielded similar results. (B
Endothelial cells of xenografts were visualized by an immunohistochemical staining of CD31 Sorafenib or tocilizumab administratio Figure 6: Effect of combination therapy with sorafenib and tocilizumab on a nude mice xenografts model of 786-O cells. Mice were treated three times a week with tocilizumab (100 µg i.p.) or control PBS (n = 5 each) followed by daily sorafenib administration
at 10 mg/kg/day as described elsewhere [54]. Phosphate-buffered saline (PBS) was used in the control (non-treated) mouse group (n = 5). Tocilizumab alone was used in another group of mice (n = 5). Mice were sacrificed after 40 days and tumors were analyzed. (A) Time course
of tumor volume was analyzed by ellipsoid volume formulas (pi/6 x L x W x H). The tumor volumes by low-dose sorafenib + tocilizumab
therapy were significantly decreased compared to sorafenib therapy alone (p < 0.05). A repeated experiment yielded similar results. (B)
Endothelial cells of xenografts were visualized by an immunohistochemical staining of CD31. Sorafenib or tocilizumab administration
alone partially inhibited angiogenesis in the tumor as demonstrated by reduced CD31 levels. The combination therapy with sorafenib and
tocilizumab strongly inhibited the angiogenesis. (C) Signaling pathways of xenografts were analyzed immunohistochemically. Sorafenib
at a low dose of 10 mg/kg/day induced activation of S6RP, p70S6K and 4EBP1 of mTOR pathway. Tocilizumab administration resulted
in no remarkable morphological changes. The combination therapy diminished the effect induced by sorafenib alone on the activation of
mTOR pathway. ation therapy with sorafenib and tocilizumab on a nude mice xenografts model of 786-O cells. FDG-PET imaging k
i h
ili
b (100
i
)
l
S (
h) f ll
d b d il
f
ib d i i
i Figure 6: Effect of combination therapy with sorafenib and tocilizumab on a nude mice xenog
i
d h
i
k
i h
ili
b (
i
)
l
(
h) f ll
d b Figure 6: Effect of combination therapy with sorafenib and tocilizumab on a nude mice xenografts model of 786-O cells. Mice were treated three times a week with tocilizumab (100 µg i.p.) or control PBS (n = 5 each) followed by daily sorafenib administration
at 10 mg/kg/day as described elsewhere [54]. Phosphate-buffered saline (PBS) was used in the control (non-treated) mouse group (n = 5). Tocilizumab alone was used in another group of mice (n = 5). Mice were sacrificed after 40 days and tumors were analyzed. (A) Time course
of tumor volume was analyzed by ellipsoid volume formulas (pi/6 x L x W x H). The tumor volumes by low-dose sorafenib + tocilizumab
therapy were significantly decreased compared to sorafenib therapy alone (p < 0.05). A repeated experiment yielded similar results. (B)
Endothelial cells of xenografts were visualized by an immunohistochemical staining of CD31. Sorafenib or tocilizumab administration
alone partially inhibited angiogenesis in the tumor as demonstrated by reduced CD31 levels. The combination therapy with sorafenib and
tocilizumab strongly inhibited the angiogenesis. (C) Signaling pathways of xenografts were analyzed immunohistochemically. Sorafenib
at a low dose of 10 mg/kg/day induced activation of S6RP, p70S6K and 4EBP1 of mTOR pathway. Tocilizumab administration resulted
in no remarkable morphological changes. The combination therapy diminished the effect induced by sorafenib alone on the activation of
mTOR pathway. www.impactjournals.com/oncotarget www.impactjournals.com/oncotarget www.impactjournals.com/oncotarget Oncotarget 55237 Figure 7: A nude mice xenograft model of 786-O cells was evaluated by FDG-PET imaging during a time course of
3 and 21 days. Mice were treated with sorafenib alone (30 mg/kg/day) or in combination with tocilizumab (100 mg three times a week). (A) Sorafenib as well as combination therapy with sorafenib and tocilizumab lead to a decrease of the viable region in the central area of the
tumor. (B) SUVmax was significantly decreased in the tumor in the combination therapy compared with sorafenib alone at day 3 (SUVmax
9.6 vs. 11.9, p = 0.04). At day 21, FDG-PET imaging showed that the SUV value remained low in the tumor with the combination therapy,
although value difference was not significant compared with sorafenib treatment alone (p = 0.10). (C) RCC in nude mice were analyzed by
HE and endothelial cell staining (CD31) on day 3 and day 21. Tumors from mice treated with sorafenib, as well as with the combination
therapy, showed no remarkable change on day 3 of challenge. CD31 positive cells were only marginal in both groups. On day 21 tumors
from mice treated with sorafenib, as well as with combination therapy, showed central necrosis in the tumor. However, tumors from mice
treated with sorafenib alone retain a viable tumor area at the central tumor region and show CD31 positive cells among the viable tumor cells. A nude mice xenograft model of 786-O cells was evaluated by FDG-PET imaging during a t nograft model of 786-O cells was evaluated by FDG-PET imaging during a time course of Figure 7: A nude mice xenograft model of 786-O cells was evaluated by FDG-PET imaging during a time course of
3 and 21 days. Mice were treated with sorafenib alone (30 mg/kg/day) or in combination with tocilizumab (100 mg three times a week). (A) Sorafenib as well as combination therapy with sorafenib and tocilizumab lead to a decrease of the viable region in the central area of the
tumor. (B) SUVmax was significantly decreased in the tumor in the combination therapy compared with sorafenib alone at day 3 (SUVmax
9.6 vs. 11.9, p = 0.04). At day 21, FDG-PET imaging showed that the SUV value remained low in the tumor with the combination therapy,
although value difference was not significant compared with sorafenib treatment alone (p = 0.10). www.impactjournals.com/oncotarget (C) RCC in nude mice were analyzed by
HE and endothelial cell staining (CD31) on day 3 and day 21. Tumors from mice treated with sorafenib, as well as with the combination
therapy, showed no remarkable change on day 3 of challenge. CD31 positive cells were only marginal in both groups. On day 21 tumors
from mice treated with sorafenib, as well as with combination therapy, showed central necrosis in the tumor. However, tumors from mice
treated with sorafenib alone retain a viable tumor area at the central tumor region and show CD31 positive cells among the viable tumor cells. Figure 7: A nude mice xenograft model of 786-O cells was evaluated by FDG-PET imaging during a time course of
3 and 21 days. Mice were treated with sorafenib alone (30 mg/kg/day) or in combination with tocilizumab (100 mg three times a week). (A) Sorafenib as well as combination therapy with sorafenib and tocilizumab lead to a decrease of the viable region in the central area of the
tumor. (B) SUVmax was significantly decreased in the tumor in the combination therapy compared with sorafenib alone at day 3 (SUVmax
9.6 vs. 11.9, p = 0.04). At day 21, FDG-PET imaging showed that the SUV value remained low in the tumor with the combination therapy,
although value difference was not significant compared with sorafenib treatment alone (p = 0.10). (C) RCC in nude mice were analyzed by
HE and endothelial cell staining (CD31) on day 3 and day 21. Tumors from mice treated with sorafenib, as well as with the combination
therapy, showed no remarkable change on day 3 of challenge. CD31 positive cells were only marginal in both groups. On day 21 tumors
from mice treated with sorafenib, as well as with combination therapy, showed central necrosis in the tumor. However, tumors from mice
treated with sorafenib alone retain a viable tumor area at the central tumor region and show CD31 positive cells among the viable tumor cells. www.impactjournals.com/oncotarget Oncotarget 55238 downstream molecules like mTOR, a key factor in this
pathway. STAT3 is directly phosphorylated by activated
mTOR. STAT3, 4EBP1 and S6K1 act in concert to drive
the angiogenic response through mTOR complex 1
(mTORC1) [43]. The mTORC1 activation causes protein
synthesis, which induces cell proliferation, survival,
motility and invasion leading to cancer initiation and
progression [44]. www.impactjournals.com/oncotarget On the other hand, mTOR complex
2 (mTORC2) again activates AKT and can induce the
expression of HIF-2α [45], an anti-apoptotic transcription
factor, highly important in tumorigenesis [46]. HIF-2α
has been demonstrated to be more important in RCC
tumorigenesis than HIF-1α, since blocking HIF-2α
results in a strong reduction of RCC tumor formation and
angiogenesis [47]. In our study activation of mTOR after
low-concentration TKI treatment correlates clearly with an
enhanced HIF-2α expression, probably inducing resistance
to TKI treatment. However, the enhanced VEGF secretion
observed after treatment with TKI in low concentration
seems not only to be caused by HIF-2α, since HIF-2α was
highly expressed after treatment in all TKI concentrations
tested. In contrast, STAT3 was primarily enhanced after
treatment with low TKI concentrations, corresponding to
the high VEGF secretion, which is in good accordance
with the fact that STAT3 is known to be able to induce
VEGF secretion [48].i leads to the production of VEGF [35, 36]. The activated
STAT3 can increase NFκB activity and NFκB itself is
an important mediator for activation of the IL-6 gene
[37]. This activation cascade is effective within short
time, since inhibition of NFκB results in a reduced IL-6
secretion after a period of one hour [38], a time period
also selected in our study. Within the cell IL-6 is stored
in vesicles and secreted after stimulation [39]. Apparently,
IL-6 transcription seems to be simultaneously enhanced or
degradation diminished. NFκB-triggered positive feedback
for IL-6 signaling, also known as inflammation amplifier,
induces various molecules to create a microenvironment
which promotes cancer development [40]. In our study
we show, that TKI treatment enhances IL-6 secretion,
associated with activation of the AKT pathway including
AKT, mTOR and p70S6K as well as STAT3 and NFκB
activation and consequently VEGF secretion. This suggests
a similar amplifier loop in renal cancer, whereby IL-6 is
induced by TKIs in RCC cells, consequently up-regulating
VEGF expression via AKT and STAT3 (Figure 9). The
observation that the AKT-mTOR pathway is activated
only when low concentrations of TKIs are used, although
enhanced secretion of IL-6 and VEGF also occur when
higher TKI concentrations are added, may be caused by
the circumstance that not the AKT-mTOR pathway alone
is responsible for the enhanced cytokine secretion, but also
other mechanisms not detected in this study. www.impactjournals.com/oncotarget This is in good
accordance with the finding, that a higher VEGF baseline
level is associated with less progression-free survival in
sunitinib treated RCC patients [41, 42]. TKI treatment alone had no significant effect on
proliferation of 786-O cells in vitro, probably due to the
low concentrations used. Tocilizumab, an inhibitory IL-
6R antibody, that is approved for rheumatoid arthritis,
juvenile idiopathic arthritis, Castleman’s disease, and
Crohn’s disease [49–52], inhibits IL-6 signaling. An
additive treatment of RCC cells with TKI together with
tocilizumab in the present study resulted in a reduced It has been reported, that IL-6-induced activation of
the PI3K/AKT pathway is involved in protection against
apoptosis, as well as in enhanced proliferation in some
cancer cells [15–17]. Phosphorylated AKT activates Figure 8: mTOR pathway activity in mouse tumor specimens after sorafenib treatment in combination with tocilizumab. The mTOR pathway in the tumors was immunohistochemically analyzed on day 21. Tumors from mice treated with sorafenib showed
phosphorylation of mTOR pathway components 4EBP1, p70S6K and S6RP, correlating with IL-6 expression. In contrast, tumors from
mice of the combination therapy group showed suppressed activation of the mTOR pathway. Figure 8: mTOR pathway activity in mouse tumor specimens after sorafenib treatment in combination with tocilizumab. The mTOR pathway in the tumors was immunohistochemically analyzed on day 21. Tumors from mice treated with sorafenib showed
phosphorylation of mTOR pathway components 4EBP1, p70S6K and S6RP, correlating with IL-6 expression. In contrast, tumors from
mice of the combination therapy group showed suppressed activation of the mTOR pathway. www.impactjournals.com/oncotarget Oncotarget 55239 vascularity in the tumor was reduced only temporarily
by sorafenib and returned to control levels on day
14–21 after treatment. The combination with IL-6R
antibody prolonged the time of reduced vascularity, and
we observed decreased vessels at the periphery of the
lesion even on day 21 after combinational therapy with
sorafenib and tocilizumab. This supports the idea, that the
tumor angiogenesis is inhibited by an IL-6R blockade. We have previously reported that the inhibition of IL-6
signaling alone is insufficient to inhibit 786-O tumor
growth in vivo [19]. Only the combination with sorafenib
and tocilizumab inhibited tumor growth and angiogenesis. TKI resistance of renal cancer includes insensitivity
against anti-proliferative effects of TKIs as well as
resistance to anti-angiogenic TKI effects. The observed
effect occurs after TKI treatment in low concentration. www.impactjournals.com/oncotarget This can appear during dosage reductions in patients
or after discontinuation of the TKI therapy, which may
finally lead to TKI-resistance in anti-proliferative and
anti-angiogenesis effects of further TKI treatment. In our
cellular model, a combination of TKI with tocilizumab
effectively circumvents TKI resistance. In vivo we
confirmed this observation concerning angiogenesis. IL-6 secretion can activate VEGF expression and thus
contribute to angiogenesis, cell proliferation and survival
of tumor cells. We suggest that the IL-6 secretion of
RCC cells might lead to renal cancer resistance towards
TKI therapy, due to the discussed feedback loops. In
this scenario, the combination of TKI with tocilizumab
would have at least additive effects, since we observed tumor cell proliferation. Additionally, VEGF secretion
was reduced after combination treatment, compared to
treatment with TKI alone. These results were significant
only when the TKIs sorafenib and sunitinib were used,
whereas in case of pazopanib we only could observe a
tendency in the according direction. These combination
effects were confirmed by our in vivo study using sorafenib
together with tocilizumab, where the combination therapy
enhanced anti-tumor effects of sorafenib in 786-O RCC
cells in nude mice. We have previously reported that IFN-α induces
IL-6 in human RCC cell lines and that IL-6 plays a
crucial role for resistance also against IFN-α treatment
through suppressed STAT1 phosphorylation and induced
phosphorylation of STAT3 and ERK [19]. Tocilizumab
restored the inhibitory effect of IFN-α, in vitro and in
vivo, in an IFN-α-resistant RCC cell line in which IL-6
was highly induced by IFN-α [19]. This further supports
the possibility to block multiple treatment resistance
mechanisms, induced by an enhanced IL-6 secretion, by
inhibiting IL-6R, as we show here in RCC. The 786-O tumors of mice treated with low doses
of sorafenib monotherapy activated p70S6K, S6RP and
4EBP1, apparently leading to tumor cell proliferation
under the insufficient effect of sorafenib. The combination
with IL-6R antibody decreased this activation and
significantly reduced the tumor volume compared to the
sorafenib monotherapy. In addition, as shown in the in vivo study using
arterial spin-labeling magnetic resonance [53], the Figure 9: Feedback loop in TKI therapy. IL-6 and VEGF activate AKT-mTOR and the STAT3 signaling cascade, consequently
leading to enhanced secretion of IL-6 and VEGF. Secreted IL-6 and VEGF can again re-activate tumor cells and thus trigger tumor
progression. A combination therapy of TKI together with an anti-IL-6R antibody could inhibit this amplifier circle. Cell lines/TKIs/tocilizumab The human RCC cell lines 786-O, A489, Caki1
and Caki2, obtained from the American Tissue Culture
Collection (ATCC), were cultured at 37°C in 5% CO2
using RPMI 1640 with 10% fetal bovine serum. Three
kinds of TKIs, sorafenib, sunitinib and pazopanib, were
purchased from LC Laboratories (Woburn, MA, USA),
sorafenib additionally kindly provided from BAYER. The
optimum concentration of tocilizumab was determined to
be 50 mg/ml, as described previously [19]. Patient surgical specimens Surgical specimens were obtained from 15 patients
with renal cell carcinoma who underwent radical
nephrectomy for cT3N0M0 disease at the department of
Urology, Fukushima Medical University, between 2010
and 2012. Mean patient age was 66 years. Patients who
were diagnosed with clear cell renal cell carcinoma were
included in this study. The research protocol was approved
by the Ethics review committee of Fukushima Medical
University (approval #2663). Among the 15 patients,
two were neoadjuvantly treated with sorafenib, one with
sunitinib for two months before surgery to reduce the
tumor volume. RNA isolation and real-time quantitative PCR RNA isolation and cDNA construction were
performed using a Cells-to-CTTM Kit (Life Technologies,
Carlsbad, CA, USA) according to the manufacturer’s
instructions. TaqMan PCR reagents for IL-6 (Hs00985639)
and VEGFA (Hs00900055_m1) were purchased from ABI
(Applied Biosystems, Foster, CA, USA). Quantitative
Real-time PCR was carried out using TaqMan Master
Mix reagents kit protocol with a StepOne Real-time PCR
System (Life Technologies). The data were standardized
against beta-actin gene expression using Pre-Developed
TaqMan Assay Reagents (Applied Biosystems). www.impactjournals.com/oncotarget Figure 9: Feedback loop in TKI therapy. IL-6 and VEGF activate AKT-mTOR and the STAT3 signaling cascade, consequently
leading to enhanced secretion of IL-6 and VEGF. Secreted IL-6 and VEGF can again re-activate tumor cells and thus trigger tumor
progression. A combination therapy of TKI together with an anti-IL-6R antibody could inhibit this amplifier circle. Figure 9: Feedback loop in TKI therapy. IL-6 and VEGF activate AKT-mTOR and the STAT3 signaling cascade, consequently
leading to enhanced secretion of IL-6 and VEGF. Secreted IL-6 and VEGF can again re-activate tumor cells and thus trigger tumor
progression. A combination therapy of TKI together with an anti-IL-6R antibody could inhibit this amplifier circle. www.impactjournals.com/oncotarget Oncotarget 55240 by VersaMAP Development System (R&D systems,
Minneapolis, MN, USA) according to the manufacturer's
instructions. Briefly, 50 ml of Microparticle Cocktail was
added to each well of the filter-bottomed microplate and 50
µl cell culture supernatant was added to each well. After
a 2-hour incubation at room temperature on a microplate
shaker, the liquid was removed and the plate was washed
with wash buffer. Then 50 ml of Biotin Antibody Cocktail
was added to the well and incubated for 1 hour at room
temperature. After three wash cycles Streptavidin-PE was
added to the wells and the plate was incubated 30 minutes
at room temperature. The cytokine concentration was
measured using a Bio-Rad analyzer (Bio-Rad, Germany). early decline of SUVmax as well as earlier appearance
and increase of the necrotic areas by FDG-PET after
combination therapy. In conclusion, the presented study demonstrates that
sunitinib and sorafenib treatment in low concentrations
leads to activation of AKT- and STAT3-signaling,
consequently resulting in a secretion of IL-6 and VEGF. The latter then seems to result in an amplifier circle, which
consecutive reduces sensitivity to TKIs. Inhibition of the
IL-6 signaling by tocilizumab may block the amplifier
circle and re-activate the anti-tumor activity of TKIs,
both in vitro and in vivo. Our findings suggest that a
combination therapy using an antihuman IL-6R antibody
with TKIs may represent a novel therapeutic approach for
the antiangiogenic treatment of RCC, also in the light of
previously reported IFN-α effects. Immunohistochemical staining of IL-6 in tumor
specimens Formalin-fixed, paraffin-embedded human tissues
including renal cell carcinoma were processed for
immunohistochemical staining with an anti-IL-6 antibody
(ROCKLANDTM Gilbertsville, PA). Sections (2 μm thick)
were deparaffinized in three changes of xylene, hydrated
through a descending series of ethanol. The endogenous
peroxidase activity was blocked with methanol containing
0.5% hydrogen peroxide for 20 minutes. Then sections
were treated at 4 °C overnight with primary antibodies for
IL-6 (1:600 dilution). Subsequent reactions were carried
out with the DAKO EnVision Detection System (Dako,
Hamburg, Germany) according to the manufacturer’s
instructions. MTT assay mice were separated into four groups of five animals. One
group received an i.p. injection of 100 mg antihuman
IL-6 receptor (IL-6R) antibody, tocilizumab, three times
a week, together with sorafenib in a daily of 10 mg/kg
by oral administration as described previously [54]. The
other groups received sorafenib alone, tocilizumab alone
or phosphate-buffered saline (PBS; non-treated control
group), respectively. Tumor size was measured and tumor
volume was calculated by ellipsoid volume formulas (pi/6
x L x W x H) [55]. After treatment for 40 days, mice were
sacrificed and the tumors were removed and used for
histo-morphological analyses. For determination of cellular proliferation and
viability,
MTT
(3-[4,5-dimethylthiazol-2-yl]-2,5-
diphenyltetrazolium bromide) assays were performed using
a Cell Proliferation Kit I (Roche Applied Science, Basel,
Switzerland) according to the manufacturer’s protocol. Briefly, 72 hours after incubation of the cells with TKIs
and tocilizumab, the MTT labeling reagent was added to
each well, which were then incubated for 4 hours at 37°C
before the addition of the solubilization solution to each
well. Spectrophotometrical absorbances of the samples
were measured using a microplate reader. The absorbances
were compared with those of non-treated cells. Measurement of cytokines using VersaMAP
development System For IL-6R staining on 786-O cells a Dako-REAL-
EnVision HRP system was used (Dako, Hamburg,
Germany). Cells were acetone fixed, peroxidase blocked
and stained using an antihuman IL-6R antibody (1:25,
R&D systems, Minneapolis, MN, USA) for one hour
at room temperature. Second antibody (ready to use)
and DAB staining was performed according to the
manufacturer’s instructions. Cells were HE counterstained. The primary antibody was omitted as negative control. 786-O cells were treated by TKIs at a final
concentration of 0.5, 1.0, 5.0, 10.0 µM for sorafenib
and sunitinib and 1.0, 5.0, 10.0, 50.0 µM for pazopanib. The supernatant was collected 1, 2, and 24 hours after
TKIs stimulation. The amount of cytokine production
(IL-6, VEGF, IL-1ra, IL-17, IL-19, IL-23, IL-18BPa,
Leptin, HGF, Cript-1, HB-EGF, EGF) was measured www.impactjournals.com/oncotarget Oncotarget 55241 Tumor xenografts All animal studies were conducted in compliance
with Japanese animal use regulations and approval
for these studies was obtained from the Committee on
Animal Research of Fukushima Medical University. Six-week-old female BALB/C nu/nu nude mice (CLEA
Japan, Inc.) were inoculated subcutaneously (s.c.) in the
flank with 4 × 106 786-O cells (n = 20). The tumor-bearing Measurement of VEGF using an enzyme-linked
immunosorbent assay (ELISA) Paraffin-embedded sections of tumors from the
mouse xenograft models were prepared and stained with
hematoxylin and eosin (HE). To detect activation of AKT-
mTOR pathway, sections were stained with anti-CD31,
anti-p-S6RP, anti-p-p70S5K and anti-p-4EBP1 antibodies
(Cell Signaling Technology, Danvers, MA, USA). Staining
was detected using a streptavidin-biotin kit (Nichirei,
Trappes, France) according to the manufacturer’s protocol. 786-O cells were treated by TKIs at various
concentrations for two hours. The VEGF concentration
in the supernatant of TKI treated 786-O cells with or
without tocilizumab treatment were measured using a
Human VEGF Quantikine ELISA kit (R&D systems, MN)
according to the manufacturer’s instructions. FDG-PET imaging 786-O cells were treated with sorafenib with or
without tocilizumab for 2 hours. Whole-cell protein
was extracted from the cells treated with TKIs and/or
tocilizumab and sodium dodecyl sulfate–polyacrylamide
gel electrophoresis was carried out. Antibodies specific for
phospho-AKT (p-AKT, Ser473), AKT, phospho-mTOR
(p-mTOR, Ser2448), mTOR, phospho-STAT3 (p-STAT3,
Tyr705), STAT3, phospho-4EBP1 (p-4EBP1,Thr37/46),
phospho-p70S6K (p-p70S6K Ser411), phospho-S6
Ribosomal Protein (p-S6RP Ser235/236), phospho-
NFκB (p-NFκB, Ser536), NFκB and HIF-2α were used
as primary antibodies (Cell Signaling, Beverly, MA,
USA). Anti-beta-actin antibody (SIGMA, St. Louis, MO,
USA) was used as an internal control. Protein bands
were visualized using ECL Advanced Western detection
reagents (GE Healthcare, Buchinghamshire, UK), and
imaged with a ChemiDoc XRS plus system (BIO-RAD,
Hercules, CA, USA). Individual bands were quantified
with Image Lab 2.0 software (BIO-RAD), and normalized
against the control value (untreated cells). To evaluate a potential impact of tocilizumab on
a TKI therapy of RCC, FDG-PET imaging in xenograft
models of mice treated with sorafenib alone and the
combination sorafenib with tocilizumab was performed. Xenograft tumors in nude mice were achieved as described
above. To reinforce the effect observed in the xenograft
experiments, the experimental group received 30 mg/kg
of sorafenib 6 days a week (n = 8), for the duration of the
study starting from time when the tumors reached 10 mm in
diameter. For combination therapy (n = 7) tocilizumab (i.p. injection of 100 mg three times a week) was additionally
administered. Mice were fasted for 6 hours prior to start of
imaging session. FDG (obtained as an aliquot from daily
clinical productions at Fukushima Medical University
Hospital, 7–8 MBq per mouse, maximum volume of 200
μl) was administered to mice by a bolus injection via the
tail vein. PET data were acquired in fully 3-dimensional (3-
D) mode. Standard Uptake Values (SUV) were calculated
for 3D regions of interest (ROI), using Inveon Research
Workplace software (Siemens Medical Solutions). FDG-
PET imaging was performed at baseline and at scheduled
intervals on days 3 and 21 (each n = 3 or 4). Animals were
sacrificed for radiologic-pathologic correlation according
to the schedule. FUNDING This work was supported by a Grant-in-Aid for
Scientific Research from the Japan Society for the
Promotion of Science (No.22591773). 13. Xu Z, Yang F, Wei D, Liu B, Chen C, Bao Y, Wu Z, Wu D,
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mRNA expression level and Western blot analysis were
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ERK: extracellular Signal-regulated Kinase, FDG:
fluorine-18 fluorodeoxyglucose, HIF: hypoxia-inducible
factor, IL-6: interleukin 6, IL-6R: interleukin 6 receptor,
JAK/STAT: janus kinase/signal transducer and activator
of transcription, MAPK: mitogen-activated protein
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target of rapamycin, mTORC: mTOR complex, p706SK:
p70S6 kinase, PDGFR: platelet-derived growth factor
receptor, PET: positron emission tomography, RCC: renal
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Hirshman MF, Galbo H, Goodyear LJ. Contraction and
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Maintaining phagosome integrity during fungal infection: do or die?
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Maintaining phagosome integrity during fungal infection:
do or die? Mabel Yang1, Glenn F.W. Walpole1,2 and Johannes Westman1,*
1 Program in Cell Biology, The Hospital for Sick Children, Toronto, ON, M5G 0A4, Canada. 2 Department of Biochemistry, University of Toronto, Toronto, ON, M5S 1A8, Canada. * Corresponding Author: Mabel Yang1, Glenn F.W. Walpole1,2 and Johannes Westman1,*
1 Program in Cell Biology, The Hospital for Sick Children, Toronto, ON, M5G 0A4, Canada. 2 Department of Biochemistry, University of Toronto, Toronto, ON, M5S 1A8, Canada. * Corresponding Author: Johannes Westman, Program in Cell Biology, The Hospital for Sick Children, 686 Bay St, Toronto, ON, Canada M5G 0
E-mail: johannes.westman@sickkids.ca Professional phagocytes represent a critical node in
innate immunity and tissue homeostasis through their
specialized ability to eat, drink, and digest material
from the extracellular milieu. The degradative and mi-
crobicidal functions of phagocytes rely on the fusion of
lysosomes with endosomal compartments such as
phagosomes, resulting in the digestion and recycling of
internalized prey and debris. Despite these efforts,
several particularly dangerous infections result from a
class of tenacious pathogens that resist digestion, of-
ten surviving and even proliferating within the con-
fines of the phagosomal membrane. One such example,
Candida albicans, is a commensal polymorphic fungus
that colonizes ~50% of the population and can cause
life-threatening infections in immunocompromised
patients. Not only can C. albicans survive within phag-
osomes, but its ingestion by macrophages triggers a
yeast-to-hyphal transition promoting rapid intra-
phagosomal growth (several microns per hour) while
imposing a substantial mechanical burden on the
phagosomal membrane surrounding the fungus. Preservation of membrane integrity is essential to
maintain the hostile internal environment of the
phagosome, a functionality of degradative enzymes
and oxidative stress. Yet, biological membranes such
as phagosomes have a limited capacity to stretch. Us-
ing C. albicans as a model intracellular pathogen, our
recent work reveals a mechanism by which phago-
somes respond to intraphagosomal growth of patho-
gens by expanding their surface area, and as a result,
maintain the integrity of the phagosomal membrane. We hypothesized that this expansion would be facili-
tated by the delivery and fusion of membrane from extraneous sources with the phagosome. Consistently,
macrophages respond to the yeast-to-hyphal transition
through a stretch-induced release of phagosomal cal-
cium, leading to recruitment and insertion of lyso-
somes that accommodate the expansion of the phago-
lysosome and preserve its integrity. Below, we discuss
this calcium-dependent mechanism of lysosome inser-
tion as a means of avoiding phagosomal rupture. Microreview www.microbialcell.com MICROREVIEW on: Westman J, Walpole GFW, Kasper L, Xue BY, Elshafee O, Hube B, Grinstein S (2020). Lysosome Fusion Maintains Phago-
some Integrity during Fungal Infection. Cell Host Microbe S1931-3128(20): 30505-9. doi: 10.1016/j.chom.2020.09.004 doi: 10.15698/mic2020.12.738
Received 17.11.2020, Accepted 24.11.2020, Published 03.12.2020.
Keywords: Candida albicans, phagosome, lysosome, macrophage, fungi, calcium. Maintaining phagosome integrity during fungal infection:
do or die? (A) Phagosomes expand their surface area by insertion
of lysosomes. As C. albicans initiates filamentation inside the mature phagosome, luminal Ca2+ is released, leading to recruitment and inser-
tion of lysosomes. This preserves phagosome integrity while restricting fungal growth. (B) The second wave of lysosome insertion can be
inhibited by applying the Ca2+ chelator BAPTA. Preventing cytosolic Ca2+ transients during intraphagosomal growth leads to early phagosome
rupture, NLRP3 inflammasome activation, and subsequent macrophage cell death. Actin polymerizes at the site where the hypha protrudes
through the plasma membrane, possibly re-sealing the macrophage membrane and preventing leakage of cytosolic content. FIGURE 1: Lysosome fusion maintains phagosome integrity during fungal infection. (A) Phagosomes expand their surface area by insertion
of lysosomes. As C. albicans initiates filamentation inside the mature phagosome, luminal Ca2+ is released, leading to recruitment and inser-
tion of lysosomes. This preserves phagosome integrity while restricting fungal growth. (B) The second wave of lysosome insertion can be
inhibited by applying the Ca2+ chelator BAPTA. Preventing cytosolic Ca2+ transients during intraphagosomal growth leads to early phagosome
rupture, NLRP3 inflammasome activation, and subsequent macrophage cell death. Actin polymerizes at the site where the hypha protrudes
through the plasma membrane, possibly re-sealing the macrophage membrane and preventing leakage of cytosolic content. Compromising the host macrophages' ability to main-
tain phagosome membrane integrity can lead to dire con-
sequences for the host cell. During the intraphagosomal
growth of C. albicans, inhibition of lysosome insertion by
calcium buffering triggered early phagosome rupture, de-
tected by phagosomal leakage of a small fluorescent dye
Sulforhodamine B. The resulting phagosomal rupture cor-
related tightly with host cell death, increased fungal
growth, and escape of the hyphal tip from the host macro-
phage (Figure 1B). Accordingly, maintaining phagosome
integrity is essential, not only for macrophage viability, but
also to restrict the engulfed prey's growth. However, in the
case of candidiasis, it remains to be explored if phagosome
expansion ultimately improves fungal survival and persis-
tence by 'cloaking' the organism from nearby immune
cells. On the other hand, enhanced fungal growth could
promote rupture and leakage of phagosome contents
alerting nearby sentinel cells and engaging additional arms
of the immune system to limit the infection. Consistent
with the latter, our work identified that a major conse-
quence of phagosome rupture is the activation of the
NLRP3 inflammasome (Figure 1B). Maintaining phagosome integrity during fungal infection:
do or die? Fur-
ther, we examine the implications of membrane integ-
rity on the delicate balance between the host and
pathogen by focusing on fungal stress responses, nu-
trient acquisition, inflammasome activation, and cell
death. Insertion of lysosomes is required for canonical phagosome
maturation. However, this maturation process is self-
limiting; macrophages detect when adequate lysosomes
have fused with the maturing phagosome and terminate
further insertion. After engulfment, the yeast form of
C. albicans can survive inside phagosomes, undergoing
continuous growth, and more importantly, triggering a
secondary wave of lysosome fusion (Figure 1A). This sec-
ond wave of lysosome recruitment and insertion requires
intact microtubules as well as the centripetal motor pro-
tein dynein. But what mediates the second wave of lyso-
some fusion? At a first glance, transient increases in calci-
um which mediate the activation of calcium-dependent
SNARE proteins, were of obvious interest. Cytosolic calcium
transients can be buffered with a membrane-permeable
acetoxymethyl precursor of BAPTA (BAPTA-AM): a 'fast'
cytosolic calcium chelator. In our study, BAPTA-AM was
added 30 minutes post-infection − a time when canonical
phagosome maturation had already been completed. Buff-
ering cytosolic calcium transients impaired lysosome inser- Insertion of lysosomes is required for canonical phagosome
maturation. However, this maturation process is self-
limiting; macrophages detect when adequate lysosomes
have fused with the maturing phagosome and terminate
further insertion. After engulfment, the yeast form of
C. albicans can survive inside phagosomes, undergoing
continuous growth, and more importantly, triggering a
secondary wave of lysosome fusion (Figure 1A). This sec-
ond wave of lysosome recruitment and insertion requires
intact microtubules as well as the centripetal motor pro-
tein dynein. But what mediates the second wave of lyso-
some fusion? At a first glance, transient increases in calci-
um which mediate the activation of calcium-dependent
SNARE proteins, were of obvious interest. Cytosolic calcium
transients can be buffered with a membrane-permeable
acetoxymethyl precursor of BAPTA (BAPTA-AM): a 'fast'
cytosolic calcium chelator. In our study, BAPTA-AM was
added 30 minutes post-infection − a time when canonical
phagosome maturation had already been completed. Buff-
ering cytosolic calcium transients impaired lysosome inser- doi: 10.15698/mic2020.12.738
Received 17.11.2020, Accepted 24.11.2020, Published 03.12.2020. Keywords: Candida albicans, phagosome, lysosome, macrophage, fungi, calcium. Microbial Cell | DECEMBER 2020 | Vol. 7 No. 12 OPEN ACCESS | www.microbialcell.com 323 M. Yang et al. (2020) FIGURE 1: Lysosome fusion maintains phagosome integrity during fungal infection. Maintaining phagosome integrity during fungal infection:
do or die? This multi-component
protein complex can sense minute perturbations to the
host cytosol and trigger the processing and secretion of the
pro-inflammatory cytokines IL-1β and IL-18. Although in-
flammasome activation results in death of the infected
macrophage, the process is altruistic in that these pro-
inflammatory cytokines stimulate the recruitment of circu-
lating neutrophils that may better limit fungal spread. To-
gether, these observations raise the question of whether
the fungus or the macrophage benefits from maintaining
phagosome integrity as NLRP3 inflammasome activation
could lead to different outcomes depending on the clinical
setting. In the context of our study, it is clear that the fun-
gus benefits from phagosome rupture despite NLRP3 in-
flammasome activation within infected macrophages. tion, but unexpectedly, neither calcium from the endo-
plasmic reticulum nor extracellular calcium was required
for this process. To understand the source of the calcium,
changes in cytosolic calcium were monitored by expressing
the genetically-encoded fluorescent calcium indicator
GCaMP6s. Micro-fissures induced in the phagosomal
membrane using LLOMe —a lysomotropic compound that
accumulates in acidic compartments where it is converted
into a lytic form— revealed that the lumen of the phago-
some itself is a significant source of calcium. In turn, phag-
osome expansion requires the release of this phagosomal
calcium pool triggering a secondary wave of lysosome fu-
sion (Figure 1A). Previous work studying canonical phago-
some maturation identified an essential role for the lyso-
somal transient receptor potential family channel-1
(TRPML-1) in local calcium release and phagosome matura-
tion. Although local calcium release mediates the ongoing
recruitment of lysosomes, phagosome expansion persisted
in macrophages lacking TRPML-1. Additionally, the endoly-
sosomal lipid PtdIns(3,5)P2, which activates TRPML-1, was
also not required for phagosome expansion. As such, the
second wave of lysosome fusion appears to bypass several
hallmarks of canonical phagosome maturation. These find-
ings may point towards an interesting case of convergent
molecular evolution, whereby the second wave of lyso-
some fusion occurs by re-harnessing pre-existing calcium-
dependent fusion machinery. Impaired lysosome fusion in
macrophages treated with calmidazolium, a calmodulin
inhibitor, implicates the involvement of SNARE proteins
and tethering factors in the phagosome-lysosome insertion
pathway. Thus, the cooperative action of previously impli-
cated endolysosomal SNAREs, Rab GTPases, and tethering
factors may help facilitate phagosome expansion and shed
light upon the interplay of various membrane fusion ma-
chineries. Microbial Cell | DECEMBER 2020 | Vol. 7 No. 12 Maintaining phagosome integrity during fungal infection:
do or die? tion, but unexpectedly, neither calcium from the endo-
plasmic reticulum nor extracellular calcium was required
for this process. To understand the source of the calcium,
changes in cytosolic calcium were monitored by expressing
the genetically-encoded fluorescent calcium indicator
GCaMP6s. Micro-fissures induced in the phagosomal
membrane using LLOMe —a lysomotropic compound that
accumulates in acidic compartments where it is converted
into a lytic form— revealed that the lumen of the phago-
some itself is a significant source of calcium. In turn, phag-
osome expansion requires the release of this phagosomal
calcium pool triggering a secondary wave of lysosome fu-
sion (Figure 1A). Previous work studying canonical phago-
some maturation identified an essential role for the lyso-
somal transient receptor potential family channel-1
(TRPML-1) in local calcium release and phagosome matura-
tion. Although local calcium release mediates the ongoing
recruitment of lysosomes, phagosome expansion persisted
in macrophages lacking TRPML-1. Additionally, the endoly-
sosomal lipid PtdIns(3,5)P2, which activates TRPML-1, was
also not required for phagosome expansion. As such, the
second wave of lysosome fusion appears to bypass several
hallmarks of canonical phagosome maturation. These find-
ings may point towards an interesting case of convergent
molecular evolution, whereby the second wave of lyso-
some fusion occurs by re-harnessing pre-existing calcium-
dependent fusion machinery. Impaired lysosome fusion in
macrophages treated with calmidazolium, a calmodulin
inhibitor, implicates the involvement of SNARE proteins
and tethering factors in the phagosome-lysosome insertion
pathway. Thus, the cooperative action of previously impli-
cated endolysosomal SNAREs, Rab GTPases, and tethering
factors may help facilitate phagosome expansion and shed
light upon the interplay of various membrane fusion ma-
chineries. Microbial Cell | DECEMBER 2020 | Vol. 7 No. 12 OPEN ACCESS | www.microbialcell.com 324 M. Yang et al. (2020) Phagosome expansion during fungal infection somal growth. In contrast, a significant withdrawal in tran-
scriptional stress responses were observed when phago-
some expansion was inhibited. The downregulation of C. albicans genes associated with oxidative and nitrosative
stress and metabolism compared to intact phagosomes
demonstrates reduced microbiostatic capacity in ruptured
phagosomes. In addition to benefiting from elevated pH
and disseminating antimicrobial effectors, these findings
support the notion that the escaping fungi gain access to
the nutrient-rich cytosol. Collectively, these factors lead to
increased fungal growth and escape. This final aspect of
our study could have important implications for the fungus'
ability to spread throughout tissues and cause systemic
dissemination in vivo. The authors declare no conflict of interests. A final intriguing finding was that disruption of phago-
some integrity led to enhanced pathogen growth and es-
cape (Figure 1B). Within the hostile environment of the
phagosome, C. albicans exhibits transcriptional responses
associated with starvation and oxidative/nitrosative stress. C. albicans is metabolically flexible and is known to adapt
to the nutrient-deprived phagosome. For example, gluco-
neogenesis via the glyoxylate cycle has previously been
reported as a metabolic adaptation inside the macrophage
phagosome. Whole-genome microarrays were performed
on RNA isolated from C. albicans grown in intact phago-
somes. We confirmed that the fungal stress responses
were maintained even after several hours of intraphago- Please cite this article as: Mabel Yang, Glenn F.W. Walpole and
Johannes Westman (2020). Maintaining phagosome integrity
during fungal infection: do or die? Microbial Cell 7(12): 323-325.
doi: 10.15698/mic2020.12.738 Maintaining phagosome integrity during fungal infection:
do or die? However, even when phagosomes
expand without interruption, the fungus ultimately escapes
from the macrophage. Intriguingly, we observed that mac-
rophages were able to survive this fungal escape without
loss of plasma membrane integrity. As the hypha protrudes
out of the cell membrane, actin polymerization mediated
the formation of a tight seal, preventing cytosol leakage
and consequent host cell death. How macrophages cope
with the protruding hypha through the plasma membrane
remains to be elucidated. Further investigation into the
benefits and drawbacks of phagosome rupture in the con-
text of pathogen growth, inflammasome activation, and
host cell death are important and exciting aspects awaiting
host-pathogen biologists. Our work revealed that macrophages can accommo-
date the unrelenting intracellular growth of C. albicans
infection by incorporating additional membrane derived
from lysosomes. Beyond fungal infection, the data impli-
cates lysosome insertion as a general response to intra-
phagosomal growth of pathogens and appears to have
biological importance for other intracellular pathogens. For
example, intraphagosomal growth of various fungi, bacte-
ria, and protozoa have been described in macrophages. Indeed, phagosomes containing Candida glabrata and
Staphylococcus aureus expand by lysosome insertion, albe-
it at a reduced rate, correlating with the reduced intra-
phagosomal growth of these prey. However, the factors
that mediate the pre-initiation of lysosome-phagosome
traffic and fusion in mature phagolysosomes are not ap-
parent and could differ based on the identity of the intra-
cellular pathogen. Macrophages containing filamentous
fungi or bacteria may trigger a fissure-mediated fusion
mechanism similar to C. albicans, but it is unclear if this is
always the case. For example, Salmonella enterica remod-
els the host cell endolysosomal system by recruiting modi-
fied late endosomal compartments to expand the Salmo-
nella-containing vacuole. In contrast, some pathogens may
purposefully lyse the phagosome to access the nutrient-
rich cytosol. Pathogens that manipulate phagosome matu-
ration to prevent lysosome insertion clearly obtain a dras-
tically different intracellular niche than that of C. albicans. Further investigation is required to uncover how the identi-
fied mechanism of phagosome expansion is modified by
different intracellular prey. Please cite this article as: Mabel Yang, Glenn F.W. Walpole and
Johannes Westman (2020). Maintaining phagosome integrity
during fungal infection: do or die? Microbial Cell 7(12): 323-325.
doi: 10.15698/mic2020.12.738 COPYRIGHT © 2020 Yang et al. This is an open-access article released
under the terms of the Creative Commons Attribution (CC
BY) license, which allows the unrestricted use, distribution,
and reproduction in any medium, provided the original
author and source are acknowledged. Please cite this article as: Mabel Yang, Glenn F.W. Walpole and
Johannes Westman (2020). Maintaining phagosome integrity
during fungal infection: do or die? Microbial Cell 7(12): 323-325. doi: 10.15698/mic2020.12.738 Microbial Cell | DECEMBER 2020 | Vol. 7 No. 12 325 OPEN ACCESS | www.microbialcell.com
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https://zenodo.org/records/1861230/files/article.pdf
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German
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Th. Kölliker, Die Gipsdrahtschiene
|
Deutsche medizinische Wochenschrift/Deutsche Medizinische Wochenschrift
| 1,901
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public-domain
| 241
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DEUTSCHE IDTCIIHSOHE WOCIIENSCURIFT. DEUTSCHE IDTCIIHSOHE WOCIIENSCURIFT. 8. August 543 Th. K1Iîker, Die Gipsdrahtsehiene. Leipzig, F. C. W. Vogel, 1900. 12 S,, 0,60 M. - Th. K1Iîker, Die Gipsdrahtsehiene. Leipzig, F. C. W. Vogel, 1900. 12 S,, 0,60 M. - Die in erster Linie für den Feldsanitätsdienst bestimmte
-ips-
drahtschieno wird hergestellt aus engmaschigem, sehr dtinncm Draht-
geflecht und aus Gipsbinden. Aus dem Drahtgeflecht wird zunächst
die Schiene in der gewünschten Grösse und Form zurechtgeschnitten,
dann wird die Schiene mit Gipshindentoiu'en umwickelt, so zwar, dass
der Verband drei Lagen der Gipabinde stsrk wird. Die auf diese
Weise fertiggestellte Gipsdrahtschiene hat nun den grossen Vorzug,
vollkommen plastisch zu sein; sie kann beliebig gebogen und auch mit
einer Hohlkehle versehen werden, sie schmiegt sich der Extremität
vollkommen an. de zum persönlichen Gebrauch heruntergeladen. Vervielfältigung nur mit Zustimmung des Verlages. Die Vorzüge der Gi1sdraht.schiene fasst Kölliker in folgenden
Sätzen zusammen: 1. Sie vereinfacht don Gipsverband, indem sie durch
den geringen Consum an Gipsbinden und au Polsterung am Material
spart. 2. Sie ist leicht abzunehmen und leicht wieder anzulegen, ge-
stattet somit ohne Schwierigkeiten und Zeitaufwand ein e Besichtigung
und Revision der verletzten Stelle. 3. Sie ersetzt eine i\nzahl Schienen,
die die Kriegssanitätsordnung vorsieht, die demnach nicht im Fc1d
mitzuführen wären. 4. Se vereinfacht aber auch in der Civiiprauis (lie
Behandlung von Frakturen und entzündlichen Prozessen am Rmipfe
und an den Extremitäten. Die verschiedenen Drahtmodelle werden durch eine Reihe von Ab-
bildungen veranschaulicht. P. Wagner (Leipzig).
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https://openalex.org/W4394711526
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https://www.nature.com/articles/s41528-024-00310-6.pdf
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English
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Kirigami-inspired, three-dimensional piezoelectric pressure sensors assembled by compressive buckling
|
npj flexible electronics
| 2,024
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cc-by
| 11,352
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Check for updates Check for updates Yi Zhang1,2, Changbo Liu
2,3
, Ben Jia2,3, Dongqin Ma2,3, Xuecheng Tian1,2, Yuanyuan Cui1,2 &
Yuan Deng1,2 Piezoelectric sensors whose sensing performances can be flexibly regulated hold significant promise
for efficient signal-acquisition applications in the healthcare field. The existing methods for regulating
the properties of polyvinylidene fluoride (PVDF) films mainly include material modification and
structural design. Compared to material modification, which has a long test period and an unstable
preparation process, structural design is a more efficient method. The irigami structure combined with
compressive buckling can endow the flexible film with rich macrostructural features. Here, a method is
fabricated to modulate the sensing performance by employing distinct 3D structures and
encapsulation materials with varying Young’s moduli. The relationship among the aspect ratio (α),
pattern factor (η), elastic modulus of encapsulation materials, and equivalent stiffness is obtained by
finite element simulation, which provides theoretical guidance for the design of the 2D precursor and
the selection of encapsulation materials. In the demonstration applications, the sensor accurately
captures pulse waveforms in multiple parts of the human body and is employed for the pressure
monitoring of different parts of the sole under various posture states. This method of structure design
is efficient, and the preparation process is convenient, providing a strategy for the performance control
of piezoelectric pressure sensors. Advanced piezoelectric pressure sensors play a pivotal role in the field of
healthcare monitoring, encompassing critical applications such as blood
pressure
measurement1,
plantar-
pressure
analysis2,
respiratory
monitoring3, human-motion detection4, and human-speech recognition5. This is attributed to their fast response6, wide measuring range7, compact
size8 and easy fabrication9. Due to their elevated piezoelectric coefficient,
which can reach up to 1500 pC N−1 10 and far exceeds those of other
piezoelectric materials11–13, piezoelectric ceramics have been extensively
utilized in the manufacture of pressure sensors. However, they cannot bend
and stretch because of their high stiffness and density values, limiting their
application in healthcare monitoring. They also exhibit a high acoustic
impedance,which hinders the effective conversion between mechanical and
electrical energy. In contrast, piezoelectric polymers exhibit exceptional
flexibility and an acoustic impedance closely matching that of the human
body. Among them, polyvinylidene fluoride (PVDF) exhibits a high sen-
sitivity, and its impedance is compatible with the human skin. npj | flexible electronics Article Published in partnership with Nanjing Tech University Published in partnership with Nanjing Tech University https://doi.org/10.1038/s41528-024-00310-6 npj | flexible electronics npj | flexible electronics 1Research Institute for Frontier Science, Beihang University, Beijing 100191, China. 2Key Laboratory of Intelligent Sensing Materials and Chip Integration Tech-
nology of Zhejiang Province, Hangzhou Innovation Institute of Beihang University, Hangzhou 310051, China. 3School of Materials Science and Engineering,
Beihang University, Beijing 100191, China.
e-mail: liuchb@buaa.edu.cn; dengyuan@buaa.edu.cn Check for updates Structural
design is another effective way to alter PVDF sensor performance. For
instance, the microstructural design of materials can enhance sensor
performance46,47. However, its impact remains constrained, and the struc-
tural formation remains intricate. The basic shape of the 2D precursor determines the shape of the 3D
structure. In this work, the 2D basic shapes, square, circle, and triangle, are
designed with the same area as the basis (the corresponding samples are
named BS1, BS2, and BS3). The structural images of the above three 3D
kirigami structures are depicted in Fig. 1b. Finite Element Analysis (FEA)
indicates that different basic shapes correspond to different maximum
principal strain limits, with BS2 having the maximum value and BS3 having
the minimum. When external pressure within the range of approximately
300–1,400 kPa is vertically applied to the sensors, their open-circuit voltage
changes approximately linearly, as shown in Fig. 1c. The sensitivity of the
three sensors (shown in Fig. 1d) are significantly higher than those of the
control group. In comparison with the control group, the BS2 sample,
featuring 2D circular precursors, offers more than a double increase in
sensitivity and output voltage at the same pressure. The 3D structural dia-
gram in the finite element analysis shows that the sensor with a 3D structure
hasalargerstrainthantheplanarstructure(controlgroup,withzero strain). Consequently, it has better sensitivity and output voltage than the control
group. The maximum principal strain of BS2 is greater than those of BS1
and BS3. The 3D-formed film has higher strains at the bending points, and
due to the curved boundaries, BS2 has more significant strain areas. The
larger strain generated during 3D forming improves the deformation cap-
ability of BS2, resulting in the highest output among all samples. Addi-
tionally, when conducting measurements exceeding 100 instances, we
observe a verysmall marginof error. In thiscontext,the output of the sensor
can be significantly improved through 3D kirigami structural design, and
further optimization of the 2D pattern can adjust the sensor’s performance. As a traditional artistic processing technique, kirigami introduces
macroscopic changes to materials beyond their inherent elasticity by
guiding deformation from two to three dimensions. When combined with
compressive buckling, kirigami can generate various intriguing structures. The 3D kirigami structure is primarily influenced by the shape of the 2D
planar precursor, and the cutting pattern is pivotal to the structural design. Check for updates Thus, it has become one of the most employed materials for flexible, wearable pressure-
sensing equipment14–19 and has shown significant application potential in
human–machine interfaces20, pulse signal acquisition21–24, flexible electronic
skin25–27, energy collection28–31 and other fields. However, the low piezoelectric coefficient of PVDF restricts its per-
formance in pressure sensors. In particular, for faint physiological signals,
PVDF-basedpressuresensorsfrequentlystruggleto achieveprecisecapture,
and they present significant measurement errors in the presence of envir-
onmental interference32,33. In human signal monitoring, sensors are
expected to be portable, exhibit excellent linearity, and possess high
flexibility34. In this regard, straightforward signal-processing circuits have
been demonstrated to meet these requirements, and the resulting sensors
can withstand varying degrees of deformation. Nevertheless, the acquisition
of different signals imposes distinct performance-attribute requirements on
pressure sensors.Forinstance,the typicalplantarpressureis 1900kPa34,and
the reported upper limit is 3 MPa35. In contrast, sensors employed for 1Research Institute for Frontier Science, Beihang University, Beijing 100191, China. 2Key Laboratory of Intelligent Sensing Materials and Chip Integration Tech-
nology of Zhejiang Province, Hangzhou Innovation Institute of Beihang University, Hangzhou 310051, China. 3School of Materials Science and Engineering,
Beihang University, Beijing 100191, China. e-mail: liuchb@buaa.edu.cn; dengyuan@buaa.edu.cn npj Flexible Electronics | (2024) 8:23 1 https://doi.org/10.1038/s41528-024-00310-6 Article pulse-signal measurement have a maximum detection limit of 500 Pa36. Given the substantial force exerted by the plantar pressure, it becomes
imperative for pulse sensors to maintain a significant output voltage even
under minimal pressure. Moreover, the presence of high cyclic loads may
lead to deformation or fatigue37, emphasizing the importance of sensor
stability during prolonged foot-pressure measurements. Therefore, flexible
performance adjustments are vital to cater to diverse application scenarios. increasing as the degree of released prestrain increases. The phenomenon of
charge cancelation is inevitable in the process of film compression and
tension. This is mainly due to the negative deformation tendency of 3D
structures caused by improper graphic design. We minimize intuitive
canceling deformations through graphic design, which significantly reduces
charge cancelation and ensures efficient sensor output. The device fabri-
cation is finalized by pouring a silicone elastic encapsulation material
(EcoflexTM 00-10), which is employed to protect the PVDF film from
moisture and harmful contaminants and provide deformation recovery
capability. Currently, the performance modulation of PVDF piezoelectric films
primarily relies on material modification methods38–41, such as adding
nanofillers (NaNbO3 and RGO)42, doping MXene and BaTiO3
7, or pre-
paring PVDF/ZnO nanofibers43. These methods involve extended devel-
opment cycles and involve complex fabrication processes44,45. Check for updates For 3D, kirigami-structured piezoelectric sensors, most reported applica-
tions involve cutting a planar PVDF film to construct a tensile structure48–50,
with highly controllable tensile properties. However, the deformation is
mostly confined within the plane, and the variety of pattern designs is not
extensive, lacking development potential. In reality, strategically designed
geometries and cutting patterns enable the assembly of 2D films into 3D
kirigami structures, offering far greater applicability and topological com-
plexity compared with other methods51. For example, piezoelectric micro-
systems with intricate 3D frameworks exhibit excellent mechanical
properties and functional capabilities52. Electronic devices with multilayer
cage-like structures demonstrate excellent collapse resistance and can
dynamically transmit compression force and temperature53. Here, we develop a piezoelectric pressure sensor featuring 3D kirigami
structures.Sensorswithdistinctstructures,designed usingsimplegeometric
shapes, exhibit varying sensitivities and different output voltages. Differing
from prior investigations on 3D flexible electronic devices, our study
combines experimental testing with finite element analysis to explore the
impact of 3D structural design and encapsulation materials on the sensi-
tivity and output voltage of PVDF-based piezoelectric pressure devices. Additionally, the finite element model that successfully predicts the 3D
shape and output performance. Sensors equipped with 3D kirigami struc-
tures find application in human-pulse-signal and plantar-pressure mea-
surements, showcasing exceptional operational stability under prolonged
pressure conditions. This study introduces efficient 3Ddesign concepts for
PVDF-based pressure sensors and presents strategies for tackling the
challenges associated with flexible, wearable pressure sensors. To verifythe repeatabilityof the fabricationprocessof the 3Dkirigami-
structured sensor, we prepare three sensors with the same structure (Shape
1 shown in Fig. 2a). The performancetest results are shown in Fig. 1e,where
the three sensors exhibit comparable output voltages with sensitivity dif-
ferences within 5%. This indicates the high repeatability of the fabrication
process. As depicted in Fig. 1f, the output voltage remains stable after 6,000
pressurization release cycles of the 3D kirigami-structured sensor (Shape 1)
with a pressure of 1,356 kPa. The proposed piezoelectric pressure sensor,
which has a 3D structure, exhibits excellent operational stability. Sensor designs with various shapes and patterns g
p
p
To investigate the influence of kirigami patterns on the device output per-
formance, variouskirigami patterns basedona circular shape are fabricated,
whose performances are superior to those of the patterns based on square
and triangular shapes,asillustrated inFig. 2a. Here,fourdifferentshapes are
designed and named as Shape 1, Shape 2, Shape 3, and Shape 2s. Different
shapes result in distinct 3D kirigami structures, with Shape 1 forming a
pyramid-like structure. Among the four different shapes, the cutting-
damage percentages for Shape 1, Shape 3, and Shape 2s are approximately
12%. Under the same pattern as Shape 2, the cutting-damage percentage for
Shape 2 is approximately 50%. Figure 2a shows that the different 3D
structures exhibit varying levels of deformation at the same compression-
buckling degree. Despite the pressure being applied vertically above the
device,theencapsulationmaterialenvelopsthefilmwitha3Dstructure,and
the film structures have gradually increasing radii from top to bottom. Therefore, the vertically applied pressure extrudes the encapsulation
material below, causing outward compression. The sensor deformation
gradually reduces the out-of-plane dimensions and increases the in-plane
dimensions until the structure becomes planar. Results and discussions
F b i
ti
f th 3D
t
t a Fabrication process of the 3D-
structured piezoelectric pressure sensors on the
prestrain forming. b Two-dimensional precursors,
optical images, and FEA predictions for three basic
shapes: square, circular, and triangular (scale bars:
5 mm). c Variation in the open-circuit voltage with
different forces for the three stereoscopic and con-
trol groups (planar structures). d Sensitivity of the
three stereoscopic and control groups (planar
structures). e Variation in the open-circuit voltage
with different forces for the three samples with the
same structure (Shape 1). f Variation in the voltage
of the pressure sensor with Shape1 after 6000 pres-
surization/release cycles at 1356 kPa. a
b
e
c
d
f
Number
2D
precursor
3D structure
(FEA)
3D structure
(Experiment)
BS1
BS2
BS3
p
g a
b
e
c
d
f
Number
2D
precursor
3D structure
(FEA)
3D structure
(Experiment)
BS1
BS2
BS3 Fig. 1 | Piezoelectric pressure sensor with 3D
structures. a Fabrication process of the 3D-
structured piezoelectric pressure sensors on the
prestrain forming. b Two-dimensional precursors,
optical images, and FEA predictions for three basic
shapes: square, circular, and triangular (scale bars:
5 mm). c Variation in the open-circuit voltage with
different forces for the three stereoscopic and con-
trol groups (planar structures). d Sensitivity of the
three stereoscopic and control groups (planar
structures). e Variation in the open-circuit voltage
with different forces for the three samples with the
same structure (Shape 1). f Variation in the voltage
of the pressure sensor with Shape1 after 6000 pres-
surization/release cycles at 1356 kPa. a b c c b
c
Number
2D
precursor
3D structure
(FEA)
3D structure
(Experiment)
BS1
BS2
BS3 c d
f d e e f f f As shown in Fig. 2b, with the same pattern elements, Shape 2s provides
an output voltage of over 4 V at the maximum pressure, whereas Shape 2
only provides about 1 V. This indicates that the effective area of the film
directly influences the signal output and sensitivity. The smaller the area of
the film involved in the deformation, the lower the output voltage under the
same pressure. The sensitivities of the four structures are 4.1 × 103V kPa−1
(Shape 1), 0.94 × 103V kPa−1 (Shape 2), 2.19 × 103V kPa−1 (Shape 3), and
2.63 × 103V kPa−1 (Shape 2s), respectively. Among Shape 1, Shape 3, and
Shape 2s with similar cutting-damage percentages, Shape 1 exhibits the
highest sensitivity. Results and discussions
F b i
ti
f th 3D
t
t Fabrication of the 3D-structured piezoelectric pressure sensor
The fabrication process of the piezoelectric pressure sensor with a 3D kir-
igami structure is illustrated in Fig. 1a, and photos of the 3D kirigami-
structured PVDF and the tensile platform are provided in Supplementary
Fig. 1a. Femtosecond laser milling is utilized for the high-precision pat-
terning of the PVDF film coated with a silver electrode layer. The optical
image of the patterned piezoelectric film is shown in Supplementary Fig. 1b,
with the edges of the 2D precursor retaining four symmetric anchor points
to facilitate the 3D shaping process. The reserved four anchor points are
mechanically affixed to a prestretched elastic substrate, which is subse-
quently uniformly relaxed to achieve the 3D structure. Releasing the pre-
strain generates compressive forces, causing all regions, except the anchored
areas, to bend out of the plane. Intermediate shapes corresponding to dif-
ferent levels of released prestrains are shown in Supplementary Fig. 2. The
strainwithinthethin-filmconcentratesinthe out-of-planebendingregions, npj Flexible Electronics | (2024) 8:23 2 2 https://doi.org/10.1038/s41528-024-00310-6 Article As shown in Fig. 2b, with the same pattern elements, Shape 2s provides
an output voltage of over 4 V at the maximum pressure, whereas Shape 2
only provides about 1 V. This indicates that the effective area of the film
directly influences the signal output and sensitivity. The smaller the area of
the film involved in the deformation, the lower the output voltage under the
same pressure. The sensitivities of the four structures are 4.1 × 103V kPa−1
(Shape 1), 0.94 × 103V kPa−1 (Shape 2), 2.19 × 103V kPa−1 (Shape 3), and
2.63 × 103V kPa−1 (Shape 2s), respectively. Among Shape 1, Shape 3, and
Shape 2s with similar cutting damage percentages Shape 1 exhibits the
Considering that besides the shape, the design details of the 2D pre-
cursor influence the sensor’s performance, six different kirigami patterns
based on Shape 2s are designed, and the corresponding 3D kirigami-
structured sensors are fabricated. The 2D precursor designs, as well as the
3D structure in FEA and in the experiment, are shown in Fig. 2a. In the six
patternsofthe2Dprecursordesigns,asshowninFig.2a,theinternalcutting
patterns of Patterns 1–3 are similar, whereas the external cutting lines of
Pattern 1 and Pattern 2 are rotated 45° relative to each other. The number of
outer cutting lines of Pattern 3 increases from two to four compared with
Fig. 1 | Piezoelectric pressure sensor with 3D
structures. Results and discussions
F b i
ti
f th 3D
t
t Initially,onlythesmalltop areaof thefilmdeformswhen
pressureisapplied.Thus,theoutputvoltageofShape1issmallerthanthatof
Shape 2s. As a larger area of the film participates in deformation, the
structural advantage of a larger α value gives Shape 1 the highest sensitivity. The 3Dstructure of Shape 3is similar to that of Shape 2s, resulting in similar
sensitivity values. However, Shape 2s has longer cutting lines, which allows
for a larger number of narrower, free-bending strip elements given the same
cutting area. Shape 2s has a larger α value, leading to a higher output voltage
compared with Shape 3. Shape 3 and Shape 2s exhibit similar sensitivities;
however, their output voltages are 1.5 times different, confirming that the
sensitivityandoutputvoltageofthesensorcanbeadjustedbyoptimizingthe
pattern design. Considering that besides the shape, the design details of the 2D pre-
cursor influence the sensor’s performance, six different kirigami patterns
based on Shape 2s are designed, and the corresponding 3D kirigami-
structured sensors are fabricated. The 2D precursor designs, as well as the
3D structure in FEA and in the experiment, are shown in Fig. 2a. In the six
patternsofthe2Dprecursordesigns,asshowninFig.2a,theinternalcutting
patterns of Patterns 1–3 are similar, whereas the external cutting lines of
Pattern 1 and Pattern 2 are rotated 45° relative to each other. The number of
outer cutting lines of Pattern 3 increases from two to four, compared with
that for Pattern 2. The cutting patterns of Pattern 4 and Pattern 5 are
basically similar, except that the pattern is rotated 45° relative to the anchor
point. The difference between pattern 6 and pattern 4 is that the former has
four cut lines inside. As shown in Fig. 2c, Pattern 1, Pattern 2, and Pattern 3
exhibit sensitivities of 3.17 × 103, 2.56 × 103, and 2.78 × 103V kPa−1,
respectively. Pattern1alsoexhibitsthe highestoutputvoltage in the fulltest-
pressure range as well as the highest sensitivity, whereas Pattern 2 exhibits
the lowest values in the above two properties. The sensitivities of Pattern 4,
Pattern 5, and Pattern 6 are 3.07 × 103, 2.95 × 103, and 3.41 × 103V kPa−1,
respectively, as presented in Fig. 2d. Although the output voltages of Pattern
5 and Pattern 6 are similar, the sensitivity of Pattern 6 is higher than that of
Pattern 5. Results and discussions
F b i
ti
f th 3D
t
t The sensitivity of Pattern 4 is similar to that of Pattern 5, and Considering that besides the shape, the design details of the 2D pre-
cursor influence the sensor’s performance, six different kirigami patterns
based on Shape 2s are designed, and the corresponding 3D kirigami-
structured sensors are fabricated. The 2D precursor designs, as well as the
3D structure in FEA and in the experiment, are shown in Fig. 2a. In the six
patternsofthe2Dprecursordesigns,asshowninFig.2a,theinternalcutting
patterns of Patterns 1–3 are similar, whereas the external cutting lines of
Pattern 1 and Pattern 2 are rotated 45° relative to each other. The number of
outer cutting lines of Pattern 3 increases from two to four, compared with
that for Pattern 2. The cutting patterns of Pattern 4 and Pattern 5 are
basically similar, except that the pattern is rotated 45° relative to the anchor
point. The difference between pattern 6 and pattern 4 is that the former has
four cut lines inside. As shown in Fig. 2c, Pattern 1, Pattern 2, and Pattern 3
exhibit sensitivities of 3.17 × 103, 2.56 × 103, and 2.78 × 103V kPa−1,
respectively. Pattern1alsoexhibitsthe highestoutputvoltage in the fulltest-
pressure range as well as the highest sensitivity, whereas Pattern 2 exhibits
the lowest values in the above two properties. The sensitivities of Pattern 4,
Pattern 5, and Pattern 6 are 3.07 × 103, 2.95 × 103, and 3.41 × 103V kPa−1,
respectively, as presented in Fig. 2d. Although the output voltages of Pattern
5 and Pattern 6 are similar, the sensitivity of Pattern 6 is higher than that of
Pattern 5. The sensitivity of Pattern 4 is similar to that of Pattern 5, and npj Flexible Electronics | (2024) 8:23 3 https://doi.org/10.1038/s41528-024-00310-6 Article Article Fig. 2 | Designs with various shapes and patterns
of the piezoelectric pressure sensor. a Two-
dimensional precursors, photographs, and FEA
predictions for four different shapes and six similar
patterns (scale bars: 5 mm). Variation in the open-
circuit voltage with different forces for (b) Shape 1,
Shape 2, Shape 3, and Shape 2s; (c) Pattern 1, Pattern
2, and Pattern 3; and (d) Pattern 4, Pattern 5, and
Pattern 6 in the experiment. Variation in the force
with different displacements for (e) Shape 1, Shape
2, Shape 3, and Shape 2s; (f) Pattern 1, Pattern 2, and
Pattern 3; and (g) Pattern 4, Pattern 5, and Pattern 6
in FEA. Results and discussions
F b i
ti
f th 3D
t
t h Sensitivity of the 3D structure formed by
four shapes and six patterns structures. i Variation
in the equivalent stiffness with different α values
based on three sensors with various shapes. j Variation in the equivalent stiffness with different η
based on six sensors with various patterns. Number
Shape1
Shape2
Shape3
Shape2s
Pattern1
2D precursor
3D structure
(FEA)
3D structure
(Experiment)
Number
Pattern2
Pattern3
Pattern4
Pattern5
Pattern6
2D precursor
3D structure
(FEA)
3D structure
(Experiment)
a a e sensors fabricatedbased on
in performance, suggesting
uence sensor performance. derlying reasons. itivity and output voltage of
established accordingto the
d f
ti
f th
displacement in the direction perpendicular to the bottom surface is
adopted to describe the deformation degree of the sensor. The equivalent
stiffness is employed to evaluate the deformation capability of the sensor,
which is defined as the ratio of the external load on the sensor to the
compression length of the sensor in the vertical direction. FEA reveals that
with the increase in pressure, the vertical compression displacement linearly
i
Th
l ti
b t
d
i
di
l
t
Number
Shape1
Shape2
Shape3
Shape2s
Pattern1
2D precursor
3D structure
(FEA)
3D structure
(Experiment)
Number
Pattern2
Pattern3
Pattern4
Pattern5
Pattern6
2D precursor
3D structure
(FEA)
3D structure
(Experiment)
i
a
c
j
e
b
d
f
g
h Pattern 4 exhibits the lowest output voltage. The sensors fabricatedbased on
different patterns exhibit significant variations in performance, suggesting
that even subtle changes in patterns can influence sensor performance. Further research is required to explore the underlying reasons. To explore the factors that affect the sensitivity and output voltage of
the sensors,afiniteelement simulationmodelisestablished accordingto the
test environment in the experiment. Since the deformation of the sensor
during the compression process is relatively complex, the compression
displacement in the direction perpendicular to the bottom surface is
adopted to describe the deformation degree of the sensor. The equivalent
stiffness is employed to evaluate the deformation capability of the sensor,
which is defined as the ratio of the external load on the sensor to the
compression length of the sensor in the vertical direction. FEA reveals that
with the increase in pressure, the vertical compression displacement linearly
increases. The correlation between pressure and compression displacement
of the four shapes and Patterns 1–6 is shown in Fig. Sensor designs with various encapsulation materials The η value increases linearly with the
equivalent stiffness, indicating that when the number of beams reaches the
maximum and the angle between the beam and the anchor point on the line
is 0°, the equivalent stiffness is the lowest. In other words, the smaller the η
value, the stronger the deformation ability of the corresponding 3D struc-
ture.Thiscanplayaguidingroleinthegraphicdesignofthe2Dprecursorof
the piezoelectric pressure sensor with such a 3D structure: the basic shape is
circular, and the number of supporting beams, as well as the angle between
them and the anchor point, is supposed to be prioritized while maximizing
theaspectratio.Furthermore,tovalidatetheeffectivenessofFEA,theoutput
performances of the 10 sensors shown in Fig. 2a are computed using a finite
element model, and the results are presented in Supplementary Figs. 4a and 4b. Evidently, the finite element model can accurately predict the
sensor’s output performance, although there is a slight deviation between where n1 and n2 are the numbers of the outerand inner beams, respectively,
and “2/3” indicates that the ratio of the outer to the inner area is 3:2. Due to
symmetry, the angle is set to 0° and 45°, so the components in the formula
related to the angle should be cosine values. Since there are two types of
beams, their quantity should be a product of cosine values. Additionally,
considering the difference in the area of the inner and outer sides of the
beam,thepatternfactor’scomponents’weightsaredetermined basedonthe
ratio of the areas. Due to symmetry, the angle is set to 0° and 45°, so the
components in the formula related to the angle should be cosine values. Since there are two types of beams, their quantity should be a product of
cosine values. Additionally, considering the difference in the area of the
inner and outer sides of the beam, the pattern factor’s components’ weights
are determined based on the ratio of the areas. The variation in the η value
with different equivalent stiffness values based on the six sensors with
various patterns is depicted in Fig. 2j. The η value increases linearly with the
equivalent stiffness, indicating that when the number of beams reaches the
maximum and the angle between the beam and the anchor point on the line
is 0°, the equivalent stiffness is the lowest. https://doi.org/10.1038/s41528-024-00310-6 Although Patterns 1–6 have the same shape and similar α values,
their performances differ, indicating that factors other than the α value
influence their sensitivity and output voltage. Since laser cutting generates a
hinged circular structure with a radius from the connecting point to the
centralpoint,theouterandinnerbeamsaredefinedastheconnectingpoints
between the rings in the pattern, which provides support for the 3D
structure, as shown in Supplementary Fig. 3c. Angle1 is the angle between
the anchor point (red region) and the outer beam, and Angle2 is the angle
between the outer beam and the inner beam; the relationship between them
and the equivalent stiffness under different patterns are shown in
Supplementary Fig. 3d. To ensure symmetry in the 3D structures, all the
included angles are only set to 0° or 45°. In the three patterns with
the smallest equivalent stiffness values, the two angles are 0°. In addition to
the values of the included angles, the number of angles also affects the
deformation characteristics of the structure. Here, η is defined as a pattern
factorthatrepresentstheeffectofthemagnitudeandthenumbersofthetwo
types of angles in the 2D design pattern: wheredout and din aredefinedasthemaximumout-of-planedimensionand
in-plane extent, respectively (see Supplementary Fig. 3a and b). The α value
of Shape 1 is 0.4583, whereas that of Shape 2s is 0.3443, which is larger than
that of Shape 3 (0.2977). This indicates that the performance of the sensor
increase with the increase in the 3D extension. For Shape 1, Shape 3, and
Shape 2s, when the packaging material is the same, the relationship between
the α value and the equivalent stiffness is shown in Fig. 2i. With the increase
in the effective stiffness, the α value decreases, which indicates that the
extension size of the 3D structure affects the deformation ability to a certain
extent. Although Patterns 1–6 have the same shape and similar α values,
their performances differ, indicating that factors other than the α value
influence their sensitivity and output voltage. Since laser cutting generates a
hinged circular structure with a radius from the connecting point to the
centralpoint,theouterandinnerbeamsaredefinedastheconnectingpoints
between the rings in the pattern, which provides support for the 3D
structure, as shown in Supplementary Fig. 3c. Angle1 is the angle between
the anchor point (red region) and the outer beam, and Angle2 is the angle
between the outer beam and the inner beam; the relationship between them
and the equivalent stiffness under different patterns are shown in
Supplementary Fig. 3d. Results and discussions
F b i
ti
f th 3D
t
t 2e–g, where the
2D precursor
3D structure
(FEA)
3D structure
(Experiment)
i
c
j
e
b
d
f
g
h d d
g b e
b c
f c f f e g j
g e
h i
f h j i j i h Pattern 4 exhibits the lowest output voltage. The sensors fabricatedbased on
different patterns exhibit significant variations in performance, suggesting
that even subtle changes in patterns can influence sensor performance. Further research is required to explore the underlying reasons. displacement in the direction perpendicular to the bottom surface is
adopted to describe the deformation degree of the sensor. The equivalent
stiffness is employed to evaluate the deformation capability of the sensor,
which is defined as the ratio of the external load on the sensor to the
compression length of the sensor in the vertical direction. FEA reveals that
with the increase in pressure, the vertical compression displacement linearly
increases. The correlation between pressure and compression displacement
of the four shapes and Patterns 1–6 is shown in Fig. 2e–g, where the To explore the factors that affect the sensitivity and output voltage of
the sensors,afiniteelement simulationmodelisestablished accordingto the
test environment in the experiment. Since the deformation of the sensor
during the compression process is relatively complex, the compression npj Flexible Electronics | (2024) 8:23 4 https://doi.org/10.1038/s41528-024-00310-6 Sensor designs with various encapsulation materials Notably, the deformation ability of the 3D-structured piezoelectric pressure
sensors can be adjusted by changing the packaging material. Four types of
silicone resin materials are used as encapsulation materials, with Young’s
moduli of 50, 170, 418, and 1,000 kPa, respectively. The results of the tensile
tests are shown in Supplementary Fig. 5. The test data are shown in Fig. 3a, b, and c. For Shape 1, the sensitivities
of M1–M4 are 4.1 × 103, 3.15 × 103, 1.73 × 103, and 1.35 × 103V kPa−1,
respectively. For sensors with three different 3D kirigami structures, as the
Young modulus of the encapsulation material decreases, the output voltage
increases under the same applied pressure, resulting in improved sensitivity. For instance, for Shape 1, when the pressure is approximately 1,300 kPa, the
sensor encapsulated with M1 provides an output voltage of over 5 V, which
is approximately 1.3, 2.2, and 2.7 times those of M2, M3, and M4, respec-
tively. This indicates that the modulus of the encapsulation material sig-
nificantly affects the performance of the sensor. ð2Þ 1=η ¼ 2=3 × n1 × cos Angle1
þ 1=3 × n2 × cos Angle2
ð2Þ where n1 and n2 are the numbers of the outerand inner beams, respectively,
and “2/3” indicates that the ratio of the outer to the inner area is 3:2. Due to
symmetry, the angle is set to 0° and 45°, so the components in the formula
related to the angle should be cosine values. Since there are two types of
beams, their quantity should be a product of cosine values. Additionally,
considering the difference in the area of the inner and outer sides of the
beam,thepatternfactor’scomponents’weightsaredetermined basedonthe
ratio of the areas. Due to symmetry, the angle is set to 0° and 45°, so the
components in the formula related to the angle should be cosine values. Since there are two types of beams, their quantity should be a product of
cosine values. Additionally, considering the difference in the area of the
inner and outer sides of the beam, the pattern factor’s components’ weights
are determined based on the ratio of the areas. The variation in the η value
with different equivalent stiffness values based on the six sensors with
various patterns is depicted in Fig. 2j. https://doi.org/10.1038/s41528-024-00310-6 Article Article the simulated output voltage and the test data, as shown in Supplementary
Fig.4c.Thisdiscrepancycanbeattributedtodifferencesbetweenthedefined
elastic material model and the actual material properties. The established
FEA model holds significance in the design of 3D-structured sensors. As
shown in Supplementary Fig. 4d, the sensor’s performance is optimal when
the two angles tend to 0°, as shown by the higher sensitivity values of
Patterns 1 and 6. When the angles are consistent, the number of inner and
outer beams also affects the sensor’s output, with Pattern 6 having slightly
highersensitivitythanPattern1duetohavingmoreouterbeams.Therefore,
the angles and numbers of inner and outer beams jointly determine
structural performance. For instance, the difference between Patterns 2 and
1 is reflected in the angle, and the difference between Patterns 2 and 3 is
reflected in the number of outer beams. Besides, because the basic shape of
the 2D precursor was circular, the cutting elements consist of arcs with the
same radii, thus somewhat limiting the freedom of graphic design. In the
future, various structural designs can be expanded by altering the radii and
angles of the cutting elements, including the spacing between different
cutting lines, based on symmetry. This approach will enable the exploration
of factors withsignificantimpactsondesign,allowingforfurthertypicaland
diverse design explorations. compression displacement varies from 1 to 7 mm, and the height of the
sensor is 10 mm. The sensitivity of the 3D structure formed by four shapes
and six patterns structures is shown in Fig. 2h. To illustrate the impact of
different shapes on the sensor’s performance, the 3D extension among
various shapes is defined using the aspect ratio (α) expressed as follows: α ¼ dout=din
ð1Þ ð1Þ wheredout and din aredefinedasthemaximumout-of-planedimensionand
in-plane extent, respectively (see Supplementary Fig. 3a and b). The α value
of Shape 1 is 0.4583, whereas that of Shape 2s is 0.3443, which is larger than
that of Shape 3 (0.2977). This indicates that the performance of the sensor
increase with the increase in the 3D extension. For Shape 1, Shape 3, and
Shape 2s, when the packaging material is the same, the relationship between
the α value and the equivalent stiffness is shown in Fig. 2i. With the increase
in the effective stiffness, the α value decreases, which indicates that the
extension size of the 3D structure affects the deformation ability to a certain
extent. https://doi.org/10.1038/s41528-024-00310-6 To ensure symmetry in the 3D structures, all the
included angles are only set to 0° or 45°. In the three patterns with
the smallest equivalent stiffness values, the two angles are 0°. In addition to
the values of the included angles, the number of angles also affects the
deformation characteristics of the structure. Here, η is defined as a pattern
factorthatrepresentstheeffectofthemagnitudeandthenumbersofthetwo
types of angles in the 2D design pattern: Sensor designs with various encapsulation materials 3 | Stress-test performance of the piezoelectric pressure sensors with dif-
erent encapsulation materials. Variation in the open-circuit voltage with different
orces for (a) S1, (b) S3, and (c) P1 encapsulated with M1, M2, M3, and M4. Variation in the force with different displacements for (d) S1, (e) S3, and (f) P1
encapsulated with M1, M2, M3, and M4 in the FEA. g Strain distribution of the
sensors encapsulated with four materials under a pressure of 1000 kPa in the
The colors in the FEA results correspond to the magnitudes of the maximum
principal strain. https://doi.org/10.1038/s41528 024 00310 6
Art Fig. 3 | Stress-test performance of the piezoelectric pressure sensors with dif-
ferent encapsulation materials. Variation in the open-circuit voltage with different
forces for (a) S1, (b) S3, and (c) P1 encapsulated with M1, M2, M3, and M4. Variation in the force with different displacements for (d) S1, (e) S3, and (f) P1
encapsulated with M1, M2, M3, and M4 in the FEA. g Strain distribution of the t
sensors encapsulated with four materials under a pressure of 1000 kPa in the F
The colors in the FEA results correspond to the magnitudes of the maximum
principal strain. ig. 3 | Stress-test performance of the piezoelectric pressure sensors with dif-
rent encapsulation materials. Variation in the open-circuit voltage with different
rces for (a) S1, (b) S3, and (c) P1 encapsulated with M1, M2, M3, and M4. ariation in the force with different displacements for (d) S1, (e) S3, and (f) P1
encapsulated with M1, M2, M3, and M4 in the FEA. g Strain distribution of th
sensors encapsulated with four materials under a pressure of 1000 kPa in th
The colors in the FEA results correspond to the magnitudes of the maximum
principal strain. encapsulated with M1, M2, M3, and M4 in the FEA. g Strain distribution of the three
sensors encapsulated with four materials under a pressure of 1000 kPa in the FEA. The colors in the FEA results correspond to the magnitudes of the maximum
principal strain. Fig. 3 | Stress-test performance of the piezoelectric pressure sensors with dif-
ferent encapsulation materials. Variation in the open-circuit voltage with different
forces for (a) S1, (b) S3, and (c) P1 encapsulated with M1, M2, M3, and M4. Variation in the force with different displacements for (d) S1, (e) S3, and (f) P1 (2000 kPa and 5000 kPa). Sensor designs with various encapsulation materials In other words, the smaller the η
value, the stronger the deformation ability of the corresponding 3D struc-
ture.Thiscanplayaguidingroleinthegraphicdesignofthe2Dprecursorof
the piezoelectric pressure sensor with such a 3D structure: the basic shape is
circular, and the number of supporting beams, as well as the angle between
them and the anchor point, is supposed to be prioritized while maximizing
theaspectratio.Furthermore,tovalidatetheeffectivenessofFEA,theoutput
performances of the 10 sensors shown in Fig. 2a are computed using a finite
element model, and the results are presented in Supplementary Figs. 4a and 4b. Evidently, the finite element model can accurately predict the
sensor’s output performance, although there is a slight deviation between The relationship between the compression displacement and the
applied pressure is shown in Fig. 3d–f. Similar to the previous case, a similar
trend is observed for sensors prepared using different encapsulation
materials. The vertical compression displacement shows a linear increase
with the pressure, as confirmed by finite element simulation calculations. The relationship between Young’s modulus and the equivalent stiffness of
the encapsulation materials for the three structures is shown in Supple-
mentary Fig. 6. FEA reveals that the equivalent stiffness exhibits a nonlinear
variation with the changes in the Young modulus of the encapsulation
material. Notably, when the Young’s modulus falls within the range of
200–400 kPa, the equivalent stiffness experiences a significant increase. However, the variation in the equivalent stiffness is less pronounced beyond
this range. This indicates that the performance of the sensor is sensitive to
the Young modulus of the encapsulation material in the range of 200 – 400
kPa. When the pressure is 1000 kPa, the distribution of the maximum
principal strain for various sensors in the FEA is illustrated in Fig. 3g. For
Shape 1, as the Young modulus of the encapsulation material increases, the
deformation of the sensor under the same pressure gradually reduces. The
reductionin the sensor deformationleadstoa decrease inthe sensitivity and
output voltage, which is evident in Fig. 3a–c. The FEA results closely resemble the experimental findings, offering
valuableinsightsforguidingsensordesignandperformanceprediction.Asa
result of the limitations imposed by the pressure-generation system, the true
detection limit of the sensor cannot be obtained. To address this, FEA is
implemented to predict the measurement limits of the various sensors. In
theFEA,astheloadsincrease,thepressurereachesasaturationstate,andthe
output voltage follows suit. We use finite element simulation analysis to
predict the force limit of packaging materials with larger Young’s modulus npj Flexible Electronics | (2024) 8:23 5 https://doi.org/10.1038/s41528-024-00310-6 Article Fig. Pulse-signal measurement and motion-posture sensing Pressure sensors play a very important role in health monitoring, and dif-
ferent application scenarios have different performance requirements for
pressuresensors,suchaspulseandfoot-pressuremonitoring.Fortheelderly
population, pulse signals can serve as indicators of cardiovascular health54,
and plantar pressure can be utilized to diagnose conditions, such as Par-
kinson’s disease, diabetes, and stroke2. The prepared sensors exhibit a high output voltage and sensitivity. They can be flexibly designed according to different needs and working
conditions. To verify the application potential of the sensors in the field of
health monitoring, pulse and plantar-pressure detection systems are
developed based on the self-designed 3D kirigami structures. A series of
sensors based on Shape 1 are fabricated, encapsulated with M1–M4, and
integrated with a wristband to create a pulse detection system, as shown in
Fig. 4a. Due to the large 3D structure, the sensor cannot be perfectly con-
formal with the skin, which brings discomfort to wear. However, comfort
can be improved by designing smaller patterns, controlling pre-stretched
base tension, and reducing sensor package thickness. In practical applica-
tions, the sensor can be installed in an upright or inverted orientation
because the orientation does not affect its signal output, ensuring con-
sistency in test results. The sensor is secured to the wrist using a wrist strap. SupplementaryFig.8ashowsthedetailsofthesensor–skincontactinterface. The pulse-signal detection performances of the sensors encapsulated with
different materials are tested, as depicted in Fig. 4b. M1 exhibits the lowest
Young’s modulus, and its corresponding pulse-signal output voltage is the
highest,exceeding0.2 V,whereasM4exhibitsthelowestpulse-signaloutput
voltage. The sensors fabricated with different encapsulation materials cap-
ture identical pulse details, including the length of the cardiac cycle and the
temporal position of the tidal wave. This indicates that the signal output can
be enhanced by selecting appropriate encapsulation materials, thereby
improving the signal-to-noise ratio. To validate the reliability of the 3D
sensor in wearable-device applications, we subject the sensors to simulated
sweat-inducedcorrosioninterferencetests.Saltwaterwithamassfractionof
1% is employed to simulate the sweat, and the sensor is soaked for 96 h at
37°C. The pulse-test results before and after soaking are shown in Fig. 4c. Aftersoaking,theperformanceofthesensorremainsstable,and itretainsits
ability to accurately capture intricate pulse details. This is primarily attrib-
uted to the excellent hydrophobic properties of the encapsulation material
employed. The difference in the waveform may be due to the changes in the
physical state of the volunteer, which is also reflected in Fig. 4d. Sensor designs with various encapsulation materials Our study demonstrates that
under the same material conditions, performance can be further enhanced
through the design of kirigami structures. In our study, the sensitivity of the
control group (planar PVDF film) is 0.014 V·N−1, and the sensitivity range
that can be achieved via graphic regulation is 0.025–0.056 V·N−1. The variation in human plantar pressure is intricate, influenced by
different motion states and various walking postures, leading to distinct
pressures across different regions of the sole. Consequently, sensors with
broad measurement ranges and high sensitivity are required. As depicted in
Fig. 4f, the common plantar-pressure areas can be categorized into four
types: the first, third, and fifth metatarsal heads, as well as the heel. As
mentioned earlier, the sensing range and sensitivity of 3D kirigami-
structuredsensorscanbedynamicallytailored usingdifferentencapsulation
materials and patterns, rendering them an ideal choice for plantar-pressure
measurement. Therefore, based on this concept, a plantar-pressure-
detection system is developed. In the plantar pressure monitoring, the
subject’s gravity was about 740 N, higher than the maximum pressure of
about 130 N in the previous cycle test. However, the sensor does not
undergo plastic deformation due to excessive pressure from the body
weight. The robust mechanical performance of the sensor is due to the
excellent elasticity of the encapsulation material, which allows the device to
maintain stable compression and recovery under the weight of the human
body, as shown in Supplementary Fig. 8b. We examine pressure variations
in four different plantar regions for various posture states, as illustrated in
Fig. 4g. In the tiptoeing state, the main force is the root of the first metatarsal
bone. Owing to the slight contact between the heel and the ground, the
sensor picks up a weak signal. In the walking and running states, the fifth
metatarsal root is the most stressed, probably due to the certain degree of
foot valgus. A good gait can help maintain normal posture while preventing
muscle and joint strains. In particular, for patients who require rehabilita-
tion exercise, the accurate detection of plantar pressure can help accelerate
their recovery. The difference among waveforms can be exploited to dis-
tinguish different stress positions and motionstates, which can be applied to
the long-term monitoring of plantar pressure. To validate the sensor’s
performance under prolonged high-pressure conditions, a continuous
running/jumpingalternatingtestisconducted,withthesensorpositioned at
the base of the fifth metatarsal, as depicted in Fig. 4h. Sensor designs with various encapsulation materials The sensor accurately
captures walking signals even after multiple jumps, highlighting its high
stability. This signifies the significant potential of the sensor in dynamically
monitoring plantar pressure. The pulse signal and plantar pressure mea-
surements showed that Shape 1, which performed best in the sensor per-
formance characterization, was the best fit for the application. Through
adjusting design patterns and altering encapsulation materials, flexible
control of sensor performance can be achieved. These findings will enable
the design of sensors for detecting signals of varying intensities, presenting
significant prospects for applications in wearable devices and health
monitoring. Sensor designs with various encapsulation materials The maximum detection limits of each sensor
predicted by FEA are shown in Supplementary Fig. 7. Additionally, when
conducting measurements exceeding one hundred instances, we observe a
very small margin of error. When the same encapsulation material is used, the maximum detection limits of most structures are similar. With the
increase in the Young’s modulus, the maximum detection limit also
increases, up to 4500 kPa, indicating that the measurement range of the
sensor can be regulated by selecting appropriate encapsulation materials, npj Flexible Electronics | (2024) 8:23 6 https://doi.org/10.1038/s41528-024-00310-6 Article Article vary significantly at different locations, with the highest pulse intensity
observed at the carotid artery and the lowest at the ankle,which is consistent
with the results obtained by normal finger touch. Although the measure-
ment positions are different, the signal change cycle is the same, indicating
that the signals measured in different parts are indeed human pulse signals. The shape and detailed parameters of the pulse signals from different
locations correspond well to those reported in the literature, validating the
measurement results55,56. This indicates that the sensor can detect physio-
logical signals in multiple parts of the human body. Pulse signals at different
positions are simultaneously monitored, and blood pressure information
can be measured using the time difference. By simultaneously monitoring
pulse signals at different positions, blood pressure information can be
measured using the time difference. In the future, through integration with
various external devices, sensors can be employed to monitor a broader
range of physiological signals in the human body, such as blood pressure57,
and respiratory rate58. enabling flexible sensor-performance design. In practical applications, the
choice of encapsulation material should be specific to the measurement
range and environmental conditions. Simply reducing the stiffness of the
encapsulation material can degrade the overall load-bearing capacity of the
device, potentially resulting in delayed compression recovery or irreversible
deformation. Small variations in pressure signals require devices with high
sensitivity for accurate measurements. Although low stiffness of encapsu-
lation materials may enhance measurement performance, it imposes high
demands on the fabrication process, such as curing time and other condi-
tions, thereby increasing production costs. Therefore, the selection of
encapsulationmaterialsshouldbetailoredtodifferentapplicationscenarios. In previous studies, the sensitivity of kirigami-inspired pressure sensors
varies greatly due to different materials and sensor structures, such as
0.0051 V·N−1 49, 0.067 V·N−1 39, 0.060 V·N−1 52. Pulse-signal measurement and motion-posture sensing The pulse
waveform exhibits noticeable changes in shape before and after exercises,
the cardiac cycle is shortened, and the pulse-signal intensity is increased. In
additiontothewrist,pulse-signalmeasurementsareperformedatfourother
locations using the prepared system, and the results are illustrated in Fig. 4e. The Shape 1 sensor encapsulated with M1 is employed to measure the pulse
at the above positions simultaneously. The pulse waveform and intensity In summary, we fabricate 3D, kirigami-structured pressure sensors
based on PVDF piezoelectric thin films. By modifying the design of a 2D
precursor and employing different encapsulation materials, the sensitivity
and output voltage of the sensor could be flexibly adjusted. This method
exhibits excellent reproducibility, resulting in flexible sensors with high
mechanical durability. We also establish effective finite element models to
guide the sensor design and predict the sensor’s performance. Furthermore, npj Flexible Electronics | (2024) 8:23 7 a
b
c
M1
M2
M3
M4
Before saline soak
After 96 hours of
saline soak
Before exercise
After exercise
d
e
f
h
g
Jumping
Walking
Walking
Running
Tiptoeing
Walking
Running
Tiptoeing
Walking
Running
Tiptoeing
Walking
Running
Tiptoeing
| Pulse-signal measurement and motion-posture sensing using the piezo-
ic pressure sensor. a Photograph of the P1 sensor conformally attached to the
n wrist using an adjustable watchband. b Radial artery pulse signals detected by
sensor encapsulated with four different materials. Pulse measurement before
ter (c) sensor soak in saline and (d) exercise. e Pulse-signal measurement in
different parts of the human body. f Schematics of different plantar po
the sensor is attached. g The open-circuit voltage of the P1 sensor att
different positions in tiptoeing, walking, and running states. h The op
voltage of the P1 sensor placed at position ③in alternating jumping/w
://doi.org/10.1038/s41528-024-00310-6 Article https://doi.org/10.1038/s41528-024-00310-6 b a b
M1
M2
M3
M4
d a Before exercise
After exercise
d d c
Before saline soak
After 96 hours of
saline soak c e e f
g f h
Jumping
Walking h Fig. 4 | Pulse-signal measurement and motion-posture sensing using the piezo-
electric pressure sensor. a Photograph of the P1 sensor conformally attached to the
human wrist using an adjustable watchband. b Radial artery pulse signals detected by
the P1 sensor encapsulated with four different materials. Pulse measurement before
and after (c) sensor soak in saline and (d) exercise. e Pulse-signal measurement in different parts of the human body. f Schematics of different plantar positions where
the sensor is attached. Packaging of piezoelectric pressure sensors The elastic substrate is removed from the tensile platform after the 3D
structureis formed.Themold iscovered onthe filmwiththe3Dstructure in
order to control the shape of the sensor. The packaging material solution is
then cast into the mold. The overall dimensions of the encapsulated sensor
are 15 mm × 15 mm × 10 mm. A photo and cross-sectional image of the
encapsulated device are shown in the Supplementary Fig. 1d and e. Here,
four packaging materials, which include platinum-catalyzed silicones Finite element analysis The finite element analysis is performed using the StructuralMechanics and
AC/DC modules of COMSOL Multiphysics. PVDF material parameters are
subsequently configured. The PVDF material from the COMSOL material
library is primarily utilized, with a Poisson’s ratio set to 0.35 and a Young’s
modulusof2600 MPa.Subsequently,thefouranchorpointsaresubjectedto
inward displacements of 2.8 mm along the x and y axes, respectively,
simulating the film’s contraction inward according to the length of con-
traction of the elastic substrate, ultimately forming a three-dimensional
structure. Then a cuboid packaging material model with dimensions of 15 ×
15 × 10 mm is created around the film to construct the sensor model. Simultaneously, a cuboid steel plate model is positioned above the sensor to
mimic the pressure application device. For simulating the packaging
material, the third-order superelastic material model Yeoh is chosen, and
the parameters (c1, c2, and c3) correspond to the packaging Materials and
are derived from the Soft Robotics Materials Database59. The material is
considered incompressible. In the Electrical module, the upper surface
voltageofthefilmiszeroandthelowersurfaceisgrounded.IntheStructural
Mechanic module, the lower surface of the sensor model is kept moving
freely in the lateral direction and constrained in the longitudinal direction. Meanwhile, the steel plate gradually moves downward, and its motion
parameters are the same as those of the linear guide rail in the experiment,
and are set as the acceleration, uniform speed and deceleration process, in
which the acceleration and deceleration process are the same. Changes in
strain distribution, pressure, and output voltage can be obtained by simu-
lating the sensor compression process. https://doi.org/10.1038/s41528-024-00310-6 https://doi.org/10.1038/s41528-024-00310-6 Article (EcoflexTM 00-10, Smooth-On) and three kinds of silicone materials (San-
jingxinde Technology) with different Young’s moduli, are used to provide
the sensor with deformation recovery capabilities. The Young’s moduli of
the packaging materials are 50 kPa, 170 kPa, 410 kPa and 1000 kPa
respectively, which are tested by the intelligent electronic tensile testing
machine (XLW-EC-A, Labthink). The stress-strain curves are shown in
Supplementary Fig. 5. The curing condition is normal temperature curing. Mold and substrate removal are performed after the encapsulation material
is cured. The encapsulation material wrapping ensures the stable com-
pressionandrecoveryofthe3Dstructureduringoperationaftertheremoval
of the substrate. (EcoflexTM 00-10, Smooth-On) and three kinds of silicone materials (San-
jingxinde Technology) with different Young’s moduli, are used to provide
the sensor with deformation recovery capabilities. The Young’s moduli of
the packaging materials are 50 kPa, 170 kPa, 410 kPa and 1000 kPa
respectively, which are tested by the intelligent electronic tensile testing
machine (XLW-EC-A, Labthink). The stress-strain curves are shown in
Supplementary Fig. 5. The curing condition is normal temperature curing. Mold and substrate removal are performed after the encapsulation material
is cured. The encapsulation material wrapping ensures the stable com-
pressionandrecoveryofthe3Dstructureduringoperationaftertheremoval
of the substrate. our sensors successfully monitor both pulse signals and plantar pressure. In
the future, more intriguing structural designs and superior encapsulation
materials will be explored while further reducing the sensor size. In sum-
mary,thisworkprovidesasimpleandeffectiveapproachformodulatingthe
performance of piezoelectric pressure sensors. We anticipate that the
macroscopic structural design of piezoelectric thin films would find broad
application in various pressure-sensing devices. Design of 2D precursors Highly symmetric graphic designs are made for the 2D precursors to ensure
the symmetry of the 3D structures and the stability of device operation. Squares and circles, representing classic shapes with straight and curved
boundaries, respectively, exhibit different structural characteristics and dis-
tinct compression effects after formation. Both squares and circles have four
anchorpointsand90°angles.Additionally,triangleswiththreeanchorpoints,
each with angles of 120°, are considered basic shapes in the design. Drawing
inspiration from common 3D structural elements in daily life, we devised a
pyramid-like top-protruding (conical) structure (Shape 1), a concave-topped
structure resembling an ancient Chinese coin (Shape 3), and three-layer disc-
like structures (Shapes 2 and 2s). We kept the film area constant to investigate
theimpact ofthe structureas the sole variable on performance.Thedifference
incuttingareabetweenShapes2and2swasusedtodemonstratetheinfluence
oftheeffectivefilmareaontheperformance.Furthermore,forthesamethree-
layer disc-like shape, given identical design elements for the 2D precursor,
various interestingstructureswith the same planarshape but different pattern
details can be created by changing the length and quantity of the cutting lines. We make further adjustments and create a second three-layer disc-like
structure, Shape 2s, to obtain six different pattern designs. Experimental setup for pressure and electrical characterization
The packaged sensor is placed on a fixed platform. The mechanical force
perpendicular to the sensor’s surface is provided using a strain system
consisting of linear guides (H01, Linmot) and load cell (DYMH-103,
DAYSENSOR) and is recorded by a high precision dynamometer (DY920,
DAYSENSOR). The digit multimeter (Keithley 6500) is employed to cap-
ture and record the open-circuit voltage of the sensors. The pressure applied
to the sensor surface varies with the moving distanceof the linear guide. The
absolute value of the open circuit voltage generates when the sensor is
squeezed is recorded as the output voltage at that pressure. The force
measuringdeviceindicatesthatthesensorcandetectforcesassmallas0.1 N. Pulse signal detection Radial pulse is measured by placing a sensor on the surface of the radial
artery of the wrist and securing it with a watch strap. The pulse of the
neck, fingertip, elbow and ankle is measured by placing the sensor in the
designated position and fixing it in place with a band-aid. The pulse
after exercise is measured after running lasts for 1 minute. The saline
soak meant that the sensor is immersed in salt water with 1% at 37 °C. Pulse signals are collected using a shielded junction box (SCB-68A,
National Instruments). Fabrication of 3D structures A PVDF film coated with electrodes (52 μm metallized piezo film, TE
Connectivity) is patterned by Femtosecond laser (Pharos 20, Light Conver-
sion) with a single-pulse energy of 2 mJ, a repetition frequency of 0.4 kHz, a
processing speed of 150 mm s-1, and 200 processing cycles. The pre-designed
2D precursor design drawing (CAD data) and cutting parameters are input
into the machining control system, and the machining process is auto-
matically completed by the controller. Appropriate laser and cutting para-
meters can ensure effective cutting while the upper and lower electrode layers
of the film are not conducting. The wires are connected in the rectangular
region (Supplementary Fig. 1b) of the patterned film using conductive silver
glue. At the same time, an elastic substrate with dimensions of 5×5 cm and
thickness of 2 mm is fabricated by platinum-catalyzed silicones (EcoflexTM
00-10, Smooth-On) in a 1:1 ratio under the condition of curing at 80°C for
30 minutes. The elastic substrate is then fixed on the manual tensile platform
(PT-ST50,PDV,SupplementaryFig.1a).Thepre-strainof130%isapplied to
the elastic substrate using tensile platforms. After the four anchor points are
threadedthroughsmallholesatthetargetpositionsintheelasticsubstrate,the
mechanicalfixationoftheanchorpointsisachievedbyreleasingtheprestrain
in the elastic substrate, thereby completing the formation of the 3D structure. As for lead wires, we cure the silver paste within the working temperature
range of PVDF and then reinforce the connection points with the encapsu-
lation material, ensuring electrode and conductor stability during testing and
application. The image of the thin film section after laser cutting, which is
shown in Supplementary Fig. 1c can show that the thin film does not short-
circuit, which ensures the effectiveness of the voltage output. Pulse-signal measurement and motion-posture sensing g The open-circuit voltage of the P1 sensor attached to four
different positions in tiptoeing, walking, and running states. h The open-circuit
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English
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A late Paleoproterozoic (1.74 Ga) deep‐sea, low‐temperature, iron‐oxidizing microbial hydrothermal vent community from Arizona, USA
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Geobiology
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cc-by
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Received: 27 March 2020 | Revised: 18 January 2021 | Accepted: 1 February 2021 Received: 27 March 2020 | Revised: 18 January 2021 | Accepted: 1 February 2021
DOI: 10.1111/gbi.12434 O R I G I N A L A R T I C L E O R I G I N A L A R T I C L E Crispin T. S. Little1
| Karen C. Johannessen2
| Stefan Bengtson3
|
Clara S. Chan4
| Magnus Ivarsson3,5 | John F. Slack6
| Curt Broman7 |
Ingunn H. Thorseth2
| Tor Grenne8
| Olivier J. Rouxel9
| Andrey Bekker10,11 Crispin T. S. Little1
| Karen C. Johannessen2
| Stefan Bengtson3
|
Clara S. Chan4
| Magnus Ivarsson3,5 | John F. Slack6
| Curt Broman7 |
Ingunn H. Thorseth2
| Tor Grenne8
| Olivier J. Rouxel9
| Andrey Bekker10,11 Crispin T. S. Little1
| Karen C. Johannessen2
| Stefan Bengtson3
|
Clara S. Chan4
| Magnus Ivarsson3,5 | John F. Slack6
| Curt Broman7 |
Ingunn H. Thorseth2
| Tor Grenne8
| Olivier J. Rouxel9
| Andrey Bekker10,11 1School of Earth and Environment,
University of Leeds, Leeds, UK
2Department of Earth Science, University of
Bergen, Bergen, Norway
3Department of Palaeobiology, Swedish
Museum of Natural History, Stockholm,
Sweden
4Department of Earth Sciences, University
of Delaware, Newark, USA
5Department of Biology, University of
Southern Denmark, Odense M, Denmark
6U.S. Geological Survey (Emeritus), National
Center, Reston, USA
7Department of Geological Sciences,
Stockholm University, Stockholm, Sweden
8Geological Survey of Norway, Trondheim,
Norway
9Marine Geosciences Research Unit,
IFREMER, Plouzané, France
10Department of Earth and Planetary
Sciences, University of California, Riverside,
USA
11Department of Geology, University of
Johannesburg, Johannesburg, South Africa
Correspondence
Crispin T. S. Little, School of Earth and
Environment, University of Leeds, Leeds LS2
9JT, UK. Email: earctsl@leeds.ac.uk
Funding information
Research Council of Norway Grant (197411/
V30). Swedish Research Council Contracts
No. 2012-4364 and 2017-04129. Villum
Investigator Grant (No. 16518). 1School of Earth and Environment,
University of Leeds, Leeds, UK
2Department of Earth Science, University of
Bergen, Bergen, Norway
3Department of Palaeobiology, Swedish
Museum of Natural History, Stockholm,
Sweden
4Department of Earth Sciences, University
of Delaware, Newark, USA
5Department of Biology, University of
Southern Denmark, Odense M, Denmark
6U.S. Geological Survey (Emeritus), National
Center, Reston, USA
7Department of Geological Sciences,
Stockholm University, Stockholm, Sweden
8Geological Survey of Norway, Trondheim,
Norway
9Marine Geosciences Research Unit,
IFREMER, Plouzané, France
10Department of Earth and Planetary
Sciences, University of California, Riverside,
USA
11Department of Geology, University of
Johannesburg, Johannesburg, South Africa
Correspondence
Crispin T. S. Little, School of Earth and
Environment, University of Leeds, Leeds LS2
9JT, UK. Email: earctsl@leeds.ac.uk
Funding information
Research Council of Norway Grant (197411/
V30). Swedish Research Council Contracts
No. 2012-4364 and 2017-04129. Villum
Investigator Grant (No. 16518). A late Paleoproterozoic (1.74 Ga) deep-sea, low-temperature,
iron-oxidizing microbial hydrothermal vent community from
Arizona, USA Crispin T. S. Little1
| Karen C. Johannessen2
| Stefan Bengtson3
|
Clara S. Chan4
| Magnus Ivarsson3,5 | John F. Slack6
| Curt Broman7 |
Ingunn H. Thorseth2
| Tor Grenne8
| Olivier J. Rouxel9
| Andrey Bekker10,11 Abstract Modern marine hydrothermal vents occur in a wide variety of tectonic settings and
are characterized by seafloor emission of fluids rich in dissolved chemicals and rapid
mineral precipitation. Some hydrothermal systems vent only low-temperature Fe-
rich fluids, which precipitate deposits dominated by iron oxyhydroxides, in places
together with Mn-oxyhydroxides and amorphous silica. While a proportion of this
mineralization is abiogenic, most is the result of the metabolic activities of benthic,
Fe-oxidizing bacteria (FeOB), principally belonging to the Zetaproteobacteria. These
micro-organisms secrete micrometer-scale stalks, sheaths, and tubes with a variety
of morphologies, composed largely of ferrihydrite that act as sacrificial structures,
preventing encrustation of the cells that produce them. Cultivated marine FeOB
generally require neutral pH and microaerobic conditions to grow. Here, we de-
scribe the morphology and mineralogy of filamentous microstructures from a late
Paleoproterozoic (1.74 Ga) jasper (Fe-oxide-silica) deposit from the Jerome area of
the Verde mining district in central Arizona, USA, that resemble the branching tubes
formed by some modern marine FeOB. On the basis of this comparison, we interpret
the Jerome area filaments as having formed by FeOB on the deep seafloor, at the
interface of weakly oxygenated seawater and low-temperature Fe-rich hydrother-
mal fluids. We compare the Jerome area filaments with other purported examples of
Precambrian FeOB and discuss the implications of their presence for existing redox
models of Paleoproterozoic oceans during the “Boring Billion.” 2Department of Earth Science, University of
Bergen, Bergen, Norway 3Department of Palaeobiology, Swedish
Museum of Natural History, Stockholm,
Sweden 4Department of Earth Sciences, University
of Delaware, Newark, USA 5Department of Biology, University of
Southern Denmark, Odense M, Denmark 6U.S. Geological Survey (Emeritus), National
Center, Reston, USA Stockholm University, Stockholm, Sweden 8Geological Survey of Norway, Trondheim,
Norway 1 | INTRODUCTION anoxic, Fe-rich, S-poor, low-temperature (10 s of °C) hydrothermal
fluids mix with oxygenated seawater at ambient temperatures (e.g.,
Edwards et al., 2011; Emerson et al., 2007; Forget et al., 2010; Glazer
& Rouxel, 2009; Langley et al., 2009; Sun et al., 2013). The mineral-
ogy of these hydrothermal Fe-rich deposits is dominated by iron oxy-
hydroxides (e.g., ferrihydrite and goethite), commonly accompanied
by Mn-oxyhydroxides and locally with significant amounts of amor-
phous silica (e.g., Dekov et al., 2015; Jones et al., 2008; Li et al., 2012;
Peng et al., 2015; Rouxel et al. 2018; Toner et al., 2012); hematite
(Fe2O3) has been reported from only one, higher-temperature site
(estimated to be ≥115°C; Hein et al., 2008). 1 In the decades since their first discovery in 1977, marine hydrother-
mal vents have been reported from all of the world's oceans in a
wide variety of tectonic settings where a heat source is present, in-
cluding at more than 400 sites on mid-ocean ridges, fore- and back-
arc spreading centers, arc volcanoes, and intra-plate volcanoes and
seamounts (e.g., Beaulieu et al., 2013; Corliss et al., 1979; Fouquet
et al., 2010; Karl et al., 1988; Pedersen et al., 2010; Petersen
et al., 2019). Many of these hydrothermal systems are character-
ized by seafloor emission of high-temperature (up to 400°C) fluids
rich in dissolved chemicals, which rapidly precipitate chimney and
mound structures formed largely of metal sulfides (e.g., pyrite, chal-
copyrite, sphalerite), sulfates (e.g., anhydrite, barite), and silica (e.g.,
Hannington, 2014; Hannington et al., 1995; Tivey, 2007). However,
most hydrothermal fluid exits the seafloor at lower temperatures (in
the 10 s of °C) and typically is much lower in dissolved chemicals,
because of mixing with ambient seawater in the subsurface. The
resulting hydrothermal seafloor precipitates commonly have a dif-
ferent mineralogy (e.g., Fe-oxides and iron oxyhydroxides) to those
that form from high-temperature fluids. Some marine hydrothermal
systems only vent low-temperature fluids, and these are charac-
terized by the precipitation of Fe-oxide-rich deposits that display a
wide variety of morphologies from layered sediments to small-scale
chimney structures (e.g., Hein et al., 2008; Sun et al., 2013, 2015
and references therein). Funding information Arizona, Fe-oxidizing bacteria, hydrothermal vents, jasper, late Paleoproterozoic, Verde
mining district 228 |
Geobiology. 2021;19:228–249. wileyonlinelibrary.com/journal/gbi
This is an open access article under the terms of the Creative Commons Attribution License, which permits use, distribution and reproduction in any medium,
provided the original work is properly cited. © 2021 The Authors. Geobiology published by John Wiley & Sons Ltd. |
This is an open access article under the terms of the Creative Commons Attribution License, which permits use, distribution and reproduction in any medium,
provided the original work is properly cited. © 2021 The Authors. Geobiology published by John Wiley & Sons Ltd. Geobiology. 2021;19:228–249. LITTLE et al. 229 precipitation, increasing the overall Fe/C ratio of the aging stalks,
and also causing them to thicken, obscuring some of the fine details,
like twisting (Chan et al., 2011; Chan, McAllister, et al., 2016, figure
5C, 7F). At regular intervals, M. ferrooxydans cells detach from the
stalks and swim actively away to form new stalks elsewhere. M. fer-
rooxydans lives at the narrow interface between the anoxic Fe-rich
vent fluid and ambient, oxygenated seawater (Edwards et al., 2011;
Glazer & Rouxel, 2009). In culture, the PV-1 strain requires neutral
pH and microaerobic conditions, producing stalks at 2.7 to 28 μM O2
(Krepski et al., 2013), with Fe(II) used as an electron donor (Emerson
et al., 2007). The stalks of M. ferrooxydans are 0.6 to 2.2 µm wide and
can bifurcate, as a result of cell division (Figure 1). The stalks typi-
cally occur in parallel, a result of coordinated growth of cells follow-
ing a chemical gradient (Chan, McAllister, et al., 2016). In addition to
M. ferrooxydans, in natural samples from low-temperature Fe-oxide
deposits other Zetaproteobacteria are present, forming different
structures. These include unbranching cylindrical sheaths ca. 1 µm in
diameter and hundreds of microns long (Fleming et al., 2013), and Y-
shaped tubes ca. 2 to 4 µm in diameter and ca. 5 to 50 μm long (Chan,
McAllister, et al., 2016; Emerson et al. 2017; Peng et al., 2015). The
latter are stalk structures formed by apical cells, similar to the way
M. ferrooxydans forms its stalks, but these are shorter than M. fer-
rooxydans stalks and are hollow (Chan, McAllister, et al., 2016;
Emerson et al. 2017; Peng et al., 2015). Although the organisms
that form sheaths and Y-shaped tubes have not been isolated, ge-
nomic analyses of major Zetaproteobacteria taxa (cultured and un-
cultured) show that all Zetaproteobacteria are aerobic iron oxidizers
(McAllister et al., 2020). Zetaproteobacteria co-occur with other
micro-organisms at low-temperature vents to collectively form mat-
like structures on the seafloor (e.g., Chan, McAllister, et al., 2016;
Johannessen et al., 2017; Vander Roost et al., 2017, 2018) that are partially organic and partially mineralogical, and are often associ-
ated with amorphous silica (e.g., Rouxel et al., 2018). However, the
main framework of these mats is formed by the Zetaproteobacteria
(Figure 1). Importantly, the extracellular stalks and sheaths produced
by modern FeOB contain only minor amounts of organic carbon (e.g.,
0.3 wt% TOC; Laufer et al., 2017), being Fe-oxide waste products
rather than cells (Bennett et al., 2014; Chan et al., 2011; Emerson &
Revsbech, 1994). The Phanerozoic contains many examples of marine hydrothermal
vent deposits, termed Volcanogenic Massive Sulfides (VMS), from
a wide variety of tectonic settings (e.g., Hannington, 2014; Huston
et al., 2010). Some of these VMS deposits are closely associated with
layers or lenses of jasper (hematite-silica rocks), which in many cases
can be traced along strike laterally for hundreds of meters to locally
several kilometers (e.g., Duhig et al., 1992; Grenne & Slack, 2003,
2005; Juniper & Fouquet, 1988; Little et al., 2004). Jasper occur-
rences without lateral continuity may be analogues for the isolated,
Si-Fe-oxyhydroxides forming at modern, low-temperature, Fe-rich,
and sulfide-poor vents. Many of these Phanerozoic jaspers contain
filamentous structures, hundreds of micrometers in length and 5
to 30 μm in diameter, composed of hematite within a microcrystal-
line quartz matrix (Little et al., 2004 and references therein). The
filaments display a variety of morphologies including branching and
coiled structures, and dendrites. It has been suggested that these
filaments are fossils of FeOB (e.g., Emerson & Moyer, 2002; Little
et al., 2004 and references therein; Chan, Emerson, et al., 2016);
however, none has yet convincingly been shown to display the char-
acteristic twisted stalks formed by Mariprofundus ferrooxydans. Further back in geological time, VMS deposits as old as 3.5 Ga are
known (Huston et al., 2010). Some of these Precambrian VMS are as-
sociated with small-scale jaspers and iron formations (Fe-oxides that FI G U R E 2 (a) Location of Verde mining district in central Arizona. (b) Simplified stratigraphic section of the VMS-hosting
Paleoproterozoic volcanic sequence in northern part of the mining district (modified from Slack et al., 2007), showing stratigraphic positions
of VMS deposits, jaspers, and iron formations. Not shown is a stratigraphically lower horizon of jasper and iron formation, in the southern
part of the district, between the Shea Basalt and overlying Deception Rhyolite. Total thickness of section varies from 1 to 2.5 km. Note that
thicknesses of VMS deposits, jasper units, and iron formations are exaggerated. 1 | INTRODUCTION Such deposits occur at the interface where While some of the iron oxyhydroxide precipitation in these
systems is abiogenic (occurring as micrometer-scale Fe-oxide parti-
cles), it is now well established that a proportion, and generally the
majority, of the volume of iron oxyhydroxide precipitate is formed
by benthic, Fe-oxidizing bacteria (FeOB), principally belonging
to the Zetaproteobacteria (Chan, Emerson & Luther, 2016; Chan
et al., 2011; Chan, McAllister, et al., 2016; Davis & Moyer, 2008;
Davis et al., 2009; Edwards et al., 2011; Emerson & Moyer, 2002;
Emerson et al., 2007, 2017; McAllister et al., 2019). The best known
of this group is Mariprofundus ferrooxydans, which has a bean-shaped
cell that secretes stalks of organic-encased ferrihydrite, which pre-
cipitates as a waste product from its metabolic activity (Figure 1). The
stalks are usually twisted, but sometimes this trait is not present in
the stalks of the PV-1 type strain (Chan et al., 2011, figure S1). These
stalks can then serve as a substrate for further iron oxyhydroxide FI G U R E 1 FeOB structures from modern low-temperature hydrothermal vent sites. (a-d) Scanning electron microscope (SEM) images of
siliceous ferrihydrite-coated filaments from Troll Wall vent field, Mohns Ridge. (a) Mat of tubular filaments and variably twisted filaments,
with straight to curved morphologies; some parallel aligned. (b) Variably twisted filaments; white arrow points to highly twisted example. (c)
Highly branched hollow filaments. (d) Twisted filaments enclosed in silica matrix. (e) TEM image of filaments from Loihi Seamount microbial
mats showing a variety of morphologies, including cylindrical tubes, twisted stalks, and highly branching filaments. (f) TEM image of cell
(black arrow) and twisted stalk of cultured Mariprofundus ferrooxydans PV-1 strain, together with Fe-oxide particles FI G U R E 1 FeOB structures from modern low-temperature hydrothermal vent sites. (a-d) Scanning electron microscope (SEM) images of
siliceous ferrihydrite-coated filaments from Troll Wall vent field, Mohns Ridge. (a) Mat of tubular filaments and variably twisted filaments,
with straight to curved morphologies; some parallel aligned. (b) Variably twisted filaments; white arrow points to highly twisted example. (c)
Highly branched hollow filaments. (d) Twisted filaments enclosed in silica matrix. (e) TEM image of filaments from Loihi Seamount microbial
mats showing a variety of morphologies, including cylindrical tubes, twisted stalks, and highly branching filaments. (f) TEM image of cell
(black arrow) and twisted stalk of cultured Mariprofundus ferrooxydans PV-1 strain, together with Fe-oxide particles 230 LITTLE et al. One example of Precambrian VMS deposits with associated
Fe-rich exhalites is in the Jerome area of the Verde mining district
in central Arizona, USA (Figure 2a; Lindberg, 2008). Here occur
several Cu-rich VMS deposits with associated bedded jaspers and
tuffaceous rocks with local rip-up clasts of jasper at the same strati-
graphic levels (Slack et al., 2007; Figures 2b and 3a,c,d). Jaspers also
occur interlayered with hematite iron formation at a higher strati-
graphic level in the Grapevine Gulch Formation, but without asso-
ciated VMS deposits (Figures 2b and 3b). The VMS deposits in the
district are hosted by a thick succession of late Paleoproterozoic
(1.74 Ga) rhyolites. This succession lacks evidence of a terrigenous
siliciclastic component, suggesting formation within an intraoce-
anic island arc distal from any continental margin (Anderson, 1989). Occurrence in the district of geographically widespread rhyolite
tuffs and cauldron ring fractures implies that the VMS mineralization From mineralogical and geochemical studies of the jaspers in the
Jerome area, Slack et al. (2007) inferred that late Paleoproterozoic
deep seawater was in a transitional, suboxic state that allowed
the oxidation of hydrothermal Fe2+ to Fe3+, which in their model
was preserved in hematite within the jaspers. This inference is at
odds with many (but not all, e.g., Ohmoto et al., 2006; Planavsky
et al., 2018; Slack et al., 2009; Sperling et al., 2014) reconstruc-
tions of Proterozoic seawater redox states, derived largely from
geochemical studies of shales in marine sedimentary sequences FI G U R E 3 (a) Field photograph of orange and red jasper layers and intervening rhyolite tuff (dark-gray) containing angular jasper clasts,
from lowermost part of lower Cleopatra Rhyolite (Figure 2b). Upper red jasper layer is near base of outcrop that contains sample JS-05-1. Sample JS-05-03 was collected ca. 20 m along strike from this outcrop. Hammer is 40 cm long. (b) Field photograph of folded layers of
jasper and hematite iron formation (dark), from lower part of Grapevine Gulch Formation (Figure 2b). Coin is 2.1 cm in diameter. (c) Field
photograph of angular jasper and chert rip-up clasts in crystal-rich rhyolite tuff. Note dark-gray rim on elongated jasper clast and completely
bleached jasper clast to the left, caused by variable diagenetic reduction in ferric to ferrous iron during sediment burial. Knife is 8.9 cm long. (d) Field photograph of angular jasper rip-up clasts in rhyolite lapilli tuff, enclosed by massive rhyolite tuff. Stratigraphic levels of samples JS-05-1, JS-05-3, and that
used for U-Pb zircon age of 1.74 Ga (Slack et al., 2007) are indicated FI G U R E 2 (a) Location of Verde mining district in central Arizona. (b) Simplified stratigraphic section of the VMS-hosting
Paleoproterozoic volcanic sequence in northern part of the mining district (modified from Slack et al., 2007), showing stratigraphic positions
of VMS deposits, jaspers, and iron formations. Not shown is a stratigraphically lower horizon of jasper and iron formation, in the southern
part of the district, between the Shea Basalt and overlying Deception Rhyolite. Total thickness of section varies from 1 to 2.5 km. Note that
thicknesses of VMS deposits, jasper units, and iron formations are exaggerated. Stratigraphic levels of samples JS-05-1, JS-05-3, and that
used for U-Pb zircon age of 1.74 Ga (Slack et al., 2007) are indicated LITTLE et al. 231 lack abundant silica). Such Fe-rich and Si-poor seafloor-hydrothermal
deposits, together with jaspers and other VMS-related hydrother-
mal chemical precipitates, are termed exhalites (e.g., Slack, 2012;
Spry et al., 2000). Iron-rich exhalites are similar in some respects to
volcanic-hosted, deep-water, Algoma-type Banded Iron Formation
(BIF), but differ in being proximal to VMS deposits. In contrast, the
generally larger Superior-type BIFs formed in sedimentary basins
at shallow-water depths, as shown by the presence of local stro-
matolites and other sedimentary features (e.g., Bekker et al., 2010;
Konhauser et al., 2017). took place in a submarine volcanic caldera (Lindberg, 2008). These
and other geologic features led Briggs (2018) to propose the Izu–
Bonin–Mariana Arc in the South Pacific as a modern analogue. The host volcanic rocks and the VMS deposits were subjected to
polyphase deformation and lower greenschist-facies metamorphism
during the Paleoproterozoic (Gustin, 1990; Lindberg, 2008). Water
depth during formation of the Verde mining district VMS deposits
was inferred by Slack et al. (2007) to be ≥850 m, based on the Cu-
rich nature of the ores and a related fluid temperature of >300°C
required to transport appreciable Cu in solution (e.g., Hannington
et al., 1995), together with the hydrostatic pressure needed for sta-
bilization of aqueous Cu in seafloor-hydrothermal fluids having near-
seawater salinities. Using more recent data in Hannington (2014),
however, a minimum water depth of 500 m is adopted here with a
revised formational temperature of ≥265°C for depositing the Cu-
rich mineralization in the district. 2.1 | Optical and scanning electron microscopy Details of collection of the Jerome area jaspers, together with
background geology and related whole-rock geochemical data,
are given in Slack et al. (2007). The studied materials come from a
1-m-thick jasper layer that occurs at the same stratigraphic level as
the small Verde Central VMS deposit ca. 160 m to the south (Slack
et al., 2007; Figures 2 and 3a). Hereafter, we refer to this layer as
the Verde Central jasper (VCJ). VCJ samples JS-05-1 and JS-05-3
were used in this study for detailed investigation. Filamentous struc-
tures within these samples were identified initially in polished thin
sections (100 or 200 µm thick) using a Leica DM750P petrographic
microscope under plane and crossed polarized light, fitted with a
Leica DFC290HD digital camera. One thin section from VCJ JS-05-3
was used to obtain digital measurements of the filaments via Leica
Application Suite v.3.7.0. Two thin sections from VCJ JS-05-1 were
prepared with 14-nm-thick carbon coats and examined by scanning
electron microscopy (SEM) and backscattered electron (BSE) imag-
ing at 10 keV, using a FEI Quanta 650 FEG-ESEM with an Oxford
X-max 80 SDD Energy Dispersive Spectrometer (EDS) at the Leeds
Electron Microscopy and Spectroscopy Centre, University of Leeds,
UK. Herein, we present a detailed investigation of
these filaments using a variety of techniques, in order to fully eluci-
date their morphology and formation. Based on the new information
and by comparison with Phanerozoic jasper filaments and modern
FeOB, we interpret the Jerome area filaments as having a biological
origin and suggest these are fossil products of benthic, microaer-
obic, FeOB that lived at low-temperature hydrothermal vents. We
further discuss the implications of this interpretation for the redox
state of late Paleoproterozoic deep seawater, and the deposition of
Precambrian iron formations. 2.4 | Focused ion beam-transmission electron
microscopy (FIB-TEM) Another thin section (200 µm thick) from VCJ sample JS-05-3 was
analyzed using FIB-TEM. Potential target filaments for FIB were iden-
tified optically using a Nikon Eclipse LV100 polarizing microscope at
the University of Bergen, Norway. The slide was then coated with
a 30-nm-thick layer of Au, and locations of individual microfossils
were confirmed by SEM using a Zeiss Supra 55VP SEM, also at the
University of Bergen. For easy recognition of the FIB-TEM target
filaments, only horizontally oriented specimens that intersected the
surface of the section were selected. 2.3 | Synchrotron-based X-ray tomographic
microscopy (SRXTM) SRXTM was carried out at the X02DA (TOMCAT) beamline
(Stampanoni et al., 2006) at the Swiss Light Source, Paul Scherrer
Institute, Villigen, Switzerland. The figured sample was broken out
from a ~200-µm-thick, double-polished section from VCJ sample JS-
05-3 and glued to a brass pin. It was then scanned at a beam energy
of 20 keV. Transmitted radiation was converted to visible light using
a 20-µm-thick LAG:Ce scintillator or a 5.9-µm-thick LSO:Tb scintil-
lator. The image was magnified with 10x, 20x, or 40x microscope
objectives and digitized by a sCMOS camera (PCO.edge). The re-
sulting voxel size was 0.65 µm for the 10×, 0.325 µm for the 20×,
and 0.1625 µm for the 40× objective. For each scan, 1,501 to 2,001
projections equiangularly spaced over 180° were acquired, with ex-
posure times of 220 to 800 ms per single projection. Tomographic
reconstruction was done using a highly optimized algorithm based
on the Fourier method (Marone & Stampanoni, 2012), and the ob-
tained tomographic volumes were visualized and rendered using
Avizo software (Thermo Fisher Scientific). Note lack of hematite in matrix of
lapilli tuff. Coin is 2.1 cm in diameter FI G U R E 3 (a) Field photograph of orange and red jasper layers and intervening rhyolite tuff (dark-gray) containing angular jasper clasts,
from lowermost part of lower Cleopatra Rhyolite (Figure 2b). Upper red jasper layer is near base of outcrop that contains sample JS-05-1. Sample JS-05-03 was collected ca. 20 m along strike from this outcrop. Hammer is 40 cm long. (b) Field photograph of folded layers of
jasper and hematite iron formation (dark), from lower part of Grapevine Gulch Formation (Figure 2b). Coin is 2.1 cm in diameter. (c) Field
photograph of angular jasper and chert rip-up clasts in crystal-rich rhyolite tuff. Note dark-gray rim on elongated jasper clast and completely
bleached jasper clast to the left, caused by variable diagenetic reduction in ferric to ferrous iron during sediment burial. Knife is 8.9 cm long. (d) Field photograph of angular jasper rip-up clasts in rhyolite lapilli tuff, enclosed by massive rhyolite tuff. Note lack of hematite in matrix of
lapilli tuff. Coin is 2.1 cm in diameter 232 LITTLE et al. | (−70°C), 1,024 × 256 pixel CCD (charge-coupled device) detec-
tor. Acquisitions were obtained with an 1,800 lines/mm grating. Excitation was provided by an Ar-ion laser (λ = 514 nm) source. Spectra were recorded using a low laser power of 0.1–1 mW at the
sample surface to avoid laser-induced degradation. Sampling was
carried out using an Olympus BX41 microscope coupled to the in-
strument; the laser beam was focused through a 100× objective to
obtain a spot size of ca. 1 mm. The spectral resolution was ~0.3 cm−1
pixel−1. Typical exposure time was 10 s with 10 accumulations. The
accuracy of the instrument was controlled by repeated use of a sili-
con wafer calibration standard with a characteristic Raman line at
520.7 cm−1. (e.g., Canfield, 1998; Bekker et al., 2004; Poulton et al., 2004;
Canfield, 2005; Canfield et al., 2008; Meyer & Kump, 2008; Kendall
et al., 2009; Poulton et al., 2010; Poulton & Canfield, 2011; Planavsky
et al., 2011; Reinhard et al., 2013), which suggest that either ferrugi-
nous or euxinic conditions prevailed in the deep sea during this long
time period between 1.8 and 0.8 Ga (the so-called “Boring Billion”). Light microscope investigations of the Jerome area jaspers revealed
in some samples distinctive hematitic filaments, described briefly
by Slack et al. (2007). Herein, we present a detailed investigation of
these filaments using a variety of techniques, in order to fully eluci-
date their morphology and formation. Based on the new information
and by comparison with Phanerozoic jasper filaments and modern
FeOB, we interpret the Jerome area filaments as having a biological
origin and suggest these are fossil products of benthic, microaer-
obic, FeOB that lived at low-temperature hydrothermal vents. We
further discuss the implications of this interpretation for the redox
state of late Paleoproterozoic deep seawater, and the deposition of
Precambrian iron formations. (e.g., Canfield, 1998; Bekker et al., 2004; Poulton et al., 2004;
Canfield, 2005; Canfield et al., 2008; Meyer & Kump, 2008; Kendall
et al., 2009; Poulton et al., 2010; Poulton & Canfield, 2011; Planavsky
et al., 2011; Reinhard et al., 2013), which suggest that either ferrugi-
nous or euxinic conditions prevailed in the deep sea during this long
time period between 1.8 and 0.8 Ga (the so-called “Boring Billion”). Light microscope investigations of the Jerome area jaspers revealed
in some samples distinctive hematitic filaments, described briefly
by Slack et al. (2007). 2.2 | Raman spectroscopy One thin section (200 µm thick) from VCJ sample JS-05-3 was
analyzed at the Department of Geological Sciences, Stockholm
University, Sweden, using a confocal laser Raman microspectrom-
eter (Horiba instrument LabRAM HR 800; Horiba Jobin Yvon,
Villeneuve d’Ascq, France), equipped with a multichannel, air-cooled Three ultrathin filament cross sections were prepared from
the slide using a FEI Helios NanoLab 600 DualBeam FIB-SEM
at the NTNU NanoLab in Trondheim, Norway. The target areas
were identified and monitored with a FEG-SEM, while milling was
performed with a focused Ga+ ion beam. A Pt protection layer LITTLE et al. 233 |
TA B LE 1 Whole-rock analyses of jaspers from the Verde Central horizon
Sample No. JS-05-1
JS-05-2
JS-05-3
JS-05-3 BEK
JS-05-4
SiO2 (wt %)
94.47
96.15
94.24
89.51
95.34
Al2O3
0.30
0.74
0.17
0.20
0.38
Fe2O3
3.08
1.44
3.41
7.78
0.65
FeO
1.13
1.07
0.96
1.21
2.14
MnO
0.004
0.011
0.018
0.005
0.010
MgO
0.02
0.02
0.03
0.04
0.17
CaO
0.02
0.03
0.03
0.06
0.02
Na2O
0.08
0.08
0.07
0.09
0.06
K2O
0.07
0.04
0.07
0.06
0.06
TiO2
0.010
0.016
0.007
0.016
0.007
P2O5
<0.01
<0.01
<0.01
<0.01
0.05
LOI
0.51
0.46
0.66
0.55
0.62
Total
99.68
100.05
99.63
99.50
99.53
Be (ppm)
<1
<1
<1
<1
<1
Br
<0.5
0.5
<0.5
<0.5
0.5
Ga
<1
1
<1
<1
1
Ge
1.0
1.1
0.7
0.7
0.9
Sc
0.6
0.7
0.3
0.3
1.9
V
<5
<5
<5
<5
<5
Cr
9
29
13
459
94
Nb
0.7
0.9
0.9
0.5
1.3
Ta
<0.01
<0.01
<0.01
0.10
<0.01
Zr
7
7
7
5
22
Hf
0.1
0.2
<0.1
<0.1
0.2
Th
0.11
0.18
0.05
0.08
0.06
U
0.36
0.32
0.25
0.19
0.53
Ni
4
12
4
13
10
Cu
7
27
4
9
13
Pb
4
<3
<3
<3
<3
Zn
21
24
5
4
19
Cd
0.3
<0.3
<0.3
0.5
0.4
Ag
<0.3
<0.3
<0.3
<0.3
<0.3
Au (ppb)
69
55
32
<2
14
As
5.5
6.3
3.5
3.8
10.8
Sb
0.72
0.96
0.48
0.48
1.04
Se
<3
<3
<3
<3
<3
Mo
<2
3
<2
10
<2
Sn
<1
<1
<1
<1
<1
W
1.2
0.7
1.0
1.4
0.9
Tl
<0.05
<0.05
<0.05
<0.05
<0.05
Bi
0.6
0.2
0.3
<0.1
0.4
In
<0.1
<0.1
<0.1
<0.1
<0.1
Ir
<5
<5
<5
<5
<5
Cs
<0.1
<0.1
<0.1
<0.1
<0.1
Rb
<1
<1
<1
<1
<1 TA B LE 1 Whole-rock analyses of jaspers from the Verde Central horizon TA B LE 1 Whole-rock analyses of jaspers from the Verde Central horizon LITTLE et al. LITTLE et al. 234 234 |
LITTLE et al. Sample No. TA B LE 1 (Continued) Figure 7 and Figure S2, the pixel size and dwell time in the EDS
element maps were 10 nm/0.03 s and 5 nm/0.05 s, respectively,
but acquired with 16 × 16 sub-pixel scanning to avoid severe
beam damage. The beam dose during STEM-EDS was 7,000 e/Å2
in Figure 7 and ca. 45,000 e/Å2 in Figure S2. The EDS maps were
processed in MATLAB using the jet color scale with matrix values
from 0 (dark blue) to 255 (dark red). EELS was performed with a
GIF Quantum ER, operated in dual-EELS mode. A 110 pA beam
current and 27 mrad semi-convergence angle were combined with
a 33 mrad collection semi-angle into the GIF. An energy dispersion
of 0.025 eV/channel gave an energy resolution of 0.50 eV as de-
termined from the full width at half maximum of the zero-loss peak
(ZLP). The energy scale of the core-loss spectra was calibrated
from the position of the ZLP in the low-loss spectra. The EEL spec-
tra in Figure S1 were acquired while the beam was quickly scanned
(512 × 512 pixels with 2 µs pixel time and 0.5 s frame time) over a
ca. 100 nm × 100 nm region, giving a fluence rate of 690 e/(Å2s). The acquisition time for the Fe L2,3 spectra was 5 s, exposing the
sample to a total beam dose of 3,430 e/Å2. The chemical shift
method (e.g., Tan et al., 2012) was used in combination with the
ratio and distance between the L3 and L2 peaks to determine the
oxidation state of Fe in poorly crystalline material. Hematite grains
identified by diffraction were used as a reference for Fe3+. Figure 7 and Figure S2, the pixel size and dwell time in the EDS
element maps were 10 nm/0.03 s and 5 nm/0.05 s, respectively,
but acquired with 16 × 16 sub-pixel scanning to avoid severe
beam damage. The beam dose during STEM-EDS was 7,000 e/Å2
in Figure 7 and ca. 45,000 e/Å2 in Figure S2. The EDS maps were
processed in MATLAB using the jet color scale with matrix values
from 0 (dark blue) to 255 (dark red). EELS was performed with a
GIF Quantum ER, operated in dual-EELS mode. A 110 pA beam
current and 27 mrad semi-convergence angle were combined with
a 33 mrad collection semi-angle into the GIF. JS-05-1
JS-05-2
JS-05-3
JS-05-3 BEK
JS-05-4
Sr
12
18
<2
3
2
Ba
10
9
9
6
6
Y
34.2
79.4
31.0
3.76
251
La
1.24
2.53
0.73
0.36
1.79
Ce
2.52
5.09
1.56
0.76
4.36
Pr
0.36
0.68
0.22
0.10
0.59
Nd
1.86
3.63
1.24
0.49
3.88
Sm
0.58
1.23
0.44
0.14
2.16
Eu
0.149
0.330
0.119
0.036
0.861
Gd
1.20
3.19
1.04
0.22
7.29
Tb
0.31
0.82
0.30
0.05
2.12
Dy
2.65
6.70
2.50
0.39
18.7
Ho
0.70
1.74
0.67
0.10
5.34
Er
2.48
6.29
2.50
0.36
20.4
Tm
0.431
1.095
0.442
0.062
3.670
Yb
3.13
8.02
3.23
0.46
26.4
Lu
0.514
1.367
0.524
0.076
4.325
La/Yb
0.396
0.315
0.226
0.787
0.068
LaSN/YbSN
0.029
0.023
0.017
0.058
0.005
Ce/Ce*
0.87
0.90
0.90
0.92
0.98
Eu/Eu*
0.84
0.78
0.83
0.97
1.02
Note: REE anomalies are calculated by shale normalization (SN) using data for average Post-Archean Australian Shale (PAAS; Taylor &
McLennan, 1985): Ce∕Ce ∗
SN = CeSN∕√(LaSN × PrSN ); Eu∕Eu ∗
SN = EuSN∕√(SmSN × GdSN ). TA B LE 1 (Continued) McLennan, 1985): Ce∕Ce ∗
SN = CeSN∕√(LaSN × PrSN ); Eu∕Eu ∗
SN = EuSN∕√(SmSN × GdSN ). 3.1 | Filament occurrence, morphologies, and
mineralogical composition Filaments in the VCJ samples occur in millimeter-scale domains
bounded by multiple cross-cutting quartz veins and areas of vari-
ably sized quartz grains with greater or lesser quantities of dissemi-
nated hematite crystals (Figure 4a-c, Figure 5a). Within the studied
samples, the area of filament-rich domains is small (<5%) relative to
the overall rock volume. The filaments within the domains are en-
closed by equigranular quartz grains 5 to 40 μm in diameter hav-
ing triple-junction and slightly curved to straight grain boundaries
(Figure 4c-f, Figure 6c); many filaments continue across grain bound-
aries (Figure 4c,f), thus demonstrating they are not grain-boundary
artifacts. In addition to the filaments, the quartz grains enclose
scattered, micrometer-scale hematite crystals with variable shapes
(Figures 4a,d and 6b). 2.6 | Comparative modern material Material from modern, low-temperature hydrothermal vent areas at
Troll Wall on Mohns Ridge, Norwegian-Greenland Sea, and on Lōʻihi
Seamount, off-shore Hawaii, was used for comparison with the VCJ
filaments (Figure 1). For collection and imaging details of the modern
material, see Pedersen et al. (2010) and Glazer and Rouxel (2009),
respectively. An energy dispersion
of 0.025 eV/channel gave an energy resolution of 0.50 eV as de-
termined from the full width at half maximum of the zero-loss peak
(ZLP). The energy scale of the core-loss spectra was calibrated
from the position of the ZLP in the low-loss spectra. The EEL spec-
tra in Figure S1 were acquired while the beam was quickly scanned
(512 × 512 pixels with 2 µs pixel time and 0.5 s frame time) over a
ca. 100 nm × 100 nm region, giving a fluence rate of 690 e/(Å2s). The acquisition time for the Fe L2,3 spectra was 5 s, exposing the
sample to a total beam dose of 3,430 e/Å2. The chemical shift
method (e.g., Tan et al., 2012) was used in combination with the
ratio and distance between the L3 and L2 peaks to determine the
oxidation state of Fe in poorly crystalline material. Hematite grains
identified by diffraction were used as a reference for Fe3+. was deposited on the surface of the target cross section prior to
FIB milling. The first part of the protection layer was deposited
by electron beam-assisted deposition to avoid ion beam damage
into the subsurface of the sample. Each lamella was transferred to
dedicated Cu half-grids for TEM by standard lift-out-technique. All
coarse thinning was performed at 30 kV acceleration voltage for
the Ga+ ions. Final thinning was first performed at 5 kV and then
2 kV acceleration voltage on either side of the lamella to minimize
surface damage. The final thickness of the FIB lamellae was ca. 100 nm. The three FIB foils were analyzed at the TEM Gemini Centre at
NTNU in Trondheim using a double Cs-corrected, cold-FEG JEOL
ARM 200F, operated at 200 kV. Prior to insertion, the samples
were gently plasma cleaned in a gas mixture of 75% Ar and 25%
O2 for 30 s to remove adventitious hydrocarbon contamination. EDS and EELS were done in scanning transmission electron mi-
croscopy (STEM) mode. EDS was performed with a 27 mrad beam
semi-convergence angle and a beam current of 380 pA. These
conditions gave a 1.4 Å spatial resolution, but on amorphous
material or on crystals away from high symmetry orientations,
the beam diameter quickly increases through the sample due to
the large convergence angle of the beam. A 100-mm2 Centurio
detector, covering a solid angle of 0.98 sr, was used for EDS. In LITTLE et al. 235 2.5 | Whole-rock geochemistry and many display irregular branching patterns and bifurcations
(Figures 4a,e,f, and 5d). The filaments are quartz-filled cylinders with walls formed of
hematite crystals as documented by TEM diffraction and Raman
spectroscopy (Figures 4d-f, 6b, and 7a; Figure S1). Thicknesses of
the walls vary but are typically less than 1 µm. In many filaments,
the hematite crystals forming the walls are so sparse that they
do not touch each other (Figure 7a). TEM of two filaments shows
the hematite crystals that form walls have a blocky shape and are
0.2 to 0.5 µm along the long axes (Figure 7b). An additional Si-
Fe phase is present in one of the cross sections (Figure 7b). This
phase displays a locally ordered microstructure but lacks long-
range crystallographic order and therefore gives a diffuse, circu-
lar diffraction pattern characteristic of poorly crystalline material
(Figure S1). Silicon content is significantly higher in the poorly
crystalline phase than in the hematite crystals, and the content of
iron is lower (Figure 7c-e). The poorly crystalline phase and the
hematite reference grains show identical chemical shifts, Fe L3/L2
ratios, and distances between L3 and L2 peaks in the EELS spectra,
thus indicating that the oxidation state of Fe in the poorly crys-
talline material is +3. There is no carbon present in the two fila-
ments investigated using TEM (Figure 7f), and we did not find the
characteristic D and G bands of the ordering of organic carbon in
our Raman investigation. However, very small amounts of carbon
occur in the third TEM section, which did not transect an obvious
filament (Figure S2). Here, the carbon is present in the interface
between larger hematite crystals and quartz and has a distinct fi-
brous habit (not shown). Five jasper samples from the Verde Central horizon (Figure 2b) were
analyzed for major, trace, and rare earth elements (REE) in a com-
mercial laboratory by fusion-based ICP-MS methods as described in
Slack et al. (2007). Details of the analytical methods, including ac-
curacy and precision, are available at www.actlabs.com. Analyses of
these five samples, which have not been reported previously, are
listed in Table 1. 3.2 | Rare earth element geochemistry Major and trace element data for the VCJ samples are similar to
those for the other jaspers analyzed from the Verde mining dis-
trict (Slack et al., 2007). However, results for REE differ signifi-
cantly in terms of abundances and especially shale-normalized
patterns (Figure 8a). Relative to jaspers from the United Verde
and Copper Chief horizons (Figure 2b), the VCJ samples dis-
play mostly higher REE abundances, with strong enrichments
particularly in the heavy rare earth elements (HREE) and con-
sequently very low ratios of light rare earth elements (LREE)
to HREE (LaSN/YbSN = 0.005–0.058; Table 1). All five analyzed
VCJ samples have very small negative or no Eu anomalies (Eu/
Eu* 0.78–1.02) using the geometric mean calculation method of
Taylor and McLennan (1985). This same method yields uniformly
small negative Ce anomalies (Ce/Ce* 0.87–0.98). However, the
scheme of Lawrence and Kamber (2006), which does not rely on
La data because of the common presence of positive La anom-
alies in marine sediments, yields uniformly small to moderate
positive Ce anomalies (1.14–1.48) but these values are likely
overestimated by as much as 20% (cf. Kamber et al., 2014). The
largest Ce anomaly of 1.48, determined using this latter scheme,
exceeds the value of 1.3 proposed by Tostevin et al. (2016) as Filament diameters vary between 0.9 and 4.7 μm (mean
2.5 μm; n = 43) in VCJ sample JS-05-1 (measured using binocu-
lar microscope) and between 2.3 and 12.4 µm in VCJ sample JS-
05-3 (based on tomographic volume renderings in Figure 5a–c). In
general, the filaments have constant diameters along their length,
apart from places where branches exist. The longest traceable
filaments are 120 μm in length (Figure 5a), although this can be
regarded as a minimum value because the longest examples cross
the plane of the petrographic thin sections. The filaments form
densely to loosely packed meshworks (Figures 4a-c and 5). In some
places, the filaments are roughly parallel to each other, forming
bundles of >10 individuals (Figure 5a,b). Individual filaments have
sinuous to curved shapes; a few are tightly coiled (Figure 5a,c). Several filaments show possible twisted shapes (Figure 4b,d), 236 | LITTLE et al. 236 236 | FI G U R E 4 Hematite filaments from
Verde Central jasper sample JS-05-1. | | FI G U R E 5 Synchrotron-based X-ray
tomographic microscopy volume (a–c)
and surface (d) renderings of hematite
filaments from Verde Central jasper
sample JS-05-3. (a) shows sharply
delimited area with dense filaments. Insets show filaments with parallel
bundles (b), with looped morphology (c),
and those with branches highlighted in
yellow in (d). White arrow E indicates the
filament from which Raman spectra were
obtained (Figure 6). For stereo anaglyph of
5c, see Figure S3. For 3-D animations of
5a,b, and d, see Video S1-S3 4 | INTERPRETATION AND DISCUSSION metamorphism. However, we emphasize that the lack of carbon in the
studied VCJ filaments does not preclude a biological origin, because
the stalks and sheaths produced by modern Zetaproteobacteria con-
tain little organic carbon (<1 wt% TOC; Bennett et al., 2014; Laufer
et al., 2017). Further, the cells that create the stalks and sheaths are
only loosely attached to these structures and can become easily
detached from them, with consequent carbon loss. In addition, any
carbon originally present in the VCJ protolith could have been mobi-
lized later, by dissimilatory Fe reduction (Emerson, 2009), or during
diagenesis/low-grade metamorphism (Johannessen et al., 2020). 3.2 | Rare earth element geochemistry (a-c) Photomicrographs in plane-polarized
light of branching (white arrow in A) and
putative twisted filaments (white arrow
in b); insets in (c) show detailed areas
(e,f). (d-f) Scanning electron microscope-
backscattered electron (SEM-BSE) images
of filaments, showing branching (black
arrows in e,f) and putative twisted (black
arrow in d) forms. White arrows in (d)
and (e) show filaments in transverse
section. (c) and (f) show a filament that
transgresses quartz grain boundaries
(c,f) FI G U R E 4 Hematite filaments from
Verde Central jasper sample JS-05-1. abundances, low LREE/HREE ratios, and small to moderate negative
Eu anomalies (Figure 8b). a minimum to define true positive Ce anomalies, but the use of
this scheme is questionable because it relies on a linear projec-
tion of Sm-Nd-Pr to Ce, which is not applicable to the VCJ sam-
ples that display highly curved trends for PAAS-normalized LREE
(Figure 8a). We therefore take a conservative approach and sug-
gest that the five VCJ samples lack significant Ce anomalies, ei-
ther negative or positive. REE data for representative examples of modern Fe-Si oxyhy-
droxide deposits show a large range in abundances and LREE/HREE
ratios, with small negative Ce anomalies and small to moderate pos-
itive Eu anomalies (Figure 8c). However, none of these modern Fe-Si
samples has the extremely low LREE/HREE ratios that characterize
the VCJ samples. In terms of modern fluids, only waters from Mono
Lake in California display a similar LREE/HREE ratio with relatively
flat HREE abundances; typical seawater and some modern, low-Fe
marine pore fluids have slightly higher ratios (Figure 8d). Importantly,
fluids from modern submarine-hydrothermal vents also differ greatly
in having large positive Eu anomalies that reflect reduced, high-
temperature (>300°C) conditions (e.g., Mills & Elderfield, 1995). In contrast, jaspers from the United Verde and Copper Chief
horizons (e.g., JS-05-37, JS-05-39) have either no, or small positive or
negative, Ce anomalies and small to moderate positive Eu anomalies. Low-silica iron formation samples in the district (lower Grapevine
Gulch Formation; Figure 2b) show higher REE abundances,
higher LREE/HREE ratios, and small positive Ce and Eu anomalies
(Figure 8a). For comparison, the rhyolitic host rocks display high REE 237 LITTLE et al. 4.1 | Biogenicity of VCJ filaments The VCJ filaments conform to the majority of established biogenic-
ity criteria for documenting Precambrian microfossils (Buick, 1990;
Cady et al., 2003). These criteria include the following: (a) being
intrinsic to the rock and pre-dating quartz crystallization (probably
from an original silica gel; see Grenne & Slack, 2003) and subsequent
quartz veining; (b) having a narrow range of diameters that generally
do not vary longitudinally, and that are within the size range of mod-
ern micro-organisms; (c) co-existing with other filaments of similar
morphology; and (d) occurring in a paleoenvironment analogous to
those where bacteria grow today (see below). The only biogenicity
criterion of Buick (1990) not satisfied by the VCJ filaments is their
apparent lack of organic matter (e.g., kerogen). The weak EDS carbon
signal we found in one of the FIB-TEM sections (Figure S2) is not
spatially associated with a well-defined filament, and its origin could
have several explanations, including being contemporaneous to fila-
ment formation, or a later contamination related to diagenesis or An alternative explanation for the formation of the VCJ fila-
ments is that they are “biomorphs,” that is, abiogenic features
that resemble biological structures (e.g., Garcia-Ruiz et al., 2009). In laboratory experiments, McMahon (2019) was able to grow
filamentous tubular structures formed of Fe-(oxyhydr)oxides
and amorphous hydrated Fe-Si phases, from polycrystalline fer-
rous sulfate granules placed into aqueous solutions of sodium
silicate or sodium carbonate at ambient temperature and pres-
sure. The tubes were of the same scale as the VCJ filaments in
terms of diameters, and had some of the same morphologies, LITTLE et al. LITTLE et al. 238 FI G U R E 6 Raman spectra and light microscope images of
filament area indicated in Figure 5a. Yellow spots indicate where
laser beam was focused for analysis. (a) Hematite spectrum of
filament mixed with a peak at 464 cm−1 from surrounding quartz. (b)
Hematite spectrum of filament. (c) Quartz spectrum of surrounding
mineralogy. Photomicrographs are in transmitted light (a and b), and
reflected light (b) Johannessen et al. (2020, figure 9) listed five criteria for the identi-
fication of biosignatures for Fe-oxidizing bacteria in modern, silici-
fied, low-temperature hydrothermal deposits. 4.1 | Biogenicity of VCJ filaments The VCJ filaments
pass biosignature criteria 3, 4, and 5, because they show sequential
bifurcation rather than nodes with multiple branches (criterion 3),
have semi-parallel filamentous textures rather than highly direc-
tional radial textures (criterion 4), and show dendritic and radial fil-
amentous textures rather than banded dendrites (criterion 5). The
VCJ filaments also pass one of the two biosignature criteria for fil-
ament construction (criterion 2), in that they are not hollow silica
tubes, although the VCJ filaments do have greater diameters than
the biogenic filaments of criterion 2. Criterion 1 of Johannessen
et al. (2020) is that Fe-oxidizing bacterial filaments have solid cores,
whereas abiotic filaments have cores formed of separate spherules. The VCJ filaments lack solid cores, but instead have walls formed
of isolated hematite crystals (Figure 7). This discrepancy can be
explained by the biogenic filaments in criterion 1 of Johannessen
et al. (2020) representing zetaproteobacterial stalks, rather than ze-
taproteobacterial tubes, which have hollow cores and walls formed
of iron oxyhydroxides (see Johannessen et al., 2020, figure S3E,F,
and Li et al., 2012, figure 3). For these reasons and those given
above, we interpret the VCJ filaments as having a biological rather
than an abiogenic origin. 4.2 | VCJ filaments as FeOB Using the Uniformitarian principle, the obvious organisms with
which to compare the VCJ filaments are Zetaproteobacteria
FeOB from modern, deep-marine, low-temperature hydrother-
mal vents (Figure 1). Many similarities exist in terms of size and
morphology, with filaments forming mesh-like networks (compare
Figure 1a,b with Figures 4a,b and 5a), occurring in parallel (compare
Figure 1a with Figure 5a,b), and having regular branches (compare
Figure 1c,e and Figures 4a,e,f, and 5d). The diameters of the thin-
nest VCJ filaments in sample JS-05-1 are within the range of modern
Zetaproteobacteria (Figure 1), but the thickest filaments in sample
JS-05-3 are around three times as wide. It is possible that a few of
the VCJ filaments are twisted (Figure 4b,d), like Mariprofundus stalks
(Figure 1f), although this is unclear in our samples. Because most
of the VCJ filaments are cylindrical, they were probably originally
not Mariprofundus-like stalks, but rather branching tubular struc-
tures, similar to those shown in Figure 1c,e. The comparison with
modern FeOB allows us to infer a preservational (i.e., taphonomic)
pathway to explain the morphology and mineralogy of the VCJ fila-
ments, and also the metabolism of the micro-organisms that formed
them, which has paleoenvironmental implications. We suggest that
the VCJ filaments were formed by cells that oxidized reduced iron
from vent fluids as an energy source, with iron oxyhydroxides being
a product from this reaction. The cells precipitated the resultant iron
oxyhydroxides as tubular structures, rather than having minerals
forming on the cell surfaces. The VCJ cells would have undergone
division at regular intervals to form branched tubes (see Emerson FI G U R E 6 Raman spectra and light microscope images of
filament area indicated in Figure 5a. Yellow spots indicate where
laser beam was focused for analysis. (a) Hematite spectrum of
filament mixed with a peak at 464 cm−1 from surrounding quartz. (b)
Hematite spectrum of filament. (c) Quartz spectrum of surrounding
mineralogy. Photomicrographs are in transmitted light (a and b), and
reflected light (b) FI G U R E 6 Raman spectra and light microscope images of
filament area indicated in Figure 5a. Yellow spots indicate where
laser beam was focused for analysis. (a) Hematite spectrum of
filament mixed with a peak at 464 cm−1 from surrounding quartz. (b)
Hematite spectrum of filament. (c) Quartz spectrum of surrounding
mineralogy. | 239
LE et al. U R E 7 Focused ion beam-
smission electron microscopy images
ematite filament from Verde Central
er sample JS-05-3. (a) SEM-BSE image
nalyzed filament; inset shows area
m which FIB foil was recovered. (b)
htfield STEM image of FIB foil from
X marks poorly crystalline grain. (c-f)
maps of B: (c) Fe Kɑ, (d) O Kɑ, (e) Si
(f) C Kɑ | 239 FI G U R E 7 Focused ion beam-
transmission electron microscopy images
of hematite filament from Verde Central
jasper sample JS-05-3. (a) SEM-BSE image
of analyzed filament; inset shows area
from which FIB foil was recovered. (b)
Brightfield STEM image of FIB foil from
(a); X marks poorly crystalline grain. (c-f)
EDS maps of B: (c) Fe Kɑ, (d) O Kɑ, (e) Si
Kɑ, (f) C Kɑ Figure 1d), helping to preserve delicate structures from mechanical
degradation (Grenne & Slack, 2003; Hein et al., 2008; Johannessen
et al., 2020; Toner et al., 2012). Later, during diagenesis, the iron
oxyhydroxides on the tubes and surrounding matrix would have
matured to hematite and the amorphous silica to quartz, forming
the studied jasper rock. This model is supported by experimental
diagenesis of modern FeOB stalks at 170°C and 120 MPa, which
transforms ferrihydrite to hematite and magnetite, and maintains
morphologies at even higher temperatures (250°C) and pressures
(140 MPa) (Picard et al., 2015), and also by the presence of hematitic
filaments in modern Fe-oxide-Si mounds that precipitated from flu-
ids at ≥115°C (Hein et al., 2008). Subsequent tectonic and regional
metamorphic events would have caused multiple episode of quartz
recrystallization and quartz veining in the jasper, leaving only small
domains with preserved filaments, consistent with our observations. et al., 2017), eventually producing bush-like structures, together ap-
pearing as complex meshes. In our model, the cells were growing on
the seafloor in mat-like structures, rather than as flocs within buoy-
ant hydrothermal plumes (Slack et al., 2007). Modern marine mi-
croaerobic, Fe-oxidizing Zetaproteobacteria can occur in the water
column, but the described planktonic strains Mariprofundus aestu-
arium and M. ferrinatatus excrete dreadlock-like bundles of poorly
crystalline iron oxyhydroxide rods that are significantly shorter and
weigh less than the extracellular stalks and sheaths produced by
M. ferrooxydans and other benthic relatives, and in modern seawater
do not accumulate in filamentous microbial mats (Chiu et al., 2017). FI G U R E 7 Focused ion beam-
transmission electron microscopy images
of hematite filament from Verde Central
jasper sample JS-05-3. (a) SEM-BSE image
of analyzed filament; inset shows area
from which FIB foil was recovered. (b)
Brightfield STEM image of FIB foil from
(a); X marks poorly crystalline grain. (c-f)
EDS maps of B: (c) Fe Kɑ, (d) O Kɑ, (e) Si
Kɑ, (f) C Kɑ 4.2 | VCJ filaments as FeOB Photomicrographs are in transmitted light (a and b), and
reflected light (b) FI G U R E 6 Raman spectra and light microscope images of
filament area indicated in Figure 5a. Yellow spots indicate where
laser beam was focused for analysis. (a) Hematite spectrum of
filament mixed with a peak at 464 cm−1 from surrounding quartz. (b)
Hematite spectrum of filament. (c) Quartz spectrum of surrounding
mineralogy. Photomicrographs are in transmitted light (a and b), and
reflected light (b) including both straight and strongly curved shapes, and true (non-
crystallographic) branching structures. However, there are quite
a few differences between the McMahon biomorphs and the VCJ
filaments; in particular, the latter commonly form parallel bundles
and lack tapering terminations, and do not originate at seed crys-
tal “knobs”. The most obvious difference is that many of the VCJ
filaments have walls formed of isolated hematite crystals, and thus
cannot be “crystal garden” structures formed of minerals growing
on pre-existing minerals. In contrast, all of the biomorphs grown
by McMahon (2019) have contiguous mineral walls. In modern low-temperature marine FeOB mats and Fe-oxide
deposits, a wide variety of filamentous and dendritic structures
are present (e.g., Hopkinson et al., 1998; Johannessen et al., 2020),
which are also seen in Phanerozoic jaspers (e.g., Little et al., 2004). LITTLE et al. 239 Further, genomic studies of microbial communities from modern
hydrothermal vent plumes have not found Zetaproteobacteria or
genes for iron oxidation, but rather show sulfur oxidation is the
most important biogeochemical process occurring (Anantharaman
et al., 2016). At the VCJ site, iron-rich hydrothermal activity may then
have waned and the VCJ cells actively swam away from or dropped
off the mineralized tubes, with consequent loss of organic carbon
from the VCJ microbial mats. Silica would then have precipitated as
an amorphous phase within and around the mineralized tubes (as in Some (if not all) of the hematitic microfossils in the older, ca. 1.88 Ga Gunflint Iron Formation had ferrous iron-rich mineral inter-
mediates such as greenalite, siderite, and pyrite (Lepot et al., 2017;
Shapiro & Konhauser, 2015; Wacey et al., 2013). In this case, the fer-
rous intermediates could have formed from the diagenetic reduction 240 |
LITTLE et al. FI G U R E 8 Shale-normalized REE plots. (a) Paleoproterozoic jasper and iron formation from Verde mining district; note positive Eu
anomalies for jasper samples JS-05-37 and JS-05-039. Data from Slack et al. (2007, Table S1; and Table 1). (b) Paleoproterozoic volcanic
rocks from Verde district (see Figure 2b for stratigraphic positions); data from Slack et al. (2007, Table S1). (c) Modern Si-Fe seafloor-
hydrothermal sediments; Endeavor data from Bao et al. (2008); Blanco Fracture Zone data from Hein et al. (2008); Loihi data from Edwards
et al. (2011, Table S1); Jan Mayen data from Johannessen et al. (2017). (d) Modern waters; seawater data from Byrne and Sholkovitz
(1996); Low-Fe marine pore fluid data from Haley et al. (2004); TAG data from Mills and Elderfield (1995); Manus Basin data from Douville
et al. (1999); Mono Lake data from Johannesson and Lyons (1994). Shale normalization based on average Post-Archean Australian Shale
(PAAS; Taylor & McLennan, 1985) LITTLE et al. LITTLE et al. 240 240 | FI G U R E 8 Shale-normalized REE plots. (a) Paleoproterozoic jasper and iron formation from Verde mining district; note positive Eu
anomalies for jasper samples JS-05-37 and JS-05-039. Data from Slack et al. (2007, Table S1; and Table 1). (b) Paleoproterozoic volcanic
rocks from Verde district (see Figure 2b for stratigraphic positions); data from Slack et al. (2007, Table S1). (c) Modern Si-Fe seafloor-
hydrothermal sediments; Endeavor data from Bao et al. (2008); Blanco Fracture Zone data from Hein et al. Based on these morphological comparisons and paleoenviron-
mental arguments, we suggest that the VCJ filaments represent
fossilized FeOB and that these FeOB could well have been microaer-
obic, living on the deep seafloor of an intraoceanic island arc in the
mixing zone of Fe-rich, sulfide-poor, low-temperature, slightly acidic
(see section 4.4) vent fluid and weakly oxygenated seawater. By their
metabolic activity, these FeOB formed a percentage of the Fe pre-
cipitation that created the VCJ jasper units, together with abiogenic
Fe precipitation from the vent fluid and distal fallout from a non-
buoyant hydrothermal plume (see Slack et al., 2007). Filamentous microstructures within intertidal to shallow
subtidal ooidal and stromatolitic ironstones from the terminal
Paleoproterozoic (ca. 1.65 to 1.64 Ga) Chuanlinggou Formation
of North China have been interpreted as fossil FeOB by Lin
et al. (2019). The filaments are spatially associated with silicified he-
matitic ooids and display a range of sizes (0.3–6.8 μm in diameter
and up to 100 μm in length) and morphologies, including hematite-
lined sheaths, some of which are twisted along their lengths. Unlike
the VCJ filaments, the Chuanlinggou Formation microfossils do not
branch and do form mat-like structures. Another shallow-water po-
tential FeOB occurrence is in phosphatic stromatolites from the ca. 1.7 Ga Jhamarkotra Formation, India (Crosby et al. 2014). Here, mi-
crofossils are hosted by an apatite matrix and comprise bundles of
subparallel filaments and filaments with radial growth patterns. The
filaments are 100s of micrometers in length, and ca. 5 to 6 μm in
diameter with a central space (lumen) ca. 1 to 1.5 μm in diameter,
which locally show a twisted pattern. Some of the filaments display
branching patterns and knobs. The filament walls are formed of a
solid layer of goethite, and traces of kerogen occur in the lumens
of some specimens. These Jhamarkotra Formation microfossils are
quite convincing as being fossil FeOB. Fadel et al. (2017) interpreted
three morphologies of carbonaceous microfossils associated with
siderite and Fe-silicates as being potential iron-oxidizing bacteria
from the ca. 2.45–2.43 Ga Turee Creek Group, Western Australia
(Bekker et al., 2020). wide that link to others via filaments 0.3 μm in diameter. The cells
reproduce by budding along the filaments, which typically branch,
leading to the formation of mesh-like colonies. Chi Fru et al. (2013)
found fossilized examples of what could be this organism in early
Quaternary banded jaspers that formed from hydrothermal vents in
a restricted, shallow marine basin in Milos, Greece. The VCJ filaments
share some of the features with the Milos structures, having elon-
gated hematitic forms of roughly the same size, which have branches
and form complex meshes. However, the VCJ filaments lack evidence
of former cells occurring between linking filaments, hence are not the
same as the Milos structures or colonies of Rhodomicrobium vanielii. Another more fundamental issue for comparing anoxygenic or oxy-
genic photoferrotrophic micro-organisms with the VCJ filaments is
that the latter formed in deep water, far below the photic zone. This
constraint also precludes other explanations for the origin of the VCJ
filaments, such as passive Fe-oxide precipitation in or on phototro-
phic organisms like cyanobacteria, as has been suggested for some of
the microfossils (e.g., Gunflintia) in the Gunflint Iron Formation (Lepot
et al., 2017; Shapiro & Konhauser, 2015). potential FeOB microfossils, all but one of which are from demon-
strably shallow-water settings. These include the well-known he-
matitic microfossils belonging to the Paleoproterozoic Gunflint biota
(see review in Javaux & Lepot, 2018). When these were first de-
scribed from stromatolites in the Gunflint Iron Formation in Canada
(Barghoorn & Tyler, 1965; Cloud, 1965), some of the microfossil mor-
phologies were noted to be similar in size and shape to freshwater
FeOB, such as the sheath-forming Leptothrix and the twisted, stalk-
forming Gallionella (Barghoorn & Tyler, 1965; Cloud, 1965). In sub-
sequent reports, authors tended to discount these earlier potential
FeOB identifications and assign all Gunflint microfossils to various
groups of cyanobacteria (e.g., Awramik & Barghoorn, 1977), an in-
terpretation supported more recently by detailed studies of the typi-
cal Gunflint microfossils Gunflintia and Huroniospora by Shapiro and
Konhauser (2015) and Lepot et al. (2017). However, based on iron
isotope composition and REE patterns in the Gunflint and Biwabik
Iron formations, Planavsky et al. (2009) resurrected the potential link
between Gunflint Iron Formation microfossils and FeOB, although
recent studies have shown that cyanobacteria can produce similar
iron isotope fractionations (Mulholland et al., 2015). These microfossils come from a black chert nod-
ule within the lower siliciclastic-dolostone member of the Kungarra
Formation that contains four upward-shallowing depositional se-
quences with basal mudrocks overlain by fine-grained sandstones
and dolostones deposited in a lower part of prodelta and off-shore
to slope settings at the base and inner shelf to supratidal environ-
ments at the top (Barlow et al., 2016; Bekker et al., 2020). The micro-
fossils display a filamentous morphology and are formed of variably
preserved sheaths of kerogen, with lengths of 100s of micrometers Because of the morphological similarities between the VCJ fila-
ments and FeOB from modern marine hydrothermal vent settings,
it is tempting to suggest that the VCJ filaments were formed by
Zetaproteobacteria and that they could thus act as a calibration point
for molecular phylogenetic studies of micro-organisms (e.g., Betts
et al., 2018). However, there are several reasons to be cautious in mak-
ing this link. First, members of both marine Zetaproteobacteria and
freshwater Betaproteobacteria produce very similar structures in iron-
rich reducing habitats (compare twisted stalks of marine Mariprofundus
and freshwater Gallionella, and non-branching sheaths of marine
“veil-like mat” Zetaproteobacteria and freshwater Leptothrix; Fleming
et al., 2013; Chan, Emerson, et al., 2016) and both Zetaproteobacteria
and Betaproteobacteria occur in marine “iron mats” (Vander Roost
et al., 2018). Second, there is likely to have been significant evolution-
ary changes in FeOB over the past 1.74 billion years, so the compar-
isons presented here between the VCJ filaments and modern FeOB
point to analogues rather than phylogenetic proximity. (2008); Loihi data from Edwards
et al. (2011, Table S1); Jan Mayen data from Johannessen et al. (2017). (d) Modern waters; seawater data from Byrne and Sholkovitz
(1996); Low-Fe marine pore fluid data from Haley et al. (2004); TAG data from Mills and Elderfield (1995); Manus Basin data from Douville
et al. (1999); Mono Lake data from Johannesson and Lyons (1994). Shale normalization based on average Post-Archean Australian Shale
(PAAS; Taylor & McLennan, 1985) in ferric biominerals (Fadel et al., 2017; Lepot et al., 2017) before a late
oxidation event returned them to their ferric state (Lepot et al., 2017;
Shapiro & Konhauser, 2015). This mineralogical pathway is very un-
likely for the VCJ filaments. Firstly, in contrast to the Gunflint Iron
Formation studies, our detailed investigation of the VCJ filaments
shows no clear indication of a ferrous mineral phase precursor. The
Fe-Si-O mineral seen in one FIB section (Figure 7) may have formed
by the weathering of such a ferrous mineral, or possibly the reduction
in ferric biominerals, or even analytical beam damage. Moreover, the
presence of rip-up clasts of jasper in tuffaceous sedimentary rocks in
the sequence, where hematitic jasper clasts occur in a hematite-free
tuff matrix (Figure 3c,d), demonstrates that formation of hematite
(or a ferric oxyhydroxide precursor) occurred prior to diagenesis and
greenschist-facies metamorphism, thus providing strong evidence
against the oxidation within the enclosing tuffs by late oxidizing flu-
ids. In addition, the likely transformation in the jasper precursor of amorphous silica to chalcedony during early diagenesis (see Grenne
& Slack, 2003) would make this highly siliceous rock more resistant
to later oxidation than the more permeable lapilli tuff. As well as the microaerobic FeOB, other modern micro-organisms
use iron oxidation in their metabolic pathways, including freshwater
microaerobic Betaproteobacteria, such as the stalk-forming Gallionella
spp. and sheath-forming Leptothrix spp., acidophilic Actinobacteria
and Archaea, phototrophic Alphabacteria, and bacteria belonging to
a wide range of phylogenetic groups that are nitrate-dependent (e.g.,
Chan, Emerson, et al., 2016). However, in the marine realm, only a
few of these produce filamentous structures that can be compared
to the VCJ filaments and thus considered as potential alternative
candidates for their origin. One of these microbes is the BS-1 strain
of the purple, non-sulfur, alphaproteobacterium Rhodomicrobium
vanielii, which is an anoxygenic photoferrotroph (e.g., Heising &
Schink, 1998). This bacterium has oval cells ca. 2 μm long and 1.5 μm 241 LITTLE et al. volcanic-dominated settings are characterized by low-pH values in
the range of 2.0 to 5.8 (e.g., Hannington, 2014). and diameters of 5 to 7.5 µm (Type 2) and >3 µm (Type 3). The fila-
ments have relatively constant diameters along their lengths and do
not show any branching patterns. It is this character, together with
the presence of kerogen, that distinguishes the Turee Creek Group
microfossils from the VCJ filaments. The REE patterns of some low-Fe marine pore fluids, excluding
the large negative Ce anomaly, are broadly similar to those of the
VC jaspers (Haley et al., 2004; Figure 8d). However, possible depo-
sition of the VC jaspers from low-Fe fluids is rejected because these
jaspers are relatively Fe-rich (Table 1), and assuming that the REEs
precipitated with precursor iron oxyhydroxides as in modern ana-
logues, the parent fluids would have had high, not low, iron contents. Development of the high HREE contents and very low LREE/HREE
ratios by post-depositional alteration is also considered unlikely, be-
cause of the lack of supporting textural or mineralogical evidence for
such alteration in either wall rocks or the jaspers and because of the
typical low mobility of REEs during alteration of this type (Bau, 1991,
1993). Hallberg and Broman (2018) reported microstructures from lami-
nated carbonaceous shales in the Neoarchean (ca. 2.63 Ga) Jeerinah
Formation, Australia, as representing fossil FeOB. The microstruc-
tures are lath-shaped with some twists, ca. 2 to 4 μm across and
up 20 μm long. They are formed of carbonaceous material and have
low-Fe contents (max 8.1 wt%), so differ substantially in terms of
mineralogy (and morphology) from the hematite-rich VCJ filaments,
and indeed from other putative fossil FeOB. The oldest potential
FeOB reported from the geological record are the microstructures in
jaspers from the Eoarchean (minimum age 3.77 Ga, possibly 4.28 Ga)
Nuvvuagittuq supracrustal belt (NSB), Canada (Dodd et al., 2017). These jaspers occur between sequences of variably altered tholeiitic
and calc-alkaline metabasalt, locally with pillow lavas, and so formed
at the same stage of volcanic evolution, most likely in a seafloor
hydrothermal setting. The microstructures in the jaspers comprise
filaments formed of hematite that are between 2 and 14 μm in di-
ameter and up to 500 μm in length. Some of the filaments exhibit
loose coils, some are branched, and some form twisted plates of
hematite around a core that radiate from terminal knobs. Some of
the hematite filaments occur within straight, quartz-filled cylindrical
tubes 16 to 30 μm in diameter and 80 to 400 μm in length, with
walls composed of dense, nanoscale hematite grains. Whereas some
similarities exist between the VCJ and NSB filaments, there are also
differences, including the lack of quartz-filled tubes in the VCJ sam-
ples and the fact that the NSB filaments do not form meshworks. Our preferred model involves the deposition of primary silica
iron oxyhydroxides from low-temperature and slightly acidic fluids. This model is linked to the experimental study of Liu et al. (2017)
on differential sorption of REE to iron oxyhydroxides, which demon-
strated that LREE versus HREE adsorption depends strongly on pH;
a near-neutral to slightly alkaline fluid like normal seawater leads to
little or no LREE/HREE fractionation, whereas a moderately acidic
fluid with a pH of 5 to 6 will yield far lower LREE/HREE ratios in
the precipitates. These data show that fluids spanning pH values of
0 to 3 units below that of normal modern seawater (pH = 7.8) can
effectively produce a range of LREE/HREE ratios in iron oxyhydrox-
ide similar to those observed for the VCJ samples, and also like the
LREE/HREE range from VC jaspers to other Verde district jaspers
as well as to modern Fe-Si precipitates (Figure 8a,c). Importantly,
given the lack of definitive Ce anomalies in the VCJ samples, our
REE data show very limited impact of redox processes on Ce and are
thus inconsistent with precipitation of iron oxyhydroxides above the
redoxcline via Fe oxidation. However, iron cannot be oxidized non-
biologically below the redoxcline (e.g., Lewis & Landing, 1991), and
our estimate of >500 m for a minimum water depth puts this deposi-
tional site well below the photic zone. The only process known to ox-
idize iron below the photic zone and redoxcline is by microaerophilic
bacteria, in agreement with our interpretations of a biological origin
for the hematitic filaments in the VC jaspers. 4.3 | Other potential Precambrian FeOB
occurrences In addition to the VCJ filaments, a number of other Precambrian oc-
currences of filamentous microstructures have been identified as 242 LITTLE et al. 4.4 | REE constraints on local fluid chemistry At some distance from the continental margin with
associated ferruginous and euxinic conditions, we show the Jerome arc and associated hydrothermal activity being influenced by weakly
oxygenated seawater, either downwelling from surface waters or upwelling from deeper waters driven by thermohaline circulation. The
presence of the continental margin and back-arc basin is speculative. VC VMS, Verde Central volcanogenic massive sulfide LITTLE et al. | 243
LITTLE et al. FI G U R E 9 Paleoceanographic redox model for the Jerome area volcanic arc. At some distance from the continental margin with
associated ferruginous and euxinic conditions, we show the Jerome arc and associated hydrothermal activity being influenced by weakly
oxygenated seawater, either downwelling from surface waters or upwelling from deeper waters driven by thermohaline circulation. The
presence of the continental margin and back-arc basin is speculative. VC VMS, Verde Central volcanogenic massive sulfide 243 FI G U R E 9 Paleoceanographic redox model for the Jerome area volcanic arc. At some distance from the continental margin with
associated ferruginous and euxinic conditions, we show the Jerome arc and associated hydrothermal activity being influenced by weakly
oxygenated seawater, either downwelling from surface waters or upwelling from deeper waters driven by thermohaline circulation. The
presence of the continental margin and back-arc basin is speculative. VC VMS, Verde Central volcanogenic massive sulfide from 292 m depth in the Cariaco Basin that contains ca. 1 μM O2
and lacks a Ce anomaly (Ce/Ce*PAAS = 0.98; calculated from data in
De Baar et al., 1988). Formation of this redox state in deep 1.74 Ga
seawater around the Jerome volcanic arc may have involved diffu-
sion downwards of oxygenated surface waters, perhaps facilitated
by the oceanographic situation analogous to modern seamounts,
where both upwelling and downwelling can develop (e.g., Read &
Pollard, 2017), and/or upwelling of variably oxygenated deep water
driven by thermohaline circulation (Figure 9). The latter scenario is
preferred here, based on patterns in the modern ocean where such
oxygenated deep water transits the bases of major volcanic arcs in
the South Pacific including the Kermadec Arc (e.g., Broecker, 2010). low-temperature hydrothermal vents that maintained relatively low,
but variable, pH values during precipitation of iron oxyhydroxide
phases. 4.4 | REE constraints on local fluid chemistry The distinctive shale-normalized REE patterns of the VC jasper sam-
ples have extremely low LREE/HREE ratios in most cases (Figure 8a)
and are very different from those typical of modern Fe-Si deposits
(Figure 8c). In natural fluids, such very low LREE/HREE ratios are
rare and are apparently limited to highly alkaline waters in restricted
lakes such as Mono Lake in California (Johannesson & Lyons, 1994;
Figure 8d) and Lake Van in Turkey (Möller & Bau, 1993). However,
we consider it unlikely that the VC jaspers formed from such high-pH
(>9) fluids. Firstly, a model whereby the REE content of the jasper
protoliths was controlled by alkaline ambient seawater can be ruled
out based on the large variation in LREE/HREE ratios shown by the
jaspers at this particular stratigraphic level. Second, a model involv-
ing precipitation from alkaline seafloor-hydrothermal fluids would
require serpentinization of underlying ultramafic rocks within the
hydrothermal convection system as occur in modern systems (e.g.,
Kelley et al., 2005; Palandri & Reed, 2004), but ultramafic rocks are
absent in the Paleoproterozoic rhyolite to basalt sequence of the
Verde district (Lindberg, 2008). Importantly, excluding such uncom-
mon ultramafic settings, modern seafloor-hydrothermal fluids in The other jasper units in the Verde district, occurring at differ-
ent stratigraphic levels, have very different REE patterns and greater
lateral continuity (Figure 2b) and likely formed by plume fallout as
suggested by Slack et al. (2007). This model is problematic for the
VC jaspers, however, owing to the major dilution of hydrothermal
fluids in plumes that occurs during venting and mixing with seawater. Such rapid mixing results instantly in a rise in pH to ambient sea-
water values within the plume (see Grenne & Slack, 2005), which
conflicts with the variably low pH need to produce the distinctive
REE patterns of the VC jaspers. The lack of positive Eu anomalies
in these jasper samples (Figure 8a) also argues against formation
from high-temperature fluids. Consequently, we propose that the
jasper samples from the Verde Central horizon, and their contained
microbial remains, formed not by plume fallout but from isolated, | 24
LITTLE et al. FI G U R E 9 Paleoceanographic redox model for the Jerome area volcanic arc. 4.4 | REE constraints on local fluid chemistry The hydrothermal fluids with low pH (5–6), indicated by
very low LREE/HREE ratios in deposited iron oxyhydroxide phases
(Liu et al., 2017), may have been involved in deposition of these
phases within microbial mats having amorphous silica caps (see Sun
et al., 2015; Zeng et al., 2012) that reduced dilution by ambient sea-
water. This interpretation is supported by low-pH values of 1.4 to 5.8
measured in some modern low-temperature hydrothermal systems,
including within pore waters of actively forming iron oxyhydroxide
deposits (Rouxel et al., 2018; Seewald et al., 2015). Such low-pH flu-
ids likely formed in concert with a major component of magmatic
fluid (Douville et al., 1999; Seewald et al., 2015). We suggest that the Fe-Si protoliths of the VC jaspers formed at
a minimum water depth of 500 m based on the Cu-rich nature of the
ores, and a maximum depth of ~2,000 m based on the typically deep-
est examples of VMS-style hydrothermal activity known in modern
volcanic arcs (Baker, 2017; de Ronde et al., 2003). This modern ac-
tivity includes sites in the Kermadec Arc at Brothers and Giggenbach
volcanoes, which contain Fe-Si deposits compositionally like the VC
jaspers and in the latter area filamentous microbial remains (Jones
et al., 2008; de Ronde et al., 2005). 4.5 | Implications for Paleoproterozoic ocean
redox and iron oxyhydroxide deposition Our interpretation of the VCJ filaments as microaerobic FeOB (if
correct) implies that some deep waters in the late Paleoproterozoic
oceans were not anoxic, but rather weakly oxygenated, thus sup-
porting the suboxic model of Slack et al. (2007). We speculate that
the concentration of dissolved oxygen in the VCJ FeOB mats could
have been between 3 and 30 μM, with the lower limit from condi-
tions for experimental growth of Mariprofundus ferrooxydans (Krepski
et al., 2013) and the upper limit from maximum O2 values measured
within FeOB mats on Loihi Seamount (Glazer & Rouxel, 2009; Scott
et al., 2017). This would imply equivalent, or perhaps even higher, O2
concentrations in the seawater overlying the mats. A minimum O2
concentration of 3 μM for growth of FeOB mats is consistent with
REE data for the modern Cariaco Basin, where a concentration spike
in particulate iron (reflecting one or more Fe3+ phases) at the redox-
cline, at 280 m water depth, coincides with water samples having ca. 2 μM O2 and 0 μM H2S (De Baar et al., 1988). The lack of negative Ce
anomalies and Mn-enrichment in the VMS-related Verde Central as
well as other Verde district jaspers (Slack et al., 2007) is consistent
with these suggested oxygen levels, including for the water sample Our proposal that weakly oxygenated deep waters existed
around the Jerome volcanic arc is also consistent with anoxia
(both euxinic and ferruginous conditions) occurring on contem-
poraneous continental margins, because such margins are where
the greatest flux of nutrients via riverine run-off and upwelling
would have existed, leading to increased primary productiv-
ity and thus oxygen depletion (Figure 9). It is important to em-
phasize that it is not known whether the mid-Proterozoic deep
ocean was persistently and pervasively anoxic. Importantly, all
existing geochemical proxies for extensive anoxia and euxinia in
the mid-Proterozoic deep oceans do not require that redox state
(e.g., Asael et al., 2018; Partin et al., 2013; Reinhard et al., 2013;
Scott et al., 2008; Sheen et al., 2018). The deep ocean is not
highly productive now and hence is not expected to have been
highly productive in the mid-Proterozoic, and thus, it played an
insignificant role in the burial of organic matter and consequently 244 LITTLE et al. Switzerland, for provision of synchrotron radiation beamtime at the
TOMCAT beamline X02DA of the SLS and thank Federica Marone
for assistance. ORCID Crispin T. S. Little
https://orcid.org/0000-0002-1917-4460
Karen C. Johannessen
https://orcid.org/0000-0001-8790-8123
Stefan Bengtson
https://orcid.org/0000-0003-0206-5791
Clara S. Chan
https://orcid.org/0000-0003-1810-4994
John F. Slack
https://orcid.org/0000-0001-6600-3130
Ingunn H. Thorseth
https://orcid.org/0000-0003-3432-6968
Tor Grenne
https://orcid.org/0000-0003-1193-4127
Olivier J. Rouxel
https://orcid.org/0000-0002-1431-222X
Andrey Bekker
https://orcid.org/0000-0002-1154-0585 Our finding of weakly oxygenated deep seawater in the late
Paleoproterozoic may have implications for eukaryotic evolution,
because at least during some time periods in the Proterozoic, oxy-
gen was not confined to surface waters, and thus, a larger potentially
habitable realm existed for these organisms, relative to that proposed
in previous models (e.g., Martin et al., 2003). We further note that
deep-water (≥500 m) jasper and oxide-facies iron formation occur
in other Proterozoic and Archean volcano-sedimentary sequences
(Bekker et al., 2010; Slack et al., 2007, appendix 2), thus raising the
possibility that some of these ancient seafloor-hydrothermal depos-
its also contain filamentous microfossils that, if identified and doc-
umented, could be used as proxies for the oxidation state of coeval
deep seawater. 4.5 | Implications for Paleoproterozoic ocean
redox and iron oxyhydroxide deposition AB acknowledges support from NSERC Discovery
and Accelerator programs and the University of Johannesburg in
the form of a Distinguished Visiting Professorship. We thank three
anonymous reviewers for comments and suggestions on an earlier
version of the paper. redox-sensitive elements. Further, the paradigm of a persistently
anoxic, ferruginous mid-Proterozoic deep ocean has shifted over
the last decade to a consensus view that its redox state was vari-
able over this long time interval (e.g., Diamond et al., 2018; Doyle
et al., 2018; Planavsky et al., 2018; Shang et al., 2019; Sperling
et al., 2014; Yang et al., 2017; Zhang et al., ,2016, 2018). In our case,
we cannot resolve whether our observations indicate episodic or
pervasive weak oxygenation of the deep ocean, and hence, further
studies of different windows of the mid-Proterozoic in separate
basins are required. These deep ocean, weakly oxygenated waters
once upwelled on the highly productive continental margins would
rapidly lose their oxidation potential on mixing. We thus expect
highly variable oxygen contents to have existed along shallow-to-
deep transects across the mid-Proterozoic oceans (e.g., Planavsky
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Bekker, A., Poulton, S. W., & Anbar, A. D. (2018). A model for the LITTLE et al. 249 SUPPORTING INFORMATION Additional supporting information may be found online in the Zeng, Z., Ouyang, H., Yin, X., Chen, S., Wang, X., & Wu, L. (2012). Formation of Fe-Si-Mn oxyhydroxides at the PACMANUS hydro-
thermal field, eastern Manus Basin: Mineralogical and geochemical
evidence. Journal of Asian Earth Sciences, 60, 130–146. https://doi. org/10.1016/j.jseaes.2012.08.009 Supporting Information section. How to cite this article: Little CTS, Johannessen KC,
Bengtson S, et al. A late Paleoproterozoic (1.74 Ga) deep-sea,
low-temperature, iron-oxidizing microbial hydrothermal vent
community from Arizona, USA. Geobiology. 2021;19:228–
249. https://doi.org/10.1111/gbi.12434 Zhang, K., Zhu, X., Wood, R. A., Shi, Y., Gao, Z., & Poulton, S. W. (2018). Oxygenation of the Mesoproterozoic ocean and the evolution of
complex eukaryotes. Nature Geosciences, 11, 345–350. https://doi. org/10.1038/s41561-018-0111-y Zhang, S., Wang, X., Wang, H., Bjerrum, C. J., Hammarlund, E. U., Costa,
M. M., Connelly, J. N., Zhang, B., Su, J., & Canfield, D. E. (2016). Sufficient oxygen for animal respiration 1,400 million years ago.
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https://www.biorxiv.org/content/biorxiv/early/2019/10/07/634568.full.pdf
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English
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Automated data-intensive forecasting of plant phenology throughout the United States
|
bioRxiv (Cold Spring Harbor Laboratory)
| 2,019
|
cc-by
| 12,600
|
Automated data-intensive forecasting of
1
plant phenology throughout the United
2
States
3
Shawn D. Taylor1 (corresponding author), shawntaylor@weecology.org
4
Ethan P. White2, ethanwhite@ufl.edu
5
1 School of Natural Resources and Environment, University of Florida Gainesville, FL, United
6
States
7
2 Department of Wildlife Ecology and Conservation, University of Florida, Gainesville, FL,
8
United States
9
Running Head: Phenology Forecasting Methods
10 Automated data-intensive forecasting of
1
plant phenology throughout the United
2
States
3
Shawn D. Taylor1 (corresponding author), shawntaylor@weecology.org
4
Ethan P. White2, ethanwhite@ufl.edu
5
1 School of Natural Resources and Environment, University of Florida Gainesville, FL, United
6
States
7
2 Department of Wildlife Ecology and Conservation, University of Florida, Gainesville, FL,
8
United States
9
Running Head: Phenology Forecasting Methods
10 Automated data-intensive forecasting of
1
plant phenology throughout the United
2
States
3
Shawn D. Taylor1 (corresponding author), shawntaylor@weecology.org
4
Ethan P. White2, ethanwhite@ufl.edu
5
1 School of Natural Resources and Environment, University of Florida Gainesville, FL, United
6
States
7
2 Department of Wildlife Ecology and Conservation, University of Florida, Gainesville, FL,
8
United States
9
Running Head: Phenology Forecasting Methods
10 .
CC-BY 4.0 International license
a
ertified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under
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;
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ioRxiv preprint . CC-BY 4.0 International license
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ertified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under
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ioRxiv preprint . CC-BY 4.0 International license
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bioRxiv preprint States Running Head: Phenology Forecasting Methods
10 1 1 . CC-BY 4.0 International license
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bioRxiv preprint Abstract
11 Phenology - the timing of cyclical and seasonal natural phenomena such as flowering
12
and leaf out - is an integral part of ecological systems with impacts on human activities
13
like environmental management, tourism, and agriculture. As a result, there are
14
numerous potential applications for actionable predictions of when phenological events
15
will occur. However, despite the availability of phenological data with large spatial,
16
temporal, and taxonomic extents, and numerous phenology models, there has been no
17
automated species-level forecasts of plant phenology. This is due in part to the
18
challenges of building a system that integrates large volumes of climate observations
19
and forecasts, uses that data to fit models and make predictions for large numbers of
20
species, and consistently disseminates the results of these forecasts in interpretable
21
ways. Here we describe a new near-term phenology forecasting system that makes
22
predictions for the timing of budburst, flowers, ripe fruit, and fall colors for 78 species
23
across the United States up to 6 months in advance and is updated every four days. We
24
use the lessons learned in developing this system to provide guidance developing
25
large-scale near-term ecological forecast systems more generally, to help advance the
26
use of automated forecasting in ecology. 27 Keywords: climate, budburst, flowering, phenophase, ecology, decision making
28 2 . CC-BY 4.0 International license
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certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under
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bioRxiv preprint . CC-BY 4.0 International license
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certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under
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ertified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under
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ioRxiv preprint Introduction
29 CC-BY 4.0 International license
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ertified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under
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ioRxiv preprint extents, and at fine spatial resolutions. The only regularly updated phenology forecast in
56
current operation predicts only a single aggregated “spring index” that identifies when
57
early-spring phenological events occur at the level of the entire ecosystem (not
58
individual species) at a resolution of 1° lat/lon grid cells (Schwartz et al. 2013, Carrillo
59
et al. 2018). Forecasting individual species and multiple phenological events at higher
60
resolutions is challenging due to the advanced computational tools needed for building
61
and maintaining data-intensive automatic forecasting systems (White et al. 2018, Welch
62
et al. 2019). Automated forecasts requires building systems that acquire data, make
63
model-based predictions for the future, and disseminate the forecasts to end-users, all in
64
an automated pipeline (Dietze et al. 2018, White et al. 2018, Welch et al. 2019). This is
65
challenging even for relatively small-scale single site projects with one to several
66
species or response variables due to the need for advanced computational tools to
67
support robust automation (White et al. 2018, Welch et al. 2019). Building an
68
automated system to forecast phenology for numerous species at continental scales is
69
even more challenging due to the large-scale data intensive nature of the analyses. 70
Specifically, because phenology is sensitive to local climate conditions, phenology
71
modeling and prediction should be done at high resolutions (Cook et al. 2010). This
72
requires repeatedly conducting computationally intensive downscaling of seasonal
73
climate forecasts and making large numbers of predictions. To make 4 km resolution
74
spatially explicit forecasts for the 78 species in our study at continental scales requires
75
over 90 million predictions for each updated forecast. To make the forecasts actionable
76
these computational intensive steps need to be repeated in near real-time and
77
disseminated in a way that allows end-users to understand the forecasts and their
78
uncertainties (Dietze et al. 2018). 79
Here we describe an automated near-term phenology forecast system we developed to
80
k
i
l
l f
f
8 diff
l
i
S
i
b
1 extents, and at fine spatial resolutions. Introduction
29 Plant phenology - the timing of cyclical and seasonal natural phenomena such as
30
flowering and leaf out - influences many aspects of ecological systems (Chuine and
31
Régnière 2017) from small scale community interactions (Ogilvie et al. 2017) to global
32
scale climate feedbacks (Richardson et al. 2012). Because of the central importance of
33
phenology, advanced forecasts for when phenological events will occur have numerous
34
potential applications including: 1) research on the cascading effects of changing plant
35
phenology on other organisms; 2) tourism planning related to flower blooms and
36
autumn colors; 3) planning for sampling and application of management interventions
37
by researchers and managers; and 4) agricultural decisions on timing for planting,
38
harvesting, and application of pest prevention techniques. However, due to the
39
challenges of automatically integrating, predicting, and disseminating large volumes of
40
data, there are limited examples of applied phenology forecast systems. 41 Numerous phenology models have been developed to characterize the timing of major
42
plant events and understand their drivers (Chuine et al. 2013). These models are based
43
on the idea that plant phenology is primarily driven by weather, with seasonal
44
temperatures being the primary driver at temperate latitudes (Basler 2016, Chuine and
45
Régnière 2017). Because phenology is driven primarily by weather, it is possible to
46
make predictions for the timing of phenology events based on forecasted weather
47
conditions. The deployment of seasonal climate forecasts (Weisheimer and Palmer
48
2014), those beyond just a few weeks, provides the potential to forecast phenology
49
months in advance. This time horizon is long enough to allow meaningful planning and
50
action in response to these forecasts. With well established models, widely available
51
data, and numerous use cases, plant phenology is well suited to serve as an exemplar for
52
near-term ecological forecasting. 53 For decision making purposes, the most informative plant phenology forecasts will
54
predict the response of large numbers of species and phenophases, over large spatial
55 3 . CC-BY 4.0 International license
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certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under
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bioRxiv preprint . Forecasting Pipeline
96 Welch et al. (2019) break down the process of developing tools for automated prediction
97
into four stages: 1) Acquisition, obtaining and processing the regularly updated data
98
needed for prediction; 2) Prediction, combining the data with models to estimate the
99
outcome of interest; 3) Dissemination, the public presentation of the predictions; and 4)
100
Automation, the tools and approaches used to automatically update the predictions
101
using the newest data on a regular basis. We start by describing our approach to
102
modeling phenology and then describe our approach to each of these stages. 103 Introduction
29 It is made available under
The copyright holder for this preprint (which was not
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bioRxiv preprint . CC-BY 4.0 International license
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ertified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under
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ioRxiv preprint forecasts for multiple phenophases and presents the resulting forecasts and their
83
uncertainty on a dynamic website, https://phenology.naturecast.org/. Since the majority
84
of plants complete budburst and/or flowering by the summer solstice in mid-June, this
85
results in lead times of up to six months. We describe the key steps in the system
86
construction, including: 1) fitting phenology models, 2) acquiring and downscaling
87
climate data; 3) making predictions for phenological events; 4) disseminating those
88
predictions; and 5) automating steps 2-4 to update forecasts at a sub-weekly frequency. 89
We follow Welch et al. (2019)’s framework for describing operationalized dynamic
90
management tools (ie. self-contained tools running automatically and regularly) and
91
describe the major design decisions and lessons learned from implementing this system
92
that will guide improvements to automated ecological forecasting systems. Due to the
93
data-intensive nature of forecasting phenology at fine resolutions over large scales this
94
system serves as a model for large-scale forecasting systems in ecology more broadly. 95 Introduction
29 The only regularly updated phenology forecast in
56
current operation predicts only a single aggregated “spring index” that identifies when
57
early-spring phenological events occur at the level of the entire ecosystem (not
58
individual species) at a resolution of 1° lat/lon grid cells (Schwartz et al. 2013, Carrillo
59
et al. 2018). Forecasting individual species and multiple phenological events at higher
60
resolutions is challenging due to the advanced computational tools needed for building
61
and maintaining data-intensive automatic forecasting systems (White et al. 2018, Welch
62
et al. 2019). Automated forecasts requires building systems that acquire data, make
63
model-based predictions for the future, and disseminate the forecasts to end-users, all in
64
an automated pipeline (Dietze et al. 2018, White et al. 2018, Welch et al. 2019). This is
65
challenging even for relatively small-scale single site projects with one to several
66
species or response variables due to the need for advanced computational tools to
67
support robust automation (White et al. 2018, Welch et al. 2019). Building an
68
automated system to forecast phenology for numerous species at continental scales is
69
even more challenging due to the large-scale data intensive nature of the analyses. 70
Specifically, because phenology is sensitive to local climate conditions, phenology
71
modeling and prediction should be done at high resolutions (Cook et al. 2010). This
72
requires repeatedly conducting computationally intensive downscaling of seasonal
73
climate forecasts and making large numbers of predictions. To make 4 km resolution
74
spatially explicit forecasts for the 78 species in our study at continental scales requires
75
over 90 million predictions for each updated forecast. To make the forecasts actionable
76
these computational intensive steps need to be repeated in near real-time and
77
disseminated in a way that allows end-users to understand the forecasts and their
78
uncertainties (Dietze et al. 2018). 79
Here we describe an automated near-term phenology forecast system we developed to
80 Here we describe an automated near-term phenology forecast system we developed to
80
make continental scale forecasts for 78 different plant species. Starting December 1st,
81
and updated every 4 days, this system uses the latest climate information to make
82 4 4 . CC-BY 4.0 International license
a
certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. Phenology Modeling
104 Making large spatial scale phenology forecasts for a specific species requires species
105
level observation data from as much of its respective range as possible (Taylor et al. 106 5 . CC-BY 4.0 International license
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ertified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under
The copyright holder for this preprint (which was not
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https://doi.org/10.1101/634568
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ioRxiv preprint . CC-BY 4.0 International license
a
certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under
The copyright holder for this preprint (which was not
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bioRxiv preprint 2019). We used data from the USA National Phenology Network (USA-NPN), which
107
collects volunteer based data on phenological events and has amassed over 10 million
108
observations representing over 1000 species. The USA-NPN protocol uses status-based
109
monitoring, where observers answer ‘yes,’ ‘no,’ or ‘unsure’ when asked if an individual
110
plant has a specific phenophase present (Denny et al. 2014). Phenophases refer to
111
specific phases in the annual cycle of a plant, such as the presence of emerging leaves,
112
flowers, fruit, or senescing leaves. We used the “Individual Phenometrics” data product,
113
which provides pre-processed onset dates of individually monitored plants, for the
114
phenophases budburst, flowering, and fall colors for all species with data between 2009
115
and 2017 (USA National Phenology Network 2018). We only kept “yes” observations
116
where the individual plant also had a “no” observation within the prior 30 days and
117
dropped any records where a single plant had conflicting records for phenotype status or
118
more than one series of “yes” observations for a phenophase in a 12 month period. We
119
built models for species and phenophase combinations with at least 30 observations
120
(Figure 1, B) using daily mean temperature data at the location and time of each
121
observation from the PRISM 4km dataset (PRISM Climate Group 2004). We also
122
included contributed models of budburst, flowering, and/or fruiting for 5 species which
123
were not well represented in the USA-NPN dataset (see Appendix S1: Table S2; Janet S. 124
Prevéy, unpublished data, 2018, Prevéy et al. (In revision); Biederman et al. (2018)). Phenology Modeling
104 125 For each species and phenophase we fit an ensemble of four models using daily mean
126
temperature as the sole driver (Figure 1, C). The general model form assumes a
127
phenological event will occur once sufficient thermal forcing units accumulate from a
128
specified start day (Chuine et al. 2013, Chuine and Régnière 2017). The specification of
129
forcing units are model specific, but all are derived from the 24-hour daily mean
130
temperature. In a basic model a forcing unit is the maximum of either 0 or the mean
131
temperature above 0°C (ie. growing degree days). The amount of forcing units required,
132
and the date from which they start accumulating are parameterized for each species and
133 6 . CC-BY 4.0 International license
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certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under
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bioRxiv preprint . CC-BY 4.0 International license
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ertified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under
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ioRxiv preprint phenophase (see Appendix S1: Table S1). Ensembles of multiple models generally
134
improve prediction over any single model by reducing bias and variance, and in a
135
phenology context allow more accurate predictions to be made without knowing the
136
specific physiological processes for each species (Basler 2016, Yun et al. 2017,
137 phenophase (see Appendix S1: Table S1). Ensembles of multiple models generally
134
improve prediction over any single model by reducing bias and variance, and in a
135
phenology context allow more accurate predictions to be made without knowing the
136
specific physiological processes for each species (Basler 2016, Yun et al. 2017,
137 Dormann et al. 2018). We used a weighted ensemble of four phenology models. We
138
derived the weights for each model within the ensemble using stacking to minimize the
139
root mean squared error on held out test data (100 fold cross-validation) as described in
140
Dormann et al. (2018) (see Appendix S1: Sec. S1). Phenology Modeling
104 After determining the weights we
141
fit the core models a final time on the full dataset. Since individual process based
142
phenology models are not probabilistic they do not allow the estimation of uncertainty
143
in the forecasts. Therefore, we used the variance across the five climate models to
144
represent uncertainty (see Prediction). Finally, we also fit a spatially corrected Long
145
Term Average model for use in calculating anomalies (see Dissemination). This uses the
146
past observations in a linear model with latitude as the sole predictor (see Appendix S1:
147
Table S1). 148 In our pipeline 190 unique phenological models (one for each species and phenophase
149
combination, see see Appendix S1: Table S2) needed to be individually parameterized,
150
evaluated, and stored for future use. To consolidate all these requirements we built a
151
dedicated software package written in Python, pyPhenology, to build, save, and load
152
models, and also apply them to gridded climate datasets (Taylor 2018). The package
153
also integrates the phenological model ensemble so that the four sub-models can be
154
treated seamlessly as one in the pipeline. After parameterizing each model, its
155
specifications are saved in a text based JSON file that is stored in a git repository along
156
with a metadata file describing all models (Figure 1, D). This approach allows for the
157
tracking and usage of hundreds of models, allowing models to be easily synchronized
158
across systems, and tracking versions of models as they are updated (or even deleted). 159 7 . CC-BY 4.0 International license
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certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under
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ertified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under
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ioRxiv preprint Acquisition and Downscaling of Climate Data
160 It is made available under
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ertified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under
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ioRxiv preprint month (Figure 1, H). This downscaling model, at the scale of the continental U.S.A., is
187
used to downscale the most recent CFSv2 forecasts to a 4km resolution during the
188
automated steps. 189 We used specialized Python packages to overcome the computational challenges
190
inherent in the large CFSv2 climate dataset (Python Software Foundation 2003). The
191
climate forecast data for each phenology forecast update is 10-40 gigabytes, depending
192
on the time of year (time series are longer later in the year). While it is possible to
193
obtain hardware capable of loading this dataset into memory, a more efficient approach
194
is to perform the downscaling and phenology model operations iteratively by subsetting
195
the climate dataset spatially and performing operations on one chunk at a time. We used
196
the python package xarray (Hoyer and Hamman 2017), which allows these operations
197
to be efficiently performed in parallel through tight integration with the dask package
198
(Dask Development Team 2016). The combination of dask and xarray allows the
199
analysis to be run on individual workstations, stand alone servers, and high performance
200
computing systems, and to easily scale to more predictors and higher resolution data. 201 Acquisition and Downscaling of Climate Data
160 Since our phenology models are based on accumulated temperature forcing, making
161
forecasts requires information on both observed temperatures (from Nov. 30 of the prior
162
year up to the date a forecast is made) and forecast temperatures (from the forecast date
163
onward). For observed data we used 4km 24-hour daily mean temperature from PRISM,
164
a gridded climate dataset for the continental U.S.A. which interpolates on the ground
165
measurements and is updated daily (PRISM Climate Group 2004). These observed data
166
are saved in a netCDF file, which is appended with the most recent data every time the
167
automated forecast is run. For climate forecasts we used the Climate Forecast System
168
Version 2 (CFSv2; a coupled atmosphere-ocean-land global circulation model) 2-m
169
temperature data, which has a 6-hour timestep and a spatial resolution of 0.25 degrees
170
latitude/longitude (Saha et al. 2014). CFSv2 forecasts are projected out 9 months from
171
the issue date and are updated every 6 hours. The five most recent climate forecasts are
172
downloaded for each updated phenology forecast to accommodate uncertainty (see
173
Prediction). 174 Because the gridded climate forecasts are issued at large spatial resolutions (0.25
175
degrees), this data requires downscaling to be used at ecologically relevant scales (Cook
176
et al. 2010). A downscaling model relates observed values at the smaller scale to the
177
larger scale values generated by the climate forecast during a past time period. We
178
regressed these past conditions from a climate reanalysis of CFSv2 from 1995-2015
179
(Saha et al. 2010) against the 4km daily mean temperature from the PRISM dataset for
180
the same time period (PRISM Climate Group 2004) to build a downscaling model using
181
asynchronous regression (Figure 1, E-G). The CFSv2 data is first interpolated from the
182
original 0.25 degree grid to a 4km grid using distance weighted sampling, then an
183
asynchronous regression model is applied to each 4km pixel and calendar month
184
(Stoner et al. 2013, see see Appendix S1: Sec. S2). The two parameters from the
185
regression model for each 4 km cell are saved in a netCFD file by location and calendar
186 8 . CC-BY 4.0 International license
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certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. Prediction
202 The five most recent downscaled climate forecasts are each combined with climate
203
observations to make a five member ensemble of daily mean temperature across the
204
continental USA (Figure 1, L). These are used to make predictions using the phenology
205
model for each species and phenophase (Figure 1, M). Each climate ensemble member
206
is a 3d matrix of latitude × longitude × time at daily timesteps extending from Nov. 1
207
of the prior year to 9 months past the issue date. The pyPhenology package uses this
208
object to make predictions for every 4 km grid cell in the contiguous United States,
209
producing a 2d matrix (latitude × longitude) where each cell represents the predicted
210
Julian day of the phenological event. This results in approximately half a million
211
predictions for each run of each phenology model and 90 million predictions per run of
212 9 . CC-BY 4.0 International license
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certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under
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bioRxiv preprint . CC-BY 4.0 International license
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certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under
The copyright holder for this preprint (which was not
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bioRxiv preprint the forecasting pipeline. The output of each model is cropped to the range of the
213
respective species (US Geological Survey 1999) and saved as a netCDF file (Figure 1,
214
N) for use in dissemination and later evaluation. 215 the forecasting pipeline. The output of each model is cropped to the range of the
213
respective species (US Geological Survey 1999) and saved as a netCDF file (Figure 1,
214
N) for use in dissemination and later evaluation. 215 An important aspect of making actionable forecasts is providing decision makers with
216
information on the uncertainty of those predictions (Dietze et al. 2018). One major
217
component of uncertainty that is often ignored in near-term ecological forecasting
218
studies is the uncertainty in the forecasted drivers. Prediction
202 We incorporate information on
219
uncertainty in temperature, the only driver in our phenology models, using the CFSv2
220
climate ensemble (Figure 1, I; see Acquisition). The members of the climate ensemble
221
each produce a different temperature forecast due to differences in initial conditions
222
(Weisheimer and Palmer 2014). For each of the five climate members we make a
223
prediction using the phenology ensemble, and the uncertainty is estimated as the
224
variance of these predictions (see see Appendix S1: Sec. S1). This allows us to present
225
the uncertainty associated with climate, along with a point estimate of the forecast,
226
resulting in a range of dates over which a phenological event is likely to occur. 227 Dissemination
228 To disseminate the forecasts we built a website that displays maps of the predictions for
229
each unique species and phenophase (https://phenology.naturecast.org/; Figure 1 Q;
230
Figure 2). We used the Django web framework and custom JavaScript to allow the user
231
to select forecasts by species, phenophase, and issue date (Figure 2D). The main map
232
shows the best estimate for when the phenological event will occur for the selected
233
species (Figure 2A). Actionable forecasts also require an understanding of how much
234
uncertainty is present in the prediction (Dietze et al. 2018), because knowing the
235
expected date of an annual event such as flowering isn’t particularly useful if the
236
confidence interval stretches over several months. Therefore we also display a map of
237
uncertainty quantified as the 95% prediction interval, the range of days within which the
238 10 . CC-BY 4.0 International license
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ertified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under
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ioRxiv preprint phenology event is expected to fall 95% of the time (Figure 2C). Finally, to provide
239
context to the current years predictions, we also map the predicted anomaly (Figure 2B). 240
The anomaly is the difference between the predicted date and the long term, spatially
241
corrected average date of the phenological event (Figure 1, O; see see Appendix S1:
242
Table S1). 243 Automation
244 CC-BY 4.0 International license
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oRxiv preprint successfully. This ensures that user of the website can always access the latest forecasts.
265 Software packages used throughout the system include, for the R language, ggplot2
266
(Wickham 2016), raster (Hijmans 2017), prism (Hart and Bell 2015), sp (Pebesma and
267
Bivand 2005), tidyr (Wickham and Henry 2018), lubridate (Grolemund and Wickham
268
2011), and ncdf4 (Pierce 2017). From the python language we also utilized xarray
269
(Hoyer and Hamman 2017), dask, (Dask Development Team 2016), scipy (Jones et al. 270
2001), numpy (Oliphant 2006), pandas (McKinney 2010), and mpi4py (Dalcin et al. 271
2011). All code described is available on a GitHub repository
272 (https://github.com/sdtaylor/phenology_forecasts). The code as well as 2019 forecasts
273
and observations (see Evaluation) are also permanently archived on Zenodo
274
(https://doi.org/10.5281/zenodo.2577452). 275 Automation
244 All of the steps in this pipeline, other than phenology and downscaling model fitting, are
245
automatically run every 4 days. To do this we use a cron job running on a local server. 246
Cron jobs automatically rerun code on set intervals. The cron job initiates a python
247
script which runs the major steps in the pipeline. First the latest CFSv2 climate
248
forecasts are acquired, downscaled, and combined with the latest PRISM climate
249
observations (Figure 1, I-L). This data is then combined with the phenology models
250
using the pyPhenology package to make predictions for the timing of phenological
251
events (Figure 1, M-N). These forecasts are then converted into maps and uploaded to
252
the website (Figure 1, O-Q). To ensure that forecasts continue to run even when
253
unexpected events occur it is necessary to develop pipelines that are robust to
254
unexpected errors and missing data, and are also informative when failures inevitably
255
do happen (Welch et al. 2019). We used status checks and logging to identify and fix
256
problems and separated the website infrastructure from the rest of the pipeline. Data are
257
checked during acquisition to determine if there are data problems and when possible
258
alternate data is used to replace data with issues. For example, members of the CFSv2
259
ensemble sometimes have insufficient time series lengths. When this is the case that
260
forecast is discarded and a preceding climate forecast obtained. With this setup
261
occasional errors in upstream data can be ignored, and larger problems identified and
262
corrected with minimal downtime. To prevent larger problems from preventing access
263
to the most recent successful forecasts the website is only updated if all other steps run
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ertified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under
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bioRxiv preprint . Evaluation
276 A primary advantage of near-term forecasts is the ability to rapidly evaluate forecast
277
proficiency, thereby shortening the model development cycle (Dietze et al. 2018). 278
Phenological events happen throughout the growing season, providing a consistent
279
stream of new observations to assess. We evaluated our forecasts (made from Dec. 1,
280
2018 thru May 1, 2019) using observations from the USA-NPN from Jan. 1, 2019
281
through May 8, 2019 and subset to species and phenophases represented in our system
282
(Figure 3; USA National Phenology Network (2019)). This resulted in 1581
283
phenological events that our system had forecasts for (588 flowering events, 991
284
budburst events, and 2 fall coloring across 65 species, see see Appendix S1: Table S3). 285
For each forecast issue date we calculated the root mean square error (RMSE) and
286
average forecast uncertainty for all events and all prior issue dates. We also assessed the
287
distribution of absolute errors (\
DOY −DOY ) for a subset of issue dates
288
(approximately two a month). 289 12 . CC-BY 4.0 International license
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ertified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under
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ioRxiv preprint Forecast RMSE and uncertainty both decreased for forecasts with shorter lead time
290
(i.e. closer to the date the phenological event occurred), also known as the forecast
291
horizon (Fig. 4; Petchey et al. (2015)). Forecasts issued at the start of the year (on Jan. 292
5, 2019) had a RMSE of 20.9 days, while the most recent forecasts (on May 5, 2019)
293
had an RMSE of only 18.8 days. The average uncertainty for the forecasts were 7.6 and
294
0.2 days respectively for Jan. 5, and May 5. Errors were normally distributed with a
295
small over-prediction bias (MAE values of 6.8 - 12.1, Fig. 5). This bias also decreased
296
as spring progressed. Evaluation
276 These results indicate a generally well performing model, but also
297
one with significant room for improvement that will be facilitated by the iterative nature
298
of the forecasting system. 299 Discussion
300 Forecasts are updated every four days with the most recent climate observations and
303
forecasts, converted to static maps, and uploaded to a website for dissemination. We
304
used only open source software and data formats, and free publicly available data. 305 While a more comprehensive evaluation of forecast performance is outside the scope of
306
this paper, we note that the majority of forecasts provide realistic phenology estimates
307
across known latitudinal and elevational gradients (Figure 2), and forecast uncertainty
308
and error decreases as spring progresses (Figure 4). While there is a bias from
309
over-estimating phenological events, estimates were on-average within 2-3 weeks of the
310
true dates throughout the spring season. 311 Developing automated forecasting systems in ecology is important both for providing
312
decision makers with near real-time predictions and for improving our understanding of
313
biological systems by allowing repeated tests of, and improvements to, ecological
314
models (Dietze et al. 2018, White et al. 2018, Welch et al. 2019). To facilitate the
315 13 . CC-BY 4.0 International license
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ertified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under
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ioRxiv preprint development of ecological forecasts, we need both active development, descriptions,
316
and discussion of a variety of forecasting systems. These discussions of the tools,
317 and discussion of a variety of forecasting systems. These discussions of the tools,
317
philosophies, and challenges involved in forecast pipeline development will advance our
318
understanding of how to most effectively build the systems, thereby lowering the entry
319
barrier of operationalizing ecological models for decision making. Active development
320
and discussion will also help us identify generalizable problems which can be solved
321
with standardized methods, data formats, and software packages. Tools such as this can
322
be used to more efficiently implement new ecological forecast systems, and facilitate
323
synthetic analyses and comparisons across a variety of forecasts. Discussion
300 324 Automated forecasting systems typically involve multiple major steps in a combined
325
pipeline. We found that breaking the pipeline into modular chunks made maintaining
326
this large number of components more manageable (White et al. 2018, Welch et al. 327
2019). For generalizable pieces of the pipeline we found that turning them into software
328
packages eased maintenance by decoupling dependencies and allowing independent
329
testing. Packaging large components also makes it easier for others to use code
330
developed for a forecasting system. The phenology modelling packge, pyPhenology,
331
was developed for the current system, but is generalized for use in any phenological
332
modelling study (Taylor 2018). We also found it useful to use different languages for
333
different pieces of the pipeline. Our pipeline involved tasks ranging from automatically
334
processing gigabytes of climate data to visualizing results to disseminating those results
335
through a dynamic website. In such a pipeline no single language will fit all
336
requirements, thus we made use of the strengths of two languages (Python and R) and
337
their associate package ecosystems. Interoperability is facilitated by common data
338
formats (csv and netCDF files), allowing scripts written in one language to
339
communicate results to the next step in the pipeline written in another language. 340 This phenology forecasting system currently involves 190 different ensemble models,
341
one for each species and phenological stage, each composed of 4 different phenology
342 14 14 . CC-BY 4.0 International license
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ertified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under
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ioRxiv preprint sub-models and their associated weights for a total of 760 different models. This
343
necessitates having a system for storing and documenting models, and subsequently
344
updating them with new data and/or methods over time. We stored the fitted models in
345
JSON files (a open-standard text format). mutli-dimensional data and in our case are 300 times smaller than the csv files (50
370
MB/forecast).
371 mutli-dimensional data and in our case are 300 times smaller than the csv files (50
370
MB/forecast). 371 In addition to areas for improvement in the forecasting system itself, its development
372
has highlighted areas for potential improvement in phenology modeling. Other
373
well-known phenological drivers could be incorporated into the models, such as
374
precipitation and daylength. Precipitation forecasts are available from the CFSv2
375
dataset, though their accuracy is considerably lower than temperature forecasts (Saha et
376
al. 2014). Other large-scale phenological datasets, such as remotely-sensed spring
377
greenup could be used to constrain the species level forecasts made here (Melaas et al. 378
2016). Our system does not currently integrate observations about how phenology is
379
progressing within a year to update the models. USA-NPN data are available in near
380
real-time after they are submitted by volunteers, thus there is opportunity for data
381
assimilation of phenology observations. Making new forecasts with the latest
382
information not only on the current state of the climate, but also on the current state of
383
the plants themselves would likely be very informative (Luo et al. 2011, Dietze 2017). 384
For example, if a species is leafing out sooner than expected in one area it is likely that
385
it will also leaf out sooner than expected in nearby regions. This type of data
386
assimilation is important for making accurate forecasts in other disciplines including
387
meteorology (Bauer et al. 2015, Carrassi et al. 2018). However, process based plant
388
phenology models were not designed with data assimilation in mind (Chuine et al. 389 In addition to areas for improvement in the forecasting system itself, its development
372
has highlighted areas for potential improvement in phenology modeling. Other
373
well-known phenological drivers could be incorporated into the models, such as
374
precipitation and daylength. Precipitation forecasts are available from the CFSv2
375
dataset, though their accuracy is considerably lower than temperature forecasts (Saha et
376
al. 2014). Other large-scale phenological datasets, such as remotely-sensed spring
377
greenup could be used to constrain the species level forecasts made here (Melaas et al. 378
2016). Our system does not currently integrate observations about how phenology is
379
progressing within a year to update the models. Discussion
300 CC-BY 4.0 International license
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certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under
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bioRxiv preprint Discussion
300 We used the version control system git to
346
track changes to these text based model specifications. While git was originally
347
designed tracking changes to code, it can also be leveraged for tracking data of many
348
forms, including our model specifications (Ram 2013, Bryan 2018, Yenni et al. 2019). 349
Managing many different models, including different versions of those models and their
350
associate provenance, will likely be a common challenge for ecological forecasting
351
(White et al. 2018) as one of the goals is iteratively improving the models. 352 The initial development of this system has highlighted several potential areas for
353
improvement. First, the data-intensive nature of this forecasting system provides
354
challenges and opportunities for disseminating results. Currently static maps show the
355
forecast dates of phenological events across each species respective range. However this
356
only answers one set of questions and makes it difficult for others to build on the
357
forecasts. Additional user interface design, including interactive maps and the potential
358
to view forecasts for a single location, would make it easier to ask other types of
359
questions such as “Which species will be in bloom on this date in a particular location?”. 360
User interface design is vital for successful dissemination, and tools such the python
361
package Django used here, or the R packages Shiny and Rmarkdown provide flexible
362
frameworks for implementation (White et al. 2018, Welch et al. 2019). In addition it
363
would be useful to provide access to the raw data underlying each forecast. The sheer
364
number of forecasts makes the bi-weekly forecast data relatively large, presenting some
365
challenges for dissemination through traditional ecological archiving services like
366
Dryad (https://datadryad.org) and Zenodo (https://zenodo.org). If stored as csv files
367
every forecast would have generated 15 GB of data. We addressed this by storing the
368
forecasts in compressed netCDF files, which are optimized for large-scale
369 15 15 . CC-BY 4.0 International license
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bioRxiv preprint . transition dates as is currently done in this forecast system.
397 Using recent advances in open source software and large-scale open data collection we
398
have implemented an automated high resolution, continental scale, species-level
399
phenology forecast system. Implementing a system of this scale was made possible by a
400
new phenology data stream and new computational tools that facilitate large scale
401
analysis with limited computing and human resources. Most recent research papers
402
describing ecological forecast systems focus on only the modelling aspect (Chen et al. 403
2011, Carrillo et al. 2018, Van Doren and Horton 2018), and studies outlining
404
implementation methods and best practices are lacking (but see White et al. 2018,
405 Welch et al. 2019). Making a forecast system operational is key to producing applied
406
tools, and requires a significant investment in time and other resources for data logistics
407
and pipeline development. Major challenges here included the automated processing of
408
large meteorological datasets, efficient application of hundreds of phenological models,
409
and stable, consistently updated, and easy to understand dissemination of forecasts. By
410
discussing how we addressed these challenges, and making our code publicly available,
411
we hope to provide guidance for others developing ecological forecasting systems. 412 mutli-dimensional data and in our case are 300 times smaller than the csv files (50
370
MB/forecast).
371 It is made available under
The copyright holder for this preprint (which was not
this version posted October 7, 2019. ;
https://doi.org/10.1101/634568
doi:
ioRxiv preprint mutli-dimensional data and in our case are 300 times smaller than the csv files (50
370
MB/forecast).
371 USA-NPN data are available in near
380
real-time after they are submitted by volunteers, thus there is opportunity for data
381
assimilation of phenology observations. Making new forecasts with the latest
382
information not only on the current state of the climate, but also on the current state of
383
the plants themselves would likely be very informative (Luo et al. 2011, Dietze 2017). 384
For example, if a species is leafing out sooner than expected in one area it is likely that
385
it will also leaf out sooner than expected in nearby regions. This type of data
386
assimilation is important for making accurate forecasts in other disciplines including
387
meteorology (Bauer et al. 2015, Carrassi et al. 2018). However, process based plant
388
phenology models were not designed with data assimilation in mind (Chuine et al. 389
2013). Clark et al. (2014) built a bayesian hierarchical phenology model of budburst
390
which incorporates the discrete observations of phenology data. This could serve as a
391
starting point for a phenology forecasting model that incorporates data assimilation and
392
allows species with relatively few observations to borrow strength from species with a
393
large number of observations. The model from Clark et al. (2014) also incorporates all
394 2013). Clark et al. (2014) built a bayesian hierarchical phenology model of budburst
390
which incorporates the discrete observations of phenology data. This could serve as a
391
starting point for a phenology forecasting model that incorporates data assimilation and
392
allows species with relatively few observations to borrow strength from species with a
393
large number of observations. The model from Clark et al. (2014) also incorporates all
394
stages of the bud development process into a continuous latent state, thus there is also
395
potential for forecasting the current phenological state of plants, instead of just the
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certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under
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bioRxiv preprint . CC-BY 4.0 International license
a
ertified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. Acknowledgments
413 This research was supported by the Gordon and Betty Moore Foundation’s Data-Driven
414
Discovery Initiative through Grant GBMF4563 to E.P. White. We thank the USA
415
National Phenology Network and the many participants who contribute to its Nature’s
416
Notebook program. 417 17 17 . CC-BY 4.0 International license
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certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under
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ertified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under
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bioRxiv preprint Figure Legends
574 It is made available under
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574 Figure 1: Flowchart of initial model building and automated pipeline steps. Letters
575
indicate the associate steps discussed in the main text. 576 Figure 1: Flowchart of initial model building and automated pipeline steps. Letters
575
indicate the associate steps discussed in the main text. 576 Figure 2: Screenshot of the forecast presentation website
577 (http://phenology.naturecast.org) showing the forecast for the leaf out of Acer
578
saccharinum in Spring, 2019, issued on Feburary 21, 2019. The maps represent the
579
predicted date of leaf out (A), the anomaly compared to prior years (B), and the 95%
580
confidence interval (C). In the upper right is the interface for selecting different species,
581
phenophases, or forecast issue dates via drop down menus (D). 582 Figure 3: Locations of phenological events which have occurred between Jan. 1, 2019
583
and May 5, 2019 obtained from the USA National Phenology Network (blue circles),
584
and all sampling locations in the same dataset (red points). Four individual plants are
585
highlighted, with numbers indicating the USA National Phenology Network database
586
ID. The solid line indicates the predicted event date as well as the 95% confidence
587
interval for a specified forecast issue date, and the dashed line indicates the observed
588
event date. The x-axis corresponds to the date a forecast was issued, while the y-axis is
589
the date flowering or budburst was predicted to occur. For example: on Jan. 1, 2019 the
590
P. tremuloides plant was forecast to flower sometime between March, 29 and April, 24
591
(solid lines). The actual flowering date was March 18 (dashed line). 592 Figure 4: The root mean square error and the average uncertainty of forecasts issued
593
between Dec. 2, 2018 and May 5, 2019 for 1581 phenological events representing 65
594
species. 595 Figure 4: The root mean square error and the average uncertainty of forecasts issued
593
between Dec. 2, 2018 and May 5, 2019 for 1581 phenological events representing 65
594
species. 595 Figure 5: Distribution of absolute errors (prediction - observed) for 1581 phenological
596
events for 11 selected issue dates. Labels indicate the mean absolute error (MAE). 597 25 . CC-BY 4.0 International license
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ertified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. .
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https://www.frontiersin.org/articles/10.3389/fpls.2023.1184064/pdf
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English
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Towards microalga-based superfoods: heterologous expression of zeolin in Chlamydomonas reinhardtii
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Frontiers in plant science
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cc-by
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OPEN ACCESS Plant Sci. 14:1184064. doi: 10.3389/fpls.2023.1184064 © 2023 Perozeni, Pivato, Angelini,
Maricchiolo, Pompa and Ballottari. This is an
open-access article distributed under the
terms of the Creative Commons Attribution
License (CC BY). The use, distribution or
reproduction in other forums is permitted,
provided the original author(s) and the
copyright owner(s) are credited and that
the original publication in this journal is
cited, in accordance with accepted
academic practice. No use, distribution or
reproduction is permitted which does not
comply with these terms. KEYWORDS Chlamydomonas, protein expression, synthetic biology, microalgae, zein, phaseolin © 2023 Perozeni, Pivato, Angelini,
Maricchiolo, Pompa and Ballottari. This is an
open-access article distributed under the
terms of the Creative Commons Attribution
License (CC BY). The use, distribution or
reproduction in other forums is permitted,
provided the original author(s) and the
copyright owner(s) are credited and that
the original publication in this journal is
cited, in accordance with accepted
academic practice. No use, distribution or
reproduction is permitted which does not
comply with these terms. Chlamydomonas, protein expression, synthetic biology, microalgae, zein, phaseolin TYPE Original Research
PUBLISHED 09 May 2023
DOI 10.3389/fpls.2023.1184064 TYPE Original Research
PUBLISHED 09 May 2023
DOI 10.3389/fpls.2023.1184064 KEYWORDS OPEN ACCESS EDITED BY
Cyprien Verseux,
University of Bremen, Germany
REVIEWED BY
Pannaga Pavan Jutur,
International Centre for Genetic
Engineering and Biotechnology, India
Edmundo Lozoya-Gloria,
Unidad Irapuato (CINVESTAV), Mexico
*CORRESPONDENCE
Matteo Ballottari
matteo.ballottari@univr.it
RECEIVED 10 March 2023
ACCEPTED 17 April 2023
PUBLISHED 09 May 2023
CITATION
Perozeni F, Pivato M, Angelini M,
Maricchiolo E, Pompa A and Ballottari M
(2023) Towards microalga-based
superfoods: heterologous expression of
zeolin in Chlamydomonas reinhardtii. Front. Plant Sci. 14:1184064. doi: 10.3389/fpls.2023.1184064 REVIEWED BY
Pannaga Pavan Jutur,
International Centre for Genetic
Engineering and Biotechnology, India
Edmundo Lozoya-Gloria,
Unidad Irapuato (CINVESTAV), Mexico Federico Perozeni 1, Matteo Pivato 1, Margherita Angelini 1,
Elisa Maricchiolo 2, Andrea Pompa 2 and Matteo Ballottari 1* 1Dipartimento di Biotecnologie, Università degli Studi di Verona, Verona, Italy, 2Dipartimento di
Scienze Biomolecolari, Università degli Studi di Urbino, Urbino, Italy Microalgae are unicellular photosynthetic organisms that can be grown in
artificial systems to capture CO2, release oxygen, use nitrogen- and
phosphorus-rich wastes, and produce biomass and bioproducts of interest
including edible biomass for space exploration. In the present study, we report
a metabolic engineering strategy for the green alga Chlamydomonas reinhardtii
to produce high-value proteins for nutritional purposes. Chlamydomonas
reinhardtii is a species approved by the U.S. Food and Drug Administration
(FDA) for human consumption, and its consumption has been reported to
improve gastrointestinal health in both murine models and humans. By
utilizing the biotechnological tools available for this green alga, we introduced
a synthetic gene encoding a chimeric protein, zeolin, obtained by merging the g-
zein and phaseolin proteins, in the algal genome. Zein and phaseolin are major
seed storage proteins of maize (Zea mays) and bean (Phaseolus vulgaris) that
accumulate in the endoplasmic reticulum (ER) and storage vacuoles,
respectively. Seed storage proteins have unbalanced amino acid content, and
for this reason, need to be complemented with each other in the diet. The
chimeric recombinant zeolin protein represents an amino acid storage strategy
with a balanced amino acid profile. Zeolin protein was thus efficiently expressed
in Chlamydomonas reinhardtii; thus, we obtained strains that accumulate this
recombinant protein in the endoplasmic reticulum, reaching a concentration up
to 5.5 fg cell-1, or secrete it in the growth medium, with a titer value up to 82 µg/L,
enabling the production of microalga-based super-food. CITATION
Perozeni F, Pivato M, Angelini M,
Maricchiolo E, Pompa A and Ballottari M
(2023) Towards microalga-based
superfoods: heterologous expression of
zeolin in Chlamydomonas reinhardtii. Front. 1 Introduction Zein are divided into four subfamilies based on
their solubility and amino acid composition: a (22 and 19 kDa), b
(15-kDa), g (50 kDa, 27 kDa, and 16 kDa), and d (18 kDa and 10
kDa) zeins (Holding, 2014), and these proteins are found in protein
bodies (PBs) inside the endoplasmic reticulum (ER) (Lending and
Larkins, 1989), accounting for more than 60% of the total stored
proteins in the endosperm of maize kernels (Llop-Tous et al., 2010;
Holding, 2014; Khan et al., 2019). Numerous studies have suggested
that the packaging of zein and non-zein proteins into PBs has a
peculiar role in maize endosperm development, influencing kernel
properties (e.g., texture, functionality, and protein quality) (Guo
et al., 2013; Holding, 2014). Due to reciprocal limitations in terms of
amino acid composition, phaseolin and g-zein proteins were fused
together to create a new recombinant protein, zeolin, characterized
by a balanced amino acid content. The chimeric zeolin protein
contained the entire phaseolin sequence, including the signal
peptide, followed by the unstructured 15 amino acid linker
(GGGGS)3 and 89 amino acids of mature g-zein (27 kDa),
starting from the fifth residue after the g-zein signal peptide. The
total number of amino acids was 525, including 24 residues of the
N-terminal phaseolin signal peptide (Mainieri et al., 2004). When
expressed in Nicotiana tabacum leaves, zeolin successfully
accumulated, forming PBs in the ER (Mainieri et al., 2004). Zeolin is insoluble in the absence of reducing agents, whereas,
phaseolin can be easily solubilized in the absence of reducing agents. This suggests that the protein interactions are different. Insolubility
is also caused by disulfide bonds, a characteristic of g-zein (Vitale
et al., 1982) which are transferred to zeolin. It was also observed that
zein has a dominant effect on phaseolin intracellular traffic: the zein
fragment prevents zeolin from being delivered to the vacuole and
ER retention can be conferred to another protein by g-zein domains
(Holding, 2014). nutrient recovery from wastes, and limited spaces. With increasing
population, food demands, and desire for healthier lifestyles,
alternative sources of functional foods are important for space
exploration and terrestrial applications. In this context,
photosynthetic microalgae cultivation could be an interesting
opportunity because of their reduced water footprint compared to
crops and the possibility of growing in different environmental
conditions using wastewater as a nitrogen and phosphorous source. 1 Introduction The green alga Chlamydomonas reinhardtii is a model organism
for microalgae and is one of the most used species for laboratory
research purposes (fundamental and applied research) because it
has fast growth, does not require expensive supplements or an
elaborate system for cultivation, is capable of sexual reproduction,
and is easily engineered by genetic manipulation of nuclear,
chloroplast, and mitochondrial genomes. The rapid advancements
in recombinant protein production in this host suggest that in the
near future, it could have an important role in the production of
compounds of interest for the pharmaceutical and nutraceutical
industries (Masi et al., 2023). In addition, it has recently received the
Generally Recognized As Safe (GRAS) certification from the FDA
for food applications. Recently, C. reinhardtii was reported having a
positive effect for gastrointestinal function when used as functional
food ingredient in both murine and human models (Fields et al.,
2020). Metabolic engineering approaches have been proposed to
improve carbon storage in lipids; however, little effort has been
made to improve carbon storage in proteins in C. reinhardtii. In this study, heterologous expression of zeolin was obtained in
the green alga C. reinhardtii which could play an integral role in
paving the way for the production of a microalgal superfood source. Zeolin gene, previously expressed in tobacco leaves (Mainieri et al.,
2004), was here completely redesigned in order to optimize its
expression in C. reinhardtii. Four different vectors were designed to
express and accumulate the targeted or retained protein of interest
in the endoplasmic reticulum of C. reinhardtii. The different
expression vectors were characterized for having specific
sequences at N and/or C terminus to achieve ER localization of
zeolin: phaseolin or BIP signal peptide was used to target the protein
inside the ER, while HDEL sequence was added as an ER
retention sequence. Seed storage proteins accumulate at high levels in seeds as
nitrogen, carbon, and sulfur reserves and are then used during seed
germination. They do not have any enzymatic function and
accumulate in the protein bodies (Krishnan and Coe, 2001). Seed
storage proteins of legumes and cereals are two major sources of
proteins for humans. From a nutritional perspective, they
complement each other: the storage proteins from legumes are
poor in sulfur amino acids, and those from cereals are poor in lysine
and tryptophan. 1 Introduction Food production is one of the key challenges faced in supporting life in extra-terrestrial
environments for space exploration. Several constraints are present when planning food
production in spacecraft or in enclosed environments under harsh conditions, such as
limited water and oxygen on the Moon or Mars, cosmic radiation, requirements for Frontiers in Plant Science 01 frontiersin.org Perozeni et al. 10.3389/fpls.2023.1184064 nutrient recovery from wastes, and limited spaces. With increasing
population, food demands, and desire for healthier lifestyles,
alternative sources of functional foods are important for space
exploration and terrestrial applications. In this context,
photosynthetic microalgae cultivation could be an interesting
opportunity because of their reduced water footprint compared to
crops and the possibility of growing in different environmental
conditions using wastewater as a nitrogen and phosphorous source. The presence of carbon concentration mechanisms in microalgae
and the absence of non-photosynthetic tissue, as in the case of
vascular plants, allow microalgae to efficiently assimilate CO2,
releasing oxygen as a byproduct of the photosynthetic process
(Onyeaka et al., 2021). Moreover, the biomass produced by
microalgae has considerable nutritional value and contains
relatively high concentrations of proteins, polyunsaturated fatty
acids, polysaccharides, pigments, vitamins, minerals, phenolic
compounds and sterols (Camacho et al., 2019). Microalgae
biomass has also been reported to be enriched in copper and
iron, potentially matching 21% and 11% of the Required Daily
Allowance (RDA) for these metals (Koyande et al., 2019). Therefore, microalgae could be considered to enhance CO2
sequestration, recover nutrients from waste, and produce edible
biomass, with several species already approved as novel foods by the
European Food Safety Association (EFSA) and the U.S. Food and
Drug Administration (FDA) (Torres-Tiji et al., 2020; Mendes
et al., 2022). 2016; Khan et al., 2019). Phaseolin, a glycoprotein belonging to the
7S vicilin class, is the major seed storage protein in the common
bean. Each phaseolin polypeptide is cotranslationally glycosylated
in the endoplasmic reticulum (ER) lumen (De La Fuente et al.,
2012). being a trimeric high-mannose glycosylated protein of
approximately 150 kDa, containing almost identical monomers
with a molecular mass ranging from 45 to 51 kDa and isoelectric
points of 5.6 to 5.8 (Sathe, 2016). Maize endosperm zein protein
belongs to the prolamin family, which are the most abundant type
of proteins stored in cereal seeds such as wheat, maize, sorghum,
rice, and barley. Frontiers in Plant Science 2.2 Construction of transformation vectors,
transformation, and mutant screening The zeolin-expressing vectors for C. reinhardtii transformation
were prepared as follows. Starting from the amino acid sequence of
zeolin (Supplementary Figure S1), the nucleotide sequence was
optimized in silico, considering C. reinhardtii codon usage using
Optimizer online tool (Puigbò et al., 2007). The mVenus (YFP)
fluorescent coding sequence was added at the C-terminus of zeolin
as an expression reporter for the selection of expression lines. A GSG-
linker was also added between zeolin and YFP to allow the correct
folding of the two proteins. To enhance protein expression and
accumulation, RuBisCO introns were added to the coding sequence. Three rbcs2 intron 1 copies were inserted into the zeolin sequence, and
rbcs2 intron 2 was added to the mVenus sequence according to the
protocol designed by Baier et al. (Baier et al., 2018b). The optimized
synthetic zeolin sequence is shown in Supplementary Figure S2. Additional peptides were then added at the N- or C-terminus to
drive intracellular localization of zeolin: N terminus of the C. reinhardtii BiP1 protein (A8I7T8, herein named BiP) was used to
drive ER localization, while HDEL ER retention sequence was added
at the C-terminus (Rasala et al., 2014) as reported in the schematic
diagram of the different vectors used in Figure 1. 2.1 Algal strains and culture conditions C. reinhardtii UVM4 (UV-mediated mutant 4) (Neupert et al.,
2009) strain was used as the background for all the transformations. Algal cells were cultivated under mixotrophic conditions using Tris-
acetate-phosphate (TAP) (Kropat et al., 2011)in shaker flasks at 25°C
and 100–150 mmol photons m−2 s−1 of continuous white light, unless
otherwise stated. Cultivation on solidified agar plates was performed
under the same conditions. The different vectors were then used to transform the microalga
C. reinhardtii; the UVM4 mutant strain, previously selected for
efficient heterologous protein transformation, was adopted as the
background (Neupert et al., 2009). Stable nuclear transformation
was performed by glass beads agitation as previously described
(Kindle, 1990). Transformants were selected on TAP agar plates
supplied with 12 mg/mL of paromomycin for 6–7 days at a light
intensity of 200 mmol photons m−2 s−1. Antibiotic-resistant colonies
were cultivated in 96–well microtiter plates at a light intensity of 200
mmol photons m−2 s−1 until they were sufficiently dense. YFP
fluorescence was measured using an Infinite PRO 200 plate
reader (TECAN, Switzerland) with excitation at 509 ± 4.5 nm
and emission at 540 ± 10 nm. Signals were normalized to 720 nm
absorbance (cell scattering) to determine the highest expressing
lines (Pivato et al., 2021). 2 Materials and methods
2.1 Algal strains and culture conditions 2 Materials and methods The synthesized nucleotide sequence (Thermo Scientific, USA)
was BamHI-BglII cloned into a pOpt2 modified vector. This vector
was modified from the original pOpt2 (Lauersen et al., 2015)
containing a 10x H-tag instead of S-tag. Conversely, BIP sequence
was amplified with specific primer from pCM0-056 vector included
in MocloToolkit (Crozet et al., 2018) and NdeI-BamHI cloned into
pOpt2_Zeolin_YFP_Paro vector while the HDEL sequence was
inserted into pOpt2_Zeolin_YFP_Paro and pOpt2_BIP_Zeo
lin_YFP_Paro by amplification of YFP with overhang primers
and subsequent BglII-EcoRI cloning. 1 Introduction Among the different storage proteins, phaseolins
and zeins have been extensively studied as the main seed storage
proteins in legumes and cereals, respectively (Suárez-Martı́nez et al., 02 frontiersin.org Perozeni et al. 10.3389/fpls.2023.1184064 10.3389/fpls.2023.1184064 2.3 Total protein extraction, SDS-PAGE,
and western blotting Total cells, exhaust growth media, and purified proteins were
separated using SDS-PAGE (Laemmli, 1970). Separated proteins
were stained using Coomassie Brilliant Blue solution or analyzed by
immunodetection using an anti-GFP (Green Fluorescent Protein)
antibody (Agrisera, Sweden). Protein accumulation over time in
cells or supernatants was assessed by loading the same number of FIGURE 1
Zeolin expression vectors. Schematic overview of all expression vectors used in this work. All expression cassettes use the HSP70A-Rbcs2 hybrid
promoter (containing rbcs2 intron 1 and its 5′ UTR), and coding sequence are in frame with mVenus (YFP) sequence to generate a fusion protein. BIP1 target peptide (blue) directs proteins into ER. HDEL sequence (red) is used to retain proteins into ER. All proteins expressed carry a 10x H-tag at
the C-terminus (purple). Intron 1 (i1) and 2 (i2) of rbcs2 are depicted in grey color. FIGURE 1
Zeolin expression vectors. Schematic overview of all expression vectors used in this work. All expression cassettes use the HSP70A-Rbcs2 hybrid
promoter (containing rbcs2 intron 1 and its 5′ UTR), and coding sequence are in frame with mVenus (YFP) sequence to generate a fusion protein. BIP1 target peptide (blue) directs proteins into ER. HDEL sequence (red) is used to retain proteins into ER. All proteins expressed carry a 10x H-tag at
the C-terminus (purple). Intron 1 (i1) and 2 (i2) of rbcs2 are depicted in grey color. 03 Frontiers in Plant Science frontiersin.org Perozeni et al. 10.3389/fpls.2023.1184064 10.3389/fpls.2023.1184064 reported in detailed in the Materials and Methods section. Previous work demonstrated that the highest zeolin accumulation
in tobacco leaves was obtained when the protein accumulated in the
ER while chloroplast localization was not efficient; therefore,
chloroplast localization was not considered in this study. Instead,
ER was targeted for intracellular zeolin localization. The zeolin
sequence used in this study included a phaseolin N-terminus signal
peptide, which was reported in tobacco to drive protein
accumulation in the ER (expression vector Zeolin_YFP). To
ensure a higher probability of the protein being targeted into the
ER, a vector with an N-terminus signal peptide of the HSP70
molecular chaperone BiP (BiP1) from C. reinhardtii (Rasala et al.,
2014) was also prepared (expression vector BiP_Zeolin_YFP). Frontiers in Plant Science 2.3 Total protein extraction, SDS-PAGE,
and western blotting Finally, because successful zeolin protein expression in Nicotiana
tabacum was obtained when zeolin was retained in the ER-forming
protein bodies, expression vectors containing an ER retention
sequence at the C-terminus of zeolin were obtained using the
HDEL sequence previously reported to improve the retention of
proteins in this compartment in C. reinhardtii (Rasala et al., 2014). HDEL sequences were added at the C-terminus of zeolin either in
presence (BiP_Zeolin_YFP_Erseq expression vector) or absence
(Zeolin_YFP_Erseq expression vector) of BiP signal sequence at
N-terminus. A scheme of the different vectors adopted in this study
is shown in Figure 1. The different vectors were then used to
transform the microalga C. reinhardtii; the UVM4 mutant strain,
previously selected for efficient heterologous protein
transformation, was adopted as the background (Neupert
et al., 2009). cells and the equivalent volume of growth medium obtained after
centrifugation to remove cells followed by concentration using
membrane spin columns (GE Healthcare, USA). The cell density
was measured using Countess 3 (Thermo Scientific, USA). Protein
quantification was performed by densitometric analysis using
ImageLab software and recombinant YFP produced in E.coli
as standard. 2.4 Zeolin purification Zeolin_YFP was purified from BIP_Zeolin_YFP expressing
lines, exploiting the presence of the H-tag at the C-terminus of
the recombinant protein. After 4 days of cultivation, 1 L of culture
was subjected to centrifugation to remove the cells, and the resulting
supernatant containing secreted Zeolin_YFP was loaded onto an H-
tag chromatographic affinity column. The elution was performed
using 500 mM imidazole. 2.6 Confocal microscopy The subcellular localization of Zeolin_YFP was examined by
confocal microscopy. Images were recorded using a Leica TCS-SP5
inverted confocal microscope (Leica Microsystems, Germany). mVenus (YFP) and chlorophyll were excited at 514 nm, and
fluorescence emissions were detected at 522–572 nm and 680–720
nm for YFP and chlorophyll a, respectively as previously reported
(Pivato et al., 2021). A
B
FIGURE 2
Fluorescence screening and Western blot analysis. (A) Fluorescence
screening on putative BIP_Zeolin_YFP expressing lines (excitation: 509
± 4.5 nm; emission: 540 ± 10 nm). (B) Western blot against YFP on
putative BIP_Zeolin_YFP expressing lines (expected MW 85.5 kDa). A 2.5 Growth analysis Cell density was measured at 720 nm OD, and total dry biomass
was evaluated by overnight lyophilization pellets followed by
gravimetric determination as previously reported (Pivato et al.,
2021). Cell dimension was measured by software analysis on
microscope photos with n>70 (Perozeni et al., 2018). Statistical
analysis was performed using a two-tailed t-test and compared with
the UVM4. Putative transformant lines with the highest YFP fluorescence
(at least 2-fold compared to the average YFP fluorescence emission
of the screened lines) were then selected and investigated by western
blotting (Figure 2). As reported in Figure 2 and Supplementary
Figures S3–S5, positive signals at ~80 kDa were identified for all the
expression vectors used (Table 1). Considering the expected
molecular weight of ~85.5 kDa for the mature zeolin-YFP
protein, the slightly lower molecular weight observed could be
related to additional proteolysis of the protein. The lines with the 3.1 Zeolin expression in
Chlamydomonas reinhardtii B Zeolin expression in C. reinhardtii was designed starting from
the amino acid sequence previously expressed in tobacco (Mainieri
et al., 2004) obtained by fusing T343 phaseolin from Phaseolus
vulgaris L., including its signal peptide, with an unstructured 15
amino acids linker and 89 amino acids of mature g-zein from Zea
mays (Supplementary Figure S1). Zeolin gene for heterologous
expression in C. reinhardtii was synthetically redesigned by codon
optimization and intron spreading to enhance transgene
expression, as previously described (Baier et al., 2018b) and FIGURE 2
Fluorescence screening and Western blot analysis. (A) Fluorescence
screening on putative BIP_Zeolin_YFP expressing lines (excitation: 509
± 4.5 nm; emission: 540 ± 10 nm). (B) Western blot against YFP on
putative BIP_Zeolin_YFP expressing lines (expected MW 85.5 kDa). FIGURE 2
Fluorescence screening and Western blot analysis. (A) Fluorescence
screening on putative BIP_Zeolin_YFP expressing lines (excitation: 509
± 4.5 nm; emission: 540 ± 10 nm). (B) Western blot against YFP on
putative BIP_Zeolin_YFP expressing lines (expected MW 85.5 kDa). 04 frontiersin.org Perozeni et al. 10.3389/fpls.2023.1184064 TABLE 1 Numbers of lines screened by YFP fluorescence and western blotting. TABLE 1 Numbers of lines screened by YFP fluorescence and western blotting. Expression vector
Transformant
screened
YFP positive lines
Lines selected (YFP
fluorescence)
Zeolin-YFP expressing
lines (western blot)
Zeolin_YFP
192
45
8
5
BiP_Zeolin_YFP
96
39
6
1
Zeolin_YFP_ERseq_
192
20
5
5
BiP_Zeolin_YFP_ERseq
168
83
5
1
‘YFP positive lines’ refers to the transformant lines with an increase in YFP fluorescence of at least two-fold after normalization to the cell scattering at 720 nm, compared to the average of the 20
lines with the lowest YFP fluorescence emission per 720-nm cell scattering. The lines selected after YFP screening are those whose YFP fluorescence showed an increase of at least 3-fold compared
to the average of the 20 lines with the lowest YFP fluorescence emission per 720-nm cell scattering. Expression vector
Transformant
screened
YFP positive lines
Lines selected (YFP
fluorescence)
Zeolin-YFP expressing
lines (western blot)
Zeolin_YFP
192
45
8
5
BiP_Zeolin_YFP
96
39
6
1
Zeolin_YFP_ERseq_
192
20
5
5
BiP_Zeolin_YFP_ERseq
168
83
5
1
‘YFP positive lines’ refers to the transformant lines with an increase in YFP fluorescence of at least two-fold after normalization to the cell scattering at 720 nm, compared to the average of the 20
lines with the lowest YFP fluorescence emission per 720-nm cell scattering. 3.1 Zeolin expression in
Chlamydomonas reinhardtii The lines selected after YFP screening are those whose YFP fluorescence showed an increase of at least 3-fold compared
to the average of the 20 lines with the lowest YFP fluorescence emission per 720-nm cell scattering. YFP positive lines’ refers to the transformant lines with an increase in YFP fluorescence of at least two-fold after normalization to the cell scattering at 720 nm, compared to the average of the 20
ines with the lowest YFP fluorescence emission per 720-nm cell scattering. The lines selected after YFP screening are those whose YFP fluorescence showed an increase of at least 3-fold compared
o the average of the 20 lines with the lowest YFP fluorescence emission per 720-nm cell scattering. strongest accumulation of zeolin-YFP complex (D2.2 for
Zeolin_YFP, F7 for BiP_Zeolin_YFP, E9.1, Zeolin_YFP_ER and
B5.1 for BiP_Zeolin_YFP_ER, respectively) were then used for the
following analysis. chloroplast localization. However, in some cases, the zeolin-YFP
complex in Zeolin_YFP_ERseq transformant lines was found to be
located in defined spherical structures with extremely high
fluorescence, which can be reconducted to protein bodies, and the
formation of protein bodies was reported in tobacco leaves to
significantly increase the intracellular accumulation of zeolin
(Mainieri et al., 2004). The variability observed in terms of protein
body formation in Zeolin_YFP_ ERseq-expressing cells could be
related to a different level of expression, with protein body
formation where zeolin-YFP expression reached a certain level. Finally, the addition of both the BIP target peptide and the HDEL
retention sequence gives confocal microscopy a hybrid picture. Proteins are both located in filaments around the nucleus but also
in high-fluorescence circular bodies. 3.2 Zeolin localization The presence of YFP fused to zeolin allowed the investigation of
the zeolin-YFP complex localization by confocal microscopy
(Figure 3). In the case of cells transformed with the Zeolin_YFP
vector, the YFP signal was measured around the nucleus and did not
overlap with the chlorophyll fluorescence signal (second column),
which can be reconducted to ER localization according to literature
(Rasala et al., 2014). The same behavior was observed in BiP_Zeolin_
YFP-expressing lines, demonstrating that either phaseolin or BiP N-
terminus signal peptides drive zeolin translation in the ER. In the case
of Zeolin_YFP_ERseq, where the ER retention sequence HDEL was
added at the C-terminus of the zeolin-YFP complex, the YFP
fluorescence signal was again detected as a net around the nucleus,
consisting of ER localization and excluding nucleus, cytosol, or 3.3 Zeolin influence on cell growth The influence of zeolin-YFP expression on cell growth and
biomass productivity was analyzed by cultivating the transformed
lines in mixotrophic conditions under high (500 µmol m-ss-1) or low
light (80 µmol m-ss-1) conditions. Cell scattering at 720 nm was used to
follow the growth kinetics of the zeolin-expressing lines and their
background UVM4. As shown in Figure 4, similar growth kinetics
were observed for cells grown under low or high light conditions. Under either low or high light conditions, a slightly reduced growth
could be observed for zeolin-expressing lines compared to UVM4 on
the first days of cultivation, but on the second day under low light or
on the third day under high light, no significant difference could be
observed between transformed lines and UVM4. The cell areas of the
different lines grown at 80 or 500 µmol m-ss-1 were then measured. Similar values between the different genotypes were retrieved and
investigated for cells grown under high or low light. Biomass dry
weight was also measured at the end of the growth curves, as shown in
Figure 4 Under high light conditions, increased biomass production
was observed compared to low light conditions, likely a consequence
of the increased light energy available. Under both low and high light
conditions, the dry weights of the different zeolin-expressing lines
were similar to those of UVM4, except for the Zeolin_YFP_ERseq
transformant line, which was characterized by a slightly reduced dry
weight compared to its background under both light conditions. Interestingly, the Zeolin_YFP_ERseq vector was the best condition
for inducing zeolin accumulation in protein bodies, which could
potentially have a minor negative effect on cell growth. FIGURE 3
Zeolin localization. Analysis of endogenous (first line) or additional
(lines 2–5) Zeolin_YFP target peptide. YFP fluorescence (YFP),
chlorophyll autofluorescence (Chl), and merger of these two
channels are shown. Excitation for YFP was 514 nm and 633 nm for
chlorophylls. Emission was detected at 522–572 nm for YFP and
670–690 nm for chlorophylls. Scale bar represents 5 µm. FIGURE 3
Zeolin localization. Analysis of endogenous (first line) or additional
(lines 2–5) Zeolin_YFP target peptide. YFP fluorescence (YFP),
chlorophyll autofluorescence (Chl), and merger of these two
channels are shown. Excitation for YFP was 514 nm and 633 nm for
chlorophylls. Emission was detected at 522–572 nm for YFP and
670–690 nm for chlorophylls. Scale bar represents 5 µm. FIGURE 3
Zeolin localization. 3.3 Zeolin influence on cell growth Analysis of endogenous (first line) or additional
(lines 2–5) Zeolin_YFP target peptide. YFP fluorescence (YFP),
chlorophyll autofluorescence (Chl), and merger of these two
channels are shown. Excitation for YFP was 514 nm and 633 nm for
chlorophylls. Emission was detected at 522–572 nm for YFP and
670–690 nm for chlorophylls. Scale bar represents 5 µm. frontiersin.org 05 Frontiers in Plant Science Perozeni et al. 10.3389/fpls.2023.1184064 A
B
C
FIGURE 4
Expressing lines growth performance. Growth test was conducted in mixotrophy (TAP) in low (80 mmol photons m-2 s-2) or high (500 mmol
photons m-2 s-2) light. 720 nm optical density (A), cell dimensions (B) as well as dry biomass (C) were evaluated. The significantly different values (P
< 0.05) in panels B and C are indicated with different letters. For cell areas (B) n=70 while for dry weight values (C) n=3. A
B A
B B FIGURE 4
Expressing lines growth performance. Growth test was conducted in mixotrophy (TAP) in low (80 mmol photons m-2 s-2) or high (500 mmol
photons m-2 s-2) light. 720 nm optical density (A), cell dimensions (B) as well as dry biomass (C) were evaluated. The significantly different values (P
< 0.05) in panels B and C are indicated with different letters. For cell areas (B) n=70 while for dry weight values (C) n=3. Frontiers in Plant Science 3.4 Zeolin is retained in ER only in the
presence of HDEL sequence In contrast, as
shown in Figure 5, for the Zeolin_YFP transformed line, a double
band at ~80 kDa was detected in cells harvested after 1 d of
cultivation, which strongly decreased in the following days of
cultivation, accompanied by an increase in the zeolin-YFP signal
at higher molecular weight (~140 kDa) appearing in the
supernatant, suggesting a possible secretion in dimeric form (see
below for further details). The observation of a double band of the
zeolin-YFP complex suggests the presence of partial protein
degradation, as previously observed in the case of zeolin
expressed in tobacco leaves (Mainieri et al., 2004), whereas the
appearance of a clear band in the supernatants suggests zeolin-YFP
protein secretion. Similar results were obtained for
BiP_Zeolin_YFP, where most of the zeolin-YFP complexes were
present in the supernatant after 3 or 4 d of cultivation. Completely
different results were obtained in the case of Zeolin_YFP_ERseq
transformant lines; in this case, YFP positive signals as a double
band at ~80 kDa were observed only in cells for all four days of cultivation, while no zeolin-YFP could be detected in the growth
medium. This result suggests that zeolin-YFP was successfully
retained inside the cell and was not secreted in the presence of
the HDEL sequence. In the case of the BIP_Zeolin_YFP_ERseq line,
where both BiP and HDEL sequences were added to the N- and C-
termini of the zeolin-YFP complex, a double band was detected at
80 kDa in the pellet samples, with the strongest protein signal
observed on the second day in the pellet, whereas in the
supernatant, a clear band appeared only on the fourth day. These
results suggest that in the presence of both the BiP signal peptide
and HDEL ER retention signal, the secretion of the protein is
present yet delayed compared to when the HDEL sequence is absent
(Zeolin_YFP and BiP_Zeolin_YFP). A possible explanation could
be that the double signal peptide (the one contained in the zeolin
sequence and the extra one from Bip) delays the folding of the
protein, which is therefore retained in the ER for longer periods
before being secreted, resulting in an intermediate phenotype
compared to the case in which only one of the two sequences was
added to the zeolin-YFP complex. A
B
D
C
FIGURE 5
Zeolin accumulation and distribution. 3.4 Zeolin is retained in ER only in the
presence of HDEL sequence western blot analysis of cells and growth media was performed at
different times of cultivation. UVM4 and zeolin-expressing lines
were cultivated for up to 4 d in TAP medium at 200 µmol m-ss-1. At
different cultivation times, cells were harvested by centrifugation,
and pellets and supernatants were separately analyzed by western
blotting using a-GFP antibody recognizing the zeolin-YFP
complex. In the case of UVM4, no YFP bands were detected in Zeolin is retained in the ER of plant leaves. In the case of C. reinhardtii, proteins targeted to the ER were reported to be secreted
in several locations and loaded in vesicles targeted to the plasma
membrane. To monitor zeolin secretion in the expressing lines, 06 frontiersin.org Perozeni et al. 10.3389/fpls.2023.1184064 cultivation, while no zeolin-YFP could be detected in the growth
medium. This result suggests that zeolin-YFP was successfully
retained inside the cell and was not secreted in the presence of
the HDEL sequence. In the case of the BIP_Zeolin_YFP_ERseq line,
where both BiP and HDEL sequences were added to the N- and C-
termini of the zeolin-YFP complex, a double band was detected at
80 kDa in the pellet samples, with the strongest protein signal
observed on the second day in the pellet, whereas in the
supernatant, a clear band appeared only on the fourth day. These
results suggest that in the presence of both the BiP signal peptide
and HDEL ER retention signal, the secretion of the protein is
present yet delayed compared to when the HDEL sequence is absent
(Zeolin_YFP and BiP_Zeolin_YFP). A possible explanation could
be that the double signal peptide (the one contained in the zeolin
sequence and the extra one from Bip) delays the folding of the
protein, which is therefore retained in the ER for longer periods
before being secreted, resulting in an intermediate phenotype
compared to the case in which only one of the two sequences was
added to the zeolin-YFP complex. cells or in the exhausted growth medium during the four days of
sampling, as expected (Supplementary Figure S6). Frontiers in Plant Science 3.4 Zeolin is retained in ER only in the
presence of HDEL sequence light energy to assimilate CO2 and inorganic nutrients into edible
biomass without competing for land and water with other food
crops. Moreover, the high photosynthetic efficiency of microalgae
and their lower water footprint compared to crops make these
organisms potential candidates to support life during space
exploration as food and oxygen providers. The protein content of
microalgae is species-related, but typically is very high, ranging
from 30 to 60% of the total dry matter (Wang et al., 2021). The goal
of this study was to further modify the protein content by
introducing a storage protein with balanced amino acids, which
could potentially accumulate in protein bodies. Zeolin localization
in the ER was targeted because this compartment is a suitable
organelle for protein accumulation, and previous studies in tobacco
have shown that zeolin reaches a high concentration in the ER-
forming inclusion body. Zeolin_YFP-expressing lines were stable and showed protein
accumulation in the ER at the initial stage of cultivation, whereas
zeolin-YFP secretion was observed in the mid-exponential and
saturation phases. These results demonstrate that the N-terminus
phaseolin signal peptide is recognized as an entry signal to the
secretory pathway in C. reinhardtii. The secretion of zeolin-YFP
further support the transient ER localization of the protein, being
the translation in the ER required for the secretion of heterologous
proteins in C. reinhardtii (Lauersen et al., 2013; Rasala et al., 2014;
Baier et al., 2018a; Molino et al., 2018). Zeolin-YFP secretion is
likely at the base of some discrepancy observed between YFP
screening and western blot analysis of transformant lines
(Figure 2; Supplementary Figures S3–5) because the cells were not
synchronized for this screening procedure. In Nicotiana tabacum,
zeolin forms protein bodies in the ER; however, considering that the
two hosts have two different cell structures, it is reasonable that the
mechanism is not conserved. The secretion of zeolin-YFP in the
engineered strains described herein demonstrates that the
mechanism of ER retention is different in zeolin-expressing
tobacco leaves and C. reinhardtii cells. Alternatively, it is possible
that YFP at the C-terminus of the recombinant zeolin-YFP complex
negatively affects ER retention and protein body formation. HDEL
addition at the C-terminus led to retention of the protein inside the
ER. Even if we cannot exclude the possibility that a fraction of zeolin
may be confined in the cytosol, interfering with ER import. 3.4 Zeolin is retained in ER only in the
presence of HDEL sequence Western blot analysis showing protein accumulation at different days of cultivation in expressing lines either in
the cell (inside) or secreted in the supernatant (outside). Data are referred to Zeolin_YFP (A), BIP_Zeolin_YFP (B), Zeolin_YFP_Erseq (C) and
BIP_Zeolin_YFP_Erseq (D). The negative control is marked with (-) and is represented by UVM4 supernatant at day 4. A A B B C C D D D FIGURE 5
Zeolin accumulation and distribution. Western blot analysis showing protein accumulation at different days of cultivation in expressing lines either in
the cell (inside) or secreted in the supernatant (outside). Data are referred to Zeolin_YFP (A), BIP_Zeolin_YFP (B), Zeolin_YFP_Erseq (C) and
BIP_Zeolin_YFP_Erseq (D). The negative control is marked with (-) and is represented by UVM4 supernatant at day 4. Frontiers in Plant Science 07 07 frontiersin.org Perozeni et al. Perozeni et al. 10.3389/fpls.2023.1184064 10.3389/fpls.2023.1184064 The zeolin-YFP complex secreted in the expression lines
Zeolin_YFP, BiP_Zeoin_YFP, and BIP_Zeolin_YFP_ERseq was
detected at a higher molecular weight than the zeolin-YFP
complex retained in the cells (Figure 5). The higher molecular
weight of the secreted protein can be caused by a post-translational
modification (i.e., N-glycosylation, as in phaseolin) or by
interference in the electrophoretic pathway, caused by the salts
contained in the growth medium or by the formation of complex
aggregates in the secreted proteins. Another possibility is that the
protein forms a dimer once it reaches the extracellular space, which
would explain the molecular weight of approximately 150 kDa,
which is exactly double the weight of the protein found inside the
cells. To investigate the latter hypothesis, the secreted zeolin_YFP
was purified from the growth medium by affinity chromatography
owing to the presence of a His tag at the C-terminus. The purified
zeolin-YFP was studied by western blot analysis. As shown in
Supplementary Figure S7, a band of approximately 150 kDa was
detected with the YFP antibody; these data are consistent with what
was previously observed in western blot analysis of the supernatant. To clarify the nature of the 150 kDa band, western blot analysis was
repeated by incubating the purified Zeolin-YFP complex at 100°C
for 5 min to interrupt possible states of aggregation. Heat treatment
resulted in a decrease in the molecular weight of the protein, while
the intensity of the band remained the same, possibly indicating
that the higher apparent molecular weight migration was due to the
formation of zeolin-YFP dimers. 3.4 Zeolin is retained in ER only in the
presence of HDEL sequence ER
retention mediated by the HDEL sequence caused the formation of
protein bodies, which were clearly visible by confocal microscopy. As previously suggested, zeolin protein bodies are likely too large to
be packed in vesicles entering the secretion pathway (Mainieri et al.,
2004). The simultaneous addition of the BiP signal peptide at the N-
terminus and HDEL at the C-terminus led to an intermediate
phenotype, with most zeolin-YFP retained in the cells even after
two days of cultivation, whereas at the saturation phase (days 3 and
4), the chimeric protein was essentially secreted. According to these
results, the presence of the BIP transit peptide strongly improved
the ER localization of zeolin-YFP and its delivery in the secretion
pathway, while the HDEL sequence at the C-terminus increased its
retention in the ER. It is important to note that in plants, both
KDEL and HDEL ER retention signals also promote protein
delivery into the vacuole (Gomord et al., 1997): In the case of C. reinhardtii, HDEL sequence was reported to induce ER retention, The quantification of the zeolin accumulated in the cells or
secreted into the medium is reported in Figure 6 and was calculated
using isolated YFP as a standard. The maximum zeolin
accumulation per cell was observed in the Zeolin_YFP_ERseq
expressing line after two days of cultivation. The reduced content
on the fourth day suggested that zeolin protein bodies accumulated
in the Zeolin_YFP_ Erseq-expressing line were partially degraded
and/or their biosynthesis was reduced during cell cultivation. Finally, the total protein content in the different zeolin-expressing
lines was analyzed, as reported in Table 2. Similar total protein
content was measured in all the different zeolin-expressing lines
compared to the UVM4 background, even though a slight increase
in the total protein fraction per cell could be observed in the case of
Zeolin_YFP_Erseq compared to Zeolin_YFP and BiP_Zeoin_YFP
transformant lines. Frontiers in Plant Science frontiersin.org 4 Discussion Seed storage proteins in legumes and cereals are the two main
sources of protein for human nutrition. However, seed storage
proteins from legumes are poor in sulfur amino acids, whereas
cereal proteins are poor in Lysine and Tryptophan. Zeolin, the
chimeric protein obtained by fusing phaseolin and zein, was
proposed as a possible solution to provide a complete and
balanced amino acid nutrition profile (Mainieri et al., 2004). In
this study, we obtained heterologous expression of zeolin in the
model organism for the green alga C. reinhardtii, which can be
considered a novel sustainable protein source, with its ability to use 08 frontiersin.org 10.3389/fpls.2023.1184064 Perozeni et al. A
B
C
FIGURE 6
Zeolin quantification. (A) Quantitative western blot of Zeolin accumulating lines both for cell (inside) and supernatant (outside). YFP used as standard
is shown with the loaded amount. (B) Zeolin quantification inside cell for zeolin expressing lines at day 1 and 2. (C) Zeolin quantification into
supernatant (outside) for zeolin expressing lines at day 4. Results represent mean values and standard deviation from biological triplicates (n = 3). The significantly differences (P < 0.05) between different genotype at the same time point and same localization (inside or outside the cells) are
indicated with different letters. A A B
C
FIGURE 6
Zeolin quantification. (A) Quantitative western blot of Zeolin accumulating lines both for cell (inside) and supernatant (outside). YFP used as standard
is shown with the loaded amount. (B) Zeolin quantification inside cell for zeolin expressing lines at day 1 and 2. (C) Zeolin quantification into B C B FIGURE 6
Zeolin quantification. (A) Quantitative western blot of Zeolin accumulating lines both for cell (inside) and supernatant (outside). YFP used as standard
is shown with the loaded amount. (B) Zeolin quantification inside cell for zeolin expressing lines at day 1 and 2. (C) Zeolin quantification into
supernatant (outside) for zeolin expressing lines at day 4. Results represent mean values and standard deviation from biological triplicates (n = 3). The significantly differences (P < 0.05) between different genotype at the same time point and same localization (inside or outside the cells) are
indicated with different letters. TABLE 2 Protein content per dry weight of zeolin-YFP expressing lines. TABLE 2 Protein content per dry weight of zeolin-YFP expressing lines. Frontiers in Plant Science 4 Discussion UVM4
Zeolin_YFP
BiP_Zeolin_YFP
Zeolin_YFP_ERseq_
BiP_Zeolin_YFP_ERseq
% protein/total weight
30.9 ± 4.7 a,b
23.8 ± 2.8 b
24.5 ± 2.0 b
35.9 ± 6.1 a,c
29.1 ± 1.1 a,c
Total protein content in the different zeolin-expressing lines measured using micro BCA assay kit (Thermo Fisher). The significantly different values (P< 0.05) are indicated with different letters. protein body formation in the ER, which might induce the onset of
protein degradation pathways. but we cannot exclude that zeolin-YFP with the HDEL sequence at
the C-terminus might be partially delivered to other hydrolytic
compartments in C. reinhardtii cells. The slightly reduced biomass
accumulation observed in Zeolin_YFP_ERseq expressing lines
raises the question of a possible negative effect on growth due to The Zeolin_YFP retained in the cell was detected by SDS-PAGE
as a double band at ~80kDa. The expected molecular weight of the
mature zeolin-YFP complex is 85.5 kDa: the lower apparent 09 frontiersin.org Perozeni et al. 10.3389/fpls.2023.1184064 molecular weight observed may be due to partial proteolysis of the
protein. It is interesting to note that when retained in the cell, the
protein was detected as a double band, as reported by Mainieri et. al., probably referring to the presence of two different proteolytic
products. The secreted zeolin-YFP chimeric protein was detected at
a higher molecular weight (~140 kDa) due to the presence of
protein aggregates (dimers) that can be dissolved upon thermal
treatment (Supplementary Figure S7). The nature of zein can
explain its higher molecular weight; zein appears as a
heterologous zein mix (disulfide-linked aggregates), in which g-
zein is the starting point and is essential for protein body formation. Moreover, post-translational modifications are likely to occur,
probably glycosylation, considering that in beans, phaseolin
monomers are N-glycosylated and transported from the ER and
Golgi complex to the protein storage vacuoles. such as antioxidants or omega-3 fatty acids (Nguyen et al., 2013). With
the objective of obtaining a sustainable superfood with a high
nutritional profile and the ability to convert CO2 and inorganic
nutrients into edible biomass, zeolin expression in C. reinhardtii
combined with metabolic engineering represents a possible solution. Funding This research was funded by CARIVERONA FOUNDATION
(Grant No. 2019.0419.2019) to MB, by the Italian Ministry of
University and Research (MUR, Grant PON Ricerca e Innovazione,
Progetti-Progetti DM 1062) to FP, and by the Department of
Biomolecular Sciences “ food safety” University of Urbino Carlo Bo
(Grant DISB_POMPA_PROG_ SIC_ALIMENTARE). Publisher’s note All claims expressed in this article are solely those of the authors
and do not necessarily represent those of their affiliated organizations,
or those of the publisher, the editors and the reviewers. Any product
that may be evaluated in this article, or claim that may be made by its
manufacturer, is not guaranteed or endorsed by the publisher. In conclusion, we obtained heterologous expression of a chimeric
seed storage protein in a model organism for green alga, C. reinhardtii. Using the ER retention sequence HDEL, it was possible to induce
zeolin accumulation as protein bodies in the ER, even with low
expression efficiency. It is interesting to note that C. reinhardtii has
already been recognized as safe for human consumption by the FDA,
and previous work has demonstrated the possibility of inducing the
accumulation of other compounds important for human nutrition, Frontiers in Plant Science Author contributions Zeolin production yield by engineered strains was quite low,
reaching values of ~6 fg/cell when retained in the ER, whereas a
concentration of ~82 µg/L was obtained when zeolin-YFP was
secreted. Several reasons can explain why the production is low. A
negative effect could be related to the presence of YFP and His tags
and the C-terminus; it is well known that different tags could have
different impacts on protein expression in both prokaryotic and
eukaryotic cells (Baier et al., 2018a; Koppl et al., 2022). Moreover,
we cannot exclude the possibility that the protein could accumulate
and degrade without forming protein bodies. It is important to note
that zeolin retention in the ER is facilitated by the formation of Cys-
bound in its C-terminus region. In our zeolin-YFP chimeric protein,
the C-terminus contains YFP, a 27-kDa protein with a well-defined
secondary structure that can interfere with the formation of Cys bonds
and thus, ER retention. A strategy to fully exploit the zeolin potential is
represented by the expression of zeolite alone, without any
fluorophore. With the exception of the zeolin-YFP variant
presenting the HDEL sequence at the C-terminus, the recombinant
chimeric protein was secreted, excluding possible feedback inhibition
due to protein accumulation. A further possible explanation could be
the correlation between zeolin-YFP production and acetate availability
(carbon source in TAP medium), indicating that depletion of the
carbon source in the first two days causes a decrease in zeolin-YFP
biosynthesis. To study this hypothesis and test C level as a limiting
factor, further experiments must be performed under autotrophy
conditions (CO2 as a C source) or constant acetate
supplementation. In addition to the random nature of gene
insertion, expression is affected by the position effect; thus, by
screening a large number of lines, it is possible to obtain lines with
higher accumulation. Moreover, insertion of multiple gene copies
could have a positive effect on protein accumulation. Finally, we
cannot exclude the possibility that other growth conditions may have
different effects on protein production and accumulation. MB and AP conceived of the study. MB and AP supervised
experiments. FP and MA performed or contributed to all
experiments reported herein. MP performed confocal microscopy
analysis. MB, FP, and AP wrote the manuscript with contributions
from all authors. All authors discussed the results, contributed to
data interpretation, and commented on the manuscript. All authors
contributed to the article and approved the submitted version. Conflict of interest The authors declare that the research was conducted in the
absence of any commercial or financial relationships that could be
construed as a potential conflict of interest. Data availability statement The original contributions presented in the study are included
in the article/Supplementary Material. Further inquiries can be
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La situación en Afganistán y su impacto regional
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La situación en Afganistán y su impacto regional
La situación en Afganistán y su impacto regional
Silvana Lorena Barrios1
Contribución en la Sección Debates Internacionales
Resumen: Luego de veinte años de la presencia de tropas occidentales, tanto
estadounidenses como de la OTAN, la inestabilidad en Afganistán ha sido constante y en
consecuencia el balance de dos décadas de presencia internacional ha sido un fracaso, dado
que no se ha conseguido estabilizar mínimamente al país. Desde hace una década atrás, las
potencias occidentales vislumbran la necesidad de retirarse de un teatro de operaciones sin
salida, pero los costos políticos de esa decisión, de la que nadie quería hacerse cargo, hizo
que la retirada se demorara hasta la actualidad. Dicha situación ha obligado a los países de
mayoría musulmana a reconfigurar su postura frente al conflicto afgano, así como también a
las potencias regionales e intermedias en abierta oposición y/o competencia con occidente.
Desde el principio de la operación, tras los atentados del 11 de septiembre de 2001, los
objetivos de Estados Unidos y de la OTAN no han sido claros, es decir, no fue definido si se
trataba de luchar contra el terrorismo y capturar a Osama bin Laden o de establecer una
Constitución y construir un Estado democrático en una nación multiétnica como Afganistán.
La consecuencia fue la ejecución de una operación que aunó cuestiones diferentes (Burnard,
2021). El resultado, en tanto, fue la construcción de un estado ficticio (Bernabé, 2021).
Introducción
Desde el principio de la operación, tras los atentados del 11 de septiembre de 2001,
los objetivos de Estados Unidos y de la OTAN no han sido claros, es decir, no fue definido si
se trataba de luchar contra el terrorismo y capturar a Osama bin Laden o de establecer una
Constitución y construir un Estado democrático en una nación multiétnica como Afganistán.
La consecuencia fue la ejecución de una operación que aunó cuestiones diferentes (Burnard,
2021). El resultado, en tanto, fue la construcción de un estado ficticio (Bernabé, 2021).
Afganistán se constituye en una preocupación para Asia Central y del Sur
El retorno del régimen Talibán al poder en Afganistán, el 15 de agosto de este año,
devuelve a la región la importancia de ciertos actores estatales obligados a convivir en el
1 Universidad de Buenos Aires, Grupo de Trabajo sobre Asia del Sur, Comité de Asuntos Asiáticos, Consejo
Argentino para las relaciones Internacionales. Correo electrónico: silvanabarrios@gmail.com
pág. 170
ISSN 2362-194X
Journal de Ciencias Sociales Año 10 N° 18
vecindario, que resultan fundamentales al momento de asegurar la estabilidad. Desde su
perspectiva, mantener estable al país se convierten en una prioridad y por ende en un interés
común de esos diversos países, que posibilita también la conciliación de objetivos, incluso
entre países enfrentados en otros contextos, como el caso de Irán y Estados Unidos, por
ejemplo.
Central a este proceso es la figura y actuación de Pakistán, que obró de mediador en
las conversaciones entre Estados Unidos y el movimiento Talibán en Qatar desde su inicio.
Este país comparte la frontera más extensa con Afganistán y registra disputas internas, al
tiempo que precisa garantizar profundidad estratégica frente a la India. Su posición desde la
Conferencia de Bonn de 2001 es aquella de que no hay una solución militar al problema de
Afganistán sino una solución política.
Precisamente India, que ya ha dado cuenta oficial de contactos con el Talibán y ha
tenido relación estrecha con el anterior gobierno afgano, ha buscado contar con Afganistán
como un aliado que permita disuadir a Pakistán desde su retaguardia, teme el resurgimiento
de la violencia en distintos frentes (Cachemira, reclutamientos yihadistas, terrorismo) y al
igual que Pakistán, se encuentra frente a la necesidad de replantear sus políticas de
enfrentamiento tradicionales (Ruiz Arévalo, 2020).
Ambos países (Pakistán e India) han sufrido diversos impactos del conflicto en
Afganistán, a lo largo de los años, que se traducen en inestabilidad y una situación de
inseguridad, las muertes por actos terroristas y la población desplazada que llega a sus
territorios.
Pakistán parece ser el más beneficiado si es que el gobierno Talibán le brindase más
influencia y ventajas en Kabul y así podría convertirse en un fuerte aliado en la región,
alineado con sus valores islámicos. Paradójicamente, también podría ser el gran perjudicado
si el resurgir Talibán envalentona a los grupos islamistas radicales de Pakistán (Roth et al.
2021). Aunque es cierto que sus Fuerzas Armadas han sabido prepararse para la guerra
contrainsurgente en el flanco occidental y para un conflicto tradicional con India, en el flanco
oriental, por ello estarían en capacidad de dar batalla en caso que esta segunda hipótesis se
convierta en realidad.
Por su parte, China, declaró su respeto a la independencia de Afganistán y a su
soberanía territorial y criticó el retiro apresurado y desordenado de las fuerzas extranjeras,
manifestó su voluntad de conservar relaciones con las nuevas autoridades afganas y mantuvo
abierta su embajada en el país (Srinivasan, 2021). Al mismo tiempo han expresado
públicamente su voluntad de mantener buenas relaciones con China, como ha sucedido en
el pasado.
pág. 171
La situación en Afganistán y su impacto regional
Además, hay que recordar que China, Rusia, Pakistán, Qatar, y una pequeña misión
de Indonesia son los únicos países que han decidió mantener abiertas sus embajadas en
Kabul.
Los Talibán esperan apoyo económico de China (de hecho, en la reunión de Ministros
de Relaciones Exteriores de los países que limitan con Afganistán, el Canciller chino, Wang
Yi anunció la donación de 31 millones de dólares en ayudas a ese país), al tiempo que China
busca evitar que Afganistán se convierta en un santuario para los separatistas de la Región
Autónoma Uigur de Xinjiang, o para los grupos rebeldes de la región de Baluchistán, que han
atacado ya intereses chinos en Pakistán.
Sin embargo, la victoria de Talibán no es clara para China, que aún desconfía del
grupo islamista, dado que no cumplieron completamente el acuerdo con Estados Unidos y
podrían actuar de manera similar con ellos. Además, China no tiene experiencia en mediar
en luchas políticas internas de larga data en un país extranjero, por ende, se estima que
todavía está trazando su curso de acción (Brar, 2021).
Rusia, por otro lado, adoptó una actitud que podría denominarse conciliadora hacia el
Talibán, reconociendo la victoria de estos, pero pidiendo un "diálogo nacional" para formar un
gobierno representativo. Aun así, continúa considerando a los Talibán como un grupo
terrorista y teme por la seguridad de las antiguas repúblicas soviéticas de Asia central,
limítrofes con Afganistán (Turkmenistán, Uzbekistán y Tayikistán), frente al posible
resurgimiento de grupos islamistas, con apoyo en ese país, al mismo tiempo que teme por
un desplazamiento masivo de población afgana que busca escapar de la difícil situación
socioeconómica, y la posible escalada en tráfico de drogas.
En consecuencia, Moscú se está preparando para una mayor inestabilidad en la
región, que queda evidenciado en las maniobras militares que ha realizado recientemente
con Uzbekistán y Tayikistán, además de ejercicios militares con China (Roth et al. 2021).
Existen también otras cuestiones afectadas, como podría ser un posible ataque y/o
parálisis de la construcción de un gasoducto que compromete intereses de Pakistán, India y
Turkmenistán, a pesar de que los Talibán han señalado que garantizarían la seguridad de
ese gasoducto. No obstante, se prevé que Rusia estaría dispuesta a defender sus intereses,
dicha afirmación se sostiene en que en 2012 Tayikistán le cedió a este país hasta 2042, la
Base 201ª que está en la capital Dushanbe para ayudar a vigilar la frontera con Afganistán.
La misma fue creada en 2005, tiene 3 instalaciones independientes y cuenta con 5.500
efectivos (Alarabiya News, 2021).
Finalmente, Qatar, ha jugado un papel rol positivo en torno de la retirada
estadounidense de Afganistán y constituyó un apoyo para la colaboración con aquellos que
pág. 172
ISSN 2362-194X
Journal de Ciencias Sociales Año 10 N° 18
intentaban abandonar el país. Suma a su fuerza económica, la militar y de poder blando
(siendo Al Jazeera una referencia internacional en noticias). Como sede de la oficina del
movimiento Talibán afgano, realiza un movimiento arriesgado, que puede tener un alto costo
si el gobierno islamista promueve el terrorismo en la región.
La importancia que juegan estos países en el actual contexto es de tal relevancia para
el grupo Talibán, que invitaron a China, Rusia, Pakistán y Qatar a participar de la ceremonia
de anuncio del nuevo gobierno realizada el 7 de septiembre, además de Turquía e Irán,
citando a Al Jazeera, la cadena oficial de información utilizada por el grupo islamista.
En reciprocidad, Pakistán ha sido el primer país que reanudó los vuelos de aerolíneas
comerciales con el aeropuerto de Kabul, reconstruido por los Talibán. También hay que
mencionar que una aerolínea afgana, reactivó los vuelos locales casi inmediatamente
después de la toma de Kabul por el grupo radical. Por su parte, Qatar nunca ha dejado de
realizar vuelos con carácter humanitario hacía dicho país.
Irán, en tanto, continúa abogando por un gobierno de inclusión en Afganistán y se
espera que continúen las buenas relaciones y el apoyo mientras no ataquen a la minoría de
confesión shiita de habla darí, que habita el país.
Asimismo, cabe considerar que tanto Qatar como Turquía se han ofrecido a operar el
aeropuerto internacional de Kabul, pero aún no se ha definido quien se encargará de hacerlo.
Si bien, todo apuntaría a que la balanza se incline hacia Qatar, dado el mayor compromiso
que ha demostrado con la situación de Afganistán hasta el momento.
Afganistán, mientras tanto, sufre la interna entre los sectores más radicales y los más
pragmáticos de los miembros del grupo Talibán, aunque ello parece no constituir una real
amenaza hasta el momento a su intento de consolidar su poder, legitimarse y efectivamente
abordar los grandes desafíos políticos que tienen.
Por otra parte, frente a la actitud expectante de las Naciones Unidas y el resto de los
países, desde los cuales ha habido reclamos en pro de los derechos de las mujeres, los
líderes Talibán anunciaron que permitirán que las mujeres estudien en la universidad, pero
deberán hacerlo de manera separada de los hombres y observando normas estrictas de
vestimenta y su impacto regional, tal como lo indica la interpretación que ellos hacen de la
shairia (ley islámica).
Conclusión
Los gobiernos vecinos a Afganistán confían en que los Talibán en el poder
actualmente, son diferentes a los que dirigió el mulá Mohammed Omar, ahora se les
considera más pragmáticos, porque han entendido la importancia de ganar influencia política,
pág. 173
La situación en Afganistán y su impacto regional
y son optimistas en que hayan entendido la preocupación de la comunidad internacional y
que protejan los derechos de las minorías, de las mujeres, de los niños, etc. También son
conscientes que esta percepción puede ser errónea, pero esperan no equivocarse.
Los factores mencionados hacen evidente, la necesidad de que la comunidad
internacional reconozca la situación en Afganistán como una situación que tendrá profundas
repercusiones en la estabilidad y la paz en Asia meridional y Asia central y urgentemente
actúe en consecuencia. Es poco probable que el mero gobierno del Talibán mitigue el
desastre humanitario que se está desarrollando, sin ayuda internacional.
Referencias
Alarabiya News (julio de 2021). Russia holds military drills in Tajikistan amid Taliban’s
Afghanistan offensive.
https://english.alarabiya.net/News/world/2021/07/14/Russia-holds-military-drillsin-Tajikistan-amid-Taliban-s-Afghanistan-offensive
Bernabé, M. (agosto de 2021). Afganistán, crónica de una ficción.
https://es.ara.cat/internacional/afganistan-cronica-ficcion_129_4087015.html
Brar, A. (18 de agosto de 2021). Chinese people debating Taliban on Weibo but Beijing still
hesitating on Afghanistan. The Print. https://theprint.in/opinion/eye-onchina/chinese-people-debating-taliban-on-weibo-but-beijing-still-hesitating-onafghanistan/717180/
Burnard, F. (18 de agosto de 2021). Pierre Centlivres: “Pakistán tiene las llaves de
Afganistán” https://www.swissinfo.ch/spa/pierre-centlivres---pakist%C3%A1ntiene-las-llaves-de-afganist%C3%A1n-/46874382
Ruiz Arévalo, J. (2020). El papel de los actores regionales en el proceso de paz afgano.
Revista Instituto Español de Estudios Estratégicos, (16), 221-250.
Roth, A., Ellis-Petersen, H., Ni, V. (17 de agosto de 2021). Los "ganadores" de la vuelta de
los talibanes: China, Pakistán y Rusia aumentarán su influencia. ElDiario.es.
https://www.eldiario.es/internacional/theguardian/ganadores-vuelta-talibaneschina-pakistan-rusia-aumentaran-influencia_1_8226463.html
Srinivasan, R. (16 de agosto de 2021). Between the Devil and the Deep Sea: China's
Options in Afghanistan. Chennai Centre for China Studies (C3S).
https://www.c3sindia.org/defence-security/between-the-devil-and-the-deep-seachinas-options-in-afghanistan-by-gp-capt-dr-r-srinivasan/
pág. 174
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Mortalidade por Câncer Ginecológico no Rio de Janeiro (ex-Estado da Guanabara) 1965/ 73
|
Revista Brasileira de Cancerologia
| 2,023
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cc-by
| 6,289
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Trabalho realizado para o xi congresso Brasileiro
de Ginecologia e Obstetrícia, Rio, 31 de agosto a
6 de setembro de 1975.
Professor Adjunto da Escola Nacional de Saúde
Pública - Fundação Oswaldo cruz. Rio de Janeiro.
Bolsista da Escola Nacional de Saúde Pública -
FIOCRUZ - Rio de Janeiro.
Assessora de Epidemiologia da Secretaria de Saúde
do Rio de Janeiro.
Médico do Serviço de Bioestat(stica da Secretaria
de Saúde do Rio de Janeiro. Mortalidade por Câncer
Ginecológico no Rio de Janeiro
(ex-Estado da Guanabara) 1965/ 73 (1) Eduardo de Azeredo Costa (2)
Carlos Henrique Klein (3)
Alys Bittencourt Furtado (4)
Marcos Fernandes da Silva Moreira (5) Eduardo de Azeredo Costa (2)
Carlos Henrique Klein (3)
Alys Bittencourt Furtado (4)
Marcos Fernandes da Silva Moreira (5) INTRODUÇÃO servado na tabela 1, responsáveis por
cerca de lO°/o do total de óbitos ocorri-
dos nos grupos etários de 35 a 64 anos
Nos grupos etários de 25 a 64 anos mais
de 40% dos óbitos por neoplasias eram
desse grupo de causas. A mortalidade por neoplasias malignas no
Rio de Janeiro tem crescido nos últimos
anos. De 1950 a 1972 o coeficiente por
100 000 habitantes passou de 77,4 para
117,5. Esse aumento, no entanto, foi maior
no sexo masculino do que no feminino:
os respectivos coeficientes no mesmo pe-
ríodo de tempo passaram de 75,7 para
134,7 e de 79,0 para 101,6. g
p
A magnitude do problema, pois, nos esti-
mulou a fazer um estudo descritivo da
mortalidade por câncer ginecológico,
acionando no Rio um esforço cooperati-
vo entre a Escola de Saúde Pública e a
Secretaria de Saúde a área de análise
de dados de registro. O acréscimo verificado no sexo feminino
bem pode estar creditado ao envelheci-
mento da população e maior cobertura de
serviços de saúde no período. A "força"
de mortalidade estaria, pois, em relativa
estabilidade. Isso, no entanto, não signi-
fica que se trata de um problema de pou-
ca importância, já que 13% dos óbitos
ocorridos em mulheres do Rio de Janei-
ro foram devidos a neoplasias malignas. No grupo etário de 35 a 74 anos essa pro-
porção foi de 21°/o. Os tumores malignos da mama e órgãos
genitais femininos que corresponderam a
4,55% do total de óbitos no período
1965/72 e 34,83% dos óbitos por neopla-
sias malignas, foram, como pode ser ob- REVISTA BRASILEIRA DE CANCEROLOGIA NOVEMBRO/DEZEMBRO, 1976 42 rias uterinas elas se equivalem. Na figura 2 apresentamos a situação da
mortalidade por câncer ginecológico no
Rio de Janeiro em relação às cidades in-
cluídas na Investigação Interamericana
de Mortalidade Urbana (10). Note-se que
as populações foram padronizadas por
idade e que o triênio de que dispúnha-
mos para o Rio não é o mesmo das ou-
tras cidades, embora bastante próximo. interessante que o Rio vai se situar en-
tre as cidades de taxas de câncer de ma
ma elevadas e de útero baixas, com um
quadro muito semelhante ao de São Paulo,
ainda que no nosso caso não se tenha
dado peso para causas associadas. Esse
fato julgamos ajudar a validar os dados
que apresentamos. MÉTODOS Os óbitos ocorridos no ex-Estado da Gua-
nabara são reqularmente codificados. A
causa básica de morte é classificada se-
gundo a Classificação Internacional de
Doenças (CID), tendo sido utilizada a 73
Revisão até 1967 e a partir daí @ 8. p
Os óbitos do período 1965/73 já haviam
sido transferidos para cartões perfura-
dos. Os tumores ginecológicos malignos
de todas as categorias constantes da CID
que se mantiveram individualizados nas
duas revisões foram apurados, sendo, no
entanto, posteriormente, reagrupados em
função da localização, quando o número
de óbitos era limitado. Ao pé da tabela 2
apresentamos esses grupos e os núme-
ros dos códigos correspondentes. De to-
dos os demais itens codificados, julga-
mos importante apurar a distribuição por
grupo etário, cor, estado civil, região ad-
ministartiva da residência e local do óbi-
to. Um dado que desse informação sobre
situação sócio-econômica, como ocupa-
ção, não pôde ser processado por falta de
código e classificação adequados. A seguir comentaremos os resultados
por categoria estudada. Tumor Maligno de Mama (170 -
7. revi-
são e 174 -
8.8 revisão) Tumor Maligno de Mama (170 -
7. revi-
são e 174 -
8.8 revisão) )
A par da leve tendência a aumento já re-
ferida, observou-se uma peculiar distri-
buição etária (figuras 3 e 4). No gráfico
semi-logarítmico, como já observara Li-
lienfeld, a curva apresenta rápida eleva-
ção entre os grupos etários de 25 a 34
anos e de 35 a 44 (4). A partir daí sofre
inflexão, diminuindo o ritmo de incremen-
to nas idades mais avançadas. Isso, no
entanto, como pode ser visto na figura 4,
é decorrência de sua função de cresci-
mento ser linear, isto é, há um cresci-
mento constante do tipo aritmético dos
25 anos em diante, que aliás se traduz
por uma reta em qualquer dos triênios
estudados. Geradas as tabelas, as taxas foram cal-
cutadas a partir de estimativas da popu-
lação baseadas nos censos de 1960 e
1970, e projetadas pelo método geomé-
trico. Pela natureza descritiva do estudo não
houve preocupação de maior análise es-
tatística, porém, foram utilizados testes
de hipótese e padronização dos coeficien-
tes, quando oportuno. RESULTADOS E COMENTÁRIOS A figura 1 e a tabela 2 mostram as taxas
de mortalidade por 100 000 mulheres por
ano com a posição relativa das várias ca-
tegorias que utilizamos para classificar
os casos de câncer ginecológico. Embora
o período de observação seja muito pe-
queno, parece haver uma ligeira tendên-
cia a aumento do câncer de mama e do
câncer do corpo uterino, enquanto que o
de colo tenderia a declinar. A localização
mamária é que apresenta as maiores ta-
xas, mas se somarmos todas as catego- A tabela 3 mostra uma taxa, ainda que
padronizada por idade, maior em não
brancas do que em brancas, porém, devi-
do ao fato das estimativas por cor serem
pouco precisas, já que essa característi-
ca não foi incluída no censo de 1970, são
de pouca confiança. Melhor analisada,
então, pela proporção de câncer de ma-
mo sobre o total de câncer ginecoógico,
a mortalidade proporcional foi significan-
temente maior em brancas do que em NOVEMBRO/DEZEMBRO 1976 REVISTA BRASILEIRA DE CANCEROLOGIA 43 não brancas (tabela 4). não brancas (tabela 4). aleatórias são, pois, grandes. A distribuição por região administrativa
(figura 11) mostrou um aspecto peculiar
importante: as taxas mais baixas estão
na zona de condições sócio-econômicas
melhores (Santa Tereza, Botafogo, Copa-
cabana, Tijuca, Vila Izabel) e as mais al-
tas em áreas pobres com grandes con-
centrações populacionais, no já referido
"corredor epidemiológico" de doenças in-
fecciosas do Rio de Janeiro, ou em áreas
de até há poucos anos alta incidência de
meretrício de baixo padrão econômico
(Portuária, Rio Comprido, São Cristóvão,
Ramos, Penha, rajá). Em relação ao estado civil (tabelas 5 e
6) observa-se que, uma vez ajustadas por
idade, a maior taxa recaiu entre soltei-
ras. As demais categorias apresentaram
riscos muito semelhantes. Esse achado
é concordante com o de outros estudos e
traduziria um efeito "protetor" da pari-
dade precoce, com a qual o estado civil
apresentaria, mesmo na sociedade mo-
derna, ainda algum grau de correlação,
como também o apresenta em relação a
outros fatores que podem ser intervenien-
tes em termos de causalidade, como pa-
ridade, lactação e vida sexual ativa. (4,
5,6,7,8,9 e 12). Esses dados concordam com observações
que levaram a crer que o câncer de colo
está relacionado, possivelmente, com
uma causa exógena, possivelmente um
vírus transmitido por contato venéreo,
cujo candidato mais importante é o Her-
pes tipo II (HSVIl). RESULTADOS E COMENTÁRIOS Se isso não for ver-
dade, pelo menos parece certo que se
constitui em doença que está relaciona-
da com promiscuidade sexual, vida se-
xual precoce, número de gestações, núme-
ro de abortos, etc. (1,2,3,11 e 12). A distribuição por região administrativa
mostra que as iegiões com mais altas
taxas são as áreas de maior proporção
de classe média ou alta, tais como: Cen-
tro, Botafogo, Copacabana, Lagoa, Tijuca,
Vila Izabel e Engenho Novo, caindo em
gradiente na direção de Santa Cruz e
Campo Grande (figura 10). Tumor Maligno de Colo Uterino (171 -
7."
revisão e 180 -
8." revisão) Tumor Maligno de Colo Uterino (171 -
7."
revisão e 180 -
8." revisão) Além da ligeira tendência a declinar, já
assinalada anteriormente, o câncer de co-
lo apresenta uma distribuição etária que,
embora muito semelhante à do câncer de
mama até o grupo etário de 35 a 44 anos,
sofre a partir daí um processo de dimi-
nuição do ritmo de incremento (figura 3). Já a figura 5 mostra que na verdade a
aceleração inicial é retomada a partir
dos 65 anos. Tumor Maligno de Corpo Uterino (172 -
7." revisão e 182.0
8." revisão)
Sendo uma localização pouco freqüente,
é difícil afirmar se a leve tendência a su-
bir verificada no período é significativa. Esse tumor não mostrou padrão claro
em relação à cor e ao estado civil. Já em relação à idade, verifica-se que a
mortalidade só começa a ser significati-
va no grupo etário de 35 a 45 anos, subin-
do a partir daí de modo contínuo, lem-
brando, com uma década etária de atra-
so, em que pesem flutuações nos triê-
nios e taxas de nível mais baixo, a curva
do câncer de mama (figuras 3 e 6). A distribuição por Região Administrati-
va também lembra a do câncer de mama
com maiores taxas nas zonas de melho
res condições sócio-econômicas (figura
12). Tumor Maligno de Corpo Uterino (172 -
7." revisão e 182.0
8." revisão)
Sendo uma localização pouco freqüente,
é difícil afirmar se a leve tendência a su-
bir verificada no período é significativa. Esse tumor não mostrou padrão claro
em relação à cor e ao estado civil. RESULTADOS E COMENTÁRIOS Já em relação à idade, verifica-se que a
mortalidade só começa a ser significati-
va no grupo etário de 35 a 45 anos, subin-
do a partir daí de modo contínuo, lem-
brando, com uma década etária de atra-
so, em que pesem flutuações nos triê-
nios e taxas de nível mais baixo, a curva
do câncer de mama (figuras 3 e 6). A distribuição por Região Administrati-
va também lembra a do câncer de mama
com maiores taxas nas zonas de melho
res condições sócio-econômicas (figura
12). Tumor Maligno de Corpo Uterino (172 -
7." revisão e 182.0
8." revisão) Sendo uma localização pouco freqüente,
é difícil afirmar se a leve tendência a su-
bir verificada no período é significativa. Esse tumor não mostrou padrão claro
em relação à cor e ao estado civil. Já em relação à idade, verifica-se que a
mortalidade só começa a ser significati-
va no grupo etário de 35 a 45 anos, subin-
do a partir daí de modo contínuo, lem-
brando, com uma década etária de atra-
so, em que pesem flutuações nos triê-
nios e taxas de nível mais baixo, a curva
do câncer de mama (figuras 3 e 6). Em relação à cor, verificou-se que a taxa
entre não brancas é duas vezes maior do
que entre brancas, porém, vale a mesma
restrição feita em relação ao câncer de
mama (tabela 3). A proporção de câncer
de colo sobre o total de câncer ginecoló-
gico mostrou-se significativamente me-
nor entre brancas do que não brancas
(tabela 4). A distribuição por Região Administrati-
va também lembra a do câncer de mama
com maiores taxas nas zonas de melho
res condições sócio-econômicas (figura
12). Em relação ao estado civil, encontramos
apenas uma taxa padronizada (tabela 6)
mais baixa em desquitados, porém, esse
grupo é muito pequeno e as variações Tais características poderiam estar rela-
cionadas à menor acessibilidade diagnós. REVISTA BRASILEIRA DE CANCEROLOGIA NOVEMBRO/DEZEMBRO. 1976 44 grupos ('ovário" e "demais") (figura 1)
é bastante semelhante e oposta, permi-
tindo supor que possa haver um balanço
entre as duas que mais possivelmente
dependeria da quantidade de tumores
ovarianos não especificados que seriani
incluídos entre os "restantes". tica desse tumor, favorecendo sua detec-
ção mais tardia na vida e em classes mais
favorecidas em termos de assistência
médica. RESULTADOS E COMENTÁRIOS Outros Tumores Malignos do Útero Es-
pecificados, Inclusive o Corioepitelioma,
e não Especificados (173 e 174 -
7. re-
visão e 181 e 182.9 -
8. Revisão) Outros Tumores Malignos do Útero Es-
pecificados, Inclusive o Corioepitelioma,
e não Especificados (173 e 174 -
7. re-
visão e 181 e 182.9 -
8. Revisão)
É um grupo de difícil análise porque seu
conteúdo maior é constituído de neopla-
sias de localização uterina não especifi-
cada No entanto, a curva etária de ambos é
bem diversa, diversa aliás dos outros
grupos já analisados. O tumor de ovário
tem aparição precoce no grupo etário
menor de 15 anos. A partir do grupo etá-
rio de 25 a 35 anos, aumenta exponen-
cialmente, diminuindo o ritmo a partir do
grupo etário de 55 a 65 anos, dando a
impressão de haver três fases ou três
formas distintas dessa patologia. Já os
"demais" ou "restantes", com poucos
casos presentes em menores de 15 anos,
sobem exponencialmente e consistente-
mente até o grupo etário de 75 anos e
mais. (figuras 3, 8 e 9). É um grupo de difícil análise porque seu
conteúdo maior é constituído de neopla-
sias de localização uterina não especifi-
cada. A distribuição por cor e estado civil, bem
como a distribuição geográfica (tabela
13) lembram a distribuição do tumor do
colo uterino, o que faz pensar que esse
seja o tumor mais presente nas declara-
ções de óbito sem especificação quanto
à natureza do tumor. A mortalidade por grupo etário (figuras
3 e 7), apesar de mostrar semelhanças
importantes com o câncer de colo nas
idades mais jovens, passa a st compor-
tar, a partir do grupo etário de 35 a 45
'anos, de maneira semelhante à curva
dos tumores malignos do corpo uterino,
ainda que com taxas bem maiores. Pare-
ce, pois, que, especialmente nas idades
mais avançadas, há uma contribuição im-
portante de tumores de corpo uterino
não especificados nas declarações de
óbitos e que aí são classificados. A distribuição por região administrativa
da mortalidade por câncer de ovário é su-
perponível à do câncer de mama, isto é,
com taxas mais elevadas nas áreas mais
ricas, enquanto que o padrão do grupo
"restantes", embora semelhante, apre-
senta discrepâncias se dirigindo mais a
uma distribuição do tipo da apresentada
pelo câncer do colo uterino. Tumor Maligno de ovário (175.0 -
7.1 re-
visão e 183.0 -
8. RESULTADOS E COMENTÁRIOS revisão) e Demais
Tumores Malignos (Não especificados co-
mo mamários, uterinos ou de ovário) -
(183.1,183.9 e 184 da 7." revisão e 175.1,
175.8, 175.9 e 176 da 8." revisão). AGRADECIMENTO Os autores agradecem a colaboração de
Lauro de Oliveira e Silva e de Luiz Paulo
Fiares Avelino da Divisão de Processa- p
RESUMO E CONCLUSÕES
O
t
li Os autores realizaram um estudo descri-
tivo da mortalidade por câncer ginecoló-
gico na cidade do Rio de Janeiro (Ex-Es-
tado da Guanabara) no período 1965/73,
analisando os dados de valor epidemioló-
gico constantes do atestado de óbito. O tumor de ovário apresenta-se como a
terceira causa, em ordem de magnitude,
de mortalidade por cânceres ginecológi-
cos. Em função da Classificação Internacional
de Doenças da O.M.S. e do número de
óbitos de cada item da mesma, utilizaram
as seguintes categorias de estudo: tumor
maligno de mama (170 -
7." Revisão e
173 -
8. Revisão); tumor maligno de
colo uterino (171 -
7." Revisão e 180 -
8." Revisão); tumor maligno de corpo ute-
rino (172— 7." Revisão e 182.0 -
8. Re-
visão); outros tumores malignos do úte- Parece estar em relativa estabilidade no
período observado, ainda que haja um
decréscimo em 1972, ano que surpreen-
dentemente apresenta um acréscimo dos
"demais" tumores ginecológicos e gran-
de proporção de localizações não espe-
cificadas. Na verdade, a evolução temporal dos dois NOVEMBRO/DEZEMBRO. 1976 REVISTA BRASILEIRA DE CANCEROLOGIA 45 ro (173 e 174— 7. Revisão e 181 e 182.9
-
8.a Revisão); e demais tumores gine-
cológicos malignos (183.1, 183.9 e 184
-
7. Revisão e 175.1, 175.8, 175.9 e
176 da 8. Revisão). ro (173 e 174— 7. Revisão e 181 e 182.9
-
8.a Revisão); e demais tumores gine-
cológicos malignos (183.1, 183.9 e 184
-
7. Revisão e 175.1, 175.8, 175.9 e
176 da 8. Revisão). A mortalidade por outros tumores ma-
lignos do útero é de difícil análise por-
que em sua maioria é constituída por óbi-
tos classificados como de localização
não especificada do útero. Suas caracte-
rísticas levaram os autores a julgar que
essa categoria inclui em sua maioria tu-
mores malignos de colo nas idades mais
jovens (até 45 anos) e a partir daí há pre-
domínio de câncer de corpo uterino; Além de discutir a peculiar distribuição
etária de cada uma dessas categorias o
trabalho mostrou que: 1 . p
RESUMO E CONCLUSÕES
O
t
li A mortalidade por câncer de mama foi
a mais elevada das categorias e esteve
associada à cor (nas brancas é maior),
ao estado civil (nas solteiras é maior) e
ao local de residência (no sentido de que
nas Regiões Administrativas de melho-
res condições sócio-econômicas é maior,
caindo em direção às áreas de tipo rural);
A mortalidade por câncer de colo se-
guiu-se em magnitude, apresentando-se
associada à cor (é mais elevada em não
brancas) e ao local de residência, no
sentido de que as taxas mais elevadas
ocorreram em áreas de condições sócio-
econômicas piores; A mortalidade por câncer de ovário
foi a terceira em freqüência quando con-
siderados os itens individualizados de
Classificação Internacional de Doenças. Foi também um pouco mais freqüente
entre brancas, solteiras e em regiões me-
lhores do ponto de vista sócio-econômi-
co. Sua peculiar distribuição etária suge-
re a existência de três fases ou tipos da
doença: uma com predominância até os
25 anos, outra daí até aos 55 anos e a
terceira daí em diante. A mortalidade pelos demais cânce-
res ginecológicos parece ter um compor-
tamento de equilíbrio quantitativo com o
câncer de ovário. Suas características de
estado civil, cor e local de residência
também coincidiram. Porém, a distribui-
ção etária é divergente apresentando um
crescimento constante durante a vida. A mortalidade por câncer do corpo de
útero foi a mais baixa das categorias es-
tudadas. Não apresentou associação ní-
tida com estado civil e cor. A distribui-
ção por região administrativa mostrou
predominância nas áreas de melhores
condições sócio-econômicas; mento de Dados da Secretaria de Saúde
do Rio de Janeiro. mento de Dados da Secretaria de Saúde
do Rio de Janeiro. REFERÊNCIAS BIBLIOGRÁFICAS ADELSTEIN, A.M. et ai. - Mortality from
Carcinoma of the Uterus. An interventional
cohort study. Br, J. Prev. Soc. Med. 25 (4)
186-91. 1971. MIRRA, A.P., et ai. -
Estudo epidemiológico
do cancer de mama numa área de alta pari-
dade: São Paulo, Brasil, -
Rev, Assoc. Med. Bras. 18 (9): 357-364, 1972. BERAL, V. - Cancer of the Cervix: A Se-
xuaiiy Transmitted Infection? The Lancet, May
25, 1974 (pp. 1037-1040). PASCUA, M. -
Trends of female mortality
frçm cancer of the breast and cancer of the
genital organs. Buii. Wid. Hith. Org., 15: 5-41,
1956. KALLNER, G. et ai. -
Site Misassignement
of Cervical Cancer. In Cancer Morbidity and
Mortality in Israei: 1950-1961. Part II. Wld. Hlth. Org. Genebra, 1966. PUFFER, E.R. & Griffith, G.W. -
Caracteris-
ticas de ia Mortaiidad .Urbana. Organização
Panamericana de Saúde, Publicação Científi-
ca n.' 151 -
Washington, 1968. LILIENFELD, A.M. -
The relationship of con-
cer of the femaie breast to Artificial Meno-
pause and Marital Status. Cancer 9: 927-934,
1956. SELLERS, A.H. & McLerie, E.E. -
A Note on
Trends in Mortality from Cancer of the Cer-
vix, Ontario an British Coiumbia, 1950-1971
-
Canadian J. of P. Heaith. 64: 364-367, 1973. LOWE, C. R. & Mac Mahon, B. -
Breast Can-
cer and Reproductive History of Women in
South Wales. Lancet, 1: 153, 1970. MAC MAHON et ai. -
Lactation and Cancer
of the Breast. Summary of an international
study. Buli. Wid. Hith. Org., 42: 185, 1970. 12. STOCKS, P. -
Statistical Investigation Con-
cerning the Causation of Various Forms of
Human Cancer. In Cancer, vol. 3: 116-172, de
Ravan, R.W. ed. -
Butterworth and Co, Lon-
don, 1958. 12. STOCKS, P. -
Statistical Investigation Con-
cerning the Causation of Various Forms of
Human Cancer. In Cancer, vol. 3: 116-172, de
Ravan, R.W. ed. -
Butterworth and Co, Lon-
don, 1958. MAC MAHON, et ai. -
Age at first birth and
breast risk. Buli. Wiid. Hith. Org., 43, 209,
1970. MAC MAHON, et ai. -
Age at first birth and
breast risk. Buli. Wiid. Hith. Org., 43, 209,
1970. SUMMAAY A descriptive study on mortality by gyne-
cological cancer based on death certifi-
cates of the former State of Guanabara
during the period 1965/73 was perfor-
med. tional Classification of Causes of Death. Apart from the peculiar age distribution
of each gynecological malignant growth,
interesting patterns were observed in re-
Iation to marital status and geographical
distribution revealing, particularly, clus-
tering in the poorer areas for cancer of
the cervix and, in the richer aeras, for
breast cancer Age, marital status and residency at
death were analysed in relation to the
site of cancer, according to the Interna- REVISTA BRASILEIRA DE CANCEROLOGIA NOVEMBRO/DEZEMBRO, 1976 46 REFERÊNCIAS BIBLIOGRÁFICAS TABELA 1
ÓBITOS POR TODAS AS CAUSAS, POR CÂNCER DE TODAS AS LOCALIZAÇÕES
E POR CÂNCER GINECOLÓGICO EM MULHERES NO RIO DE JANEIRO
(EX-ESTADO DA GUANABARA) - PERÍODO 1965/72
-
CÂNCER GINECOLÓGICO
GRUPOETÁRIO
NPDEOBITOS
NPDEOBITOS
-
(ANOS)
POR TODAS
PORCÂNCER
AS CAUSAS
EM GERAL
N9deObitos Sobre Total
do Total de Obi-
de Obitos
tos por Câncer
O - 14
29.554
422
20
0,07
4,74
15-24
4,267
268
42
0,98
15,67
25-34
6.342
627
259
6,07
41,31
35-44
9.644
1.923
957
9,92
49,77
45-54
12.087
3.121
1.468
12,14
47,04
55 - 64
17.062
3.958
1.451
8,50
36,66
65-74
22.470
3.894
1.114
4,96
28,61
75emais
31.656
3.139
742
2,34
23,64
Totai
133.082
17.352
6.053
4,55
34,88 REVISTA BRASILEIRA DE CANCEROLOGIA NOVEMBRO/DEZEMBRO, 1976 47 N LO (O 0) N OS
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https://openalex.org/W3106700691
|
https://www.e3s-conferences.org/10.1051/e3sconf/202019502026/pdf
|
English
| null |
A semi-empirical model to predict excess pore pressure generation in partially saturated sand
|
E3S web of conferences
| 2,020
|
cc-by
| 5,103
|
1 Introduction skeleton, np is porosity of soil, and Kf is the bulk stiffness
of pore fluid. The induced volumetric strains in soil is
highly affected by induced shear strains, soil type and
density, and number of loading cycles, among other
factors [9]. Seismic loadings such as earthquakes induce cyclic shear
strains resulting in rearrangement and densification of
soils to a more stable condition. Because the pore space
of
saturated
soils
is
filled
with
a
relatively
incompressible fluid like water, the pore fluid resists
against densification under an undrained condition,
which leads to pore pressure build-up. This generation of
pore pressure is the main mechanism in seismically
induced
liquefaction. In
addition,
pore
pressure
generation can significantly affect the overall seismic
response including wave propagation (i.e. site response),
seismic settlement, and stability; even if it does not lead
to liquefaction [1-2]. The bulk stiffness of pore fluid is very sensitive to
the existence of gas and is related to soil’s degree of
saturation, Sr as follows: 1
1
f
r
r
w
g
K
S
S
K
K
=
−
+
(2) 1
1
f
r
r
w
g
K
S
S
K
K
=
−
+
(2) (2) where Kw is the bulk stiffness of water (Kw ≈2.2 GPa)
and Kg is the bulk stiffness of gas (Kg ≈142 kPa). Figure
1 presents the evolution of fluid bulk stiffness with
degree of saturation. Only a small reduction in degree of
saturation of a fully saturated soil significantly reduces
the fluid bulk stiffness and consequently the excess pore
pressure generation according to Fig. 1 and Eq. 1. Experimental studies have also confirmed the significant
effect of desaturation on pore pressure generation and
liquefaction resistance of soils [10-14]. These facts
strongly suggest that induced partial saturation can show
promise as an effective measure for liquefaction
mitigation. The pore pressure generation mechanisms during
dynamic loadings and factors governing its amplitude
have been studied for many years [3-7]. 1 Introduction Previous
research indicated that the excess pore pressure
generation (∆u) is mainly governed by induced
volumetric
strains
and
soil
and
fluid
stiffness
characteristics, and can be estimated using the following
equation [5, 7, 8]: 1
vd
p
r
f
u
n
E
K
ε
∆
∆=
+
(1) 1
vd
p
r
f
u
n
E
K
ε
∆
∆=
+
(1) (1) In recent years, quite extensive research has been
conducted on development of effective techniques to
induce partial saturation in soils and understanding their
effect on their liquefaction resistance. However,
development of a framework for estimation of excess where ∆u is the excess pore pressure, ∆εvd is soil
volumetric strains, Er is rebound modulus of soil * Corresponding author: majid.ghayoomi@unh.edu A semi-empirical model to predict excess pore pressure
generation in partially saturated sand Sayedmasoud Mousavi1, and Majid Ghayoomi2,* 1Graduate Student, University of New Hampshire, Dept. of Civil and Environmental Engineering, Durham, NH, USA
2Associate Professor, University of New Hampshire, Dept. of Civil and Environmental Engineering, Durham, NH, USA Abstract. Past studies revealed that excess pore pressure generation due to cyclic loading is highly
governed by induced strains, volumetric deformation potential of soil, number of cycles, and bulk stiffness
of pore fluid. It is well established that partial saturation can significantly reduce bulk stiffness of pore fluid
and consequently excess pore pressure generation during seismic loading. On the basis of that, a number of
researchers have investigated induced partial saturation as an effective soil improvement technique to
increase the liquefaction resistance of fully saturated soils. This paper focuses on development of a semi-
empirical model to interpret the effects of partial saturation on the excess pore pressure generation in sands. In this regard, an existing strain based excess pore pressure ratio (ru) prediction model originally developed
for fully saturated soils was modified to incorporate the effect of partial saturation on the excess pore
pressure generation. The literature data as well as data from a series of strain-controlled direct simple shear
test were used to evaluate the reliability of the proposed equation in predicting the excess pore pressure ratio
in partial saturation condition. © The Authors, published by EDP Sciences. This is an open access article distributed under the terms of the Creative Commons Attribution License 4.0
(http://creativecommons.org/licenses/by/4.0/). ciences. This is an open access article distributed under the terms of the Creative Commons Attribution License 4.0
y/4 0/) https://doi.org/10.1051/e3sconf/202019502026 https://doi.org/10.1051/e3sconf/202019502026 E3S Web of Conferences 195, 02026 (2020)
E-UNSAT 2020 * Corresponding author: majid.ghayoomi@unh.edu © The Authors, published by EDP Sciences. This is an open access article distributed under the terms of the Creative Commons Attribution License 4.0
(http://creativecommons.org/licenses/by/4.0/). E3S Web of Conferences 195, 02026 (2020)
E-UNSAT 2020 https://doi.org/10.1051/e3sconf/202019502026 ,
(
)
1
(
)
s
tvp
u N
s
tvp
p
f
N
F
r
f
N
F
γ
γ
γ
γ
×
×
×
×
−
=
+
×
×
×
−
(3) pore pressure generation in partially saturated soil has
received little attention. This paper focuses on
development of a semi-empirical model to interpret the
effects of partial saturation on the excess pore pressure
generation in sands. In this regard, an existing strain
based excess pore pressure generation prediction model
originally developed for fully saturated soils was
modified to incorporate the effect of partial saturation on
the excess pore pressure generation. The literature data
as well as data from a series of strain-controlled direct
simple shear test were used to evaluate the reliability of
the proposed equation in predicting the excess pore
pressure ratio in partial saturation condition. (3) where ru,N is the excess pore pressure ratio at Nth cycle
of loading, defined as the ratio of the excess pore
pressure to vertical effective stress, σ’
v (∆u/ σ’
v). γ is the
induced shear strain. f is dimensionality factor and can
be assumed as 1 or 2, depending on whether pore
pressures is induced by one-or two-directional shaking. F, p, and s are fitting parameters which depend on
volumetric deformation potential of soils and can be
obtained by laboratory data-based fitting attempts. The
model’s fitting parameters can also be derived by
empirical equations. The parameter F is reversely
proportional to the shear wave velocity of soil and takes
the following functional form [16]: Fig. 1. Effect of soil saturation on the bulk stiffness of pore
fluid. 0
30000
60000
90000
120000
150000
0
20
40
60
80
100
Fluid bulk stifness, Κf (kPa)
Degree of saturation (%) 1.55
3810
s
F
V −
=
×
(4) (4) where Vs is the shear wave velocity of soils in fully
saturated condition. The fitting parameter s
is
proportional to soil’s fine content (FC) and can be
presented as follows [16]: 0.1252
(
1)
s
FC
=
+
(5) (5) Laboratory data on different types and relative
densities of sands indicated that values for parameter p
varies between ±7.1% of 1 [17]. Fig. * Corresponding author: majid.ghayoomi@unh.edu 1. Effect of soil saturation on the bulk stiffness of pore
fluid. 3 Proposed model A number of methodologies have been developed to
quantitatively estimate the excess pore pressure
generation in fully saturated soils. The methods can be
generally categorized as (1) stress-based [4] and (2)
strain-based [3] models. Theoretical and experimental
studies indicate that the generation of excess pore
pressure is mainly controlled by induced volumetric
strain (Eq. 1), and that induced volumetric strain is
mainly governed by the level of induced shear strains [3,
9]. Thus,
strain-based
models
provide
a
more
fundamental basis for estimation of pore pressure
generation in soils. Although Eq. (3) has shown to be capable of estimating
ru in fully saturated soils, it does not directly consider the
effect of degree of saturation on excess pore pressure
generation; even though this was considered in the
theoretical formulation by Martin et al. [5]. In their
theoretical formulation (Eq. 1), Martin et al. [5] showed
that excess pore pressure generation is proportional to
bulk stiffness of pore fluid. As discussed earlier, the bulk
stiffness of pore fluid is highly governed by soil degree
of saturation (Eq. 2 and Fig. 1). To capture the effect of
partial saturation on the excess pore pressure generation,
Eq. 3 was modified by implementing the effect of fluid
bulk stiffness in partially saturated condition into Eq. 3. In this regard, a semi-empirical equation for prediction
of ru in partially saturated condition can be obtained by
implementing the ratio of pore fluid bulk stiffness in
partially saturated condition to fully saturated condition
into Eq. 3 as follows: Dobry [15] compiled data from seven series of
undrained cyclic strain-controlled direct simple shear,
cyclic triaxial, and cyclic torsional shear tests on
undisturbed as well as remolded samples at varying
effective confining stresses from 25 to 200 kPa and
relative densities from 20-80%. Results suggested a clear
trend between induced shear strain and excess pore
pressure generation in sands [15]. The results also
indicated the existence of a strain level below which no
significant pore pressure develops. This stain level is
referred to as threshold shear strain, γtvp and is around
0.01 to 0.02% for most sands [3]. On the basis of the
laboratory observations and Martin et al. 3 Proposed model [5] theoretical
model, Dobry [15] proposed a strain-based methodology
to predict pore pressure generation in fully saturated
sands, as follows: 0
0
,
(
)
(
)
1 (
)
(
)
f
s
tvp
f
u N
f
s
tvp
f
K
p
f
N
F
K
r
K
f
N
F
K
γ
γ
γ
γ
×
×
×
×
×
−
=
+
×
×
×
×
−
(6) 0
0
,
(
)
(
)
1 (
)
(
)
f
s
tvp
f
u N
f
s
tvp
f
K
p
f
N
F
K
r
K
f
N
F
K
γ
γ
γ
γ
×
×
×
×
×
−
=
+
×
×
×
×
−
(6) (6) where Kf,0 is the initial pore fluid bulk stiffness at which
the fitting parameters are obtained (i.e. fully saturated 2 https://doi.org/10.1051/e3sconf/202019502026 E3S Web of Conferences 195, 02026 (2020)
E-UNSAT 2020 https://doi.org/10.1051/e3sconf/202019502026 condition) and Kf is the bulk stiffness of pore fluid in
partially saturated condition, which can be calculated
from Eq. 2. used in the model. Parameter F was obtained using the
shear wave measurements reported by Eseller-Bayat et
al. [12]. The shear wave velocity of a fully saturated
sample at the bottom of the sample (σ’v=9.6 kPa) was
approximately 70 m/s. Since the shear wave velocity is
proportional to soil’s effective stress [16], its value
varied from 0 at soil surface to 70 m/s at the bottom of
sample. Therefore, an average shear wave velocity of 35
m/s was considered to obtain parameter F. For clean
sand tested in Eseller-Bayat et al. [12], parameter s= 1
was used in the model. Finally, a value of p=1.07 was
used to fit Eq. 3 to the experimental measurements. Table 1 presents a summary of model parameters for
prediction of ru in fully saturated sand. Using these
parameters, the model was found to provide an
acceptable prediction of ru data at different strain values
and number of cycles (Fig. 2). q
The methodology to obtain these parameters within
the proposed equation’s relies on undrained stain-
controlled test on saturated samples or empirical
correlations discussed in previous section. 4.1. Literature data The experimental measurements by Eseller-Bayat et al. [12] were identified from literature for which ru data on
both fully saturated and induced partially saturated soil
were available. They utilized a cyclic simple shear
liquefaction box to perform a series of strain-controlled
simple shear tests on saturated and induced partially
saturated sands [12]. The induced partial saturation was
achieved by wet pluviation of sodium perborate
monohydrate mixed with Ottawa sand where the reaction
of the sodium perborate with pore water reduced degree
of saturation by releasing oxygen bubbles. Sand
specimens with different degrees of saturation were
subjected to constant cyclic strains at various levels. Fig. 2. Comparison of the predicted excess pore pressure ratio
data of fully saturated samples with those measured
experimentally by Eseller-Bayat et al. [12]. Fig. 3 presents ru data obtained from cyclic tests on
sand samples at various degrees of saturation, N=2 and
10, and γ = 0.1%. Regardless of number of cycles of
loading, initial liquefaction did not occur in partially
saturated samples. The ru versus degree of saturation
curves showed a dramatic reduction in excess pore
pressure ratio with reduction in degree of saturation up
to around 72%. The ru was less affected by lowering the
Sr from 72% to 60%. This behaviour is very similar to
trends observed in fluid bulk stiffness versus Sr curves,
which confirms the significant impact of Kf on pore
pressure response of soils. Fig. 2 represents ru data obtained from cyclic tests on
fully saturated sand samples at relative density Dr= 30-
40%, average effective stress, σ’v=2.5 kPa, and 2 and 10
number of cycles, N [12]. Regardless of magnitude of
induced shear strain, the data shows higher values of ru
at 10 cycles of loading than N=2. The excess pore
pressure data shows a clear trend with shear strain level,
increasing as the shear strain increases. Although the
excess pore pressure data at shear strains lower than
0.005% was not reported, threshold shear strain is
expected to be lower than 0.005% and was assumed to
be 0.002%. This value appears to be considerably lower
than the typical range (0.01% to 0.02%) for sands
reported in previous studies. This may be due to very
low effective stress at which the specimens were
subjected to cyclic loadings. 3 Proposed model Overall, the
parameters required to estimate the evolution of ru
during constant-strain cyclic loading include the fitting
parameters (p, F, s) and the threshold shear strain value
obtained from cyclic tests on saturated samples at
various shear strain amplitude as well as the Kf and Kf0
calculated from Eq. 2. Since the direct measurement of
degree of saturation in a nearly saturated sample is
difficult, the initial bulk stiffness of pore fluid can be
indirectly calculated from B-value measurements. 4 Model validation Table 1. A summary of model parameters. Parameter
f
p
s
F
value
1
1.07
1
16
Fig. 2. Comparison of the predicted excess pore pressure ratio
data of fully saturated samples with those measured
experimentally by Eseller-Bayat et al. [12]. 0
0.2
0.4
0.6
0.8
1
0.001
0.01
0.1
Excess pore pressure ratio, ru
Induced shear strain, γ (%)
N = 2 R2=0.93
N = 10 R2=0.60
Prediction (N=2)
Prediction (N=10)
σ'v = 2.5 kPa
Sr = 100% Table 1. A summary of model parameters. In order to examine the applicability of the proposed
equation for prediction of ru in a partially saturated state,
the model was first calibrated by strain-controlled test
results on saturated sands available in literature as well
as data from this study and then estimated values from
the proposed model was compared with the data
obtained from tests on induced partially saturated soils. 0
0.2
0.4
0.6
0.8
1
0.001
0.01
0.1
Excess pore pressure ratio, ru
Induced shear strain, γ (%)
N = 2 R2=0.93
N = 10 R2=0.60
Prediction (N=2)
Prediction (N=10)
σ'v = 2.5 kPa
Sr = 100% 4.2.1 Tested material and Experimental procedures The soil used in this study were reconstituted F-75
Ottawa sand samples. The sand was a fine silica sand
classified as poorly graded sand (SP) according to
Unified Soil Classification System (USCS). Table 2
describes a summary of physical and geoetechnical
properties of the sand tested in this study. Fig. 3. Comparison of the predicted pore pressure ratio data of
induced partially saturated sand with those measured
experimentally by Eseller-Bayat et al. [12]. 0
0.2
0.4
0.6
0.8
1
40
50
60
70
80
90
100
Excess pore pressure ratio, ru
Degree of saturation, Sr (%)
σ'v = 2.5 kPa
γ=0.1%
N = 2 R2=0.86
N = 10 R2=0.69
Prediction curve 0
0.2
0.4
0.6
0.8
1
40
50
60
70
80
90
100
Excess pore pressure ratio, ru
Degree of saturation, Sr (%)
σ'v = 2.5 kPa
γ=0.1%
N = 2 R2=0.86
N = 10 R2=0.69
Prediction curve Table 2. A summary of physical and geotechnical properties of
the Ottawa sand. Table 2. A summary of physical and geotechnical properties of
the Ottawa sand. Property
value
Coefficient of curvature, Cc
1.74
Coefficient of uniformity, Cu
1.08
D50 (mm)
0.19
D10 (mm)
0.12
Specific gravity, Gs
2.65
Void ratio limits, emin, emax
0.49, 0.8 Fig. 3. Comparison of the predicted pore pressure ratio data of
induced partially saturated sand with those measured
experimentally by Eseller-Bayat et al. [12]. The model was found to provide a good prediction of
excess pore pressure generation ratio reported by
Eseller-Bayat et al. [12]. The model predicted a dramatic
drop in the excess pore pressure ratio as the degree of
saturation decreases which followed by a gradual
decrease in ru with further reduction in the degree of
saturation; a behavior which was found consistent with
the experimental results as presented in Fig. 3. However,
a considerable discrepancy was found between the
model prediction and reported ru values at Sr= 80%. Two
reasons may explain the discrepancies observed between
the model prediction and ru values : 1) very low effective
stress at wich samples were tested; the effective stress
varied from 0 to 9.6 kPa and any shaking could result in
large deformation of soil particles at soil surface level. 2)
application of several cyclic test on one sample ;
previous experiments have revealed that re-shearing the
specimens significantly influence their volumetric
deformation and pore pressure response [17-18]. Thus,
although reported data by Eseller-Bayat et al. 4.2.1 Tested material and Experimental procedures [12]
revealed the significance of induced partial saturation on
pore pressure response, further laboratory data is
required in order to examine the adequancy of the
proposed model for excess pore pressure prediction. The DSS apparatus utilized in this study includes a
Swedish Geotechnical Institute (SGI) configuration soil
cell with a stack of Teflon coated aluminum rings. Dry
pluviation method was employed in order to prepare
cylindrical sand with identical relative density Dr ≈ 55%. Carbon dioxide (CO2) permeation and backpressure
methods were used to ensure full saturation of samples. Pore pressure parameter (B-value) was recorded at the
end of saturation process and specimens were
consolidated at 50 kPa vertical effective stress. Induced partial saturation was achieved by using
microbial induced partial saturation (MIPS) via
denitrification. This process utilizes microbial anaerobic
respiration to reduce nitrate to nitrogen gas. The
generated nitrogen gas then exsolve in pore fluid and
form tiny gas bubbles within the pore space. Mousavi
and Ghayoomi [21] showed that the degree of saturation
in this method can be adjusted by adjusting the initial
concentration of nitrate. In order to desaturate samples
using MIPS process, saturated soil samples were flushed
by a solution medium containing a mixture of
Paracoccus denitrificans (ATCC 17741) bacteria and a
nutrient medium that had mineral salts and ethanol and
nitrate at different concentrations. The solution volume
was at least three times volume of the soil samples’ pore
volume. The degree of saturation at the end of this
process was calculated by measuring the volume of
expelled water from sample as a result of gas formation
in the soil pores. Details of MIPS process using
denitrification process are elaborated in Mousavi and
Ghayoomi [21]. 4.1. Literature data In order to examine the suitability of the proposed
model to predict excess pore pressure ratio in partially
saturated condition, predicted ru values using Eq. 6 were
plotted along with the experimental measurements by
Eseller-Bayat et al. [12] in Fig. 3. The fluid bulk
stiffness at different saturation levels were estimated
using Eq. 2. It is noteworthy that since the existence of The parameters in Eq. 6 were calibrated using the
empirical methodology described in section 2. Since the
cyclic tests were conducted in one dimension, f= 1 was 3 E3S Web of Conferences 195, 02026 (2020)
E-UNSAT 2020 https://doi.org/10.1051/e3sconf/202019502026 this device were described in detail by Mousavi and
Ghayoomi [19-20] and are briefly described here. dissolved gas can influence the fluid bulk stiffness of a
saturated soil, Kf,0 is not always equal to that of de-aired
water. The initial pore fluid bulk stiffness must be
calculated based on initial B-value of soil sample in
saturated condition. Since the B-value measurements
were not available, Kf,0= 30 MPa was assumed, in order
to fit the model to the experimental data. This value
suggests that the degree of saturation in saturated
samples was approximately 99.5%. 4.2. Experimental investigation To further examine the adequacy of the proposed model
for prediction of ru in a partially saturated state, the
model was fit to data points obtained from an
experimental program using a Direct Simple Shear
(DSS) test setup. The testing setup and procedures for Strain-controlled tests were performed at 0.1 Hz
frequency for 20 cycles of loading at a constant shear
level. All tests were conducted in an undrained condition 4 E3S Web of Conferences 195, 02026 (2020)
E-UNSAT 2020 https://doi.org/10.1051/e3sconf/202019502026 and the excess pore pressure ratio were calculated by
recording the pore pressure during cyclic loading. and the excess pore pressure ratio were calculated by
recording the pore pressure during cyclic loading. 4.2.3 Model calibration and verification The proposed model parameters were obtained by fitting the
predicted values of Eq 6. to the experimental ru data points of
fully saturated tests using a least square fitting method. Table 3
presents a summary of the fitting parameters’ values. Using
these parameters, the model yielded a very well prediction of
the experimental data obtained in this study. 4.2.2 Experimental results Experimental results from undrained strain-controlled
DSS tests are presented in terms of excess pore pressure
ratio with induced shear strain. Fig. 4 shows the excess
pore pressure ratio of Ottawa sand samples subjected to
various shear strain levels. This figure shows a clear
dependency of the magnitude of excess pore pressure on
number of cycles and induced shear strain level. The
results also indicate that the threshold shear strain falls
between 0.005 and 0.025%. The magnitude of threshold
shear strain was assumed to be 0.012% based on the
observed trends in ru versus γ curves. This value agrees
well with the reported ranges for clean sands. Table 3. A summary of model parameters. Table 3. A summary of model parameters. Table 3. A summary of model parameters. Parameter
f
p
s
F
value
1
1.07
1
16
Fig. 6. Comparison of model prediction with the experimental
excess pore pressure ratio data for fully saturated tests. 0
0.2
0.4
0.6
0.8
1
0.001
0.01
0.1
1
Excess pore pressure ratio, ru
Induced shear strain, γ (%)
N = 5
N = 10
N = 15
N = 20
Prediction curve
σv = 50 kPa
Sr = 100%
R2= 0.99 0
0.2
0.4
0.6
0.8
1
0.001
0.01
0.1
1
Excess pore pressure ratio, ru
Induced shear strain, γ (%)
N = 5
N = 10
N = 15
N = 20
Prediction curve
σv = 50 kPa
Sr = 100%
R2= 0.99 Fig. 4. Excess pore pressure ratio of fully saturated sand
samples versus induced shear strain. 0
0.2
0.4
0.6
0.8
1
0.001
0.01
0.1
1
Excess pore pressure ratio, ru
Induced shear strain, γ (%)
N = 5
N = 10
N = 15
N = 20
σv = 50 kPa
Sr = 100% Fig. 6. Comparison of model prediction with the experimental
excess pore pressure ratio data for fully saturated tests. Fig. 4. Excess pore pressure ratio of fully saturated sand
samples versus induced shear strain. Fig. 7. Comparison of model prediction with the experimental
excess pore pressure ratio for partially saturated specimens. 5 Conclusion 9. P.M. Duku, J.P. Stewart, D.H. Whang, E. Yee. Volumetric strains of clean sands subject to cyclic
loads. J. geotech. and geoenvir. Eng., 134, 8 (2008) The excess pore pressure generation in cyclically loaded
partially saturated soils is a topic that has received little
attention and deserves further investigation. A new semi-
empirical model was presented in this study to represent
the impact of partial saturation on the excess pore
pressure generation of partially saturated soils. In this
regard, an existing strain-based model generally
developed for fully saturated soils was modified to
capture the impacts of fluid bulk stiffness reduction due
to desaturation on the excess pore pressure response of
soils subjected to cyclic loading. A methodology also
was presented to calibrate the proposed model’s
parameters. The new model was found to fit well for the
ru measurements reported in the literature as well as the
experimental results in this study. The results presented
in this study reflected considerable impacts of Sr on the
excess pore pressure generation of sands. However,
further testing of partially saturated soils with different
types and initial conditions (e.g. density and effective
stress) is needed to assess the capability of the proposed
model to characterize the pore pressure response of soils
in partially saturated conditions. 10. R.C. Chaney. Saturation effects on the cyclic
strength of sands. In From Vol. I Earthquake Eng. Soil Dyn. -Proc. ASCE Geotech. Eng. Div. Spec. Conf., June (1978), Pasadena, California. 11. M. Okamura, K. Noguchi. Liquefaction resistances
of unsaturated non-plastic silt. Soils and Found., 49,
2, (2009). 12. S. Mousavi, M. Ghayoomi. Dynamic shear modulus
of microbial induced partially saturated sand. Proc. Int. Symp. Bio-mediated Bio-inspired Geotech.,
Atlanta, in press. 13. S. Mousavi, M. Ghayoomi. Liquefaction mitigation
of silty sands via microbial induced partial
saturation. In Geo-Congress 2019: Earthquake
Engineering and Soil Dynamics. (2019) 14. E. Eseller-Bayat, M.K. Yegian, A. Alshawabkeh, S. Gokyer. Liquefaction response of partially saturated
sands. I:
Experimental
results. J. Geotech. Geoenviron. Eng., 139, 6 (2013). 15. R. Dobry. Liquefaction of soils during earthquakes. Rep. No. CETS-EE-001, National Res. Council
NRC, Committee on Earthquake Engineering,
Washington, D.C. (1985) 4.2.2 Experimental results 0
0.2
0.4
0.6
0.8
1
70
80
90
100
Excess pore pressure ratio, ru
Degree of saturation, Sr (%)
R2=0.98
σ'v = 50 kPa
γ=0.3%, N=10
γ=0.3%, N=20
γ=0.1%, N=10
γ=0.1%, N=20
prediction curves 0
0.2
0.4
0.6
0.8
1
70
80
90
100
Excess pore pressure ratio, ru
Degree of saturation, Sr (%)
R2=0.98
σ'v = 50 kPa
γ=0.3%, N=10
γ=0.3%, N=20
γ=0.1%, N=10
γ=0.1%, N=20
prediction curves Fig. 5 illustrates the excess pore pressure generation
ratio of MIPS treated samples at different degrees of
saturation and N= 10 and N= 20. Regardless of induced
shear strain level, the ru-Sr curves showed a dramatic
drop in ru values when the degree of saturation decreased
to 90%. The excess pore pressure magnitude was less
influenced by desaturation for saturation levels lower
than 90%. This behavior is very similar to theoretical
trends of fluid bulk stiffness observed in Fig. 1. Fig. 5. Excess pore pressure ratio versus sample’s degree of
saturation. 0
0.2
0.4
0.6
0.8
1
70
80
90
100
Excess pore pressure ratio, ru
Degree of saturation, Sr (%)
γ = 0.1%
γ = 0.3%
N = 20
N = 10
σv = 50 kPa 0
0.2
0.4
0.6
0.8
1
70
80
90
100
Excess pore pressure ratio, ru
Degree of saturation, Sr (%)
γ = 0.1%
γ = 0.3%
N = 20
N = 10
σv = 50 kPa 80 Degree of saturation, Sr (%) Degree of saturation, Sr (%) Fig. 7. Comparison of model prediction with the experimental
excess pore pressure ratio for partially saturated specimens. The fitting parameters obtained for fully saturated
tests were used to examine the Eq. 6 suitability to predict
the experimental ru data for samples in a partially
saturated condition (Fig. 7). The model successfully
captured the dramatic drop in the excess pore pressure
ratio of MIPS treated samples with reduction in degree
of saturation from full saturation to Sr≈ 90%. The model
prediction showed a gradual reduction in excess pore
pressure ration with degree of saturation reduction to
values lower than 90%; a behavior which was found
consistent with the experimental results as presented in Degree of saturation, Sr (%) Fig. 5. Excess pore pressure ratio versus sample’s degree of
saturation. 5 https://doi.org/10.1051/e3sconf/202019502026 E3S Web of Conferences 195, 02026 (2020)
E-UNSAT 2020 Fig. 7. 4.2.2 Experimental results The model’s adequacy to predict the experimental
ru data was also evaluated by calculating the coefficient
of determination (R2). Results indicated R2 value of
approximately 0.98 for the data points which indicates
very good consistency of the predicted ru values from the
model with the experimental measurements. 7. W.L. Finn, P.M. Byrne, G.R. Martin. Seismic
response and liquefaction of sands. J. Geotech. Geoenviron. Eng. Dev. 102. (1976) 8. S. Mousavi, M. Ghayoomi. Liquefaction mitigation
of sands with non-Plastic fines via microbial
induced partial saturation. J. of Geotech. and
Geoenvir. Eng.- Under review (2019) References 1. K. Hazirbaba, E.M. Rathje, E. M. Pore pressure
generation of silty sands due to induced cyclic shear
strains. J. Geotech. Geoenviron. Eng., 135, 12,
(2009) 16. Carlton, B. (2014). “An Improved Description of the
Seismic Response of Sites with High Plasticity
Soils, Organic Clays, and Deep Soft Soil Deposits.”
PhD Thesis. University of California, Berkeley. 2. M. Mirshekari, M. Ghayoomi. Effects of shaking
intensity on seismic response of unsaturated sand
layers. In Vol. 1 of Proc., 7th Int. Conf. on
Unsaturated Soils, (2018) 17. Y.M.A Hashash. DEEPSOIL V3.5 1-D nonlinear
and equivalent linear wave propagation analysis
program for geotechnical seismic site response
analysis of soil deposits. User Man. and Tut., (2006) 3. R. Dobry, R. Ladd, F. Yokel, R. Chung, D. Powell. Prediction of pore water pressure build-up and
liquefaction of sands during earthquakes by the
cyclic strain method. NBS Building Science Series
138 (1982) 18. H.B. Seed, R.T. Wong, I.M. Idriss, K. Tokimatsu. Moduli and damping factors for dynamic analyses
of cohesionless soils. J. Geotech. Eng., 112, 11
(1986). 19. H.B. Seed, K. Mori, and C.K. Chan. Influence of
seismic history on liquefaction of sands. J. Geotech. Engrg. Div., 103 (1977) 4. H.B. Seed, I.M. Idriss, F. Makidisi, N. Banerjee. The generation and dissipation of pore water
pressures during soil liquefaction. Rep. No. EERC
75-26, Univ. of California, Berkeley, Calif. (1975). 20. E. Yee, P.M. Duku, J.P. Stewart. Cyclic volumetric
strain behavior of sands with fines of low plasticity. Journal of Geotechnical and Geoenvironmental
Engineering, 140, 4 (2013). 5. G.R. Martin, W.D.L. Finn, Seed H.B. Fundamentals
of liquefaction under cyclic loading. J. Geotech. Engrg. Div., 101, 5 (1975) 21. S. Mousavi,
M. Ghayoomi,
S.H. Jones. Compositional and Geo-Environmental Factors in
Microbial Induced Partial Saturation. Environ. Geotech. (2019) 6. C.P. Polito, R.A. Green, and J. Lee. Pore pressure
generation models for sands and silty soils subjected
to cyclic loading. Journal of Geotechnical and
Geoenvironmental Engineering 134, 10 (2008) 6
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https://openalex.org/W2040858483
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https://www.frontiersin.org/articles/10.3389/fpsyg.2012.00233/pdf
|
English
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Filter Effects and Filter Artifacts in the Analysis of Electrophysiological Data
|
Frontiers in psychology
| 2,012
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cc-by
| 4,493
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1The EEGLAB “Basic FIR filter” function is based on the firls (least square fitting of FIR coefficients) MATLAB
function (in the current version 11.0.2.1b as of writing this commentary). Filter length is defined independently
of transition-band width. This can result in various adverse effects from sub-optimal stop-band attenuation,
over filter artifacts, to leakage in the transition-band (the infamous “band-pass filter bug”). The problem is incre-
ased by the property of the firls function that transition-bands are defined as “do not care” regions. In a warning
message it is announced in the current EEGLAB version that firls based filters are no longer recommended and
fir1 should be used instead and will be the default setting in a future version. In its current implementation this
change will not solve the problem as filter length and transition-band width are still defined independently. The
filter actually generated by the fir1 function will deviate from the requested and reported transition-band width. Filter effects vs. filter artifacts unity gain at DC (the step response never
returns to one). These artifacts are due to a
known misconception in FIR filter design in
EEGLAB1. The artifacts are further ampli-
fied by filtering twice, forward and back-
ward, to achieve zero-phase. Andreas Widmann* and Erich Schröger Institute of Psychology, University of Leipzig, Leipzig, Germany
*Correspondence: widmann@uni-leipzig.de Signal-to noise ratio The signal-to-noise ratio chosen by
VanRullen for the simulated dataset is
implausibly high (+26 dB at single trial
level, +43 dB averaged) as signal-to-noise
ratios smaller than one are common in real
electrophysiological data. This assumption
biases the conclusion on the detectability
of the signal without filtering and overesti-
mates the impact of filter ringing artifacts. i
g
The causality in filtering is not directly
related to the symmetry of filter coefficients
as implied in Figure 1 in Rousselet’s (2012)
comment. That is, the FIR filter labeled “non-
causal” can also be applied in a causal way by
not compensating the filter’s delay (by not
filtering the signal backward and not “left-
shifting” the signal by the group delay). In
order to reduce this filter delay in causal fil-
tering, asymmetric “causal” FIR filters, more
often referred to as minimum-phase filters,
can be used. However, as FIR filter coef- It is correct that any band limitation in
the frequency domain necessarily affects
the signal in the time domain resulting
in reduced precision and artifacts (cf. e.g., Luck, 2005). Nevertheless, here, we
will discuss that the problem is overesti-
mated by about an order of magnitude by
the assumptions and analysis parameters
used in VanRullen’s simulated dataset and
advertise the cautious usage of carefully
designed filters to be able to also detect
small signals. At more realistic signal-to-noise ratios
no significant impact of the filter arti-
facts is observed (but only effects of tran-
sient smoothing by low-pass filtering; see
Figure 1 and Appendix). The precision that
can be achieved in the measurement of the
response onset latency is limited by signal-
to-noise ratio. Thus, the trade-off between
filter effects versus the signal-to-noise ratio
gain by filtering must be considered. Causal filtering
I In a recent review, VanRullen (2011) con-
cludes that electrophysiological data should
not be filtered at all when one is interested
in the temporal dynamics or onset latencies
of the electrophysiological responses. This
conclusion was based on the observation
that response onset latency was “smeared
out in time for several tens or even hun-
dreds of milliseconds” (p. 6) in a simulated
dataset. In a commentary on VanRullen, Rousselet
(2012) suggested to use “causal” filtering to
solve the problem of signal onset latency
underestimation due to smoothing. This is
a valid recommendation, which has already
been given (e.g., Luck, 2005). However, it
should have been made explicit that the sug-
gested type of “causal” filtering comes at the
cost of a distortion of phase information also
with FIR filters (cf., Figure A1 in Appendix). A commentary on We also recommend to distinguish between
filter effects, that is, the obligatory effects
any filter with equivalent properties – cutoff
frequency, roll-off, ripple, and attenuation
– would have on the data (e.g., smoothing
of transients as demonstrated by the filter’s
step response), and filter artifacts, that is,
effects which can be minimized by selection
of filter type and parameters (e.g., ringing). Four conceptual fallacies in mapping the
time course of recognition
by VanRullen, R. (2011). Front. Psychol. 2:365. doi: 10.3389/fpsyg.2011.00365 With more appropriate filters the under-
estimation of signal onset latency due to
the smoothing effect of low-pass filtering
could be narrowed down to about 4–12 ms
in the simulated dataset (see Figure 1 and
Appendix for a simulation), that is, about an
order of magnitude smaller than assumed. Does filtering preclude us from studying
ERP time-courses? Does filtering preclude us from studying
ERP time-courses? by Rousselet, G. A. (2012). Front. Psychol. 3:131. doi: 10.3389/fpsyg.2012.00131 by Rousselet, G. A. (2012). Front. Psychol. 3:131. doi: 10.3389/fpsyg.2012.00131 www.frontiersin.org Filter selection
h fil
l
d 0
0.05
0.1
0.15
0.2
10
20
30
40
50
-14 dB SNR 0
0.05
0.1
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+6 dB SNR Trial 0
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0
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Amplitude
Averaged
(+17 dB SNR)
0
0.05
0.1
0.15
0.2
Unfltered
EEGLAB frls
Windowed sinc
Discrete gaussian
Minimum−phase
Time 0
0.05
0.1
0.15
0.2
0
0.05
0.1
Unfltered
EEGLAB frls
Windowed sinc
Discrete gaussian
Minimum−phase 0
0.05
0.1
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0
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(+17 dB SNR) 0
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Time 0
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Time Figure 1 | Impact of filter type and signal-to-noise ratio (SNR) on the
time course of the averaged signal and the detected signal onset
latency in the simulated dataset (sampling frequency 500 Hz; step
signal; signal onset 150–180 ms) as defined by VanRullen (2011). The
simulated dataset was filtered with the EEGLAB firls based filter, a
windowed sinc FIR filter (Widmann, 2006), a discrete Gaussian kernel filter
(Lindeberg, 1990), and a minimum-phase converted version of the Gaussian filter (causal; see Figure A1 in Appendix for a detailed description of the
filters). Single trial signal-to-noise ratio was reduced in 20 dB-steps from
+26 dB (original dataset; left column) to −14 dB (right column). The Gaussian
filtered single trials (second row) and the averaged trials (third row) are
displayed. Signal onset latency was measured by a running one-sided t-test
(bottom row; gray bars) and jack-knifing with a relative 20%-criterion (black
lines; Kiesel et al., 2008). ficients necessarily must be symmetric (or
antisymmetric) for the filter to have linear-
phase characteristic (Rabiner and Gold, 1975;
Ifeachor and Jervis, 2002), this reduction of
filter delay comes at the cost of a non-linear
phase response and the introduction of a sys-
tematic delay in the signal (which can not eas-
ily be compensated due to non-linear phase). The recommendation for minimum-phase
causal FIR filtering, thus, should be strictly
limited to the detection of onset latencies and
applications where causality is required for
theoretical considerations. Frontiers in Psychology | Perception Science Filter selection
h fil
l
d In its application
it should be considered that the systematic
delay and the non-linear phase response
could also affect response onset information. However, in most situations filtering will
nevertheless be necessary to appropriately
analyze electrophysiological data. In these
situations it is essential to know and under-
stand the effects of filtering on the data and
cautiously adjust filter settings (cutoff fre-
quencies, roll-off, attenuation, and ripple)
to the signal of interest and the particular
application, e.g., by evaluating the effects of
different filters on the data. Especially the
high-pass filtering of slow ERP components
or blinks, as commonly observed in the lit-
erature, might seriously affect ERP time
course and amplitudes (see, Luck, 2005, for
a detailed discussion). Furthermore, we rec-
ommend not using default filter settings, in In the first paragraph of the appendix
Rousselet (2012) suggests that the causal
filtered signal could be left-shifted by the
group delay to achieve zero-phase. We do not
agree with this recommendation: First, this
would re-introduce non-causality. Second,
this statement is wrong as only linear-phase
(anti-/symmetric FIR) filters can be made
zero-phase by left-shifting the signal. Filter selection
h fil
l
d The filter selected in VanRullen’s simulation
was a bad choice as it results in artifacts not
related to filtering per se. The FIR filter gen-
erated by EEGLAB (Delorme et al., 2011)
with default settings exhibits excessive filter
ringing (cf., Figure A1 in Appendix), and
excessive pass-band ripple including non- July 2012 | Volume 3 | Article 233 | 1 www.frontiersin.org Widmann and Schröger Filter effects and filter artifacts Trial
0
0.05
0.1
0.15
0.2
10
20
30
40
50
Trial
0
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0.1
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0.2
10
20
30
40
50
0
0.05
0.1
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0.2
0
0.05
0.1
Amplitude
0
0.05
0.1
0.15
0.2
10
20
30
40
50
0
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10
20
30
40
50
0
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0
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20
30
40
50
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20
30
40
50
0
0.05
0.1
0.15
0.2
0
0.05
0.1
Unfltered
EEGLAB frls
Windowed sinc
Discrete gaussian
Minimum−phase
+26 dB SNR
-14 dB SNR
+6 dB SNR
Unfltered
Gaussian fltered
Averaged
(+17 dB SNR)
0
0.05
0.1
0.15
0.2
Unfltered
EEGLAB frls
Windowed sinc
Discrete gaussian
Minimum−phase
Time
0
0.05
0.1
0.15
0.2
Time
0
0.05
0.1
0.15
0.2
Time
Figure 1 | Impact of filter type and signal-to-noise ratio (SNR) on the
time course of the averaged signal and the detected signal onset
latency in the simulated dataset (sampling frequency 500 Hz; step
signal; signal onset 150–180 ms) as defined by VanRullen (2011). The
simulated dataset was filtered with the EEGLAB firls based filter, a
windowed sinc FIR filter (Widmann, 2006), a discrete Gaussian kernel filter
(Lindeberg, 1990), and a minimum-phase converted version of the Gaussian
filter (causal; see Figure A1 in Appendix for a detailed description of the
filters). Single trial signal-to-noise ratio was reduced in 20 dB-steps from
+26 dB (original dataset; left column) to −14 dB (right column). The Gaussian
filtered single trials (second row) and the averaged trials (third row) are
displayed. Signal onset latency was measured by a running one-sided t-test
(bottom row; gray bars) and jack-knifing with a relative 20%-criterion (black
lines; Kiesel et al., 2008). Conclusion
I
h
l i In the analysis of electrophysiological data
signal-to-noise ratio has to be improved by
all adequate means. Priority should be given
to the collection of higher numbers of trials
and reduction of noise in data recording. Frontiers in Psychology | Perception Science July 2012 | Volume 3 | Article 233 | 2 Filter effects and filter artifacts Widmann and Schröger Rousselet, G. A. (2012). Does filtering preclude us from
studying ERP time-courses? Front. Psychol. 3, 365. doi:
10.3389/fpsyg.2011.00365 particular when using EEGLAB, but rather
to manually and carefully select filter type
and parameters to minimize filter artifacts. Filtering can result in considerable dis-
tortions of the time course (and amplitude)
of a signal as demonstrated by VanRullen
(2011). Thus, filtering should not be used
lightly. However, if effects of filtering are
cautiously considered and filter artifacts
are minimized, a valid interpretation of the
temporal dynamics of filtered electrophysi-
ological data is possible and signals missed
otherwise can be detected with filtering. the German Research Foundation (DFG; a
Reinhart-Koselleck grant awarded to Erich
Schröger). particular when using EEGLAB, but rather
to manually and carefully select filter type
and parameters to minimize filter artifacts. VanRullen, R. (2011). Four common conceptual falla-
cies in mapping the time course of recognition. Front. Psychol. 2, 365. doi: 10.3389/fpsyg.2011.00365 Filtering can result in considerable dis-
tortions of the time course (and amplitude)
of a signal as demonstrated by VanRullen
(2011). Thus, filtering should not be used
lightly. However, if effects of filtering are
cautiously considered and filter artifacts
are minimized, a valid interpretation of the
temporal dynamics of filtered electrophysi-
ological data is possible and signals missed
otherwise can be detected with filtering. References Widmann, A. (2006). Firfilt EEGLAB Plugin, Version 1.5.1. Leipzig: University of Leipzig. Delorme, A., Mullen, T., Kothe, C., Akalin Acar, Z.,
Bigdely-Shamlo, N., Vankov, A., and Makeig, S. (2011). EEGLAB, SIFT, NFT, BCILAB, and ERICA:
new tools for advanced EEG processing. Comput. Intell. Neurosci. 2011, 130714. Received: 14 June 2012; accepted: 19 June 2012; published
online: 09 July 2012. Received: 14 June 2012; accepted: 19 June 2012; published
online: 09 July 2012. Citation: Widmann A and Schröger E (2012) Filter
effects and filter artifacts in the analysis of electrophysi-
ological data. Front. Psychology 3:233. doi: 10.3389/
fpsyg.2012.00233
This article was submitted to Frontiers in Perception Science,
a specialty of Frontiers in Psychology. Copyright © 2012 Widmann and Schröger. This is an open-
access article distributed under the terms of the Creative
Commons Attribution License, which permits use, distribu-
tion and reproduction in other forums, provided the original
authors and source are credited and subject to any copyright
notices concerning any third-party graphics etc. Ifeachor, E. C., and Jervis, B. W. (2002). Digital Signal
Processing: A Practical Approach. Edinburgh: Pearson. Ifeachor, E. C., and Jervis, B. W. (2002). Digital Signal
Processing: A Practical Approach. Edinburgh: Pearson. Kiesel, A., Miller, J., Jolicoeur, P., and Brisson, B. (2008). Measurement of ERP latency differences: a compari-
son of single-participant and jackknife-based scoring
methods. Psychophysiology 45, 250–274. Citation: Widmann A and Schröger E (2012) Filter
effects and filter artifacts in the analysis of electrophysi-
ological data. Front. Psychology 3:233. doi: 10.3389/
fpsyg.2012.00233 Kiesel, A., Miller, J., Jolicoeur, P., and Brisson, B. (2008). Measurement of ERP latency differences: a compari-
son of single-participant and jackknife-based scoring
methods. Psychophysiology 45, 250–274. Received: 14 June 2012; accepted: 19 June 2012; published
online: 09 July 2012.
Citation: Widmann A and Schröger E (2012) Filter
effects and filter artifacts in the analysis of electrophysi-
ological data. Front. Psychology 3:233. doi: 10.3389/
fpsyg.2012.00233
This article was submitted to Frontiers in Perception Science,
a specialty of Frontiers in Psychology.
Copyright © 2012 Widmann and Schröger. This is an open-
access article distributed under the terms of the Creative
Commons Attribution License, which permits use, distribu-
tion and reproduction in other forums, provided the original
authors and source are credited and subject to any copyright
notices concerning any third-party graphics etc. July 2012 | Volume 3 | Article 233 | 3 Acknowledgments Lindeberg, T. (1990). Scale-space for discrete signals. IEEE
Trans. Pattern Anal. Mach. Intell. 12, 234–254. We are grateful to Burkhard Maess for
the extensive discussion and helpful com-
ments and to Nicole Wetzel for her help-
ful comments on the manuscript. The
research was supported by a grant from Luck, S. J. (2005). An Introduction to the Event-Related
Potential Technique. Cambridge, MA: MIT Press. Rabiner, L. R., and Gold, B. (1975). Theory and Application
of Digital Signal Processing. Englewood Cliffs, NJ:
Prentice-Hall. July 2012 | Volume 3 | Article 233 | 3 www.frontiersin.org www.frontiersin.org Filter effects and filter artifacts Widmann and Schröger filters were significantly reduced (non-unity
DC gain is still noticeable with the EEGLAB
firls filter). No significant ringing artifacts
were observed with the windowed sinc FIR
filters. Importantly, at −14 dB single trial
signal-to-noise ratio the signal could no
longer be reliably detected without filter-
ing and thus no signal onset latency could
be determined. With non-causal and causal
filtering the signal was detectable and the
onset latency was overestimated by 4–6 and
18 ms, respectively (0 and 14 ms as esti-
mated by jack-knifing). −14 dB single trial
signal-to-noise ratio would be considered
a good value in many electrophysiological
measurements as, e.g., in electroencepha-
lography (EEG). Averaging the 50 trials
improved signal-to-noise ratio by +17 dB. Filtering further improved signal-to-noise
ratio by about +12 dB allowing the reliable
detection of the signal. Signal-to-noise ratio
dd
l
l In two additional analyses we reduced single
trial signal-to-noise ratio in the simulated
dataset in steps of −20 dB to +6 dB and
−14 dB by reducing the signal amplitude
from 1 to 0.1 and 0.01, respectively (Figure 1,
columns two and three). At +6 dB signal-to-
noise ratio the differences in onset latency
underestimation between the linear-phase We would like to note that ringing arti-
facts must be considered in relation to noise
level. In non-simulated electrophysiological Impulse response
Step response
Magnitude response
Phase response
Linear phase flters
Minimum phase flter
−20
0
20
−0.05
0
0.05
0.1
0.15
Amplitude
−20
0
20
−0.2
0
0.2
0.4
0.6
0.8
1
Amplitude
0
100
200
−60
−40
−20
0
Magnitude (dB)
−20
0
20
0
0.05
0.1
Sample
Amplitude
−20
0
20
−0.2
0
0.2
0.4
0.6
0.8
1
Sample
Amplitude
0
100
200
−60
−40
−20
0
Frequency (Hz)
Magnitude (dB)
0
100
200
−2
−
0
Frequency (Hz)
Phase (rad)
EEGLAB frls
Windowed sinc
Discrete gaussian
Figure A1 | Prototypical low-pass linear-phase filters’ impulse, step,
magnitude, and phase responses (top row; sampling frequency = 500 Hz,
cutoff frequency 30 Hz). The EEGLAB “Basic FIR filter” (red, 49 points, default
settings, EEGLAB v11.0.2.1b; Delorme et al., 2011) exhibiting excessive ringing
artifacts (“ripples” in the time domain observed if filtering a non-oscillating input,
e.g., a step signal, yields an oscillating output) is shown in comparison to a
windowed sinc (green, 49 points, firfilt EEGLAB plugin; Widmann, 2006) and a
discrete Gaussian kernel filter (σ = 6.18 ms, based on a modified Bessel
function; Lindeberg, 1990). The minimum-phase converted version of the
discrete Gaussian kernel filter (bottom row; “causal” filter converted by means
of Hilbert transform) shows a considerably non-linear phase response but does
not show a response before signal onset. Appendix
Filter selection observed with the windowed sinc filter, in
particular undershoot before signal onset
(see Figure 1, left column, third row). Additionally, we re-analyzed the dataset
by means of a causal filtering with a min-
imum-phase converted discrete Gaussian
kernel filter as suggested by Rousselet
(2012). The signal onset latency was over-
estimated by 4 ms due to the systematic
delay introduced by causal filtering (16 ms
as estimated by jack-knifing). However, the
morphology of the signal was considerably
affected by the non-linear phase response
of the filter. We re-analyzed the simulated dataset as
defined by VanRullen by means of a 49
point Hamming windowed sinc FIR filter
(same length as the “default” EEGLAB gen-
erated filter; Widmann, 2006), and a dis-
crete Gaussian kernel filter (σ = 6.18 ms;
see Figure A1 for impulse, step, magni-
tude, and phase responses). The signal
onset latency was underestimated by
about 4 (windowed sinc) to 12 ms (discrete
Gaussian) relative to unfiltered data com-
pared to 42 ms when applying the EEGLAB
firls default filter by one-sided t-tests (see
Figure 1, bottom row; with non-simulated
data more appropriate methods as, e.g.,
cluster-based non-parametric analysis,
Maris and Oostenveld, 2007, could have
been employed). No signal onset latency
underestimation was observed using
a jack-knifing technique with a rela-
tive 20%-criterion (Kiesel et al., 2008). Significant ringing artifacts could still be Signal-to-noise ratio
dd
l
l Frontiers in Psychology | Perception Science
July 2012 | Volume 3 | Article 233 | 4 Impulse response
Linear phase flters
−20
0
20
−0.05
0
0.05
0.1
0.15
Amplitude
A
li
d Magnitude response
Phase response
0
100
200
−60
−40
−20
0
Magnitude (dB)
EEGLAB frls
Windowed sinc
Discrete gaussian Step response
−20
0
20
−0.2
0
0.2
0.4
0.6
0.8
1
Amplitude Magnitude (dB) Amplitude Minimum phase flter
−20
0
20
0
0.05
0.1
Sample
Amplitude
Amplitude −20
0
20
−0.2
0
0.2
0.4
0.6
0.8
1
Sample
Amplitude
M
it d (dB) 0
100
200
−60
−40
−20
0
Frequency (Hz)
Magnitude (dB)
Ph
(
d) 0
100
200
−2
−
0
Frequency (Hz)
Phase (rad) −20
0
20
−0.2
0
0.2
0.4
0.6
0.8
1
Sample
Amplitude
0
100
200
−60
−40
−20
0
Frequency (Hz)
Magnitude (dB)
Ph
(
d) Minimum phase flter Magnitude (dB) Amplitude Phase (rad) Figure A1 | Prototypical low-pass linear-phase filters’ impulse, step,
magnitude, and phase responses (top row; sampling frequency = 500 Hz,
cutoff frequency 30 Hz). The EEGLAB “Basic FIR filter” (red, 49 points, default
settings, EEGLAB v11.0.2.1b; Delorme et al., 2011) exhibiting excessive ringing
artifacts (“ripples” in the time domain observed if filtering a non-oscillating input,
e.g., a step signal, yields an oscillating output) is shown in comparison to a Figure A1 | Prototypical low-pass linear-phase filters’ impulse, step,
magnitude, and phase responses (top row; sampling frequency = 500 Hz,
cutoff frequency 30 Hz). The EEGLAB “Basic FIR filter” (red, 49 points, default
settings, EEGLAB v11.0.2.1b; Delorme et al., 2011) exhibiting excessive ringing
artifacts (“ripples” in the time domain observed if filtering a non-oscillating input,
e.g., a step signal, yields an oscillating output) is shown in comparison to a windowed sinc (green, 49 points, firfilt EEGLAB plugin; Widmann, 2006) and a
discrete Gaussian kernel filter (σ = 6.18 ms, based on a modified Bessel
function; Lindeberg, 1990). The minimum-phase converted version of the
discrete Gaussian kernel filter (bottom row; “causal” filter converted by means
of Hilbert transform) shows a considerably non-linear phase response but does
not show a response before signal onset. windowed sinc (green, 49 points, firfilt EEGLAB plugin; Widmann, 2006) and a
discrete Gaussian kernel filter (σ = 6.18 ms, based on a modified Bessel
function; Lindeberg, 1990). Signal-to-noise ratio
dd
l
l The minimum-phase converted version of the
discrete Gaussian kernel filter (bottom row; “causal” filter converted by means
of Hilbert transform) shows a considerably non-linear phase response but does
not show a response before signal onset. July 2012 | Volume 3 | Article 233 | 4 Frontiers in Psychology | Perception Science Filter effects and filter artifacts Widmann and Schröger filters, e.g., the Remez-exchange (equirip-
ple) algorithm, preferable for arbitrary
frequency responses not very common in
the analysis of electrophysiological data
(McClellan et al., 1973). The authors have
good experiences with windowed sinc FIR
filters, also commonly referred to as “ideal”
filters due to the rectangular shape of the
sinc function in the frequency domain. Implementations for the analysis of elec-
trophysiological data can be found, e.g., in
EEProbe software package (ANT, Enschede,
The Netherlands) and the open-source
firfilt EEGLAB plugin (Widmann, 2006). For a widely accessible introduction to
windowed sinc FIR filter design see, e.g.,
Smith (1999). Windowed sinc FIR filter’s
stop-band attenuation (and pass-band rip-
ple) can be precisely controlled by selection
of window type; the filters’ transition-band
width is a function of filter order/length
(and window type), thus, filter length can
be estimated (as with Remez-exchange FIR
filters) or computed (with Kaiser windows),
and high-pass filters can be easily optimized
for excellent DC attenuation. If filter ringing
is assumed to have an impact on a particular
application, non-oscillating FIR filters, as,
e.g., Gaussian kernel FIR filters, should be
considered. filters, e.g., the Remez-exchange (equirip-
ple) algorithm, preferable for arbitrary
frequency responses not very common in
the analysis of electrophysiological data
(McClellan et al., 1973). The authors have
good experiences with windowed sinc FIR
filters, also commonly referred to as “ideal”
filters due to the rectangular shape of the
sinc function in the frequency domain. Implementations for the analysis of elec-
trophysiological data can be found, e.g., in
EEProbe software package (ANT, Enschede,
The Netherlands) and the open-source
firfilt EEGLAB plugin (Widmann, 2006). For a widely accessible introduction to
windowed sinc FIR filter design see, e.g.,
Smith (1999). Windowed sinc FIR filter’s
stop-band attenuation (and pass-band rip-
ple) can be precisely controlled by selection
of window type; the filters’ transition-band
width is a function of filter order/length
(and window type), thus, filter length can
be estimated (as with Remez-exchange FIR
filters) or computed (with Kaiser windows),
and high-pass filters can be easily optimized
for excellent DC attenuation. Signal-to-noise ratio
dd
l
l If filter ringing
is assumed to have an impact on a particular
application, non-oscillating FIR filters, as,
e.g., Gaussian kernel FIR filters, should be
considered. roll-off) should be preferred over nar-
rower ones where possible. Cutoff fre-
quencies and transition-bands should be
separated from the signal of interest in
the frequency domain to minimize dis-
tortion of the signal by filter artifacts and
undesired filter effects. The filter should
be as short as possible in order to mini-
mize temporal smearing. Low-pass filters
can sometimes be omitted in favor of later
analysis steps introducing additional fil-
tering as, e.g., computing time window
mean values (representing low-pass filters
as well). Balancing transition-band width
and cutoff frequency is a particular chal-
lenge for high-pass filter design as the
transition-band is limited by DC on the
one hand but cutoff frequency should be
low in order not to distort slow compo-
nents on the other hand. Extreme cutoff
frequencies <0.1 Hz as found sometimes
in the literature should be avoided as filters
usually become very long. data ringing artifacts are not expected to
have a major impact due to the high noise
level on the one hand and the absence of
ultra-sharp transients on the other hand. July 2012 | Volume 3 | Article 233 | 5 Recommendations for selection of
filter type and parameters Unfortunately there cannot be given a
ubiquitously valid recommendation for the
selection of optimal filter settings, type, and
parameters. They have to be individually
adjusted to each application. Infinite impulse response (IIR) filters are
often considered as computationally more
efficient compared to FIR filters as they are
shorter. However, it should be considered,
that the signal has to be filtered twice – for-
ward and backward – to achieve zero-phase
(possibly introducing artifacts with DC off-
sets at signal boundaries and squaring the
frequency response); a larger number of
computations is necessary with IIR filters
due to recursive operation (relative to the
IIR filter’s shorter length); numerical errors
can be accumulated due to the infinitive
impulse response; and they are more dif-
ficult to control and can be unstable. References Maris, E., and Oostenveld, R. (2007). Non-parametric
statistical testing of EEG- and MEG-data. J. Neurosci. Methods 164, 177–190. For FIR filters, only symmetric linear-
phase filters should be considered for most
applications in electrophysiology as they
can be easily made zero-phase by left-
shifting the signal by the filters group delay. There are various methods to design FIR McClellan, J. H., Parks, T. W., and Rabiner, L. R. (1973). A computer program for designing optimum FIR lin-
ear phase digital filters. IEEE Trans. Acoust. AU-21,
509–526. As rule of thumb, stop-band attenu-
ation should be selected only as high as
necessary, wider transition-bands (slow Smith, S. W. (1999). The Scientist and Engineer’s Guide to
Digital Signal Processing. San Diego, CA: California
Technical Publishing. July 2012 | Volume 3 | Article 233 | 5 www.frontiersin.org www.frontiersin.org
|
https://openalex.org/W2945343235
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https://europepmc.org/articles/pmc6540614?pdf=render
|
English
| null |
Nucleoside Analogues as Antibacterial Agents
|
Frontiers in microbiology
| 2,019
|
cc-by
| 9,965
|
Nucleoside Analogues as
Antibacterial Agents
Jessica M. Thomson and Iain L. Lamont*
Department of Biochemistry, University of Otago, Dunedin, New Zealand The rapid increase in antibiotic-resistant bacteria has emphasized the urgent need to
identify new treatments for bacterial infections. One attractive approach, reducing the
need for expensive and time-consuming clinical trials, is to repurpose existing clinically
approved compounds for use as antibacterial agents. Nucleoside analogues are commonly
used for treating viral and fungal infections, as well as for treating cancers, but have
received relatively little attention as treatments for bacterial infections. However, a significant
number of clinically approved derivatives of both pyrimidines and purines including
halogenated, thiolated, and azolated compounds have been shown to have antibacterial
activity. In the small number of studies carried out to date, such compounds have shown
promise in treating bacterial infections. Here, we review the mechanisms of action and
antibacterial activities of nucleoside analogues that can potentially be repurposed for
treating infections as well as considering possible limitations in their usage. Edited by:
Rustam Aminov,
University of Aberdeen,
United Kingdom Keywords:
repurposed
antibiotics,
antibiotic
resistance,
pyrimidine
analogues,
purine
analogues,
multidrug-resistant bacteria, antibacterial agents, antimicrobial Reviewed by:
Babita Agrawal,
University of Alberta, Canada
Steven W. Polyak,
University of South Australia,
Australia REVIEW
published: 22 May 2019
doi: 10.3389/fmicb.2019.00952 published: 22 May 2019
doi: 10.3389/fmicb.2019.00952 INTRODUCTION The introduction of antibiotics into clinical use heralded a new age for medicine. However,
less than a century later, the therapeutic efficacy of antibiotics is becoming limited owing to
the rise of resistance in pathogenic bacteria (Lewis, 2013). Once a problem largely limited to
hospital environments, antibiotic-resistant strains of pathogens have progressively become more
prevalent in the community, and their spread has been unrestricted (Rice, 2009). It has been
estimated that there are at least 700,000 deaths a year worldwide due to infections by antibiotic-
resistant bacteria and in the absence of new treatment strategies this figure could rise to
10 million deaths a year by 2050 (O’Neill, 2014). Despite an urgent need for new antibiotics
to combat resistant pathogens, there have been very few novel antibiotics to make it into
clinical practice. Indeed, the majority of antibiotics in use today belong to classes discovered
before the 1970s (Lewis, 2013). There are a number of factors contributing to the issue of
failing antibiotic discovery, including declining interest in discovery by pharmaceutical companies
due to the high costs of bringing drugs to market and limited approaches to identify lead
compounds (Livermore, 2011). However, some promising approaches to antibiotic discovery
do exist. Recently, novel methods of screening environmental microbes have yielded promising
antibiotic compounds (Gavrish et al., 2014; Ling et al., 2015). While such screening techniques
hold promise for discovery of novel compounds, it will be a number of years before any
discovered compounds are sufficiently studied to be used clinically. Thus, a different approach
to discovery, namely drug repurposing, may identify compounds with antibiotic activity and *Correspondence:
Iain L. Lamont
iain.lamont@otago.ac.nz Specialty section:
This article was submitted to
Antimicrobials, Resistance and
Chemotherapy,
a section of the journal
Frontiers in Microbiology
Received: 29 January 2019
Accepted: 15 April 2019
Published: 22 May 2019
Citation:
Thomson JM and Lamont IL (2019)
Nucleoside Analogues as
Antibacterial Agents. Front. Microbiol. 10:952. doi: 10.3389/fmicb.2019.00952 Specialty section:
This article was submitted to
Antimicrobials, Resistance and
Chemotherapy,
a section of the journal
Frontiers in Microbiology Specialty section:
This article was submitted to
Antimicrobials, Resistance and
Chemotherapy,
a section of the journal
Frontiers in Microbiology
Received: 29 January 2019
Accepted: 15 April 2019
Published: 22 May 2019 Received: 29 January 2019
Accepted: 15 April 2019
Published: 22 May 2019 Gemcitabine Modifications to
nucleobases include halogenation and addition of azido groups,
and modifications of the sugar component include ring opening,
halogenation, methylation, and hydroxylation or dehydroxylation
(Jordheim et al., 2013). It is worth noting that a class of drugs
called nucleoside antibiotics has also been studied for potential
clinical use as antibacterials. Nucleoside antibiotics typically
consist of parts of natural nucleosides conjugated with additional
complex structures such as amino acids or fatty acids, with
the combination having antibacterial properties. In bacteria,
nucleoside antibiotics primarily target cell-wall biosynthesis
(Winn et al., 2010; Niu and Tan, 2015). The potential use of
various nucleoside antibiotics has been extensively reviewed
elsewhere (Winn et al., 2010; Carter and McDonald, 2014;
Niu and Tan, 2015) and is beyond the scope of this review.h Gemcitabine has been the subject of various repurposing
studies. In a study that explored the efficacy of various nucleoside
analogues against clinical isolates from different bacteria genera,
gemcitabine was identified as having antibacterial activity
(Sandrini et al., 2007b). Gemcitabine had a potent antibacterial
effect on Gram-positive bacteria, including important pathogenic
species from genera Listeria, Bacillus, Enterococcus, and
Staphylococcus, although it was ineffective against Gram-negative
bacteria. A murine infection model was used to investigate
whether gemcitabine was useful as an antibiotic in vivo (Sandrini
et al., 2007a). Mice were infected with Streptococcus pyogenes
AP1, a virulent strain responsible for causing the majority of
severe S. pyogenes infections. Of the mice infected with a
potentially fatal dose of S. pyogenes AP1, those treated with
the control had a 100% mortality rate, whereas those treated
with gemcitabine had only a 17% mortality rate. This
demonstrated that gemcitabine had potent activity against
S. pyogenes in vivo.h This review will cover nucleoside analogues that have shown
clinical potential for repurposing as antibacterials. A summary
of the metabolism of the relevant compounds is shown in
Figure 1. First, their usage and modes of action in treating
cancer or viral infections, along with studies validating their
antibiotic activity against bacteria, will be outlined. Second,
studies on the metabolism of nucleoside analogues and their
mechanism of action in bacteria will be discussed. Finally,
limitations of nucleoside analogues as antibiotics including
potential for toxicity and development of resistance will
be considered. S. These studies showed gemcitabine to be a good candidate
for repurposing as an antibiotic. Jordheim et al. Gemcitabine Gemcitabine (2′,2′-difluoro-2′-deoxycytidine) is an analogue
of deoxycytidine and has two fluorine atoms in place of hydrogen
atoms on the 2′ carbon of the sugar component (Figure 2A). Gemcitabine was first developed as an antiviral drug but has
since been used exclusively as an anticancer drug (Mini et al.,
2006). Gemcitabine is used alone or in combination with other
drugs for various types of cancers, including metastatic pancreatic
cancer (Burris et al., 1997; Ishii et al., 2005). Gemcitabine is
a prodrug, which is taken up into eukaryotic cells, phosphorylated
to gemcitabine monophosphate by deoxycytidine kinase, and
converted to the active metabolites gemcitabine di- and
triphosphate (Heinemann et al., 1988; Mini et al., 2006). Once
activated, gemcitabine is incorporated into growing DNA
(Figure 1), ultimately resulting in termination of strand
elongation. After incorporation of gemcitabine, the DNA
polymerase adds one additional deoxynucleotide and DNA
synthesis then ceases; the additional deoxynucleotide may mask
gemcitabine from proof-reading exonucleases, preventing its
removal (Huang and Plunkett, 1995). It is unclear why only
one nucleotide is added after gemcitabine, but it may be that
the drug induces DNA conformation changes, preventing the
addition of further nucleotides (Plunkett et al., 1995). Gemcitabine
can also potently inhibit ribonucleotide reductase (Figure 1;
Huang and Plunkett, 1995). There is evidence that a metabolite
of gemcitabine can be incorporated into RNA, although the
identity of this metabolite and the impact this has on cells
are unclear (Figure 1; Vanhaperen et al., 1993). One class of drugs that are important from a clinical
perspective is nucleoside analogues, a pharmacologically diverse
class of drugs that arose from chemically modified natural
ribose or 2′-deoxyribose nucleosides (Koszytkowska-Stawinska
and Buchowicz, 2014). Nucleoside analogues are among the
most important drugs in the clinical setting and are used
widely as both anticancer and antiviral agents (Jordheim et al.,
2013). Nucleoside analogues mimic endogenous nucleosides,
exploiting cellular metabolism and becoming incorporated into
both DNA and RNA. This property makes nucleoside analogues
effective at inhibiting viral replication and stopping cancer cell
proliferation. However, although there have been some studies
on the efficacy of nucleoside analogues as antibacterial agents,
the potential use of these compounds in treating bacterial
infections has been relatively neglected. For the purposes of this review, a nucleoside analogue is
defined as a nucleobase linked to a sugar, where the nucleobase
or the sugar component is altered such that the molecule
becomes distinct from those found naturally. Abbreviations: dNK, Deoxyribonucleoside kinase; HPRT, Hypoxanthine-guanine
phosphoribosyl transferase; TK, Thymidine kinase. Citation: Thomson JM and Lamont IL (2019)
Nucleoside Analogues as
Antibacterial Agents. Front. Microbiol. 10:952. doi: 10.3389/fmicb.2019.00952 May 2019 | Volume 10 | Article 952 1 Frontiers in Microbiology | www.frontiersin.org Nucleoside Analogues as Antibacterial Agents Thomson and Lamont PYRIMIDINE ANALOGUES represents a way to fast track them into clinical use (Brown,
2015; Rangel-Vega et al., 2015; Miro-Canturri et al., 2019). The concept behind repurposing is that almost all drugs in
clinical use exhibit various pharmacological activities secondary
to their main activity. Screening these compounds for side
activities, and optimizing activity if required, could represent
a way to identify new antibiotics. As the safety profiles of the
drugs are known, clinical trials could be less extensive, thus
reducing costs associated with approval and allowing drugs to
be used clinically more rapidly than completely novel drugs. Gemcitabine (2012) performed
additional in vitro preclinical studies to investigate the potential
of gemcitabine, especially its efficacy against clinically important
multidrug-resistant strains of Staphylococcus aureus. Gemcitabine
was found to be active against 19 different strains of methicillin-
resistant S. aureus. Gemcitabine was effective against glycopeptide-
intermediate S. aureus, a strain resistant to all glycopeptide
antibiotics, including vancomycin. Resistance to gemcitabine May 2019 | Volume 10 | Article 952 Frontiers in Microbiology | www.frontiersin.org 2 Nucleoside Analogues as Antibacterial Agents Thomson and Lamont A
B
FIGURE 1 | Pathways by which pyrimidine and purine analogues are metabolized and become incorporated into DNA and RNA. Inhibition of enzymes by
nucleoside analogues and their metabolites is also shown (⊣). (A) Pyrimidine analogues. (B) Purine analogues. Abbreviations: HPRT, hypoxanthine-guanine
phosphoribosyl transferase; IMP, inosine monophosphate; RNR, ribonucleotide reductase; TK, thymidylate kinase; TMK, deoxythymidine monophosphate kinase;
TS, thymidylate synthase; UDP-GlcNAc, uridine diphosphate N-acetylglucosamine; XMP, xanthosine monophosphate. A A B B FIGURE 1 | Pathways by which pyrimidine and purine analogues are metabolized and become incorporated into DNA and RNA. Inhibition of enzymes by
nucleoside analogues and their metabolites is also shown (⊣). (A) Pyrimidine analogues. (B) Purine analogues. Abbreviations: HPRT, hypoxanthine-guanine
phosphoribosyl transferase; IMP, inosine monophosphate; RNR, ribonucleotide reductase; TK, thymidylate kinase; TMK, deoxythymidine monophosphate kinase;
TS, thymidylate synthase; UDP-GlcNAc, uridine diphosphate N-acetylglucosamine; XMP, xanthosine monophosphate. polymerase (Furman et al., 1986). However, zidovudine has
still been found to be incorporated into the DNA of patients
taking the drug, and there is evidence that at high doses,
zidovudine can lead to various toxicities, including mitochondrial
toxicity and cardiomyopathy (Lewis et al., 1992, 2000).i could develop in treated S. aureus (Jordheim et al., 2012). However, gemcitabine was found to have synergistic activity
with gentamicin, and if used in combination, emergence of
resistance to these drugs may be slowed (Jordheim et al., 2012). Frontiers in Microbiology | www.frontiersin.org Zidovudine Zidovudine was first found to have antibacterial activity in
the late 1980s. Zidovudine had antimicrobial activity against
various Enterobacteriaceae, including Salmonella species (Elwell
et al., 1987). Zidovudine was activated in these bacteria by
thymidine kinase (TK), and incorporation of activated zidovudine
into bacterial DNA resulted in DNA chain termination (Figure 1;
Elwell et al., 1987). Subsequently, zidovudine has been
demonstrated to have potent activity against many pathogenic
Gram-negative bacteria, including Escherichia coli, Salmonella
typhimurium, Klebsiella pneumoniae, Shigella flexneri, and
Haemophilus influenzae and including isolates resistant to
conventional antibiotics (Keith et al., 1989; Sandrini et al., 2007a,b; Zidovudine [3′azido-3′-deoxythymidine, AZT] is a thymidine
analogue with an azido group in place of the hydroxyl group
at the 3′ carbon of the deoxyribose ring (Figure 2B). Zidovudine
is an antiretroviral agent and is used clinically as therapy for
HIV/AIDS. Once activated to its triphosphorylated form,
zidovudine inhibits viral replication. The azido group of
zidovudine prevents phosphodiester bond formation and results
in DNA chain termination (Furman et al., 1986; Cooper and
Lovett, 2011). Zidovudine is effective as an antiretroviral because
it has an affinity for the viral reverse transcriptase that is
approximately 100-fold greater than its affinity for human DNA May 2019 | Volume 10 | Article 952 Frontiers in Microbiology | www.frontiersin.org 3 Nucleoside Analogues as Antibacterial Agents Thomson and Lamont A
B
C
D
FIGURE 2 | Structures of pyrimidines, purines, and their analogues, with substituted atoms highlighted. (A) Deoxycytidine and its analogue. (B) Thymidine and its
analogues. (C) Cytosine, uracil, and fluorinated pyrimidines. (D) Hypoxanthine, guanine, and their analogues. A A B B B B A C C C D D C FIGURE 2 | Structures of pyrimidines, purines, and their analogues, with substituted atoms highlighted. (A) Deox
analogues. (C) Cytosine, uracil, and fluorinated pyrimidines. (D) Hypoxanthine, guanine, and their analogues. FIGURE 2 | Structures of pyrimidines, purines, and their analogues, with substituted atoms highlighted. (A) Deoxycytidine and its analogue. (B) Thymidine and its
analogues. (C) Cytosine, uracil, and fluorinated pyrimidines. (D) Hypoxanthine, guanine, and their analogues. patients (Casado et al., 1999). These in vivo findings suggest
that zidovudine has potential application as an antibacterial
agent. Zidovudine has also been the subject of modification
studies, which aim to improve its therapeutic efficacy and
resolve issues like short half-life of the drug. Research has
gone into creating zidovudine derivatives that retain antiviral
activity while having improved bactericidal activity (Moroni
et al., 2002). Zidovudine Such derivatives may be particularly useful for
HIV/AIDS patients; HIV/AIDS patients are susceptible to
opportunistic bacterial infections, and improved bactericidal
profile of these derivatives would be a beneficial side activity. Doleans-Jordheim et al., 2011; Peyclit et al., 2018). It also acts
synergistically with conventional antibiotics, enhancing their
effectiveness (Wambaugh et al., 2017; Ng et al., 2018; Falagas
et al., 2019; Hu et al., 2019). Zidovudine is ineffective
against Gram-positive bacteria such as Listeria species, Bacillus
species, Staphylococci, and Enterococcus faecalis as well as
against Mycobacteria species and Pseudomonas aeruginosa
(Elwell et al., 1987; Sandrini et al., 2007a).h Doleans-Jordheim et al., 2011; Peyclit et al., 2018). It also acts
synergistically with conventional antibiotics, enhancing their
effectiveness (Wambaugh et al., 2017; Ng et al., 2018; Falagas
et al., 2019; Hu et al., 2019). Zidovudine is ineffective
against Gram-positive bacteria such as Listeria species, Bacillus
species, Staphylococci, and Enterococcus faecalis as well as
against Mycobacteria species and Pseudomonas aeruginosa
(Elwell et al., 1987; Sandrini et al., 2007a).h The antibacterial activity of zidovudine has been demonstrated
both in vitro and in vivo. Herrmann and Lagrange (1992)
used a macrophage cell line to demonstrate that zidovudine
inhibited intracellular growth of S. typhimurium. Zidovudine
had potent in vivo activity. Zidovudine prevented lethal infections
in mice with pyelonephritis caused by E. coli infection, being
as effective as either trimethoprim or ampicillin (Keith et al.,
1989). It also inhibited growth of antibiotic-resistant E. coli
and K. pneumoniae in a murine peritoneal infection model,
acting synergistically with colistin (Hu et al., 2019). When
administered subcutaneously, zidovudine also prevented lethal
salmonellosis in calves infected with S. dublin (Keith et al.,
1989). Zidovudine has therapeutic potential for humans as
well; zidovudine given as an antiretroviral to HIV/AIDS patients
also had the additional protective effect of lowering the recurrence
of Salmonella bacteremia, a significant problem for HIV/AIDS Frontiers in Microbiology | www.frontiersin.org Idoxuridine Idoxuridine (5-iodo-2′-deoxyuridine; Figure 2B) was the first
antiviral drug introduced to the clinic (Kaufman, 1962);
nowadays, it is mostly used in the therapy of herpetic simplex
keratitis (Wilhelmus, 2010). At high concentrations, idoxuridine
is cytotoxic because it competitively inhibits various enzymes,
including TK, and when triphosphorylated can become
incorporated into DNA (Figure 1; Prusoff et al., 1979). The
exact effect of the incorporation of triphosphorylated idoxuridine
into DNA is unknown. Idoxuridine alone had no antimicrobial properties against
a range of clinically important pathogens tested (Zander et al.,
2010a). However, when used in conjunction with SXT, a
combination of trimethoprim and sulfamethoxazole that inhibits
tetrahydrofolic acid synthesis, idoxuridine significantly enhanced
the antimicrobial properties of SXT against most of the bacterial
species tested, including K. pneumoniae, S. aureus, and S. pyogenes
(Zander et al., 2010a,b). Tetrahydrofolic acid is a critical bacterial
cofactor of thymidine synthesis, and thus, DNA synthesis (Sköld,
2009) and inhibition of TK by idoxuridine evidently enhanced
the effects of SXT in inhibiting DNA synthesis. This was the
case even in the presence of extracellular thymidine, which
would be present during infections and ameliorate the effects
of SXT (Zander et al., 2010a,b). l
The possible application of fluorinated pyrimidines as
antibacterials has been tested in vivo (Walz et al., 2010; Imperi
et al., 2013; Kirienko et al., 2016). 5-Fluorouracil was demonstrated
to be a clinically useful antibacterial agent by Walz et al. (2010). In a phase III clinical trial, Walz and colleagues studied the
efficacy of central venous catheters coated with 5-fluorouracil in
decreasing catheter-related bloodstream infections and reducing
colonization of catheters by bacteria. Nearly 1,000 patients were
randomized into two groups, one receiving a catheter coated
with 5-fluorouracil and the other group receiving standard catheters
coated with chlorhexidine-silver sulfadiazine (Walz et al., 2010). The catheters coated with 5-fluorouracil were as effective at
preventing bacterial colonisation as the standard chlorhexidine-
silver sulfadiazine catheters. The frequency of adverse events was
comparable between the two groups. The dose of 5-fluorouracil
used to coat the catheter was very low, and in a small tissue While the combination of idoxuridine and SXT has promise
for clinical application, extensive clinical studies will need
to be performed. Fluorinated Pyrimidines 5-Fluorocytosine
itself is not active; antifungal activity is dependent upon uptake
of 5-fluorocytosine into fungal cells and subsequent deamination
to 5-fluorouracil (Figure 1; Bennett, 1977). In turn, 5-fluorouracil
is converted to floxuridine mono-, di-, and tri-phosphate. Metabolites of 5-fluorouracil and floxuridine can become
incorporated into DNA and RNA and can also inhibit thymidylate
synthase, preventing de novo formation of deoxythymidine
monophosphate (Figure 1; Bennett, 1977). sample obtained from the location of catheterization, no toxicity
was observed in patients receiving 5-fluorouracil-coated catheters
(Walz et al., 2010). These data suggest that if widespread resistance
to compounds currently impregnated in standard catheters were
to arise, then 5-fluorouracil impregnated catheters could
be clinically useful as an alternative. It is also encouraging that
the 5-fluorouracil coating the catheters did not cause any toxicity
or significant side effects.l if
While 5-fluorouracil has been shown to be a potentially
effective antimicrobial, the drug does not specifically target
bacteria and is also toxic to eukaryotic cells (Alvarez et al.,
2012). Conversely, 5-fluorocytosine is a prodrug and is only
converted to 5-fluorouracil by susceptible cells. Human cells
lack the enzymes required to convert 5-fluorocytosine to
5-fluorouracil; therefore, the drug is less toxic than 5-fluorouracil
to patients. The potential of 5-fluorocytosine as an antibacterial
was identified from a drug repurposing screen. 5-Fluorocytosine
was identified as a compound that inhibited production of a
number of virulence factors of P. aeruginosa (Imperi et al., 2013,
2019). 5-Fluorocytosine suppressed P. aeruginosa pathogenicity
in a mouse model of pulmonary infection (Imperi et al., 2013)
as well as in a Caenorhabditis elegans infection model (Kirienko
et al., 2016). 5-Fluorocytosine needs to be deaminated to
5-fluorouracil to inhibit virulence factor production of P. aeruginosa
(Imperi et al., 2013, 2019). Compounds from the fluorinated pyrimidine family have
antibacterial activity. Various fluorinated pyrimidines could inhibit
the growth of the human pathogen Ureaplasma urealyticum
(Carnrot et al., 2003). Floxuridine had a strong effect in vitro,
inhibiting the growth of U. urealyticum for up to 72 h. This
finding was supported by a later study (Wehelie et al., 2004). Subsequently, various Gram-positive and Gram-negative bacteria
were found to be susceptible to floxuridine (Sandrini et al.,
2007a,b; Zander et al., 2010a). Gram-positive bacteria, such as
various streptococci, S. aureus and Bacillus species, were more
sensitive than the Gram-negative bacteria tested. Floxuridine has
also been found to have synergistic effects when used in combination
with zidovudine (Wambaugh et al., 2017). Fluorinated Pyrimidines 5-Fluorouracil has
been reported to decrease virulence of P. aeruginosa by disrupting
biofilm formation (Ueda et al., 2009) and also has activity against
Mycobacterium tuberculosis and a number of oral microbes
including the pathogen S. pyogenes (Singh et al., 2015; Vanlancker
et al., 2016). Floxuridine and trifluridine both affected the growth
of Mycoplasma pneumoniae, with trifluridine strongly inhibiting
growth in vitro (Sun and Wang, 2013). These studies highlight
the antibacterial activity of fluorinated pyrimidines. Frontiers in Microbiology | www.frontiersin.org Fluorinated Pyrimidines Originally synthesized as antitumor drugs (Heidelberger et al.,
1957), fluorinated pyrimidines have also been used widely as
antifungals (Vermes et al., 2003), have some use as antivirals
(Wilhelmus, 2010), and show promise as antibacterials. The
fluorinated pyrimidine family was first synthesized after the
observation that tumor cells preferentially utilized uracil for
nucleic acid biosynthesis (Rutman et al., 1954; Heidelberger
et al., 1957). From this large family of compounds, the nucleobase
5-fluorouracil and the nucleoside floxuridine (5-fluoro-
2′deoxyuridine, Figure 2C) are frequently used for the treatment
of various cancers (Galmarini et al., 2002; Alvarez et al., 2012). May 2019 | Volume 10 | Article 952 Frontiers in Microbiology | www.frontiersin.org 4 Nucleoside Analogues as Antibacterial Agents Thomson and Lamont While these compounds are effective anticancer drugs and
are taken up more rapidly by cancerous cells, they also affect
non-cancerous cells, and their use is associated with a number
of side effects, such as bone marrow depression (Galmarini
et al., 2002). Trifluridine (Figure 2C) is used as an antiviral
and is a therapy for herpetic simplex virus epithelial keratitis
(Wilhelmus, 2010). 5-Fluorocytosine (Figure 2C), a prodrug
of 5-fluorouracil, is used as an antifungal agent. 5-Fluorocytosine
is most commonly used in combination therapy with other
antifungals, typically amphotericin B, as resistance to
5-fluorocytosine arises readily (Bennett, 1977; Francis and
Walsh, 1992; Ghannoum and Rice, 1999). 5-Fluorocytosine
itself is not active; antifungal activity is dependent upon uptake
of 5-fluorocytosine into fungal cells and subsequent deamination
to 5-fluorouracil (Figure 1; Bennett, 1977). In turn, 5-fluorouracil
is converted to floxuridine mono-, di-, and tri-phosphate. Metabolites of 5-fluorouracil and floxuridine can become
incorporated into DNA and RNA and can also inhibit thymidylate
synthase, preventing de novo formation of deoxythymidine
monophosphate (Figure 1; Bennett, 1977).l While these compounds are effective anticancer drugs and
are taken up more rapidly by cancerous cells, they also affect
non-cancerous cells, and their use is associated with a number
of side effects, such as bone marrow depression (Galmarini
et al., 2002). Trifluridine (Figure 2C) is used as an antiviral
and is a therapy for herpetic simplex virus epithelial keratitis
(Wilhelmus, 2010). 5-Fluorocytosine (Figure 2C), a prodrug
of 5-fluorouracil, is used as an antifungal agent. 5-Fluorocytosine
is most commonly used in combination therapy with other
antifungals, typically amphotericin B, as resistance to
5-fluorocytosine arises readily (Bennett, 1977; Francis and
Walsh, 1992; Ghannoum and Rice, 1999). Thiopurines In contrast to pyrimidines, for which halogenated analogues
have been characterized, purine analogues with potential
application as antimicrobials are predominantly thio-derivatives. Currently, the predominant clinical uses for thiopurines are
as anticancer, immunosuppressant, and anti-inflammatory agents. In particular, they are important therapeutic agents for acute
leukemias and for inflammatory bowel disease (Galmarini et al.,
2002; Cooper and Brown, 2015; Hanauer et al., 2019). Compounds
from the thiopurine family (Figure 2D) have antibacterial
activity. As mercaptopurine has in vitro activity against
Mycobacterium
avium
subspecies
paratuberculosis
and
Corynebacterium species (Greenstein et al., 2007; Shin and
Collins, 2008; Liu et al., 2017), 6-thioguanosine 5′-triphosphate
(thio-dGTP) can inhibit spore germination of Bacillus anthracis
in an infected macrophage cell line (Akoachere et al., 2007;
Alvarez et al., 2010), and thioguanine can inhibit in vitro
growth of Mycoplasma pneumoniae (Sun and Wang, 2013). Idoxuridine The use of idoxuridine is severely limited
because of its cytotoxicity, and its use is largely limited to topical
applications, where toxicity is not significant (Boston Interhospital
Virus
Study
Group
and
NIAID-Sponsored
Cooperative
Antiviral Clinical Study, 1975; Yolton and Haesart, 2008). May 2019 | Volume 10 | Article 952 5 Nucleoside Analogues as Antibacterial Agents Thomson and Lamont (Akoachere et al., 2007). Thio-dGTP was the only compound
identified as being effective at preventing spore germination. The ability of thio-dGTP to prevent necrosis in murine
macrophages infected with B. anthracis was subsequently tested
(Alvarez et al., 2010). Thio-dGTP and its parent compound
6-thioguanine were the most effective analogues and were able
to protect cells from necrosis even after the time point at
which 100% cell death normally occurs (Alvarez et al., 2010). While the activity of thio-dGTP as an antigerminant is promising,
spore germination in vivo is a complex process dependent
upon numerous factors, and further studies of the efficacy of
thio-dGTP are required. Although idoxuridine was effective against S. aureus in vitro at
concentrations below those known to be cytotoxic (Zander et al.,
2010a), it is unclear whether such low concentrations would
improve the bactericidal effect of drugs like SXT in vivo. Frontiers in Microbiology | www.frontiersin.org METABOLISM AND MECHANISMS OF
ACTION OF NUCLEOSIDE ANALOGUES
IN BACTERIA Pyrimidine and purine analogues utilize the same pathways
as their natural counterparts and therefore compete for both
uptake and metabolism (Sun and Wang, 2013). Typically,
nucleobase and nucleoside analogues enter bacterial cells through
membrane transporters and then are cycled through the
nucleotide salvage pathway, where they are activated by
deoxyribonucleoside kinases (dNKs). dNKs perform the first
committed reaction in the salvage pathway, namely the
phosphorylation of deoxyribonucleosides (Figure 1). In bacteria,
the metabolism and mechanism of action of pyrimidine and
purine analogues have significant differences and will be further
discussed separately. g
y
p
p
g
Mercaptopurine is an analogue of hypoxanthine, and
thioguanine is an analogue of guanine. Mercaptopurine and
thioguanine require phosphorylation before they can exert
their
therapeutic
effects. Both
mercaptopurine
and
thioguanosine are metabolized intracellularly to the active
thio-dGTP (Lennard, 1992), although mercaptopurine is also
metabolized to other nucleoside derivatives. Thio-dGTP exerts
its cytotoxic effect on cells primarily by becoming incorporated
into DNA (Figure 1), resulting in local changes to the DNA
structure, largely because it forms an unstable base pair with
deoxycytidine (Somerville et al., 2003; de Boer et al., 2007;
Karran and Attard, 2008). This change in structure can lead
to DNA breaks and also inhibition of DNA replication
(Somerville et al., 2003). Thiopurine derivatives can also
inhibit enzymes involved in de novo purine synthesis (Figure 1;
Galmarini et al., 2002). In eukaryotic cells, thio-dGTP is
also known to interfere with secondary messengers and energy
carrying processes, competing with natural guanosine
triphosphate (de Boer et al., 2007). Pyrimidine Analogues Early work on the metabolism and mechanism of action of
pyrimidine analogues in bacteria demonstrated the importance
of the enzymes that metabolize them, such as dNKs. Thymidine
kinase (TK), a dNK, was shown to be necessary for activation
of zidovudine in bacteria and subsequent incorporation of
activated zidovudine into the DNA (Elwell et al., 1987). Since
the identification of TK as being important for the activity
of zidovudine, the involvement of dNKs and other enzymes
on the metabolism and activity of pyrimidine analogues has
been demonstrated. dNK genes are differentially distributed among different
bacterial species (Saito and Tomioka, 1984; Sandrini et al.,
2007b; Konrad et al., 2012), and this differential distribution
explains in part species-specific susceptibilities to nucleoside
analogues. For example, P. aeruginosa lacks TK activity and
is not susceptible to many pyrimidine analogues that have
activity against other Gram-negative bacteria. Additionally, the
presence of different dNKs in different species explains differences
in responses to gemcitabine, which is found to be effective
predominantly against Gram-positive bacteria. E. coli that lacks
deoxyadenosine kinase is not usually susceptible to gemcitabine
but is sensitive to this compound when expressing deoxyadenosine
kinases from Gram-positive bacteria such as S. aureus, S. pyogenes,
and B. cereus (Sandrini et al., 2007a,b). M. avium ssp. paratuberculosis may be an environmental
trigger for Crohn’s disease or even a causative agent of the
disease (Greenstein and Collins, 2004). Mercaptopurine is
commonly used to induce and maintain remission of Crohn’s
disease. The effect of mercaptopurine on the growth of M. avium
ssp. paratuberculosis was therefore tested, and the drug was
found to inhibit growth in vitro (Greenstein et al., 2007; Shin
and Collins, 2008), although in vivo experiments have yet to
be carried out. Inosine is an important germinant of B. anthracis in vitro. Inosine analogues and guanosine analogues were tested for
their ability to block in vitro germination of spores May 2019 | Volume 10 | Article 952 6 Nucleoside Analogues as Antibacterial Agents Thomson and Lamont Zidovudine is effective against some Gram-negative but not
Gram-positive species (Sandrini et al., 2007a). The basis for
this was explored using an E. coli mutant lacking TK. This
mutant was resistant to zidovudine but became sensitized when
transformed with TK genes from either Gram-negative species
or zidovudine-resistant Gram-positive species such as Bacillus
cereus and Listeria monocytogenes (Elwell et al., 1987; Sandrini
et al., 2007a,b). Toxicity While the safety profiles of clinically used nucleoside analogues
are generally favorable, some of these drugs do have side effects. Nucleoside analogues, especially those used as anticancer agents,
are often not specific for their target cells and also affect healthy
human cells. Therefore, the use of this class of drugs is associated
with a number of side effects. Many side effects are mild and
do not require cessation of treatment, but some side effects
are severe. For example, some analogues such as trifluridine
and idoxuridine are only used topically as they have severe
side effects when used systemically. While severe side effects
as a result of treatment with nucleoside analogues are generally
rare, they will need to be considered if nucleoside analogues
are to have clinical application as antibiotics.if ll
y
y
y
y
An important part of the mechanism of action of nucleoside
analogues in cancers and viruses is the incorporation of their
metabolites into nucleic acids. There is evidence that this
incorporation is important in bacteria as well. Metabolites of
5-fluorouracil become incorporated into E. coli RNA and to
a lesser extent DNA (Warner and Rockstroh, 1980). The
proportion of fluorinated uracil derivatives in the DNA increased
significantly when the enzymes responsible for the removal of
deoxyuridine triphosphate (UTP) from DNA were absent,
indicating that this mechanism has a role in the removal of
fluorinated UTP from DNA (Warner and Rockstroh, 1980). Fluorinated metabolites were also detected in the nucleic acids
of Mycobacterium tuberculosis (Singh et al., 2015). In
M. tuberculosis, treatment with 5-fluorouracil also led to an
upregulation of DNA damage response genes proposed to be a
result of DNA breakages caused by incorporation of fluorinated
UTP (Singh et al., 2015). pp
One of the most common significant side effects of nucleoside
analogues is myelosuppression. Myelosuppression is a decrease
in the production of blood cells in bone marrow and can
affect all types of blood cells. A serious type of myelosuppression
caused by chemotherapy is neutropenia, which is the reduction
of leukocytes. Neutropenia predisposes patients to infections
and is the dose-limiting factor in many therapeutic regimens
with nucleoside analogues, including gemcitabine, 5-fluorouracil,
and floxuridine, and the thiopurines (Galmarini et al., 2002). Myelosuppression is also a dose-limiting toxicity in the use
of 5-fluorocytosine as an antifungal agent. Pyrimidine Analogues These findings suggest that resistance in the
Gram-positive species is not a result of lack of TK activity
toward zidovudine, but instead that the monophosphate form
of zidovudine resulting from the action of TK is a poor substrate
for subsequent enzymes such as thymidylate kinase (Sandrini
et al., 2007a). TKs are also important for the activity of other
fluorinated pyrimidines such as floxuridine in U. urealyticum
(Carnrot et al., 2003). Floxuridine and trifluridine are substrates
for U. urealyticum TK and are converted to the monophosphate
forms that may be further metabolized and incorporated into
DNA (Sun and Wang, 2013). The monophosphate forms of
floxuridine and trifluridine may also inhibit thymidylate synthase. inhibited activity of M. pneumoniae HPRT with either of its
natural substrates, hypoxanthine and guanosine (Figure 1). Thioguanosine inhibited M. pneumoniae HPRT much more
effectively than human HPRT. This likely reflects structural
differences between humans and M. pneumoniae HPRT leading
to differences in binding of thioguanosine; these differences
may allow for designing pathogen-specific HPRT inhibitors
(Sun and Wang, 2013). Toxicity Even though
5-fluorocytosine is a prodrug and human cells lack the enzyme
needed to convert it to 5-fluorouracil, when serum concentration
of 5-fluorocytosine reaches 100 μg/ml or higher, toxicities
similar to those seen in patients taking 5-fluorouracil can occur
(Kauffman and Frame, 1977; Harris et al., 1986). Why these
toxicities occur is unclear, although there is evidence that the
host
gut
microbiota
may
convert
5-fluorocytosine
to
5-fluorouracil, which can cause myelosuppression (Harris et al.,
1986; Vermes et al., 2003). Of the drugs discussed in this
review, idoxuridine highlights the problem myelosuppression
may cause when nucleoside analogues are used as antibiotics. While idoxuridine is used to treat herpetic simplex keratitis
of the eye, it has been found to worsen and slow healing of
bacterial infections of the eye (Yamaguchi et al., 1979). Thus,
nucleoside analogues that need to be administered at doses
that cause myelosuppression may be contraindicated for use
against bacterial infections.f An effect of fluorinated pyrimidines independent of nucleic
acid incorporation has also been observed. Treatment with
5-fluorouracil caused E. coli to become osmotically sensitive,
leading to a rapid loss of bacterial viability (Tomasz and Borek,
1959), an effect proposed to be due to metabolites of 5-fluorouracil
affecting UDP-linked cell-wall precursors (Tomasz and Borek,
1960, 1962). 5-Fluorouracil partially inhibited peptidoglycan
biosynthesis in S. aureus, leading to accumulation of fluorinated
cell-wall precursors (Rogers and Perkins, 1960; Stickgold and
Neuhaus, 1967). Accumulation of fluorinated cell-wall precursors
also occurred in 5-fluorouracil-treated Mycobacterium tuberculosis
(Singh et al., 2015). Frontiers in Microbiology | www.frontiersin.org Purine Analoguesi One of the first enzymes in the purine salvage pathway is
hypoxanthine guanine phosphoribosyl transferase (HPRT)
(Figure 1). Thioguanosine strongly inhibited the growth of
M. pneumoniae, and HPRT is a target of this analogue (Sun
and Wang, 2013). Thioguanosine strongly inhibited uptake
of hypoxanthine and guanosine and their subsequent
incorporation into DNA and RNA. Thioguanosine also strongly Another side effect is pulmonary toxicity, commonly associated
with gemcitabine use. Gemcitabine causes a range of pulmonary Frontiers in Microbiology | www.frontiersin.org May 2019 | Volume 10 | Article 952 7 Nucleoside Analogues as Antibacterial Agents Thomson and Lamont toxicities, from those that are mild and do not require stopping
treatment, to rare but severe side effects, like pulmonary fibrosis
and respiratory distress syndrome (Chi et al., 2012). It is unclear
why gemcitabine has this effect, but it has been proposed that
pulmonary toxicity occurs more frequently in patients who
have underlying pulmonary disease or in patients who are
concomitantly taking therapeutics that can also cause pulmonary
toxicity (Gupta et al., 2002). The concentrations of gemcitabine
that inhibited the growth of S. aureus in vitro were lower than
the plasma concentrations of gemcitabine in cancer patients,
suggesting that lower doses than are used in oncology may
be effective in treating infections, potentially reducing side
effects of gemcitabine (Jordheim et al., 2012). mutations in E. coli (Doleans-Jordheim et al., 2011). Because
of the apparent importance of TK on the metabolism of
zidovudine (Sandrini et al., 2007a,b), Doleans-Jordheim et al. (2011) compared the sequence of the TK-encoding gene from
resistant strains and susceptible strains. All 10 strains analyzed
had changes to the sequences of the gene that would result
in changes to the TK protein, including amino acid changes
and premature stop codons. In addition to zidovudine resistance via a non-functional
TK enzyme, there appears to be another mechanism of resistance. Some resistant bacteria, like staphylococci, do have functional
TK enzymes (Lewin et al., 1990a). The reason why these
bacterial strains are zidovudine resistant is not clear, but it is
possible that in such strains, zidovudine does not act as a
substrate for TK or DNA polymerase and is thus not incorporated
into nucleic acids (Lewin et al., 1990a). Resistance As found for classical antibiotics, resistance can arise when
using nucleoside analogues as antibiotics. Resistance to zidovudine
and gemcitabine has been studied in detail. After short-term
exposure to zidovudine, Salmonella and E. coli strains have
been found develop stable high-level resistance both in vitro
and in vivo (Lewin et al., 1990a,b; Doleans-Jordheim et al.,
2011). Zidovudine-resistant E. coli has been isolated from HIV/
AIDS patients taking zidovudine as antiretroviral therapy,
whereas E. coli isolated from control samples was susceptible
(Lewin et al., 1990b, 1991).i Purine Analoguesi While it is proposed that nucleoside analogues would
be effective against bacteria at concentrations that make them
unlikely to cause myelosuppression or other serious side effects
(Walz et al., 2010; Zander et al., 2010a; Jordheim et al., 2012),
toxicity remains a serious consideration that must be resolved
before these drugs can be used as antibacterials. Treatment
of bacterial infections with compounds, which at high serum
concentrations can have immunomodulatory or toxic effects,
could potentially result in the drug exacerbating the infection
it was intended to treat. The examples described above highlight
the fact that a significant amount of investigation into the
safety of nucleoside analogues as antibiotics will have to
be performed to ensure bacterial infections are not worsened
by administration of analogues.f Resistance to gemcitabine has also been observed. Jordheim
et al. (2012) observed regrowth of S. aureus treated with
gemcitabine, even at concentrations significantly above the
determined minimum inhibitory concentration values. Mutational
frequencies were found to be similar to those found for classical
antibiotics. Most of the resistant mutants had mutations in
the gene encoding deoxyadenosine kinase that is thought to
activate gemcitabine (Jordheim et al., 2012). It was concluded
that mutations of deoxyadenosine kinase were important for
conferring resistance to gemcitabine, although as some resistant
mutants had no mutations in the dNK genes, there are likely
to be other mechanisms involved. The induced resistance was
found to be highly stable (Jordheim et al., 2012). A potential way to overcome any toxic effects is to search
for nucleoside analogues that are more specific for their bacterial
targets. Characterization of the substrate specificities of different
bacterial dNKs, which are responsible for the activation of
many nucleoside analogues in bacteria, suggests that it may
be possible to design analogues specific for bacterial dNKs
(Sandrini et al., 2007a; Doleans-Jordheim et al., 2011). While resistance to both zidovudine and gemcitabine arises
readily, this could be prevented at least in part either by
coadministering with other drugs or possibly by modifying
the drug itself. Zidovudine has been shown to have synergistic
activity with gentamicin and amikacin (Doleans-Jordheim et al.,
2011). Gemcitabine has synergy with gentamicin, and
combinations of drugs may help slow the emergence of resistance
(Jordheim et al., 2012). Frontiers in Microbiology | www.frontiersin.org REFERENCES Cooper, S. L., and Brown, P. A. (2015). Treatment of pediatric acute lymphoblastic
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inpatients in Greek hospitals. Int. J. Antimicrob. Agents. doi: 10.1016/j. ijantimicag.2019.02.021l Burris, H. A., Moore, M. J., Andersen, J., Green, M. R., Rothenberg, M. L.,
Madiano, M. R., et al. (1997). CONCLUSIONS AND FUTURE
PERSPECTIVES Nucleoside analogues are widely used as effective therapeutics
for a variety of diseases and thus make an interesting focus
on repurposing studies. Studies to date have yielded promising
data on the efficacy of analogues as antibacterial agents,
highlighting their potential for use in treating bacterial infections. This potential will become increasingly important as the numbers
of multidrug-resistant bacteria continue to rise. Nonetheless,
to the best of our knowledge, no nucleoside analogues are
currently approved for treating bacterial infections, and so they
are not used even in cases where no other options are available. A mechanism for resistance to zidovudine was first proposed
by Lewin et al. (1990a). It was found that zidovudine-resistant
strains of E. coli and S. typhimurium were unable to incorporate
radiolabeled thymidine into their chromosomal DNA, and that
this incorporation was still prevented in the presence of a
membrane permeabilizer. This suggested that in these bacteria,
resistance was due not to inhibition of uptake but rather to
loss of TK activity (Lewin et al., 1990a). As TKs have been
shown to be important for conversion of nucleoside analogues
into their active forms, this may provide an explanation for
the observed resistance. Zidovudine has been found to induce What are the gaps in current knowledge that are barriers
to the use of nucleoside analogues in treating bacterial infections? First and foremost, our review highlights the paucity of studies
investigating the effectiveness of nucleoside analogues in treating
infections in animal models, information that is needed to May 2019 | Volume 10 | Article 952 May 2019 | Volume 10 | Article 952 8 Nucleoside Analogues as Antibacterial Agents Thomson and Lamont determine doses that would be needed to treat infections. This
information is particularly crucial for nucleoside analogues that
commonly have adverse side effects when used at higher doses,
such as in cancer therapy. Second, although the nucleoside
analogues discussed here are approved for use in people, clinical
trials will be necessary to test their effectiveness in treating
bacterial infections and costs are associated with these. Third,
the antibacterial modes of action of many nucleoside analogues
are not fully understood. Overcoming this knowledge gap may
facilitate strategies for better targeting nucleoside analogues
as inhibitors of infection while minimizing toxicity to patients. CONCLUSIONS AND FUTURE
PERSPECTIVES Lastly, although investigations of resistance to nucleoside analogues
have been carried out in a few cases, a comprehensive picture
is lacking and it is not known how readily resistance might
arise during infection. Examples described here of the use of
nucleoside analogues in combination with other antibiotics, or
as inhibitors of virulence rather than of bacterial growth, suggest
strategies that may minimize the development of resistance. treating bacterial infections. The research reviewed here highlights
the potential for use of nucleoside analogues in situations where
classical antibiotics fail. With the current requirement for more
antibiotics, it will be very important to fill the knowledge
gaps described above, so that nucleoside antibiotics can provide
a clinically usable tool in the treatment of bacterial infections. AUTHOR CONTRIBUTIONS JT and IL reviewed the literature. JT prepared the figures. JT
and IL wrote the manuscript. JT and IL reviewed the literature. JT prepared the figures. JT
and IL wrote the manuscript. FUNDING JT was the recipient of a PhD scholarship from the University
of Otago. Research in the authors’ laboratory is supported by
the Otago Medical Research Foundation (grant AG330), the
New Zealand Health Research Council (17/372), Cure Kids
New Zealand (3574), and Cystic Fibrosis New Zealand. JT was the recipient of a PhD scholarship from the University
of Otago. Research in the authors’ laboratory is supported by
the Otago Medical Research Foundation (grant AG330), the
New Zealand Health Research Council (17/372), Cure Kids
New Zealand (3574), and Cystic Fibrosis New Zealand. The increasing emergence of multidrug-resistant bacteria
capable of causing severe, life-threatening infections provides
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under the terms of the Creative Commons Attribution License (CC BY). Frontiers in Microbiology | www.frontiersin.org REFERENCES The
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The niche matters: origin, function and fate of CNS-associated macrophages during health and disease
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The niche matters: origin, function and fate of CNS‑associated
macrophages during health and disease Adrià Dalmau Gasull1 · Martina Glavan2,3 · Sai K. Reddy Samawar4 · Kishan Kapupara4 · Joe Kelk5 · Marina Rubio2 ·
Stefano Fumagalli5 · Lydia Sorokin4 · Denis Vivien2,6 · Marco Prinz1,7 Received: 14 November 2023 / Revised: 13 December 2023 / Accepted: 22 December 2023
© The Author(s) 2024 * Marco Prinz
marco.prinz@uniklinik-freiburg.de * Adrià Dalmau Gasull
adria.dalmau.gasull@uniklinik-freiburg.de Acta Neuropathologica (2024) 147:37
https://doi.org/10.1007/s00401-023-02676-9 Acta Neuropathologica (2024) 147:37
https://doi.org/10.1007/s00401-023-02676-9 REVIEW REVIEW Abstract There are several cellular and acellular structural barriers associated with the brain interfaces, which include the dura, the
leptomeninges, the perivascular space and the choroid plexus epithelium. Each structure is enriched by distinct myeloid
populations, which mainly originate from erythromyeloid precursors (EMP) in the embryonic yolk sac and seed the CNS
during embryogenesis. However, depending on the precise microanatomical environment, resident myeloid cells differ in their
marker profile, turnover and the extent to which they can be replenished by blood-derived cells. While some EMP-derived
cells seed the parenchyma to become microglia, others engraft the meninges and become CNS-associated macrophages
(CAMs), also referred to as border-associated macrophages (BAMs), e.g., leptomeningeal macrophages (MnMΦ). Recent
data revealed that MnMΦ migrate into perivascular spaces postnatally where they differentiate into perivascular macrophages
(PvMΦ). Under homeostatic conditions in pathogen-free mice, there is virtually no contribution of bone marrow-derived
cells to MnMΦ and PvMΦ, but rather to macrophages of the choroid plexus and dura. In neuropathological conditions in
which the blood–brain barrier is compromised, however, an influx of bone marrow-derived cells into the CNS can occur,
potentially contributing to the pool of CNS myeloid cells. Simultaneously, resident CAMs may also proliferate and undergo
transcriptional and proteomic changes, thereby, contributing to the disease outcome. Thus, both resident and infiltrating
myeloid cells together act within their microenvironmental niche, but both populations play crucial roles in the overall disease
course. Here, we summarize the current understanding of the sources and fates of resident CAMs in health and disease, and
the role of the microenvironment in influencing their maintenance and function. Abstract Keywords Macrophages · CNS · Development · Disease Keywords Macrophages · CNS · Development · Disease Vol.:(0123456789)
* Adrià Dalmau Gasull
adria.dalmau.gasull@uniklinik-freiburg.de
* Marco Prinz
marco.prinz@uniklinik-freiburg.de
1
Institute of Neuropathology, Faculty of Medicine, University
of Freiburg, Freiburg, Germany
2
Normandie University, UNICAEN, INSERM UMR-S
U1237, Physiopathology and Imaging of Neurological
Disorders (PhIND), GIP Cyceron, Institut Blood and Brain
@ Caen-Normandie (BB@C), 14000 Caen, France
3
Department of Neuroscience, Yale School of Medicine, Yale
University, New Haven, USA
4
Institute of Physiological Chemistry and Pathobiochemistry
and Cells in Motion Interfaculty Centre (CIMIC), University
of Münster, Münster, Germany
5
Laboratory of Stroke and Vascular Dysfunctions, Department
of Acute Brain and Cardiovascular Injury, Istituto Di
Ricerche Farmacologiche Mario Negri IRCCS, 20156 Milan,
Italy
6
Department of Clinical Research, Caen-Normandie
University Hospital, CHU, Avenue de La Côte de Nacre,
Caen, France
7
Signalling Research Centres BIOSS and CIBSS‑Centre
for Integrative Biological Signalling Studies, University
of Freiburg, Freiburg, Germany * Adrià Dalmau Gasull
adria.dalmau.gasull@uniklinik-freiburg.de
* Marco Prinz
marco.prinz@uniklinik-freiburg.de
1
Institute of Neuropathology, Faculty of Medicine, University
of Freiburg, Freiburg, Germany
2
Normandie University, UNICAEN, INSERM UMR-S
U1237, Physiopathology and Imaging of Neurological
Disorders (PhIND), GIP Cyceron, Institut Blood and Brain
@ Caen-Normandie (BB@C), 14000 Caen, France
3
Department of Neuroscience, Yale School of Medicine, Yale
University, New Haven, USA 4
Institute of Physiological Chemistry and Pathobiochemistry
and Cells in Motion Interfaculty Centre (CIMIC), University
of Münster, Münster, Germany
5
Laboratory of Stroke and Vascular Dysfunctions, Department
of Acute Brain and Cardiovascular Injury, Istituto Di
Ricerche Farmacologiche Mario Negri IRCCS, 20156 Milan,
Italy
6
Department of Clinical Research, Caen-Normandie
University Hospital, CHU, Avenue de La Côte de Nacre,
Caen, France
7
Signalling Research Centres BIOSS and CIBSS‑Centre
for Integrative Biological Signalling Studies, University
of Freiburg, Freiburg, Germany 4
Institute of Physiological Chemistry and Pathobiochemistry
and Cells in Motion Interfaculty Centre (CIMIC), University
of Münster, Münster, Germany * Marco Prinz
marco.prinz@uniklinik-freiburg.de 5
Laboratory of Stroke and Vascular Dysfunctions, Department
of Acute Brain and Cardiovascular Injury, Istituto Di
Ricerche Farmacologiche Mario Negri IRCCS, 20156 Milan,
Italy 1
Institute of Neuropathology, Faculty of Medicine, University
of Freiburg, Freiburg, Germany 6
Department of Clinical Research, Caen-Normandie
University Hospital, CHU, Avenue de La Côte de Nacre,
Caen, France 2
Normandie University, UNICAEN, INSERM UMR-S
U1237, Physiopathology and Imaging of Neurological
Disorders (PhIND), GIP Cyceron, Institut Blood and Brain
@ Caen-Normandie (BB@C), 14000 Caen, France 7
Signalling Research Centres BIOSS and CIBSS‑Centre
for Integrative Biological Signalling Studies, University
of Freiburg, Freiburg, Germany 3
Department of Neuroscience, Yale School of Medicine, Yale
University, New Haven, USA (012 3456789) Acta Neuropathologica (2024) 147:37 Page 2 of 13 Acta Neuropathologica 37 day (E)9.5 [52], while in humans, the first microglia have
been described at 4.5 weeks post-conception [70]. Abstract Upon
entry into the CNS, the myeloid progenitor cells undergo
extensive proliferation and differentiation within their
respective niches. While microglial precursors seed the
CNS parenchyma, CAM precursors seed CNS interfaces,
giving rise first to leptomeningeal macrophages (MnMΦ)
and choroid plexus macrophages (cpMΦ) [35]. In fact,
recent data found that human microglia and CAMs are
transcriptionally distinct already at 5 weeks post-concep-
tion [91]. Recent research in mice revealed that MnMΦ
populate the perivascular spaces postnatally, subsequently
differentiating into perivascular macrophages (PvMΦ)
[61]. The leptomeningeal and perivascular niches differ Introduction Central nervous system (CNS) resident macrophages are
comprised of two main groups: parenchymal microglia and
extra-parenchymal, CNS-associated macrophages (CAMs). Recent research has shown that CNS endogenous mac-
rophages share a common origin, as both microglia and
CAMs originate from embryonic yolk sac (YS) progenitors
[34, 35] (Fig. 1). These precursors give rise to a pool of
immature macrophages that migrate via blood vessels to
colonize different regions of the developing CNS before
the formation of the blood–brain barrier (BBB) [105]. In
mice, CNS seeding of microglia occurs around embryonic Fig. 1 CNS resident macrophages during development, homeostasis,
and Alzheimer’s disease (AD). During embryogenesis, erythromye-
loid precursors (EMP) from the yolk sac differentiate to an intermedi-
the perivascular spaces postnatally, differentiating into perivascu-
lar macrophages (PvMΦ). The PvMΦ are sandwiched between the
endothelial basement membrane (BM) and the glia limitants In the Fig. 1 CNS resident macrophages during development, homeostasis,
and Alzheimer’s disease (AD). During embryogenesis, erythromye-
loid precursors (EMP) from the yolk sac differentiate to an intermedi-
ate immature population (A1) which transition into pre-macrophages
progenitors (A2). These immature macrophages migrate through the
developing blood vessels and start to invade the neural tube by E9.5. While some CD206+ A2 progenitors seed the parenchyma to become
microglia, others engraft 1) the dura to become dural macrophages
(dmMΦ), 2) the choroid plexus (ChP) to become epiplexus or stro-
mal choroid plexus macrophages (cpMΦ), and 3) the leptomeninges
to become leptomeningeal macrophages (MnMΦ). MnMΦ populate the perivascular spaces postnatally, differentiating into perivascu-
lar macrophages (PvMΦ). The PvMΦ are sandwiched between the
endothelial basement membrane (BM) and the glia limitants. In the
developed CNS, microglia, MnMΦ, PvMΦ, and epiplexus cpMΦ
are long-lived and self-maintain. Instead, dmMΦ and stromal cpMΦ
are slowly replaced by bone marrow-derived Monocytes. During AD
context, not only microglia, but also PvMΦ and MnMΦ have a criti-
cal role in the clearance of vascular and parenchymal amyloid beta
(Aβ) plaques. The maintenance of blood–brain barrier integrity, along
with the possible contribution of monocyte-derived cells in clearing
plaques, remains unclear the perivascular spaces postnatally, differentiating into perivascu-
lar macrophages (PvMΦ). The PvMΦ are sandwiched between the
endothelial basement membrane (BM) and the glia limitants. In the
developed CNS, microglia, MnMΦ, PvMΦ, and epiplexus cpMΦ
are long-lived and self-maintain. Instead, dmMΦ and stromal cpMΦ
are slowly replaced by bone marrow-derived Monocytes. Origin and fate It was long believed that microglia and CAMs constitute
ontogenically distinct myeloid populations [44]. However,
this concept was based on studies in bone marrow chimeric
mice, where bone marrow-derived cells were detected in
CNS perivascular spaces [8, 125]. These results were poten-
tially due to the artificial disruption of the BBB and con-
comitant induction of aberrant chemoattractant signals in
the CNS caused by whole-body irradiation [68]. The break-
through came in 2016 when Goldmann et al., [35] employed
fate-mapping mouse lines to demonstrate that CAMs and
microglia both originate from the YS’s early erythromyeloid
progenitors (EMPs). Differentiation into tissue-resident mac-
rophages begins with a shift from EMPs to an intermedi-
ate immature population so-called A1, which then transi-
tions into A2 pre-macrophages progenitors [34, 35, 52, 61,
113, 114] (Fig. 1). Based on Mrc1 gene expression (which
encodes CD206), two transcriptionally and phenotypically
distinct A2 subpopulations were identified in the YS of
E9.5 mice. As CD206 expression is limited to CAMs in the
adult mouse CNS, this led to the assumption that CD206neg
A2 cells are microglia progenitors and CD206+ A2 cells
are CAM progenitors [113]. However, this may not be the
case, since tamoxifen induction in pregnant Mrc1CreERT2/
CreERT2R26tdTomato/tdTomato mice at E9.0 resulted in not only
tdTomato+ CAMs but also tdTomato+ microglia in post-
natal (P)14 brains [61]. This substantiates that microglia
and CAMs share the same progenitor cells and, only once
within their niche, do local factors determine their terminal
differentiation. Besides their ontogeny, microglia and CAMs share some
transcriptomic signatures including the expression of ion-
ized calcium-binding adaptor molecule (Iba) 1, fractalkine
receptor (Cx3cr1), and colony-stimulating factor (Csf) 1
receptor. Only the recent development of new technolo-
gies, such as single-cell RNA sequencing (scRNA-seq),
has resulted in the identification of transcriptomic profiles
that permit segregation of microglia and CAMs. For exam-
ple, hexosaminidase subunit beta (Hexb), P2Y purinergic
receptor (P2ry) 12, transmembrane protein (Tmem) 119,
spalt-like transcription factor (Sall) 1, sialic acid binding
Ig-like lectin (Siglec) h, are enriched in microglia, whereas
mannose receptor (Mrc) 1 (or CD206), membrane-spanning
4-domains subfamily A member (Ms4a)7, platelet factor
(Pf)4 are preferentially expressed by CAMs [35, 49, 126]. scRNA-seq has further revealed transcriptomic heteroge-
neity in CAMs located at different brain interfaces [114]. Specifically, MnMΦ were shown to be distinct from dural
macrophages (dmMΦ) in the meninges. Introduction During AD
context, not only microglia, but also PvMΦ and MnMΦ have a criti-
cal role in the clearance of vascular and parenchymal amyloid beta
(Aβ) plaques. The maintenance of blood–brain barrier integrity, along
with the possible contribution of monocyte-derived cells in clearing
plaques, remains unclear Page 3 of 13
37 Acta Neuropathologica (2024) 147:37 in their cellular and extracellular matrix characteristics
[40], thereby, imparting niche-specific signatures to the
resident myeloid populations that include transcriptional
profile, morphology, motility, self-maintenance capacity,
and function [49, 53, 71, 98, 114]. Although microglial
functions during homeostasis and disease have been long
studied in depth [19, 82], the role of CAMs in physio-
logical and disease conditions has just begun to be elu-
cidated. So far, few studies have addressed this topic and
have implicated CAMs in cerebrospinal fluid (CSF) flow
dynamics [25], as well as in neurodegenerative [42, 95],
cerebrovascular [77, 101], and neuroinflammatory diseases
[22, 49, 78, 88, 90]. in their cellular and extracellular matrix characteristics
[40], thereby, imparting niche-specific signatures to the
resident myeloid populations that include transcriptional
profile, morphology, motility, self-maintenance capacity,
and function [49, 53, 71, 98, 114]. Although microglial
functions during homeostasis and disease have been long
studied in depth [19, 82], the role of CAMs in physio-
logical and disease conditions has just begun to be elu-
cidated. So far, few studies have addressed this topic and
have implicated CAMs in cerebrospinal fluid (CSF) flow
dynamics [25], as well as in neurodegenerative [42, 95],
cerebrovascular [77, 101], and neuroinflammatory diseases
[22, 49, 78, 88, 90]. microglia or CAMs [12, 50, 61–63]. The use of such innova-
tive and promising mouse lines in models of neuroinflamma-
tion and/or neurodegeneration now provides the possibility
of defining functions of specific CAM populations in brain
homeostasis and pathologies and their potential as thera-
peutic targets. Origin and fate This is not surpris-
ing given that, despite collectively constituting the meninges
that surround and protect the CNS, the leptomeninges and
dura matter comprise distinct layers. The dura, positioned
as the outermost layer, possesses unique characteristics such
as high vascularity and abundance of collagen fibers, resem-
bling more a connective tissue. Because the dura does not
establish a BBB, it enables an exchange of blood-derived
cells and molecules [4]. Consequently, these distinct niches
are associated with unique CAM signatures. Similarly to
meningeal macrophages, within the population of cpMΦ
stromal- and epiplexus-located cells were shown to have
distinct transcriptomic profiles. A recent study suggested
the existence of more than one PvMΦ population, defined by
presence or absence of CX3CR1 expression. A CX3CR1neg
population was identified, the function of which remains
to be determined [101]. Importantly, comparison between
human and mouse CAMs transcriptomic profiles highlighted
the conservation of evolutionary markers in these cells [91]. The identification of differentially expressed genes in dif-
ferent myeloid populations has provided valuable knowledge i f
To seed the developing brain at E9.5, progenitor popula-
tions travel within the bloodstream of the developing vas-
culature [105]. NCX1-deficient embryos, that lack a heart-
beat and hence blood circulation, have normal numbers of
YS pre-macrophage progenitors at E9.5 but lack microglia,
indicating that blood circulation is required for seeding of
the CNS [34]. The first A2 pre-macrophage progenitors are
detectable in the mesenchyme surrounding the developing
CNS at E9.0 and colonize the neural tube by E9.5 [60, 96]. Two recent studies have used ex-vivo time-lapse imaging on
brain slices to investigate the CNS seeding of microglia pro-
genitors, but with contradictory results. One study suggested
that CD206+ A2 progenitors migrate from the mesenchyme
first into the ventricle and subsequently into the developing The identification of differentially expressed genes in dif-
ferent myeloid populations has provided valuable knowledge
for generation of novel mouse lines that specifically target Acta Neuropathologica (2024) 147:37 Acta Neuropathologica Page 4 of 13 37 37 all CNS interfaces, each displaying different engraftment
rates. Remarkably, a time-dependent increase in engraftment
was observed, with the highest exchange occurring in the
choroid plexus, followed by the dura, and the slowest in the
brain parenchyma—a pattern consistent with pre-clinical
studies. Furthermore, transcriptional analysis unveiled a sus-
tained activated profile of the engrafted myeloid cells. Molecular cues for myeloid precursor
recruitment to specific niches PU.1 (or SPFI) is an essential transcription factor for the
differentiation of macrophage progenitors into CNS resident
cells. PU.1−/− mice have diminished A1 and A2 progenitor
populations and, consequently, no microglia or CAMs [35]. Another important transcription factor is interferon regula-
tory factor 8 (IRF8). Depletion of IRF8 in mice impairs A2,
but not A1 progenitor cells, reducing the number of micro-
glia and MnMΦ but not cpMΦ [52]. Neither the depletion of
the chemokine receptor CX3CR1 nor of transcription factors
such as Myb and Batf3 in late embryonic stages affect CNS
resident macrophages numbers [35, 52]. Mice lacking C–C
chemokine receptor 2 (CCR2), crucial for myeloid recruit-
ment into the inflamed CNS [67, 85, 87], do not show any
differences in microglia, MnMΦ and PvMΦ abundance, sug-
gesting that CCR2 is not required for CNS seeding during
embryogenesis. By contrast, CCR2−/− adult mice showed a
reduced number of cpMΦ, further supporting their continu-
ous replenishment by peripheral monocytes [35]. p
Importantly, during pathological conditions marked by
physical damage to brain vasculature, there is a significant
infiltration and active recruitment of peripheral monocytes
[1, 22, 49, 71]. However, once the inflammation subsides,
monocyte-derived cells usually not persist as residents
in the CNS parenchyma [1, 49]. In contrast, it seems that
methods depleting CNS myeloid cells create both accessi-
ble and available niches contributing to efficient monocyte
engraftment and colonization [99, 121]. In a study where
chronic partial microglia depletion was accomplished with-
out disruption of the BBB, recruited cells were able to enter
and engraft the CNS parenchyma while maintaining dis-
tinct transcriptional profiles from resident microglia [20]. Similarly, it has been suggested that in pathological states
PvMΦ can also be replenished by the infiltration of circulat-
ing monocytes into perivascular spaces [59]. Interestingly, it
has been proposed that dmMΦ turnover does not depend on
blood circulating monocytes, but rather on engraftment from
monocytes derived from calvarial bone marrow [21]. The
latter topic is controversial as most of these studies are based
on highly invasive imaging techniques that include skulls
transplants or thinning of the skull bone, which may result
in an inflamed condition. Recently, Sankowski et al. [91]
assessed the engraftment of bone marrow-derived myeloid
cells within the distinct compartments of the human CNS. Origin and fate These
findings suggest peripheral blood stem cell transplantation
as a potential CAM replacement therapy for CAM-related
disorders. brain parenchyma at E12.5. These cells then lose CD206
expression and acquire a microglia phenotype [41]. In con-
trast, the other study imaged slices of Csf1r-EGFP embryos
and showed migration of Iba1+ cells from the developing
parenchyma into the ventricle at E11, suggesting that these
cells thereafter become cpMΦ [72]. These results indicate
an opposite directionality at E11 compared to E12.5, which
could be attributed to differences in cellular composition and
thickness of the ventricle wall. Once within their niche, microglia, MnMΦ, PvMΦ, and
epiplexus cpMΦ are long-lived and self-maintain, thereby,
retaining their YS origin, while dmMΦ and stromal cpMΦ
are slowly replaced by circulating cells [35, 113, 114]
(Fig. 1). These differences in population maintenance seem
to be niche-dependent, since the dura mater and the choroid
plexus stroma offer greater accessibility from the periph-
ery compared to the other brain interfaces. In an attempt
to further dissect the replacement of CAMs, Brioschi et al. [11] used a constitutive Crybb1-Cre line to label embry-
onic microglia and CAMs. As expected, microglia main-
tained their embryonic origin, but both MnMΦ and PvMΦ
were suggested to be a mixture of embryonic and mono-
cyte-derived populations that differed in CD38 and MHC2
expressions. Unfortunately, the authors did not address the
turnover of cpMΦ or dmMΦ. Vascular cues for erythromyeloid progenitor
differentiation Studies done in mice showed that a primitive, yet functional,
BBB is formed by E15.5 and already contains some mac-
rophage niches, structures where CAM differentiation pro-
ceeds to mature perivascular macrophages (PvMΦ), as dis-
cussed above. The full maturation of the perivascular space
with arterioles containing smooth muscle cells and associ-
ated CAMs continues up to 2 weeks after birth, when PvMΦ
start to appear [61]. The fact that other cellular components
of the brain vascular barrier, like perivascular fibroblasts,
appear between postnatal day P5 and P14 [48], suggests that
the first two postnatal weeks are a critical period for exten-
sive expansion of the cerebral capillaries [18]. The PvMΦ are sandwiched between glial and vascu-
lar basement membranes, a spatially restricted location
which probably determines their limited motility and typi-
cal elongated shape, along the vessels. Spatial constraints
could also affect the PvMΦ phenotype as previous in vitro
studies have reported that forcing the elongation of cul-
tured macrophages using narrow lines of substrate, such
as fibronectin, upregulates arginase-1, Ym1 and the typical
PvMΦ marker CD206 [64]. CD206 is a membrane-bound
mannose receptor. Together with other glycans, including
N-acetylglucosamine, glucose, fucose, sialic acid and hep-
aran sulfate, mannose is present in the glycoproteins lining
the luminal surface of blood vessels, contributing to the gly-
cocalyx. Depending on vessel type, the glycocalyx has sev-
eral physiological functions—it supports vascular tone and
integrity, provides mechanotransduction signals, interacts
with cytokines and growth factors, and regulates immune
cell adhesion and rolling [69]. While this latter function
has been studied in pathological contexts where immune
cell recruitment supports inflammation [16], there are lit-
tle data on CNS development. The glycocalyx appears as
soon as blood flow is initiated in the embryo and is involved
in normal vessel development [37, 43]. In this regard, the Microglia and CAMs originate from EMPs, which dif-
fer from angiopoietic progenitors from which the brain
vasculature is derived. In general, each brain cell type is
derived from a specific subset of progenitor cells, follow-
ing a defined spatiotemporal pattern of differentiation that
spans from the yolk sac to the first postnatal weeks. How-
ever, endothelial cells can share a common erythromyeloid
lineage with CNS resident macrophages. Plein et al. Molecular cues for myeloid precursor
recruitment to specific niches Employing autopsies from female patients who had under-
gone sex-mismatched peripheral blood stem cell transplanta-
tion, revealing the presence of donor-derived Y + cells across It has been proposed that in the developing CNS, micro-
glia entry into the ventricular and subventricular zones is
mediated by CXCR4 interaction with CXCL12 expressed in
the developing cortex [5]. Global deletion of Cxcr4, condi-
tional deletion of its ligand Cxcl12 in Gfap-expressing cells
or injection of CXCR4 antagonist, reduced the amount of
cortical microglia in mice [5, 112]. Accordingly, condi-
tional deletion of Cxcr4 in Cx3cr1-expressing cells at E10.5
reduced microglial cell numbers in ventricular and subven-
tricular zones at E18.5 [112]. However, others have reported
no expression of Cxcr4 in microglia and normal microglia
distributions in Cxcl12−/− and Cxcr4−/− embryos at E13.5
and E16.5, respectively [116]. This could be due to differ-
ences in embryonic time points or brain regions analyzed. Little is known about the molecular mechanisms of CAM
recruitment to their distinct niches during development. Recently, the migration of MnMΦ into the perivascular
spaces early after birth was shown to be integrin-signaling
dependent [61], suggesting a role for the unique extracel-
lular matrix of the leptomeningeal and perivascular niches Page 5 of 13
37 Acta Neuropathologica (2024) 147:37 37 [39, 40]. Deletion of the gene encoding talin-1, Tln1, an
important activator of β-integrin binding activity [13, 106],
resulted in a normal distribution of microglia and MnMΦ
in the embryonic CNS, but a 50% reduction of PvMΦ at
P14 [61]. This implies an involvement of the extracellular
matrix in MnMΦ migration into the perivascular niche. A
functional role of mural cells was recently identified, which
express several extracellular matrix molecules, since PvMΦ
were highly reduced in Notch3−/− animals that have defec-
tive maturation of arterial smooth muscle actin-positive cells
[61]. The complex mutual interplay between perivascular
cells, the extracellular matrix and associated factors, and the
developing PvMΦ still requires elucidation. membrane glycoprotein neuropilin functions as a co-receptor
for vascular endothelial growth factor receptor (VEGFR)2
and guides developmental angiogenesis [32]. The early for-
mation of the glycocalyx could potentially affect the migra-
tion and recruitment of A2 pre-macrophage progenitors to
the developing brain, an important step in the maturation of
the cerebral vasculature [27]. Molecular cues for myeloid precursor
recruitment to specific niches Brain vessels are, therefore, key players in the ontogeny
of CAMs, mediating the migration of the immature mac-
rophages to the developing CNS and their placement in spe-
cific differentiation niches. Microglia seeding occurs around
E9.5, when the BBB has not yet developed. In rodents,
clusters of vascular endothelial-like cells are present in
the developing CNS at E7.5–E8.5 [115] and start to organ-
ize into a branched vascular network by E9.5 [109], which
correlates with microglia seeding of the CNS. Microglia
exploit the forming vascular structures as paths to infiltrate
into the CNS [6] and colonize the CNS in a heterogene-
ous spatiotemporal pattern, with transient accumulation in
selected hotspots, i.e., the cortico-striatal-amygdalar bound-
ary, before distributing throughout the brain and develop-
ing site-specific morphological and phenotypical features
[10]. As discussed above, mature microglia have a typi-
cal gene profile, with Hexb, P2ry12, Tmem119, Sall1 and
Siglech representing homeostatic markers [62]. However,
some of these genes may vary in expression according to
the developmental stage [9] or reactive states of microglia
[65]. Embryonic or postnatal microglia are best visualized
through Cx3cr1-linked reporters. Studies with transgenic
mice expressing fluorescent reporters under the control of
the Cx3cr1 promotor have helped describe microglia activ-
ity during brain development, i.e., the sculpting of postnatal
neuronal networks through complement C3-mediated synap-
tic pruning [93]. There is less information on whether micro-
glia can affect the formation of the brain vasculature during
CNS development. However, liposomal clodronate-mediated
depletion of microglia has been reported to impair retinal
vessel formation [17] and to alter the vascular architecture
and capillary diameter via transforming growth factor beta 1
(TGFβ1)-dependent paracrine signaling [24, 26, 47]. CAMs in homeostasis Under homeostatic conditions, CAMs play an important role
in maintaining the integrity of the CNS barriers as well as
regulating the exchange of metabolites and antigens with
the periphery [53]. It has been shown that the production of
VEGF by PvMΦ impacts endothelial cell function, thereby
modifying vascular permeability [46]. Furthermore, despite
their limited motility, PvMΦ are potentially able to extend
their processes along the perivascular space into the vascular
lumen and sense molecular signals within the bloodstream
[7, 35, 53]. Similarly, two-photon in vivo imaging of dmMΦ
and MnMΦ suggests that these macrophages continuously
scavenge their environment [94]. In fact, studies using injec-
tions of the tracer ferritin directly into the CSF have shown
the phagocytic capacity of PvMΦ and epiplexus cpMΦ
[15, 33, 53, 73]. Consistent with this, single-cell phenotyp-
ing of CAMs has associated them with various biological
processes, such as phagocytosis, antigen presentation, and
cytokine production in mice [2, 49, 71, 95, 114] and recently
in humans [51, 91, 124]. Altogether, this emphasizes the piv-
otal role of CAMs as immune surveillants, clearing poten-
tially harmful substances and contributing to the mainte-
nance of CNS homeostasis. g
Due to their specific anatomical location, PvMΦ and
MnMΦ have been suggested to have an important role in
the surveillance and control of flow dynamics of the CSF
[25]. Conveniently, the injection of clodronate-containing
liposomes into the cisterna magna or cerebral ventricles
effectively depletes these CAM populations, albeit with sig-
nificant changes in the CSF volume and osmolarity which
may have collateral effects [79]. Nevertheless, such clo-
dronate-liposome depletion studies in different mouse mod-
els of AD are associated with reduced clearance of vascular
and parenchymal Aβ plaques [25, 42] (Fig. 1), potentially
by PvMΦ and MnMΦ where the scavenger receptor class
B type I (SR-BI) seems to play a role [111]. Yet, another
depletion study showed that the expression of CD36 and
Nox2 by PvMΦ and MnMΦ leads to the generation of reac-
tive oxygen species (ROS) and consequent cerebrovascu-
lar dysfunction in Tg2576 mice [76]. In addition, anti-Aβ
immunotherapy in a mouse model of AD has been shown
to activate PvMΦ, which exhibit a higher association with
vascular Aβ plaques, ultimately inducing microhemorrhages
and an increased monocyte infiltration [110]. Vascular cues for erythromyeloid progenitor
differentiation [80]
traced EMPs in Csf1r-Egfp mouse embryos, reporting that
at E8.5 the EMPs protrude into the vascular lumen, acquir-
ing the typical elongated shape of the endothelial cells and
expressing the VEGFR2. The EMP-derived endothelial cells
are transcriptomically identical to the neighboring ones of Page 6 of 13 Acta Neuropathologica (2024) 147:37 Acta Neuropathologica 37 37 are significantly enriched or uniquely expressed in myeloid
cells such as microglia [83]. angiopoietic origin, and lack the expression of genes of dif-
ferentiated myeloid cells. Also, these cells are long-lived
after their integration into the vessel wall. Thus, a new
source of endothelial cells is revealed, suggesting that the
embryonic blood vascular endothelium expands in a dual
mechanism involving both the proliferation of pre-existing
endothelial cells and the incorporation of endothelial cells
derived from hematopoietic precursors [80]. The BBB plays a crucial role in regulating both protein
diffusion and leukocyte migration, and these functions are
intricately regulated. In its response to CNS inflammation,
the BBB is able to regulate leukocyte migration without con-
current protein leakage, and vice versa. This underscores the
precision and regulatory mechanisms governing these pro-
cesses. The maintenance of BBB integrity in neurodegen-
erative disorders [reviewed in 116], along with the possible
contribution of monocyte-derived cells in clearing plaques,
remains unclear. This is due to the difficulty in distinguish-
ing CNS resident macrophages and infiltrating myeloid
populations, since in situ they show similar morphologies
and phenotypes [84]. The proximity of monocyte-derived
cells to Aβ plaques and their engulfment of Aβ was proposed
in a recent study where Ms4a3CreR26tdTomato bone marrow
was transplanted into 5×FAD mice, a mouse model of AD
[100]. Similarly, Flt3Cre constitutive fate mapping of bone
marrow-derived cells labeled 6% of plaque-associated mac-
rophages in APP/PS1 AD mice [123]. Conflicting earlier
results showed that, in the absence of brain irradiation, using
inducible Ccr2CreERT2 and Cx3cr1CreERT2 fate-mapping on a
5×FAD background, no myeloid cell infiltration is detected
[89]. Similarly, in the inducible KitMerCreMerR26Eyfp on an
APPNL−G−F background, no replacement by bone marrow-
derived monocytes was observed neither in microglia nor
CAM populations [118]. Despite conflicting results, in vivo
two-photon imaging of APP/PS1 mice reveled that patrolling
Ly6C low monocytes are attracted to the luminal walls of
Aβ-positive veins where they phagocyte Aβ before circulat-
ing back into the bloodstream [66]. CAMs in neurodegenerative diseases The study of CAMs and their impact on CNS diseases is
a rapidly developing field of research. Although the pre-
cise role of CAM perturbation in CNS homeostasis is far
from understood, recent studies have shed some light on
their involvement in neurodegenerative and cerebrovascular
diseases. Alzheimer’s disease (AD) and Parkinson’s disease (PD)
are both characterized by local microgliosis, neuronal death
and the appearance of protein aggregates. While in AD,
these aggregates mainly include amyloid beta (Aβ) plaques
and/or tau neurofibrillary tangles [3], in PD, they are known
as Lewy bodies and are primarily composed of α-synuclein
(α-syn) [104]. Importantly, genome-wide association studies
(GWAS) have identified genetic variants associated with an
increased risk of neurodegenerative disease, many of which Page 7 of 13
37 Acta Neuropathologica (2024) 147:37 Acta Neuropathologica 37 responsible for the excessive production of ROS via Nox2 in
mouse models of hypertension [28, 92]. The accumulation
of ROS compromises BBB function and is associated with
neurovascular and cognitive defects, which are mitigated by
clodronate-mediated CAM depletion [28, 92]. Accordingly,
in animal models of permanent ischemic stroke, elevated
numbers of CD163+ CAMs have been reported near the
lesion in rats [77, 86] and of Lyve1+ CAMs in mice [101]. These PvMΦ express VEGF, which may compromise vas-
cular barrier function and, thereby, granulocyte recruitment
[77]. Transplantation of Cx3cr1gfpCCR2rfp bone marrow
into wild-type hosts revealed that peripheral monocytes
infiltrate and repopulate the perivascular spaces 4 days after
ischemic stroke [86]. These results are consistent with a pre-
vious study in mice suffering from experimental autoim-
mune encephalomyelitis (EAE), which reported that CAM
proliferation occurs alongside the infiltration of monocytes
[49]. These monocyte-derived cells only transiently colonize
the parenchyma but are not integrated into the microglia
pool and remain functionally distinct to microglia [1, 49]. Additionally, there is clinical evidence supporting the accu-
mulation of CD163+ PvMΦ in autopsied brains of patients
with cerebral ischemia [45], as well as of PvMΦ-like cells in
patients with brain arteriopathies [122]. Indeed, these data
need to be interpreted with caution, since microglia and bone
marrow-derived macrophages may upregulate CD163 and
other CAM markers under certain conditions [97]. For this
reason, to specifically distinguish and target each myeloid
population in the context of disease, the use of fate-mapping
mouse models is indispensable. The limited data on the role
of human CAMs in cerebrovascular diseases underscore the
importance of future research in this area. CAMs in cerebrovascular diseases Cerebrovascular diseases are medical conditions that influ-
ence the blood flow in the vessels supplying the brain, with
ischemic stroke being the best-known and most studied
pathology [14]. Lack of adequate blood supply causes brain
damage and induces a pro-inflammatory immune response
as well as an excessive production of ROS, which compro-
mises BBB functional integrity. Considering their anatomi-
cal location at the CNS interfaces, it seems rational that
CAMs play a role in such conditions. Consistent with this
hypothesis, it has been suggested that in homeostatic con-
ditions, Lyve-1+ perivascular macrophages prevent arterial
stiffness in mouse aorta by influencing collagen expression
by vascular smooth muscle cells [57].i CAMs in neurodegenerative diseases A potential role of CAMs in AD has become more evi-
dent with a recent single-nucleus RNAseq study of the
human brain vasculature. This study unveiled that many of
the top GWAS genes were not only expressed by microglia
but also by PvMΦ [124]. Interestingly, a novel scRNA-seq
study in a mouse model of PD reported that CAMs, rather
than microglia, play an essential role as antigen-presenting
cells and mediate α-synuclein-related neuroinflammation
[30, 95]. While mice lacking the antigen-presenting mol-
ecule MHCII specifically in microglia showed no differences
in the recruitment of peripheral immune cells, clodronate-
mediated depletion of CAMs significantly decreased infil-
trating CD4 T cells and monocytes [74, 95]. Extensive research has underscored the crucial role of
microglia in the human pathogenesis of neurodegenerative
diseases. Immunostainings of autopsy tissues have revealed
that under such conditions, microglia undergo activation
and engage on the phagocytosis of protein aggregates. The
advent of new single-cell technologies has allowed for a
more detailed and intricate characterization of microglial
states in neurodegenerative diseases, exposing a spectrum
of subtypes and providing insights into their distinct gene
expression profiles [74, 81]. Yet, despite the expected
involvement of CAMs in human neurodegenerative condi-
tions, data on their specific role remain scarce. Emerging vascular mechanisms of myeloid
cell brain infiltration In patients with acute heart failure syndromes, circulating
levels of heparan sulfate proteoglycan degradation products
derived from the glycocalyx were found to be elevated com-
pared to aged-matched healthy controls and were associated
with increased CD14 levels, a marker of monocyte activation
[38]. Evidence of monocyte activation by products of glyco-
calyx disruption was reported in lipopolysaccharide (LPS)-
treated mice and linked to the activation of Toll-like receptor
4 (TLR4) [29]. Heparan sulfate-rich vascular domains are
particularly involved in the regulation of thrombo-inflam-
matory events, presenting binding sites for different growth
factors, cytokines and chemokines [69]. Chemokines, like
the monocyte chemoattractant protein (MCP) 1, and the
macrophage inflammatory peptides (MIP) 1α and β inter-
act with the glycocalyx to generate a local concentration of
chemokines (‘chemokine-cloud’), facilitating leukocyte acti-
vation and amplifying pro-inflammatory signals [36, 54]. At
present, how the glycocalyx is modified in different diseased
brain conditions, and how this may affect monocyte recruit-
ment is not fully understood. Glycans shed from the injured
endothelium could potentially bind and modulate inflamma-
tory molecules systemically [108], but also the modification
of endothelial cell surface-exposed sugars may direct mono-
cyte interaction with the endothelium, as recently hypoth-
esized in a murine model of ischemic stroke [75]. Two subsets of monocytes have been identified based on
their ability to extravasate (Ly6ChighCCR2highCXCR1low)
or to patrol the vessels (Ly6ClowCCR2lowCXCR1high) [31]. These phenotypes represent the extremes of a range of
phenotypes that are defined by environmental factors that
also control bone marrow-derived monocyte migration, dif-
ferentiation, and tissue entry. Brain resident myeloid cell
replacement by monocytes during homeostasis is limited
and restricted to dura and choroid plexus macrophages only
[80]. By contrast, tissue-resident macrophages located in
other organs are more frequently replenished [120] through
a mechanism involving both the endothelial cells and their
underlying basement membrane. This latter structure has
been recently reported as a critical cue for monocyte dif-
ferentiation into macrophages in the intestine, with a spe-
cific role of laminin proteins [56]. The two main endothelial
laminins, laminin 411 and 511, are constituents of vascular
basement membranes of arteries, arterioles and capillaries,
with progressively less laminin 511 in postcapillary ven-
ules, venules and veins. Postcapillary venules which have
low or no laminin 511 are the preferred sites for leukocyte
and monocyte extravasation in both the brain and periph-
eral organs [56, 102, 103, 117]. Emerging vascular mechanisms of myeloid
cell brain infiltration In neurodegenerative and cerebrovascular diseases, blood-
borne myeloid cells may have access to the brain, where
they can differentiate into mature macrophages. This process
differs from that regulating myeloid cell seeding and dif-
ferentiation during CNS development, due to the presence
of a defined, but damaged, vascular barrier. Whether mac-
rophages derived from such infiltrating monocytic cells are
functionally equivalent to the long-term resident populations
is not yet resolved. Hypertension, or high blood pressure, is a significant
risk factor that can lead to various vascular diseases, includ-
ing ischemic stroke. It is widely recognized that microglia
respond rapidly and become activated in the presence of
BBB leakages. Interestingly, studies have shown that
in cases of vascular injury, microglia activation occurs
promptly, accumulating around vasculature even before
detectable BBB damage takes place [107]. Similarly, hyper-
tension is associated with increased PvMΦ numbers along
the cerebral vasculature [58]. Interestingly, consistent with
findings from AD studies, PvMΦ have been suggested to be The recruitment of myeloid cells largely depends on pro-
teins expressed on the endothelium of postcapillary ven-
ules, including adhesion molecules controlling monocyte
rolling, arrest and extravasation [reviewed in 22]. There are
two emerging mechanisms to explain regulation of mono-
cyte entry into the brain, i.e., glycocalyx-associated vascu-
lar-immune cell interactions and an endothelial basement Acta Neuropathologica (2024) 147:37 Acta Neuropathologica Page 8 of 13 37 37 extravascular cellular and basement membrane components. That the glycocalyx forms a CNS barrier was demonstrated
by Kutuzov et al. [55] who intravenously injected fluor-
conjugated wheat-germ agglutin into mice to selectively
label N-acetylglucosamine and sialic acid, components of
the glycocalyx. In addition, mice were injected with sul-
forhodamine 101 to label the astrocytic endfeet, and 40 or
150 kDa MWt fluorescein isothiocyanate (FITC)-dextran. Diffusion of FITC-dextran across the BBB was followed by
live in vivo two-photon microscopy, revealing accumulation
in the glycocalyx which was 44% of the signal intensity in
the blood. By modeling a partition coefficient, the authors
concluded that the glycocalyx is one of the three structures,
including the endothelium and the extravascular compo-
nents, forming a sequence of diffusional constraints that was
termed the tripartite BBB [55]. It is, therefore, not surprising
that disruption of the glycocalyx, as occurs in inflamma-
tion and disease conditions, compromises BBB function. Moreover, proteins shed from the glycocalyx provide solu-
ble damage-associated molecular patterns (DAMPs), further
enhancing inflammation and immune cell recruitment [69]. Emerging vascular mechanisms of myeloid
cell brain infiltration In patients with acute heart failure syndromes, circulating
levels of heparan sulfate proteoglycan degradation products
derived from the glycocalyx were found to be elevated com-
pared to aged-matched healthy controls and were associated
with increased CD14 levels, a marker of monocyte activation
[38]. Evidence of monocyte activation by products of glyco-
calyx disruption was reported in lipopolysaccharide (LPS)-
treated mice and linked to the activation of Toll-like receptor
4 (TLR4) [29]. Heparan sulfate-rich vascular domains are
particularly involved in the regulation of thrombo-inflam-
matory events, presenting binding sites for different growth
factors, cytokines and chemokines [69]. Chemokines, like
the monocyte chemoattractant protein (MCP) 1, and the
macrophage inflammatory peptides (MIP) 1α and β inter-
act with the glycocalyx to generate a local concentration of
chemokines (‘chemokine-cloud’), facilitating leukocyte acti-
vation and amplifying pro-inflammatory signals [36, 54]. At
present, how the glycocalyx is modified in different diseased
brain conditions, and how this may affect monocyte recruit-
ment is not fully understood. Glycans shed from the injured
endothelium could potentially bind and modulate inflamma-
tory molecules systemically [108], but also the modification
of endothelial cell surface-exposed sugars may direct mono-
cyte interaction with the endothelium, as recently hypoth-
esized in a murine model of ischemic stroke [75] membrane (laminin)-driven infiltration and differentiation
into macrophages.i extravascular cellular and basement membrane components. That the glycocalyx forms a CNS barrier was demonstrated
by Kutuzov et al. [55] who intravenously injected fluor-
conjugated wheat-germ agglutin into mice to selectively
label N-acetylglucosamine and sialic acid, components of
the glycocalyx. In addition, mice were injected with sul-
forhodamine 101 to label the astrocytic endfeet, and 40 or
150 kDa MWt fluorescein isothiocyanate (FITC)-dextran. Diffusion of FITC-dextran across the BBB was followed by
live in vivo two-photon microscopy, revealing accumulation
in the glycocalyx which was 44% of the signal intensity in
the blood. By modeling a partition coefficient, the authors
concluded that the glycocalyx is one of the three structures,
including the endothelium and the extravascular compo-
nents, forming a sequence of diffusional constraints that was
termed the tripartite BBB [55]. It is, therefore, not surprising
that disruption of the glycocalyx, as occurs in inflamma-
tion and disease conditions, compromises BBB function. Moreover, proteins shed from the glycocalyx provide solu-
ble damage-associated molecular patterns (DAMPs), further
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lumen. Microsc Microanal 19:778–790. Conclusions adaptation, distribution and reproduction in any medium or format,
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holder. To view a copy of this licence, visit http://creativecommons.
org/licenses/by/4.0/. Although the origin of CAMs has been recently elucidated
in mice, the specific niche factors that facilitate their proper
development, migration, engraftment, and long-term main-
tenance in the distinct CNS compartments remain largely
unknown. Data suggest that the brain vasculature and the
extracellular matrix constituting the microenvironment are
likely to provide the cues to maintain CAM phenotype and
functions, once they are established within their niches. Encouragingly, recent studies have begun elucidating the
role of CAMs in CNS development, homeostasis and per-
turbations. Nevertheless, further studies are needed to fully
comprehend the intricate networks through which CAMs
contribute to disease pathogenesis.i Emerging vascular mechanisms of myeloid
cell brain infiltration Laminin 511 together with
the endothelium provide a cue for monocyte differentia-
tion, as observed in the intestine of endothelial cell-specific
laminin 511 knockout mice (Tek-cre:Lama5−/−), which show
reduced proportions of mature macrophages—identified
as Ly6ClowMHCIIhigh—compared to wild type or laminin
411 depleted (Lama4−/−) mice despite higher numbers of
infiltrating Ly6Chigh/MHCIIlow monocytes. By contrast,
Lama4−/− mice which have a high expression of laminin
511 have less extravasation of immature (Ly6ChighMHCIIlow)
and maturing (LY6ChighMHCIIhigh) monocytes but higher
proportions of differentiated macrophages [56]. The data
suggest that laminin 411 in the postcapillary venule base-
ment membrane supports immature monocyte extravasation,
while laminin 511 together with the endothelium promotes
their differentiation into macrophages. In the brain, the dif-
ferential expression of laminins 411 and 511 in endothelial
basement membranes have also been shown to modulate the
pathogenicity of infiltrating T cells during neuroinflamma-
tion [127]. Taken together these data suggest that laminins
411 and 511 may also control monocyte recruitment and
differentiation during neuroinflammation. As discussed above the endothelial glycocalyx
a nega fl
As discussed above, the endothelial glycocalyx—a nega-
tively charged, carbohydrate-rich structure—is a major
regulator of immune cell trafficking. Being exposed on
the luminal surface of the endothelium, glycoproteins are
accessible to circulating cells and proteins. In physiological
conditions, the glycocalyx contributes to the barrier func-
tion of the BBB, together with the endothelium and the Acta Neuropathologica (2024) 147:37 Page 9 of 13
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S1431927613000482 Acknowledgements This work is supported by the research funds
from the European Union’s Horizon 2020 Research and Innovation
Program under the Marie Skłodowska-Curie Grant Agreement No. 813294 (ENTRAIN). MP is supported by the Sobek Foundation,
the Ernst-Jung Foundation, the Klaus Faber Foundation, the Novo
Nordisk Foundation, the German Research Foundation (SFB 992
Project ID192904750, SFB 1160, SFB 1479 Project ID441891347,
TRR 359 Project ID491676693, SFB/TRR167 Project ID259373024
“NeuroMac”, Gottfried Wilhelm Leibniz Prize) and by the DFG
under Germany’s Excellence Strategy (CIBSS—EXC-2189—Project
ID390939984). LS is supported by the Advanced ERC funding and
by the ERANET project DeCoDis. SF is supported by Fondazione
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Candidate gene resequencing to identify rare, pedigree-specific variants influencing healthy aging phenotypes in the long life family study
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© 2016 Druley et al. Open Access This article is distributed under the terms of the Creative Commons Attribution 4.0
International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and
reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to
the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver
(http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated. * Correspondence: mprovince@wustl.edu
1Center for Genome Sciences and Systems Biology, Washington University
School of Medicine, 660 South Euclid Avenue, Campus Box 8116, St. Louis,
MO 63108, USA
3Division of Statistical Genomics, Department of Genetics, Washington
University School of Medicine, St. Louis, MO, USA
Full list of author information is available at the end of the article Candidate gene resequencing to identify
rare, pedigree-specific variants influencing
healthy aging phenotypes in the long life
family study Candidate gene resequencing to identify
rare, pedigree-specific variants influencing
healthy aging phenotypes in the long life
family study Todd E. Druley1,2, Lihua Wang1,3, Shiow J. Lin1,3, Joseph H. Lee4,5,6, Qunyuan Zhang1,3, E. Warwick Daw1,3,
Haley J. Abel1,3, Sara E. Chasnoff1,2, Enrique I. Ramos1,2, Benjamin T. Levinson1,2, Bharat Thyagarajan7,
Anne B. Newman8, Kaare Christensen9, Richard Mayeux10 and Michael A. Province1,3* * Correspondence: mprovince@wustl.edu
1Center for Genome Sciences and Systems Biology, Washington University
School of Medicine, 660 South Euclid Avenue, Campus Box 8116, St. Louis,
MO 63108, USA
3 3Division of Statistical Genomics, Department of Genetics, Washington
University School of Medicine, St. Louis, MO, USA
Full list of author information is available at the end of the article Druley et al. BMC Geriatrics (2016) 16:80
DOI 10.1186/s12877-016-0253-y Druley et al. BMC Geriatrics (2016) 16:80
DOI 10.1186/s12877-016-0253-y Open Access RESEARCH ARTICLE
Open Access
Candidate gene resequencing to identify
rare, pedigree-specific variants influencing
healthy aging phenotypes in the long life
family study
Todd E. Druley1,2, Lihua Wang1,3, Shiow J. Lin1,3, Joseph H. Lee4,5,6, Qunyuan Zhang1,3, E. Warwick Daw1,3,
Haley J. Abel1,3, Sara E. Chasnoff1,2, Enrique I. Ramos1,2, Benjamin T. Levinson1,2, Bharat Thyagarajan7,
Anne B. Newman8, Kaare Christensen9, Richard Mayeux10 and Michael A. Province1,3* Abstract Background: The Long Life Family Study (LLFS) is an international study to identify the genetic components of
various healthy aging phenotypes. We hypothesized that pedigree-specific rare variants at longevity-associated
genes could have a similar functional impact on healthy phenotypes. Methods: We performed custom hybridization capture sequencing to identify the functional variants in 464
candidate genes for longevity or the major diseases of aging in 615 pedigrees (4,953 individuals) from the LLFS,
using a multiplexed, custom hybridization capture. Variants were analyzed individually or as a group across an
entire gene for association to aging phenotypes using family based tests. Results: We found significant associations to three genes and nine single variants. Most notably, we found a novel
variant significantly associated with exceptional survival in the 3’ UTR OBFC1 in 13 individuals from six pedigrees. OBFC1 (chromosome 10) is involved in telomere maintenance, and falls within a linkage peak recently reported
from an analysis of telomere length in LLFS families. Two different algorithms for single gene associations identified
three genes with an enrichment of variation that was significantly associated with three phenotypes (GSK3B with
the Healthy Aging Index, NOTCH1 with diastolic blood pressure and TP53 with serum HDL). Conclusions: Sequencing analysis of family-based associations for age-related phenotypes can identify rare or
novel variants Conclusions: Sequencing analysis of family-based associations for age-related phenotypes can identify rare or
novel variants. Keywords: Genomics, Aging, Genetics, Geriatrics, Pedigrees, Family, Sequencing most of which is unknown [1]. Currently, most human
longevity and healthy aging related variants identified
through genome wide association study (GWAS) are ei-
ther intergenic or intronic with weak effects, and there is
little characterization of coding variants that may influ-
ence human lifespan. For instance, common variants in
multiple genes such as apolipoprotein E (APOE) [2–5],
Forkhead Box O1 (FOXO1) [6], Forkhead Box O3
(FOXO3) [7], Insulin-Like Growth Factor 1 Receptor
(IGF-1R) [6, 8] and Translocase of Outer Mitochondrial
Membrane 40 Homolog (TOMM40) [9] have all been as-
sociated with human lifespan. However, lifespan is a highly
complex
trait
and
healthy
aging
is
controlled
and Survival and mortality-weighted healthy aging index The lifespan in LLFS was estimated as the duration of
survival free of death from any cause or from any one of
a specified list of diseases including cardiovascular dis-
ease, congestive heart failure, cancer, stroke, and Type 2
diabetes. The LLFS proband generation, including pro-
bands and full and half siblings (n = 810), was used for
identifying variants related with survival. Thus, we expect families clustered for long-lived
healthy members [11, 12] to be enriched for genetic
variants that will promote healthy and/or prolonged
aging. To identify new, rare, heritable variants that are
associated with multiple healthy aging phenotypes, we
performed custom hybridization capture sequencing
of 464 healthy aging related candidate genes in Phase
1 of the Long Life Family Study (LLFS). We then per-
formed association analyses of both rare (<1 % minor
allele frequency) and common variants against mul-
tiple
aging-related
phenotypes
including
survival,
leukocyte telomere length, healthy aging index [13],
BMI, blood pressure, blood lipid levels, blood glucose
level, cognitive function, onset of type 2 diabetes,
heart disease, cancer, and stroke. y
g
Healthy aging was established by the lack of disease
and clinical test values indicating normal function of
various biological systems. To increase the probability
of identifying healthy aging-related genetic variants,
which might influence one or more components of
these biological systems, Sanders et al. proposed the
Healthy Aging Index (HAI) as a subphenotype of lon-
gevity [13]. Using approximate age-adjusted tertiles for
systolic blood pressure, pulmonary vital capacity, cre-
atinine, fasting glucose, and Modified Mini-Mental Sta-
tus Examination score, each individual is scored 0, 1, or
2 for each trait. The HAI is then calculated from the
sum of these scores in a range from 0 (healthy) to 10
(unhealthy). The mortality-weighted HAI is generated
from the sum of the mortality-weighted scores of the
five components listed above. The weights are based on
the regression coefficients from the Cox proportional
hazards model for the effect of each component on sur-
vival and are 0.17085 for systolic blood pressure,
0.38386 for forced vital capacity, 0.42873 for MMSE
points, 0.13397 for serum creatinine, and 0.23880 for
serum fasting glucose. Phenotype measurements In this study, human lifespan and phenotypic traits re-
lated to healthy aging including survival, leukocyte telo-
mere length, BMI, blood pressure, blood lipid levels,
blood glucose and insulin levels, cognitive function,
healthy aging index, as well as the ages of onset of
stroke, coronary heart disease, congestive heart failure,
cancer, and type 2 diabetes mellitus, were investigated. Background According to United Nations World Population Prospects
2012
revision
(http://esa.un.org/unpd/wpp/Documenta
tion/pdf/WPP2012_HIGHLIGHTS.pdf),
the
worldwide
average human lifespan was 71 years (68.5 years for males
and 73.5 years for females) over the period 2010–2013. At
least 25 % of human lifespan is dictated by genetic factors, Druley et al. BMC Geriatrics (2016) 16:80 Page 2 of 12 Page 2 of 12 Page 2 of 12 influenced by variety of environmental factors and individ-
ual phenotypes [10]. Leukocyte telomere length, Body
Mass Index (BMI), blood pressure, serum lipids, blood
glucose, cognitive function, onset of type 2 diabetes,
heart disease, cancer, and stroke are a few phenotypes
associated
with
aging,
and
we
hypothesized
that
pedigree-specific coding variants associated with these
traits would identify additional genes or pathways im-
portant for regulating human lifespan. While non-
coding variants may have significant gene or epigenetic
regulatory effects, exonic variants would be expected to
exert larger effects on gene function and might there-
fore explain a larger fraction of the variance in these
complex aging phenotypes. Phenotype measurements influenced by variety of environmental factors and individ-
ual phenotypes [10]. Leukocyte telomere length, Body
Mass Index (BMI), blood pressure, serum lipids, blood
glucose, cognitive function, onset of type 2 diabetes,
heart disease, cancer, and stroke are a few phenotypes
associated
with
aging,
and
we
hypothesized
that
pedigree-specific coding variants associated with these
traits would identify additional genes or pathways im-
portant for regulating human lifespan. While non-
coding variants may have significant gene or epigenetic
regulatory effects, exonic variants would be expected to
exert larger effects on gene function and might there-
fore explain a larger fraction of the variance in these
complex aging phenotypes. Methods
Subjects j
The LLFS [11], a multi-center family-based cohort
study, enrolled 4,953 individuals from 539 families
clustered for exceptional survival to identify environ-
mental and genetic factors that account for the long
healthy lives in these families. Phase 1 of the LLFS was
conducted between 2006 and 2009. All participants
provided written informed consent prior to inclusion
in the study. The four recruitment centers include
Boston University Medical Center, Columbia Univer-
sity Medical Center, University of Pittsburgh, and Uni-
versity
of
Southern
Denmark. Using
the
Family
Longevity Selection Score (FLoSS) [14], a score gener-
ated according to birth-year cohort survival probabil-
ities of the proband and siblings, probands and their
families with FLoSS score of 7 or higher, at least one
living sibling, and at least one living offspring (mini-
mum family size of 3), who were able to give informed
consent and willing to participate were recruited. The
spouses were enrolled as controls for this study. The
characteristics of the LLFS population by generation
and by gender are listed in Additional file 1: Table S1
and S2, respectively. Glycated hemoglobin (HbA1c), Blood Glucose and Insulin
Levels, Leukocyte Telomere Length, Blood Lipid Levels
Including Total Cholesterol, HDL Cholesterol, LDL
Cholesterol and Triglyceride, BMI, Blood Pressure,
Cognitive Function, Stroke, Coronary Heart Disease,
Congestive Heart Failure, Cancer, Type 2 Diabetes
We looked for any possible association between our can-
didate genes related to healthy aging and various aging
phenotypes including HbA1c, blood glucose and insulin
levels, leukocyte telomere length, blood lipid levels in-
cluding total cholesterol, HDL cholesterol, LDL choles-
terol and triglyceride, BMI, blood pressure, cognitive
function, stroke, coronary heart disease, congestive heart
failure, cancer, and type 2 diabetes. We looked for any possible association between our can-
didate genes related to healthy aging and various aging
phenotypes including HbA1c, blood glucose and insulin
levels, leukocyte telomere length, blood lipid levels in-
cluding total cholesterol, HDL cholesterol, LDL choles-
terol and triglyceride, BMI, blood pressure, cognitive
function, stroke, coronary heart disease, congestive heart
failure, cancer, and type 2 diabetes. Druley et al. Genome-wide SNP array genotyping y g
y
g
Illumina Human Omni 2.5 v1 was used to perform
whole genome SNP genotyping on each study participant
by CIDR (www.cidr.jhmi.edu), and the resulting data
has been submitted to dbGaP under accession number
phs000397.v1.p1. Genome-wide SNP variants within tar-
geted sequenced regions were used as controls for sequen-
cing accuracy as described below. Pooled sequencing and indexed custom library
preparation We have previously published the entire protocol for
custom hybridization capture of multiplexed, indexed
next generation sequencing [20, 27]. Briefly, customized
adapter, blocker, pre- and post-hybridization PCR ampli-
fication primers and all index sequences used are listed
in Additional file 1: Table S5 of the same report. We
performed
pooled
capture
of
464
candidate
genes
(Additional file 1: Table S3) selected collectively by the
LLFS investigators due to their published association
with age-related phenotypes. Candidate gene resequen-
cing was performed from individually indexed DNA
samples from LLFS participants [https://longlifefamilys-
tudy.wustl.edu/LLFS/Home.html]. The bait set was cre-
ated using the Agilent eArray online tool [https://
earray.chem.agilent.com/earray/] for the Agilent SureSe-
lect Custom DNA Capture [http://www.genomics.agi-
lent.com] using 2X tiling, an exon-centered layout
strategy, and eliminating probes that overlap standard
repeat masked regions by 20 or more bases. In total,
there were 2,500,709 bases (2.5 Mb) covered by baits in
6,966 distinct intervals. )
y
y
Fasting HDL-cholesterol was measured after an 8-h fast
directly in serum using the Roche HDL-Cholesterol 3rd
generation direct method (Roche Diagnostics, Indianapolis,
IN 46250) on a Roche Modular P Chemistry Analyzer. Fasting triglycerides were measured after an 8-h fast in
serum using Triglyceride GB reagent (Roche Diagnos-
tics, Indianapolis, IN 46250) on a Roche Modular P
Chemistry Analyzer. LDL-cholesterol was calculated by
the Friedewald equation using the measured results for
total cholesterol, HDL-cholesterol, and triglycerides. This equation (LDL-cholesterol = total cholesterol –
HDL – (triglycerides/5)) can be used to calculate LDL-
cholesterol when triglycerides are less than 400 mg/dL. The corrected values for triglyceride and LDL choles-
terol was calculated for individuals taking lipid lower-
ing medications [17]. BMI was calculated as weight
(kg)/height (m)2. Sitting systolic and diastolic blood
pressure was obtained by the average of three measures
using an automated blood pressure machine (BP-tru
BPM 300, VMS MedTech, Coquitlam, Canada). Pulse
Pressure was calculated as systolic blood pressure
minus diastolic blood pressure. These results were cor-
rected for individuals taking blood pressure modifying
medication as previously published [18]. General cogni-
tive function including arithmetic, memory, and orien-
tation
was
assessed
using
the
mini-mental
state
examination (MMSE) or Folstein test [19]. Stroke or
cerebrovascular accident includes self-reported stroke, Sequencing Sequencing was performed in the Genome Technology
Access Center at Washington University using the HiSeq
2000 platform, generating 101 bp paired-end reads. GWA and sequencing information for the LLFS partici-
pants is available in dbGaP using accession number
phs000397.v1.p1. Methods
Subjects BMC Geriatrics (2016) 16:80 Page 3 of 12 As described previously [15], blood samples were col-
lected between 2006 and 2009, and HbA1c was measured
using identical ion exchange-based high performance liquid
chromatography with the Tosoh 2.2 Plus and after 2007
with the Tosch G7 Glycohemoglobin Analyzer (Tosoh
Medics, San Francisco, CA 94080) at the Advanced
Research and Diagnostics Laboratory, University of
Minnesota. Fasting glucose was measured after an 8-h
fast in serum by the Roche hexokinase method (Roche
Diagnostics, Indianapolis, IN 46250) on a Roche Modular
P Chemistry Analyzer (Roche Diagnostics Corporation). Fasting insulin was measured after an 8-h fast in serum
on a Roche Elecsys 2010 Analyzer (Roche Diagnostics
Corporation) using a sandwich immunoassay method
(Roche Diagnostics, Indianapolis, IN 46250). Assays of
average leukocyte telomere length were described by Lee
et al. [16]. Briefly, Telomeres (T) and beta-globin control
(S) were amplified using real-time PCR of 95 °C for
10 min denaturation, 34 cycles of 95 °C for 15 s and 55 °C
for 120 s performed on the CFX384 thermocycler (BioRad,
Richmond, CA). The leukocyte telomere length was
calculated from T/S ratio using the linear regression for-
mula of bp = (1,585 ∗T/S ratio) + 3582. Fasting total choles-
terol was measured after an 8-h fast in serum using a
cholesterol oxidase method (Roche Diagnostics, Indianapolis,
IN 46250) on a Roche Modular P Chemistry Analyzer. transient ischemic attack (TIA), or mini-stroke. Coronary
heart disease was defined as self-reported myocardial in-
farction, heart attack, coronary angioplasty, or coronary
artery bypass grafting. Heart failure or congestive heart
failure and cancer (including breast cancer, colon or rectal
cancer, esophageal cancer, leukemia or lymphoma, lung
cancer, pancreatic cancer, prostate cancer, etc.) were self-
reported. Type 2 diabetes was defined as use of diabetes
medications or fasting glucose ≥126 mg/dl. Phenotype transformation and covariates adjustment To increase the power and reduce the confounder ef-
fects of our analyses, we performed the following covari-
ates adjustment and transformation. HbA1c was adjusted
for age, age2, age3, field center and the top twenty princi-
pal components (PCs); the standardized residuals from a
stepwise covariate adjustment were used as final pheno-
type
for
the
following
association
analyses. The
leukocyte telomere length was transformed using an in-
verse normal function. This transformed trait was ad-
justed for covariates age, sex, education, field center,
smoking, alcohol consumption, marital status, history of
heart disease, and twenty PCs (PC8 was the only signifi-
cant PC associated with leukocyte telomere length in the
multivariate
polygenic
model). Mortality
weighted
healthy aging index were adjusted for age, sex, and 10
PCs and the residuals were used in the following ana-
lyses. The residuals of trait exceptionality scores adjusted
for field centers and 20 PCs were used in the following
analyses. Sequencing alignment, variant calling and filtering Sequencing alignment, variant calling and filtering
Sequencing analysis for indexed captures of all LLFS
participants followed previously reported methods (27; Sequencing analysis for indexed captures of all LLFS
participants followed previously reported methods (27; Druley et al. BMC Geriatrics (2016) 16:80 Page 4 of 12 Page 4 of 12 section entitled “Pooled indexed custom capture data
analysis” for more details). Briefly, raw sequence data
was aligned against the human genome (hg19/NCBI
37.0)
using
Novoalign
(Novocraft,
Inc.)
and,
from
aligned reads, variants were called using samtools-0.1.18
mpileup at only the 2.5 Mb of target sequence within
our custom hybridization array. probability of the trait score compared to the age/sex/
birth-cohort matched in the Framingham Heart Study. Trait exceptionality scores for type 2 diabetes, heart dis-
ease, cancer, and stroke were calculated as the negative
logarithm of the probability of the onset age of the dis-
ease, and compared to the distribution of the age of on-
set for each trait in the Framingham Heart Study. There
are two additional components to the HAI, which are
pulmonary vital capacity and serum creatinine. However,
these were not available in Framingham Heart Study and
were not included in our analyses. The thresholds used for filtering called variants from se-
quencing data were determined by comparing common
base positions shared with existing GWA data. For gene-
level burden tests, variants were filtered for coverage <5-
fold, quality score <45, call rate < 60 %, MAF > 0.01, Mendel
errors, and nonfunctional variants. Single variants were fil-
tered for coverage <5-fold, quality score <45, call rate <
60 %, and Mendel errors. For rare variants (<2 % minor
allele frequency), these thresholds provided a sensitivity
of ≥94.9 % and specificity of ≥99.9 % [27]. Mendel error
cutoffs were implemented as follows: MAF = 0 to <0.01
for >2 pedigrees with the Mendel error; MAF = 0.01 to <0.05
for ≥7 pedigrees; MAF = 0.05 to <0.1 for ≥12 pedigrees;
MAF = 0.1 to <0.2 for ≥26 pedigrees; MAF = 0.2 to <0.3
for ≥30 pedigrees; MAF = 0.3 to <0.4 for ≥32 pedigrees;
MAF = 0.4 to <0.51 for ≥38 pedigrees. Statistical analyses Trait exceptionality scores for survival, BMI, blood pressure,
blood lipid levels, blood glucose level, blood insulin level,
cognitive function, type 2 diabetes, heart disease, cancer,
and stroke Trait exceptionality scores for survival, BMI, blood pressure,
blood lipid levels, blood glucose level, blood insulin level,
cognitive function, type 2 diabetes, heart disease, cancer,
and stroke The LLFS cohort is enriched with longer-lived and
healthier individuals than the general population, as well
as the Framingham Heart Study. To account for this dif-
ference and increase our statistical power for detecting
sequence variants associated with aging-related pheno-
types, such as survival, BMI, blood pressure, blood lipid
levels, blood glucose level, blood insulin level, cognitive
function, type 2 diabetes, heart disease, cancer, and
stroke are transformed to “trait exceptionality scores”. Higher trait exceptionality scores indicate that, for a
given trait, an individual is significantly different from
the reference population for the same trait, resulting in
longer individual survival and/or better health. Using
sex- and birth-year specific cohort life tables from the
2012 trustees report of the United States Social Security
Administration, the trait exceptionality scores for sur-
vival were calculated for the oldest (proband) generation
in LLFS, along with any blood relatives within the same
generation regardless of age. These calculations are con-
ditional on survival to age 40 and were determined as
the negative logarithm of the probability of survival be-
yond age at last contact. Trait exceptionality scores for
BMI, blood pressure, blood lipid levels, blood glucose
level, blood insulin level, and cognitive function were
also
calculated
as
the
negative
logarithm
of
the Single variant analyses g
y
Because there are correlations between the target pheno-
types, the likelihood of a single variant having a func-
tional effect on a given phenotype was Bonferroni
corrected by dividing 0.05 by the total number of vari-
ants queried without accounting for the number of ana-
lyzed phenotypes. This resulted in p-values of 7.56x10−6
for survival and cancer and 1.47x10−5 for HDL, LDL and
triglycerides. We first attempted to determine if any sin-
gle variant identified by sequencing was significantly as-
sociated with survival. We identified a novel regulatory
variant in the 3’ UTR of Oligonucleotide/Oligosacchar-
ide-Binding Fold Containing 1, located on chromosome
10q24.33 (OBFC1; see Table 2) found in 13 individuals
from six pedigrees (Additional file 1: Table S6), which
was significantly associated (p = 6.18x10−7) with trait ex-
ceptionality for survival in long lived families. Intronic
variants of OBFC1 genotyped by Illumina array were
also queried, and two rare variants (rs79250842 in 11 in-
dividuals from 5 pedigrees and rs77987791 in 5 individ-
uals from 1 pedigree) were also found to have a
significant association with survival (Fig. 2). OBFC1 is
involved in telomere maintenance and falls within a re-
cently reported LLFS family-based association peak for
telomere length on chromosome 10 as shown in Fig. 2
[16]. This observation is supported by the association of
the same OBFC1 intronic variant (rs77987791) with
telomere length (p = 0.038). Interestingly, one long-lived
pedigree (pedID 25609942) with 14 family members was
clustered for all three rare variants in seven family mem-
bers, which suggests that multiple rare variants within
OBFC1 might contribute to longer lifespan. The com-
parison of “survival” to OBFC1 genotype is shown in
Additional file 1: Figure S2A. Sample characteristics
Phenotype Our results included 4,217 LLFS subjects (mean of age
70.56 for men and 70.05 for women) with complete
phenotypic and genotypic information. Individuals with
inadequate GWA or sequencing coverage were excluded. The study participants tend to have healthier profiles
compared with other cohorts of adults. For these indi-
viduals, the mean score of healthy aging index (3.64 in
men and women) and mortality weighted healthy aging
index (3.24 in men and 3.03 in women) are low. The
average age of the LLFS probands and their relatives
(95.8 in men and 99.4 in women) is much higher than
the cohort life expectancy of US and Danish (an LLFS
study site) early 20th century birth cohorts (60–70 years)
and the current life expectancy in both populations
(~80 years). Single variant association testing Parame-
ters in each model were estimated by the maximum like-
lihood algorithm and tested by the Wald test. Rather
than using a fixed weight, the PWST method adaptively
calculates the weights for individual variants from the
observed genotype and phenotype data and then per-
forms a permutation procedure for family data to avoid
false positive inflation due to the over fitting of the adap-
tive score WSS. to detect rare causal variants, we applied these two algo-
rithms to assess the influence of called rare variants. This was necessary since standard association tests of in-
dividual rare variants (MAF < 0.01) are underpowered
unless sample sizes or effect sizes are very large, func-
tional variants within the same gene based on bioinfor-
matics annotation by ANNOVAR [27] were analyzed
together in this study. For each group of variants, UWSS
was calculated as the total number of variant alleles car-
ried by a subject. The weight was calculated based on al-
lele frequency in controls and WSS was calculated as the
weighted sum of minor alleles over a group of variants. The UWSS or WSS score was treated as a single pre-
dictor variable (X) and fit into a linear model. The kin-
ship matrix was incorporated into the linear models to
adjust for familial relatedness between subjects. Parame-
ters in each model were estimated by the maximum like-
lihood algorithm and tested by the Wald test. Rather
than using a fixed weight, the PWST method adaptively
calculates the weights for individual variants from the
observed genotype and phenotype data and then per-
forms a permutation procedure for family data to avoid
false positive inflation due to the over fitting of the adap-
tive score WSS. 5’ or 3’ untranslated regions (UTR5 or UTR3, respect-
ively). The majority of variants (59.8 %) were found
within a single LLFS family (Additional file 1: Table S4)
and (88.74 %, n = 26,723) were rare, occurring at <1 % in
the general population, and 12,303 (46.04 %) were sin-
gletons (Additional file 1: Table S5). 5’ or 3’ untranslated regions (UTR5 or UTR3, respect-
ively). The majority of variants (59.8 %) were found
within a single LLFS family (Additional file 1: Table S4)
and (88.74 %, n = 26,723) were rare, occurring at <1 % in
the general population, and 12,303 (46.04 %) were sin-
gletons (Additional file 1: Table S5). Single variant association testing g
g
Family relatedness was estimated based on pedigree
structure using the “kinship” R package. Accounting for
this relatedness within families as random effects, the
additive genetic fixed effects of SNPs were analyzed
using the linear mixed effects model implemented in the
“lmekin” R packages [21, 22]. Q-Q plots for the pheno-
types analyzed are shown in Additional file 1: Figure S1
and demonstrate that, compared to genomic control
(calculated as median of observed p value / median of
expected p value to avoid estimation bias), each is within
0.578–1.09 using this approach. Thus, the type I error
rate is low in this study. Rare variant testing across genes
Currently
un-weighted
sum
score
(UWSS)
[23],
weighted sum score (WSS) [24], P-value Weighted Sum
Test (PWST) method [25] and family based sequence
kernel association test (famSKAT) [26] are commonly
used for estimating the effects of rare variants. Because
the PWST and famSKAT are likely to have greater power Druley et al. BMC Geriatrics (2016) 16:80 Druley et al. BMC Geriatrics (2016) 16:80 Druley et al. BMC Geriatrics (2016) 16:80 Page 5 of 12 Table 1 Filter Applied in LLFS sequence data
Among 464 Candidate genes, 448 genes with 48,918 variants
sequenced
Filter 1: ≥5x coverage
47 ± 36
Filter 2: ≥45 quality score
175 ± 53
Filter 3: ≥60 % call rate
97 % ± 7 %
Filter 4: Mendel Errors
MAF dependent
439 genes with 30,112 variants analyzed Table 1 Filter Applied in LLFS sequence data to detect rare causal variants, we applied these two algo-
rithms to assess the influence of called rare variants. This was necessary since standard association tests of in-
dividual rare variants (MAF < 0.01) are underpowered
unless sample sizes or effect sizes are very large, func-
tional variants within the same gene based on bioinfor-
matics annotation by ANNOVAR [27] were analyzed
together in this study. For each group of variants, UWSS
was calculated as the total number of variant alleles car-
ried by a subject. The weight was calculated based on al-
lele frequency in controls and WSS was calculated as the
weighted sum of minor alleles over a group of variants. The UWSS or WSS score was treated as a single pre-
dictor variable (X) and fit into a linear model. The kin-
ship matrix was incorporated into the linear models to
adjust for familial relatedness between subjects. Sequencing results To reduce false positive variant calls, stringent filtering
of raw sequence data was employed and is described in
Table 1. After filtering, 30,112 variants within 439 genes
were identified with an average coverage of 47-fold,
quality score of 175 and call rate of 0.97. As shown in
Fig. 1, 37.4 % (11,261) of all called variants fell within
coding regions with 22.4 % (6,745) being either missense
(non-synonymous SNV) or nonsense (stop-gain and
stop-loss) variants; 50.7 % (15,281) fell within regulatory Linear mixed model based single variant testing is not
a stable method for rare variants with <10 minor allele Druley et al. BMC Geriatrics (2016) 16:80 Page 6 of 12 Fig. 1 The distribution of sequenced variants within different genomic region Fig. 1 The distribution of sequenced variants within different genomic region Among the 439 candidate genes, 160 are well-known
human longevity related genes based on LongevityMap
(http://genomics.senescence.info/longevity/) [35] and A
Catalog of Published Genome-Wide Association Studies
(http:/www.genome.gov/gwastudies/). When considering
survival and any single variant with a p-value of <0.05
and more than 10 allelic copies in the LLFS cohort, we
replicated 76 variants within these 160 genes (Additional
file 1: Table S7), which supports the validity of our ana-
lysis model. Four variants within FOXO3, a well-known
longevity related gene [36–39], were replicated for an as-
sociation (p < 0.05) with survival. copies [28], which is strengthened by our pedigree-based
structure. While the effect of any single variant may be
slight, we found a significant association with survival
for 23 different variants in 23 healthy aging candidate
genes (Table 3). Among these 23 variants, only four have
been described in dbSNP. Eight of these genes (in bold)
have published reports linking them to longer lifespan
[9, 29–34]. These variants clustered in two families with
longer survival (Fig. 3), suggesting that the aggregation
of multiple variants in these genes may have a larger ef-
fect on survival. One subject who survived to age 110
carried 15 of these variants, and another surviving to age
101 years carries 9 of these variants. None of the vari-
ants were carried by spousal controls. We found associations with phenotypes other than sur-
vival. One candidate gene, IGF1R (Insulin-Like Growth Table 2 Significant results of single variant testing for variants with more than 10 copies. Nine single variants with at least 10 allelic
copies were identified within five phenotypes. Sequencing results There were 6,613 variants analyzed across 426 genes for survival and cancer and
3,389 variants analyzed across 408 genes for HDL, LDL and triglycerides
Phenotype (TE Score)
chr
Position (hg19)
rsID
gene
Function
Ref
Variant
MAF
N
Beta
SE
P-value
Survival
10
105642272
OBFC1
UTR3
C
G
0.002
810
3.58
0.71
6.2E-7
Cancer
15
99501295
IGF1R
UTR3
A
G
0.007
4210
0.58
0.13
3.7E-6
HDL Cholesterol
16
57005301
rs1532625
CETP
intron
T
C
0.38
3053
0.19
0.03
2.4E-13
16
57015091
rs5880
CETP
nsyn-exon
C
G
0.047
4049
−0.32
0.06
1.2E-8
16
57017319
rs1800777
CETP
nsyn-exon
A
G
0.029
3982
−0.40
0.07
8.1E-9
LDL Cholesterol
6
152679594
rs62426382
SYNE1
syn-exon
G
A
0.016
4035
0.45
0.09
1.6E-6
19
45396144
rs11556505
TOMM40
syn-exon
T
C
0.10
4018
−0.19
0.04
1.5E-6
19
45397229
rs1160983
TOMM40
syn-exon
A
G
0.02
2686
0.53
0.10
1.2E-7
Triglyceride
11
116703640
rs5128
APOC3
UTR3
G
C
0.09
4003
−0.21
0.04
1.2E-7 Druley et al. BMC Geriatrics (2016) 16:80 Page 7 of 12 Fig. 2 Variant-wise association results on chromosome 10 around OBFC1 for telomere length phenotype (gray) and exceptional survival score
(green) on chromosome 10 using both 1000 Genomes Project hybrid and candidate gene sequenced genotypes. Two additional rare variants
from genome-wide array results showed significant association with survival exceptionality score. The association p-value of rs77987791 with
telomere length is 0.038 Fig. 2 Variant-wise association results on chromosome 10 around OBFC1 for telomere length phenotype (gray) and exceptional survival score
(green) on chromosome 10 using both 1000 Genomes Project hybrid and candidate gene sequenced genotypes. Two additional rare variants
from genome-wide array results showed significant association with survival exceptionality score. The association p-value of rs77987791 with
telomere length is 0.038 disease and longevity [48]. Comparisons for all variants
listed in Table 2 between their associated phenotype and
the variant genotype are shown in Additional file 1: Figure
S2A-I. Factor 1 Receptor, located on chromosome 15q26.3) is
well known to be associated with cell growth and various
cancers [40]. As shown in Table 1, we noted one new
cancer associated rare UTR3 variant (chr15:99501295)
in this gene. g
In addition, four genes (CETP, APOC3, SYNE1 and
TOMM40) were associated with blood lipid levels. The
cholesterol
ester
transfer
protein, CETP
(located
on
chromosome 16q21), is essential for metabolism of plasma
lipoproteins [41]. Sequencing results Three known HDL cholesterol related
variants within CETP, one common intronic
variant
(rs1532625) [42] and two rare exonic variants (rs5880,
rs1800777) [43], were replicated in our study. APOC3
(Apolipoprotein C3, located on chromosome 11q23.3) is
critical for triglyceride metabolism and a potential
therapeutic target for metabolic syndrome [44]. One
known common triglyceride related variant (rs5128)
[45] in the UTR3 region of APOC3 was replicated. LDL cholesterol was associated with one synonymous
variant
in
SYNE1
(Spectrin
Repeat
Containing,
Nuclear Envelope 1, on chromosome 6q25.2) and two
synonymous variants in TOMM40 (Translocase Of
Outer
Mitochondrial
Membrane
40
Homolog,
on
chromosome 19q13.32). TOMM40 has been identified
in genome-wide screens for dyslipidemia and carotid
artery disease [46, 47]. More importantly, TOMM40
rs10524523 polymorphism in combination with APOE
alleles significantly influences late-onset Alzheimer’s Analyses of multiple variants across genes To better characterize genes associated with our pheno-
types due to multiple, pedigree-specific rare variants ra-
ther than more common single variants, we aggregated
rare functional variants (exonic, UTR3, UTR5, splicing
and non-coding RNA) within the same gene using the
PWST [25] and famSKAT [26]. For association results,
Bonferroni correction of 0.05 divided by the total num-
ber of genes resulted in a p < 1.14x10−4 for significance
and p < 1.0x10−3 would merely be suggestive. With re-
spect to survival, none of the candidate genes passed this
significance threshold. When comparing our association
results for survival to published longevity related genes,
20 genes were replicated with p-value <0.05 (Additional
file 1: Table S8). We next performed PWSK and famSKAT analyses on
our candidate genes to see if any gene harbored mul-
tiple putatively functional variants associated with the
individual Healthy Aging Index (HAI) and those results
are listed in Table 4. GSK3B (glycogen synthase kinase
3 beta, on chromosome 3q13.33) achieved significance
by PWSK. GSK3B, a serine-threonine kinase, has been
associated with Alzheimer’s disease [49, 50] and may Page 8 of 12 Druley et al. BMC Geriatrics (2016) 16:80 Page 8 of 12 Table 3 Significant results of single variant testing for variants with less than 10 copies. Twenty-three rare variants with less than
10 minor allele copies were identified for a single phenotype (longevity). These variants clustered in two families with high trait
exceptionality scores for longevity. Analyses of multiple variants across genes These variants clustered in two families with high trait
i
li
f
l
i
G
i
b ld h
i
l
bli h d
l i
hi
l
i
[9 29 34] regulate human aging via negative regulation of glucose
homeostasis and Wnt signaling. In addition, NOTCH1
was significantly associated with diastolic blood pres-
sure and TP53 with HDL (Table 4). NOTCH1 (chromo-
some 9q34.3) is involved in a variety of developmental
processes by controlling cell fate. In mice, NOTCH1
signaling is also required for vascular development
[51]. TP53 (tumor protein P53, located on chromosome
17p13.1), is a well known tumor suppressor that
regulates cell cycle and DNA repair. An inverse correl-
ation of HDL cholesterol with cancer risk [52] might
be explained by the association of TP53 with HDL
cholesterol. Analyses of multiple variants across genes Genes in bold have a previously published relationship to longevity [9, 29–34]
chr
Position (hg19)
rsID
gene
Function
Ref
Variant
Minor Allele Count
MAF
N
Beta
SE
P-value
7
17385235
AHR
UTR3
A
G
5
0.0006
810
3.58
0.71
6.18E-07
11
27680107
rs8192466
BDNF
nsyn-exonic
A
G
8
0.0009
810
5.02
1.01
7.41E-07
16
57015065
CETP
intronic
T
C
3
0.0004
809
5.00
1.01
8.69E-07
1
207813049
CR1
UTR3
A
G
5
0.0006
810
5.02
1.01
7.41E-07
8
6735377
DEFB1
nsyn-exonic
T
C
1
0.0001
809
5.03
1.01
7.22E-07
10
71139772
HK1
nsyn-exonic
T
C
1
0.0001
794
5.04
1.01
6.53E-07
1
209959231
IRF6
UTR3
G
A
4
0.0005
810
3.58
0.71
6.18E-07
21
35195906
ITSN1
syn-exonic
A
C
1
0.0001
810
5.02
1.01
7.41E-07
15
100256347
MEF2A
UTR3
C
T
2
0.0002
810
5.02
1.01
7.41E-07
1
12073445
MFN2
UTR3
T
C
3
0.0003
810
5.07
1.01
6.10E-07
4
100544175
MTTP
UTR3
G
A
1
0.0001
810
5.07
1.01
6.10E-07
2
1794502
MYT1L
UTR3
T
C
1
0.0001
810
5.02
1.01
7.41E-07
16
50267300
PAPD5
UTR3
T
C
4
0.0005
810
3.58
0.71
6.18E-07
2
223158616
PAX3
UTR3
T
C
3
0.0003
810
3.58
0.71
6.18E-07
7
95214257
PDK4
UTR3
G
A
2
0.0002
810
5.07
1.01
6.10E-07
5
149206403
rs374853976
PPARGC1B
syn-exonic
A
G
1
0.0001
714
5.07
1.00
4.72E-07
10
99130549
RRP12
nsyn-exonic
T
C
1
0.0001
780
5.02
1.01
7.66E-07
17
28525015
rs199875985
SLC6A4
UTR3
G
A
1
0.0001
810
5.07
1.01
6.10E-07
15
67479818
rs144245324
SMAD3
syn-exonic
T
C
3
0.0004
767
5.02
1.02
9.22E-07
3
24163883
THRB
UTR3
T
C
7
0.0008
810
3.58
0.71
6.18E-07
14
81610971
TSHR
UTR3
A
G
2
0.0002
810
5.07
1.01
6.10E-07
21
46189291
UBE2G2
UTR3
T
C
3
0.0004
810
5.02
1.01
7.41E-07
19
9770038
ZNF562
intronic
T
G
2
0.0002
810
3.58
0.71
6.18E-07 Table 3 Significant results of single variant testing for variants with less than 10 copies. Twenty-three rare variants with less than
10 minor allele copies were identified for a single phenotype (longevity). These variants clustered in two families with high trait
exceptionality scores for longevity Genes in bold have a previously published relationship to longevity [9 29–34] Table 3 Significant results of single variant testing for variants with less than 10 copies. Twenty-three rare variants with less than
10 minor allele copies were identified for a single phenotype (longevity). Discussion regulate human aging via negative regulation of glucose
homeostasis and Wnt signaling. In addition, NOTCH1
was significantly associated with diastolic blood pres-
sure and TP53 with HDL (Table 4). NOTCH1 (chromo-
some 9q34.3) is involved in a variety of developmental
processes by controlling cell fate. In mice, NOTCH1
signaling is also required for vascular development
[51]. TP53 (tumor protein P53, located on chromosome
17p13.1), is a well known tumor suppressor that
regulates cell cycle and DNA repair. An inverse correl-
ation of HDL cholesterol with cancer risk [52] might
be explained by the association of TP53 with HDL
cholesterol. The mechanisms driving healthy human aging are still
mostly unclear. There is much debate on the evolution-
ary versus adaptive mechanisms of aging, such as pro-
grammed longevity, hormonal regulation of aging by
insulin/IGF-1 signaling, programmed decline of the im-
mune system, wear and tear theory, rate of oxygen basal
metabolism, cross-linking theory and free radicals the-
ory. These mechanisms are not inherently mutually
exclusive and it is likely that aging is dictated by combina-
tions of multiple mechanisms. Regardless, Kirkwood and
Melev stated in a recent review that “it is obvious…that
duration of life is dependent upon genotype” [54]. These results are likely an underestimate of significant
or
suggestive
variants. Unfortunately,
non-uniform
hybridization to target loci due to local sequence context
and the need for stringent filtering to reduce false posi-
tives resulted in gaps within the covered coding se-
quence of most genes, which could affect results due to
false negatives. This is why the well-known longevity
gene, ApoE [53], was not included in our analyses. To take advantage of the unique family structure of
the LLFS cohort, we have performed candidate gene
resequencing to identify familial sequence variation that
could explain multiple exceptional phenotypes contrib-
uting to long lifespan and healthy aging. Our results are
limited by gaps in sequencing coverage of some genes
due to non-uniform hybridization of baits across the en-
tire cohort, which may mean an underestimate in the Page 9 of 12 Druley et al. BMC Geriatrics (2016) 16:80 Fig. 3 Twenty-four rare variants within twenty-four genes clustered in two long-lived LLFS families (a) pedID 25609942 and (b) pedID 38652533. Individual 2418 and 4441 lived to 110 and 101 years of age, respectively. The longevity-associated genes harboring rare variants within these
individuals (and their offspring) are listed below their symbol Fig. Discussion 3 Twenty-four rare variants within twenty-four genes clustered in two long-lived LLFS families (a) pedID 25609942 and (b) pedID 38652533. Individual 2418 and 4441 lived to 110 and 101 years of age, respectively. The longevity-associated genes harboring rare variants within these
individuals (and their offspring) are listed below their symbol experiment identified a familial variant in VEGFC that
explained 23.8 % of phenotypic variance within a pedi-
gree, but the same variant only described 0.1 % of the
phenotypic variance in unrelated individuals [55]. The
same strategy was employed in the Insulin Resistance number of familial variants in these genes. This strategy
was previously used to identify rare familial variants in
VEGFC (Vascular Endothelial Growth Factor C) by using
linkage information in families with high LOD scores to
inform targeted resequencing for rare variants. This Table 4 Collapsed rare variant analysis of candidate genes associated with HAI. These genes were found to have a p-value <1.0x10−3 by
at least one burden-testing algorithm
Phenotype
Gene
RefSeq
Total Exons Analyzed Exons Indiv Seq (#) Variants called (#) Ped (#) P-value (PWST) P-value (Skat)
Healthy Aging Index
(Mortality Weighted)
GSK3B
NM_002093 12
8
3217
77
121
1.00E-4
2.08E-4
Diastolic Blood Pressure NOTCH1 NM_017617 34
3
4112
55
78
1.00E-4
5.37E-3
HDL Cholesterol
TP53
NM_000546 11
6
4073
21
86
1.00E-4
8.05E-3 Druley et al. BMC Geriatrics (2016) 16:80 Page 10 of 12 Page 10 of 12 Druley et al. BMC Geriatrics (2016) 16:80 Druley et al. BMC Geriatrics (2016) 16:80 Atherosclerosis Family Study to identify a rare variant
within the ADIPOQ (Adiponectin, C1Q And Collagen
Domain Containing) gene describing 63 % of the vari-
ance of plasma adiponectin levels, which are critical for
glucose homeostasis [56]. Our results validate multiple
SNPs and genes (OBFC1, CTEP, ZNF562) found associ-
ated with longevity and healthy survival. Using a
sequencing-based approach to identify rare variants
within pedigrees associated with exceptional pheno-
types. Of note, we identified one rare, novel variant in
OBFC1 as well as two intronic variants from LLFS array
data associated with survival. OBFC1 is involved in
telomere maintenance; its role in promoting exception-
ally healthy aging is intriguing given that this gene re-
sides squarely within a family-based association peak
for telomere length recently reported from the same
LLFS families [16]. Availability of data GWA and sequencing information for the LLFS partici-
pants is available in dbGaP using accession number
phs000397.v1.p1. Discussion The idea that many longevity-
associated variants can presumably work in synergy
with an additive beneficial effect is supported by the
observations from three LLFS families. One exception-
ally long-lived LLFS family carries all three OBFC1
variants, while 23 additional beneficial rare variants are
clustered in two other exceptionally long-lived LLFS
families. Additional file Another healthy aging candidate gene, CETP, is a well-
known regulator of HDL and has been associated with
healthy aging in Ashkenazi Jewish [59, 60] as well as
Alzheimer’s disease [61]. The negative association of sev-
eral variants with HDL, LDL and triglycerides in our
study indicates that harmful genetic variants still exist in
the long-lived subjects. This paradoxical phenomenon
might be due to antagonistic effects on the development
of other age-related disorders, gene-age, gene-gene, or
gene-environment
interactions
[62]. To
understand
these intersections, further investigation of age and en-
vironment specific effects of these lipid regulatory genes
on multiple aging phenotypes is needed. Additional file 1: Supplementary Materials. (PDF 1024 kb) Abbreviations LLFS: Long Life Family Study; HDL: high density lipoprotein; LDL: low density
lipoprotein; BMI: body mass index; TIA: transient ischemic attack; MMSE: mini
mental state examination; UTR: untranslated region; FLoSS: family longevity
selection score; HAI: healthy aging index; GWAS: genome wide association
study; PCs: principal components; MAF: minor allele frequency;
HgbA1C: glycated hemoglobin; UWSS: un-weighted sum statistic;
WSS: weighted sum statistic; PWST: P-value weighted sum test;
famSKAT: family-based serial kernel association test. Ethics approval and consent to participate pp
p
p
Each participant provided written, informed consent
prior to inclusion in this study. This study is in compli-
ance with the Helsinki Declaration and the results re-
ported herein have been approved by the National
Institute of Aging, the Human Research Protection Of-
fice of the coordinating center at Washington University
under IRB#201106316, the University of Pittsburgh In-
stitutional Review Board, the Boston University Office of
the Institutional Review Board, the Columbia University
Institutional Review Board and the Regional Scientific
Ethical Committees for Southern Denmark. Because effect sizes from single rare variants are typ-
ically small, collapsing rare variants across larger loci
(e.g. genes or pathways) can aggregate variants and
highlight the importance of a larger genetic locus [25]. By analyzing our sequencing results in this fashion, we
identified a more diverse set of genes associated (or
suggestive of association) with additional healthy aging
phenotypes. GSK3B, which is a kinase for over forty
different proteins and plays key roles in numerous
intracellular signaling pathways (cellular proliferation,
migration, inflammation and immune response, glu-
cose regulation, and apoptosis) [57] was identified in
this analysis and may play an important role in healthy
aging. This gene has been associated with a number of
age-related diseases such as type II diabetes, Alzheimer’s
disease, inflammatory disorders, cancer and bipolar dis-
order [58]. Consent for publication
Not applicable. Conclusions Under the Rare Variant/Complex Phenotype hypothesis,
multiple rare variants have an aggregate effect on com-
plex phenotypes or diseases, but identifying the genes
and the relative contributions of the various sequence
changes is difficult. By leveraging the pedigree structure
and cohort size of the LLFS study, we demonstrate the
utility of sequencing within pedigrees to identify inher-
ited genetic variation influencing specific parameters of
healthy aging. These data are limited by representing
primarily genes that were already known to be associ-
ated with the various phenotypes being investigated. A
larger survey of the genome in the LLFS cohort, espe-
cially the linkage peaks for multiple healthy aging phe-
notypes, will facilitate discovery of new genes and
putative mechanisms for the genetic regulation of the
complexities of aging. Competing interests
Th
h
d
l
h The authors declare that they have no competing interests. The authors declare that they have no competing interests. Page 11 of 12 Page 11 of 12 Druley et al. BMC Geriatrics (2016) 16:80 9. Sebastiani P, Solovieff N, Dewan AT, Walsh KM, Puca A, Hartley SW, Melista
E, Andersen S, Dworkis DA, Wilk JB, et al. Genetic signatures of exceptional
longevity in humans. PLoS One. 2012;7:e29848. Funding
Th
k 11. Newman AB, Glynn NW, Taylor CA, Sebastiani P, Perls TT, Mayeux R,
Christensen K, Zmuda JM, Barral S, Lee JH, et al. Health and function of
participants in the Long Life Family Study: A comparison with other
cohorts. Aging (Albany NY). 2011;3:63–76. This work was supported by the National Institutes of Health, National
Institute of Aging [U01 AG023746 (The Long Life Family Study)]. We would
like to thank W. Rossi and E. Hadley for helpful discussions. We thank the
Genome Technology Access Center in the Department of Genetics at
Washington University School of Medicine for next-generation sequencing. The Center is partially supported by NCI Cancer Center Support Grant P30
CA91842 to the Siteman Cancer Center and by ICTS/CTSA Grant
UL1RR024992 from the National Center for Research Resources (NCRR), a
component of the National Institutes of Health (NIH), and NIH Roadmap for
Medical Research. This publication is solely the responsibility of the authors
and does not necessarily represent the official view of NCRR or NIH. 12. Barral S, Cosentino S, Costa R, Andersen SL, Christensen K, Eckfeldt JH,
Newman AB, Perls TT, Province MA, Hadley EC, et al. Exceptional memory
performance in the Long Life Family Study. Neurobiol Aging. 2013;34:2445–8. 13. Sanders JL, Minster RL, Barmada MM, Matteini AM, Boudreau RM,
Christensen K, Mayeux R, Borecki IB, Zhang Q, Perls T, et al. Heritability of
and mortality prediction with a longevity phenotype: the healthy aging
index. J Gerontol A Biol Sci Med Sci. 2014;69:479–85. 14. Sebastiani P, Hadley EC, Province M, Christensen K, Rossi W, Perls TT, Ash AS. A family longevity selection score: ranking sibships by their longevity, size,
and availability for study. Am J Epidemiol. 2009;170:1555–62. Authors’ contributions All authors have read and approved the final manuscript. TED, BT, ABN, KC,
RM and MAP designed the experimental plan. SEC, BTL prepared the All authors have read and approved the final manuscript. TED, BT, ABN, KC,
RM and MAP designed the experimental plan. SEC, BTL prepared the All authors have read and approved the final manuscript. TED, BT, ABN, KC,
RM and MAP designed the experimental plan. SEC, BTL prepared the
sequencing libraries. TED, EIR, LW, SJL, JHL, QZ, EWD, HJA, MAP analyzed and
interpreted data. TED, SJL, MAP drafted and revised the manuscript. All authors have read and approved the final manuscript. TED, BT, ABN, KC,
RM and MAP designed the experimental plan. SEC, BTL prepared the
sequencing libraries. TED, EIR, LW, SJL, JHL, QZ, EWD, HJA, MAP analyzed and
interpreted data. TED, SJL, MAP drafted and revised the manuscript. 10. Sebastiani P, Sun FX, Andersen SL, Lee JH, Wojczynski MK, Sanders JL,
Yashin A, Newman AB, Perls TT. Families Enriched for Exceptional Longevity
also have Increased Health-Span: Findings from the Long Life Family Study. Front Public Health. 2013;1:38. sequencing libraries. TED, EIR, LW, SJL, JHL, QZ, EWD, HJA, MAP analyzed and
interpreted data. TED, SJL, MAP drafted and revised the manuscript. sequencing libraries. TED, EIR, LW, SJL, JHL, QZ, EWD, HJA, MAP analyzed and
interpreted data. TED, SJL, MAP drafted and revised the manuscript. Received: 7 May 2015 Accepted: 4 April 2016 20. Ramos E, Levinson BT, Chasnoff S, Hughes A, Young AL, Thornton K, Li A,
Vallania FL, Province M, Druley TE. Population-based rare variant detection
via pooled exome or custom hybridization capture with or without
individual indexing. BMC Genomics. 2012;13:683. Author details
1 1Center for Genome Sciences and Systems Biology, Washington University
School of Medicine, 660 South Euclid Avenue, Campus Box 8116, St. Louis,
MO 63108, USA. 2Department of Pediatrics, Washington University School of
Medicine, 660 South Euclid Avenue, Campus Box 8116, St. Louis, MO 63108,
USA. 3Division of Statistical Genomics, Department of Genetics, Washington
University School of Medicine, St. Louis, MO, USA. 4Sergievsky Center, College
of Physicians and Surgeons, Columbia University New York, New York, NY,
USA. 5Taub Institute, College of Physicians and Surgeons, Columbia
University New York, New York, NY, USA. 6Department of Epidemiology,
School of Public Health, Columbia University New York, New York, NY, USA. 7Department of Laboratory Medicine and Pathology, University of Minnesota,
Minneapolis, MN, USA. 8Department of Epidemiology, University of
Pittsburgh Graduate School of Public Health, Pittsburgh, PA, USA. 9The
Danish Aging Research Center, Epidemiology, University of Southern
Denmark, Odense, Denmark. 10Gertrude H. Sergievsky Center and the Taub
Institute for Research on Alzheimer’s Disease and the Aging Brain, Columbia
University, New York City, NY, USA. 15. An P, Miljkovic I, Thyagarajan B, Kraja AT, Daw EW, Pankow JS, Selvin E, Kao WH,
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subjects: The Long Life Family Study (LLFS). Metabolism. 2013;63:461–8. 16. Lee JH, Cheng R, Honig LS, Feitosa M, Kammerer CM, Kang MS, Schupf N,
Lin SJ, Sanders JL, Bae H, et al. Genome wide association and linkage
analyses identified three loci-4q25, 17q23.2, and 10q11.21-associated with
variation in leukocyte telomere length: the Long Life Family Study. Front
Genet. 2013;4:310. 17. Wu J, Province MA, Coon H, Hunt SC, Eckfeldt JH, Arnett DK, Heiss G, Lewis
CE, Ellison RC, Rao DC, et al. An investigation of the effects of lipid-lowering
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JM, Turner ST, Hunt SC, Province MA, Rao DC. A summary of the effects of
antihypertensive medications on measured blood pressure. Am J Hypertens. 2005;18:935–42. Denmark, Odense, Denmark. 10Gertrude H. Sergievsky Center and the Taub
Institute for Research on Alzheimer’s Disease and the Aging Brain, Columbia
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method for grading the cognitive state of patients for the clinician. J Psychiatr Res. 1975;12:189–98. Author details
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A new method for interoperability between lexical
resources using MDA approach
Malek Lhioui, Kais Haddar, Laurent Romary Malek Lhioui, Kais Haddar, Laurent Romary To cite this version:
Malek Lhioui, Kais Haddar, Laurent Romary. A new method for interoperability between lexical
resources using MDA approach. AISI 2016 The 2nd International Conference on Advanced Intelligent
Systems and Informatics, Oct 2016, Cairo, Egypt. hal-01350524 To cite this version: Malek Lhioui, Kais Haddar, Laurent Romary. A new method for interoperability between lexical
resources using MDA approach. AISI 2016 The 2nd International Conference on Advanced Intelligent
Systems and Informatics, Oct 2016, Cairo, Egypt. hal-01350524 Distributed under a Creative Commons Attribution 4.0 International License HAL Id: hal-01350524
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abroad, or from public or private research centers. Distributed under a Creative Commons Attribution 4.0 International License A new method for interoperability between lexical
resources using MDA approach Abstract. Lexical resources are increasingly multiplatform due to the diverse
needs of linguists. Merging, comparing, finding correspondences and deducing
differences between these lexical resources remain difficult tasks. Thus, inte-
roperability between these resources is hard even impossible to achieve. In
this context, we establish a new method based on MDA approach to resolve
interoperability between lexical resources. The proposed method consists of
building common structure (OWL-DL ontology) for involved resources. This
common structure has the ability to communicate involved resources. Hence,
we may create a complex grid between involved resources allowing transfor-
mation from one format to another. We experiment our new built method on
an LMF lexicon. Keywords: lexical resources, interoperability, MDA approach, OWL ontology. Keywords: lexical resources, interoperability, MDA approach, OWL ontology. adfa, p. 1, 2011. © Springer-Verlag Berlin Heidelberg 2011 Introduction NLP Applications typically require interoperability because they generally need the
same linguistic resources. Exchanging information between lexical resources, having
different representation formalisms, is difficult. Thus, ancient resources may need to
change over time. In addition to that, the transformation process from one format to
another is not guaranteed all over the time. The built method allows constructing a
pivot format for involved lexical resources with no prior restriction. A challenge that
NLP communities confronts is the disappearing of several old representation formal-
isms after long periods of development. This method will easily protect several re-
sources from disappearing. So, several formalisms will continue to persist. Thus
projects, which require merging several formalisms in the same application, will pre-
fer to use our method. In fact, it allows using the number of formalisms one wants. We use MDA (Model Driven Architecture) transformation approach because of its
great interest in areas handling heterogeneous knowledge. In fact, if even a current
version of a used standard (LMF for example) is not yet stable or a new version is
born, MDA approach ensures enrichment and not destruction of the current version. Building a new method for interoperability between lexical resources may face
large problems. The first difficulty resides on how to choose an optimal strategy for
interoperability between these resources: algebraic specifications, alignment ontology
techniques, Meta modeling, etc. In addition to that, the choice of the ontology repre-
sentation language (RDF(S), OWL-Lite and OWL-DL) is also a crucial dilemma. In
addition to that, the construction of meta-models and models in MDA approach re-
quires a big cognition of the involved lexical resources. Moreover, transformation
rules have to be so definite. The paper presents a new method strictly founded to resolve interoperability be-
tween lexical resources (LRs) using the well-known MDA Transformation approach. Indeed, we attempt to find compulsory techniques in order to establish a method for
interoperability between lexical resources whatever their formats (LMF, TEI,
HPSG…). The method consists on building a pivot format by making an automatic
mapping process between involved lexical resources. The target building format plays
the role of the pivot. In order to build this pivot format, we have to succeed to fulfill a
set of steps. We construct OWL-DL ontology for lexical resources: construction of
meta-model associated to lexical resource, construction of the ATL transformation
and deduction of OWL-DL model. Introduction Thus, applying these steps, we build a new format
for involving lexical resources. The originality of this method is that there are no previous works aiming to make
interoperability between lexical resources operable. Moreover, the use of MDA ap-
proach for resolving interoperability between lexical resources is in itself an innova-
tion. Projects and NLP applications today must rely on interoperability; otherwise
they are out of progress. In this context, an article named TAUS (TAU, 2011) dec-
lares that: “The lack of interoperability costs the translation industry a fortune”. As a
matter of fact, this fortune is compensated mostly in order to adjust data formats. In
addition, our method is operable whatever the language. In the following sections, we introduce a brief state of the art in order to give a
global idea about existing works related to our topic. Then, we explain precisely our
proposed method for resolving the interoperability issue between lexical resources. We apply, in the next section, the new proposed method to LMF lexicon. Finally, we
conclude with a small discussion for the obtained results. 1 http://www.omg.org/mda/specs.htm 2.1
Lexical resources Lexical resources vary in accordance with the need of linguistics and this requirement
varies with the NLP community development progress. This process makes the re-
sources more complex and heterogeneous. In the literature, existing lexical resources
are innumerable. We can concentrate on some of them. In the 1980ies SGML markup
language was created as the first formalism representation of linguistic data. Early in
the following century, several markup languages have been invented by the Text En-
coding Initiative (TEI) (Wörner et al., 2006). After years and exactly in 2003, a new
standard named LMF was born due to efforts provided by the community of NLP
(Francopolou, 2013). Speech is one of the several areas of NLP domain. This area
includes several representation formalisms as well as the other areas. For example,
EXMARaLDA is one of these formalisms. It represents spoken interaction with an
annotation graph (Bird & Lieberman, 1999). Other formalisms in this context was
born such as ELAN, TASX, Praat and ANVIL. They are efficient for multimodal
annotation. In the same context, there are formalisms that include several heterogene-
ous resource structures. The well known example for that is Tusnelda. It is inspired
typically from the work of TEI (Wagner and Zeisler, 2004). There are other formal-
isms which take care of various linguistic levels (phonology, morphology, syntax,
semantic, etc.) (Ide and Romary, 2001). Thus, from an historical point of view, there
is a large number of heterogeneous resources which inducing the question of trans-
formation. This notion is the subject of the next subsection. State of the art The state of the art provides an important idea about existing works regardless of
the language. There have been several works dealing with the use of MDA transfor-
mation approach for the processing of several applications. However, there is no use
of the MDA approach for the processing of interoperability between lexical resources. Yet, this approach ensures interoperability according to the OMG “Portability and
interoperability are built into the architecture”1. Since there are many related topics,
we classify the state of the art into three main parts: lexical resources, MDA Trans-
formation and interoperability issue. The first part gives an idea about existing lexical
resources regardless the language. We give examples of lexical resources in several
languages such as Arabic. In the second part, we talk about MDA as a great method
for transformation models. The last part deals with interoperability issue, and since
there are no serious attempts to resolve this notion in NLP area, we will discuss the
bidirectional mapping from one format to another. 2.3
Interoperability issue Interoperability is the substitution, merging and sharing knowledge between differ-
ent entities whatever their kind. NLP community replaces these terms by only one
term which is communication. Thus, interoperability allows communication between
involved entities. Interoperability is a general notion that can be projected to many
domains. In this paper, we interested to interoperability between lexical resources. Lexical resources are more and more multiplatform, multi-providers… and these cha-
racteristics are increased by the time, so that, interoperability becomes hard even im-
practical to achieve between lexical resources. These last suffer from several interope-
rability issues. For example the definition of procedures to implement a set of services
in NLP applications (machine translation, named entity recognition, part of speech
tagging) shall be made through LMF by ISO, TEI by TEI Consortium and HPSG by
linguistics… This leads to interoperability problems when experts have to collaborate. Thus, information technology professionals consider that interoperability is an impor-
tant criterion as well as security and reliability in their applications. y
y
pp
From an historical point of view, there are no significant efforts resolving interopera-
bility between lexical resources. Yet, there are several challenges consisting on map-
ping from one format to another. The first mapping attempt is done by (Wilcock,
2007) consisting on converting HPSG lexicons to an OWL ontology. In 2010, Loukil
has expanded these processes by inventing a rule-based system opting to translate
LMF syntactic lexicon into TDL within the LKB platform (Loukil et al., 2010). (Had-
dar et al, 2012) have developed a prototype for projection HPSG syntactic lexica to-
wards LMF. In the same context, there is a mapping process already done by (Lhioui
et al., 2015) aiming to convert LMF lexicons to ontologies described on OWL-DL
language. Bidirectional processes are usually limited to involved formats. Whatever
we desire to involve more than two formalisms, processing became hard and impossi-
ble to achieve even if we use several properties such as transitivity. For these reasons
and in order to attenuate task complexity of mapping process, several organizations
such as ISO give a quick solution but not efficient for interoperability using normali-
zation. In fact, Lexical Markup Framework (LMF) is one of these solutions proposed
by the ISO in 2003 (Francpolou, 2013). It involves several packages aiming to cover
the maximum of the large domains: phonology, morphology, syntactic, semantic,
pragmatic, etc. 2 Gold is accessible and free downloadable from (http://www.linguistics-ontology.org/) 2.2
MDA Transformation MDA Transformation is an approach proposed by OMG (Poole, 2001) in 2001. It is
increasingly used in several applications and projects whatever their kind. It consists
on using different models phases. It allows interoperability between applications by
connecting their models (Accord, 2002). It supported evaluation and decreased ma-
nually implementation of hundred of codes for a specific domain by separating con-
ception from implementation (Miller and Mukerji, 2001). The implementation of
MDA requires three main levels: MOF (Meta-Object Facility) defines the platform for
implanting all models (OMG/MOF, 1997). PIM (Plateform Independant Model)
which serves as a basis for the business part specification of an application, PSM
(Plateform Specific Model) which participates in the specification model creation of
the application after projection on a platform. The major advantage of this approach
apart from time saving is preoccupations separation and the transformation process. This transformation allows mapping from PIMs to PSMs using modules described in
specific languages such as ATL. ATL (Atlas Transformation Language) is a language
providing rules allowing transformation from source to target models. Since this ap-
proach allows interoperability between applications, it leads us to think about making
evident interoperability between models. Thus, we introduce in the following subsec-
tion interoperability notion in general. 2.3
Interoperability issue Other researchers have used another tool for resolving interoperability
which is ontologies. A famous example of these works is the General Ontology for
Linguistic Description (GOLD)2. GOLD is an OWL ontology having specific know-
ledge related to linguistic domain. The GOLD ontology contains the basis linguistic
knowledge of any theoretical framework. According to (Farrar and Lewis, 2005),
GOLD defines linguistic knowledge as axioms, for example “a verb is a part of
speech”, and uses at the same time language neutral, for example “parts of speech are
subclasses of gold: GrammaticalUnit”. The classes are presented in the protégée edi-
tor and then expressed as concepts in the GOLD ontology (Farrar and Langendoen,
2003). Thus, GOLD is an abstract model and representation formalisms such as HPSG are the instantiation of this abstract model. (Farrar and Lewis, 2005) consider
these instantiations as sub-communities of practice noted Communities Of Practice
Extension (COPEs). COPEs, sub-communities or sub-ontologies designed the same
nomenclature and extend the overall GOLD ontology (Wilcock, 2007). The integra-
tion of these COPEs in the GOLD ontology is a hard process and necessitates differ-
ent mechanisms of ontology alignment. In the next subsection, we try to give an idea
for techniques of ontologies alignment. All these notions will be strongly correlated to introduce our approach. In the follow-
ing section, we define a new approach for interoperability between lexical resources
using MDA Transformation. Proposed method The new build method is based on MDA Transformation approach. This approach is
well-known and has proved its importance in guaranteeing reusability. This characte-
ristic is crucial since it makes projects up to date. The proposed method is characte-
rized by the ability to allow involved lexical resources to operate together. The new
introduced method has as input a set of lexical resources. Lexical resources are com-
posed of a set of lexicons such as LMF lexicon. It consists of three main steps. The
first one is the achievement of the two independent models PIM (source and target)
and the source PSM of each LR. The second is the achievement of the transformation
module in ATL and finally, the generation of the specific model PSM (OWL-DL in
our case). The output of the proposed method is a set of ontologies which can operate
together using several algorithms or free tools of alignment. In fact, the use of ontolo-
gies as an output is the keystone of our method. Ontology structures allow merging,
comparing, finding correspondences, finding correspondences and deducing differ-
ences between lexical resources due to the tools of ontology alignment. Fig. 1 de-
scribes the whole process of the proposed method. Fig. 1. Steps of the proposed method
LRs
Achievement of the two independent models PIM
(source and target) and source PSM
Achievement of the transformation module in ATL
Generation of the specific model PSM (OWL-DL)
Retro-Engineering
Refinement
Refinement
MDA Transformation
OWL-DL ontologies Fig. 1. Steps of the proposed method The full schema of the proposed method will be explained carefully by examination
of each step separately. In fact, MDA Transformation of the LRs to OWL ontologies
is a crucial step in our method. The main idea of this step is to distinguish functional
specifications from specifications of implementation related to a given platform in
order to prepare structures able to operate together (in our case ontologies able to be
aligned and then interacted). Thus, using MDA as an approach will make us able to
elaborate independent specifications from the implementation in a specific platform
using models. The first model to build is the PIM. The PIM is the model conceived to
specify involved structures independently from any specific platform. This characte-
ristic allows us abstracting functionalities of the involved lexical resource and to
compare it to other resources. Proposed method If the lexical resource is updated, the associated PIM
will never be destroyed, but, it will be refined as many times as possible; this makes
one of the most advantages of the MDA approach when resolving interoperability
issue. Fig. 2 summarized the MDA Transformation in general: Fig. 2. : MDA Transformation of the LRs to OWL ontologies
MOF
MMS
ATL
MMT
MMS2MMT.atl
MS
MT Fig. 2. : MDA Transformation of the LRs to OWL ontologies Fig. 2 describes the ATL transformation in the MDA approach. MOF is the meta-
meta model. MMS and MMT designate respectively the meta-model source and the
meta-model target. MS and MT denote respectively model source and model target. MMS2MMT.atl includes the set of transformation rules. This method is composed of
three sub-steps as we have mentioned below: Achievement of the two independent
models PIM (source and target) of each LR, the achievement of the transformation
module in ATL and the generation of the specific model PSM (OWL-DL in our case). Fig. 2 describes the ATL transformation in the MDA approach. MOF is the meta-
meta model. MMS and MMT designate respectively the meta-model source and the
meta-model target. MS and MT denote respectively model source and model target. MMS2MMT.atl includes the set of transformation rules. This method is composed of
three sub-steps as we have mentioned below: Achievement of the two independent
models PIM (source and target) of each LR, the achievement of the transformation
module in ATL and the generation of the specific model PSM (OWL-DL in our case). 3.3
Generation of the specific model PSM (OWL-DL). After achievement of the PIM model (source and target) and elaborating rules allow-
ing the passage from the source PIM to the target, we project the source PIM to a
specific model PSM (Platform Specific Model). In order to generate the target PSM,
we execute the ATL rules, then, we obtain automatically the target PSM. In fact, PSM
is closest to the final code. It is related to a particular platform. 3.1
Achievement of the two independent models PIM (source and target)
of each LR and source PSM The achievement of the first independent model PIM of the source is concluded from
the lexical resource. PIM is a model independent to any plateformes or technologies
and describes the heart of the method. It is represented in UML (Unified Modeling
Language) with OCL (Object Constraint Language) constraints if exist. This model
defines all functionalities of the given lexical resource described in an abstract man-
ner. The PIM model ensures analysis and design of applications. At this step, the de- sign phase of the process involves the application of design pattern, partition into
modules and sub-modules, etc. This PIM allows making available a structural and
dynamic vision of the application without recourse to the technical design of the ap-
plication. Therefore, a model (in our case the PIM) is essentially defined by a set of
concepts and their relationships presented in a class diagram. 3.2
Achievement of the transformation module in ATL The achievement of the transformation module in ATL ensures transition from one
model (source) to another (target). Modules transformations based on meta-models
constitute the main step of the MDA. In fact, a transformation model corresponds to a
function taking a set of input models and finding a set of output models. The models,
in and out, respect their meta-models previously built. The transformation uses the
model manipulation API. In order to carry out the transformation between the two
involved models, we define a set of transformation rules which are expressed in ATL
language allowing the passage from the source PIM to the target. There are three dif-
ferent manners to model transformation in general: programming approach, template
approach and modeling approach. The first one is based on object-oriented languages. It is to program a transformation model as well as a computer application. The second
consists to define templates models and then replace them with their equivalent values
in source models. The last one models transformation rules using MDA approach. Implantation: Transformation of LMF lexicon to OWL-DL
ontology using MDA approach Then, we define the set of transformation rules: module LMF2OWL;
create OUT : OWL from IN : LMF;
-----------------------------Ontology-----------------------------------
rule LexicalResource2Ontology{
from s:LMF!LexicalResource
to
t:OWL!Ontology(ontologyIRI <-),d:OWL!Prefix(name<-'rdf',
IRI<-'http://www.w3.org/1999/02/22-rdf-syntax-ns#'),
u:OWL!Prefix(name<-'rdfs',
IRI<-'http://www.w3.org/2000/01/rdf-schema#'),
h:OWL!Declaration(),
g:OWL!Class(IRI <- '#LexicalResource',declaration <- h)}
rule GlobalInformation2DeclarationClass{
from s:LMF!GlobalInformation module LMF2OWL;
create OUT : OWL from IN : LMF;
-----------------------------Ontology-----------------------------------
rule LexicalResource2Ontology{
from s:LMF!LexicalResource
to
t:OWL!Ontology(ontologyIRI <-),d:OWL!Prefix(name<-'rdf',
IRI<-'http://www.w3.org/1999/02/22-rdf-syntax-ns#'),
u:OWL!Prefix(name<-'rdfs',
IRI<-'http://www.w3.org/2000/01/rdf-schema#'),
h:OWL!Declaration(),
g:OWL!Class(IRI <- '#LexicalResource',declaration <- h)}
rule GlobalInformation2DeclarationClass{
from s:LMF!GlobalInformation module LMF2OWL;
create OUT : OWL from IN : LMF;
-----------------------------Ontology-----------------------------------
rule LexicalResource2Ontology{
from s:LMF!LexicalResource
to
t:OWL!Ontology(ontologyIRI <-),d:OWL!Prefix(name<-'rdf',
IRI<-'http://www.w3.org/1999/02/22-rdf-syntax-ns#'),
u:OWL!Prefix(name<-'rdfs',
IRI<-'http://www.w3.org/2000/01/rdf-schema#'),
h:OWL!Declaration(),
g:OWL!Class(IRI <- '#LexicalResource',declaration <- h)}
rule GlobalInformation2DeclarationClass{
from s:LMF!GlobalInformation to t:OWL!Declaration(),
g:OWL!Class(IRI <- '#GlobalInformation', declaration <- t) g:OWL!Class(IRI < #GlobalInformation , declaration
}
rule Lexicon2DeclarationClass{
from o:LMF!Lexicon
to p:OWL!Declaration(),
i:OWL!Class(IRI <- '#Lexicon', declaration <- p)
}
rule LexicalEntry2DeclarationClass{
from k:LMF!LexicalEntry
to n:OWL!Declaration(),
j:OWL!Class(IRI <- '#LexicalEntry', declaration <- n)
} }
rule Lexicon2DeclarationClass{
from o:LMF!Lexicon
to p:OWL!Declaration(),
i:OWL!Class(IRI <- '#Lexicon', declaration <- p)
} These transformation rules create an OWL PSM for the LMF lexicon of Fig. 2 which
is an ontology described in OWL language. These rules are stored in an ATL file. Finally, fig. 4 represents this target PSM created automatically when executing the
ATL file of the LMF Lexicon presented in Fig. 2: <?xml version
1.0 encoding
ISO 8859 1 ?>
<xmi:XMI
xmi:version="2.0"
xmlns:xmi="http://www.omg.org/XMI"
xmlns="owl">
<Ontology
ontologyI-
RI="http://www.semanticweb.org/asus/ontologies/2016/2/"/> <Prefix name="rdf" IRI="http://www.w3.org/1999/02/22-
rdf-syntax-ns#"/> <Prefix name="rdfs" IRI="http://www.w3.org/2000/01/rdf-schema#"/> This output describes an ontology which is created automatically by a quick
processing of the output of PSM. The processing consists of the removal of the “xmi”
prefix since it is an automatic output of the ATL transformation. Implantation: Transformation of LMF lexicon to OWL-DL
ontology using MDA approach In this section, we present the steps of the cited method applied to LMF lexicon: the
two PIMs (source: LMF, target: OWL), the transformation rules and the two PSMs. Fig. 3 represents the source PIM of the core model of the following extract of LMF
lexicon developed using Eclipse Galileo: lexicon developed using Eclipse Galileo:
<?xml version="1.0" encoding="UTF-8"?>
<LexicalResource dtdVersion="16">
<GlobalInformation>
<feat att="languageCoding" val="ISO 639-3" />
<feat att="scriptcoding" val="ISO 15 924" />
</GlobalInformation>
<Lexicon>
<feat att="language" val="arabic" />
<LexicalEntry morphologiquePatterns="ل
ر م
دّي
">
<feat att="partOfSpeech" val="verb" />
<feat att="root" val="ن_ق_ل
" />
<feat att="scheme" val=" َ"ََل />
</LexicalEntry>
</Lexicon>
</LexicalResource> <Lexicon>
<feat att="language" val="arabic" />
<LexicalEntry morphologiquePatterns="ل
ر م
دّي
">
<feat att="partOfSpeech" val="verb" />
<feat att="root" val="ن_ق_ل
" />
<feat att="scheme" val=" َ"ََل />
</LexicalEntry>
</Lexicon>
</LexicalResource> Fig. 3. The associated source PIM of the below extract of LMF lexicon Fig. 3. The associated source PIM of the below extract of LMF lexicon The build PIM can be refined as well as possible if the lexical resource (LMF lexicon)
is updated. After building the source model, we have now obliged to build the target
PIM of this lexical resource. Since we need to construct OWL-DL ontologies, we
build a PIM for OWL-DL ontologies. Fig. 4 represents the target PIM for the previous
lexical resource (LMF lexicon): Fig. 4. The associated target PIM of the below extract of LMF lexicon Fig. 4. The associated target PIM of the below extract of LMF lexicon Fig. 4 defines the independent model of OWL ontologies which is related to the given
lexical resource. It represents the class “Ontology” which presents the root, the pre-
fixes which are used to abbreviate and minimize scripture of the namespaces in the
entire ontology. Conclusion In this paper, we have proposed a new method for interoperability between interope-
rability using MDA approach. This new method allows merging, comparing, finding
correspondences, finding correspondences and deducing differences between lexical
resources. Then, we implement the method by projection on LMF. Our method is
reusable and generic, and operable on all lexical resources whatever the language. Our method is generated automatically. In future works, we have to extend our me-
thod using the alignment of the building ontologies. In fact, if we combine MDA
Transformation and ontology alignment, interoperability appears to be quite suitable. Therefore, combining these two approach MDA Transformation and ontology align-
ment for this study seems to have promising results. In this paper, we have proposed a new method for interoperability between interope-
rability using MDA approach. This new method allows merging, comparing, finding
correspondences, finding correspondences and deducing differences between lexical
resources. Then, we implement the method by projection on LMF. Our method is
reusable and generic, and operable on all lexical resources whatever the language. Our method is generated automatically. In future works, we have to extend our me-
thod using the alignment of the building ontologies. In fact, if we combine MDA
Transformation and ontology alignment, interoperability appears to be quite suitable. Therefore, combining these two approach MDA Transformation and ontology align-
ment for this study seems to have promising results. Discussions The new built method has proved its interest in handling heterogeneous resources. The evaluation process has been successfully led by fixing three criterions: sustaina-
bility of expertise, productivity gains and inclusion of execution platforms. The first
criterion (sustainability of expertise) affects two characteristics. The first one super-
vises lifetime of the built models (PIM and PSM). The models must have a lifetime
greater than the code. This is guaranteed by the unrestricted refinement of models. The second characteristic provides modeling languages supporting different levels of
abstraction. This point is guaranteed by the fact that UML and OCL support abstrac-
tion. The second criterion concerns productivity gains. In fact, the automation opera-
tions of models guarantee the productivity gain. Moreover, the built method facilitates
the creation of operations of production on the models. The last criterion concerns the
taking into account of the execution platforms. This stage is explicit in the life cycle
of applications. MDA approach guarantees this characteristic as platforms are related
to models. These aspects make the method very robust. The other important aspect in
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Compositional differences in gastrointestinal microbiota in prostate cancer patients treated with androgen axis-targeted therapies
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Prostate cancer and prostatic diseases
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Abstract Further analysis identified significant compositional differences in the GI microbiota of men taking ATT,
including a greater abundance of species previously linked to response to anti-PD-1 immunotherapy such as Akkermansia
muciniphila and Ruminococcaceae spp. In functional analyses, we found an enriched representation of bacterial gene
pathways involved in steroid biosynthesis and steroid hormone biosynthesis in the fecal microbiota of men taking oral ATT. Conclusions There are measurable differences in the GI microbiota of men receiving oral ATT. We speculate that oral
hormonal therapies for prostate cancer may alter the GI microbiota, influence clinical responses to ATT, and/or potentially
modulate the antitumor effects of future therapies including immunotherapy. Given our findings, larger, longitudinal studies
are warranted. Compositional differences in gastrointestinal microbiota in prostate
cancer patients treated with androgen axis-targeted therapies
Karen S. Sfanos
1,2,3
●Mark C. Markowski2
●Lauren B. Peiffer1,4
●Sarah E. Ernst1
●James R. White5
●
Kenneth J. Pienta
3
●Emmanuel S. Antonarakis2,3
●Ashley E. Ross3,6 Received: 1 March 2018 / Revised: 17 April 2018 / Accepted: 20 April 2018 / Published online: 9 July 2018
© The Author(s) 2018. This article is published with open access Prostate Cancer and Prostatic Diseases (2018) 21:539–548
https://doi.org/10.1038/s41391-018-0061-x Prostate Cancer and Prostatic Diseases (2018) 21:539–548
https://doi.org/10.1038/s41391-018-0061-x ARTICLE ARTICLE ARTICLE Introduction These authors contributed equally: Emmanuel S. Antonarakis, Ashley
E. Ross. These authors contributed equally: Emmanuel S. Antonarakis, Ashley
E. Ross. The gastrointestinal (GI) microbiota are known to influence
the metabolism, pharmacokinetics, and toxicity of many drugs
and xenobiotics [1], yet there are few mechanistic studies
exploring this effect in relation to cancer therapies. Several
compelling examples have emerged providing insight into the
relationship between human-associated microbiota and cancer
treatment. The bacterium Mycoplasma hyorhinis and species
of Proteobacteria, when present within a tumor, may meta-
bolize the chemotherapy drug, gemcitabine, into a deaminated
inactive metabolite [2], resulting in drug resistance [3]. β-glucuronidases produced by bacterial species in the GI tract
can reactivate the excreted, inactive metabolite of the
topoisomerase I inhibitor, irinotecan, causing adverse drug
toxicities, including severe diarrhea [4]. Likewise, although
the mechanism is not fully understood, there is emerging
evidence that the GI microbiota can influence the efficacy of
immunotherapy [5–11]. Electronic supplementary material The online version of this article
(https://doi.org/10.1038/s41391-018-0061-x) contains supplementary
material, which is available to authorized users. Abstract Background It is well known that the gastrointestinal (GI) microbiota can influence the metabolism, pharmacokinetics, and
toxicity of cancer therapies. Conversely, the effect of cancer treatments on the composition of the GI microbiota is poorly
understood. We hypothesized that oral androgen receptor axis-targeted therapies (ATT), including bicalutamide, enzaluta-
mide, and abiraterone acetate, may be associated with compositional differences in the GI microbiota. Background It is well known that the gastrointestinal (GI) microbiota can influence the metabolism, pharmacokinetics, and
toxicity of cancer therapies. Conversely, the effect of cancer treatments on the composition of the GI microbiota is poorly
understood. We hypothesized that oral androgen receptor axis-targeted therapies (ATT), including bicalutamide, enzaluta-
mide, and abiraterone acetate, may be associated with compositional differences in the GI microbiota. Methods We profiled the fecal microbiota in a cross-sectional study of 30 patients that included healthy male volunteers and
men with different clinical states of prostate cancer (i.e., localized, biochemically recurrent, and metastatic disease) using
16S rDNA amplicon sequencing. Functional inference of identified taxa was performed using PICRUSt. Results We report a significant difference in alpha diversity in GI microbiota among men with versus without a prostate
cancer diagnosis. Further analysis identified significant compositional differences in the GI microbiota of men taking ATT,
including a greater abundance of species previously linked to response to anti-PD-1 immunotherapy such as Akkermansia
muciniphila and Ruminococcaceae spp. In functional analyses, we found an enriched representation of bacterial gene
pathways involved in steroid biosynthesis and steroid hormone biosynthesis in the fecal microbiota of men taking oral ATT. Conclusions There are measurable differences in the GI microbiota of men receiving oral ATT. We speculate that oral
hormonal therapies for prostate cancer may alter the GI microbiota, influence clinical responses to ATT, and/or potentially
modulate the antitumor effects of future therapies including immunotherapy. Given our findings, larger, longitudinal studies
are warranted. Methods We profiled the fecal microbiota in a cross-sectional study of 30 patients that included healthy male volunteers and
men with different clinical states of prostate cancer (i.e., localized, biochemically recurrent, and metastatic disease) using
16S rDNA amplicon sequencing. Functional inference of identified taxa was performed using PICRUSt. Results We report a significant difference in alpha diversity in GI microbiota among men with versus without a prostate
cancer diagnosis. Sample collection and DNA isolation The rectal swab procedure is detailed in the Supplemental
Methods. Rectal swabs were immediately stored at −80 °C
until DNA isolation. The investigators were blinded to
group allocation until after all sequencing was completed. Swab contents were resuspended in 500 μl of 1× PBS and
DNA was extracted with a phenol:chloroform method that
incorporates multiple enzyme digest and bead beating as
previously described [18]. A total of 16 “mock” (500 μl 1×
PBS as starting material) DNA extractions were performed
to control for contamination from DNA extraction through
the full amplification and sequencing pipeline. Study design and patient population Specimens were obtained under a Johns Hopkins Medicine
Institutional Review Board approved protocol with written
informed consent. Rectal swabs from 30 patients were
collected during routine Urology or Medical Oncology
outpatient clinic visits at the Johns Hopkins Hospital and
Sydney Kimmel Comprehensive Cancer Center. Patients
who were currently taking an antibiotic were excluded. Patients designated as “controls” were being followed in the
Urology clinic primarily for benign prostatic hyperplasia. Importantly, since the control patients did not undergo
prostate biopsy, they cannot be definitively defined as
cancer free. Men categorized as “benign” were being
evaluated for suspicion of prostate cancer, but subsequently
had a negative biopsy. For the benign group, the rectal swab
was collected at the evaluation clinic visit, which was prior
to the patient taking prophylactic antibiotics for the biopsy. For the seven men in the “cancer” group, three had swabs
taken 1–2 months prior to their diagnostic biopsy, one had
their swab taken 1 month after diagnostic biopsy, and three
men had swabs taken >6 months after prior biopsy. For the
purposes of our medication analyses, the designation
“NoMeds”
indicated
men
who
were not
undergoing
androgen derivation therapy (ADT), “GNRH” were men
only being treated with a gonadotropin-releasing hormone
(GNRH) agonist/antagonist, and “oral ATT” were men
being treated with oral androgen receptor axis-targeted
therapies. The relationship between the GI microbiota and cancer
therapies in men with prostate cancer is underexplored. There is, however, compelling evidence that the GI
microbiome is involved in multiple-related processes such
as modulation of circulating hormone levels [12, 13], sti-
mulation of antitumor immune responses [5, 6, 8], and
induction
of
treatment-related
toxicities
(including
immunotherapy-induced colitis [14] and radiation-induced
bowel toxicity [15]), and/or morbidities including devel-
opment of metabolic syndrome [16, 17]. Animal studies
suggest that the GI microbiota may also be affected by
circulating androgen levels [12, 13] and castration [16]. We
hypothesize that hormonal therapy, particularly oral for-
mulations of androgen axis-targeted drugs, used in the
treatment of prostate cancer may promote changes in the GI
microbiota. In this exploratory study, we determined com-
positional differences in GI microbiota in (1) men with and
without prostate cancer and (2) men with localized prostate
cancer, biochemical recurrence after primary treatment, and
hormone-sensitive or castration-resistant metastatic disease. We also examined the relationship between GI microbiota
composition and androgen deprivation therapies, with a
focus on orally administered androgen receptor axis-
targeted therapies (ATT). Patients and methods Recent studies in animal models have demonstrated that
intestinal microbiota are essential for therapeutic efficacy of
agents such as cyclophosphamide [7], platinum che-
motherapy [6], and both anti-CTLA-4 [5] and anti-PD-L1
[8]
immunotherapies. Eradication
of
the
commensal
intestinal flora by antibiotic treatment or via use of germ-
free mice eliminates therapeutic efficacy of these agents
in different tumor models. A study in a melanoma model
showed
that
the
therapeutic
benefit
of
anti-PD-L1
immunotherapy could be bolstered by feeding animals
a strain of Bifidobacterium—a species commonly used
in probiotic supplements—prior to initiating therapy [8]. Three recent human studies, two in melanoma patients [9,
11] and one in patients with epithelial tumors [10],
reported
that
the
presence
of
certain
types
of
bacteria including Ruminococcaceae, Bifidobacteriaceae,
and
Akkermansia
muciniphila
are
associated
with
response to anti-PD-1 immunotherapy. Fecal microbial
transplant from human donors that were responders to
anti-PD-1 immunotherapy into germ-free mouse allograft
tumor models conferred antitumor efficacy of anti-PD-1
immunotherapy versus fecal samples transplanted from
non-responders [9–11]. Collectively, these studies indicate
that members of the intestinal microbiome may be essential
for cancer drug efficacy and that modulating intestinal
microbiome
composition
may
enhance
therapeutic
response. * Karen S. Sfanos
ksfanos@jhmi.edu 1
Department of Pathology, Johns Hopkins University School of
Medicine, Baltimore, MD, USA 2
Sidney Kimmel Comprehensive Cancer Center, Baltimore, MD,
USA 3
Department of Urology, James Buchanan Brady Urological
Institute, Johns Hopkins University School of Medicine,
Baltimore, MD, USA 4
Department of Molecular and Comparative Pathobiology, Johns
Hopkins University School of Medicine, Baltimore, MD, USA 5
Resphera Biosciences, Baltimore, MD, USA 5
Resphera Biosciences, Baltimore, MD, USA 6
Present address: Texas Urology Specialists, Dallas, TX, USA 540 K. S. Sfanos et al. Patients and methods 16S rDNA gene library generation, HiSeq
sequencing, and analysis Details of the sequencing and analysis can be found in
the Supplemental Methods. Table 1 Clinical details of the
men included in the study as
well as the type of ATT
administered at the time of
sample collection
No. of
patients
Mean age
(range, years)
Mean PSA
(range, ng/mL)
Race (no. of patients)a
Status
Control
6
68 (52–80)
5.1 (0.4–20.7)
B (1) W (5)
Benign
3
70 (64–78)
7.3 (4.4–10.1)
B (2) W (1)
Localized cancer
7
60.1 (53–71)
8.4 (3.8–13.5)
B (1) W (6)
Biochemical recurrence
7
64.4 (54–72)
2.4 (0–5.6)
B (1) W (6)
Metastatic hormone-sensitive 2
58 (51–65)
0.25 (0.2–0.3)
W (2)
Metastatic castration-resistant 5
74 (64–85)
8.7 (0–24.5)
W (5)
Medication
Mean BMI (range, kg/
m2)
NoMeds
16
64.1 (52–80)
6.6 (0.4–20.7)
28.05 (19.73–41.80)
GNRH agonist/antagonist
5
64.8 (54–69)
4.6 (0–13.2)
28.66 (22.05–37.67)
Oral ATT
9
69.7 (51–85)
4.9 (0–24.5)
27.25 (21.45–32.07)
NoMeds not on ADT, ATT androgen axis-targeted therapy
aSelf-reported as black (B) or white (W). No other races included
Compositional differences in gastrointestinal microbiota in prostate cancer patients treated with. . . 541 Compositional differences in gastrointestinal microbiota in prostate cancer patients treated with. . . 541 No. of
patients
Mean age
(range, years)
Mean PSA
(range, ng/mL)
Race (no. of patients)a
Status
Control
6
68 (52–80)
5.1 (0.4–20.7)
B (1) W (5)
Benign
3
70 (64–78)
7.3 (4.4–10.1)
B (2) W (1)
Localized cancer
7
60.1 (53–71)
8.4 (3.8–13.5)
B (1) W (6)
Biochemical recurrence
7
64.4 (54–72)
2.4 (0–5.6)
B (1) W (6)
Metastatic hormone-sensitive 2
58 (51–65)
0.25 (0.2–0.3)
W (2)
Metastatic castration-resistant 5
74 (64–85)
8.7 (0–24.5)
W (5)
Medication
Mean BMI (range, kg/
m2)
NoMeds
16
64.1 (52–80)
6.6 (0.4–20.7)
28.05 (19.73–41.80)
GNRH agonist/antagonist
5
64.8 (54–69)
4.6 (0–13.2)
28.66 (22.05–37.67)
Oral ATT
9
69.7 (51–85)
4.9 (0–24.5)
27.25 (21.45–32.07)
NoMeds not on ADT, ATT androgen axis-targeted therapy
aSelf-reported as black (B) or white (W). No other races included Table 1 Clinical details of the
men included in the study as
well as the type of ATT
administered at the time of
sample collection Differences in GI taxonomic profiles by disease
status and medication After
contaminant
removal,
random
subsampling
to
80,000
sequences
per
sample
was
performed
to
provide even coverage prior to downstream statistical
comparisons
(rationale
for
subsampling
described
in
ref. [19]). Differential abundance analysis was performed
using the negative binomial test implemented in the
DESeq R package. P values were adjusted for multiple
hypothesis testing using the false discovery rate (FDR). Beta diversity analysis, including Bray-Curtis and UniFrac
distance computation and principal coordinates analysis
(PCoA), was performed in QIIME. Statistical comparisons
of
alpha
diversity
utilized
generalized
linear
models
(GLMs) and evaluated three different underlying response
variable family distributions (Gaussian, Log-Normal, and
Gamma). We characterized the bacterial composition of fecal samples
from 30 men (n = 6 control, n = 3 benign (negative biopsy),
n = 7 with localized prostate cancer, n = 7 with biochemi-
cally recurrent prostate cancer, and n = 7 with metastatic
prostate cancer). Table 1 contains the clinical details of the
men included in the study as well as the type of ATT
administered at the time of sample collection. Most of the
men included in this study were Caucasian (White) and,
importantly, there was no statistical difference in patient age
or body mass index (BMI) among the medication groups (p
= 0.4 and p = 0.9, respectively, Kruskal–Wallis test). A
complete list of all medications and supplements that the
men were taking at the time of sample collection is provided
in Supplementary Table S1. Akkermansia muciniphila quantitative PCR Of interest, one patient in the
recurrence group who had not yet started on ADT at the
time of sample collection grouped with the “No ADT”
samples (Fig. 1). In PCoA (a measure of relatedness
between samples), we observed that samples from men
undergoing ADT grouped separately from men who were
not undergoing ADT (Fig. 2a). This was particularly pro-
nounced for men taking oral ATT (Fig. 2b). Of interest,
men with prostate cancer (localized, biochemically recur-
rent, or metastatic groups) separated distinctly from men
without cancer (control and benign groups) in PCoA
(Fig. 2c), a result that was also statistically significant in
PERMANOVA (Adonis) model testing (p = 0.02). The
between-sample distances (beta diversity) were smallest
within the oral ATT group compared to the GNRH and
NoMeds groups, meaning that the species profiles among
the fecal samples within the oral ATT group were most
similar to each other, and that a specific taxon or taxa dis-
tinguish them from the other groups (Fig. 2d). The greatest
beta diversity was observed between the NoMeds group and versus cancer, Fig. 1). Of interest, one patient in the
recurrence group who had not yet started on ADT at the
time of sample collection grouped with the “No ADT”
samples (Fig. 1). In PCoA (a measure of relatedness
between samples), we observed that samples from men
undergoing ADT grouped separately from men who were
not undergoing ADT (Fig. 2a). This was particularly pro-
nounced for men taking oral ATT (Fig. 2b). Of interest,
men with prostate cancer (localized, biochemically recur-
rent, or metastatic groups) separated distinctly from men
without cancer (control and benign groups) in PCoA
(Fig. 2c), a result that was also statistically significant in
PERMANOVA (Adonis) model testing (p = 0.02). The
between-sample distances (beta diversity) were smallest
within the oral ATT group compared to the GNRH and
NoMeds groups, meaning that the species profiles among
the fecal samples within the oral ATT group were most
similar to each other, and that a specific taxon or taxa dis-
tinguish them from the other groups (Fig. 2d). The greatest
beta diversity was observed between the NoMeds group and Akkermansia muciniphila quantitative PCR The taxonomic profiles of each sample are depicted in
Supplemental Figure S1. There was a significant difference
in alpha diversity in samples from men with versus without
prostate cancer, irrespective of medication status (p < 0.05
using multiple statistical models and measures of alpha
diversity, Supplementary Table S2), meaning that the total
number of species (or species “richness”) and the presence
of rare individual species was greater in men without a
prostate cancer diagnosis than in men with cancer. No
significant differences in alpha diversity by medication
status were observed (Supplementary Table S3). A. muciniphila genomic DNA was obtained from the
American Type Culture Collection (BAA-835D-5) to
develop a standard curve for quantitative PCR (qPCR). The
A. muciniphila species-specific primer set was used as fol-
lows, Forward primer: 5′-CAGCACGTGAAGGTGGG-
GAC-3′, Reverse primer: 5′-CCTTGCGGTTGGCTTCAG
AT-3′. The total estimated copies of A. muciniphila in each
fecal sample were determined using this assay relative to the
total number of estimated 16S rDNA copies assayed by
qPCR using the universal 16S primer set that was also used
for Illumina amplicon sequencing: Forward primer: 5′-
CAACGCGWRGAACCTTACC-3′ and Reverse primer:
5′-CRRCACGAGCTGACGAC-3′. Comparison of taxonomic profiles indicated clustering
that associated with medication status (ADT versus no
ADT), but not with respect to cancer status (no cancer K. S. Sfanos et al. 542 Fig. 1 Unsupervised clustering (log-transformed) of 16S rDNA
Illumina-sequencing results from fecal samples by genus. The den-
drogram was based on hierarchical clustering of the Euclidean distance
between samples in the combined groups. L cancer localized prostate Fig. 1 Unsupervised clustering (log-transformed) of 16S rDNA
Illumina sequencing results from fecal samples by genus The den
cancer, BCR biochemically recurrent prostate cancer, mHSPC meta-
static
hormone sensitive
prostate
cancer
mCRPC
metastatic Fig. 1 Unsupervised clustering (log-transformed) of 16S rDNA
Illumina-sequencing results from fecal samples by genus. The den-
drogram was based on hierarchical clustering of the Euclidean distance
between samples in the combined groups. L cancer localized prostate cancer, BCR biochemically recurrent prostate cancer, mHSPC meta-
static
hormone-sensitive
prostate
cancer,
mCRPC
metastatic
castration-resistant prostate cancer. No cancer = no clinical and/or
biopsy proven diagnosis of cancer (control and benign groups) the oral ATT group (Fig. 2d), meaning that the samples
from these two groups were most dissimilar to each other. versus cancer, Fig. 1). Discussion As Akkermansia muciniphila is a species of particular
recent interest with respect to treatment response to anti-PD-
1 immunotherapy in patients with epithelial tumors, we
verified the differential abundance of A. muciniphila in men
taking oral ATT using an independent qPCR assay. These
analyses confirmed that A. muciniphila was significantly
more prevalent in the men who were taking oral ATT. Moreover, the results showed high correlation with our
Illumina amplicon sequencing results (Fig. 3). Our study aimed to assess the compositional profile of the
GI microbiota in men with and without a diagnosis of
prostate cancer and with and without treatment with ATT. We report initial evidence that the alpha diversity of the GI
microbiota is greater in men without a prostate cancer
diagnosis, and that there were measurable differences in the
bacterial composition of the GI microbiota in men under-
going treatment with ATT. Differentially abundant species in the GI microbiota
of men taking oral ATT Since we observed significant differences in beta diversity
by ADT status and type in PCoA, we next determined if
particular species of GI microbiota were differentially
abundant between medication categories. As shown in
Table 2, several species of bacteria were differentially
abundant in terms of the proportion of sequencing reads that
matched the species/OTU obtained from the samples across
different treatment categories. Notably, species, such as
Akkermansia muciniphila, Ruminococcaceae spp., and
Lachnospiraceae spp., were significantly more abundant in
the fecal samples of men taking oral ATT. When analyzed
at the bacterial family level, we again observed a significant
greater
abundance
of
sequencing
reads
assigned
to
the bacterial families Verrucomicrobiaceae (of which Compositional differences in gastrointestinal microbiota in prostate cancer patients treated with. . . 543 Fig. 2 Principal coordinates analysis (PCoA) and beta diversity
(unweighted UniFrac) of each fecal sample bacterial profile, analyzed
by the indicated groups. a–c Principal coordinate axis 2 showed the
most distinction between medication groups, so statistical comparisons
were limited to this dimension. d Statistical comparison of beta
diversity between the indicated groups (Mann–Whitney test). Shown is
the mean unweighted UniFrac distance (+SEM) Fig. 2 Principal coordinates analysis (PCoA) and beta diversity
(unweighted UniFrac) of each fecal sample bacterial profile, analyzed
by the indicated groups. a–c Principal coordinate axis 2 showed the
most distinction between medication groups, so statistical comparisons were limited to this dimension. d Statistical comparison of beta
diversity between the indicated groups (Mann–Whitney test). Shown is
the mean unweighted UniFrac distance (+SEM) hormone biosynthesis were significantly enriched within the
oral ATT group compared to the no ADT (NoMeds) group
(Table 3). Other pathways of interest that were more pre-
valent in the oral ATT group versus the no ADT group
included
caffeine
metabolism
and
glycosaminoglycan
degradation (Table 3). Akkermansia muciniphila is one of the few members),
Lachnospiraceae, and others in the oral ATT group
(Table 2). There was also a significant decrease in the
abundance of sequencing reads assigned to bacterial
families such as Brevibacteriaceae, Erysipelotrichaceae,
and Streptococcaceae in men receiving ADT versus no
ADT and specifically in the oral ATT group versus men not
undergoing ADT (Table 2). Akkermansia muciniphila is one of the few members),
Lachnospiraceae, and others in the oral ATT group
(Table 2). Differentially abundant species in the GI microbiota
of men taking oral ATT There was also a significant decrease in the
abundance of sequencing reads assigned to bacterial
families such as Brevibacteriaceae, Erysipelotrichaceae,
and Streptococcaceae in men receiving ADT versus no
ADT and specifically in the oral ATT group versus men not
undergoing ADT (Table 2). Cancer therapies and GI microbiota The ability of cancer therapies to affect and change the
composition of the GI microbiota is not well studied. Interestingly, a screen of more than 1000 marketed non- We next performed functional inference analyses using
PICRUSt [20]. Functional pathways involving steroid/ K. S. Sfanos et al. Cancer therapies and GI microbiota . . 545 Fig. 3 Quantitative PCR (qPCR) for Akkermansia muciniphila. a
Confirmation of enriched abundance of this species in the GI micro-
biota of men taking oral ATT versus the other men included in the
study. b The qPCR results were in strong correlation (R2 = 0.9938)
with the results obtained by 16S rDNA Illumina amplicon sequencing study. b The qPCR results were in strong correlation (R2 = 0.9938)
with the results obtained by 16S rDNA Illumina amplicon sequencing Fig. 3 Quantitative PCR (qPCR) for Akkermansia muciniphila. a
Confirmation of enriched abundance of this species in the GI micro-
biota of men taking oral ATT versus the other men included in the also be affected by hormone levels, as another mouse study
showed that castrating mice induced alterations in GI
microbiota composition, and subsequent development of
abdominal obesity [16]. Intriguingly, this study by Harada
et al. implies that the GI microbiota may mediate several of
the side effects associated with ADT, including obesity and
the metabolic syndrome. In our study, we found that men
taking oral ATT had a different GI microbiota composition
than men taking GNRH agonists/antagonists alone or men
not undergoing ADT. Functional pathway inference of the
species present in the fecal microbiota of men taking oral
ATT indicated an intriguing possibility that the species
capable of steroid/hormone biosynthesis are more abundant
in the GI flora when men are taking these oral medications
(Table 3). This finding, if confirmed, could have important
implications and perhaps represent a mechanism for
potential alternative pathways for production of steroid
metabolites that could influence treatment response to oral
ATT. Critical follow-up studies will correlate the presence
of GI bacterial species capable of steroid/hormone bio-
synthesis to circulating hormone levels. antibiotic drugs against 40 representative GI bacterial
strains found that nearly a quarter inhibited bacterial growth
[21]. Chemotherapy and immunotherapy have been shown
to induce dysbiosis (a pathogenic microbial imbalance) of
the GI microbiota in rodent models [7, 22]. The most
mature data involving longitudinal studies are in patients
with non-Hodgkin’s lymphoma undergoing bone marrow
transplant
conditioning
chemotherapy,
which
induced
pathogenic shifts in the GI microbiota that were associated
with treatment toxicities [23, 24]. A study in pediatric acute
myeloid
leukemia
patients
receiving
chemotherapy
demonstrated direct bacteriostatic effect of chemother-
apeutics, as well as outgrowth of pathogenic enterococci
that could not be fully explained by concurrent use of
antibiotics [25]. Cancer therapies and GI microbiota Compositional changes to the GI micro-
biota induced by chemotherapy or immunotherapy could
conceivably impact factors such as the local inflammatory
environment in the intestinal tract, systemic inflammatory
effects, and/or the efficacy of any subsequently adminis-
tered cancer therapies. Cancer therapies and GI microbiota 544 Table 2 Select differentially abundant species or families of GI microbiota in men with or without hormonal therapy
Negative binomial test (DESeq)
Mean valuesa
Standard errors
NoMeds vs GNRH
NoMeds vs oral ATT
GNRH vs oral ATT
NoMeds (nb)
GNRH (n)
Oral ATT (n)
NoMeds
GNRH
Oral ATT
P value
FDR adj P
P value
FDR adj P
P value
FDR adj P
Species/OTUs
Akkermansia muciniphila
0.002 (8)
0.003 (3)
0.055 (6)
0.001
0.002
0.034
0.623
0.797
0.002
0.012
0.048
0.173
Ruminococcaceae_unassigned
0.011 (16)
0.001 (4)
0.030 (9)
0.004
0.001
0.012
0.051
0.181
0.049
0.179
0.010
0.051
Blautia wexlerae
0.012 (16)
0.029 (5)
0.026 (9)
0.002
0.019
0.017
0.030
0.121
0.023
0.098
0.907
0.929
Ruminococcaceae_unassigned
0.005 (16)
0.003 (4)
0.018 (9)
0.002
0.001
0.007
0.400
0.690
0.027
0.115
<0.001
0.002
otu0:Clostridium oroticum
0.003 (14)
0.048 (5)
0.017 (9)
0.001
0.044
0.007
0.000
<0.001
0.001
0.007
0.145
0.373
Lachnospiraceae_Clostridium_XlVa
0.006 (14)
0.008 (4)
0.016 (8)
0.001
0.004
0.011
0.515
0.713
0.032
0.129
0.358
0.645
Clostridiales_unassigned
0.056 (14)
0.032 (5)
0.016 (8)
0.017
0.015
0.005
0.401
0.690
0.010
0.052
0.219
0.490
otu3527:Robinsoniella peoriensis
0.001 (15)
<0.001 (4)
0.016 (8)
<0.001
<0.001
0.008
0.113
0.328
<0.001
<0.001
<0.001
<0.001
Anaerococcus tetradius
0.001 (10)
0.006 (3)
0.010 (3)
<0.001
0.006
0.008
0.045
0.163
0.006
0.032
0.769
0.832
Bacteroides stercoris
0.001 (11)
<0.001 (3)
0.009 (2)
0.001
<0.001
0.007
0.507
0.707
0.008
0.042
0.084
0.263
Family
Brevibacteriaceae
0.002
<0.001
<0.001
0.002
<0.001
<0.001
0.076
0.240
<0.001
<0.001
<0.001
<0.001
Clostridiales_Incertae_Sedis_XIII
<0.001
<0.001
0.001
<0.001
<0.001
0.001
0.050
0.222
<0.001
<0.001
0.245
0.517
Staphylococcaceae
<0.001
0.001
0.003
<0.001
0.001
0.002
0.040
0.218
<0.001
<0.001
0.382
0.613
Clostridiales_unassigned
0.087
0.050
0.029
0.020
0.017
0.007
0.217
0.415
0.001
0.008
0.158
0.405
Verrucomicrobiaceae
0.002
0.003
0.056
0.001
0.002
0.034
0.632
0.766
0.002
0.015
0.048
0.160
Oxalobacteraceae
<0.001
<0.001
<0.001
<0.001
<0.001
<0.001
0.472
0.693
0.004
0.030
0.183
0.455
Bacillales_unassigned
<0.001
<0.001
0.001
<0.001
<0.001
0.001
0.507
0.701
0.005
0.030
0.022
0.105
Aerococcaceae
0.001
0.004
0.004
<0.001
0.002
0.002
0.017
0.107
0.005
0.032
0.872
0.895
Propionibacteriaceae
<0.001
0.001
<0.001
<0.001
0.001
<0.001
0.155
0.368
0.014
0.065
0.002
0.020
Erysipelotrichaceae
0.039
0.028
0.017
0.009
0.015
0.004
0.675
0.766
0.016
0.071
0.272
0.523
Selenomonadales_unassigned
<0.001
0.003
0.001
<0.001
0.003
0.001
0.001
0.014
0.020
0.084
0.324
0.554
Streptococcaceae
0.021
0.014
0.007
0.010
0.012
0.002
0.817
0.872
0.025
0.094
0.260
0.517
Lachnospiraceae
0.176
0.272
0.305
0.027
0.050
0.064
0.046
0.220
0.027
0.097
0.650
0.806
Prevotellaceae
0.020
0.034
0.006
0.008
0.016
0.002
0.328
0.553
0.037
0.118
0.005
0.044
NoMeds not on ADT, GNRH only on GNRH agonist/antagonist, Oral ATT taking an oral androgen axis-targeted therapy, FDR adj P false discovery rate adjusted P value
aMean relative abundance
bNumber of patients the species/OTU or bacterial family was identified in Compositional differences in gastrointestinal microbiota in prostate cancer patients treated with. References 1. Spanogiannopoulos P, Bess EN, Carmody RN, Turnbaugh PJ. The microbial pharmacists within us: a metagenomic view of
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in
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ment C, et al. Anticancer immunotherapy by CTLA-4 blockade
relies on the gut microbiota. Science. 2015;350:1079–84. In conclusion, our study provides preliminary evidence
that the GI microbiota may be different in men undergoing
treatment with androgen receptor axis-targeted therapies
commonly used to treat prostate cancer. We hypothesize
that these compositional differences may influence treat-
ment response to oral ATT or to subsequent treatments such
as immunotherapy. Future longitudinal studies pre-, during,
and post-therapy are warranted to confirm the degree to
which the GI microbiota are altered and to assess whether
these alterations are correlated to prostate cancer treatment
responses. Collectively, these studies could determine
whether the GI microbiome is both essential for therapeutic
efficacy and whether it could serve as a target that could be
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Earley ZM, et al. Commensal Bifidobacterium promotes antitumor
immunity
and
facilitates
anti-PD-L1
efficacy. Science. 2015;350:1084–9. 9. Matson V, Fessler J, Bao R, Chongsuwat T, Zha Y, Alegre M-L,
et al. The commensal microbiome is associated with anti-PD-1
efficacy
in
metastatic
melanoma
patients. Science. 2018;
359:104–8. 10. Routy B, Le Chatelier E, Derosa L, Duong CPM, Alou MT,
Daillere R, et al. Oral ATT, GI microbiota, and immunotherapy It has been reported that steroid biosynthesis occurs in
prokaryotes [26, 27], and that certain species of bacteria are
capable of metabolizing estrogen and androgen precursors
and catabolizing estrogens and androgens thereby affecting
systemic levels of these hormones [28–30]. Altering the
gastrointestinal flora in a mouse model of type 1 diabetes
impacted testosterone levels, as well as the development of
type 1 diabetes [12]. In another study, mice consuming a
diet rich in the commonly used probiotic strain Lactoba-
cillus reuteri had a reduced systemic inflammatory state
through reduction of IL-17, and an increase in serum tes-
tosterone levels [31]. On the converse, the microbiome can Much excitement has been generated after the publication of
a series of human studies in melanoma patients [9, 11] and
in patients with epithelial tumors [10], all indicating that the
presence of certain types of bacteria including Rumino-
coccaceae, Bifidobacteriaceae, and Akkermansia mucini-
phila are associated with a positive response to anti-PD-1
immunotherapy. In
our
study,
we
observed
over-
representation of these same species (Ruminococcaceae and
particularly Akkermansia muciniphila) in the fecal micro-
biota of men taking oral ATT (Table 2). Although pre-
liminary, we speculate that our results might represent one K. S. Sfanos et al. 546 Table 3 Functional inference of microbial gene content in fecal specimens
Mean values (relative abundance)
NoMeds vs oral
ATT
KEGG level 3—Categories enriched in oral ATT vs NoMeds
NoMeds (n = 16) GNRH (n = 5) Oral ATT (n
= 9)
Ratio oral ATT to
NoMeds
P value (npdiff)
Metabolism;Lipid_Metabolism; Steroid_biosynthesis
5.06E−06
6.04E−06
9.49E−05
18.75
0.0044
Metabolism;Lipid_Metabolism; Steroid_hormone_biosynthesis
3.67E−05
4.15E−05
1.91E−04
5.2
0.0012
Metabolism;Biosynthesis_of_Other_Secondary_Metabolites; Caffeine_metabolism
3.44E−06
1.21E−06
3.09E−05
8.98
0.0188
Metabolism;Xenobiotics_Biodegradation_and_Metabolism; Fluorobenzoate_degradation
8.65E−06
4.65E−06
6.48E−05
7.5
0.0194
Metabolism;Glycan_Biosynthesis_and_Metabolism; Glycosaminoglycan_degradation
2.13E−04
3.02E−04
4.98E−04
2.34
0.0022
Metabolism;Xenobiotics_Biodegradation_and_Metabolism; Atrazine_degradation
1.93E−04
2.06E−04
3.64E−04
1.88
0.0012
Metabolism;Glycan_Biosynthesis_and_Metabolism; Glycosphingolipid_biosynthesis_-
_ganglio_series
1.14E−04
1.79E−04
2.13E−04
1.88
0.0212
Metabolism;Biosynthesis_of_Other_Secondary_Metabolites;Flavonoid_biosynthesis
5.55E−05
8.19E−05
9.93E−05
1.79
0.0218
Metabolism;Biosynthesis_of_Other_Secondary_Metabolites;
Penicillin_and_cephalosporin_biosynthesis
1.34E−04
1.53E−04
2.27E−04
1.7
0.0068
Cellular_Processes;Transport_and_Catabolism;Lysosome
4.69E−04
5.08E−04
8.03E−04
1.71
0.0048
Metabolism;Biosynthesis_of_Other_Secondary_Metabolites;beta-Lactam_resistance
2.17E−04
2.63E−04
2.93E−04
1.35
0.029
Unclassified;Cellular_Processes_and_Signaling; Cell_motility_and_secretion
1.25E−03
1.32E−03
1.65E−03
1.32
0.0026
Metabolism;Glycan_Biosynthesis_and_Metabolism; Glycosphingolipid_biosynthesis_-
_globo_series
6.69E−04
7.72E−04
8.58E−04
1.28
0.0278
Unclassified;Cellular_Processes_and_Signaling; Inorganic_ion_transport_and_metabolism
1.59E−03
1.92E−03
1.98E−03
1.25
0.0052
NoMeds not on ADT, GNRH only on GNRH agonist/antagonist, Oral ATT taking an oral androgen axis-targeted therapy, npdiff nonparametric difference test Compositional differences in gastrointestinal microbiota in prostate cancer patients treated with. . . References Gut microbiome influences efficacy of PD-1-
based
immunotherapy
against
epithelial
tumors. Science. 2018;359:91–97. Acknowledgements We thank the members of the SKCCC Next
Generation Sequencing Core, supported by NCI grant P30CA006973,
for assistance with sequencing. This work was supported by Prostate
Cancer Foundation Challenge Award 16CHAL13 to KSS, KJP, ESA,
and AER. ESA is partially funded by Department of Defense grant
W81XWH-13-PCRP-CCA. 11. Gopalakrishnan V, Spencer CN, Nezi L, Reuben A, Andrews MC,
Karpinets TV, et al. Gut microbiome modulates response to anti-PD-
1 immunotherapy in melanoma patients. Science. 2018;359:97–103. 12. Markle JGM, Frank DN, Mortin-Toth S, Robertson CE, Feazel
LM, Rolle-Kampczyk U, et al. Sex differences in the gut micro-
biome drive hormone-dependent regulation of autoimmunity. Science. 2013;339:1084–8. Oral ATT, GI microbiota, and immunotherapy 547 potential explanation for the report of responses to anti-PD-
1 immunotherapy observed in men with metastatic prostate
cancer who have progressed on enzalutamide [32]. changes were made. The images or other third party material in this
article are included in the article’s Creative Commons license, unless
indicated otherwise in a credit line to the material. If material is not
included in the article’s Creative Commons license and your intended
use is not permitted by statutory regulation or exceeds the permitted
use, you will need to obtain permission directly from the copyright
holder. To view a copy of this license, visit http://creativecommons. org/licenses/by/4.0/. changes were made. The images or other third party material in this
article are included in the article’s Creative Commons license, unless
indicated otherwise in a credit line to the material. If material is not
included in the article’s Creative Commons license and your intended
use is not permitted by statutory regulation or exceeds the permitted
use, you will need to obtain permission directly from the copyright
holder. To view a copy of this license, visit http://creativecommons. org/licenses/by/4.0/. There are several limitations to our study including the
relatively small sample size and the lack of longitudinal
sampling. Important follow-up studies will include samples
collected prior to start of therapy and then longitudinally
after therapy initiation. Such studies will further strengthen
our hypothesis that ATT is responsible for the composi-
tional differences that we observed, as opposed to other
factors that can influence the composition of the GI
microbiome such as diet or stress levels. Furthermore, we
observed a significant decrease in GI microbiota alpha
diversity in patients with prostate cancer that was inde-
pendent of medication status. Decreased diversity in GI
microbiota has been reported as a risk factor for several
other types of disease as well as “Western” lifestyle [33]. Our results should be taken with caution, however, as many
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Assessment of CFD Model Performance for Flows around a Hydraulic Structure of Complex Geometry
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Creative Commons Attribution b |109 Periodica Polytechnica Civil Engineering, 65(1), pp. 109–119, 2021 Keywords CFD modeling, OpenFOAM, RANS, complex hydraulic structure, turbulence modeling Cite this article as: Grivalszki, P., Fleit, G., Baranya, S., Józsa, J. "Assessment of CFD Model Performance for Flows around a Hydraulic Structure of Complex
Geometry", Periodica Polytechnica Civil Engineering, 65(1), pp. 109–119, 2021. https://doi.org/10.3311/PPci.16709 Assessment of CFD Model Performance for Flows around a
Hydraulic Structure of Complex Geometry Péter Grivalszki
1*, Gábor Fleit
1, Sándor Baranya
1, János Józsa
1,2 1 Department of Hydraulic and Water Resources Engineering, Faculty of Civil Engineering, Budapest University of Technology and
Economics, H-1111 Budapest, Műegyetem rkp. 3., Hungary
2 MTA-BME Water Management Research Group, Hungarian Academy of Sciences, H-1051 Budapest, Széchenyi István tér 9, Hungary
* Corresponding author, e-mail: grivalszki.peter@epito.bme.hu 1 Department of Hydraulic and Water Resources Engineering, Faculty of Civil Engineering, Budapest University of Technology and
Economics, H-1111 Budapest, Műegyetem rkp. 3., Hungary
2 MTA-BME Water Management Research Group, Hungarian Academy of Sciences, H-1051 Budapest, Széchenyi István tér 9, Hungary
* Corresponding author, e-mail: grivalszki.peter@epito.bme.hu Received: 21 June 2020, Accepted: 16 September 2020, Published online: 14 October 2020 Abstract Computational Fluid Dynamics (CFD) modeling has become a widely used research tool in the hydraulic engineering community,
however, for many problems the numerical model setup and even the selection of the suitable hydrodynamic solver is still a challenging
task. This is the case for fine scale analysis of flow features around hydraulic structures of complex geometry, where generation of
the 3D grid, application of the correct turbulence modeling approach, or modeling of the free surface all require extensive experience
and knowledge. The aim of this paper is to perform a numerical hydrodynamic experiment for a hydraulic structure with complex
geometry to assess the model performance, in terms of grid resolution, grid refinement methods as well as turbulence modeling. The open source modeling environment of OpenFOAM is tested and validated against laboratory measurements, moreover, practical
recommendations are made for future applications of the numerical solver. 1 Introduction The total quantity of
flushed out sediments, and the bed deformation were com-
pared with experiments, highlighting a good correspon-
dence between the results.i is an applicable approach in case of flow Froude number
(Fr < 0.5) conditions. In case of larger Froude numbers,
the profile of the free surface has notable influence on the
hydrodynamic conditions (and vice versa), hence its proper
representation is necessary for accurate scour estimations
as well. Baranya et al. [5] also showed the applicability
of a rigid lid approach for modeling flow and local scour
around bridge piers. A k-ε turbulence closure was used
on a curvilinear nested grid system. Laboratory experi-
ments were used to validate the simulations and quantify
velocity and turbulent kinetic energy (TKE) around piers. Baranya et al. [6] successfully extended their analysis to
predict scouring around the piers. Kahraman et al. [7]
investigated the influence of free-surface variation on the
velocity field using numerical simulations of flow around a
sharp-nosed pier. They concluded, that the volume of fluid
(VOF) models are in better agreement with experimental
data than those using the rigid-lid approximation. Their
results show that even though the change in free-surface
height near the pier is small compared to the approach flow,
it still has a significant effect on velocities in front of the
pier and in the wake region, also at low Froude numbers. Kara et al. [8] carried out large eddy simulations (LES) to
investigate the effects of accurate simulation of the cur-
vilinear water-surface deformation of the flow through a
bridge contraction. They also tested the rigid-lid bound-
ary condition for free surface, and compared to level set
method (LSM). Bed-shear stresses and first-order statis-
tics were similar for their cases, but the instantaneous
turbulence structure and consequently, the second-order
statistics, were distinctly different. The correct prediction
of the water-surface deformation of such flows is deemed
important for the accuracy of their simulations. Ignoring free surface variations or using simplifica-
tions like the ones in the studies above, usually enough
for fulfill the scope of interests in river, sea or ocean scale,
but in case of transient free surface motion, steep surface
gradients or complex geometries, multiphase models are
to be used. In such models, the governing equations are
solved not only for the water phase, but for the air above
it as well, allowing for multivalued vertical free surface
positions. 1 Introduction influence the prevailing flow conditions, but also play a
fundamental role in sediment transport [3]. In the case of
3D fluid modeling, no cross-sectional or vertical integrat-
ing is applied, but the Navier–Stokes equations are solved
numerically with various simplifications. Resolving the
flow problem along the vertical axis, however, increases
computational demands significantly, moreover, requires
dedicated numerical methods. Methods of various com-
plexity and flexibility are available for the vertical discret-
ization in 3D models, whose applicability depends on the
actual flow problem. The rapid, continuous improvement of computational
resources in the last decades implied continuous (still
ongoing) developments in computational sciences as well. In fact, such an intensive progress took place in the field of
the so called CFD (Computational Fluid Dynamics) mod-
eling. These models are used in mechanical as well as in
hydraulic engineering, aiming to solve fluid flow problems
of various complexity.i In the field of hydraulic engineering, and river engi-
neering in particular the most frequently used hydrody-
namic modeling tools use dimensional simplifications,
that is, the flow conditions (velocities) are schematized
with cross-sectionally averaged, one-dimensional (1D) or
depth-averaged, two-dimensional (2D) velocities using
the St Venant and the shallow-water equations, respec-
tively [1, 2]. The development of 1D and 2D models looks
back to several decades due to the fact that they require
less computational capacity and earlier PCs enabled the
simulation of simpler problems. However, river flows
reportedly can show locally complex, three-dimensional
(3D), secondary flow features as well [3], which not only Typical hydraulic engineering problems requiring the
resolution of 3D flow phenomena are flows around var-
ious hydraulic structures, such as weirs, bridge piers,
abutments, etc. Roulund et al. [4], for instance, used
Reynolds-averaged Navier–Stokes (RANS) model with
k-ω turbulence closure to investigate flow and scouring
around a circular pile, with special focus on the horse-
shoe and lee wake vortices. They successfully captured all
the main features of the scouring process, however, their
model did not include direct free surface modeling, which 110|Grivalszki et al. Period. Polytech. Civ. Eng., 65(1), pp. 109–119, 2021 flushing process of the Kali Gandaki hydropower reser-
voir. Thus, the location of the water level was calculated
with the Bernoulli equation. An adaptive, non-orthogonal
and unstructured grid has been used. 1 Introduction The most frequently used multiphase modeling
method from the mentioned ones is the volume of fluid
(VOF) method [13]. Furthermore, methods mentioned
above cannot handle flows around geometries, which can
separate the water domain vertically. For testing differ-
ent turbulence models, Salaheldin et al. [14] successfully
modelled flow around circular piers, where calculated and
measured position of the free surface are in good agree-
ment. Haun et al. [15] modelled flow over trapezoidal
broad-crested weir, and compared the effectiveness of
VOF with fixed grid, and an algorithm based on the conti-
nuity equation and the Marker-and-Cell method, together
with an adaptive grid for the water surface. They expe-
rienced good correlation between the methods, however,
VOF required less time for calculations. For high quality
simulation of wave generation and absorption, Higuera
et al. [16] used VOF, and with it, they set a new boundary
condition apparatus to simulate waves. Jacobsen et al. [17]
developed an easy to use application called waves2Foam
which is a VOF-based numerical wave tank approach. Stoesser et al. [9] treated the free surface as a plane of
symmetry where zero gradient conditions are applied for
the variables parallel to the surface with the wall-normal
variables set to zero. Their calculations of primary and
secondary flow and boundary shear stresses in a meander-
ing laboratory-scaled channel were successful.l Another approach for capturing the free surface between
multiphase flows is the level set method (LSM) [18]. In case of the LSM, the interface is explicitly defined by
using a signed level set function in every computational
node, defining the closest distance from the free surface. The LSM based CFD toolbox REEF3D [19] has been suc-
cessfully used to simulate complex flows around various
hydraulic engineering structures [20, 21]. If water level fluctuations and changes are to be
accounted for as well, several methods are available. One of
the most frequently used is the σ-coordinate transformation
method [10]. Based on this, Baranya et al. [11] made large-
scale flow analysis at a river confluence, and, validating
the results against field measurements, they satisfactorily
reproduced the most relevant elements of the confluence
hydrodynamics. 2 Numerical methods In this study, the interIsoFoam solver of the open-source
CFD toolbox OpenFOAM was used [27], employing
a geometric Volume-of-Fluid (VOF) method for ensuring
a sharp interface between two immiscible, incompress-
ible fluids. The governing equations for multiphase solver
are the Reynolds-averaged Navier–Stokes equations,
expressed by the continuity and momentum equations: In CFD modeling, the numerical domain is generally
split into smaller subdomains of geometric primitives like
hexahedra or tetrahedra. The governing equations are dis-
cretized and solved inside each of these subdomains. For
capturing the effects of a structure with complex geome-
try, it can be a crucial point of model set-up. With man-
ual mesh setup excellent mesh fitting can be achieved,
however, for large domains and highly variable geome-
try it is time consuming, and exposed to manmade errors. The mesh generation can be classified into two main cate-
gories based on the topology of the elements that describe
the domain, which is structured (eg.: [22, 23]) and unstruc-
tured (e.g.: [11, 15]). The advantage of structured mesh is
that the points of an elemental cell can be easily addressed
and the connectivity is straightforward, but for capturing
complex geometries, really fine resolution must be applied. An unstructured mesh can capture complex surfaces, but
a cell may have an arbitrary number of neighbouring cells
attaching to it, making the data treatment and connection
complicated [26]. Hybrid meshes containing structured
and unstructured blocks are good compromise to use the
benefits of both mesh types. u
0 ,
(1)
u
u
u
u
fb
t
p
1
2
,
(2) u
0 ,
(1) (1) u
0 ,
u
u
u
u
fb
t
p
1
2
,
(2) (2) where u is velocity vector, t is the time, ρ is density, p is
the pressure, fb is body forces (gravity and surface ten-
sion). For capturing the free surface between the two
phases, the VOF method has been applied [13]. It is an
Eulerian volume tracking method with a step function to
differentiate water and air phases. A computational cell
with α = 1 is entirely in the water phase, while α = 0 means
the air phase. The interface is represented with an α value
between these values. 1 Introduction Haun and Olsen [12] used an algorithm
based on the computed pressure field when modeling the In addition to the proper tracking of the free-surface,
turbulence modeling also plays a crucial role, when mod-
eling transient complex flows, especially in cases where
obstacles of complex geometries are present in the flow. Recently, Bayon-Barrachina and López-Jiménez [22], used Grivalszki et al. Period. Polytech. Civ. Eng., 65(1), pp. 109–119, 2021|111 Grivalszki et al. Period. Polytech. Civ. Eng., 65(1), pp. 109–119, 2021|111 was used to simulate turbulent free surface flow condi-
tions around a hydraulic structure of complex geometry. The aim of the study is to test and quantify the accuracy
of different frequently used turbulent models, as well as
to test the applicability of various mesh fitting algorithms
provided by the snappyHexMesh utility through a series
of numerical model simulations. CFD model results are
compared with experimental data, allowing for a quantita-
tive error analysis. The herein presented results underline
the importance of preliminary model tests when inves-
tigating flows around complex structures, as relatively
high sensitivity was observed for the choice of the tested
numerical methods. a RANS model with different two equations turbulence clo-
sures to simulate a hydraulic jump properly. Jiang et al. [23]
simulated flow over a rectangular broad-crested weir with
the same apparatus like Bayon-Barrachina and López-
Jiménez [22], but with VOF for free surface capturing. In
spite of the encouraging results of the above mentioned
studies, a major problem with standard RANS turbulence
models is that in two-phase simulations, the effect of the
free surface is neglected and high turbulence production
occurs due to the high gradient in fluid density. Kamath
et al. [21] investigated free surface turbulence damping in
several different case studies to validate the applicability
of their apparatus. They used RANS equations with k-ω
turbulence closure and LSM for capturing free surface. Devolder et al. [24] published the so called buoyancy mod-
ification for k-ω SST turbulence closure, while Larsen and
Fuhrman [25] developed a stabilizing correction method
that can be used with k-ε and k-ω turbulence closures. 2 Numerical methods This α value is used as a weight
when calculating fluid properties with only one set of gov-
erning equations for the entire flow domain. For example,
the density in an arbitrary cell can be written as [28]:
liquid
gas
1
. (3) (3) Considering the above described problems related to
CFD modeling of complex flows, it can be stated that
the selection of suitable numerical solvers for a given
hydraulic engineering task, where 3D flow features, tur-
bulence as well as the profile of free surface all play an
important role, is far not straightforward. In this study the
VOF-based open-source CFD toolbox OpenFOAM [27] The VOF method then adds one more equation to be
solved for the advection of this volume fraction func-
tion α [28]:
t
u
0 . (4)
t
u
0 . (4) 112|Grivalszki et al. Period. Polytech. Civ. Eng., 65(1), pp. 109–119, 2021 112|Grivalszki et al. Period. Polytech. Civ. Eng., 65(1), pp. 109–119, 2021 The drawback of the standard VOF method is the
smearing of the water surface, therefore it cannot capture
a sharp surface separating the phase fractions in a cell, but
instead the cell will be filled with uniform mixture of the
two phases (0 < α < 1). OpenFOAM offers two methods for
improving the surface sharpness. The Multidimensional
Universal Limiter with Explicit Solution (MULES) [29]
is a widely used scheme to reduce the smearing [30, 31]. Recently, a geometric VOF method has also been imple-
mented as a part of the isoAdvector [32] solver, which
was used in present study. This solver reportedly offers a
sharper interface tracking than the MULES [33,34]. OpenFOAM uses the finite volume method (FVM) for
discretization [38]. The FVM is implemented by integrat-
ing all the terms in the equations over a specified con-
trol volume and relating the volume integrals to the sur-
face integrals using Gauss's theorem. The surface and
volume integrals are both evaluated with mid-point inte-
gration approximation resulting in second-order accuracy. The Laplacian and divergence terms are handled with the
Gaussian linear corrected and Gaussian linear schemes. The implicit, first order and transient Euler scheme is used
for the time marching.i The snappyHexMesh utility provides three refinement
levels (Fig. 1) for mesh morphology at the solid bound-
ary [27]. 2 Numerical methods On the first level, the so-called castellated mesh
starts with a hexahedral grid, cutting out the geometry of
interest from it with optional refinement, leaving orthogo-
nal edges at the solid boundary. Secondly, snapping makes
morphing iterations on the surface with breaking the
orthogonality to get a smooth boundary. In the third step,
additional layers parallel to the boundary can be added
which is often used in mechanical engineering where the
turbulent shear layer is to be resolved. In this study an
analysis is performed to see if the different fitting methods
on a complex geometry with the same spatial resolution
affect the hydrodynamic solution. The governing RANS equations are closed with two-
equation turbulence modeling, through the eddy viscosity
concept [35]. The performance of two different turbulence
models has been tested, namely the standard k-ω (where
k is turbulence kinetic energy and ω is the specific rate of
dissipation of k) [36] and the k-ω Shear Stress Transport
(SST) model [37], moreover, the effect of the buoyance
modification for the k-ω SST (proposed by [24, 25]) has
also been tested. While the standard k-ω is still used rather
frequently, the k-ω SST can overcome many of the defi-
ciencies of the standard k-ω model, offering more accurate
solutions. The transport equations solved for k and ω are:
k
t
k
D
k
P
k
k
k
k
u
u
2
3
*
,
(5)
t
D
P
F
CDk
u
u
2
3
1
2
1
,
(6) 3.1 The CALTROPe-project According to the most recent scientific results, the main
reasons of the ongoing, global climate change are the
excessive greenhouse gas emissions [39]. Among many
adverse effects, sea level rising (along with the biased sed-
iment balance of rivers unsustainable management) entails
territorial losses in many river estuaries (e.g. Mekong [40],
Mississippi [41], etc.). The CALTROPe project aims to
resolve this problem through an easy-applicable struc-
ture-system, which works in an organic, nature-oriented
way against territorial losses. The structure itself (Fig. 2)
is made partly by concrete, and partly by local natural (6) where Dk and Dω are effective diffusivities for k and ω,
Pk and Pω are production terms in the respective equa-
tions, CDkω is a limiter function, β
* = 0.09 is a constant
model parameter, F1 is a blending function which is used
to achieve smooth transition between two models, β and Γ
are parameters which calculated as a weighted averages of
k-ω and k-ε parameters (where ε is the turbulent dissipa-
tion rate) using F1 as a weight function. The turbulent vis-
cosity is calculated from where Dk and Dω are effective diffusivities for k and ω,
Pk and Pω are production terms in the respective equa-
tions, CDkω is a limiter function, β
* = 0.09 is a constant
model parameter, F1 is a blending function which is used
to achieve smooth transition between two models, β and Γ
are parameters which calculated as a weighted averages of
k-ω and k-ε parameters (where ε is the turbulent dissipa-
tion rate) using F1 as a weight function. The turbulent vis-
cosity is calculated from Fig. 1 The three refinement level of snappyHexMesh utility. From left
to right: castellated mesh, snapped mesh, add-layers mesh t
a
k
a
b F
S
1
1
1 23 2
max
,
,
(7) (7) where a1 = 0.31 and b1 = 1.0 are constant parameters, F23
is a bounding function and S is the magnitude of the rate-
of-strain tensor. Fig. 1 The three refinement level of snappyHexMesh utility. From left
to right: castellated mesh, snapped mesh, add-layers mesh Grivalszki et al. Period. Polytech. Civ. Eng., 65(1), pp. 109–119, 2021|113 Grivalszki et al. Period. Polytech. Civ. Eng., 65(1), pp. 109–119, 2021|113 Fig. 2 The CALTROPe midline of the 0.50 m wide flume in an axially symmet-
rical way. 3.1 The CALTROPe-project A constant discharge of Q = 0.008 m
3s
–1 was
ensured with a pump system, while the tailwater level was
kept at h = 0.08 m with a tilting weir at the end of the
flume. These flow conditions were set to provide slightly
turbulent flow conditions with Reynolds number range
around Re ≈ 12000. It is important to note that the main
goal of the paper was to demonstrate the CFD model
capabilities through a thorough model test and no upscal-
ing of the modelled flow field to prototype scale is pro-
posed. Consequently, the detailed analysis of the near wall
regions was unnecessary, and the main focus of the flow
field analysis was on the turbulent region instead. Fig. 2 The CALTROPe Single-point velocity data was recorded using an
Acoustic Doppler Velocimeter (ADV, Nortek Vectrino) in a
high number of points around the structure. Due to its geo-
metrical properties, the sampling volume of the probe is in
a distance of 5 cm from the receiver emitter. Considering
this limitation and the 0.08 m water depth, three near-
bed points (z = 0.005, 0.015, 0.025 m) of 14 verticals were
sampled (Fig. 3). Fig. 2 The CALTROPe materials. It has three legs and planned to build 1 m high. materials. It has three legs and planned to build 1 m high. Due to its modularity, a shore protection system built from
the CALTROPe structures could be installed in river estu-
aries in some various arrangements. River would flow
partly near these arrangements, partly between the struc-
ture legs, where the flow velocity is expected to increase,
causing scouring and deposition issues. The sampling rate of the ADV was set to 16 Hz, which
ensured the logging of turbulent velocity fluctuations
as well. Erroneous velocity data (spikes) were removed
using a method based on a bivariate kernel density func-
tion, [44, 45], and the removed data points were replaced
via linear interpolation. In addition to the evaluation of
time-averaged velocity vectors, the high-frequency mea-
surements were also used to calculate pointwise values of
turbulent kinetic energy (TKE) as: These hollow structures of limited design age (few
years) would serve as habitats for mangrove samplings until
they grow and takes root, then would decompose, leaving
a fully natural shore protection system behind [42, 43]. 3.1 The CALTROPe-project The semi-natural system adapts the changes in nature and
could help natural sedimentation in coastal areas. These structures are to be exposed to various kind of
hydrodynamic effects, such as the spatially and tempo-
rally varying flow field of the incoming river, tidal effects
or the dynamic wind induced waves of the sea. It is there-
fore of crucial importance, for the design of these struc-
tures, to possess an investigation tool that is capable to
reveal the local scale hydrodynamic impacts. In this
study, the flow around a scaled prototype of an individ-
ual CALTROPe structure was analyzed both with labora-
tory experiments and computational tools, but with a main
focus on the latter. TKE
u
u
u
x
y
z
1
2
2
2
2
'
'
'
,
(8) (8) where ux', uy', uz' are the fluctuating components of the 3D
velocity vectors derived via Reynolds-decomposition. Fig. 3 Layout for laboratory experiments 3.3 Numerical setups a special multiphase stabilizing correction method by
Devolder et al. [24] and Larsen and Fuhrman [25] were
tested (buoyancy modification). The latter aims to resolve
the problem of turbulence overproduction near the free
surface by including a buoyancy term in the transport
equations (model variation T1 for k-ω, T2 for k-ω SST and
REF for k-ω SST with buoyancy modification). Numerical simulations were performed with the open-
source CFD tool OpenFOAM. The model setup was identi-
cal to the experimental one, including scale and boundary
conditions as well. The model domain is 2 m long, 0.5 m
wide and 0.2 m high – 0.08 m for water phase and 0.12 m
for air phase. Constant inflow discharge (Q = 0.008 m
3s
–1)
was ensured using the outletPhaseMeanVelocity boundary
condition, which sets water level through holding the mean
water-phase velocity of 0.2 ms
–1. In order to evaluate the
performance of i) four mesh resolutions (i.e. grid conver-
gence study) ii) three mesh fitting methods; and iii) three
turbulence closures a reference model setup was defined
(Table 1). Fig. 4 shows instantaneous velocity streamlines
around the CALTROPe. In the reference model, the resolution of the hexahedral
mesh (Δx = 5.0 mm), which is further refined to 2.5 mm in
the direct proximity of the CALTROPe surface. The mesh is
snapped on the CALTROPe boundary, which means break-
ing the orthogonality to get a smooth boundary surface. The buoyancy modified k-ω SST turbulence model have
been applied for turbulence closure. The root mean square
error (RMSE) was used to quantify the performance of the
model variants, through the comparison of measured and
modeled horizontal velocity components (ux, uy) and TKE. Large scale turbulence features (vortex shedding, Fig. 3)
are resolved in the transient CFD results, hence the tur-
bulence closure only accounts for the smaller scale fluc-
tuations. Considering that the ADV data inherently con-
tain both scales, the numerical TKE values (TKEmod) were
derived from the combination of transient velocity fluctua-
tions and modeled turbulent kinetic energy (k) values: A recirculation zone and vortex shedding is observed
on the downstream side of the obstacle, as well as a peri-
odically moving jet between the structure legs. 3.2 Laboratory experiments Laboratory experiments were performed at the research
flume of the Department of Hydraulic and Water Resources
Engineering, Budapest University of Technology and
Economics. A single 1:10 scaled CALTROPe structure
(0.1 m height) made by medical plaster was placed in the Fig. 3 Layout for laboratory experiments 114|Grivalszki et al. Period. Polytech. Civ. Eng., 65(1), pp. 109–119, 2021 3.3 Numerical setups Mesh convergence analysis was performed to verify
the applied spatial resolution in the reference model, with
hexahedron cells of Δx = 10.0, 7.5, 5.0, and 4.0 mm, which
are refined to their half at CALTROPe boundary (model
variatons G1, G2, REF, G3 from the coarsest to the finest). For mesh fitting analysis, all three features of
snappyHexMesh, introduced above, were tested. At the
add-layer mesh version only one additional layer was
implemented due to computational limitations. (model
variations M1 (castellated mesh) REF (snapped mesh) and
M2 (add layer mesh)). TKE
k
u
u
u
mod
x
y
z
1
2
2
2
2
'
'
'
. (9) (9) 4.2 Sensitivity to mesh fitting Considering the fact, that mesh fitting is only applied at
the walls of the obstacle, its effect on the upstream sec-
tion of the channel was expected to be marginal, which
is well-observable in Fig. 7 (vertical 3). In the shear layer,
the castellated and snapped meshes show almost identical
behavior for both velocities and TKE, however, the addi-
tional parallel cell layer around the structure, which is
believed to be the most sophisticated method, provides
notable worse results. Similar behavior is observed in
the recirculation zone (vertical 13), where the strength of
the recirculation current is underestimated in model vari-
ant M2. With respect to TKE, the most primitive meshing
method (M1) provides the best agreement with the exper-
imental data. The contradictory behavior of the add-lay-
ers mesh is noted. In mechanical engineering such mesh-
ing is often used to resolve the turbulent boundary layer
around solid surfaces, however, in such cases multiple and
very fine resolution layers are employed. Considering the
aims of this study, and CFD modeling in hydraulic engi-
neering in general, such a refinement is usually unneces-
sary. The presented results suggest, that in cases, where
the computational resources do not allow such multi-
layer refinement at the solid boundary, the applicability
of add-layers mesh with a single parallel cell layer is not
recommended, despite the fact that it is believed to be the
most advanced meshing method from the tested ones. Fig. 5 Vertical velocity and TKE profiles from probes of different flow
regimes for mesh resolution analysis The observed agreement in case of the two finest model
variants (REF, G3) is considered very reasonable, while
the lack of sufficient cells in the vertical direction results
in notable inaccuracies on the coarser meshes. Similarly,
in case of the recirculation zone (vertical 13) the two finer
model variants provide the best approximation for the
flow velocities, however, a slightly contradictory behav-
ior is observed in case of the TKE, where notable over-
prediction occurs. In terms of overall accuracy, the gain with the finest res-
olution (compared to the reference setup) is not that nota-
ble with respect to the massive increase of computational
demand. On a personal computer (PC) with 16 logical
processors with 3.60 GHz basic speed and 32 Gb random
access memory (RAM) the coarsest simulation took only
a couple of hours, while the finest is about 2 weeks. Fig. 4.1 Grid convergence Results of the grid convergence study is presented in
Fig. 5. (For the location of the measurement verticals,
please see Fig. 3.) It is observed, that the steady, logarith-
mic flow velocity profile at the upstream side of the obsta-
cle (vertical 3) is rather well reproduced at all spatial res-
olutions. Despite the symmetric geometry, the automatic
mesh generation algorithm in the snappyHexMesh tool
occasionally provided asymmetric computational grids,
which was found to result in erroneous, also asymmetric
hydrodynamic solutions: the jet between the structure legs
attaches to one of the legs, losing its oscillatory nature. This feature corrupted the time-averaged velocity distri-
butions as well. In order to resolve this problem, an addi-
tional row of cells was added width-wise, which replaced
the cell faces in the longitudinal symmetry plane of the
numerical channel with a cell center. The performance of three frequently used k-ω-based
turbulence closures were tested for the reproduction of
main flow features as well as turbulence characteristics. The standard k-ω, the k-ω SST, and the k-ω SST with Fig. 4 Instantaneous velocity distribution represented with streamlines
(reference model setup) Vertical 8 is located in the shear layer between high
velocity and the recirculation zone, whose numerical
representation is believed to be rather challenging. Fig. 4 Instantaneous velocity distribution represented with streamlines
(reference model setup) Grivalszki et al. Period. Polytech. Civ. Eng., 65(1), pp. 109–119, 2021|115 Fig. 6 RMSE values for mesh resolution sensitivity analysis Fig. 5 Vertical velocity and TKE profiles from probes of different flow
regimes for mesh resolution analysis Fig. 6 RMSE values for mesh resolution sensitivity analysis Fig. 6 RMSE values for mesh resolution sensitivity analysis The authors acknowledge, that additional mesh refine-
ment might further increase model accuracy, however, the
general hydraulic behavior of the structure is well repre-
sented with the reference model already. In order to opti-
mize resolution and computational time, more advanced
dynamic, flow adaptive meshing methods should also be
considered [27]. 4.2 Sensitivity to mesh fitting 6
shows the RMSE of the different cases for the measured
points. Results show the expected gradual improvements
achieved with mesh refinement, especially in case of ux. 116|Grivalszki et al. Period. Polytech. Civ. Eng., 65(1), pp. 109–119, 2021 116|Grivalszki et al. Period. Polytech. Civ. Eng., 65(1), pp. 109–119, 2021 RMSE shows that castellated mesh produces the best
results in general, however, difference compared to
snapped mesh is relatively small (Fig. 8). The approaching, logarithmic flow profile is rather accu-
rately reproduced with all turbulence closures, however,
the k-ω model shows a very notable overproduction of
TKE in this area. Regarding the near-bed (measured) sec-
tion of vertical 3, the k-ω SST and the modified k-ω SST
models show rather similar results, the physically unre-
alistic overproduction of turbulence in the proximity of 4.3 Effect of turbulence modeling In terms of turbulence modeling, the underperformance of
the standard k-ω model is the most obvious (Figs. 9 and 10). In terms of turbulence modeling, the underperformance of
the standard k-ω model is the most obvious (Figs. 9 and 10). models show rather similar results, the physically unre
alistic overproduction of turbulence in the proximity of
Fig. 7 Vertical velocity and TKE profiles from probes of different flow
regimes for mesh fitting analysis
Fig. 8 RMSE values for mesh fitting sensitivity analysis
Fig. 9 Vertical velocity and TKE profiles from probes of different flow
regimes for different turbulence models
Fig. 10 RMSE values for different turbulence models Fig. 7 Vertical velocity and TKE profiles from probes of different flow
regimes for mesh fitting analysis Fig. 7 Vertical velocity and TKE profiles from probes of different flow
regimes for mesh fitting analysis Fig. 9 Vertical velocity and TKE profiles from probes of different flow
regimes for different turbulence models Fig. 9 Vertical velocity and TKE profiles from probes of different flow
regimes for different turbulence models Fig. 7 Vertical velocity and TKE profiles from probes of different flow
regimes for mesh fitting analysis Fig. 7 Vertical velocity and TKE profiles from probes of different flow
regimes for mesh fitting analysis Fig. 9 Vertical velocity and TKE profiles from probes of different flow
regimes for different turbulence models Fig. 9 Vertical velocity and TKE profiles from probes of different flow
regimes for different turbulence models Fig. 8 RMSE values for mesh fitting sensitivity analysis Fig. 10 RMSE values for different turbulence models Fig. 10 RMSE values for different turbulence models Fig. 8 RMSE values for mesh fitting sensitivity analysis Fig. 10 RMSE values for different turbulence models Fig. 8 RMSE values for mesh fitting sensitivity analysis Grivalszki et al. Period. Polytech. Civ. Eng., 65(1), pp. 109–119, 2021|117 Grivalszki et al. Period. Polytech. Civ. Eng., 65(1), pp. 109–119, 2021|117 Three automatized mesh-fitting algorithms of the
snappyHexMesh utility were used to generate compu-
tational grids of different complexity and their effect on
model accuracy was quantified. The most advanced (add
layers) method showed the worst performance, which
is probably a reason of the relatively coarse resolution. In mechanical engineering practice, where the near-wall
boundary zone has a more emphasized role, such meshing
is often used, however, with further refinements and mul-
tiple layers. 4.3 Effect of turbulence modeling In case of hydraulic engineering, such refine-
ments are often not remunerative, and thus, the applica-
tion of such meshing options on coarser resolutions are not
necessary advised. the free surface is observed in case of the former, while
the buoyance modification in the latter seems to resolve
this issue. While measurements are not available to the
near surface region of the flow, considering the expected
velocity profile in such a unidirectional, log-profile flow,
the authors believe that the buoyancy modified turbulence
model provides the more plausible results in this vertical. p
p
Nevertheless, in the recirculation zone (vertical 13)
a rather contradictory behavior is observed. While the ref-
erence model (using the modified k-ω SST model) pro-
vides the best approximation for the horizontal velocities,
the near-bed TKE is notably overpredicted compared to the
experimental results and the two inferior turbulence models. Despite of the differences, calculating RMSE for all
verticals reveals that the negative effect of the modification
is negligible globally, hence its use is recommended, espe-
cially if we have a scope of interest in the near free-surface
region (Fig. 10). The most relevant parameters of the com-
pared numerical model setups, as well as the RMSE values
are presented in Table 1. Nevertheless, in the recirculation zone (vertical 13)
a rather contradictory behavior is observed. While the ref-
erence model (using the modified k-ω SST model) pro-
vides the best approximation for the horizontal velocities,
the near-bed TKE is notably overpredicted compared to the
experimental results and the two inferior turbulence models.f Despite of the differences, calculating RMSE for all
verticals reveals that the negative effect of the modification
is negligible globally, hence its use is recommended, espe-
cially if we have a scope of interest in the near free-surface
region (Fig. 10). The most relevant parameters of the com-
pared numerical model setups, as well as the RMSE values
are presented in Table 1. The performance of three widely used variants of the
k-ω turbulence model (standard k-ω; k-ω SST; buoyancy-
modified k-ω SST) was tested for the prediction of highly
turbulent flow conditions around an obstacle of complex
geometry. Results emphasized the relevance of advanced tur-
bulence modeling solutions (sing the k-ω SST model). 4.3 Effect of turbulence modeling The buoyancy modified version of the k-ω SST model
aims to resolve the problem with turbulence overproduc-
tion at the proximity of the free surface in case of wave
simulations, however, the results presented in this paper
also showed its relevance for hydraulic engineering prob-
lems as well. It is noted, that the experimental setup did
not allow for the sampling of near-surface points of the
verticals, hence the beneficial effect of the buoyancy mod-
ified k-ω SST model could not be quantified. References [10] Phillips, N. A. "A coordinate system having some special advan-
tages for numerical forecasting", Journal of Meteorology, 14(2), pp. 184–185, 1957. https://doi.org/10.1175/1520-0469(1957)014<0184:ACSHSS>2.0.CO;2 [1]
Chow, V. T. "Open channel hydraulics", McGraw-Hill, New York,
NY, USA, 1959. [2]
Akan, A. O. "7 Bridge hydraulics", In: Open channel hydraulics,
Elsevier, Oxford, UK, 2006, pp. 266–314. [2]
Akan, A. O. "7 Bridge hydraulics", In: Open channel hydraulics,
Elsevier, Oxford, UK, 2006, pp. 266–314. https://doi.org/10.1016/B978-075066857-6/50008-4 https://doi.org/10.1016/B978-075066857-6/50008-4 [11] Baranya, S., Olsen, N. R. B., Józsa, J. "Flow Analysis of a River
Confluence with Field Measurements and Rans Model with Nested
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Blanckaert, K., Graf, W. H. "Mean Flow and Turbulence in Open-
Channel Bend", Journal of Hydraulic Engineering, 127(10), pp. 835–847, 2001. https://doi.org/10.1061/(ASCE)0733-9429(2001)127:10(835) [12] Haun, S., Olsen, N. R. B. "Three-dimensional numerical modelling
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Kahraman, R., Riella, M., Tabor, G. R., Ebrahimi, M., Djordjević,
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2020. https://doi.org/10.1080/00221686.2019.1631223 https://doi.org/10.1080/19942060.2011.11015381 [16] Higuera, P., Lara, J. L., Losada, I. 5 Summary and conclusionsl In this study, flow of constant discharge around a hydrau-
lic structure of complex geometry was investigated with
the open-source CFD tool OpenFOAM. In order to verify
the numerical results and to ensure the quantitative com-
parability of various numerical setups, laboratory experi-
ments were performed with an ADV. The high-frequency
velocity data was used to calculate pointwise, time-aver-
aged velocity vectors as well as to derive TKE. One of the main goals of CFD modeling in hydraulic
engineering is to replace costly and time-consuming phys-
ical model experiments. However, the results of this study
underlined the relevance of such experimental work, more
specifically, the advantages of combined hybrid model sys-
tems. The relatively high sensitivity of CFD models to the A set of numerical models were built with identical
geometry and boundary conditions to the experimental
setup. A grid convergence study was performed to find the
necessary spatial mesh resolution for the adequate repre-
sentation of the prevailing flow conditions. Table 1 All model setups and root mean square errors compared to measurements
#
Mesh resolution
Mesh fitting method
turbulence modeling
RMSE Ux
RMSE Uy
RMSE TKE
G1
10 mm
snapped mesh
modified k-ω SST
0.0363
0.0175
0.00273
G2
7.5 mm
snapped mesh
modified k-ω SST
0.0322
0.0170
0.00226
REF
5 mm
snapped mesh
modified k-ω SST
0.0215
0.0155
0.00185
G3
4 mm
snapped mesh
modified k-ω SST
0.0177
0.0144
0.00170
M1
5 mm
castellated mesh
modified k-ω SST
0.0209
0.0129
0.00175
M2
5 mm
add layers mesh
modified k-ω SST
0.0332
0.0136
0.00184
T1
5 mm
snapped mesh
k-ω SST
0.0209
0.0150
0.00184
T2
5 mm
snapped mesh
k-ω
0.0271
0.0149
0.00258 Table 1 All model setups and root mean square errors compared to measurements 118|Grivalszki et al. Period. Polytech. Civ. Eng., 65(1), pp. 109–119, 2021 Acknowledgementsi choice of meshing and other numerical methods/parame-
ters, the relevance of preliminary model test is emphasized,
however, once a case-specifically well-verified, robust
computational model is at hand, the role of numerical mod-
eling is strengthened, as they offer faster and much cheaper
analysis compared to physical models, especially if a large
number of model variants are to be assessed. It is also
noted that CFD modeling not only offers the spatially more
extensive analysis of the hydrodynamic characteristics,
but also allows for the evaluation of flow variables in areas
where conventional (ADV, Particle Image Velocimetry,
Laser Doppler Velocimetry, etc.) measurements cannot be
performed due to spatial or other restrictions. The first and the second authors acknowledge the support
of the ÚNKP-19-3, while the third author the support of
the ÚNKP-19-4 New National Excellence Program of the
Ministry for Innovation and Technology. The third author
acknowledges the support of the Bolyai János research
fellowship of the Hungarian Academy of Sciences. Support of grant BME FIKP-VÍZ by EMMI is also kindly
acknowledged. The authors acknowledge the funding of
the OTKA FK 128429 grant. Special thanks to VITUKI
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English
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ASTRAL-III: polynomial time species tree reconstruction from partially resolved gene trees
|
BMC bioinformatics
| 2,018
|
cc-by
| 13,180
|
© The Author(s). 2018 Open Access This article is distributed under the terms of the Creative Commons Attribution 4.0
International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and
reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the
Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver
(http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated. Abstract Background: Evolutionary histories can be discordant across the genome, and such discordances need to be
considered in reconstructing the species phylogeny. ASTRAL is one of the leading methods for inferring species trees
from gene trees while accounting for gene tree discordance. ASTRAL uses dynamic programming to search for the
tree that shares the maximum number of quartet topologies with input gene trees, restricting itself to a predefined
set of bipartitions. Results: We introduce ASTRAL-III, which substantially improves the running time of ASTRAL-II and guarantees
polynomial running time as a function of both the number of species (n) and the number of genes (k). ASTRAL-III limits
the bipartition constraint set (X) to grow at most linearly with n and k. Moreover, it handles polytomies more efficiently
than ASTRAL-II, exploits similarities between gene trees better, and uses several techniques to avoid searching parts of
the search space that are mathematically guaranteed not to include the optimal tree. The asymptotic running time of
ASTRAL-III in the presence of polytomies is O
(nk)1.726D
where D = O(nk) is the sum of degrees of all unique nodes
in input trees. The running time improvements enable us to test whether contracting low support branches in gene
trees improves the accuracy by reducing noise. In extensive simulations, we show that removing branches with very
low support (e.g., below 10%) improves accuracy while overly aggressive filtering is harmful. We observe on a
biological avian phylogenomic dataset of 14K genes that contracting low support branches greatly improve results. Conclusions: ASTRAL-III is a faster version of the ASTRAL method for phylogenetic reconstruction and can scale up
to 10,000 species. With ASTRAL-III, low support branches can be removed, resulting in improved accuracy. Keywords: Phylogenomics, Incomplete lineage sorting, ASTRAL Keywords: Phylogenomics, Incomplete lineage sorting, ASTRAL Keywords: Phylogenomics, Incomplete lineage sorting, ASTRAL (while “gene trees” need not be inferred from functional
genes, following the conventions of the field, we will refer
to them as such). This two-step approach stands in con-
trast to concatenation [8], where all the data are combined
and analyzed in a single analysis. The two-step approach
aims to account for discordances between gene trees and
the species tree (but its effectiveness is debated [9–12])
and is more computationally efficient than statistical co-
estimation of gene trees and the species tree [13]. Incom-
plete lineage sorting (ILS) is a ubiquitous [14] cause of
discordance. ASTRAL-III: polynomial time species tree
reconstruction from partially resolved gene
trees From RECOMB-CG - 2017: The Fifteenth RECOMB Comparative Genomics Satellite Conference
Barcelona, Spain. 04-06 October 2017 Abstract ILS is typically modeled by the multi-species
coalescent model (MSCM) [15, 16], where branches of
the species tree represent populations, and lineages are Zhang et al. BMC Bioinformatics 2018, 19(Suppl 6):153
https://doi.org/10.1186/s12859-018-2129-y Zhang et al. BMC Bioinformatics 2018, 19(Suppl 6):153
https://doi.org/10.1186/s12859-018-2129-y *Correspondence: smirarab@ucsd.edu
1Department of Electrical and Computer Engineering, University of California
at San Diego, 9500 Gilman Drive, La Jolla, CA 92093-0021, USA
Full list of author information is available at the end of the article Background The potential for genome-wide discordance of evolution-
ary histories [1, 2] has motivated the development of
several approaches for species phylogeny reconstruction. Reconstructing a collection of gene trees, each inferred
from a different part of the genome, and then summa-
rizing them to get a species tree is one such approach
and is used by many phylogenomic projects (e.g., [3–7]) *Correspondence: smirarab@ucsd.edu
1Department of Electrical and Computer Engineering, University of California
at San Diego, 9500 Gilman Drive, La Jolla, CA 92093-0021, USA
Full list of author information is available at the end of the article Zhang et al. BMC Bioinformatics 2018, 19(Suppl 6):153 Page 16 of 62 where N(g) is the set of all partitions representing all
internal nodes in the tree g. We also define D as the sum
of the cardinalities of unique partitions in gene trees: allowed to coalesce inside each branch; lineages that fail
to coalesce at the root of each branch are moved to the
parent branch. p
Many “summary” methods have been developed to infer
a species tree from a collection of input trees. Examples
include MP-EST [17], NJst [18], ASTRID [19], DISTIQUE
[20], ASTRAL [21, 22] and STAR [23], which only use
gene tree topologies, and GLASS [24] and STEAC [23],
which also use branch lengths. These methods are all
proved statistically consistent under the MSCM, given
error-free input gene trees; when input trees are inferred
from sequence data, statistical consistency is not guar-
anteed [25]. Most methods take rooted gene trees as
input, but some methods (e.g., ASTRAL, NJst/ASTRID
and DISTIQUE) use unrooted input trees. ASTRAL-II
[22] is currently one of the commonly used summary
methods. D =
(M,c)∈E
|M| . (2) (2) ASTRAL-I and ASTRAL-II algorithms ASTRAL solves a constrained version of the problem
where a set of clusters X restricts bipartitions that the
output species tree may include (recall ∀A ∈X : L −
A
∈
X). Note that setting X to the powerset solves
the unconstrained problem. Based on the fact that an
unrooted quartet species tree always matches the most
likely unrooted quartet gene tree [27], ASTRAL is proved
statistically consistent [21]. Lafond and Scornavacca recently proved this problem is
NP-hard [26]. In this paper, we introduce an improved version of
ASTRAL called ASTRAL-III. As we will show, compared
to ASTRAL-II, the new version has better running time
without sacrificing accuracy. The improvements in the
running time are both theoretical (reducing the asymp-
totic running time so that it is guaranteed to grow polyno-
mially with the dataset size) and empirical. ASTRAL (old versions) The problem addressed by ASTRAL is to find the tree
that shares the maximum number of induced quartet
topologies with the collection of input gene trees: Problem statement: Given a set G of input gene trees,
find the species tree t that maximizes
g∈G |Q(g) ∩
Q(t)|. Problem statement: Given a set G of input gene trees,
find the species tree t that maximizes
g∈G |Q(g) ∩
Q(t)|. Lafond and Scornavacca recently proved this problem is
NP-hard [26]. Notations and definitions ASTRAL-II requires
d3
time
for computing QI(.), making its overall running time E =
⎧
⎨
⎩
⎛
⎝M,
g∈G
|N(g) ∩{M}|
⎞
⎠: M ∈N(g), g ∈G
⎫
⎬
⎭ (1) Zhang et al. BMC Bioinformatics 2018, 19(Suppl 6):153 Page 17 of 62 Page 17 of 62 O
n3k|Y|
with polytomies of unbounded degrees or
O(nk|Y|) in the absence of polytomies. Beyond
large
k,
ASTRAL-II,
which
scales
as
O
n3 k|X|1.726
in the presence of polytomies, can quickly
become prohibitively slow for input trees with large poly-
tomies. ASTRAL-III uses a mathematical trick to enable
scoring of gene tree polytomies in time similar to binary
nodes. The ability to handle large polytomies in input
gene trees is important for two reasons. Some of the con-
ditions that are conducive to ILS, namely shallow trees,
are also likely to produce identical gene sequence data for
several species. The gene tree should leave the relation-
ship between identical sequences unresolved (FastTree
[32] automatically does it and RAxML, which outputs
an arbitrary resolution, warns the user about the input). Moreover, all summary methods, including ASTRAL, are
sensitive to gene tree estimation error [22, 33–37]. One
way of dealing with gene tree error, previously studied
in the context of minimizing deep coalescence [38], is to
contract low support branches in gene trees and use these
unresolved trees as input to the summary method. While
earlier studies found no evidence that this approach helps
ASTRAL-II when the support is judged by SH-like Fast-
Tree support [22], no study has tested this approach with
bootstrap support values. We will for the first time eval-
uate the effectiveness of contracting branches with low
bootstrap support and show that conservative filtering of
very low support branches does, in fact, help the accuracy. Noting trivially that |Y| < |X|2, the previously published
running time analysis of ASTRAL-II was O
nk|X|2
for
binary gene trees and O
n3k|X|2
for trees with poly-
tomies. A recent result by Kane and Tao [28] (moti-
vated by the analysis of ASTRAL) proved that |Y| ≤
|X|3/log3(27/4). This result immediately gives us a better
upper bound on the running time. Corollary 1 ASTRAL-II runs in O
nk|X|1.726
and
O
n3k|X|1.726
, respectively, with and without polytomies
in gene trees. ASTRAL-III
ASTRAL-III has six new features: ASTRAL-III has six new features: 1. Heuristics for building the set X are modified to
ensure |X| = O(nk). This step alone (without
subsequent improvements) guarantees the overall
running time is O
(nk)2.726
for binary gene trees
and O
n4.726k2.726
for polytomies. Notations and definitions Let the set of n species be called L and let G be the
set of k input gene trees on L. Let [ d] represent the set
{1, 2 . . . , d}. We use Q(t) to denote the set of quartet trees
induced by a tree t. Any subset of L is called a cluster. We define a partition as a set of clusters that are pairwise
mutually exclusive; note that we abuse the term “parti-
tion” here because the union of all clusters in a partition
need not give the complete set. Each node in an unrooted
tree defines a partition. A bipartition (tripartition) is a
partition with cardinality two (three); a partition with car-
dinality at least four corresponds to a multifurcation (also
referred to as a polytomy). Let X (the constraint biparti-
tion set) be a set of clusters such that for each A ∈X, we
also have L −A ∈X. We use Y to represent the set of all
tripartitions that can be build from X: ASTRAL uses dynamic programming to solve the prob-
lem using the recursive relation: V(A) =
0
|A| = 1
maxA′⊂A,(A′|A−A′|L−A)∈Y V(A, A′) |A| > 1
V(A, A′) = V(A′) + V(A −A′) + w(A′|A −A′|L −A) where the function w(T) scores each tripartition T =
(A|B|C) against each node in each input gene tree. Let par-
tition M = (M1|M2|...|Md) represent an internal node of
degree d in a gene tree. The overall contribution of T to
the score of any species tree that includes T is: w(T) =
g∈G
M∈N(g)
1
2QI(T, M)
(3) (3) where, defining ai = |A ∩Mi|, bi = |B ∩Mi|, and ci =
|C ∩Mi|, we have: Y={(A′, A−A′, L−A):A′ ⊂A, A ∈X, A′ ∈X, A−A′ ∈X} . QI(T, M) =
i∈[d]
j∈[d]−{i}
k∈[d]−{i,j}
ai + bj + ck −3
2
aibjck . (4) We use E to denote the set of all unique partitions and
their frequency in G. Thus, (4) As previously proved [21], QI(T, M) computes twice
the number of quartet trees that are going to be shared
between any two trees if one includes only T and the
other includes only M. Notations and definitions Corollary 1 ASTRAL-II runs in O
nk|X|1.726
and
O
n3k|X|1.726
, respectively, with and without polytomies
in gene trees. In ASTRAL-I, X is the set of all bipartitions observed
in input gene trees. While sufficient for statistical con-
sistency and often for accuracy, under some conditions,
this set X is too restrictive. To address this shortcoming,
ASTRAL-II [22] uses several heuristics (see Additional
file 1: Appendix A) and further expands the set X. Even
though ATRAL-II tries to limit |X|, it does not provide any
guarantees as to how it grows with n and k. In the worst
case, |X| can grow exponentially, and thus, ASTRAL-II
does not guarantee polynomial running time. The rela-
tively high accuracy of ASTRAL-II has been shown in
several simulations [20, 22, 29, 30] and it has been adopted
by the community as one of the main methods used
in phylogenomics. ASTRAL has the ability to compute
branch lengths in coalescent units [2] and a measure of
branch support called local posterior probability [31]. ASTRAL-III ASTRAL-III
ASTRAL-III has six new features: ASTRAL-III
ASTRAL-III has six new features: New search space: |X| = O(nk) ASTRAL-II uses several heuristic methods to build X (see
the original paper [22] for details). The main method
involves computing several extended majority consensus
trees from gene trees and then resolving polytomies in
these consensus trees using three techniques (mentioned
below). These steps are repeated for 10 rounds or more
until very few (less than a constant threshold) of the bipar-
titions observed are new to X. Because the number of
rounds is not constant or a function of n and k, we can-
not bound how X grows with n and k for ASTRAL-II. In
ASTRAL-III, we limit the number of rounds by a con-
stant value (default set to 110). This enables us to provide
guarantees of a polynomial growth of |X| with n and k. y
y
The second change in ASTRAL-III is that we now use
a UPGMA tree inferred based on the similarity matrix
as the guide tree. We observed that the UPGMA tree
summarizes the input gene trees more accurately than
the greedy tree (see Additional file 1: Table S1). Finally,
in ASTRAL-III, we improve the definition of the sim-
ilarity matrix in the presence of gene tree polytomies. Unlike in ASTRAL-II, we ensure that unresolved quartet
trees induced by gene trees do not increase the similar-
ity between pairs of taxa included in those quartets. Note
that the similarity matrix, which is based on quartets,
should not be confused with the quartet score optimized
by ASTRAL. To get to X = O(nk), we need further changes. As men-
tioned, three techniques are used to resolve each poly-
tomy of degree d in extended majority consensus trees. The first technique uses a precomputed distance matrix to
build a UPGMA tree starting from sides of the polytomy
and adds the new bipartitions from the UPGMA tree to X. This can only add O(d) = O(n) resolutions. The second
technique computes a greedy consensus of gene trees sub-
sampled to randomly selected taxa (one from each side of
the polytomy) and adds bipartitions from the greedy con-
sensus to X. This also can only add O(d) new bipartitions. The third resolution samples a taxon from each side of the
polytomy, computes d caterpillar trees, each constructed
based on decreasing similarity to each sampled taxon, and
adds the bipartitions from all these caterpillar trees to X. New search space: |X| = O(nk) This quadratic resolution step can add O
d2
= O
n2
bipartitions to X. To have |X| = O(n), we need to change
this step. Let d1 . . . dr be the list of all polytomy degrees
in an extended majority consensus tree in the ascend-
ing ordered. We find the smallest threshold q such that
q
i=1 d2
i
≤cn for some constant c (default = 25). In
ASTRAL-III, we apply the quadratic resolution technique
only for polytomies d1 . . . dq; this, by definition, ensures
no more than O(d) = O(n) bipartitions are added in each
round. Proof In (d) time, we can compute: Proof In (d) time, we can compute: Sa =
i∈[d]
ai and Sa,b =
i∈[d]
aibi
(5) (5) where ai = |A ∩Mi| and bi = |B ∩Mi|; we can also com-
pute Sb, Sc, Sa,c and Sb,c (similarly defined). Equation 4
computes twice the number of quartet tree topologies
shared between an unrooted tree with internal node T and Limitations of ASTRAL-II Several shortcomings of ASTRAL-II in terms of run-
ning time are addressed here (ASTRAL-III); our improve-
ments, in turn, enable new types of analyses. While ASTRAL-II can analyze datasets with a thou-
sand species and gene trees in reasonable time, it does
not easily scale to many tens of thousands of input trees. Datasets with more than ten thousand loci are already
available (e.g., [5]) and as more genomes are sequenced,
more are destined to become available in the near future. Moreover, being able to handle large k (i.e., numbers of
input trees) enables using multiple trees per locus (e.g., a
Bayesian sample) as input to ASTRAL. The limited scal-
ability of ASTRAL with k has two reasons. First, the set
X is not bounded in ASTRAL-II and can grow to become
the power set. Thus, in ASTRAL-II, |X| can theoretically
grow exponentially with n. We fix this in ASTRAL-III by
modifying heuristics that form the set X so that they all
guarantee that |X| = O(nk). The second cause of the slow-
down is that computing each w(T) for a tripartition T
requires (nk). This computation does not exploit simi-
larities between gene trees, a shortcoming that we fix in
ASTRAL-III.
2. Heuristics for building the set X are modified to
enlarge X for gene trees with polytomies without
breaking |X| = O(nk) guarantees. This can impact
the accuracy and empirical running times but not the
asymptotic running time. 3. A new way of computing w(q) is introduced to
reduce the running time for scoring a gene tree to
O(n), instead of O
n3
, in the presence of
polytomies. This step, combined with the previous
steps, reduces the total running time to O
(nk)2.726
irrespective of whether gene trees have polytomies. 4. A polytree is used to represent gene trees, and this
enables an algorithm that reduces the overall running
time from O
(nk)2.726
to O(D.(nk)1.726), which is
the final theoretical analysis of ATRAL-III running
time. 5. A new algorithm, similar to A* [39], is used to
compute an upper-bound on the best possible
resolution of a clade; we need not expand a clade Zhang et al. BMC Bioinformatics 2018, 19(Suppl 6):153 Page 18 of 62 compared to ASTRAL-II for multifurcating gene trees. However, |X| is enlarged at most by a constant factor and
we retain |X| = O(nk). Limitations of ASTRAL-II recursively when its upper-bound is below the best
available score. The worst case asymptotic running
time does not change due to this feature. recursively when its upper-bound is below the best
available score. The worst case asymptotic running
time does not change due to this feature. If a gene tree includes polytomies, ASTRAL-II adds
bipartitions implied by resolutions of that polytomy to the
set X using a guide tree g. To build g, a greedy consen-
sus of all gene trees is computed and is further refined to
become binary by applying UPGMA to each polytomy of
the greedy tree using a precomputed similarity matrix (see
the original paper [22] for details). To resolve a gene tree
polytomy of degree d, ASTRAL-II first randomly samples
d taxa, each from one side of the polytomy. Let S be the
sampled taxa. All bipartitions from the tree g restricted to
the set S of leaves are added to X. While in ASTRAL-II
this process is done only once, in ASTRAL-III, we repeat
the process three times with different random samples S. This increases |X| but at most by a constant factor. The
enlarged X can lead to improved accuracy when input
trees include many polytomies. 6. A two-stage heuristic mechanism is designed to
further tighten the upper bounds used in pruning
unnecessary parts of the search space. The worst case
asymptotic running time is not impacted. A beta version of ASTRAL-III was recently described
[40] and that version included features 3–5 but not the
others. We next describe each improvement. Efficient handling of Polytomies Recall that ASTRAL-II uses Eq. 4 to score a tripartition
against a polytomy of size d in (d3) time. Our next
Lemma shows that this can be improved. Lemma 1 Let QI(T, M) be twice the number of quar-
tet tree topologies shared between an unrooted tree that
only includes a node corresponding to the tripartition T =
(A|B|C) and another tree that includes only a node corre-
sponding to a partition M = (M1|M2|...|Md) of degree d;
then, QI(T, M) can be computed in time (d). Trimming of the dynamic programming We now introduce an upper-bound (proved in Additional
file 1: Appendix B): V(A) ≤U(A) = w(A|A|L)
2
−w(A|A|A)
3
. Lemma 2 The score of a tripartition T
= (A|B|C)
against all gene trees (i.e., the w(T) score) can be computed
in (D). Let U(A, A′′) = U(A′′) + U(A −A′′) + w(A′′|A −
A′′|L −A). Since V(A) ≤U(A), for any (A′|A −A′|L −
A′) ∈Y and (A′′|A −A′′|L −A′′) ∈Y, we no longer
need to recursively compute V(A′′) and V(A −A′′)
when U(A, A′′) ≤V(A, A′). When computing V(A) by
maximizing the score over all resolutions of A, imag-
ine that we first encounter A′ and then A′′. We avoid
expanding A′′ when U(A, A′′) ≤V(A, A′). This approach
clearly makes the order of processing of the resolutions
important. To heuristically improve the efficiency of this
approach, we order all (A′|A −A′|L −A) ∈Y according
to U(A, A′). Note that computing U(A) does not require
recursive computations down the dynamic programming
DAG. Thus, the use of this upper-bound results in the
trimming of the search space. However, as far as we
can tell, this trimming does not improve the theoretical
running time. Proof In ASTRAL-III, we keep track of nodes that
appear in multiple trees. This enables us to reduce the
total calculation by using multiplicities: w(T) =
(M,c)∈E
c × QI(T, M) . (7) (7) We achieve this in two steps. In the first step, for each
distinct gene tree cluster W, we compute the cardinality
of the intersection of W and sets A, B, and C once using
a depth-first search with memoization. Let children(W)
denote the set of children of W in an arbitrarily chosen
tree g ∈G containing W. Then, we have the following
recursive relation: |W ∩A| =
Z∈children(W)
|Z ∩A|
(8) (8) (ditto for |W ∩B| and |W ∩C|). All such intersection
values can be computed in a post-order traversal of a poly-
tree. In this polytree, all unique clusters in the gene trees
are represented as vertices and parent-child relations are
represented as edges; note that when a cluster has differ- New search space: handling gene tree polytomies We also change the way ASTRAL builds X in the pres-
ence of gene tree polytomies. Our goal is to increase |X| Zhang et al. BMC Bioinformatics 2018, 19(Suppl 6):153 Page 19 of 62 another tree with one internal node M [22]. Equation 4
can be rewritten as: ent resolutions in two different input trees, we arbitrary
choose one set of children in building the polytree. The
polytree will include no more than D edges; thus, the time
complexity of traversing this polytree (to compute Eq. 8)
for all nodes is O(D). Once all intersections are com-
puted, in the second step, we simply compute the sum in
Eq. 7. Each QI(.) computation requires (d) by Lemma 1. Recalling that D =
(M,c)∈E |M|, it is clear that com-
puting Eq. 7 requires (D). Therefore, both steps can be
performed in (D). QI ((A|B|C), M) =
i∈[d]
ai
2
(Sb −bi)(Sc −ci) −Sb,c + bici
+
i∈[d]
bi
2
(Sa −ai)(Sc −ci) −Sa,c + aici
+
i∈[d]
ci
2
(Sa −ai)(Sb −bi) −Sa,b + aibi
(6) (the
derivation
is
given
in
the
Additional
file
1:
Appendix B). Computing Eq. 6 instead of Eq. 4 clearly
reduces the running time to (d) instead of
d3
. Theorem 1 The running time of ASTRAL-III grows as
O
D(nk)1.726
for both binary and multifurcating gene
trees. ASTRAL needs to score each of the |Y| tripartitions
considered in the dynamic programming against each
internal node of each input gene tree. The sum of degrees
of k trees on n leaves is O(nk) (since that sum can never
exceed the number of bipartitions in gene trees) and thus: Proof By results of Kane and Tao [28], the size of
the set Y is O
|X|1.726
, and for each element in Y,
by Lemma 2, we require O(D) to compute the weights,
regardless of the presence or absence of polytomies. The running time of ASTRAL is dominated by comput-
ing the weights [22]. Thus, the overall running time is
O(D|Y|) = O
D|X|1.726
. Moreover, ASTRAL-III forces
|X| to grow as O(nk), giving the overall running time of
O
D(nk)1.726 Corollary 2 Scoring a tripartition (i.e., computing w)
can be done in O(nk). Gene trees as a Polytree ASTRAL-II scores each dynamic programming triparti-
tion against each individual node of each gene tree. How-
ever, nodes that are repeated in several gene trees need
not be recomputed. Recalling the definitions of E and D
(Eqs. 1 and 2), Datasets Let Uα(A, Aj)
be defined as min
U(Aj), αVα(Aj)
+min
U(A−Aj), αVα(A −Aj)
+ w(Aj|A −Aj|L −A) min
U(Aj), αVα(Aj)
+min
U(A−Aj), αVα(A −Aj)
+ w(Aj|A −Aj|L −A) min
U(Aj), αVα(Aj)
+min
U(A−Aj), αVα(A −Aj)
+ w(Aj|A −Aj|L −A) and note that Uα(A, Aj) ≥V(A, Aj) = V(Aj) + V(A −
Aj) + w(Aj|A −Aj|L −A). Thus, during the dynamic pro-
gramming, for i < j, if V(A, Ai) > Uα(A, Aj), then it
is guaranteed that V(A, Ai) ≥V(A, Aj), and thus we no
longer need to recursively compute V(Aj) and V(A −Aj). The hope is that the Uα function will give us tighter upper
bounds compared to the U function previously defined. Whether this happens or not depends on the choice of α,
the order of visiting clusters, and the particularities of a
dataset. and note that Uα(A, Aj) ≥V(A, Aj) = V(Aj) + V(A −
Aj) + w(Aj|A −Aj|L −A). Thus, during the dynamic pro-
gramming, for i < j, if V(A, Ai) > Uα(A, Aj), then it
is guaranteed that V(A, Ai) ≥V(A, Aj), and thus we no
longer need to recursively compute V(Aj) and V(A −Aj). The hope is that the Uα function will give us tighter upper
bounds compared to the U function previously defined. Whether this happens or not depends on the choice of α,
the order of visiting clusters, and the particularities of a
dataset. SimPhy-homogeneous (S100): We simulated a new
101-taxon dataset using SimPhy [42] with 50 replicates,
each with a different species tree. The species trees are
simulated under the birth-only process with birth rate
10−7, fixed haploid Ne of 400K, and the number of gen-
erations sampled from a log-normal distribution with
mean 2.5M. For each replicate, 1000 true gene trees are
simulated under the MSCM (exact commands shown in
Additional file 1: Appendix C and parameters given in
Additional file 1: Table S2). The average normalized RF
distance between true species trees and true gene trees
was in most replicates in the [0.3, 0.6] range, with an aver-
age of 0.46 (Fig. 1). We use Indelible [43] to simulate the
nucleotide sequences along the gene trees using the GTR
evolutionary model [44] with 4 different fixed sequence
lengths: 1600, 800, 400, and 200bp. Datasets We then use Fast-
Tree2 [32] to estimate both ML and 100 bootstrapped
gene trees under the GTR+ (requiring more than two
million runs in total). Gene tree estimation error, mea-
sured by the FN rate between the true gene trees and the
estimated gene trees, depended on the sequence length as
shown in Fig. 1 (0.55, 0.42, 0.31, and 0.23 on average for While any choice of α ≥1 would guarantee the correct
solution to the dynamic programming, we have empiri-
cally selected a heuristic to choose α. We set α = U(L)
g(L) ,
where g(A) = g(Ai)+g(A−Ai)+w(Ai|A−Ai|L−A) where
i = arg maxjU(Aj) + U(A −Aj) + w(Aj|A −Aj|L −A) and
g(A) = 0 for |A| = 1. Just as before, we order the clusters
in the decreasing order of U(A, Ai). Two-staged α-trimming In order to further trim the search space, another upper-
bound of V(A) is calculated. For a given α ≥1 and any
ordering of the set
A′ : (A′|A −A′|L −A) ∈Y
denoted
by A1 . . . Ar, we define Vα(A) as follows. Page 20 of 62 Page 20 of 62 Page 20 of 62 Zhang et al. BMC Bioinformatics 2018, 19(Suppl 6):153 Vαi(A) =
⎧
⎪⎨
⎪⎩
0,
i = 0
Vα(A, Ai), Vα(A, Ai) > αVαi−1(A)
Vαi−1(A),
otherwise
⎫
⎪⎬
⎪⎭
for 0 ≤i ≤r
Vα(A, Ai) = Vα(Ai) + Vα(A −Ai) + w(Ai|A −Ai|L −A) and
Vα(A) = Vαr(A) Vαi(A) =
⎧
⎪⎨
⎪⎩
0,
i = 0
Vα(A, Ai), Vα(A, Ai) > αVαi−1(A)
Vαi−1(A),
otherwise
⎫
⎪⎬
⎪⎭
for 0 ≤i ≤r
Vα(A, Ai) = Vα(Ai) + Vα(A −Ai) + w(Ai|A −Ai|L −A) and
Vα(A) = Vαr(A) Vαi(A) =
⎧
⎪⎨
⎪⎩
0,
i = 0
Vα(A, Ai), Vα(A, Ai) > αVαi−1(A)
Vαi−1(A),
otherwise
⎫
⎪⎬
⎪⎭
for 0 ≤i ≤r
Vα(A, Ai) = Vα(Ai) + Vα(A −Ai) + w(Ai|A −Ai|L −A) and
Vα(A) = Vαr(A) RQ1: Can contracting low support branches improve the
accuracy of ASTRAL?
RQ2: How do the running time and search space compare
between ASTRAL-II and ASTRAL-III?
RQ3: How accurate is ASTRAL-III, which guaran-
tees polynomial size search space, compared to
ATRAL-II? Datasets Avian biological dataset: Neoavian relationships show
extremely high levels of gene tree discord, perhaps
because their ancestors experienced a rapid radiation [5]. A dataset of 48 genomes representing all avian orders has
been used to partially resolve this rapid radiation [5]. A set
of 14,446 loci (including exons, introns, and UCEs) was
used to produce two reference species trees using con-
catenation and using a coalescent-based method [5, 33]. We use the set of all unbinned gene trees and compare
ASTRAL-III with and without contraction against both
reference trees. We can compute Vα(A) using an algorithm equivalent
to our dynamic programming for computing V(A), except
that, as resolutions of a clade A are being tested, a new one
is accepted only if it improves upon the previous best res-
olution by a factor of α (thus, α = 1 simply reproduces
our existing dynamic programming). When computing
Vα(A), for any i < j, if α (Vα(A, Ai)) ≥U(A, Aj), then
it is guaranteed that α (Vα(A, Ai)) ≥Vα
A, Aj
, and thus
we no longer need to recursively compute Vα(Aj) and
Vα(A −Aj). After all Vα(A) values are computed for some
choice of α, we turn to computing V(A). Simulated avian-like dataset: This simulated dataset,
previously used to emulate the biological avian dataset
[33], has three model conditions with respect to the sim-
ulated levels of ILS: 1X is the default, whereas 0.5X
divides each branch length in half (increasing ILS) and
2X multiplies them by 2 (reducing ILS). Average RF dis-
tances between true species tree and true gene trees
are 0.35, 0.47, and 0.59, respectively for 2X, 1X, and
0.5X. To further test the impact of gene tree estima-
tion error, sequence lengths were also varied to create
four model conditions: 250bp alignments (0.67 RF dis-
tance between true gene trees and estimated gene trees),
500bp (0.54 RF), 1000bp (0.39 RF) and 1500bp (0.30
RF), all based on the 1X ILS. We use 1000 gene trees,
and 20 replicates per condition. Gene trees are esti-
mated using RAxML [41] with 200 replicates of bootstrap-
ping. Observe that Vα(A) ≤V(A) ≤αVα(A). Experimental setup We study three research questions: RQ1: Can contracting low support branches improve the
accuracy of ASTRAL? RQ1: Can contracting low support branches improve the
accuracy of ASTRAL? RQ2: How do the running time and search space compare
between ASTRAL-II and ASTRAL-III? RQ2: How do the running time and search space compare
between ASTRAL-II and ASTRAL-III? RQ3: How accurate is ASTRAL-III, which guaran-
tees polynomial size search space, compared to
ATRAL-II? Zhang et al. BMC Bioinformatics 2018, 19(Suppl 6):153 Page 21 of 62 b
a
Fig. 1 Properties of the S100 dataset. a The density plot of the amount of true gene discordance measured by the FN rate between the true species
tree and the true gene trees. b The density plot of gene tree estimation error measured by FN rate between true gene trees and estimated gene
trees for different sets of sequence lengths b a b a Fig. 1 Properties of the S100 dataset. a The density plot of the amount of true gene discordance measured by the FN rate between the true species
tree and the true gene trees. b The density plot of gene tree estimation error measured by FN rate between true gene trees and estimated gene
trees for different sets of sequence lengths 200bp, 400bp, 800bp, and 1600bp, respectively). We sam-
ple 1000, 500, 200, or 50 genes to generate datasets with
varying numbers of gene trees. 200bp, 400bp, 800bp, and 1600bp, respectively). We sam-
ple 1000, 500, 200, or 50 genes to generate datasets with
varying numbers of gene trees. To measure the accuracy of estimated species trees, we
use False Negative (FN) rate. Note that in all our species
tree comparisons, FN rate is equivalent to normalized
Robinson–Foulds (RF) [46] metric because the ASTRAL
species trees are fully resolved. All running times are mea-
sured on a cluster with servers with Intel(R) Xeon(R) CPU
E5-2680 v3 @ 2.50GHz; each run was assigned to a single
process, sharing cache and memory with other jobs. SimPhy-ASTRAL2 (S200): This dataset (201 taxa) is
from the ASTRAL-II paper [22]. We use its most chal-
lenging model conditions with max tree height set to 500K
generations and two rates of speciation: 10−6 and 10−7
(respectively, recent and deep speciation events). Com-
pared to S100, this dataset has a much higher level of ILS. Experimental setup This was the only case in the ASTRAL-II paper where
enlarging X substantially impacted accuracy [22]. We use
S200 to test if our changes to X have compromised the
accuracy. Like S100, gene alignments have varying lengths
and mutation rates, leading to a wide range of gene tree
error [22]. We analyze the data using 1000, 200, or 50
genes, and each model condition has 50 replicates; follow-
ing the original paper, three replicates with low signal are
removed. S100 On this dataset, contracting very low support branches in
most cases improves the accuracy (Fig. 2 and Additional
file 1: Table S3). However, the excessive removal of
branches with high, moderate, or occasionally low sup-
port degrades the accuracy. Nevertheless, filtering at 10%
is always beneficial on average (Additional file 1: Table S3). The threshold where contracting starts to become detri-
mental depends on the condition, especially the number
of gene trees and the alignment length, perhaps represent-
ing a signal to noise ratio trade-off. RQ1: Impact of contracting low support branches on
accuracy We investigate RQ1 on the two simulated datasets where
bootstrapping was feasible (avian and S100) and on the
real avian dataset. On S200, due to its size, bootstrapping
was not feasible and thus we cannot test RQ1. Methods and Evaluation We compare ASTRAL-III (version 5.5.4) to ASTRAL-II
(version 4.11.1) in terms of running time and accuracy. To address RQ1, we draw bootstrap support values on the
ML gene trees and then contract branches with bootstrap
support up to a threshold (0, 3, 5, 7, 10, 20, 33, 50, and
75%,) using the newick utility package [45]. Together with
the original gene trees, we have 10 different versions of
ASTRAL-III. As the number of genes increases, the optimal thresh-
old for contracting also tends to increase. Combin-
ing all model conditions, the error continues to drop Zhang et al. BMC Bioinformatics 2018, 19(Suppl 6):153 Page 22 of 62 Fig. 2 Impact of contraction on the S100 dataset. The FN error of ASTRAL-III species trees is shown on the S100 dataset given k = 50, 200, 500, or
1000 genes (boxes) run on the original FastTree gene trees (non) or gene trees with branches with ≤{0, 3, 5, 7, 10, 20, 33, 50}% support contracted
(x-axis). Average FN error and standard error bars (200 replicates) are shown with the four alignment lengths combined (black solid line). average FN
error broken down by alignment length (50 replicates) is also shown (dashed colored lines) Fig. 2 Impact of contraction on the S100 dataset. The FN error of ASTRAL-III species trees is shown on the S100 dataset given k = 50, 200, 500, or
1000 genes (boxes) run on the original FastTree gene trees (non) or gene trees with branches with ≤{0, 3, 5, 7, 10, 20, 33, 50}% support contracted
(x-axis). Average FN error and standard error bars (200 replicates) are shown with the four alignment lengths combined (black solid line). average FN
error broken down by alignment length (50 replicates) is also shown (dashed colored lines) with a resolution around difficult species tree branches
are left. until a 20% contracting threshold with 1000 genes,
whereas no substantial improvement is observed after
contracting branches with 5% support for 50 genes
(Fig. 2). Nevertheless, removing branches with 10% or
20% does not increase the error with 50 genes. Perhaps,
with few gene trees, removing branches of low sup-
port leaves us with very little information left; thus,
regardless of whether we contract or not, we don’t get
much signal around the most difficult branches. Methods and Evaluation In con-
trast, when many gene trees are given, perhaps even
after removing many branches, still enough gene trees The alignment length and gene tree error also impact
the effect of contraction. For short alignments (200bp)
and 1000 genes, contracting branches with up to 10%
support reduces the species tree error by 21% (from
8.8% with no contraction to 6.9%). As alignment length
grows, benefits of gene tree contraction diminish, so that
with 1600bp genes, the reduction in error is merely from
4.1 to 3.7%. This pattern is perhaps expected because,
with longer alignments, branch support is expected to Fig. 3 Impact of contraction on the avian simulated dataset. The FN error of ASTRAL-III species trees is shown on the avian simulated dataset given
k = 1000 genes with (left) fixed sequence lengths = 500 and varying levels of ILS, or (right) fixed ILS (1X) and varying sequence length, in each case
both with full FastTree gene trees (non) or trees with branches with ≤{0, 3, 5, 7, 10, 20, 33, 50}% support contracted (x-axis). Average and standard
error bars are shown for all conditions combined (black solid line) and also for each model condition separately (dashed color lines). Each model
condition has 20 replicates Fig. 3 Impact of contraction on the avian simulated dataset. The FN error of ASTRAL-III species trees is shown on the avian simulated dataset given
k = 1000 genes with (left) fixed sequence lengths = 500 and varying levels of ILS, or (right) fixed ILS (1X) and varying sequence length, in each case
both with full FastTree gene trees (non) or trees with branches with ≤{0, 3, 5, 7, 10, 20, 33, 50}% support contracted (x-axis). Average and standard
error bars are shown for all conditions combined (black solid line) and also for each model condition separately (dashed color lines). Each model
condition has 20 replicates Zhang et al. BMC Bioinformatics 2018, 19(Suppl 6):153 Page 23 of 62 increase. Thus, with longer gene alignments and con-
sequently better gene trees with higher support, there
is less room for improvement by reducing the noise. Consistent with this explanation, grouping replicates
based on average gene tree error gives similar results
as grouping by alignment length (see Additional file 1:
Figure S1). thresholds and < 26 hours for 33 – 75%). Methods and Evaluation Contract-
ing 0% branches has minimal impact on the discordance
(eight discordant branches with binned MP-EST instead
of nine). However, contracting low support branches with
3–33% thresholds dramatically reduces the discordance
with the reference tree (2, 2, 4, 2, 3, and 3 discor-
dant branches, respectively, for 3, 5, 7, 10, 20, and 33%). Three thresholds (3, 5, and 10%) produce an identical
tree (Fig. 4d). The remaining differences are among the
branches that are deemed unresolved by Jarvis et al. and
change among the reference trees as well [5]. Contracting
at 50 and 75% thresholds, however, increases discordance
to five and six branches, respectively. RQ2: Running time improvements
Varying the number of genes (k) Varying the number of genes (k)
We compare ASTRAL-III to ASTRAL-II on the avian
simulated dataset, changing the number of genes from
28 to 214 and forcing X to be the same for both ver-
sions to enable comparing impacts of improved weight
calculation (Fig. 5). We allow each replicate run to
take up to two days. ASTRAL-III improves the running
time over ASTRAL-II and the extent of the improve-
ment depends on k (see Additional file 1: Figure S2). With 1000 genes or more, there is at least a 2.1X improve-
ment. With 213 genes, the largest value where both ver-
sions could run, ASTRAL-III finishes on average 3.2
times faster than ASTRAL-II (234 versus 758 minutes). ASTRAL-II is not able to finish on the dataset with k =
214, while ASTRAL-III finishes on all conditions. More-
over, fitting a line to the average running time in the
log-log scale graph reveals that on this dataset, the run-
ning time of ASTRAL-III on average grows as O(k2.08),
which is better than that of ASTRAL-II at O(k2.28), and
both are better than the theoretical worst case, which
is O(k2.726). These results are consistent with the fact
that ASTRAL-III considers similarities between gene tree
nodes. Avian biological dataset The original analyses on this dataset [5, 33] report that
MP-EST [17] run on 14,446 gene trees produces a tree
that conflicts with strong evidence from the literature
and other analyses on the same dataset. The statistical
binning method was developed to address this shortcom-
ing by combining loci together to reduce gene tree error
[33, 34]. MP-EST run on binned gene trees (i.e., binned
MP-EST) produced results [5, 33] that were largely con-
gruent with the concatenation using ExaML [47] and
differed in only five branches with low support (Fig. 4a, b);
both trees were used as the reference [5]. Here, we test
if simply contracting low support gene tree branches and
using ASTRAL-III produces trees congruent with the
reference trees. Similar to MP-EST, when ATRAL-III is run on 14,446
gene trees with no contraction, the results differ in nine
and 11 branches, respectively, with respect to the refer-
ence binned MP-EST and concatenation trees (Fig. 4c). Moreover, this tree contradicts some strong results from
the avian analyses (e.g., not recovering the Columbea
group [5]). ASTRAL-III with no contraction finishes
in 32 hours, but with contraction, depending on the
threshold, it takes 3 to 84 h (>
50 h for 0 – 20% Similar to MP-EST, when ATRAL-III is run on 14,446
gene trees with no contraction, the results differ in nine
and 11 branches, respectively, with respect to the refer-
ence binned MP-EST and concatenation trees (Fig. 4c). Moreover, this tree contradicts some strong results from
the avian analyses (e.g., not recovering the Columbea
group [5]). ASTRAL-III with no contraction finishes
in 32 hours, but with contraction, depending on the
threshold, it takes 3 to 84 h (>
50 h for 0 – 20% avian-like simulations On the avian simulated dataset, contracting low support
branches helps accuracy marginally, but the extent of
impact depends on the model condition (Fig. 3). With
moderate ILS (2X), we see no improvements as a result
of contracting low support branches, perhaps because
the average error is below 5% even with no contraction,
leaving little room for improvements. Increasing ILS, we
start to see improvements using contracted gene trees. Removing branches of up to 5% support reduces the error
from 13 to 11% with 0.5X, and from 8 to 7% for the 1X
condition. Thus, consistent with simulations, contracting very low
support branches seems to produce the best results,
when judged by similarity with the reference trees. To
summarize, ASTRAL-III obtained on unbinned but col-
lapsed gene trees agreed with all major relations in Jarvis
et al., including the novel Columbea group, whereas the
unresolved tree missed important clades (Fig. 4). When ILS is fixed to 1X and sequence length is varied
(Fig. 3), contracting is helpful mostly with short sequences
(e.g., 250 bp). With longer sequences, where gene tree esti-
mation error is low, little or no improvement in accuracy
is obtained. The best accuracy is typically observed by
contracting at 0–5%. The gains in accuracy comparing
no contraction to contraction at 0, 3, 5% thresholds are
statistically significant (p
=
0.017, 0.028, and 0.013)
according to one-tailed paired t-tests. Running time for large polytomies y
ASTRAL-III has a clear advantage compared to ASTRAL-
II with respect to the running time when gene trees
include polytomies (Fig. 6a and Additional file 1:
Figure S3). Since ASTRAL-II and ASTRAL-III can have
a different set X, we show the running time per each
weight calculation (i.e., Eq. 3). As we contract low
support branches and hence increase the prevalence of Zhang et al. BMC Bioinformatics 2018, 19(Suppl 6):153 Page 24 of 62 Page 24 of 62 Zhang et al. BMC Bioinformatics 2018, 19(Suppl 6):153 The search space polytomies, the weight calculation time quickly grows for
ASTRAL-II, whereas, in ASTRAL-III, the weight calcu-
lation time remains flat, or even decreases. These results
are consistent with a change of asymptotic running time
to score a polytomy of size d from O(d3) in ASTRAL-II to
O(d) in ASTRAL-III. polytomies, the weight calculation time quickly grows for
ASTRAL-II, whereas, in ASTRAL-III, the weight calcu-
lation time remains flat, or even decreases. These results
are consistent with a change of asymptotic running time
to score a polytomy of size d from O(d3) in ASTRAL-II to
O(d) in ASTRAL-III. Comparing the size of the search space (|X|) between
ATRAL-II and ASTRAL-III shows that as intended, the
search space is decreased in size for cases with no poly-
tomy but can increase in the presence of polytomies
(Fig. 6b). With no contraction, on average, |X| is always c
d
a
b
Fig. 4 Avian dataset with 14,446 genes. Shown are reference trees from the original paper [5] using the coalescent-based binning (a) and
concatenation (b), and two new trees using ASTRAL-III with no contraction (c) and with contraction with 3, 5, and 10% thresholds (d). Support
values (bootstrap for a, b and local posterior probability for c, d) shown for all branches except those with full support; in (d), support is shown for
3, 5, and 10%, respectively. Branches conflicting with the reference coalescent-based tree are shown as dotted red lines b a b a d c d c Fig. 4 Avian dataset with 14,446 genes. Shown are reference trees from the original paper [5] using the coalescent-based binning (a) and
concatenation (b), and two new trees using ASTRAL-III with no contraction (c) and with contraction with 3, 5, and 10% thresholds (d). Support
values (bootstrap for a, b and local posterior probability for c, d) shown for all branches except those with full support; in (d), support is shown for
3, 5, and 10%, respectively. Branches conflicting with the reference coalescent-based tree are shown as dotted red lines Zhang et al. BMC Bioinformatics 2018, 19(Suppl 6):153 Page 25 of 62 Fig. 5 Running time versus k. Average running times (4 replicates) are shown for ASTRAL-II and ASTRAL-III on the avian dataset with 500bp or
1500bp alignments with varying numbers of gens (k), shown in log scale (see Additional file 1: Figure S2 for normal scale). RQ3: ASTRAL-II versus ASTRAL-III accuracy Despite limiting |X| to grow at most linearly with n
and k, the accuracy of ASTRAL-III remains unchanged
compared to ASTRAL-II (Table 1 and Additional file 1:
Figures S4–S7). Importantly, even for the very challenging
S200 dataset, the accuracy is not reduced substantially
even though |X| is reduced by up to 47%. Over all
datasets, differences in error are less than 0.002, except
for three datasets where the error of ASTRAL-III was
less than ASTRAL-II by 0.003, 0.005, and 0.006 and The search space A line is fit to the data
points in the log/log space and line slopes are shown. ASTRAL-II did not finish on 214 genes in 48 hours Fig. 5 Running time versus k. Average running times (4 replicates) are shown for ASTRAL-II and ASTRAL-III on the avian dataset with 500bp or
1500bp alignments with varying numbers of gens (k), shown in log scale (see Additional file 1: Figure S2 for normal scale). A line is fit to the data
points in the log/log space and line slopes are shown. ASTRAL-II did not finish on 214 genes in 48 hours smaller for ASTRAL-III than ASTRAL-II. With few error-
prone gene trees (50 gene trees from 200bp alignments),
the search space has reduced dramatically but with many
genes or high-quality gene trees, the reductions are min-
imal. Moreover, the search space for gene trees estimated
from short alignments (e.g., 200 bp) is several times larger
than those based on longer alignments (e.g., 1600 bp)
for both methods. These are results of the first fea-
ture of ASTRAL-III that forces the search space to grow
at O(nk). two cases where the error increased by 0.004. Over
all datasets, the differences between ASTRAL-II and
ASTRAL-III were not statistically significant according
to a paired t-test (p-value = 0.496). Since ASTRAL-III
has a reduced search space, its quartet scores are typ-
ically slightly lower than ASTRAL-II, but these reduc-
tions are never more than 0.06%. As expected, the largest
drops in the quartet score happen for the challeng-
ing S200 dataset with only 50 gene trees. The search
space reduces in almost all cases and the reductions can
be as much as 72%. Thus, the improved running time
of ASTRAL-III does not come at the price of reduced
accuracy. Contracting low support branches initially increases
the search space. This is because ASTRAL-III unlike
ASTRAL-II adds multiple resolutions per polytomy to X. Further contraction results in reductions in |X|, presum-
ably because many polytomies exist and they are resolved
similarly inside ASTRAL-III. Discussion Below we further comment on ASTRAL-III in terms
of accuracy and running time. We finish by comparing
ASTRAL-III and ASTRAL-III-beta. Accuracy Although tree accuracy can improve with contracted gene
trees, the gap between performance on true gene trees
and estimated gene trees remains wide (Additional file 1:
Table S3). On the S100 dataset, respectively for 50, 200,
500, and 1000 genes, the best average error with 1600bp
gene trees among all contraction levels were 9.8%, 5.9%,
4.3%, and 3.7% compared to 7.0%, 3.7%, 2.4%, and 1.5% Zhang et al. BMC Bioinformatics 2018, 19(Suppl 6):153 Page 26 of 62 a
b
Fig. 6 Weight calculation and |X| on S100. Average and standard error of (a) the time it takes to score a single tripartition using Eq. 3 and (b) search
space size |X| are shown for both ASTRAL-II and ASTRAL-III on the S100 dataset. Running time is in log scale. We vary numbers of gene trees (boxes)
and sequence length (200 and 1600). See Additional file 1: Figure S3 for similar patterns for with 400 and 800bp alignments a a b b Fig. 6 Weight calculation and |X| on S100. Average and standard error of (a) the time it takes to score a single tripartition using Eq. 3 and (b) search
space size |X| are shown for both ASTRAL-II and ASTRAL-III on the S100 dataset. Running time is in log scale. We vary numbers of gene trees (boxes)
and sequence length (200 and 1600). See Additional file 1: Figure S3 for similar patterns for with 400 and 800bp alignments with true gene trees. Thus, while contracting low support
branches helps in addressing gene tree error, improved
methods of gene tree estimation remain crucial. Our
results also indicate that in the presence of noisy gene
trees, increased numbers of genes are needed to achieve
high accuracy. For example, on the S100 dataset, with
1000 gene trees of only 200bp and contracting with a 10%
threshold, the species tree error was 6.9%, which slightly
outperformed the accuracy with only 50 true gene trees. This observation encourages the use of a large number of
gene trees; incidentally, a main feature of ASTRAL-III is
improved running time with many genes. error due to lack of signal impacts the optimal thresh-
old. One may expect that other sources of error, includ-
ing incorrect orthology, incorrect alignment, and model
misspecifications may also impact the optimal thresh-
old. Accuracy Regardless of the choice of the optimal threshold, it
seems that the largest benefits are associated with remov-
ing the least supported branches. Overall, a threshold of
10% seemed to provide a good default value. In most datasets, a substantial accuracy improvement
was observed when 0% BS branches were removed. Branches of 0% support are presumably resolved arbitrar-
ily. The use of conserved genes or closely related taxa can
increase instances where two or more taxa have identical
sequences in some genes. Some tree estimation methods
generate binary trees even under such conditions. Remov-
ing branches that are arbitrarily resolved make sense and,
as our results indicate, improves accuracy. The best choice of the threshold of contraction was
somewhat sensitive to the dataset. Testing up to 1000 gene
trees, we observed that more gene trees clearly increased
the optimal threshold, but did not test beyond 1000 genes. One can predict that perhaps the trend may continue
but also that the optimal threshold will not indefinitely
increase. Similarly, we saw that the amount of gene tree The main competitor of ASTRAL is NJst [18] and its
fast implementation, ASTRID [19], but these tools are not Zhang et al. BMC Bioinformatics 2018, 19(Suppl 6):153 Page 27 of 62 Running time
Large n able to handle polytomies in input gene trees. ASTRAL-III
makes it efficient to use unresolved gene trees. Moreover,
beyond contracting low support branches, other strategies
could be used to reduce impacts of gene tree uncer-
tainty. Previous studies indicate that simply using the set
of all bootstrap gene tree replicates as input to ASTRAL
increases error [21], perhaps due to the increased noise
[31, 35]. However, using a sample from the Bayesian dis-
tribution for each gene tree may improve the accuracy of
ASTRAL. To assess limits of ASTRAL-III in terms of scalability, we
tested it on 20 replicates of a dataset with 5,000 species
and 1000 true gene trees (simulation procedure described
in Additional file 1: Appendix C and parameters given in
Additional file 1: Table S4). ASTRAL-III took between 2
and 62 h to run on this dataset (9.4 hours on average). We also attempted to test ASTRAL-III on four repli-
cates of a dataset with 10,000 species and 1000 true gene
trees, allowing a week of running time. Of the four repli-
cates, two were able to finish within the allotted time. Thus, depending on the nature of the data, ASTRAL-III
may be able to scale to datasets with up to 10,000 species
given sufficient running time. Finally,
theoretical
implications
of
removing
low
support branches are less clear than its empirical
impact. In principle, branches that have low sup-
port are not necessarily expected to be randomly
selected among gene trees. Thus, while our empiri-
cal results support the use of (conservative) filtering,
the resulting procedure may lose statistical guarantees
of consistency. Future work should study conditions
where ASTRAL remains statistically consistent with
contracted gene trees. Average running time, |X|, and |Y| The ASTRAL-III running time analysis is based on sev-
eral worst-case assumptions, and real data may grow less
rapidly with both n and k. Overall, although the exact a
b
c
Fig. 7 Empirical search space. a |X| is shown for ASTRAL-II and ASTRAL-III for avian-like simulateds dataset with varying numbers of genes. b |X| is
shown for ASTRAL-III for several datasets with varying n. c The density plots of logX |Y| across all ASTRAL-III runs reported in this paper. Size of the
dynamic programming space Y is never above |X|1.312 here a b b a c c Fig. 7 Empirical search space. a |X| is shown for ASTRAL-II and ASTRAL-III for avian-like simulateds dataset with varying numbers of genes. b |X| is
shown for ASTRAL-III for several datasets with varying n. c The density plots of logX |Y| across all ASTRAL-III runs reported in this paper. Size of the
dynamic programming space Y is never above |X|1.312 here Zhang et al. BMC Bioinformatics 2018, 19(Suppl 6):153 Page 28 of 62 Table 1 ASTRAL-II versus ASTRAL-III. Average running time, |X|, and |Y| Average and standard error
(inside parenthesis) are shown for changes in accuracy
(normalized FN rate), quartet score, and search space size (|X|)
Data set
Model condition
FN
|X|
Quartet score
avian
0.5X-500bp
−0.006 (0.007)
−3% (0)
−0.01% (0.01)
1X-1000bp
0.001 (0.002)
−1% (0)
0.00% (0.00)
1X-1500bp
0.004 (0.003)
−1% (0)
0.00% (0.00)
1X-250bp
0.004 (0.007)
−3% (0)
−0.01% (0.00)
1X-500bp
−0.001 (0.004)
−2% (0)
0.00% (0.00)
2X-500bp
−0.003 (0.003)
−2% (0)
0.00% (0.00)
S200
1000gt-10−6
−0.001 (0.000)
0% (0)
0.00% (0.00)
200gt-10−6
0.000 (0.001)
−5% (1)
0.00% (0.00)
50gt-10−6
−0.001 (0.001)
−42% (2)
−0.06% (0.01)
1000gt-10−7
0.001 (0.001)
−1% (0)
0.00% (0.00)
200gt-10−7
−0.001 (0.001)
−6% (1)
0.00% (0.01)
50gt-10−7
0.000 (0.002)
−47% (2)
−0.06% (0.01)
S100
1000gt-1600bp
0.000 (0.000)
−3% (0)
0.00% (0.00)
500gt-1600bp
0.000 (0.000)
−6% (1)
0.00% (0.00)
200gt-1600bp
0.000 (0.001)
−17% (1)
−0.01% (0.00)
50gt-1600bp
−0.001 (0.001)
−46% (3)
−0.01% (0.01)
1000gt-200bp
−0.001 (0.002)
−9% (1)
0.00% (0.00)
500gt-200bp
−0.001 (0.001)
−19% (1)
−0.01% (0.01)
200gt-200bp
−0.001 (0.001)
−40% (1)
−0.01% (0.00)
50gt-200bp
−0.002 (0.002)
−72% (1)
−0.05% (0.01)
1000gt-400bp
−0.001 (0.002)
−6% (1)
0.00% (0.00)
500gt-400bp
0.001 (0.001)
−12% (1)
−0.01% (0.00)
200gt-400bp
0.000 (0.001)
−29% (2)
−0.01% (0.01)
50gt-400bp
−0.005 (0.001)
−61% (2)
−0.02% (0.01)
1000gt-800bp
0.000 (0.000)
−4% (0)
0.00% (0.00)
500gt-800bp
0.001 (0.001)
−9% (1)
0.00% (0.00)
200gt-800bp
0.001 (0.000)
−22% (2)
−0.01% (0.01)
50gt-800bp
0.000 (0.001)
−52% (3)
−0.02% (0.01)
FN: we show ASTRALIII −ASTRALII; negative numbers indicate ASTRALIII is more
accurate. |X|: we show ASTRALIII−ASTRALII
ASTRALII
× 100; negative numbers indicate that
ASTRAL-III has a reduced search space. Quartet score: we show
ASTRALIII−ASTRALII
ASTRALII
× 100; positive numbers indicate that ASTRALIII has improved
quartet scores. See Additional file 1: Figures S4–S7 for full distributions Table 1 ASTRAL-II versus ASTRAL-III. Average and standard error
(inside parenthesis) are shown for changes in accuracy factors such as the amount of discordance also change. Nevertheless, across all the datasets that we had available,
we tested the change in running time for fixed k as n
changes and observed a linear growth (Fig. 7b), matching
the worst-case scenario. Finally, establishing empirical running time growth
requires establishing the rate of the growth of |Y| with
respect to |X|. The |Y| ≤|X|1.726 upper-bound is for spe-
cialized formations of the set X [28]. Empirically, as |X|
increases, the size of |Y| in ASTRAL-III does not increase
as fast as the worst-case scenario implies. Comparisons to ASTRAL-III-beta p
The beta version of ASTRAL-III [40] included features
3–5 but not changes to X (features 1 and 2) or the two-
staged α-trimming technique (feature 6). For complete-
ness, we compared ASTRAL-III-beta and ASTRAL-III in
terms of accuracy, quartet score, and the running time
(Table 2). Accuracy and quartet scores are very similar,
perhaps with a small improvement since the beta version. The search space is reduced since the beta version (due to
features 1 and 2), and the running times are substantially
decreased (at least by half in most cases). The reduc-
tions in the running time are due to α-trimming, reduced
|X|, in addition to further improvements in details of our
implementation of the polytree data-structure. To further demonstrate the impact of the α-trimming
feature, we randomly chose 18 species from the avian
dataset with 1500bp and 1X ILS. On this limited dataset, Table 2 ASTRAL-III-beta vs ASTRAL-III. Columns are defined
similar to Table 1. Model
Contraction FN
|X|
|Y|
Quartet Running
condition
score
time
avian-0.5X-500bp None
−0.003 −3%
−9%
−0.02% −48%
avian-1X-250bp
None
−0.001 −3%
−9%
0.00% −56%
avian-1X-500bp
None
−0.001 −2%
−6%
0.00% −50%
avian-1X-1000bp None
−0.001 −1%
−4%
0.00% −58%
avian-1X-1500bp None
0.001 −1%
−4%
0.00% −57%
avian-2X-500bp
None
−0.002 −2%
−4%
0.00% −65%
avian-0.5X-500bp 10%
−0.003 −3%
−29% −0.01% −69%
avian-1X-250bp
10%
−0.001 −50% −40%
0.00% −81%
avian-1X-500bp
10%
0.003 −18% −62% −0.01% −62%
avian-1X-1000bp 10%
0.000 −5%
−8%
0.00% −61%
avian-1X-1500bp 10%
0.003
0%
−1%
0.00% −55%
avian-2X-500bp
10%
−0.002 −14% −18%
0.00% −62%
Negative numbers indicate ASTRAL-III-beta has a larger value (i.e., has higher error,
larger search space, better quartet scores, and is slower) Table 2 ASTRAL-III-beta vs ASTRAL-III. Columns are defined
similar to Table 1. value depends on the dataset and especially the amount of
discordance, the running time of ASTRAL seems to grow
roughly quadratically with both n and k (i.e., proportion-
ally to n2k2); see Additional file 1: Figures S2 and S8. y
g
ASTRAL-III bounds |X| to grow at most linearly with n
and k. Empirically, we observe that |X| grows sublinearly
with k
closetoO
k
3
4
on the avian simulated dataset
(Fig. 7a). Note that the avian dataset has one of the highest
levels of ILS; the dependence on k is expected to be lower
for datasets with lower gene tree discordance. Average running time, |X|, and |Y| Across all of our
ASTRAL-III runs in this paper, |Y| ranged in 90% of our
runs between |X|1.07 and |X|1.20, and the overall average
was |X|1.11 (Fig. 7c). Author details
1 1Department of Electrical and Computer Engineering, University of California
at San Diego, 9500 Gilman Drive, La Jolla, CA 92093-0021, USA . 2Department
of Computer Science and Engineering, University of California at San Diego,
9500 Gilman Drive, La Jolla, CA 92093-0021, USA . 3Bioinformatics and Systems
Biology, University of California at San Diego, 9500 Gilman Drive, La Jolla, CA
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CW, Chen T, Deyholos MK, Baucom RS, Kutchan TM, Augustin MM,
Wang J, Zhang Y, Tian Z, Yan Z, Wu X, Sun X, Wong GK-S,
Leebens-Mack J. Phylotranscriptomic analysis of the origin and early
diversification of land plants. Proc Natl Acad Sci. 2014;111(45):4859–68. https://doi.org/10.1073/pnas.1323926111. 4. Wickett NJ, Mirarab S, Nguyen N, Warnow T, Carpenter EJ, Matasci N,
Ayyampalayam S, Barker MS, Burleigh JG, Gitzendanner MA, Ruhfel BR,
Wafula E, Der JP, Graham SW, Mathews S, Melkonian M, Soltis DE,
Soltis PS, Miles NW, Rothfels CJ, Pokorny L, Shaw AJ, DeGironimo L,
Stevenson DW, Surek B, Villarreal JC, Roure B, Philippe H, DePamphilis
CW, Chen T, Deyholos MK, Baucom RS, Kutchan TM, Augustin MM,
Wang J, Zhang Y, Tian Z, Yan Z, Wu X, Sun X, Wong GK-S,
Leebens-Mack J. Phylotranscriptomic analysis of the origin and early
diversification of land plants. Proc Natl Acad Sci. 2014;111(45):4859–68. https://doi.org/10.1073/pnas.1323926111. Conclusions We
introduced
ASTRAL-III,
which
compared
to
ASTRAL-II, improves scalability, especially for datasets
with large k and many polytomies. These improvements
enabled us to test the accuracy of ASTRAL after con-
tracting low support branches. Overall, we observed
improvements in accuracy when very low support
branches were contracted, but also evidence that aggres-
sive filtering reduces the accuracy. ASTRAL-III bounds
the theoretical running time to O
(nk)1.726.D
where
D = O(nk) is the sum of degrees of all unique gene tree
nodes. In practice, the running time tends to grow no
worse than quadratically with both n and k. Funding g
This work was supported by the National Science Foundation grant
IIS-1565862 to SM, MHR, and ES. Computations were performed on the San
Diego Supercomputer Center (SDSC) through XSEDE allocations, which is
supported by the NSF grant ACI-1053575. The publication cost of this article
was funded by the NSF grant IIS-1565862. Competing interests
Th
th
d
l
th t Competing interests
The authors declare that they have no competing interests. Publisher’s Note Springer Nature remains neutral with regard to jurisdictional claims in
published maps and institutional affiliations. About this supplement This article has been published as part of BMC Bioinformatics Volume 19
Supplement 6, 2018: Proceedings of the 15th Annual Research in
Computational Molecular Biology (RECOMB) Comparative Genomics Satellite
Workshop: bioinformatics. The full contents of the supplement are available
online at https://bmcbioinformatics.biomedcentral.com/articles/
supplements/volume-19-supplement-6. 6. Laumer CE, Hejnol A, Giribet G. Nuclear genomic signals of the
’microturbellarian’ roots of platyhelminth evolutionary innovation. eLife. 2015;4. https://doi.org/10.7554/eLife.05503. Authors thank anonymous reviewers. Authors thank anonymous reviewers. Availability of data and materials ASTRAL-III is available at https://github.com/smirarab/ASTRAL. The data
presented in this paper can be found at https://gitlab.com/esayyari/ASTRALIII. Additional file Jarvis ED, Mirarab S, Aberer AJ, Li B, Houde P, Li C, Ho SYW, Faircloth BC,
Nabholz B, Howard JT, Suh A, Weber CC, da Fonseca RR, Li J, Zhang F, Li H,
Zhou L, Narula N, Liu L, Ganapathy G, Boussau B, Bayzid MS, Zavidovych V,
Subramanian S, Gabaldón T, Capella-Gutiérrez S, Huerta-Cepas J, Rekepalli B,
Munch K, Schierup MH, Lindow B, Warren WC, Ray D, Green RE,
Bruford MW, Zhan X, Dixon A, Li S, Li N, Huang Y, Derryberry EP,
Bertelsen MF, Sheldon FH, Brumfield RT, Mello CV, Lovell PV, Wirthlin M,
Schneider MPC, Prosdocimi F, Samaniego JA, Velazquez AMV, Alfaro-Núñez
A, Campos PF, Petersen B, Sicheritz-Ponten T, Pas A, Bailey T, Scofield P,
Bunce M, Lambert DM, Zhou Q, Perelman P, Driskell AC, Shapiro B,
Xiong Z, Zeng Y, Liu S, Li Z, Liu B, Wu K, Xiao J, Yinqi X, Zheng Q,
Zhang Y, Yang H, Wang J, Smeds L, Rheindt FE, Braun MJ, Fjeldså J,
Orlando L, Barker FK, Jønsson KA, Johnson W, Koepfli K-P, O’Brien S,
Haussler D, Ryder OA, Rahbek C, Willerslev E, Graves GR, Glenn TC,
McCormack JE, Burt DW, Ellegren H, Alström P, Edwards SV, Stamatakis
A, Mindell DP, Cracraft J, Braun EL, Warnow T, Jun W, Gilbert MTP,
Zhang G. Whole-genome analyses resolve early branches in the tree of
life of modern birds. Science. 2014;346(6215):1320–31. https://doi.org/10. 1126/science.1253451. Comparisons to ASTRAL-III-beta Testing the
growth with n is more difficult because as n changes, other Zhang et al. BMC Bioinformatics 2018, 19(Suppl 6):153 Page 29 of 62 we ran ASTRAL-III in its exact mode (i.e., setting X
to the power set) with 100 gene trees. Without any
trimming of the dynamic programming (i.e., without
features 5 and 6), the running time was 40 minutes. Emu-
lating ASTRAL-III-beta, we disabled α-trimming but kept
the trimming (feature 5) and the running time reduced
to 33 min. Adding the α-trimming feature dramatically
reduced the running time to 13 min. Thus, when X
includes many bipartitions that have very little promise
in improving the quartet score (as in the exact mode of
ASTRAL), the α-trimming approach is very effective in
reducing the running time. Ethics approval and consent to participate
Not applicable. Acknowledgements Jarvis ED, Mirarab S, Aberer AJ, Li B, Houde P, Li C, Ho SYW, Faircloth BC,
Nabholz B, Howard JT, Suh A, Weber CC, da Fonseca RR, Li J, Zhang F, Li H,
Zhou L, Narula N, Liu L, Ganapathy G, Boussau B, Bayzid MS, Zavidovych V,
Subramanian S, Gabaldón T, Capella-Gutiérrez S, Huerta-Cepas J, Rekepalli B,
Munch K, Schierup MH, Lindow B, Warren WC, Ray D, Green RE,
Bruford MW, Zhan X, Dixon A, Li S, Li N, Huang Y, Derryberry EP,
Bertelsen MF, Sheldon FH, Brumfield RT, Mello CV, Lovell PV, Wirthlin M,
Schneider MPC, Prosdocimi F, Samaniego JA, Velazquez AMV, Alfaro-Núñez
A, Campos PF, Petersen B, Sicheritz-Ponten T, Pas A, Bailey T, Scofield P,
Bunce M, Lambert DM, Zhou Q, Perelman P, Driskell AC, Shapiro B,
Xiong Z, Zeng Y, Liu S, Li Z, Liu B, Wu K, Xiao J, Yinqi X, Zheng Q,
Zhang Y, Yang H, Wang J, Smeds L, Rheindt FE, Braun MJ, Fjeldså J,
Orlando L, Barker FK, Jønsson KA, Johnson W, Koepfli K-P, O’Brien S,
Haussler D, Ryder OA, Rahbek C, Willerslev E, Graves GR, Glenn TC,
McCormack JE, Burt DW, Ellegren H, Alström P, Edwards SV, Stamatakis
A, Mindell DP, Cracraft J, Braun EL, Warnow T, Jun W, Gilbert MTP,
Zhang G. Whole-genome analyses resolve early branches in the tree of
life of modern birds. Science. 2014;346(6215):1320–31. https://doi.org/10. 1126/science.1253451. Consent for publication
Not applicable. Consent for publication
Not applicable. Competing interests
The authors declare that they have no competing interests. Additional file Additional file 1: Supplementary material and appendices. Appendices
A, B, and C in addition to Figures S1–S8, and Tables S1–S4 are all
provided as one Additional file 1. (PDF 476 kb) Additional file 1: Supplementary material and appendices. Appendices
A, B, and C in addition to Figures S1–S8, and Tables S1–S4 are all
provided as one Additional file 1. (PDF 476 kb) Additional file 1: Supplementary material and appendices. Appendices
A, B, and C in addition to Figures S1–S8, and Tables S1–S4 are all
provided as one Additional file 1. (PDF 476 kb) 5. 5. Jarvis ED, Mirarab S, Aberer AJ, Li B, Houde P, Li C, Ho SYW, Faircloth BC,
Nabholz B, Howard JT, Suh A, Weber CC, da Fonseca RR, Li J, Zhang F, Li H,
Zhou L, Narula N, Liu L, Ganapathy G, Boussau B, Bayzid MS, Zavidovych V,
Subramanian S, Gabaldón T, Capella-Gutiérrez S, Huerta-Cepas J, Rekepalli B,
Munch K, Schierup MH, Lindow B, Warren WC, Ray D, Green RE,
Bruford MW, Zhan X, Dixon A, Li S, Li N, Huang Y, Derryberry EP,
Bertelsen MF, Sheldon FH, Brumfield RT, Mello CV, Lovell PV, Wirthlin M,
Schneider MPC, Prosdocimi F, Samaniego JA, Velazquez AMV, Alfaro-Núñez
A, Campos PF, Petersen B, Sicheritz-Ponten T, Pas A, Bailey T, Scofield P,
Bunce M, Lambert DM, Zhou Q, Perelman P, Driskell AC, Shapiro B,
Xiong Z, Zeng Y, Liu S, Li Z, Liu B, Wu K, Xiao J, Yinqi X, Zheng Q,
Zhang Y, Yang H, Wang J, Smeds L, Rheindt FE, Braun MJ, Fjeldså J,
Orlando L, Barker FK, Jønsson KA, Johnson W, Koepfli K-P, O’Brien S,
Haussler D, Ryder OA, Rahbek C, Willerslev E, Graves GR, Glenn TC,
McCormack JE, Burt DW, Ellegren H, Alström P, Edwards SV, Stamatakis
A, Mindell DP, Cracraft J, Braun EL, Warnow T, Jun W, Gilbert MTP,
Zhang G. Whole-genome analyses resolve early branches in the tree of
life of modern birds. Science. 2014;346(6215):1320–31. https://doi.org/10. 1126/science.1253451. 6.
Laumer CE, Hejnol A, Giribet G. Nuclear genomic signals of the
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Textile Masks and Surface Covers—A Spray Simulation Method and a “Universal Droplet Reduction Model” Against Respiratory Pandemics
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Frontiers in medicine
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BRIEF RESEARCH REPORT
published: 27 May 2020
doi: 10.3389/fmed.2020.00260 Alex Rodriguez-Palacios 1,2*, Fabio Cominelli 1,2, Abigail R. Basson 1,2, Theresa T. Pizarro 3
and Sanja Ilic 4 1 Division of Gastroenterology and Liver Diseases, Case Western Reserve University School of Medicine, Cleveland, OH,
United States, 2 Digestive Health Institute, University Hospitals Cleveland Medical Center, Cleveland, OH, United States,
3 Department of Pathology, School of Medicine, Case Western Reserve University, Cleveland, OH, United States, 4 Human
Nutrition, Department of Human Sciences, College of Education and Human Ecology, The Ohio State University, Columbus,
OH, United States Edited by:
Antonio Pereira,
Federal University of Pará, Brazil The main form of COVID-19 transmission is via “oral-respiratory droplet contamination”
(droplet: very small drop of liquid) produced when individuals talk, sneeze, or cough. In hospitals, health-care workers wear facemasks as a minimum medical “droplet
precaution” to protect themselves. Due to the shortage of masks during the pandemic,
priority is given to hospitals for their distribution. As a result, the availability/use of
medical masks is discouraged for the public. However, for asymptomatic individuals,
not wearing masks in public could easily cause the spread of COVID-19. The prevention
of “environmental droplet contamination” (EnvDC) from coughing/sneezing/speech
is fundamental to reducing transmission. As an immediate solution to promote
“public droplet safety,” we assessed household textiles to quantify their potential
as effective environmental droplet barriers (EDBs). The synchronized implementation
of a universal “community droplet reduction solution” is discussed as a model against
COVID-19. Using a bacterial-suspension spray simulation model of droplet ejection
(mimicking a sneeze), we quantified the extent by which widely available clothing
fabrics reduce the dispersion of droplets onto surfaces within 1.8 m, the minimum
distance recommended for COVID-19 “social distancing.” All textiles reduced the
number of droplets reaching surfaces, restricting their dispersion to <30 cm, when
used as single layers. When used as double-layers, textiles were as effective as
medical mask/surgical-cloth materials, reducing droplet dispersion to <10 cm, and the
area of circumferential contamination to ∼0.3%. The synchronized implementation of
EDBs as a “community droplet reduction solution” (i.e., face covers/scarfs/masks
and
surface
covers)
will
reduce
COVID-19
EnvDC
and
thus
the
risk
of
transmitting/acquiring COVID-19. Reviewed by:
Bianca Cruz Neves,
Federal University of Rio de
Janeiro, Brazil
Suvajyoti Guha,
United States Food and Drug
Administration, United States
Lieva Van Langenhove,
Ghent University, Belgium *Correspondence:
Alex Rodriguez-Palacios
axr503@case.edu Specialty section:
This article was submitted to
Infectious Diseases Surveillance,
Prevention and Treatment,
a section of the journal
Frontiers in Medicine
Received: 03 April 2020
Accepted: 14 May 2020
Published: 27 May 2020 Specialty section:
This article was submitted to
Infectious Diseases Surveillance,
Prevention and Treatment,
a section of the journal
Frontiers in Medicine Keywords: coronavirus, respiratory pandemic, COVID-19, SARS-Cov-2, cloth masks, textiles, public droplet safety,
spray simulation model Textile Masks and Surface Covers—A
Spray Simulation Method and a
“Universal Droplet Reduction Model”
Against Respiratory Pandemics Alex Rodriguez-Palacios 1,2*, Fabio Cominelli 1,2, Abigail R. Basson 1,2, Theresa T. Pizarro 3
and Sanja Ilic 4 INTRODUCTION The main form of COVID-19 transmission is via “oral-respiratory
droplets” produced when individuals talk, sneeze, or cough. Despite the magnitude of the COVID-19 pandemic, it is
disconcerting that the general public either does not have
personal protective equipment available to them, including
respiratory masks, or chooses to not use them, to contain
the pandemic. Worldwide, health-care workers wear medical
masks as a minimum “droplet precaution” to protect themselves. However, experts appealed to the community not to wear medical
masks stating they are not effective for the public (1); albeit,
counter-criticisms ensued (2). Regardless of clinical presentation,
COVID-19 transmits person-to-person, including children (3),
via “oral-respiratory droplets” produced when individuals talk
or sneeze/cough. Aside from Asia (4), there are no global
guidelines promoting wearing masks in public to control
respiratory pandemics (5–10), and no scientific data/guidelines
exist promoting masks as a “droplet precaution” for the public
(5, 9, 11). COVID-19 is caused by a novel coronavirus strain (SARS-
CoV-2), for which there is no treatment (12, 13). Disease
is characterized by fever, coughing/sneezing, dyspnea, and
pneumonia, and can lead to death in some cases (14);
however, important for asymptomatic transmission, cases
increasingly present with gastrointestinal symptoms, and/or
fatigue, without fever (15). Regardless of the clinical presentation,
COVID-19 transmits person-to-person through oral-respiratory
droplets produced when infected individuals [symptomatic
or asymptomatic, including children (3)] talk/cough/sneeze,
contaminating the environment. Although viruses can become airborne dust/aerosols, as
micro-droplets evaporate, viruses rapidly loose infectivity in
the air (half-life = 1 h) (16–20). By contrast, virus survival
increases when liquid droplets contaminate surfaces, especially
plastic and stainless steel, with long half-lives of 7 and 6 h,
respectively (cardboard, 4 h; copper, 1 h) (16). Since COVID-
19 transmits when droplets reach the nose/mouth/eyes (21), or
when people touch their nose/mouth/eyes after touching droplet-
contaminated surfaces [supermarkets/elevators (22)], it is critical
to implement strategies to prevent/reduce environmental droplet
contamination (EnvDC). This is particularly true for plastic or
metal surfaces, which remain infective for days. Herein, we
investigated whether common household textiles can be used as
environmental droplet barriers (EDBs; facemasks/covers/scarfs,
or surface covers) to prevent EnvDC, improve public droplet
safety, and support the synchronized implementation of an
environmentally-purposed Universal Droplet Reduction Model
within the public to control respiratory pandemics such as
COVID-19. INTRODUCTION bacterial-suspension strategy to quantify the number of droplets
that could not be visualized, but that could escape textile
barriers and cause long-/short-range surface contamination. To
enumerate bacteria-carrying micro-droplets, we used household
spray bottles filled with an aqueous suspension of 12-probiotic-
cultured dairy product (Lactobacillus lactis, L. rhamnosus,
L. plantarum, L. casei, L. acidophilus, Leuconostoc cremoris,
Bifidobacterium
longum,
B. breve,
B. lactis,
Streptococcus
diacetylactis, and Saccharomyces florentinus, 75 ml; 3 × 106−7
cfu/ml, 25 ml Saliva 106−7) in 1,000 ml PBS (Fisher BP-399-
1) to simulate a cloud of droplets produced by a sneeze. Probiotics are BSL-1/“Generally Recognized As Safe” by the
FDA and all experiments were conducted in BSL-2 HEPA-
filtered microbiology laboratories. No animal/human subjects
were used for experimentation. Before testing, spray bottle
nozzles were adjusted to produce cloud and jet-propelled droplets
that match the visual architecture of droplet formation described
by Bourouiba (23). Specifically, we used a high-volume trigger
single-v-orifice nozzle sprayer (1.0 ml per stroke) with a 28/400
neck and 9-1/4-inch dip tube fitted with a filter screen (model
PA-HDTS-EA, Mfr. Model # 922HL, Delta Industries, Inc.). Using infrared imaging we recently illustrated that the spray
model was composed of various liquid droplet dynamic phases
occurring within a single spray (25), which reproduces results
in a wide arrange of droplet sizes (previously described as right
skewed distribution ranges between 20 and 900 µm, with peak
at 70–100 µm) (26), and therefore distance reach and landing
velocities. In context, the size of droplets in the human sneeze
ranges between 40 and 900 µm, with most droplets (70–100%)
normally or bimodally distributed around 360–390 µm (27). The
spray bottle ejects fluid with pressures that can reach sufficient
pressure (e.g., 10 psi for garden sprayers) to create a short
burst of fluid/jet and fan clouds of microdroplets. In context,
the pressure during a sneeze is 1 psi in the trachea, and 2.6
psi in the mouth/pharynx, while exhalation during strenuous
activity triggers a tracheal pressure of 0.03 psi (28). In this model,
one stroke ejects 1 ml of fluid per spray, therefore three sprays
(delivered at 1 stroke/second) constitute an exposure of 3 ml of
fluid in 3 s, which is a delivery of moisture 181-fold faster than the
rate of moisture released by the lungs during normal breathing
(>20 ml/hour, i.e., equivalent to 5.5 µl/second) (29). Citation: Rodriguez-Palacios A, Cominelli F,
Basson AR, Pizarro TT and Ilic S
(2020) Textile Masks and Surface
Covers—A Spray Simulation Method
and a “Universal Droplet Reduction
Model” Against Respiratory
Pandemics. Front. Med. 7:260. doi: 10.3389/fmed.2020.00260 May 2020 | Volume 7 | Article 260 1 Frontiers in Medicine | www.frontiersin.org Droplet Reduction Model Against Pandemics Rodriguez-Palacios et al. Quantification of Droplet Retention by
Household Textiles Simulation of Bacteria-Containing
Micro-/Macro-Droplet Clouds INTRODUCTION Quantification of droplets landing over a surface was
performed at the time of spray using seven 10 mm-Petri dishes
containing tryptic soy agar (56.75 cm2 surface area/dish) with
5% defibrinated sheep blood, placed on a table spaced at 30 cm
intervals between 0 and 180 cm. Plates remained open for 10 min
to allow droplet landing. Droplet quantification was conducted
for each bottle in duplicate. Large-drop quantification outside
agar plates was facilitated by a white droplet footprint left on
black surfaces. To test the role of surface covers for unanimated
surfaces, Petri dishes were covered with textiles. Statistical Analysis Student’s-T tests, linear regression, and multinomial logistic
regression were conducted using raw and Log2 transformed CFU
data (STATA, v15.1). Confidence intervals are provided to convey
information relevant to sample size and external validity. Note
that the studies represent a large number of simulations shown to
be statistically significant. To further ensure external validity and
comparability, we derived linear polynomial regression equations Household Textiles Tested, Replication of
Findings, Safety and Contextualization Findings, Safety and Contextualization
We first tested six household textiles, including 100% combed
cotton (widely available, “T-shirt material”), 100% polyester
microfiber 300-thread count fabric (pillow case), two loosely
woven “homespun” 100% cotton fabrics (140GSM, 60 × 60-
thread count; and 115GSM, 52 × 48-thread count), and
“dry technology” 100% polyester common in sport jerseys. These textiles were compared to: (i) the lack of a textile
barrier (no mask control), (ii) medical masks, and (iii) surgical
cloth material as “gold standard” protective controls. To
ensure external validity/reproducibility, complementary and
repeated experiments were conducted with selected textiles
(i.e., respiratory mask, sports jersey, and Cotton-T-shirt) at the
Ohio State University. To contextualize the retention ability of
textiles of respiratory secretions, a single episode of a simulated
cough by one of the volunteer investigators onto three agar
plates, placed perpendicularly at 30 cm inside a BSL-2 safety
cabinet, was used to illustrate that respiratory secretions have
large strings of mucus more amenable for retention than liquid
microdroplets, and which contain bacteria (CFU) recoverable in
the TSA agar used in the study. To determine the percentage
of area covered by the textile that could be freely open to the
direct flow of air liquid macro and microdroplets, we used
image analysis of transillumination captures and ImageJ software
(https://imagej.nih.gov/ij/). In short, single-/double-layer textile
RGB JPG images imported to ImageJ were converted to type 8-
bit format, then binary with black background, with threshold
adjusted to W190:B255. The quantification of the number of
white pixels (background transillumination) for the total image
area was then used to compute the percent area of textile that
freely allowed the passage of light. Simulation of Bacteria-Containing
Micro-/Macro-Droplet Clouds Since viruses exist in association with bacteria and host cells
within electrolytes-rich respiratory fluids (23, 24), we used a To simulate the function of mask barriers, we placed selected
textiles (∼22 × 22 cm) over a cardboard/plastic-covered 25 May 2020 | Volume 7 | Article 260 Frontiers in Medicine | www.frontiersin.org 2 Droplet Reduction Model Against Pandemics Rodriguez-Palacios et al. × 30 cm surface, over a carved (8.5 × 11 cm) window, and
8.5 cm above the agar plates’ plane, through which droplets
were sprayed. To avoid altering permeability, textiles were not
“tensed” across the carved window. The spray nozzle was placed
perpendicular at 8.5 cm from the textile [half the distance
between the nostrils and vocal cords, 16–18 cm (30), or one-third
of the lip-to-carina distance, 21.6–24.3 cm (31) in humans]. On
the other side of the textile, 3–5 agar plates were aligned to cover
the 0–8.5, 8.5–17, 17–25.5, and 25.5–34 cm intervals to quantify
bacteria-containing droplets that could contaminate a surface. Quantification represents droplets that pass through the textile
and that land on a rectangular area of 8.5 cm × 180 cm (agar
plate diameter X “spray path”). To quantify the effect of textiles
retaining vertically-landing droplets, we quantified droplets
reaching agar plates covered with a household textile. All testing
conditions were carried out at constant ambient conditions. that almost perfectly fit the raw data dynamics, R2 > 0.98, to
enable others to adjust the spray droplet landing dynamics on
surfaces. ImageJ textile data for single-/double-layer textiles were
analyzed using paired t-test. Quantitative effects and models were
deemed significant if adjusted p < 0.05. Frontiers in Medicine | www.frontiersin.org Spray Dispersion Model of Droplets Reach
>1.8 Meters if Upward Because viruses replicate intracellularly in bodily fluids, in
association with other microorganisms (23, 24), and need
droplets to facilitate their expulsion, transmission, and EnvDC
(12), we first validated a rapid spray-simulation model of droplets
(mimicking a sneeze) using a bacterial-suspension to quantify
the extent by which widely-available household textiles reduced
the ejection/long-distance flight of droplets. To facilitate the
enumeration of macro-droplets and invisible micro-droplets,
spray-simulations were conducted over nutritious-media agar
surfaces and incubated for 24 h to enable colony-forming-
droplet-unit (CFU) formation. Based on simulations conducted in two institutions, a
cloud of bacteria-carrying droplets travel distances reaching
>180 cm, particularly for large droplets (Figure 1A), which
is consistent with reported dynamics during sneezing (23). Of relevance to sneezing behavior, simulations illustrate that
upward inclination of the central-spray angle allows macro-
droplets to reach longer distances (simulation 4/dispersion
equations; Figures 1B–E). Although macro-droplets frequently
reached 180 cm, most micro-droplets landed on surfaces
within 120 cm, with spray air-turbulence carrying micro-
droplets into areas not reached with gravity alone. Thus,
social distancing of 1.8 m without EDB-mask protection, as is
currently recommended, is not always possible and therefore
insufficient to prevent droplet exposure, particularly where
essential-service workers congregate (i.e., person-person distance
is <1.8 m) during pandemics (transportation, supermarkets/food
displays). Therein, wearing EDB-masks together with inclining
the head/body downward during sneezing could minimize the
spatial range of EnvDC. Preprint This manuscript was submitted to medrxiv on March 29, 2020,
and posted as a preprint (32) on April 10 to enable the
incorporation of community comments into the peer-review
process. In support of this report, peer-reviewers provided an
average score of 4.5/5 for six items on the initial submission
(originality, and significance to the field, 4.7 ± 0.6 each; rigor,
4.3 ± 0.6; interest to the general audience, 5.0 ± 0; quality
of writing, 4.0 ± 1.0; and overall quality of study, 4.3 ± 0.6);
and no negative criticisms were publicized for the preprint
(tweets from 11 independent accounts with 59,855 followers;
April 10–22, 2020). Household Textiles Retain Liquid Droplets,
Particularly if Double Layered To quantify the droplet retention potential of textiles as EDBs,
we next used the same bacterial-spray-simulation model to May 2020 | Volume 7 | Article 260 3 Droplet Reduction Model Against Pandemics Rodriguez-Palacios et al. FIGURE 1 | Simulation of a cloud of airborne bacteria-containing macro-drops and micro-droplets to quantify barrier potential of household textiles. (A) Graphical
overview of the spray model. Inset, Photograph of a human sneeze, public domain, James Gathany, CDC image ID11162). (B) Photographs of short and long-range
visible droplets immediately after spray. Note the color, number, size, and relative location and distribution of the bacteria colonies growing from “invisible”
microdroplets (CFU) shown as whitish spots on the agar surface. Bacterial growth alters the red color of the fresh non-inoculated agar leading to a brownish
discoloring of the petri agars, which is more pronounced as the number of bacterial colonies increase. (C) Number of macro-drops for four simulations over distance. The overall linear equation that best describes the mean spray macro-droplet dynamics linearized/depicted as the heatmap is y = −8E−05x3 + 0.0305x2 – 3.9405x +
198.42, with an R² = 0.9829. Note that large drops of liquids observed with the spray alone (no textile barrier) were not observed with any of the textile barriers tested. (D) Photographs of bacterial CFUs on agar plates illustrating ability of cloud micro-droplets to move around spaces driven by cloud turbulence (left images, agar
plates were partially covered with lid at moment of spray), concurrent contamination with macro- and micro-droplets. (E) Number of CFU/plate (56.75 cm2) for 6
simulations over distance. The overall linear equation that best describes the mean dispersal of bacteria-carrying micro-droplets over distance, also depicted as the
red heatmap, is y = −4E−05x4 + 0.0177x3 – 2.8522x2 + 155.63x – 58.504, with an R² = 0.9994. FIGURE 1 | Simulation of a cloud of airborne bacteria-containing macro-drops and micro-droplets to quantify barrier potential of household textiles. (A) Graphical
overview of the spray model. Inset, Photograph of a human sneeze, public domain, James Gathany, CDC image ID11162). (B) Photographs of short and long-range
visible droplets immediately after spray. Note the color, number, size, and relative location and distribution of the bacteria colonies growing from “invisible”
microdroplets (CFU) shown as whitish spots on the agar surface. Household Textiles Retain Liquid Droplets,
Particularly if Double Layered Bacterial growth alters the red color of the fresh non-inoculated agar leading to a brownish
discoloring of the petri agars, which is more pronounced as the number of bacterial colonies increase. (C) Number of macro-drops for four simulations over distance. The overall linear equation that best describes the mean spray macro-droplet dynamics linearized/depicted as the heatmap is y = −8E−05x3 + 0.0305x2 – 3.9405x +
198.42, with an R² = 0.9829. Note that large drops of liquids observed with the spray alone (no textile barrier) were not observed with any of the textile barriers tested. (D) Photographs of bacterial CFUs on agar plates illustrating ability of cloud micro-droplets to move around spaces driven by cloud turbulence (left images, agar
plates were partially covered with lid at moment of spray), concurrent contamination with macro- and micro-droplets. (E) Number of CFU/plate (56.75 cm2) for 6
simulations over distance. The overall linear equation that best describes the mean dispersal of bacteria-carrying micro-droplets over distance, also depicted as the
red heatmap, is y = −4E−05x4 + 0.0177x3 – 2.8522x2 + 155.63x – 58.504, with an R² = 0.9994. quantify non-visualizable micro-droplets that could cross/escape
the textile-EDB and cause microbial-surface agar contamination
(Figure 2A). Details on textile threading, percentage of area
open for flow of droplets/light, and density in grams per square meter (GSM) for all medical and the single-/double-
layer household textiles are shown in Figures 2B–D and
Supplementary Figure 1. Textiles were tested for one- and
three-sprays to determine if EnvDC changed with textile May 2020 | Volume 7 | Article 260 Frontiers in Medicine | www.frontiersin.org Droplet Reduction Model Against Pandemics Rodriguez-Palacios et al. FIGURE 2 | Spray-droplet model to quantify reduction rate of long-range droplet dispersion across 1- and 2-layer textiles. (A) Graphical overview of spray-droplet
setting (see Methods). Tryptic soy agar supplemented with 5% defibrinated sheep blood plates incubated aerobically at 37◦C for 24 h. (B) Photograph and
low-resolution ImageJ processed image compares medical mask material to that of single- and double-layered textile example (Supplementary Figure 1, all textiles
used). Scale bar, 1 mm. (C) High resolution ImageJ binary analysis of representative textiles photographed as single and double layers to illustrate the percentage of
the textile barrier “open area” that allows the passage of light/droplets. Scale bar, 1 mm. (D) Paired analysis of reduction of the textile “open area” when textile is tested
as two layers. Frontiers in Medicine | www.frontiersin.org Household Textiles Retain Liquid Droplets,
Particularly if Double Layered FIGURE 2 | Spray-droplet model to quantify reduction rate of long-range droplet dispersion across 1- and 2-layer textiles. (A) Graphical overview of spray-droplet
setting (see Methods). Tryptic soy agar supplemented with 5% defibrinated sheep blood plates incubated aerobically at 37◦C for 24 h. (B) Photograph and
low-resolution ImageJ processed image compares medical mask material to that of single- and double-layered textile example (Supplementary Figure 1, all textiles
used). Scale bar, 1 mm. (C) High resolution ImageJ binary analysis of representative textiles photographed as single and double layers to illustrate the percentage of
the textile barrier “open area” that allows the passage of light/droplets. Scale bar, 1 mm. (D) Paired analysis of reduction of the textile “open area” when textile is tested
as two layers. macro-droplets (100% EnvDC prevention), and drastically
reduced the ejection of micro-droplets by a factor of 5.16Log2,
which is equivalent to a 97.2% droplet reduction (P < 0.020
vs. single-layers, Figure 3C and Supplementary Figures 4, 5). Importantly, the least-effective textile as single-layer (most-
“breathable,” 100%-cotton homespun-115 material) achieved
a 90–99.998% droplet retention improvement when used as
two-layers (95% CI = 3.74–15.39 Log2). Lastly, all textiles
were equally effective at absorbing the humidity from 3-
sprays compared to medical mask/surgical cloth materials, humidity. Although humidity had no statistical impact (dry-
vs.-humid, adj.–P > 0.2), all textiles, tested as “single-layers,”
significantly and reproducibly (between institutions) reduced
the ejection of macro-droplets, and the traffic of micro-droplets
to <25.5–34 cm (linear regression model adj.–P < 0.001,
compared to 180 cm with no textile barrier; Figures 3A,B and
Supplementary Figures 2, 3). Remarkably, spray experiments with “two-layers” (of 100%-
combed cotton, common in t-shirts; and 100% polyester,
in sports jerseys) completely prevented the ejection of large May 2020 | Volume 7 | Article 260 Frontiers in Medicine | www.frontiersin.org 5 Droplet Reduction Model Against Pandemics Rodriguez-Palacios et al. FIGURE 3 | Using two layers of household textiles markedly retain liquid droplets. (A) Tryptic soy agar plates illustrate effective bacterial-droplet reduction by 2-layer
textiles. (B) Pooled results from two spray-simulations (1- and 3-sprays; Supplementary Figure 2). Vertical thick black bars connect baseline values at 0 to the
means. (C) Linear regressions for EnvDC reduction over distance for no-barrier vs. selected textiles. Compared to no textile (EDB) barrier (red dotted line), the
reduction in CFUs illustrate the profound effect of using household textiles to retain droplets. Household Textiles Retain Liquid Droplets,
Particularly if Double Layered Line slopes that are closer to the horizontal grid line at 0, and closer to
the “Resp. mask”-dotted line are more effective strategies (commercial masks are made of 2-or-3-layers) compared to single layers (Supplementary Figure 4,
equations and R2). (D) Photographs of differences in condensate after 1-spray on the side of the textile being sprayed. Arrowheads, drops/accumulation. FIGURE 3 | Using two layers of household textiles markedly retain liquid droplets. (A) Tryptic soy agar plates illustrate effective bacterial-droplet reduction by 2-layer
textiles. (B) Pooled results from two spray-simulations (1- and 3-sprays; Supplementary Figure 2). Vertical thick black bars connect baseline values at 0 to the
means. (C) Linear regressions for EnvDC reduction over distance for no-barrier vs. selected textiles. Compared to no textile (EDB) barrier (red dotted line), the
reduction in CFUs illustrate the profound effect of using household textiles to retain droplets. Line slopes that are closer to the horizontal grid line at 0, and closer to
the “Resp. mask”-dotted line are more effective strategies (commercial masks are made of 2-or-3-layers) compared to single layers (Supplementary Figure 4,
equations and R2). (D) Photographs of differences in condensate after 1-spray on the side of the textile being sprayed. Arrowheads, drops/accumulation. which
condensate
after
1-spray
(Figure 3D). Together,
experiments indicate that two-layers of household textiles
are
as
effective
as
medical
masks
preventing
EnvDC,
and that more breathable materials in ≥2-layers could be
effectively used if individuals deem two-layer, “denser” textiles
too air-restrictive. how many viral particles in droplets (virus/µm3) or surfaces
(virus/cm2) are needed to acquire COVID-19, we assumed
that any droplet on a surface area of 56.75 cm2 (an 8.5 cm
diameter agar plate) renders a surface infective. Since textiles
prevented droplets from reaching beyond a ∼30 cm radius,
we propose a working “droplet reduction model” to control
COVID-19, where EDB-masks could reduce the “circumferential
area of contamination” around each individual by 97.2% when
used as single-layers, or as much as 99.7% when used as two-
layers. 100%-cotton/polyester especially shortened the EnvDC
radius to <10 cm (similar to medical-mask material; Log2
difference = 0.06, for 100% polyester, multinomial adj.–P > “Universal Droplet Reduction Model”
Against Rapid Respiratory Pandemics We then rationalized the potential impact of a “universal droplet
reduction model” against pandemics, where the community act
together to reduce the spatial range of EnvDC. Since it is unclear May 2020 | Volume 7 | Article 260 Frontiers in Medicine | www.frontiersin.org 6 Droplet Reduction Model Against Pandemics Rodriguez-Palacios et al. FIGURE 4 | Environmentally-focused “Universal Droplet Reduction Model” against pandemics due to infectious agents transmitted via oral-respiratory fluids. (A) Graphical representation of a model where the lack of face barrier/cover could result in the contamination of a large circumferential area, or nearby contact with a
higher number of susceptible individuals, within a 180 cm radius. (B) Graphical representation illustrating the benefit of wearing textile-face barriers to reduce the
circumferential area contaminated with droplets (two-layers/single-layers) and to reduce the number of droplet contacts with susceptible individuals. (C) The benefit of
using face cover/barriers drastically increases in surface area (cm2) as the efficiency of the droplet barrier increases (distance of droplet contamination, cm). FIGURE 4 | Environmentally-focused “Universal Droplet Reduction Model” against pandemics due to infectious agents transmitted via oral-respiratory fluids. (A) Graphical representation of a model where the lack of face barrier/cover could result in the contamination of a large circumferential area, or nearby contact with a
higher number of susceptible individuals, within a 180 cm radius. (B) Graphical representation illustrating the benefit of wearing textile-face barriers to reduce the
circumferential area contaminated with droplets (two-layers/single-layers) and to reduce the number of droplet contacts with susceptible individuals. (C) The benefit of
using face cover/barriers drastically increases in surface area (cm2) as the efficiency of the droplet barrier increases (distance of droplet contamination, cm). (D) Coughed material-associated bacteria in agar. Large viscous secretions will be retained by textile-EDB. (E) Bacteria-carrying droplet counts on agar plates
covered with 1-layer cotton t-shirt material, after one-spray, over distance. Colony-forming units were estimated on paired TSA agar plates (covered and uncovered)
following the spraying of the bacterial-carrying solution over the plates, and 48 h of aerobic incubation. (F) Environmental droplet reduction model. Protective masks
and surface covers in the community. Supplementary Table 2, list of current and proposed actions against COVID-19. machine) two 2-layer-EDB masks as an immediate, synchronized
contribution to reduce COVID-19 EnvDC. 0.6). “Universal Droplet Reduction Model”
Against Rapid Respiratory Pandemics Because COVID-19 cases increase daily, and the fabrication
of EDB by centralized organizations could take weeks to reach
entire “lockdown” communities, we suggest, based on the
cotton/polyester EnvDC effectiveness, and a homemade EDB-
mask fabrication trial (Supplementary Figure 6), that, from one
piece of clothing, every individual could make (without a sewing From a surface perspective, if everyone were encouraged
to wear EDBs, the collective area contaminated with droplets
would be miniaturized to 0.3–2.77% (two-layers/single-layers),
compared to the potential contamination within 180 cm (10.2 May 2020 | Volume 7 | Article 260 Frontiers in Medicine | www.frontiersin.org 7 Droplet Reduction Model Against Pandemics Rodriguez-Palacios et al. m2). Even suboptimal EDBs, effective for 90 cm radius,
could mathematically reduce the EnvDC area by 75.1%
(Figures 4A–C). Our findings and surface estimations are
conservative
as
they
are
based
on
simulations
using
a
(non-viscous) liquid solution, assuming stationary individuals. However, the impact of EDB is predictably greater since
real/large viscous secretions (Figure 4D), which also travel long
distances (>180 cm) (23), would be easier to contain by EDB,
as communities mobilize. To further lower the risk of fomite
(plastic/metal surface) transmission from/by non-EDB-wearers,
EDB-textiles used as covers, when relevant, could reduce EnvDC
by 90–98% (T-test P = 0.003, Figure 4E). Non-pharmaceutical interventions (NPIs), also known as
community mitigation strategies, are actions that individuals
and communities can take in order to slow the spread
of
illnesses. For
pandemics,
when
medical
approaches
(hospitalization/treatments) are limited, NPIs are a critical
component to achieve resolution. Although PPE, including
masks, are scientifically-effective methods to prevent infectious
disease transmission, the use of masks for the general public
has not been encouraged by governments (5, 7), possibly
because demand will deepen the current crisis of mask
unavailability
for
medical
staff,
or
alternatively,
because
the use of masks to prevent respiratory infections has been
misleadingly deemed ineffective, despite earlier clinical studies
indicating that masks could be beneficial in households during
pandemics (35, 37, 38). y
g
Finally, to illustrate in volumetric terms that EDBs are
even more effective at preventing EnvDC, we conducted a
scoping review of literature to conduct analyses of droplet
fluid-carrying capacity. Although published droplet sizes vary
with study method (Supplementary Table 1), most sneezed
droplets are “large,” and can reach >1 mm. “Universal Droplet Reduction Model”
Against Rapid Respiratory Pandemics Physiologically,
two types of sneeze exist (27): unimodal, when all droplets
are large (360 ± 1.5 µm-diameter); and bimodal, when
droplets
are
large
(390
±
1.7
µm-diameter,
70%)
and
small (72 ± 1.5 µm, 30%). Assuming droplets are spherical,
for an average of two sneezes (unimodal:bimodal, 200,000
droplets), we determined that large droplets (85% of total)
contain 703-times more fluid than small droplets. Thus,
EDBs could reduce COVID-19 EnvDC by effectively blocking
the dispersion of fluids/viruses contained in large droplets. Because droplets of <47 µm are known to evaporate before
reaching the ground (33), EDB will also prevent small-size
droplet aerosolization by trapping such droplets immediately
after production. An overview of a “universal textile droplet
reduction action-model” against pandemics is illustrated in
Figure 4F. Although masks have been extensively studied to determine
whether individuals are clinically protected from infections (39,
40), and to confirm that wearing a mask promotes desirable
hygiene practices (handwashing, “avoiding crowds”) (5, 38, 41),
masks have not been examined for their potential to prevent
environmental contamination. Masks work, if worn properly;
however, individuals (∼50%) often fail to wear masks regularly
and properly (37, 42). Despite low compliance, meta-analyses
indicate that masks lower the odds of having (SARS)-respiratory
infections by 87% (OR = 0.13), compared to the odds of having
an infection “not wearing a mask” (43). Herein,
we
propose
that
in
addition
to
seeking
the
classical/clinical
“prevention
of
infection,”
NPIs
could
be
universally based on “droplet reduction models” such as textile-
face covers to mitigate contamination of the environment by
respiratory droplets. Not only for the prevention of respiratory
diseases,
but
also
to
prevent
widespread
environmental
dispersion of the virus, which could reach water sources or affect
domestic animals, as has been shown for other viruses, including
pandemic influenza (44). Frontiers in Medicine | www.frontiersin.org DATA AVAILABILITY STATEMENT The raw data supporting the conclusions of this article will
be made available by the authors, without undue reservation,
upon request. FUNDING This study was conducted with discretionary funds allocated
to AR-P and SI. AR-P received partial support from NIH
via grants R21DK118373, entitled Identification of pathogenic
bacteria in Crohn’s disease, P30DK097948 NIH Silvio O. Conte Cleveland Digestive Diseases Research Core Center, and
P01DK091222 (Germ-Free and Gut Microbiome Core) to FC and
TP, Case Western Reserve University. AB received support via
NIH F32. Sufficient scientific evidence exists (54) and continues to
emerge (55–57) to justify the use of face covers to protect the
general public not only during the COVID-19 pandemic, but also
for every new respiratory virus in the future. While several studies
for cloth masks have been conducted with dried aerosols, only a
few have studied the impact of wet aerosols. Thus, the present
study serves as a reliable, rapid, and reproducible methodology
as a platform for liquid droplet testing models. As minor study
limitations, we tested only a representative sample of a vast list
of potentially available household textiles and did not test dry
aerosolized viral particles. DISCUSSION implemented because most houses have immediate access to, and
could safely use, an iron. In conclusion, we demonstrated that two-layer household
textiles produced a profound reduction of environmental
droplet contamination as effectively as medical-grade materials. Encouraging/mandating the synchronous implementation of
textile-face covers, while discouraging using medical masks in
public, will help control COVID-19. Although some materials may allow the passage of more
bacteria-containing droplets after three sprays (i.e., compare
“Cotton115,” single-layer vs. double, textile with largest mesh
pore sizes shown in Supplementary Figure 1), we emphasize
that there were no statistical differences attributed to the
number of droplets that cross the barrier compared to single-
sprays in all the multivariable regression models tested with
raw and log2-transformed data, especially when tested as two-
layers. Collectively, there is no statistical rationale to justify
that people should change the mask as a function of number
of sneezes to reduce environmental contamination, especially if
two-layer masks or covers were used. However, it is advisable
to wear/use a clean facemask/surface cover, and that these are
cleaned/disinfected (e.g., ironed) after every use, or as often
as possible. SUPPLEMENTARY MATERIAL The Supplementary Material for this article can be found
online
at:
https://www.frontiersin.org/articles/10.3389/fmed. 2020.00260/full#supplementary-material AUTHOR CONTRIBUTIONS AR-P envisioned, planned and executed the experiments,
analyzed the data, prepared the figures, and wrote the
manuscript. SI
executed
validation
and
complementary
experiments, interpreted the data, and wrote the manuscript. AB assisted with documentation in Supplementary Material
and commented and edit the paper. FC and TP commented,
revised, and edited the manuscript for medical accuracy
and
data
interpretation. All
authors
approved
the
final manuscript. To further support the functional value of textiles in public
droplet safety, we recently demonstrated in vivo that two layers of
comb cotton fully protect an environment of germ-free mice and
the animals when exposed to up to 20 spray clouds of bacteria-
carrying microdroplets (25). Other cotton materials with a less
uniform finishing, such as carded yarn, could also provide droplet
protection, although this was not tested. The use of homemade
coverings combined with household disinfection strategies and
information and educational campaigns promoting face cover
utilization by the community (e.g., posting door signs) (53)
could be more cost-effective compared to the economic effects
of prolonged lockdowns. Of note, we emphasize that face covers
must be used in conjunction with existing recommendations on
hand washing and sneezing into one’s arm sleeve. DISCUSSION The world was initially in short supply of masks since
the international “lockdown” affected production (45), with
health-care workers experiencing high morbidity/mortality due
to reduced protection (46). Governments have sought private
support to increase mask supplies; however, such strategy have
taken weeks/months, and infection rates would not improve
if supplies were still not available to “lockdown” communities. Increased community transmission leads to higher demand
for medical services, unless transmission is halted. Using
household textiles is a potentially life-saving cost-effective anti-
pandemic strategy because washing/laundering textiles have
been shown to destroy COVID-19 by heat (70◦C/5 min),
bleach (1:49/5 min), and detergents (20 min) (47–50), and is
more sustainable (community-level) than using scarce medical
disinfectants/supplies. As a rapid solution and alternative to
chemical disinfection, and as a step prior to laundering, we
highlight the value of ironing (51, 52) because humid and dry
heat produced by an iron is safe and in excess of the minimum
temperatures needed to destroy viruses and even spore forming
bacteria, without affecting the integrity of textile facemasks or
face covers. Ironing has been seen as a long-standing disinfection
strategy since at least the 1920s (52) and could be universally Despite widespread dissemination of information to curtail
the rapid spread of COVID-19 outside of China [information
which mainly reaches 20–54 year-old adults, who make up
40% of hospitalizations in the USA (34)], little attention has
been devoted to EnvDC and prevention strategies for droplet
movement from infected to non-infected individuals within
the same community. More concerningly is that following
mandatory “stay-at-home” quarantine orders, people may return
to work unprotected, unaware if they are infected/shedders. This
is particularly critical for “essential pandemic workers,” who face
different levels of risk (health-care vs. electric/transport/food
services), and who can contaminate environmental surfaces
as they transit through the community between work (i.e.,
hospitals) and home, or within their households (35), without
wearing masks. Because mass testing is not always possible (6),
especially for novel organisms like COVID-19, there are growing
concerns that asymptomatic and mildly symptomatic citizens
will continue to spread and reintroduce the virus to new areas,
creating waves of cases, contributing to further economic burden
from the outbreak (36). May 2020 | Volume 7 | Article 260 Frontiers in Medicine | www.frontiersin.org 8 Droplet Reduction Model Against Pandemics Rodriguez-Palacios et al. implemented because most houses have immediate access to, and
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absence of any commercial or financial relationships that could be construed as a
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14.pdf Copyright © 2020 Rodriguez-Palacios, Cominelli, Basson, Pizarro and Ilic. This is an
open-access article distributed under the terms of the Creative Commons Attribution
License (CC BY). The use, distribution or reproduction in other forums is permitted,
provided the original author(s) and the copyright owner(s) are credited and that the
original publication in this journal is cited, in accordance with accepted academic
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