Datasets:
vgainullin
/
xciting_data

Dataset card Data Studio Files
xet
 Community
1
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5
INTRODUCTION
1
Riggs 1993
[ "R27", "R43", "R16", "R21", "R7", "R4", "R21", "R4", "R13", "R36", "R62" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA
A preliminary phylogenetic analysis of the relationships among P. omnivora and other botryoblastosporic fungi using the nuclear ribosomal internal transcribed spacer (ITS) region was inconclusive (Riggs 1993).
[ "Hine et al. 1969", "Lyda & Burnett 1970", "Edgington et al. 1971", "Gunasekaran et al. (1974)", "Bracker 1967", "Bartnicki-Garcia 1987", "Gunasekaran et al. 1974", "Bartnicki-Garcia 1987", "Dong et al. (1981)", "Kirk et al. 2001", "Riggs 1993" ]
209
40,416
1
false
A preliminary phylogenetic analysis of the relationships among P. omnivora and other botryoblastosporic fungi using the nuclear ribosomal internal transcribed spacer (ITS) region was inconclusive.
[ "Riggs 1993" ]
A preliminary phylogenetic analysis of the relationships among P. omnivora and other botryoblastosporic fungi using the nuclear ribosomal internal transcribed spacer (ITS) region was inconclusive.
true
true
true
true
true
6,980
5
INTRODUCTION
1
Hine et al. 1969
[ "R27", "R43", "R16", "R21", "R7", "R4", "R21", "R4", "R13", "R36", "R62" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA
The purpose of the current study is to provide a more conclusive and precise systematic placement of the cotton root rot pathogen, Phymatotrichopsis omnivora, based on phylogenetic analyses of DNA sequence data from nuclear ribosomal DNA and protein-coding genes.
[ "Hine et al. 1969", "Lyda & Burnett 1970", "Edgington et al. 1971", "Gunasekaran et al. (1974)", "Bracker 1967", "Bartnicki-Garcia 1987", "Gunasekaran et al. 1974", "Bartnicki-Garcia 1987", "Dong et al. (1981)", "Kirk et al. 2001", "Riggs 1993" ]
263
40,417
0
false
The purpose of the current study is to provide a more conclusive and precise systematic placement of the cotton root rot pathogen, Phymatotrichopsis omnivora, based on phylogenetic analyses of DNA sequence data from nuclear ribosomal DNA and protein-coding genes.
[]
The purpose of the current study is to provide a more conclusive and precise systematic placement of the cotton root rot pathogen, Phymatotrichopsis omnivora, based on phylogenetic analyses of DNA sequence data from nuclear ribosomal DNA and protein-coding genes.
true
true
true
true
true
6,980
0
DISCUSSION
1
O’Donnell et al. 1997
[ "R49", "R23", "R23", "R57" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA
Neither Sistotrema brinkmannii nor Phanerochaete omnivora represent the teleomorph of the cotton root rot pathogen.
[ "O’Donnell et al. 1997", "Hansen & Pfister 2006", "Hansen & Pfister (2006)", "Pfister et al. 1974" ]
115
40,418
0
false
Neither Sistotrema brinkmannii nor Phanerochaete omnivora represent the teleomorph of the cotton root rot pathogen.
[]
Neither Sistotrema brinkmannii nor Phanerochaete omnivora represent the teleomorph of the cotton root rot pathogen.
true
true
true
true
true
6,981
0
DISCUSSION
1
O’Donnell et al. 1997
[ "R49", "R23", "R23", "R57" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA
Phymatotrichopsis omnivora is not a member of the phylum Basidiomycota.
[ "O’Donnell et al. 1997", "Hansen & Pfister 2006", "Hansen & Pfister (2006)", "Pfister et al. 1974" ]
71
40,419
0
false
Phymatotrichopsis omnivora is not a member of the phylum Basidiomycota.
[]
Phymatotrichopsis omnivora is not a member of the phylum Basidiomycota.
true
true
true
true
true
6,981
0
DISCUSSION
1
O’Donnell et al. 1997
[ "R49", "R23", "R23", "R57" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA
Instead, Phymatotrichopsis omnivora is an anamorphic (mitosporic) member of the phylum Ascomycota, class Pezizomycetes (order Pezizales, operculate discomycetes).
[ "O’Donnell et al. 1997", "Hansen & Pfister 2006", "Hansen & Pfister (2006)", "Pfister et al. 1974" ]
162
40,420
0
false
Instead, Phymatotrichopsis omnivora is an anamorphic (mitosporic) member of the phylum Ascomycota, class Pezizomycetes (order Pezizales, operculate discomycetes).
[]
Instead, Phymatotrichopsis omnivora is an anamorphic member of the phylum Ascomycota, class Pezizomycetes.
true
true
true
true
true
6,981
0
DISCUSSION
1
O’Donnell et al. 1997
[ "R49", "R23", "R23", "R57" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA
Our phylogenetic analyses place Phymatotrichopsis omnivora in Rhizinaceae with Psilopezia and Rhizina.
[ "O’Donnell et al. 1997", "Hansen & Pfister 2006", "Hansen & Pfister (2006)", "Pfister et al. 1974" ]
102
40,421
0
false
Our phylogenetic analyses place Phymatotrichopsis omnivora in Rhizinaceae with Psilopezia and Rhizina.
[]
Our phylogenetic analyses place Phymatotrichopsis omnivora in Rhizinaceae with Psilopezia and Rhizina.
true
true
true
true
true
6,981
0
DISCUSSION
1
O’Donnell et al. 1997
[ "R49", "R23", "R23", "R57" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA
Rhizinaceae was resurrected as a monotypic family based on molecular data (O’Donnell et al.
[ "O’Donnell et al. 1997", "Hansen & Pfister 2006", "Hansen & Pfister (2006)", "Pfister et al. 1974" ]
91
40,422
0
false
Rhizinaceae was resurrected as a monotypic family based on molecular data (O’Donnell et al.
[]
Rhizinaceae was resurrected as a monotypic family based on molecular data (O’Donnell et al.
true
true
true
true
true
6,981
0
DISCUSSION
1
Hansen & Pfister 2006
[ "R49", "R23", "R23", "R57" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA
1997), and recently, species of Psilopezia were suggested to belong to the family (Hansen & Pfister 2006).
[ "O’Donnell et al. 1997", "Hansen & Pfister 2006", "Hansen & Pfister (2006)", "Pfister et al. 1974" ]
106
40,423
1
false
1997), and recently, species of Psilopezia were suggested to belong to the family.
[ "Hansen & Pfister 2006" ]
1997), and recently, species of Psilopezia were suggested to belong to the family.
false
false
true
true
false
6,981
0
DISCUSSION
1
O’Donnell et al. 1997
[ "R49", "R23", "R23", "R57" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA
Whether Rhizinaceae represents an independent lineage within Pezizomycetes, as suggested by Hansen & Pfister (2006) and our Bayesian analyses (Fig.
[ "O’Donnell et al. 1997", "Hansen & Pfister 2006", "Hansen & Pfister (2006)", "Pfister et al. 1974" ]
147
40,424
0
false
Whether Rhizinaceae represents an independent lineage within Pezizomycetes, as suggested by Hansen & Pfister (2006) and our Bayesian analyses (Fig.
[]
Whether Rhizinaceae represents an independent lineage within Pezizomycetes, as suggested by Hansen & Pfister (2006) and our Bayesian analyses (Fig.
true
true
true
true
true
6,981
0
DISCUSSION
1
O’Donnell et al. 1997
[ "R49", "R23", "R23", "R57" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA
3), is still uncertain, as we are unable to reject constraint topologies that force Rhizinaceae to group with lineage B (with or without Caloscyphaceae) or lineage C. Based on SSU and LSU sequences, Pulchromyces fimicola (formerly Phymatotrichum fimicola) is also a member of the class Pezizomycetes, but is clearly not ...
[ "O’Donnell et al. 1997", "Hansen & Pfister 2006", "Hansen & Pfister (2006)", "Pfister et al. 1974" ]
354
40,425
0
false
3), is still uncertain, as we are unable to reject constraint topologies that force Rhizinaceae to group with lineage B (with or without Caloscyphaceae) or lineage C. Based on SSU and LSU sequences, Pulchromyces fimicola (formerly Phymatotrichum fimicola) is also a member of the class Pezizomycetes, but is clearly not ...
[]
3), is still uncertain, as we are unable to reject constraint topologies that force Rhizinaceae to group with lineage B or lineage C. Based on SSU and LSU sequences, Pulchromyces fimicola is also a member of the class Pezizomycetes, but is clearly not congeneric with Phymatotrichopsis.
false
false
true
true
false
6,981
0
DISCUSSION
1
O’Donnell et al. 1997
[ "R49", "R23", "R23", "R57" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA
Instead, it is closely related to members of the C-lineage, possibly in Pyronemataceae or Ascodesmidaceae.
[ "O’Donnell et al. 1997", "Hansen & Pfister 2006", "Hansen & Pfister (2006)", "Pfister et al. 1974" ]
106
40,426
0
false
Instead, it is closely related to members of the C-lineage, possibly in Pyronemataceae or Ascodesmidaceae.
[]
Instead, it is closely related to members of the C-lineage, possibly in Pyronemataceae or Ascodesmidaceae.
true
true
true
true
true
6,981
0
DISCUSSION
1
O’Donnell et al. 1997
[ "R49", "R23", "R23", "R57" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA
Pulchromyces has been found on the dung of mice, otters, bats and shrews, in temperate and tropical regions, in Ghana, Panama and the United States (Pfister et al.
[ "O’Donnell et al. 1997", "Hansen & Pfister 2006", "Hansen & Pfister (2006)", "Pfister et al. 1974" ]
163
40,427
0
false
Pulchromyces has been found on the dung of mice, otters, bats and shrews, in temperate and tropical regions, in Ghana, Panama and the United States (Pfister et al.
[]
Pulchromyces has been found on the dung of mice, otters, bats and shrews, in temperate and tropical regions, in Ghana, Panama and the United States (Pfister et al.
true
true
true
true
true
6,981
0
DISCUSSION
1
O’Donnell et al. 1997
[ "R49", "R23", "R23", "R57" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA
A number of genera shown to be closely related to Pulchromyces, namely Ascodesmis, Lasiobolidium, Lasiobolus and Pseudombrophila (Fig.
[ "O’Donnell et al. 1997", "Hansen & Pfister 2006", "Hansen & Pfister (2006)", "Pfister et al. 1974" ]
134
40,428
0
false
A number of genera shown to be closely related to Pulchromyces, namely Ascodesmis, Lasiobolidium, Lasiobolus and Pseudombrophila (Fig.
[]
A number of genera shown to be closely related to Pulchromyces, namely Ascodesmis, Lasiobolidium, Lasiobolus and Pseudombrophila (Fig.
true
true
true
true
true
6,981
0
DISCUSSION
1
O’Donnell et al. 1997
[ "R49", "R23", "R23", "R57" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA
2), are similarly fimicolous, although the fimicolous habit has been multiply derived throughout the Pezizomycetes and many other groups of fungi.
[ "O’Donnell et al. 1997", "Hansen & Pfister 2006", "Hansen & Pfister (2006)", "Pfister et al. 1974" ]
146
40,429
0
false
2), are similarly fimicolous, although the fimicolous habit has been multiply derived throughout the Pezizomycetes and many other groups of fungi.
[]
2), are similarly fimicolous, although the fimicolous habit has been multiply derived throughout the Pezizomycetes and many other groups of fungi.
false
false
true
true
false
6,981
0
DISCUSSION
1
O’Donnell et al. 1997
[ "R49", "R23", "R23", "R57" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA
A better taxon sample of these minute Pezizomycetes and related anamorphs will be required to settle the taxonomic position of Pulchromyces at the family level.
[ "O’Donnell et al. 1997", "Hansen & Pfister 2006", "Hansen & Pfister (2006)", "Pfister et al. 1974" ]
160
40,430
0
false
A better taxon sample of these minute Pezizomycetes and related anamorphs will be required to settle the taxonomic position of Pulchromyces at the family level.
[]
A better taxon sample of these minute Pezizomycetes and related anamorphs will be required to settle the taxonomic position of Pulchromyces at the family level.
true
true
true
true
true
6,981
1
DISCUSSION
1
Paden 1972
[ "R51", "R25", "R22", "R25", "R67", "R33" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA
The anamorphic morphology of Phymatotrichopsis omnivora partially supports its placement in the Pezizomycetes.
[ "Paden 1972", "Hennebert 1973", "Hansen et al. 2001", "Hennebert 1973", "Stalpers 1974", "Kiffer & Morelet 2000" ]
110
40,431
0
false
The anamorphic morphology of Phymatotrichopsis omnivora partially supports its placement in the Pezizomycetes.
[]
The anamorphic morphology of Phymatotrichopsis omnivora partially supports its placement in the Pezizomycetes.
true
true
true
true
true
6,982
1
DISCUSSION
1
Paden 1972
[ "R51", "R25", "R22", "R25", "R67", "R33" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA
The botryoblastoconidia produced by Phymatotrichopsis omnivora are also observed in many of the pleomorphic Pezizomycetes in which anamorph–teleomorph associations have been determined.
[ "Paden 1972", "Hennebert 1973", "Hansen et al. 2001", "Hennebert 1973", "Stalpers 1974", "Kiffer & Morelet 2000" ]
185
40,432
0
false
The botryoblastoconidia produced by Phymatotrichopsis omnivora are also observed in many of the pleomorphic Pezizomycetes in which anamorph–teleomorph associations have been determined.
[]
The botryoblastoconidia produced by Phymatotrichopsis omnivora are also observed in many of the pleomorphic Pezizomycetes in which anamorph–teleomorph associations have been determined.
true
true
true
true
true
6,982
1
DISCUSSION
1
Paden 1972
[ "R51", "R25", "R22", "R25", "R67", "R33" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA
For example, the anamorphic genera Chromelosporium, Oedocephalum, Ostracoderma, Glischroderma and Dichobotrys, are associated with the Pezizomycetes meiosporic genera, Peziza (first four) and Trichophaea (Paden 1972, Hennebert 1973, Hansen et al.
[ "Paden 1972", "Hennebert 1973", "Hansen et al. 2001", "Hennebert 1973", "Stalpers 1974", "Kiffer & Morelet 2000" ]
246
40,433
0
false
For example, the anamorphic genera Chromelosporium, Oedocephalum, Ostracoderma, Glischroderma and Dichobotrys, are associated with the Pezizomycetes meiosporic genera, Peziza (first four) and Trichophaea (Paden 1972, Hennebert 1973, Hansen et al.
[]
For example, the anamorphic genera Chromelosporium, Oedocephalum, Ostracoderma, Glischroderma and Dichobotrys, are associated with the Pezizomycetes meiosporic genera, Peziza and Trichophaea (Paden 1972, Hennebert 1973, Hansen et al.
true
true
true
true
true
6,982
1
DISCUSSION
1
Paden 1972
[ "R51", "R25", "R22", "R25", "R67", "R33" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA
However, botryoblastosporic reproduction occurs in several classes of both the Ascomycota and Basidiomycota.
[ "Paden 1972", "Hennebert 1973", "Hansen et al. 2001", "Hennebert 1973", "Stalpers 1974", "Kiffer & Morelet 2000" ]
108
40,434
0
false
However, botryoblastosporic reproduction occurs in several classes of both the Ascomycota and Basidiomycota.
[]
However, botryoblastosporic reproduction occurs in several classes of both the Ascomycota and Basidiomycota.
true
true
true
true
true
6,982
1
DISCUSSION
1
Paden 1972
[ "R51", "R25", "R22", "R25", "R67", "R33" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA
Such anamorphic genera are found in the Leotiomycetes (inoperculate discomycetes), in Botrytis, Streptobotrys, Amphobotrys, and Veruccobotrys, and in the Agaricomycetes (Homobasidiomycetes), in Spiniger (Hennebert 1973, Stalpers 1974, Kiffer & Morelet 2000).
[ "Paden 1972", "Hennebert 1973", "Hansen et al. 2001", "Hennebert 1973", "Stalpers 1974", "Kiffer & Morelet 2000" ]
258
40,435
0
false
Such anamorphic genera are found in the Leotiomycetes (inoperculate discomycetes), in Botrytis, Streptobotrys, Amphobotrys, and Veruccobotrys, and in the Agaricomycetes (Homobasidiomycetes), in Spiniger.
[ "Hennebert 1973, Stalpers 1974, Kiffer & Morelet 2000" ]
Such anamorphic genera are found in the Leotiomycetes, in Botrytis, Streptobotrys, Amphobotrys, and Veruccobotrys, and in the Agaricomycetes, in Spiniger.
true
true
true
true
true
6,982
1
DISCUSSION
1
Paden 1972
[ "R51", "R25", "R22", "R25", "R67", "R33" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA
Thus, botryoblastosporic patterns of conidiogenesis arose several times during fungal evolution and may have limited value for taxonomic classifications above genus.
[ "Paden 1972", "Hennebert 1973", "Hansen et al. 2001", "Hennebert 1973", "Stalpers 1974", "Kiffer & Morelet 2000" ]
165
40,436
0
false
Thus, botryoblastosporic patterns of conidiogenesis arose several times during fungal evolution and may have limited value for taxonomic classifications above genus.
[]
Thus, botryoblastosporic patterns of conidiogenesis arose several times during fungal evolution and may have limited value for taxonomic classifications above genus.
true
true
true
true
true
6,982
2
DISCUSSION
1
Lyda & Kenerley 1992
[ "R44", "R6", "R17", "R34", "R47", "R35", "R30" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA|NA|NA
Rhizomorph-like, mycelial strands are formed by both Phymatotrichopsis omnivora (Lyda & Kenerley 1992) and, proposed confamilial, Rhizina undulata (Booth & Gibson 1998).
[ "Lyda & Kenerley 1992", "Booth & Gibson 1998", "Fries 1822", "King & Loomis 1929", "Neal 1929", "King et al. 1931", "Jalaluddin 1967b" ]
169
40,437
1
false
Rhizomorph-like, mycelial strands are formed by both Phymatotrichopsis omnivora and, proposed confamilial, Rhizina undulata.
[ "Lyda & Kenerley 1992", "Booth & Gibson 1998" ]
Rhizomorph-like, mycelial strands are formed by both Phymatotrichopsis omnivora and, proposed confamilial, Rhizina undulata.
true
true
true
true
true
6,983
2
DISCUSSION
1
Lyda & Kenerley 1992
[ "R44", "R6", "R17", "R34", "R47", "R35", "R30" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA|NA|NA
Conspicuous mycelial strands are often found on the infected roots of host plants and are often used by plant pathologists to diagnose the root rots caused by either fungus.
[ "Lyda & Kenerley 1992", "Booth & Gibson 1998", "Fries 1822", "King & Loomis 1929", "Neal 1929", "King et al. 1931", "Jalaluddin 1967b" ]
173
40,438
0
false
Conspicuous mycelial strands are often found on the infected roots of host plants and are often used by plant pathologists to diagnose the root rots caused by either fungus.
[]
Conspicuous mycelial strands are often found on the infected roots of host plants and are often used by plant pathologists to diagnose the root rots caused by either fungus.
true
true
true
true
true
6,983
2
DISCUSSION
1
Lyda & Kenerley 1992
[ "R44", "R6", "R17", "R34", "R47", "R35", "R30" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA|NA|NA
Besides soilborne dissemination, the mycelial strands connect the reproductive structures, sporemats of Phymatotrichopsis omnivora or apothecia of Rhizina undulata, to nutritional sources.
[ "Lyda & Kenerley 1992", "Booth & Gibson 1998", "Fries 1822", "King & Loomis 1929", "Neal 1929", "King et al. 1931", "Jalaluddin 1967b" ]
188
40,439
0
false
Besides soilborne dissemination, the mycelial strands connect the reproductive structures, sporemats of Phymatotrichopsis omnivora or apothecia of Rhizina undulata, to nutritional sources.
[]
Besides soilborne dissemination, the mycelial strands connect the reproductive structures, sporemats of Phymatotrichopsis omnivora or apothecia of Rhizina undulata, to nutritional sources.
true
true
true
true
true
6,983
2
DISCUSSION
1
Fries 1822
[ "R44", "R6", "R17", "R34", "R47", "R35", "R30" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA|NA|NA
The root-like nature of the apothecial mycelial strands of Rhizina was the namesake character of the genus (Fries 1822).
[ "Lyda & Kenerley 1992", "Booth & Gibson 1998", "Fries 1822", "King & Loomis 1929", "Neal 1929", "King et al. 1931", "Jalaluddin 1967b" ]
120
40,440
1
false
The root-like nature of the apothecial mycelial strands of Rhizina was the namesake character of the genus.
[ "Fries 1822" ]
The root-like nature of the apothecial mycelial strands of Rhizina was the namesake character of the genus.
true
true
true
true
true
6,983
2
DISCUSSION
1
Lyda & Kenerley 1992
[ "R44", "R6", "R17", "R34", "R47", "R35", "R30" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA|NA|NA
The mycelial strands of Phymatotrichopsis eventually form long-lived, hypogeous sclerotia (King & Loomis 1929, Neal 1929, King et al.
[ "Lyda & Kenerley 1992", "Booth & Gibson 1998", "Fries 1822", "King & Loomis 1929", "Neal 1929", "King et al. 1931", "Jalaluddin 1967b" ]
133
40,441
0
false
The mycelial strands of Phymatotrichopsis eventually form long-lived, hypogeous sclerotia (King & Loomis 1929, Neal 1929, King et al.
[]
The mycelial strands of Phymatotrichopsis eventually form long-lived, hypogeous sclerotia (King & Loomis 1929, Neal 1929, King et al.
true
true
true
true
true
6,983
2
DISCUSSION
1
Jalaluddin 1967b
[ "R44", "R6", "R17", "R34", "R47", "R35", "R30" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA|NA|NA
1931), while sclerotia have not been reported for Rhizina, which survives as thick-walled ascospores that are stimulated to germinate by fire (Jalaluddin 1967b).
[ "Lyda & Kenerley 1992", "Booth & Gibson 1998", "Fries 1822", "King & Loomis 1929", "Neal 1929", "King et al. 1931", "Jalaluddin 1967b" ]
161
40,442
1
false
1931), while sclerotia have not been reported for Rhizina, which survives as thick-walled ascospores that are stimulated to germinate by fire.
[ "Jalaluddin 1967b" ]
1931), while sclerotia have not been reported for Rhizina, which survives as thick-walled ascospores that are stimulated to germinate by fire.
false
false
true
true
false
6,983
3
DISCUSSION
1
Trappe 1979
[ "R73", "R39", "R10", "R18", "R70", "R42", "R20", "R52", "R38", "R76", "R12", "R5", "R11", "R29", "R64" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA
The majority of the Pezizomycetes traditionally have been considered saprobic, but the trophic strategies of most species are not well-studied and remain undocumented.
[ "Trappe 1979", "Læssøe & Hansen 2007", "Dahlstrom et al. 1999", "Fujimura et al. 2005", "Tedersoo et al. 2006", "Lyda 1978", "Gremmen 1971", "Paden et al. 1978", "Kopcke et al. 2002", "Wang et al. 2005", "Döbbeler 1979", "Benkert 1993", "Davey & Currah 2006", "Jalaluddin 1967a", "Rush & ...
167
40,443
0
false
The majority of the Pezizomycetes traditionally have been considered saprobic, but the trophic strategies of most species are not well-studied and remain undocumented.
[]
The majority of the Pezizomycetes traditionally have been considered saprobic, but the trophic strategies of most species are not well-studied and remain undocumented.
true
true
true
true
true
6,984
3
DISCUSSION
1
Trappe 1979
[ "R73", "R39", "R10", "R18", "R70", "R42", "R20", "R52", "R38", "R76", "R12", "R5", "R11", "R29", "R64" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA
The inclusion of the Tuberales, which are assumed to be mainly mycorrhizal, in the Pezizales (Trappe 1979, Læssøe & Hansen 2007) and molecular studies identifying numerous other Pezizomycetes as ectomycorrhizal associates (Dahlstrom et al.
[ "Trappe 1979", "Læssøe & Hansen 2007", "Dahlstrom et al. 1999", "Fujimura et al. 2005", "Tedersoo et al. 2006", "Lyda 1978", "Gremmen 1971", "Paden et al. 1978", "Kopcke et al. 2002", "Wang et al. 2005", "Döbbeler 1979", "Benkert 1993", "Davey & Currah 2006", "Jalaluddin 1967a", "Rush & ...
239
40,444
0
false
The inclusion of the Tuberales, which are assumed to be mainly mycorrhizal, in the Pezizales and molecular studies identifying numerous other Pezizomycetes as ectomycorrhizal associates (Dahlstrom et al.
[ "Trappe 1979, Læssøe & Hansen 2007" ]
The inclusion of the Tuberales, which are assumed to be mainly mycorrhizal, in the Pezizales and molecular studies identifying numerous other Pezizomycetes as ectomycorrhizal associates (Dahlstrom et al.
true
true
true
true
true
6,984
3
DISCUSSION
1
Trappe 1979
[ "R73", "R39", "R10", "R18", "R70", "R42", "R20", "R52", "R38", "R76", "R12", "R5", "R11", "R29", "R64" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA
1999, Fujimura et al.
[ "Trappe 1979", "Læssøe & Hansen 2007", "Dahlstrom et al. 1999", "Fujimura et al. 2005", "Tedersoo et al. 2006", "Lyda 1978", "Gremmen 1971", "Paden et al. 1978", "Kopcke et al. 2002", "Wang et al. 2005", "Döbbeler 1979", "Benkert 1993", "Davey & Currah 2006", "Jalaluddin 1967a", "Rush & ...
21
40,445
0
false
1999, Fujimura et al.
[]
1999, Fujimura et al.
false
false
true
true
false
6,984
3
DISCUSSION
1
Trappe 1979
[ "R73", "R39", "R10", "R18", "R70", "R42", "R20", "R52", "R38", "R76", "R12", "R5", "R11", "R29", "R64" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA
2005, Tedersoo et al.
[ "Trappe 1979", "Læssøe & Hansen 2007", "Dahlstrom et al. 1999", "Fujimura et al. 2005", "Tedersoo et al. 2006", "Lyda 1978", "Gremmen 1971", "Paden et al. 1978", "Kopcke et al. 2002", "Wang et al. 2005", "Döbbeler 1979", "Benkert 1993", "Davey & Currah 2006", "Jalaluddin 1967a", "Rush & ...
21
40,446
0
false
2005, Tedersoo et al.
[]
2005, Tedersoo et al.
false
false
true
true
false
6,984
3
DISCUSSION
1
Trappe 1979
[ "R73", "R39", "R10", "R18", "R70", "R42", "R20", "R52", "R38", "R76", "R12", "R5", "R11", "R29", "R64" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA
2006) has revealed mycorrhizae as a major ecological niche of many pezizalean fungi.
[ "Trappe 1979", "Læssøe & Hansen 2007", "Dahlstrom et al. 1999", "Fujimura et al. 2005", "Tedersoo et al. 2006", "Lyda 1978", "Gremmen 1971", "Paden et al. 1978", "Kopcke et al. 2002", "Wang et al. 2005", "Döbbeler 1979", "Benkert 1993", "Davey & Currah 2006", "Jalaluddin 1967a", "Rush & ...
84
40,447
0
false
2006) has revealed mycorrhizae as a major ecological niche of many pezizalean fungi.
[]
2006) has revealed mycorrhizae as a major ecological niche of many pezizalean fungi.
false
false
true
true
false
6,984
3
DISCUSSION
1
Lyda 1978
[ "R73", "R39", "R10", "R18", "R70", "R42", "R20", "R52", "R38", "R76", "R12", "R5", "R11", "R29", "R64" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA
On the other hand, the ecology of Phymatotrichopsis omnivora, a mostly hypogeous plant pathogen with an extensive dicotyledonous host range (Lyda 1978), is relatively rare among the Pezizomycetes.
[ "Trappe 1979", "Læssøe & Hansen 2007", "Dahlstrom et al. 1999", "Fujimura et al. 2005", "Tedersoo et al. 2006", "Lyda 1978", "Gremmen 1971", "Paden et al. 1978", "Kopcke et al. 2002", "Wang et al. 2005", "Döbbeler 1979", "Benkert 1993", "Davey & Currah 2006", "Jalaluddin 1967a", "Rush & ...
196
40,448
1
false
On the other hand, the ecology of Phymatotrichopsis omnivora, a mostly hypogeous plant pathogen with an extensive dicotyledonous host range, is relatively rare among the Pezizomycetes.
[ "Lyda 1978" ]
On the other hand, the ecology of Phymatotrichopsis omnivora, a mostly hypogeous plant pathogen with an extensive dicotyledonous host range, is relatively rare among the Pezizomycetes.
true
true
true
true
true
6,984
3
DISCUSSION
1
Gremmen 1971
[ "R73", "R39", "R10", "R18", "R70", "R42", "R20", "R52", "R38", "R76", "R12", "R5", "R11", "R29", "R64" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA
Rhizina undulata is also a plant pathogen that infects a wide range of conifers (Gremmen 1971).
[ "Trappe 1979", "Læssøe & Hansen 2007", "Dahlstrom et al. 1999", "Fujimura et al. 2005", "Tedersoo et al. 2006", "Lyda 1978", "Gremmen 1971", "Paden et al. 1978", "Kopcke et al. 2002", "Wang et al. 2005", "Döbbeler 1979", "Benkert 1993", "Davey & Currah 2006", "Jalaluddin 1967a", "Rush & ...
95
40,449
1
false
Rhizina undulata is also a plant pathogen that infects a wide range of conifers.
[ "Gremmen 1971" ]
Rhizina undulata is also a plant pathogen that infects a wide range of conifers.
true
true
true
true
true
6,984
3
DISCUSSION
1
Trappe 1979
[ "R73", "R39", "R10", "R18", "R70", "R42", "R20", "R52", "R38", "R76", "R12", "R5", "R11", "R29", "R64" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA
Other plant pathogenic Pezizomycetes include the conifer seed pathogen Caloscypha fulgens (Paden et al.
[ "Trappe 1979", "Læssøe & Hansen 2007", "Dahlstrom et al. 1999", "Fujimura et al. 2005", "Tedersoo et al. 2006", "Lyda 1978", "Gremmen 1971", "Paden et al. 1978", "Kopcke et al. 2002", "Wang et al. 2005", "Döbbeler 1979", "Benkert 1993", "Davey & Currah 2006", "Jalaluddin 1967a", "Rush & ...
103
40,450
0
false
Other plant pathogenic Pezizomycetes include the conifer seed pathogen Caloscypha fulgens (Paden et al.
[]
Other plant pathogenic Pezizomycetes include the conifer seed pathogen Caloscypha fulgens (Paden et al.
true
true
true
true
true
6,984
3
DISCUSSION
1
Trappe 1979
[ "R73", "R39", "R10", "R18", "R70", "R42", "R20", "R52", "R38", "R76", "R12", "R5", "R11", "R29", "R64" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA
1978) and the Strumella canker fungus, Conoplea globosa (= Strumella coryneoidea; mitosporic Urnula) (Kopcke et al.
[ "Trappe 1979", "Læssøe & Hansen 2007", "Dahlstrom et al. 1999", "Fujimura et al. 2005", "Tedersoo et al. 2006", "Lyda 1978", "Gremmen 1971", "Paden et al. 1978", "Kopcke et al. 2002", "Wang et al. 2005", "Döbbeler 1979", "Benkert 1993", "Davey & Currah 2006", "Jalaluddin 1967a", "Rush & ...
115
40,451
0
false
1978) and the Strumella canker fungus, Conoplea globosa (= Strumella coryneoidea; mitosporic Urnula) (Kopcke et al.
[]
1978) and the Strumella canker fungus, Conoplea globosa (Kopcke et al.
false
false
true
true
false
6,984
3
DISCUSSION
1
Trappe 1979
[ "R73", "R39", "R10", "R18", "R70", "R42", "R20", "R52", "R38", "R76", "R12", "R5", "R11", "R29", "R64" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA
2002, Wang et al.
[ "Trappe 1979", "Læssøe & Hansen 2007", "Dahlstrom et al. 1999", "Fujimura et al. 2005", "Tedersoo et al. 2006", "Lyda 1978", "Gremmen 1971", "Paden et al. 1978", "Kopcke et al. 2002", "Wang et al. 2005", "Döbbeler 1979", "Benkert 1993", "Davey & Currah 2006", "Jalaluddin 1967a", "Rush & ...
17
40,452
0
false
2002, Wang et al.
[]
2002, Wang et al.
false
false
true
true
false
6,984
3
DISCUSSION
1
Trappe 1979
[ "R73", "R39", "R10", "R18", "R70", "R42", "R20", "R52", "R38", "R76", "R12", "R5", "R11", "R29", "R64" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA
Also, species of Octospora, Lamprospora and Neottiella form obligate associations with numerous bryophytes, which have been interpreted as parasitic (Döbbeler 1979, Benkert 1993, Davey & Currah 2006).
[ "Trappe 1979", "Læssøe & Hansen 2007", "Dahlstrom et al. 1999", "Fujimura et al. 2005", "Tedersoo et al. 2006", "Lyda 1978", "Gremmen 1971", "Paden et al. 1978", "Kopcke et al. 2002", "Wang et al. 2005", "Döbbeler 1979", "Benkert 1993", "Davey & Currah 2006", "Jalaluddin 1967a", "Rush & ...
200
40,453
0
false
Also, species of Octospora, Lamprospora and Neottiella form obligate associations with numerous bryophytes, which have been interpreted as parasitic.
[ "Döbbeler 1979, Benkert 1993, Davey & Currah 2006" ]
Also, species of Octospora, Lamprospora and Neottiella form obligate associations with numerous bryophytes, which have been interpreted as parasitic.
true
true
true
true
true
6,984
3
DISCUSSION
1
Trappe 1979
[ "R73", "R39", "R10", "R18", "R70", "R42", "R20", "R52", "R38", "R76", "R12", "R5", "R11", "R29", "R64" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA
Both Phymatotrichopsis and Rhizina also colonise dead plant debris in field situations, acting as facultative saprobes, and utilise these substrates for reproduction (Jalaluddin 1967a; Rush & Gerik 1989).
[ "Trappe 1979", "Læssøe & Hansen 2007", "Dahlstrom et al. 1999", "Fujimura et al. 2005", "Tedersoo et al. 2006", "Lyda 1978", "Gremmen 1971", "Paden et al. 1978", "Kopcke et al. 2002", "Wang et al. 2005", "Döbbeler 1979", "Benkert 1993", "Davey & Currah 2006", "Jalaluddin 1967a", "Rush & ...
204
40,454
0
false
Both Phymatotrichopsis and Rhizina also colonise dead plant debris in field situations, acting as facultative saprobes, and utilise these substrates for reproduction.
[ "Jalaluddin 1967a; Rush & Gerik 1989" ]
Both Phymatotrichopsis and Rhizina also colonise dead plant debris in field situations, acting as facultative saprobes, and utilise these substrates for reproduction.
true
true
true
true
true
6,984
4
DISCUSSION
1
Hansen & Pfister 2006
[ "R23", "R56" ]
20,198,139
NA|NA|NA|NA|NA
Very few similarities in apothecia morphology support a close relationship of Psilopezia with Rhizina (Hansen & Pfister 2006), and no obvious mitosporic or somatic similarities support a confamilial relationship with Phymatotrichopsis.
[ "Hansen & Pfister 2006", "Pfister 1973" ]
235
40,455
1
false
Very few similarities in apothecia morphology support a close relationship of Psilopezia with Rhizina, and no obvious mitosporic or somatic similarities support a confamilial relationship with Phymatotrichopsis.
[ "Hansen & Pfister 2006" ]
Very few similarities in apothecia morphology support a close relationship of Psilopezia with Rhizina, and no obvious mitosporic or somatic similarities support a confamilial relationship with Phymatotrichopsis.
true
true
true
true
true
6,985
4
DISCUSSION
1
Pfister 1973
[ "R23", "R56" ]
20,198,139
NA|NA|NA|NA|NA
The little that is known about the natural history of Psilopezia suggests a saprobic life style on wet, rotted wood (Pfister 1973), while Rhizina and Phymatotrichopsis are plant pathogens with a facultative saprobic phase.
[ "Hansen & Pfister 2006", "Pfister 1973" ]
222
40,456
1
false
The little that is known about the natural history of Psilopezia suggests a saprobic life style on wet, rotted wood, while Rhizina and Phymatotrichopsis are plant pathogens with a facultative saprobic phase.
[ "Pfister 1973" ]
The little that is known about the natural history of Psilopezia suggests a saprobic life style on wet, rotted wood, while Rhizina and Phymatotrichopsis are plant pathogens with a facultative saprobic phase.
true
true
true
true
true
6,985
4
DISCUSSION
1
Hansen & Pfister 2006
[ "R23", "R56" ]
20,198,139
NA|NA|NA|NA|NA
Nevertheless, based on our phylogenies of combined rDNA and RPB2 sequences, the monophyly of the Rhizinaceae, including Rhizina undulata, Phymatotrichopsis omnivora and Psilopezia deligata, was highly supported (BP 86 %, PP 100 %) and constraint topologies that forced Phymatotrichopsis to group outside Rhizinaceae were...
[ "Hansen & Pfister 2006", "Pfister 1973" ]
330
40,457
0
false
Nevertheless, based on our phylogenies of combined rDNA and RPB2 sequences, the monophyly of the Rhizinaceae, including Rhizina undulata, Phymatotrichopsis omnivora and Psilopezia deligata, was highly supported (BP 86 %, PP 100 %) and constraint topologies that forced Phymatotrichopsis to group outside Rhizinaceae were...
[]
Nevertheless, based on our phylogenies of combined rDNA and RPB2 sequences, the monophyly of the Rhizinaceae, including Rhizina undulata, Phymatotrichopsis omnivora and Psilopezia deligata, was highly supported and constraint topologies that forced Phymatotrichopsis to group outside Rhizinaceae were rejected.
true
true
true
true
true
6,985
4
DISCUSSION
1
Hansen & Pfister 2006
[ "R23", "R56" ]
20,198,139
NA|NA|NA|NA|NA
The relationships among Psilopezia, Rhizina and Phymatotrichopsis were, however, not resolved with confidence (the branch collapses in the strict consensus tree of all MPTs, and PP 90 %).
[ "Hansen & Pfister 2006", "Pfister 1973" ]
187
40,458
0
false
The relationships among Psilopezia, Rhizina and Phymatotrichopsis were, however, not resolved with confidence (the branch collapses in the strict consensus tree of all MPTs, and PP 90 %).
[]
The relationships among Psilopezia, Rhizina and Phymatotrichopsis were, however, not resolved with confidence.
true
true
true
true
true
6,985
4
DISCUSSION
1
Hansen & Pfister 2006
[ "R23", "R56" ]
20,198,139
NA|NA|NA|NA|NA
Psilopezia may possess an as yet unrecognised pathogenic phase, or represents a saprotrophic sister group to a derived parasitic clade of Rhizina and Phymatotrichopsis.
[ "Hansen & Pfister 2006", "Pfister 1973" ]
168
40,459
0
false
Psilopezia may possess an as yet unrecognised pathogenic phase, or represents a saprotrophic sister group to a derived parasitic clade of Rhizina and Phymatotrichopsis.
[]
Psilopezia may possess an as yet unrecognised pathogenic phase, or represents a saprotrophic sister group to a derived parasitic clade of Rhizina and Phymatotrichopsis.
true
true
true
true
true
6,985
4
DISCUSSION
1
Hansen & Pfister 2006
[ "R23", "R56" ]
20,198,139
NA|NA|NA|NA|NA
More members of the Rhizinaceae must be identified and characterized before further inferences on the evolution of their nutritional strategies can be clarified.
[ "Hansen & Pfister 2006", "Pfister 1973" ]
161
40,460
0
false
More members of the Rhizinaceae must be identified and characterized before further inferences on the evolution of their nutritional strategies can be clarified.
[]
More members of the Rhizinaceae must be identified and characterized before further inferences on the evolution of their nutritional strategies can be clarified.
true
true
true
true
true
6,985
5
DISCUSSION
1
Poma et al. 2006
[ "R58", "R40" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA
Knowledge of the correct phylogenetic placement of the cotton root rot pathogen as a member of the Pezizomycetes (Ascomycota), and not Agaricomycetes (Basidiomycota), will have significance in detecting the pathogen in the field and in developing methods of chemical or biological control.
[ "Poma et al. 2006", "Lazzari et al. 2007" ]
289
40,461
0
false
Knowledge of the correct phylogenetic placement of the cotton root rot pathogen as a member of the Pezizomycetes (Ascomycota), and not Agaricomycetes (Basidiomycota), will have significance in detecting the pathogen in the field and in developing methods of chemical or biological control.
[]
Knowledge of the correct phylogenetic placement of the cotton root rot pathogen as a member of the Pezizomycetes, and not Agaricomycetes, will have significance in detecting the pathogen in the field and in developing methods of chemical or biological control.
true
true
true
true
true
6,986
5
DISCUSSION
1
Poma et al. 2006
[ "R58", "R40" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA
Also, it will facilitate current efforts to assemble and annotate the genome sequence of Phymatotrichopsis omnivora strain OKAlf8 (http://www.genome.ou.edu/fungi.html) through comparative genomics with related ascomycetes.
[ "Poma et al. 2006", "Lazzari et al. 2007" ]
222
40,462
0
false
Also, it will facilitate current efforts to assemble and annotate the genome sequence of Phymatotrichopsis omnivora strain OKAlf8 (http://www.genome.ou.edu/fungi.html) through comparative genomics with related ascomycetes.
[]
Also, it will facilitate current efforts to assemble and annotate the genome sequence of Phymatotrichopsis omnivora strain OKAlf8 through comparative genomics with related ascomycetes.
true
true
true
true
true
6,986
5
DISCUSSION
1
Poma et al. 2006
[ "R58", "R40" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA
In addition to Phymatotrichopsis, genomic projects of two other Pezizomycetes, Tuber melanosporum and T. borchii, are ongoing (Poma et al.
[ "Poma et al. 2006", "Lazzari et al. 2007" ]
138
40,463
0
false
In addition to Phymatotrichopsis, genomic projects of two other Pezizomycetes, Tuber melanosporum and T. borchii, are ongoing (Poma et al.
[]
In addition to Phymatotrichopsis, genomic projects of two other Pezizomycetes, Tuber melanosporum and T. borchii, are ongoing (Poma et al.
true
true
true
true
true
6,986
5
DISCUSSION
1
Poma et al. 2006
[ "R58", "R40" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA
2006, Lazzari et al.
[ "Poma et al. 2006", "Lazzari et al. 2007" ]
20
40,464
0
false
2006, Lazzari et al.
[]
2006, Lazzari et al.
false
false
true
true
false
6,986
5
DISCUSSION
1
Poma et al. 2006
[ "R58", "R40" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA
2007; http://mycor.nancy.inra.fr/IMGC/Tuber-Genome/index.html).
[ "Poma et al. 2006", "Lazzari et al. 2007" ]
63
40,465
0
false
2007; http://mycor.nancy.inra.fr/IMGC/Tuber-Genome/index.html).
[]
2007; http://mycor.nancy.inra.fr/IMGC/Tuber-Genome/index.html).
false
false
true
true
false
6,986
5
DISCUSSION
1
Poma et al. 2006
[ "R58", "R40" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA|NA
The insights into the genetic underpinnings of this fascinating, but understudied, class of fungi should prove fruitful.
[ "Poma et al. 2006", "Lazzari et al. 2007" ]
120
40,466
0
false
The insights into the genetic underpinnings of this fascinating, but understudied, class of fungi should prove fruitful.
[]
The insights into the genetic underpinnings of this fascinating, but understudied, class of fungi should prove fruitful.
true
true
true
true
true
6,986
6
DISCUSSION
1
Duggar (1916)
[ "R14", "R65", "R25", "R46", "R46", "R25", "R26", "R25" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA
Given the economic importance of Phymatotrichopsis omnivora and the presence of ITS sequence variation among strains of this species (data not shown), it is important that a consensus is reached as to the correct author citation and (therefore) typification of this species.
[ "Duggar (1916)", "Shear (1907)", "Hennebert (1973)", "McNeill et al. 2006", "McNeill et al. 2006", "Hennebert (1973)", "Hennebert 1993", "Hennebert (1973)" ]
274
40,467
0
false
Given the economic importance of Phymatotrichopsis omnivora and the presence of ITS sequence variation among strains of this species (data not shown), it is important that a consensus is reached as to the correct author citation and (therefore) typification of this species.
[]
Given the economic importance of Phymatotrichopsis omnivora and the presence of ITS sequence variation among strains of this species, it is important that a consensus is reached as to the correct author citation and typification of this species.
true
true
true
true
true
6,987
6
DISCUSSION
1
Duggar (1916)
[ "R14", "R65", "R25", "R46", "R46", "R25", "R26", "R25" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA
Duggar (1916) explicitly transferred the species Ozonium omnivorum Shear to the genus Phymatotrichum because of the presence and nature of conidia in specimens of what he believed to be the same species as described by Shear (1907) and thus did not designate a type specimen among the various collections he referred to.
[ "Duggar (1916)", "Shear (1907)", "Hennebert (1973)", "McNeill et al. 2006", "McNeill et al. 2006", "Hennebert (1973)", "Hennebert 1993", "Hennebert (1973)" ]
320
40,468
0
false
Duggar (1916) explicitly transferred the species Ozonium omnivorum Shear to the genus Phymatotrichum because of the presence and nature of conidia in specimens of what he believed to be the same species as described by Shear (1907) and thus did not designate a type specimen among the various collections he referred to.
[]
Duggar explicitly transferred the species Ozonium omnivorum Shear to the genus Phymatotrichum because of the presence and nature of conidia in specimens of what he believed to be the same species as described by Shear and thus did not designate a type specimen among the various collections he referred to.
true
true
true
true
true
6,987
6
DISCUSSION
1
Duggar (1916)
[ "R14", "R65", "R25", "R46", "R46", "R25", "R26", "R25" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA
The decision of Hennebert (1973) to attribute the name solely to Duggar therefore left the species without a type specimen.
[ "Duggar (1916)", "Shear (1907)", "Hennebert (1973)", "McNeill et al. 2006", "McNeill et al. 2006", "Hennebert (1973)", "Hennebert 1993", "Hennebert (1973)" ]
123
40,469
0
false
The decision of Hennebert (1973) to attribute the name solely to Duggar therefore left the species without a type specimen.
[]
The decision of Hennebert to attribute the name solely to Duggar therefore left the species without a type specimen.
true
true
true
true
true
6,987
6
DISCUSSION
1
Duggar (1916)
[ "R14", "R65", "R25", "R46", "R46", "R25", "R26", "R25" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA
The relevant sections of the International Code of Botanical Nomenclature (ICBN; McNeill et al.
[ "Duggar (1916)", "Shear (1907)", "Hennebert (1973)", "McNeill et al. 2006", "McNeill et al. 2006", "Hennebert (1973)", "Hennebert 1993", "Hennebert (1973)" ]
95
40,470
0
false
The relevant sections of the International Code of Botanical Nomenclature (ICBN; McNeill et al.
[]
The relevant sections of the International Code of Botanical Nomenclature (ICBN; McNeill et al.
true
true
true
true
true
6,987
6
DISCUSSION
1
Duggar (1916)
[ "R14", "R65", "R25", "R46", "R46", "R25", "R26", "R25" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA
2006) are Art.
[ "Duggar (1916)", "Shear (1907)", "Hennebert (1973)", "McNeill et al. 2006", "McNeill et al. 2006", "Hennebert (1973)", "Hennebert 1993", "Hennebert (1973)" ]
14
40,471
0
false
2006) are Art.
[]
2006) are Art.
false
false
true
true
false
6,987
6
DISCUSSION
1
Duggar (1916)
[ "R14", "R65", "R25", "R46", "R46", "R25", "R26", "R25" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA
7.4, 48.1 and 59.6.
[ "Duggar (1916)", "Shear (1907)", "Hennebert (1973)", "McNeill et al. 2006", "McNeill et al. 2006", "Hennebert (1973)", "Hennebert 1993", "Hennebert (1973)" ]
19
40,472
0
false
7.4, 48.1 and 59.6.
[]
7.4, 48.1 and 59.6.
false
false
true
true
false
6,987
6
DISCUSSION
1
Duggar (1916)
[ "R14", "R65", "R25", "R46", "R46", "R25", "R26", "R25" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA
Article 7.4 states that “a new name formed from a previously published legitimate name (stat.
[ "Duggar (1916)", "Shear (1907)", "Hennebert (1973)", "McNeill et al. 2006", "McNeill et al. 2006", "Hennebert (1973)", "Hennebert 1993", "Hennebert (1973)" ]
93
40,473
0
false
Article 7.4 states that “a new name formed from a previously published legitimate name (stat.
[]
Article 7.4 states that “a new name formed from a previously published legitimate name (stat.
true
true
true
true
true
6,987
6
DISCUSSION
1
Duggar (1916)
[ "R14", "R65", "R25", "R46", "R46", "R25", "R26", "R25" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA
nov., comb.
[ "Duggar (1916)", "Shear (1907)", "Hennebert (1973)", "McNeill et al. 2006", "McNeill et al. 2006", "Hennebert (1973)", "Hennebert 1993", "Hennebert (1973)" ]
11
40,474
0
false
nov., comb.
[]
nov., comb.
false
true
true
true
false
6,987
6
DISCUSSION
1
Duggar (1916)
[ "R14", "R65", "R25", "R46", "R46", "R25", "R26", "R25" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA
nov.) is, in all circumstances, typified by the type of the basionym”, unless the author(s) explicitly excluded the type of the basionym (Art.
[ "Duggar (1916)", "Shear (1907)", "Hennebert (1973)", "McNeill et al. 2006", "McNeill et al. 2006", "Hennebert (1973)", "Hennebert 1993", "Hennebert (1973)" ]
142
40,475
0
false
nov.) is, in all circumstances, typified by the type of the basionym”, unless the author(s) explicitly excluded the type of the basionym (Art.
[]
nov.) is, in all circumstances, typified by the type of the basionym”, unless the author(s) explicitly excluded the type of the basionym (Art.
false
true
true
true
false
6,987
6
DISCUSSION
1
Duggar (1916)
[ "R14", "R65", "R25", "R46", "R46", "R25", "R26", "R25" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA
48.1) or explicitly described a new morph, simultaneously meeting all the requirements for description of a new species (Art.
[ "Duggar (1916)", "Shear (1907)", "Hennebert (1973)", "McNeill et al. 2006", "McNeill et al. 2006", "Hennebert (1973)", "Hennebert 1993", "Hennebert (1973)" ]
125
40,476
0
false
48.1) or explicitly described a new morph, simultaneously meeting all the requirements for description of a new species (Art.
[]
48.1) or explicitly described a new morph, simultaneously meeting all the requirements for description of a new species (Art.
false
false
true
true
false
6,987
6
DISCUSSION
1
Duggar (1916)
[ "R14", "R65", "R25", "R46", "R46", "R25", "R26", "R25" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA
59.6) (McNeill et al.
[ "Duggar (1916)", "Shear (1907)", "Hennebert (1973)", "McNeill et al. 2006", "McNeill et al. 2006", "Hennebert (1973)", "Hennebert 1993", "Hennebert (1973)" ]
21
40,477
0
false
59.6) (McNeill et al.
[]
59.6) (McNeill et al.
false
false
true
true
false
6,987
6
DISCUSSION
1
Duggar (1916)
[ "R14", "R65", "R25", "R46", "R46", "R25", "R26", "R25" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA
The decision by Hennebert (1973) rests on a narrow definition of Art.
[ "Duggar (1916)", "Shear (1907)", "Hennebert (1973)", "McNeill et al. 2006", "McNeill et al. 2006", "Hennebert (1973)", "Hennebert 1993", "Hennebert (1973)" ]
69
40,478
0
false
The decision by Hennebert (1973) rests on a narrow definition of Art.
[]
The decision by Hennebert rests on a narrow definition of Art.
true
true
true
true
true
6,987
6
DISCUSSION
1
Hennebert 1993
[ "R14", "R65", "R25", "R46", "R46", "R25", "R26", "R25" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA
59.6, that a conidial form should represent a new ‘morph’ separate from the ‘sterile’ mycelium that produced it, and goes against the growing consensus among mycologists of the principle of ‘one fungus – one name’ (Hennebert 1993).
[ "Duggar (1916)", "Shear (1907)", "Hennebert (1973)", "McNeill et al. 2006", "McNeill et al. 2006", "Hennebert (1973)", "Hennebert 1993", "Hennebert (1973)" ]
231
40,479
1
false
59.6, that a conidial form should represent a new ‘morph’ separate from the ‘sterile’ mycelium that produced it, and goes against the growing consensus among mycologists of the principle of ‘one fungus – one name’.
[ "Hennebert 1993" ]
59.6, that a conidial form should represent a new ‘morph’ separate from the ‘sterile’ mycelium that produced it, and goes against the growing consensus among mycologists of the principle of ‘one fungus – one name’.
false
false
true
true
false
6,987
6
DISCUSSION
1
Duggar (1916)
[ "R14", "R65", "R25", "R46", "R46", "R25", "R26", "R25" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA
We therefore choose to treat the decision by Hennebert (1973) to attribute the basionym of Phymatotrichopsis omnivora to Duggar as an error to be corrected under Art.
[ "Duggar (1916)", "Shear (1907)", "Hennebert (1973)", "McNeill et al. 2006", "McNeill et al. 2006", "Hennebert (1973)", "Hennebert 1993", "Hennebert (1973)" ]
166
40,480
0
false
We therefore choose to treat the decision by Hennebert (1973) to attribute the basionym of Phymatotrichopsis omnivora to Duggar as an error to be corrected under Art.
[]
We therefore choose to treat the decision by Hennebert to attribute the basionym of Phymatotrichopsis omnivora to Duggar as an error to be corrected under Art.
true
true
true
true
true
6,987
6
DISCUSSION
1
Duggar (1916)
[ "R14", "R65", "R25", "R46", "R46", "R25", "R26", "R25" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA
33.6, resulting in the authorities for the combination of Phymatotrichopsis omnivora (Shear) Hennebert and the restitution of Shear’s type specimen (C.L.
[ "Duggar (1916)", "Shear (1907)", "Hennebert (1973)", "McNeill et al. 2006", "McNeill et al. 2006", "Hennebert (1973)", "Hennebert 1993", "Hennebert (1973)" ]
153
40,481
0
false
33.6, resulting in the authorities for the combination of Phymatotrichopsis omnivora (Shear) Hennebert and the restitution of Shear’s type specimen (C.L.
[]
33.6, resulting in the authorities for the combination of Phymatotrichopsis omnivora Hennebert and the restitution of Shear’s type specimen (C.L.
false
false
true
true
false
6,987
6
DISCUSSION
1
Duggar (1916)
[ "R14", "R65", "R25", "R46", "R46", "R25", "R26", "R25" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA
Shear 1447, BPI 455660) as holotype.
[ "Duggar (1916)", "Shear (1907)", "Hennebert (1973)", "McNeill et al. 2006", "McNeill et al. 2006", "Hennebert (1973)", "Hennebert 1993", "Hennebert (1973)" ]
36
40,482
0
false
Shear 1447, BPI 455660) as holotype.
[]
Shear 1447, BPI 455660) as holotype.
true
true
true
true
true
6,987
6
DISCUSSION
1
Duggar (1916)
[ "R14", "R65", "R25", "R46", "R46", "R25", "R26", "R25" ]
20,198,139
NA|NA|NA|NA|NA|NA|NA|NA
The living culture, strain OKAlf8 (ATCC MYA-4551; isolated from infected alfalfa roots growing near Belleville, OK by S. Marek, August 2003), which is currently the basis of genome sequencing (http://www.genome.ou.edu/fungi.html), provides a sound anchor for future molecular studies.
[ "Duggar (1916)", "Shear (1907)", "Hennebert (1973)", "McNeill et al. 2006", "McNeill et al. 2006", "Hennebert (1973)", "Hennebert 1993", "Hennebert (1973)" ]
284
40,483
0
false
The living culture, strain OKAlf8 (ATCC MYA-4551; isolated from infected alfalfa roots growing near Belleville, OK by S. Marek, August 2003), which is currently the basis of genome sequencing (http://www.genome.ou.edu/fungi.html), provides a sound anchor for future molecular studies.
[]
The living culture, strain OKAlf8, which is currently the basis of genome sequencing, provides a sound anchor for future molecular studies.
true
true
true
true
true
6,987
0
INTRODUCTION
1
1
[ "B1", "B2", "B3", "B4", "B5", "B6", "B7", "B8", "B9", "B10 B11 B12 B13 B14" ]
19,443,451
pmid-15952895|pmid-17320505|pmid-17522675|pmid-11782440|pmid-11498573|pmid-11498574|pmid-11262868|pmid-17339880|NA|pmid-12526807|pmid-12150995|pmid-16624880|pmid-16469697|pmid-16864782|pmid-16624880|pmid-12711670|pmid-16984202|pmid-17602166|pmid-16885370|pmid-16984202|pmid-16984202|pmid-17602166
Methylation of cytosine bases is a post-synthetic modification of DNA found in the genome of many eukaryotic organisms.
[ "1", "2", "3", "4", "5", "6", "7", "8", "9", "10–14" ]
119
40,484
0
false
Methylation of cytosine bases is a post-synthetic modification of DNA found in the genome of many eukaryotic organisms.
[]
Methylation of cytosine bases is a post-synthetic modification of DNA found in the genome of many eukaryotic organisms.
true
true
true
true
true
6,988
0
INTRODUCTION
1
1
[ "B1", "B2", "B3", "B4", "B5", "B6", "B7", "B8", "B9", "B10 B11 B12 B13 B14" ]
19,443,451
pmid-15952895|pmid-17320505|pmid-17522675|pmid-11782440|pmid-11498573|pmid-11498574|pmid-11262868|pmid-17339880|NA|pmid-12526807|pmid-12150995|pmid-16624880|pmid-16469697|pmid-16864782|pmid-16624880|pmid-12711670|pmid-16984202|pmid-17602166|pmid-16885370|pmid-16984202|pmid-16984202|pmid-17602166
DNA methylation is established and perpetuated by DNA methyltransferases, which catalyse the transfer of a methyl group to the carbon 5 of cytosine to generate 5-methylcytosine (1).
[ "1", "2", "3", "4", "5", "6", "7", "8", "9", "10–14" ]
181
40,485
1
false
DNA methylation is established and perpetuated by DNA methyltransferases, which catalyse the transfer of a methyl group to the carbon 5 of cytosine to generate 5-methylcytosine.
[ "1" ]
DNA methylation is established and perpetuated by DNA methyltransferases, which catalyse the transfer of a methyl group to the carbon 5 of cytosine to generate 5-methylcytosine.
true
true
true
true
true
6,988
0
INTRODUCTION
1
1
[ "B1", "B2", "B3", "B4", "B5", "B6", "B7", "B8", "B9", "B10 B11 B12 B13 B14" ]
19,443,451
pmid-15952895|pmid-17320505|pmid-17522675|pmid-11782440|pmid-11498573|pmid-11498574|pmid-11262868|pmid-17339880|NA|pmid-12526807|pmid-12150995|pmid-16624880|pmid-16469697|pmid-16864782|pmid-16624880|pmid-12711670|pmid-16984202|pmid-17602166|pmid-16885370|pmid-16984202|pmid-16984202|pmid-17602166
In animals methylation is mostly restricted to CG dinucleotides, whereas plant genomes also display substantial methylation levels in CHG and CHH contexts (where H = A, C or T) (2,3).
[ "1", "2", "3", "4", "5", "6", "7", "8", "9", "10–14" ]
183
40,486
0
false
In animals methylation is mostly restricted to CG dinucleotides, whereas plant genomes also display substantial methylation levels in CHG and CHH contexts (where H = A, C or T).
[ "2,3" ]
In animals methylation is mostly restricted to CG dinucleotides, whereas plant genomes also display substantial methylation levels in CHG and CHH contexts (where H = A, C or T).
true
true
true
true
true
6,988
0
INTRODUCTION
1
4
[ "B1", "B2", "B3", "B4", "B5", "B6", "B7", "B8", "B9", "B10 B11 B12 B13 B14" ]
19,443,451
pmid-15952895|pmid-17320505|pmid-17522675|pmid-11782440|pmid-11498573|pmid-11498574|pmid-11262868|pmid-17339880|NA|pmid-12526807|pmid-12150995|pmid-16624880|pmid-16469697|pmid-16864782|pmid-16624880|pmid-12711670|pmid-16984202|pmid-17602166|pmid-16885370|pmid-16984202|pmid-16984202|pmid-17602166
DNA methylation is an epigenetic mark that promotes gene silencing and helps to preserve stable patterns of gene expression throughout cell divisions (4).
[ "1", "2", "3", "4", "5", "6", "7", "8", "9", "10–14" ]
154
40,487
1
false
DNA methylation is an epigenetic mark that promotes gene silencing and helps to preserve stable patterns of gene expression throughout cell divisions.
[ "4" ]
DNA methylation is an epigenetic mark that promotes gene silencing and helps to preserve stable patterns of gene expression throughout cell divisions.
true
true
true
true
true
6,988
0
INTRODUCTION
1
1
[ "B1", "B2", "B3", "B4", "B5", "B6", "B7", "B8", "B9", "B10 B11 B12 B13 B14" ]
19,443,451
pmid-15952895|pmid-17320505|pmid-17522675|pmid-11782440|pmid-11498573|pmid-11498574|pmid-11262868|pmid-17339880|NA|pmid-12526807|pmid-12150995|pmid-16624880|pmid-16469697|pmid-16864782|pmid-16624880|pmid-12711670|pmid-16984202|pmid-17602166|pmid-16885370|pmid-16984202|pmid-16984202|pmid-17602166
It plays essential roles in tissue-specific gene expression, genomic imprinting, X-chromosome inactivation and genome defence against parasitic mobile elements (5,6).
[ "1", "2", "3", "4", "5", "6", "7", "8", "9", "10–14" ]
166
40,488
0
false
It plays essential roles in tissue-specific gene expression, genomic imprinting, X-chromosome inactivation and genome defence against parasitic mobile elements.
[ "5,6" ]
It plays essential roles in tissue-specific gene expression, genomic imprinting, X-chromosome inactivation and genome defence against parasitic mobile elements.
true
true
true
true
true
6,988
0
INTRODUCTION
1
1
[ "B1", "B2", "B3", "B4", "B5", "B6", "B7", "B8", "B9", "B10 B11 B12 B13 B14" ]
19,443,451
pmid-15952895|pmid-17320505|pmid-17522675|pmid-11782440|pmid-11498573|pmid-11498574|pmid-11262868|pmid-17339880|NA|pmid-12526807|pmid-12150995|pmid-16624880|pmid-16469697|pmid-16864782|pmid-16624880|pmid-12711670|pmid-16984202|pmid-17602166|pmid-16885370|pmid-16984202|pmid-16984202|pmid-17602166
Furthermore, distortion of DNA methylation patterns is a central component in many forms of human disease, including cancer (7,8).
[ "1", "2", "3", "4", "5", "6", "7", "8", "9", "10–14" ]
130
40,489
0
false
Furthermore, distortion of DNA methylation patterns is a central component in many forms of human disease, including cancer.
[ "7,8" ]
Furthermore, distortion of DNA methylation patterns is a central component in many forms of human disease, including cancer.
true
true
true
true
true
6,988
0
INTRODUCTION
1
1
[ "B1", "B2", "B3", "B4", "B5", "B6", "B7", "B8", "B9", "B10 B11 B12 B13 B14" ]
19,443,451
pmid-15952895|pmid-17320505|pmid-17522675|pmid-11782440|pmid-11498573|pmid-11498574|pmid-11262868|pmid-17339880|NA|pmid-12526807|pmid-12150995|pmid-16624880|pmid-16469697|pmid-16864782|pmid-16624880|pmid-12711670|pmid-16984202|pmid-17602166|pmid-16885370|pmid-16984202|pmid-16984202|pmid-17602166
The dynamic control of methylation requires DNA demethylation, which may take place as a passive process due to lack of maintenance of methylation during several cycles of DNA replication or as an active mechanism in the absence of replication.
[ "1", "2", "3", "4", "5", "6", "7", "8", "9", "10–14" ]
244
40,490
0
false
The dynamic control of methylation requires DNA demethylation, which may take place as a passive process due to lack of maintenance of methylation during several cycles of DNA replication or as an active mechanism in the absence of replication.
[]
The dynamic control of methylation requires DNA demethylation, which may take place as a passive process due to lack of maintenance of methylation during several cycles of DNA replication or as an active mechanism in the absence of replication.
true
true
true
true
true
6,988
0
INTRODUCTION
1
9
[ "B1", "B2", "B3", "B4", "B5", "B6", "B7", "B8", "B9", "B10 B11 B12 B13 B14" ]
19,443,451
pmid-15952895|pmid-17320505|pmid-17522675|pmid-11782440|pmid-11498573|pmid-11498574|pmid-11262868|pmid-17339880|NA|pmid-12526807|pmid-12150995|pmid-16624880|pmid-16469697|pmid-16864782|pmid-16624880|pmid-12711670|pmid-16984202|pmid-17602166|pmid-16885370|pmid-16984202|pmid-16984202|pmid-17602166
The enzymatic basis of active DNA demethylation in animal cells remains controversial (9).
[ "1", "2", "3", "4", "5", "6", "7", "8", "9", "10–14" ]
90
40,491
1
false
The enzymatic basis of active DNA demethylation in animal cells remains controversial.
[ "9" ]
The enzymatic basis of active DNA demethylation in animal cells remains controversial.
true
true
true
true
true
6,988
0
INTRODUCTION
1
10–14
[ "B1", "B2", "B3", "B4", "B5", "B6", "B7", "B8", "B9", "B10 B11 B12 B13 B14" ]
19,443,451
pmid-15952895|pmid-17320505|pmid-17522675|pmid-11782440|pmid-11498573|pmid-11498574|pmid-11262868|pmid-17339880|NA|pmid-12526807|pmid-12150995|pmid-16624880|pmid-16469697|pmid-16864782|pmid-16624880|pmid-12711670|pmid-16984202|pmid-17602166|pmid-16885370|pmid-16984202|pmid-16984202|pmid-17602166
However, in plants there is convincing genetic and biochemical evidence that proteins from a family of DNA glycosylases typified by Arabidopsis ROS1 (REPRESSOR OF SILENCING 1) and DME (DEMETER) initiate 5-meC DNA demethylation through a base excision repair process (10–14).
[ "1", "2", "3", "4", "5", "6", "7", "8", "9", "10–14" ]
274
40,492
1
false
However, in plants there is convincing genetic and biochemical evidence that proteins from a family of DNA glycosylases typified by Arabidopsis ROS1 and DME (DEMETER) initiate 5-meC DNA demethylation through a base excision repair process.
[ "REPRESSOR OF SILENCING 1", "10–14" ]
However, in plants there is convincing genetic and biochemical evidence that proteins from a family of DNA glycosylases typified by Arabidopsis ROS1 and DME (DEMETER) initiate 5-meC DNA demethylation through a base excision repair process.
true
true
true
true
true
6,988
1
INTRODUCTION
1
10
[ "B10", "B11", "B15", "B16", "B11", "B17", "B18", "B9" ]
19,443,451
pmid-12526807|pmid-12150995|pmid-14631047|pmid-16648367|pmid-12150995|pmid-8805338|pmid-12832627|NA|pmid-7753630|pmid-3658670|pmid-9685338|pmid-8407958|pmid-10930409
ROS1 was identified in a screen for mutants with deregulated expression of the repetitive RD29A-LUC transgene (10).
[ "10", "11", "15", "16", "11", "17", "18", "9" ]
115
40,493
1
false
ROS1 was identified in a screen for mutants with deregulated expression of the repetitive RD29A-LUC transgene.
[ "10" ]
ROS1 was identified in a screen for mutants with deregulated expression of the repetitive RD29A-LUC transgene.
true
true
true
true
true
6,989
1
INTRODUCTION
1
10
[ "B10", "B11", "B15", "B16", "B11", "B17", "B18", "B9" ]
19,443,451
pmid-12526807|pmid-12150995|pmid-14631047|pmid-16648367|pmid-12150995|pmid-8805338|pmid-12832627|NA|pmid-7753630|pmid-3658670|pmid-9685338|pmid-8407958|pmid-10930409
DME is expressed primarily in the central cell of the female gametophyte, where it is required for the expression of the maternal alleles of the imprinted genes MEA, FWA and FIS2 (11,15,16).
[ "10", "11", "15", "16", "11", "17", "18", "9" ]
190
40,494
0
false
DME is expressed primarily in the central cell of the female gametophyte, where it is required for the expression of the maternal alleles of the imprinted genes MEA, FWA and FIS2.
[ "11,15,16" ]
DME is expressed primarily in the central cell of the female gametophyte, where it is required for the expression of the maternal alleles of the imprinted genes MEA, FWA and FIS2.
true
true
true
true
true
6,989
1
INTRODUCTION
1
11
[ "B10", "B11", "B15", "B16", "B11", "B17", "B18", "B9" ]
19,443,451
pmid-12526807|pmid-12150995|pmid-14631047|pmid-16648367|pmid-12150995|pmid-8805338|pmid-12832627|NA|pmid-7753630|pmid-3658670|pmid-9685338|pmid-8407958|pmid-10930409
In addition to ROS1 and DME, the genome of Arabidopsis encodes two additional paralogs, referred to as DEMETER-LIKE proteins DML2 and DML3 (11).
[ "10", "11", "15", "16", "11", "17", "18", "9" ]
144
40,495
1
false
In addition to ROS1 and DME, the genome of Arabidopsis encodes two additional paralogs, referred to as DEMETER-LIKE proteins DML2 and DML3.
[ "11" ]
In addition to ROS1 and DME, the genome of Arabidopsis encodes two additional paralogs, referred to as DEMETER-LIKE proteins DML2 and DML3.
true
true
true
true
true
6,989
1
INTRODUCTION
1
17
[ "B10", "B11", "B15", "B16", "B11", "B17", "B18", "B9" ]
19,443,451
pmid-12526807|pmid-12150995|pmid-14631047|pmid-16648367|pmid-12150995|pmid-8805338|pmid-12832627|NA|pmid-7753630|pmid-3658670|pmid-9685338|pmid-8407958|pmid-10930409
All four proteins are large polypeptides containing a DNA glycosylase domain with significant sequence similarity to base excision DNA repair proteins in the HhH-GPD superfamily (17).
[ "10", "11", "15", "16", "11", "17", "18", "9" ]
183
40,496
1
false
All four proteins are large polypeptides containing a DNA glycosylase domain with significant sequence similarity to base excision DNA repair proteins in the HhH-GPD superfamily.
[ "17" ]
All four proteins are large polypeptides containing a DNA glycosylase domain with significant sequence similarity to base excision DNA repair proteins in the HhH-GPD superfamily.
true
true
true
true
true
6,989
1
INTRODUCTION
1
18
[ "B10", "B11", "B15", "B16", "B11", "B17", "B18", "B9" ]
19,443,451
pmid-12526807|pmid-12150995|pmid-14631047|pmid-16648367|pmid-12150995|pmid-8805338|pmid-12832627|NA|pmid-7753630|pmid-3658670|pmid-9685338|pmid-8407958|pmid-10930409
The HhH-GPD superfamily of DNA glycosylases is widespread in all three domains of life (bacteria, archaea and eukaryotes) and its members are typically 200–400 amino acids long (18).
[ "10", "11", "15", "16", "11", "17", "18", "9" ]
182
40,497
1
false
The HhH-GPD superfamily of DNA glycosylases is widespread in all three domains of life (bacteria, archaea and eukaryotes) and its members are typically 200–400 amino acids long.
[ "18" ]
The HhH-GPD superfamily of DNA glycosylases is widespread in all three domains of life (bacteria, archaea and eukaryotes) and its members are typically 200–400 amino acids long.
true
true
true
true
true
6,989
1
INTRODUCTION
1
10
[ "B10", "B11", "B15", "B16", "B11", "B17", "B18", "B9" ]
19,443,451
pmid-12526807|pmid-12150995|pmid-14631047|pmid-16648367|pmid-12150995|pmid-8805338|pmid-12832627|NA|pmid-7753630|pmid-3658670|pmid-9685338|pmid-8407958|pmid-10930409
However, proteins of the ROS1/DME family are unusually large (1100–2000 amino acids) compared with typical DNA glycosylases.
[ "10", "11", "15", "16", "11", "17", "18", "9" ]
124
40,498
0
false
However, proteins of the ROS1/DME family are unusually large compared with typical DNA glycosylases.
[ "1100–2000 amino acids" ]
However, proteins of the ROS1/DME family are unusually large compared with typical DNA glycosylases.
true
true
true
true
true
6,989
1
INTRODUCTION
1
10
[ "B10", "B11", "B15", "B16", "B11", "B17", "B18", "B9" ]
19,443,451
pmid-12526807|pmid-12150995|pmid-14631047|pmid-16648367|pmid-12150995|pmid-8805338|pmid-12832627|NA|pmid-7753630|pmid-3658670|pmid-9685338|pmid-8407958|pmid-10930409
Furthermore, they appear to be unique to plants, with putative orthologs present in mosses and unicellular green algae.
[ "10", "11", "15", "16", "11", "17", "18", "9" ]
119
40,499
0
false
Furthermore, they appear to be unique to plants, with putative orthologs present in mosses and unicellular green algae.
[]
Furthermore, they appear to be unique to plants, with putative orthologs present in mosses and unicellular green algae.
true
true
true
true
true
6,989
1
INTRODUCTION
1
9
[ "B10", "B11", "B15", "B16", "B11", "B17", "B18", "B9" ]
19,443,451
pmid-12526807|pmid-12150995|pmid-14631047|pmid-16648367|pmid-12150995|pmid-8805338|pmid-12832627|NA|pmid-7753630|pmid-3658670|pmid-9685338|pmid-8407958|pmid-10930409
This suggests that active demethylation through excision of 5-meC may have appeared early during plant evolution (9).
[ "10", "11", "15", "16", "11", "17", "18", "9" ]
117
40,500
1
false
This suggests that active demethylation through excision of 5-meC may have appeared early during plant evolution.
[ "9" ]
This suggests that active demethylation through excision of 5-meC may have appeared early during plant evolution.
true
true
true
true
true
6,989
2
INTRODUCTION
1
12–14
[ "B12 B13 B14", "B12", "B12", "B13", "B12", "B13", "B12", "B19", "B20", "B21", "B20", "B21" ]
19,443,451
pmid-16624880|pmid-16469697|pmid-16864782|pmid-16624880|pmid-16624880|pmid-16469697|pmid-16624880|pmid-16469697|pmid-16624880|pmid-18278030|pmid-17409185|pmid-18493721|pmid-17409185|pmid-18493721|pmid-15939442|pmid-7515054
ROS1 and DME are the best in vitro-characterized members of this family of atypical DNA glycosylases (12–14).
[ "12–14", "12", "12", "13", "12", "13", "12", "19", "20", "21", "20", "21" ]
109
40,501
1
false
ROS1 and DME are the best in vitro-characterized members of this family of atypical DNA glycosylases.
[ "12–14" ]
ROS1 and DME are the best in vitro-characterized members of this family of atypical DNA glycosylases.
true
true
true
true
true
6,990
2
INTRODUCTION
1
12
[ "B12 B13 B14", "B12", "B12", "B13", "B12", "B13", "B12", "B19", "B20", "B21", "B20", "B21" ]
19,443,451
pmid-16624880|pmid-16469697|pmid-16864782|pmid-16624880|pmid-16624880|pmid-16469697|pmid-16624880|pmid-16469697|pmid-16624880|pmid-18278030|pmid-17409185|pmid-18493721|pmid-17409185|pmid-18493721|pmid-15939442|pmid-7515054
Both remove 5-meC as a free base from DNA using a glycosylase/lyase mechanism (12) and cleave the phosphodiester backbone at the 5-meC removal site by successive β,δ-elimination, leaving a gap that has to be further processed to generate a 3′-OH terminus suitable for polymerization and ligation (12,13).
[ "12–14", "12", "12", "13", "12", "13", "12", "19", "20", "21", "20", "21" ]
304
40,502
1
false
Both remove 5-meC as a free base from DNA using a glycosylase/lyase mechanism and cleave the phosphodiester backbone at the 5-meC removal site by successive β,δ-elimination, leaving a gap that has to be further processed to generate a 3′-OH terminus suitable for polymerization and ligation.
[ "12", "12,13" ]
Both remove 5-meC as a free base from DNA using a glycosylase/lyase mechanism and cleave the phosphodiester backbone at the 5-meC removal site by successive β,δ-elimination, leaving a gap that has to be further processed to generate a 3′-OH terminus suitable for polymerization and ligation.
true
true
true
true
true
6,990
2
INTRODUCTION
1
12–14
[ "B12 B13 B14", "B12", "B12", "B13", "B12", "B13", "B12", "B19", "B20", "B21", "B20", "B21" ]
19,443,451
pmid-16624880|pmid-16469697|pmid-16864782|pmid-16624880|pmid-16624880|pmid-16469697|pmid-16624880|pmid-16469697|pmid-16624880|pmid-18278030|pmid-17409185|pmid-18493721|pmid-17409185|pmid-18493721|pmid-15939442|pmid-7515054
Excision of 5-meC in vitro is more efficient in sequences that are more likely to be methylated in vivo.
[ "12–14", "12", "12", "13", "12", "13", "12", "19", "20", "21", "20", "21" ]
104
40,503
0
false
Excision of 5-meC in vitro is more efficient in sequences that are more likely to be methylated in vivo.
[]
Excision of 5-meC in vitro is more efficient in sequences that are more likely to be methylated in vivo.
true
true
true
true
true
6,990
2
INTRODUCTION
1
12–14
[ "B12 B13 B14", "B12", "B12", "B13", "B12", "B13", "B12", "B19", "B20", "B21", "B20", "B21" ]
19,443,451
pmid-16624880|pmid-16469697|pmid-16864782|pmid-16624880|pmid-16624880|pmid-16469697|pmid-16624880|pmid-16469697|pmid-16624880|pmid-18278030|pmid-17409185|pmid-18493721|pmid-17409185|pmid-18493721|pmid-15939442|pmid-7515054
Thus ROS1 and DME erase 5-meC at CG, CHG and CHH sequences, with a preference for CG sites (12,13), which matches the pattern of DNA methylation in plants.
[ "12–14", "12", "12", "13", "12", "13", "12", "19", "20", "21", "20", "21" ]
155
40,504
0
false
Thus ROS1 and DME erase 5-meC at CG, CHG and CHH sequences, with a preference for CG sites, which matches the pattern of DNA methylation in plants.
[ "12,13" ]
Thus ROS1 and DME erase 5-meC at CG, CHG and CHH sequences, with a preference for CG sites, which matches the pattern of DNA methylation in plants.
true
true
true
true
true
6,990
2
INTRODUCTION
1
12
[ "B12 B13 B14", "B12", "B12", "B13", "B12", "B13", "B12", "B19", "B20", "B21", "B20", "B21" ]
19,443,451
pmid-16624880|pmid-16469697|pmid-16864782|pmid-16624880|pmid-16624880|pmid-16469697|pmid-16624880|pmid-16469697|pmid-16624880|pmid-18278030|pmid-17409185|pmid-18493721|pmid-17409185|pmid-18493721|pmid-15939442|pmid-7515054
Furthermore, both proteins remove 5-meC more efficiently from a CAG context than when located in the outer position of a CCG context (12), consistent with the fact that CCG is the sequence with the lowest methylation level among the CHG sites (19).
[ "12–14", "12", "12", "13", "12", "13", "12", "19", "20", "21", "20", "21" ]
248
40,505
1
false
Furthermore, both proteins remove 5-meC more efficiently from a CAG context than when located in the outer position of a CCG context, consistent with the fact that CCG is the sequence with the lowest methylation level among the CHG sites.
[ "12", "19" ]
Furthermore, both proteins remove 5-meC more efficiently from a CAG context than when located in the outer position of a CCG context, consistent with the fact that CCG is the sequence with the lowest methylation level among the CHG sites.
true
true
true
true
true
6,990
2
INTRODUCTION
1
12–14
[ "B12 B13 B14", "B12", "B12", "B13", "B12", "B13", "B12", "B19", "B20", "B21", "B20", "B21" ]
19,443,451
pmid-16624880|pmid-16469697|pmid-16864782|pmid-16624880|pmid-16624880|pmid-16469697|pmid-16624880|pmid-16469697|pmid-16624880|pmid-18278030|pmid-17409185|pmid-18493721|pmid-17409185|pmid-18493721|pmid-15939442|pmid-7515054
DML2 and DML3 are also 5-meC DNA glycosylases/lyases (20,21).
[ "12–14", "12", "12", "13", "12", "13", "12", "19", "20", "21", "20", "21" ]
61
40,506
0
false
DML2 and DML3 are also 5-meC DNA glycosylases/lyases.
[ "20,21" ]
DML2 and DML3 are also 5-meC DNA glycosylases/lyases.
true
true
true
true
true
6,990
2
INTRODUCTION
1
12–14
[ "B12 B13 B14", "B12", "B12", "B13", "B12", "B13", "B12", "B19", "B20", "B21", "B20", "B21" ]
19,443,451
pmid-16624880|pmid-16469697|pmid-16864782|pmid-16624880|pmid-16624880|pmid-16469697|pmid-16624880|pmid-16469697|pmid-16624880|pmid-18278030|pmid-17409185|pmid-18493721|pmid-17409185|pmid-18493721|pmid-15939442|pmid-7515054
While DML2 activity is very weak, at least in vitro, DML3 has an enzymatic activity and substrate specificity comparable to those of DME and ROS1 (20,21).
[ "12–14", "12", "12", "13", "12", "13", "12", "19", "20", "21", "20", "21" ]
154
40,507
0
false
While DML2 activity is very weak, at least in vitro, DML3 has an enzymatic activity and substrate specificity comparable to those of DME and ROS1.
[ "20,21" ]
While DML2 activity is very weak, at least in vitro, DML3 has an enzymatic activity and substrate specificity comparable to those of DME and ROS1.
true
true
true
true
true
6,990
3
INTRODUCTION
1
13
[ "B13", "B15", "B16", "B10", "B22", "B20", "B23", "B21", "B23", "B12", "B13", "B21" ]
19,443,451
pmid-16469697|pmid-14631047|pmid-16648367|pmid-12526807|pmid-17208187|pmid-17409185|pmid-18423832|pmid-18493721|pmid-18423832|pmid-16624880|pmid-16469697|pmid-18493721|pmid-7806489|pmid-16624880|pmid-18154319|pmid-11287425|pmid-10884383
The precise in vivo roles of plant 5-meC DNA glycosylases are not fully understood.
[ "13", "15", "16", "10", "22", "20", "23", "21", "23", "12", "13", "21" ]
83
40,508
0
false
The precise in vivo roles of plant 5-meC DNA glycosylases are not fully understood.
[]
The precise in vivo roles of plant 5-meC DNA glycosylases are not fully understood.
true
true
true
true
true
6,991
3
INTRODUCTION
1
13
[ "B13", "B15", "B16", "B10", "B22", "B20", "B23", "B21", "B23", "B12", "B13", "B21" ]
19,443,451
pmid-16469697|pmid-14631047|pmid-16648367|pmid-12526807|pmid-17208187|pmid-17409185|pmid-18423832|pmid-18493721|pmid-18423832|pmid-16624880|pmid-16469697|pmid-18493721|pmid-7806489|pmid-16624880|pmid-18154319|pmid-11287425|pmid-10884383
DME is required to demethylate MEA, FWA, FIS2 and perhaps other unidentified imprinted loci in female gametes before fertilization (13,15,16).
[ "13", "15", "16", "10", "22", "20", "23", "21", "23", "12", "13", "21" ]
142
40,509
0
false
DME is required to demethylate MEA, FWA, FIS2 and perhaps other unidentified imprinted loci in female gametes before fertilization.
[ "13,15,16" ]
DME is required to demethylate MEA, FWA, FIS2 and perhaps other unidentified imprinted loci in female gametes before fertilization.
true
true
true
true
true
6,991
3
INTRODUCTION
1
10
[ "B13", "B15", "B16", "B10", "B22", "B20", "B23", "B21", "B23", "B12", "B13", "B21" ]
19,443,451
pmid-16469697|pmid-14631047|pmid-16648367|pmid-12526807|pmid-17208187|pmid-17409185|pmid-18423832|pmid-18493721|pmid-18423832|pmid-16624880|pmid-16469697|pmid-18493721|pmid-7806489|pmid-16624880|pmid-18154319|pmid-11287425|pmid-10884383
ROS1 prevents transcriptional gene silencing and hypermethylation of a repetitive transgene (10) but also regulates endogenous loci that show reduced expression and hypermethylation in ros1 plants (22).
[ "13", "15", "16", "10", "22", "20", "23", "21", "23", "12", "13", "21" ]
202
40,510
1
false
ROS1 prevents transcriptional gene silencing and hypermethylation of a repetitive transgene but also regulates endogenous loci that show reduced expression and hypermethylation in ros1 plants.
[ "10", "22" ]
ROS1 prevents transcriptional gene silencing and hypermethylation of a repetitive transgene but also regulates endogenous loci that show reduced expression and hypermethylation in ros1 plants.
true
true
true
true
true
6,991
3
INTRODUCTION
1
13
[ "B13", "B15", "B16", "B10", "B22", "B20", "B23", "B21", "B23", "B12", "B13", "B21" ]
19,443,451
pmid-16469697|pmid-14631047|pmid-16648367|pmid-12526807|pmid-17208187|pmid-17409185|pmid-18423832|pmid-18493721|pmid-18423832|pmid-16624880|pmid-16469697|pmid-18493721|pmid-7806489|pmid-16624880|pmid-18154319|pmid-11287425|pmid-10884383
Furthermore, genome-wide analyses of DNA methylation patterns have identified hundreds of regions that become hypermethylated in a ros1 dml2 dml3 triple mutant (20,23).
[ "13", "15", "16", "10", "22", "20", "23", "21", "23", "12", "13", "21" ]
168
40,511
0
false
Furthermore, genome-wide analyses of DNA methylation patterns have identified hundreds of regions that become hypermethylated in a ros1 dml2 dml3 triple mutant.
[ "20,23" ]
Furthermore, genome-wide analyses of DNA methylation patterns have identified hundreds of regions that become hypermethylated in a ros1 dml2 dml3 triple mutant.
true
true
true
true
true
6,991
3
INTRODUCTION
1
13
[ "B13", "B15", "B16", "B10", "B22", "B20", "B23", "B21", "B23", "B12", "B13", "B21" ]
19,443,451
pmid-16469697|pmid-14631047|pmid-16648367|pmid-12526807|pmid-17208187|pmid-17409185|pmid-18423832|pmid-18493721|pmid-18423832|pmid-16624880|pmid-16469697|pmid-18493721|pmid-7806489|pmid-16624880|pmid-18154319|pmid-11287425|pmid-10884383
Taken together, these results suggest that an important in vivo function of ROS1, DML2 and DML3 is to protect the genome from excess methylation.
[ "13", "15", "16", "10", "22", "20", "23", "21", "23", "12", "13", "21" ]
145
40,512
0
false
Taken together, these results suggest that an important in vivo function of ROS1, DML2 and DML3 is to protect the genome from excess methylation.
[]
Taken together, these results suggest that an important in vivo function of ROS1, DML2 and DML3 is to protect the genome from excess methylation.
true
true
true
true
true
6,991
3
INTRODUCTION
1
13
[ "B13", "B15", "B16", "B10", "B22", "B20", "B23", "B21", "B23", "B12", "B13", "B21" ]
19,443,451
pmid-16469697|pmid-14631047|pmid-16648367|pmid-12526807|pmid-17208187|pmid-17409185|pmid-18423832|pmid-18493721|pmid-18423832|pmid-16624880|pmid-16469697|pmid-18493721|pmid-7806489|pmid-16624880|pmid-18154319|pmid-11287425|pmid-10884383
On the other hand, there is some evidence to suggest that these proteins may be needed not only to counteract deleterious methylation, but also to maintain high methylation levels at properly targeted sites (21,23).
[ "13", "15", "16", "10", "22", "20", "23", "21", "23", "12", "13", "21" ]
215
40,513
0
false
On the other hand, there is some evidence to suggest that these proteins may be needed not only to counteract deleterious methylation, but also to maintain high methylation levels at properly targeted sites.
[ "21,23" ]
On the other hand, there is some evidence to suggest that these proteins may be needed not only to counteract deleterious methylation, but also to maintain high methylation levels at properly targeted sites.
true
true
true
true
true
6,991
3
INTRODUCTION
1
13
[ "B13", "B15", "B16", "B10", "B22", "B20", "B23", "B21", "B23", "B12", "B13", "B21" ]
19,443,451
pmid-16469697|pmid-14631047|pmid-16648367|pmid-12526807|pmid-17208187|pmid-17409185|pmid-18423832|pmid-18493721|pmid-18423832|pmid-16624880|pmid-16469697|pmid-18493721|pmid-7806489|pmid-16624880|pmid-18154319|pmid-11287425|pmid-10884383
The prevailing view is that demethylation initiated by the ROS1/DME family of DNA glycosylases contributes to the stability and flexibility of the plant epigenome.
[ "13", "15", "16", "10", "22", "20", "23", "21", "23", "12", "13", "21" ]
163
40,514
0
false
The prevailing view is that demethylation initiated by the ROS1/DME family of DNA glycosylases contributes to the stability and flexibility of the plant epigenome.
[]
The prevailing view is that demethylation initiated by the ROS1/DME family of DNA glycosylases contributes to the stability and flexibility of the plant epigenome.
true
true
true
true
true
6,991
3
INTRODUCTION
1
13
[ "B13", "B15", "B16", "B10", "B22", "B20", "B23", "B21", "B23", "B12", "B13", "B21" ]
19,443,451
pmid-16469697|pmid-14631047|pmid-16648367|pmid-12526807|pmid-17208187|pmid-17409185|pmid-18423832|pmid-18493721|pmid-18423832|pmid-16624880|pmid-16469697|pmid-18493721|pmid-7806489|pmid-16624880|pmid-18154319|pmid-11287425|pmid-10884383
In addition to 5-meC paired with guanine, DME, ROS1 and DML3 also remove thymine from a T:G mismatch located at CG, CHG and CHH sequences (12,13,21).
[ "13", "15", "16", "10", "22", "20", "23", "21", "23", "12", "13", "21" ]
149
40,515
0
false
In addition to 5-meC paired with guanine, DME, ROS1 and DML3 also remove thymine from a T:G mismatch located at CG, CHG and CHH sequences.
[ "12,13,21" ]
In addition to 5-meC paired with guanine, DME, ROS1 and DML3 also remove thymine from a T:G mismatch located at CG, CHG and CHH sequences.
true
true
true
true
true
6,991