Datasets:
vgainullin
/
xciting_data

Dataset card Data Studio Files
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 Community
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1
INTRODUCTION
1
13–15
[ "B13 B14 B15", "B16", "B8", "B17", "B18", "B19 B20 B21 B22", "B23", "B24 B25 B26", "B19", "B27 B28 B29", "B16", "B30", "B8", "B11", "B12", "B31", "B32" ]
20,378,712
pmid-7665490|pmid-9781871|pmid-17850261|pmid-18174122|pmid-12067347|pmid-18310331|pmid-18820071|pmid-19581394|pmid-15126453|pmid-12488561|pmid-17555441|pmid-16262799|pmid-10672185|pmid-16368988|pmid-12791144|pmid-19581394|pmid-18430141|pmid-11673439|pmid-18025099|pmid-18174122|pmid-18047567|pmid-12067347|pmid-12867454|...
CsrA orthologs are found in many bacteria (13–15) and regulate numerous cellular behaviors (16), including carbon metabolism (8), biofilm formation (17,18), motility (19–22), quorum sensing (23), epithelial cell invasion (24–26) and virulence factor production (19,27–29).
[ "13–15", "16", "8", "17", "18", "19–22", "23", "24–26", "19", "27–29", "16", "30", "8", "11", "12", "31", "32" ]
272
43,319
1
false
CsrA orthologs are found in many bacteria and regulate numerous cellular behaviors, including carbon metabolism, biofilm formation, motility, quorum sensing, epithelial cell invasion and virulence factor production.
[ "13–15", "16", "8", "17,18", "19–22", "23", "24–26", "19,27–29" ]
CsrA orthologs are found in many bacteria and regulate numerous cellular behaviors, including carbon metabolism, biofilm formation, motility, quorum sensing, epithelial cell invasion and virulence factor production.
true
true
true
true
true
7,504
1
INTRODUCTION
1
13–15
[ "B13 B14 B15", "B16", "B8", "B17", "B18", "B19 B20 B21 B22", "B23", "B24 B25 B26", "B19", "B27 B28 B29", "B16", "B30", "B8", "B11", "B12", "B31", "B32" ]
20,378,712
pmid-7665490|pmid-9781871|pmid-17850261|pmid-18174122|pmid-12067347|pmid-18310331|pmid-18820071|pmid-19581394|pmid-15126453|pmid-12488561|pmid-17555441|pmid-16262799|pmid-10672185|pmid-16368988|pmid-12791144|pmid-19581394|pmid-18430141|pmid-11673439|pmid-18025099|pmid-18174122|pmid-18047567|pmid-12067347|pmid-12867454|...
Despite its broad regulatory role in bacterial physiology (16,30), only a few direct mRNA targets of CsrA from E. coli have been identified (8,11,12,31,32).
[ "13–15", "16", "8", "17", "18", "19–22", "23", "24–26", "19", "27–29", "16", "30", "8", "11", "12", "31", "32" ]
156
43,320
0
false
Despite its broad regulatory role in bacterial physiology, only a few direct mRNA targets of CsrA from E. coli have been identified.
[ "16,30", "8,11,12,31,32" ]
Despite its broad regulatory role in bacterial physiology, only a few direct mRNA targets of CsrA from E. coli have been identified.
true
true
true
true
true
7,504
2
INTRODUCTION
1
33
[ "B33", "B34", "B35", "B36", "B37", "B38" ]
20,378,712
pmid-12142491|pmid-8161282|pmid-2045785|pmid-11590016|pmid-8845188|pmid-18524933|pmid-16131593|pmid-18047567|pmid-16131593|pmid-19426209|pmid-17555441|pmid-15916613|pmid-12867454|pmid-16131593|pmid-12824337
Colicins are plasmid-encoded bacteriocins produced by E. coli, which are secreted into the environment and exhibit toxicity against E. coli and closely related Enterobacteriae (33).
[ "33", "34", "35", "36", "37", "38" ]
181
43,321
1
false
Colicins are plasmid-encoded bacteriocins produced by E. coli, which are secreted into the environment and exhibit toxicity against E. coli and closely related Enterobacteriae.
[ "33" ]
Colicins are plasmid-encoded bacteriocins produced by E. coli, which are secreted into the environment and exhibit toxicity against E. coli and closely related Enterobacteriae.
true
true
true
true
true
7,505
2
INTRODUCTION
1
34
[ "B33", "B34", "B35", "B36", "B37", "B38" ]
20,378,712
pmid-12142491|pmid-8161282|pmid-2045785|pmid-11590016|pmid-8845188|pmid-18524933|pmid-16131593|pmid-18047567|pmid-16131593|pmid-19426209|pmid-17555441|pmid-15916613|pmid-12867454|pmid-16131593|pmid-12824337
They are produced to gain advantage over the competing bacteria for survival under unfavorable conditions, such as nutrient deficiency and DNA damage (34).
[ "33", "34", "35", "36", "37", "38" ]
155
43,322
1
false
They are produced to gain advantage over the competing bacteria for survival under unfavorable conditions, such as nutrient deficiency and DNA damage.
[ "34" ]
They are produced to gain advantage over the competing bacteria for survival under unfavorable conditions, such as nutrient deficiency and DNA damage.
true
true
true
true
true
7,505
2
INTRODUCTION
1
35
[ "B33", "B34", "B35", "B36", "B37", "B38" ]
20,378,712
pmid-12142491|pmid-8161282|pmid-2045785|pmid-11590016|pmid-8845188|pmid-18524933|pmid-16131593|pmid-18047567|pmid-16131593|pmid-19426209|pmid-17555441|pmid-15916613|pmid-12867454|pmid-16131593|pmid-12824337
The bactericidal activity of Colicin E7 (ColE7) is a nonspecific endonuclease (35), which is encoded by the colicin structural gene cea of the ColE7 operon.
[ "33", "34", "35", "36", "37", "38" ]
156
43,323
1
false
The bactericidal activity of Colicin E7 (ColE7) is a nonspecific endonuclease, which is encoded by the colicin structural gene cea of the ColE7 operon.
[ "35" ]
The bactericidal activity of Colicin E7 (ColE7) is a nonspecific endonuclease, which is encoded by the colicin structural gene cea of the ColE7 operon.
true
true
true
true
true
7,505
2
INTRODUCTION
1
36
[ "B33", "B34", "B35", "B36", "B37", "B38" ]
20,378,712
pmid-12142491|pmid-8161282|pmid-2045785|pmid-11590016|pmid-8845188|pmid-18524933|pmid-16131593|pmid-18047567|pmid-16131593|pmid-19426209|pmid-17555441|pmid-15916613|pmid-12867454|pmid-16131593|pmid-12824337
The ColE7 operon also possesses the immunity (cei) and lysis (cel) genes, which are responsible for neutralization of colicin toxicity (36), and release of colicin into the extracellular space (37), respectively.
[ "33", "34", "35", "36", "37", "38" ]
212
43,324
1
false
The ColE7 operon also possesses the immunity (cei) and lysis (cel) genes, which are responsible for neutralization of colicin toxicity, and release of colicin into the extracellular space, respectively.
[ "36", "37" ]
The ColE7 operon also possesses the immunity (cei) and lysis (cel) genes, which are responsible for neutralization of colicin toxicity, and release of colicin into the extracellular space, respectively.
true
true
true
true
true
7,505
2
INTRODUCTION
1
38
[ "B33", "B34", "B35", "B36", "B37", "B38" ]
20,378,712
pmid-12142491|pmid-8161282|pmid-2045785|pmid-11590016|pmid-8845188|pmid-18524933|pmid-16131593|pmid-18047567|pmid-16131593|pmid-19426209|pmid-17555441|pmid-15916613|pmid-12867454|pmid-16131593|pmid-12824337
Transcription of colicin E7 is regulated by an SOS responsive promoter, which can be induced by ultraviolet (UV) irradiation and DNA-damaging agents such as mitomycin C (38).
[ "33", "34", "35", "36", "37", "38" ]
174
43,325
1
false
Transcription of colicin E7 is regulated by an SOS responsive promoter, which can be induced by ultraviolet (UV) irradiation and DNA-damaging agents such as mitomycin C.
[ "38" ]
Transcription of colicin E7 is regulated by an SOS responsive promoter, which can be induced by ultraviolet (UV) irradiation and DNA-damaging agents such as mitomycin C.
true
true
true
true
true
7,505
3
INTRODUCTION
1
37
[ "B37", "B39", "B40 B41 B42", "B43", "B44", "B45", "B46 B47 B48" ]
20,378,712
pmid-8845188|pmid-2202727|NA|pmid-19270402|pmid-17347522|pmid-6389120|pmid-6298187|pmid-6319368|pmid-3924892|pmid-1368704|pmid-1406270|pmid-17383221|pmid-12067347|pmid-12867454|pmid-15916613|pmid-17526692
Lysis proteins, also referred to bacteriocin release proteins (BRP) or kil proteins, are small lipoproteins of 47 amino acids and synthesized as precursors containing a signal peptide of 19 amino acids at the N-terminus (37).
[ "37", "39", "40–42", "43", "44", "45", "46–48" ]
225
43,326
1
false
Lysis proteins, also referred to bacteriocin release proteins (BRP) or kil proteins, are small lipoproteins of 47 amino acids and synthesized as precursors containing a signal peptide of 19 amino acids at the N-terminus.
[ "37" ]
Lysis proteins, also referred to bacteriocin release proteins (BRP) or kil proteins, are small lipoproteins of 47 amino acids and synthesized as precursors containing a signal peptide of 19 amino acids at the N-terminus.
true
true
true
true
true
7,506
3
INTRODUCTION
1
39
[ "B37", "B39", "B40 B41 B42", "B43", "B44", "B45", "B46 B47 B48" ]
20,378,712
pmid-8845188|pmid-2202727|NA|pmid-19270402|pmid-17347522|pmid-6389120|pmid-6298187|pmid-6319368|pmid-3924892|pmid-1368704|pmid-1406270|pmid-17383221|pmid-12067347|pmid-12867454|pmid-15916613|pmid-17526692
They are synthesized as precursors in the cytoplasm, targeted to the inner membrane by their N-terminal signal sequences, and translocated via the Sec-translocon to the outer leaflet of the inner membrane (39).
[ "37", "39", "40–42", "43", "44", "45", "46–48" ]
210
43,327
1
false
They are synthesized as precursors in the cytoplasm, targeted to the inner membrane by their N-terminal signal sequences, and translocated via the Sec-translocon to the outer leaflet of the inner membrane.
[ "39" ]
They are synthesized as precursors in the cytoplasm, targeted to the inner membrane by their N-terminal signal sequences, and translocated via the Sec-translocon to the outer leaflet of the inner membrane.
true
true
true
true
true
7,506
3
INTRODUCTION
1
37
[ "B37", "B39", "B40 B41 B42", "B43", "B44", "B45", "B46 B47 B48" ]
20,378,712
pmid-8845188|pmid-2202727|NA|pmid-19270402|pmid-17347522|pmid-6389120|pmid-6298187|pmid-6319368|pmid-3924892|pmid-1368704|pmid-1406270|pmid-17383221|pmid-12067347|pmid-12867454|pmid-15916613|pmid-17526692
The precursors are lipid-modified and processed to the mature form on the periplasmic side of the inner membrane.
[ "37", "39", "40–42", "43", "44", "45", "46–48" ]
113
43,328
0
false
The precursors are lipid-modified and processed to the mature form on the periplasmic side of the inner membrane.
[]
The precursors are lipid-modified and processed to the mature form on the periplasmic side of the inner membrane.
true
true
true
true
true
7,506
3
INTRODUCTION
1
37
[ "B37", "B39", "B40 B41 B42", "B43", "B44", "B45", "B46 B47 B48" ]
20,378,712
pmid-8845188|pmid-2202727|NA|pmid-19270402|pmid-17347522|pmid-6389120|pmid-6298187|pmid-6319368|pmid-3924892|pmid-1368704|pmid-1406270|pmid-17383221|pmid-12067347|pmid-12867454|pmid-15916613|pmid-17526692
The mature forms of lysis proteins are detached from the inner membrane by the action of an ATP-binding cassette (ABC) transporter LolCDE and a periplasmic carrier chaperone, LolA.
[ "37", "39", "40–42", "43", "44", "45", "46–48" ]
180
43,329
0
false
The mature forms of lysis proteins are detached from the inner membrane by the action of an ATP-binding cassette (ABC) transporter LolCDE and a periplasmic carrier chaperone, LolA.
[]
The mature forms of lysis proteins are detached from the inner membrane by the action of an ATP-binding cassette (ABC) transporter LolCDE and a periplasmic carrier chaperone, LolA.
true
true
true
true
true
7,506
3
INTRODUCTION
1
40–42
[ "B37", "B39", "B40 B41 B42", "B43", "B44", "B45", "B46 B47 B48" ]
20,378,712
pmid-8845188|pmid-2202727|NA|pmid-19270402|pmid-17347522|pmid-6389120|pmid-6298187|pmid-6319368|pmid-3924892|pmid-1368704|pmid-1406270|pmid-17383221|pmid-12067347|pmid-12867454|pmid-15916613|pmid-17526692
Lysis proteins are sequentially transferred from LolA to receptor LolB, which incorporates lipoproteins into the inner leaflet of the outer membrane (40–42).
[ "37", "39", "40–42", "43", "44", "45", "46–48" ]
157
43,330
1
false
Lysis proteins are sequentially transferred from LolA to receptor LolB, which incorporates lipoproteins into the inner leaflet of the outer membrane.
[ "40–42" ]
Lysis proteins are sequentially transferred from LolA to receptor LolB, which incorporates lipoproteins into the inner leaflet of the outer membrane.
true
true
true
true
true
7,506
3
INTRODUCTION
1
43
[ "B37", "B39", "B40 B41 B42", "B43", "B44", "B45", "B46 B47 B48" ]
20,378,712
pmid-8845188|pmid-2202727|NA|pmid-19270402|pmid-17347522|pmid-6389120|pmid-6298187|pmid-6319368|pmid-3924892|pmid-1368704|pmid-1406270|pmid-17383221|pmid-12067347|pmid-12867454|pmid-15916613|pmid-17526692
The mature form of lysis protein activates phospholipase A in the outer membrane and consequently increases cell membrane permeability and colicin release (43).
[ "37", "39", "40–42", "43", "44", "45", "46–48" ]
160
43,331
1
false
The mature form of lysis protein activates phospholipase A in the outer membrane and consequently increases cell membrane permeability and colicin release.
[ "43" ]
The mature form of lysis protein activates phospholipase A in the outer membrane and consequently increases cell membrane permeability and colicin release.
true
true
true
true
true
7,506
3
INTRODUCTION
1
37
[ "B37", "B39", "B40 B41 B42", "B43", "B44", "B45", "B46 B47 B48" ]
20,378,712
pmid-8845188|pmid-2202727|NA|pmid-19270402|pmid-17347522|pmid-6389120|pmid-6298187|pmid-6319368|pmid-3924892|pmid-1368704|pmid-1406270|pmid-17383221|pmid-12067347|pmid-12867454|pmid-15916613|pmid-17526692
Lysis protein is essential for the release of the Col-Im complex from the cell (44,45).
[ "37", "39", "40–42", "43", "44", "45", "46–48" ]
87
43,332
0
false
Lysis protein is essential for the release of the Col-Im complex from the cell.
[ "44,45" ]
Lysis protein is essential for the release of the Col-Im complex from the cell.
true
true
true
true
true
7,506
3
INTRODUCTION
1
46–48
[ "B37", "B39", "B40 B41 B42", "B43", "B44", "B45", "B46 B47 B48" ]
20,378,712
pmid-8845188|pmid-2202727|NA|pmid-19270402|pmid-17347522|pmid-6389120|pmid-6298187|pmid-6319368|pmid-3924892|pmid-1368704|pmid-1406270|pmid-17383221|pmid-12067347|pmid-12867454|pmid-15916613|pmid-17526692
Despite the importance of lysis protein in colicin release, overexpression of cel gene is lethal to the producing E. coli cell (46–48), and should be subject to rigid regulatory control.
[ "37", "39", "40–42", "43", "44", "45", "46–48" ]
186
43,333
1
false
Despite the importance of lysis protein in colicin release, overexpression of cel gene is lethal to the producing E. coli cell, and should be subject to rigid regulatory control.
[ "46–48" ]
Despite the importance of lysis protein in colicin release, overexpression of cel gene is lethal to the producing E. coli cell, and should be subject to rigid regulatory control.
true
true
true
true
true
7,506
3
INTRODUCTION
1
37
[ "B37", "B39", "B40 B41 B42", "B43", "B44", "B45", "B46 B47 B48" ]
20,378,712
pmid-8845188|pmid-2202727|NA|pmid-19270402|pmid-17347522|pmid-6389120|pmid-6298187|pmid-6319368|pmid-3924892|pmid-1368704|pmid-1406270|pmid-17383221|pmid-12067347|pmid-12867454|pmid-15916613|pmid-17526692
Thus far, little is known about the fine-tuning of this expression in response to environmental stimuli.
[ "37", "39", "40–42", "43", "44", "45", "46–48" ]
104
43,334
0
false
Thus far, little is known about the fine-tuning of this expression in response to environmental stimuli.
[]
Thus far, little is known about the fine-tuning of this expression in response to environmental stimuli.
true
true
true
true
true
7,506
4
INTRODUCTION
1
35
[ "B35", "B42", "B49" ]
20,378,712
pmid-2045785|pmid-17347522|pmid-2453841|pmid-368581|pmid-2417233|pmid-2992951|pmid-2433046|pmid-1370426|pmid-10348874|pmid-1695894
We previously reported that the T1 transcriptional terminator is situated in the cei–cel intercistronic region (35).
[ "35", "42", "49" ]
116
43,335
1
false
We previously reported that the T1 transcriptional terminator is situated in the cei–cel intercistronic region.
[ "35" ]
We previously reported that the T1 transcriptional terminator is situated in the cei–cel intercistronic region.
true
true
true
true
true
7,507
4
INTRODUCTION
1
35
[ "B35", "B42", "B49" ]
20,378,712
pmid-2045785|pmid-17347522|pmid-2453841|pmid-368581|pmid-2417233|pmid-2992951|pmid-2433046|pmid-1370426|pmid-10348874|pmid-1695894
Since the cel gene is transcribed at lower level than the other two proximal cea and cei genes, it was proposed that cel expression is regulated by the T1 transcriptional terminator (T1 stem–loop structure), resulting in alleviation of the expression below the lethal dose of the cel gene (42,49).
[ "35", "42", "49" ]
297
43,336
0
false
Since the cel gene is transcribed at lower level than the other two proximal cea and cei genes, it was proposed that cel expression is regulated by the T1 transcriptional terminator (T1 stem–loop structure), resulting in alleviation of the expression below the lethal dose of the cel gene.
[ "42,49" ]
Since the cel gene is transcribed at lower level than the other two proximal cea and cei genes, it was proposed that cel expression is regulated by the T1 transcriptional terminator (T1 stem–loop structure), resulting in alleviation of the expression below the lethal dose of the cel gene.
true
true
true
true
true
7,507
4
INTRODUCTION
1
35
[ "B35", "B42", "B49" ]
20,378,712
pmid-2045785|pmid-17347522|pmid-2453841|pmid-368581|pmid-2417233|pmid-2992951|pmid-2433046|pmid-1370426|pmid-10348874|pmid-1695894
Nevertheless, unambiguous involvement of regulatory factors in the quantitative control of lysis expression has not yet been established.
[ "35", "42", "49" ]
137
43,337
0
false
Nevertheless, unambiguous involvement of regulatory factors in the quantitative control of lysis expression has not yet been established.
[]
Nevertheless, unambiguous involvement of regulatory factors in the quantitative control of lysis expression has not yet been established.
true
true
true
true
true
7,507
5
INTRODUCTION
0
null
null
20,378,712
pmid-12694612|pmid-11567002|pmid-12193630|pmid-11333217
Here, we examined the mechanism of CsrA-mediated repression of cel expression.
null
78
43,338
0
false
null
null
Here, we examined the mechanism of CsrA-mediated repression of cel expression.
true
true
true
true
true
7,508
5
INTRODUCTION
0
null
null
20,378,712
pmid-12694612|pmid-11567002|pmid-12193630|pmid-11333217
Our findings established that CsrA binds directly and specifically to the upstream noncoding segment of the cel transcript, which requires sequences at the T1 stem–loop and SD element.
null
184
43,339
0
false
null
null
Our findings established that CsrA binds directly and specifically to the upstream noncoding segment of the cel transcript, which requires sequences at the T1 stem–loop and SD element.
true
true
true
true
true
7,508
5
INTRODUCTION
0
null
null
20,378,712
pmid-12694612|pmid-11567002|pmid-12193630|pmid-11333217
CsrA repressed lysis protein expression by reducing its translational efficiency without affecting the rate of cel mRNA decay.
null
126
43,340
0
false
null
null
CsrA repressed lysis protein expression by reducing its translational efficiency without affecting the rate of cel mRNA decay.
true
true
true
true
true
7,508
5
INTRODUCTION
0
null
null
20,378,712
pmid-12694612|pmid-11567002|pmid-12193630|pmid-11333217
Substitution of the first two nucleotides (AC to TT) of the putative CsrA binding site (ACAAGGAGT) overlapping the cel SD substantially relieved the CsrA-mediated repression of cel gene expression in vivo.
null
205
43,341
0
false
null
null
Substitution of the first two nucleotides (AC to TT) of the putative CsrA binding site (ACAAGGAGT) overlapping the cel SD substantially relieved the CsrA-mediated repression of cel gene expression in vivo.
true
true
true
true
true
7,508
5
INTRODUCTION
0
null
null
20,378,712
pmid-12694612|pmid-11567002|pmid-12193630|pmid-11333217
Intriguingly, the CsrB and CsrC RNA levels were notably decreased under the stress of SOS response, which should increase the intracellular biological activity of CsrA.
null
168
43,342
0
false
null
null
Intriguingly, the CsrB and CsrC RNA levels were notably decreased under the stress of SOS response, which should increase the intracellular biological activity of CsrA.
true
true
true
true
true
7,508
5
INTRODUCTION
0
null
null
20,378,712
pmid-12694612|pmid-11567002|pmid-12193630|pmid-11333217
To our knowledge, this study provides the first evidence for a regulatory role of CsrA in the expression of an extra-chromosomal gene and identifies CsrA as a trans-acting factor that specifically modulates cel gene expression.
null
227
43,343
0
false
null
null
To our knowledge, this study provides the first evidence for a regulatory role of CsrA in the expression of an extra-chromosomal gene and identifies CsrA as a trans-acting factor that specifically modulates cel gene expression.
true
true
true
true
true
7,508
5
INTRODUCTION
0
null
null
20,378,712
pmid-12694612|pmid-11567002|pmid-12193630|pmid-11333217
A model depicting the way in which the Csr system coordinates lysis of a colicinogenic cell under environmental stress is discussed.
null
132
43,344
0
false
null
null
A model depicting the way in which the Csr system coordinates lysis of a colicinogenic cell under environmental stress is discussed.
true
true
true
true
true
7,508
0
DISCUSSION
1
6
[ "B6", "B30", "B55", "B58", "B59 B60 B61 B62" ]
20,378,712
pmid-15866937|pmid-9211896|pmid-12694612|pmid-16980588|pmid-8393005|pmid-17383221|pmid-11298291|pmid-12067347|pmid-19619561|pmid-7751274|pmid-12867454|pmid-15916613|pmid-9211896|pmid-12694612|pmid-17383221|pmid-17383221|pmid-17383221|pmid-18047567|pmid-17704818|pmid-19385727|pmid-8932714|pmid-14617170|pmid-14651608|pmi...
RNA-binding proteins of the CsrA/RsmA family, which act by modulating translation initiation (6,30,55,58), represent an important post-transcriptional regulatory mechanism of prokaryotes.
[ "6", "30", "55", "58", "59–62" ]
187
43,345
0
false
RNA-binding proteins of the CsrA/RsmA family, which act by modulating translation initiation, represent an important post-transcriptional regulatory mechanism of prokaryotes.
[ "6,30,55,58" ]
RNA-binding proteins of the CsrA/RsmA family, which act by modulating translation initiation, represent an important post-transcriptional regulatory mechanism of prokaryotes.
true
true
true
true
true
7,509
0
DISCUSSION
1
59–62
[ "B6", "B30", "B55", "B58", "B59 B60 B61 B62" ]
20,378,712
pmid-15866937|pmid-9211896|pmid-12694612|pmid-16980588|pmid-8393005|pmid-17383221|pmid-11298291|pmid-12067347|pmid-19619561|pmid-7751274|pmid-12867454|pmid-15916613|pmid-9211896|pmid-12694612|pmid-17383221|pmid-17383221|pmid-17383221|pmid-18047567|pmid-17704818|pmid-19385727|pmid-8932714|pmid-14617170|pmid-14651608|pmi...
Orthologs of the CsrA family are found in many eubacterial species, in which they control a wide variety of physiological characteristics and cellular processes (59–62).
[ "6", "30", "55", "58", "59–62" ]
169
43,346
1
false
Orthologs of the CsrA family are found in many eubacterial species, in which they control a wide variety of physiological characteristics and cellular processes.
[ "59–62" ]
Orthologs of the CsrA family are found in many eubacterial species, in which they control a wide variety of physiological characteristics and cellular processes.
true
true
true
true
true
7,509
0
DISCUSSION
1
6
[ "B6", "B30", "B55", "B58", "B59 B60 B61 B62" ]
20,378,712
pmid-15866937|pmid-9211896|pmid-12694612|pmid-16980588|pmid-8393005|pmid-17383221|pmid-11298291|pmid-12067347|pmid-19619561|pmid-7751274|pmid-12867454|pmid-15916613|pmid-9211896|pmid-12694612|pmid-17383221|pmid-17383221|pmid-17383221|pmid-18047567|pmid-17704818|pmid-19385727|pmid-8932714|pmid-14617170|pmid-14651608|pmi...
To our knowledge, the present investigation of the involvement of CsrA in the expression of the ColE7 operon represents the first extrachromosomal regulatory role of CsrA to be established in any species.
[ "6", "30", "55", "58", "59–62" ]
204
43,347
0
false
To our knowledge, the present investigation of the involvement of CsrA in the expression of the ColE7 operon represents the first extrachromosomal regulatory role of CsrA to be established in any species.
[]
To our knowledge, the present investigation of the involvement of CsrA in the expression of the ColE7 operon represents the first extrachromosomal regulatory role of CsrA to be established in any species.
true
true
true
true
true
7,509
1
DISCUSSION
1
5
[ "B5", "B7", "B11", "B12", "B31", "B8", "B12" ]
20,378,712
pmid-7665490|pmid-9781871|pmid-17850261|pmid-18174122|pmid-12067347|pmid-18310331|pmid-18820071|pmid-19581394|pmid-15126453|pmid-12488561|pmid-17555441|pmid-16262799|pmid-10672185|pmid-16368988|pmid-12791144|pmid-19581394|pmid-18430141|pmid-11673439|pmid-18025099|pmid-18174122|pmid-18047567|pmid-12067347|pmid-12867454|...
Genetic evidence and complementation analyses confirmed that the CsrA protein is indeed a negative regulator of the lysis protein (Figure 2B and D).
[ "5", "7", "11", "12", "31", "8", "12" ]
148
43,348
0
false
Genetic evidence and complementation analyses confirmed that the CsrA protein is indeed a negative regulator of the lysis protein (Figure 2B and D).
[]
Genetic evidence and complementation analyses confirmed that the CsrA protein is indeed a negative regulator of the lysis protein (Figure 2B and D).
true
true
true
true
true
7,510
1
DISCUSSION
1
5
[ "B5", "B7", "B11", "B12", "B31", "B8", "B12" ]
20,378,712
pmid-7665490|pmid-9781871|pmid-17850261|pmid-18174122|pmid-12067347|pmid-18310331|pmid-18820071|pmid-19581394|pmid-15126453|pmid-12488561|pmid-17555441|pmid-16262799|pmid-10672185|pmid-16368988|pmid-12791144|pmid-19581394|pmid-18430141|pmid-11673439|pmid-18025099|pmid-18174122|pmid-18047567|pmid-12067347|pmid-12867454|...
Several previous studies noted that CsrA controls gene expression in a 1.5- to 10- fold range (5,7,11,12,31), rather than functions as an absolute on-off switch.
[ "5", "7", "11", "12", "31", "8", "12" ]
161
43,349
0
false
Several previous studies noted that CsrA controls gene expression in a 1.5- to 10- fold range, rather than functions as an absolute on-off switch.
[ "5,7,11,12,31" ]
Several previous studies noted that CsrA controls gene expression in a 1.5- to 10- fold range, rather than functions as an absolute on-off switch.
true
true
true
true
true
7,510
1
DISCUSSION
1
5
[ "B5", "B7", "B11", "B12", "B31", "B8", "B12" ]
20,378,712
pmid-7665490|pmid-9781871|pmid-17850261|pmid-18174122|pmid-12067347|pmid-18310331|pmid-18820071|pmid-19581394|pmid-15126453|pmid-12488561|pmid-17555441|pmid-16262799|pmid-10672185|pmid-16368988|pmid-12791144|pmid-19581394|pmid-18430141|pmid-11673439|pmid-18025099|pmid-18174122|pmid-18047567|pmid-12067347|pmid-12867454|...
Of note, we found that CsrA-mediated repression of cel expression was ∼5-fold (Figure 5A), suggesting that CsrA functions as a modulator to prevent excess synthesis of lysis protein, instead of completely repressing lysis protein.
[ "5", "7", "11", "12", "31", "8", "12" ]
230
43,350
0
false
Of note, we found that CsrA-mediated repression of cel expression was ∼5-fold, suggesting that CsrA functions as a modulator to prevent excess synthesis of lysis protein, instead of completely repressing lysis protein.
[ "Figure 5A" ]
Of note, we found that CsrA-mediated repression of cel expression was ∼5-fold, suggesting that CsrA functions as a modulator to prevent excess synthesis of lysis protein, instead of completely repressing lysis protein.
true
true
true
true
true
7,510
1
DISCUSSION
1
5
[ "B5", "B7", "B11", "B12", "B31", "B8", "B12" ]
20,378,712
pmid-7665490|pmid-9781871|pmid-17850261|pmid-18174122|pmid-12067347|pmid-18310331|pmid-18820071|pmid-19581394|pmid-15126453|pmid-12488561|pmid-17555441|pmid-16262799|pmid-10672185|pmid-16368988|pmid-12791144|pmid-19581394|pmid-18430141|pmid-11673439|pmid-18025099|pmid-18174122|pmid-18047567|pmid-12067347|pmid-12867454|...
Thus, CsrA may function to calibrate lysis protein levels to accommodate the need for colicin release.
[ "5", "7", "11", "12", "31", "8", "12" ]
102
43,351
0
false
Thus, CsrA may function to calibrate lysis protein levels to accommodate the need for colicin release.
[]
Thus, CsrA may function to calibrate lysis protein levels to accommodate the need for colicin release.
true
true
true
true
true
7,510
1
DISCUSSION
1
5
[ "B5", "B7", "B11", "B12", "B31", "B8", "B12" ]
20,378,712
pmid-7665490|pmid-9781871|pmid-17850261|pmid-18174122|pmid-12067347|pmid-18310331|pmid-18820071|pmid-19581394|pmid-15126453|pmid-12488561|pmid-17555441|pmid-16262799|pmid-10672185|pmid-16368988|pmid-12791144|pmid-19581394|pmid-18430141|pmid-11673439|pmid-18025099|pmid-18174122|pmid-18047567|pmid-12067347|pmid-12867454|...
The direct involvement of CsrA in modulating the expression of lysis protein was implied by in vitro gel mobility shift assay with the CsrA protein and the cel transcripts (Figure 3A and B).
[ "5", "7", "11", "12", "31", "8", "12" ]
190
43,352
0
false
The direct involvement of CsrA in modulating the expression of lysis protein was implied by in vitro gel mobility shift assay with the CsrA protein and the cel transcripts (Figure 3A and B).
[]
The direct involvement of CsrA in modulating the expression of lysis protein was implied by in vitro gel mobility shift assay with the CsrA protein and the cel transcripts (Figure 3A and B).
true
true
true
true
true
7,510
1
DISCUSSION
1
5
[ "B5", "B7", "B11", "B12", "B31", "B8", "B12" ]
20,378,712
pmid-7665490|pmid-9781871|pmid-17850261|pmid-18174122|pmid-12067347|pmid-18310331|pmid-18820071|pmid-19581394|pmid-15126453|pmid-12488561|pmid-17555441|pmid-16262799|pmid-10672185|pmid-16368988|pmid-12791144|pmid-19581394|pmid-18430141|pmid-11673439|pmid-18025099|pmid-18174122|pmid-18047567|pmid-12067347|pmid-12867454|...
Increasing concentrations of CsrA resulted in the sequential appearance of two distinct RNA–protein complexes.
[ "5", "7", "11", "12", "31", "8", "12" ]
110
43,353
0
false
Increasing concentrations of CsrA resulted in the sequential appearance of two distinct RNA–protein complexes.
[]
Increasing concentrations of CsrA resulted in the sequential appearance of two distinct RNA–protein complexes.
true
true
true
true
true
7,510
1
DISCUSSION
1
5
[ "B5", "B7", "B11", "B12", "B31", "B8", "B12" ]
20,378,712
pmid-7665490|pmid-9781871|pmid-17850261|pmid-18174122|pmid-12067347|pmid-18310331|pmid-18820071|pmid-19581394|pmid-15126453|pmid-12488561|pmid-17555441|pmid-16262799|pmid-10672185|pmid-16368988|pmid-12791144|pmid-19581394|pmid-18430141|pmid-11673439|pmid-18025099|pmid-18174122|pmid-18047567|pmid-12067347|pmid-12867454|...
While we have not monitored binding stoichiometry of these complexes, this result suggests that two CsrA dimers were bound to each cel transcript at the higher protein concentrations.
[ "5", "7", "11", "12", "31", "8", "12" ]
183
43,354
0
false
While we have not monitored binding stoichiometry of these complexes, this result suggests that two CsrA dimers were bound to each cel transcript at the higher protein concentrations.
[]
While we have not monitored binding stoichiometry of these complexes, this result suggests that two CsrA dimers were bound to each cel transcript at the higher protein concentrations.
true
true
true
true
true
7,510
1
DISCUSSION
1
5
[ "B5", "B7", "B11", "B12", "B31", "B8", "B12" ]
20,378,712
pmid-7665490|pmid-9781871|pmid-17850261|pmid-18174122|pmid-12067347|pmid-18310331|pmid-18820071|pmid-19581394|pmid-15126453|pmid-12488561|pmid-17555441|pmid-16262799|pmid-10672185|pmid-16368988|pmid-12791144|pmid-19581394|pmid-18430141|pmid-11673439|pmid-18025099|pmid-18174122|pmid-18047567|pmid-12067347|pmid-12867454|...
Furthermore, the cel transcript used in this study contained two putative CsrA binding sites, located in the loop region of T1 stem–loop structure (BS1) and the cel SD sequence (BS2).
[ "5", "7", "11", "12", "31", "8", "12" ]
183
43,355
0
false
Furthermore, the cel transcript used in this study contained two putative CsrA binding sites, located in the loop region of T1 stem–loop structure (BS1) and the cel SD sequence (BS2).
[]
Furthermore, the cel transcript used in this study contained two putative CsrA binding sites, located in the loop region of T1 stem–loop structure (BS1) and the cel SD sequence (BS2).
true
true
true
true
true
7,510
1
DISCUSSION
1
5
[ "B5", "B7", "B11", "B12", "B31", "B8", "B12" ]
20,378,712
pmid-7665490|pmid-9781871|pmid-17850261|pmid-18174122|pmid-12067347|pmid-18310331|pmid-18820071|pmid-19581394|pmid-15126453|pmid-12488561|pmid-17555441|pmid-16262799|pmid-10672185|pmid-16368988|pmid-12791144|pmid-19581394|pmid-18430141|pmid-11673439|pmid-18025099|pmid-18174122|pmid-18047567|pmid-12067347|pmid-12867454|...
Both the BS1 and BS2 mutant transcripts gave a single CsrA-RNA complex, which was absent from the BS1–BS2 double-mutant transcript, strongly suggesting that these two RNA sequences serve as CsrA binding sites (Figure 4).
[ "5", "7", "11", "12", "31", "8", "12" ]
220
43,356
0
false
Both the BS1 and BS2 mutant transcripts gave a single CsrA-RNA complex, which was absent from the BS1–BS2 double-mutant transcript, strongly suggesting that these two RNA sequences serve as CsrA binding sites (Figure 4).
[]
Both the BS1 and BS2 mutant transcripts gave a single CsrA-RNA complex, which was absent from the BS1–BS2 double-mutant transcript, strongly suggesting that these two RNA sequences serve as CsrA binding sites (Figure 4).
true
true
true
true
true
7,510
1
DISCUSSION
1
5
[ "B5", "B7", "B11", "B12", "B31", "B8", "B12" ]
20,378,712
pmid-7665490|pmid-9781871|pmid-17850261|pmid-18174122|pmid-12067347|pmid-18310331|pmid-18820071|pmid-19581394|pmid-15126453|pmid-12488561|pmid-17555441|pmid-16262799|pmid-10672185|pmid-16368988|pmid-12791144|pmid-19581394|pmid-18430141|pmid-11673439|pmid-18025099|pmid-18174122|pmid-18047567|pmid-12067347|pmid-12867454|...
Previous studies reported that glgC and pgaA contain two and six CsrA binding sites, respectively, and that CsrA represses translation initiation in both cases (8,12).
[ "5", "7", "11", "12", "31", "8", "12" ]
167
43,357
0
false
Previous studies reported that glgC and pgaA contain two and six CsrA binding sites, respectively, and that CsrA represses translation initiation in both cases.
[ "8,12" ]
Previous studies reported that glgC and pgaA contain two and six CsrA binding sites, respectively, and that CsrA represses translation initiation in both cases.
true
true
true
true
true
7,510
1
DISCUSSION
1
5
[ "B5", "B7", "B11", "B12", "B31", "B8", "B12" ]
20,378,712
pmid-7665490|pmid-9781871|pmid-17850261|pmid-18174122|pmid-12067347|pmid-18310331|pmid-18820071|pmid-19581394|pmid-15126453|pmid-12488561|pmid-17555441|pmid-16262799|pmid-10672185|pmid-16368988|pmid-12791144|pmid-19581394|pmid-18430141|pmid-11673439|pmid-18025099|pmid-18174122|pmid-18047567|pmid-12067347|pmid-12867454|...
Similarly, substitutions designed to disrupt the potential CsrA-BS2 binding site, which overlapped the cel SD, relieved CsrA-mediated repression of cel gene expression in vivo (Figure 6B).
[ "5", "7", "11", "12", "31", "8", "12" ]
188
43,358
0
false
Similarly, substitutions designed to disrupt the potential CsrA-BS2 binding site, which overlapped the cel SD, relieved CsrA-mediated repression of cel gene expression in vivo (Figure 6B).
[]
Similarly, substitutions designed to disrupt the potential CsrA-BS2 binding site, which overlapped the cel SD, relieved CsrA-mediated repression of cel gene expression in vivo (Figure 6B).
true
true
true
true
true
7,510
1
DISCUSSION
1
5
[ "B5", "B7", "B11", "B12", "B31", "B8", "B12" ]
20,378,712
pmid-7665490|pmid-9781871|pmid-17850261|pmid-18174122|pmid-12067347|pmid-18310331|pmid-18820071|pmid-19581394|pmid-15126453|pmid-12488561|pmid-17555441|pmid-16262799|pmid-10672185|pmid-16368988|pmid-12791144|pmid-19581394|pmid-18430141|pmid-11673439|pmid-18025099|pmid-18174122|pmid-18047567|pmid-12067347|pmid-12867454|...
Because CsrA did not substantially affect cel transcript stability or levels (Figures 5B and C) this implies that binding of CsrA to the cel mRNA in the vicinity of the cel SD represses translation of the cel gene.
[ "5", "7", "11", "12", "31", "8", "12" ]
214
43,359
0
false
Because CsrA did not substantially affect cel transcript stability or levels this implies that binding of CsrA to the cel mRNA in the vicinity of the cel SD represses translation of the cel gene.
[ "Figures 5B and C" ]
Because CsrA did not substantially affect cel transcript stability or levels this implies that binding of CsrA to the cel mRNA in the vicinity of the cel SD represses translation of the cel gene.
true
true
true
true
true
7,510
2
DISCUSSION
1
54
[ "B54", "B30", "B54", "B63", "B22", "B12", "B11", "B54", "B56" ]
20,378,712
pmid-12142491|pmid-8161282|pmid-2045785|pmid-11590016|pmid-8845188|pmid-18524933|pmid-16131593|pmid-18047567|pmid-16131593|pmid-19426209|pmid-17555441|pmid-15916613|pmid-12867454|pmid-16131593|pmid-12824337
The systematic evolution of ligands by exponential enrichment (SELEX) analysis defined a high-affinity consensus binding sequence for CsrA, RUACARGGAUGU, with the underlined residues being 100% conserved (54).
[ "54", "30", "54", "63", "22", "12", "11", "54", "56" ]
209
43,360
1
false
The systematic evolution of ligands by exponential enrichment (SELEX) analysis defined a high-affinity consensus binding sequence for CsrA, RUACARGGAUGU, with the underlined residues being 100% conserved.
[ "54" ]
The systematic evolution of ligands by exponential enrichment (SELEX) analysis defined a high-affinity consensus binding sequence for CsrA, RUACARGGAUGU, with the underlined residues being 100% conserved.
true
true
true
true
true
7,511
2
DISCUSSION
1
63
[ "B54", "B30", "B54", "B63", "B22", "B12", "B11", "B54", "B56" ]
20,378,712
pmid-12142491|pmid-8161282|pmid-2045785|pmid-11590016|pmid-8845188|pmid-18524933|pmid-16131593|pmid-18047567|pmid-16131593|pmid-19426209|pmid-17555441|pmid-15916613|pmid-12867454|pmid-16131593|pmid-12824337
The location of conserved primary sequence within the loop of a short hairpin increases the affinity of the CsrA-RNA interaction (30,54), such as in the PA0082 mRNA of Pseudomonas aeruginosa (63), in the hag transcript of B. subtilis (22) and in the pgaA transcript of E. coli (12).
[ "54", "30", "54", "63", "22", "12", "11", "54", "56" ]
282
43,361
1
false
The location of conserved primary sequence within the loop of a short hairpin increases the affinity of the CsrA-RNA interaction, such as in the PA0082 mRNA of Pseudomonas aeruginosa, in the hag transcript of B. subtilis and in the pgaA transcript of E. coli.
[ "30,54", "63", "22", "12" ]
The location of conserved primary sequence within the loop of a short hairpin increases the affinity of the CsrA-RNA interaction, such as in the PA0082 mRNA of Pseudomonas aeruginosa, in the hag transcript of B. subtilis and in the pgaA transcript of E. coli.
true
true
true
true
true
7,511
2
DISCUSSION
1
54
[ "B54", "B30", "B54", "B63", "B22", "B12", "B11", "B54", "B56" ]
20,378,712
pmid-12142491|pmid-8161282|pmid-2045785|pmid-11590016|pmid-8845188|pmid-18524933|pmid-16131593|pmid-18047567|pmid-16131593|pmid-19426209|pmid-17555441|pmid-15916613|pmid-12867454|pmid-16131593|pmid-12824337
However, CsrA has a lower affinity for cstA, in which the GGA motif are not present in stem–loops (11,54).
[ "54", "30", "54", "63", "22", "12", "11", "54", "56" ]
106
43,362
0
false
However, CsrA has a lower affinity for cstA, in which the GGA motif are not present in stem–loops.
[ "11,54" ]
However, CsrA has a lower affinity for cstA, in which the GGA motif are not present in stem–loops.
true
true
true
true
true
7,511
2
DISCUSSION
1
54
[ "B54", "B30", "B54", "B63", "B22", "B12", "B11", "B54", "B56" ]
20,378,712
pmid-12142491|pmid-8161282|pmid-2045785|pmid-11590016|pmid-8845188|pmid-18524933|pmid-16131593|pmid-18047567|pmid-16131593|pmid-19426209|pmid-17555441|pmid-15916613|pmid-12867454|pmid-16131593|pmid-12824337
Interestingly, the sequence signature of BS1 and BS2 in the cel mRNA showed high similarity to the consensus sequence, as they match the SELEX-derived consensus binding sequence at nine and seven positions, respectively.
[ "54", "30", "54", "63", "22", "12", "11", "54", "56" ]
220
43,363
0
false
Interestingly, the sequence signature of BS1 and BS2 in the cel mRNA showed high similarity to the consensus sequence, as they match the SELEX-derived consensus binding sequence at nine and seven positions, respectively.
[]
Interestingly, the sequence signature of BS1 and BS2 in the cel mRNA showed high similarity to the consensus sequence, as they match the SELEX-derived consensus binding sequence at nine and seven positions, respectively.
true
true
true
true
true
7,511
2
DISCUSSION
1
56
[ "B54", "B30", "B54", "B63", "B22", "B12", "B11", "B54", "B56" ]
20,378,712
pmid-12142491|pmid-8161282|pmid-2045785|pmid-11590016|pmid-8845188|pmid-18524933|pmid-16131593|pmid-18047567|pmid-16131593|pmid-19426209|pmid-17555441|pmid-15916613|pmid-12867454|pmid-16131593|pmid-12824337
Furthermore, computer modeling using MFOLD (56) predicted that the GGA motifs of BS1 and BS2 in the cel transcript are both situated in the loops of hairpins (Figure 1B).
[ "54", "30", "54", "63", "22", "12", "11", "54", "56" ]
170
43,364
1
false
Furthermore, computer modeling using MFOLD predicted that the GGA motifs of BS1 and BS2 in the cel transcript are both situated in the loops of hairpins (Figure 1B).
[ "56" ]
Furthermore, computer modeling using MFOLD predicted that the GGA motifs of BS1 and BS2 in the cel transcript are both situated in the loops of hairpins (Figure 1B).
true
true
true
true
true
7,511
2
DISCUSSION
1
54
[ "B54", "B30", "B54", "B63", "B22", "B12", "B11", "B54", "B56" ]
20,378,712
pmid-12142491|pmid-8161282|pmid-2045785|pmid-11590016|pmid-8845188|pmid-18524933|pmid-16131593|pmid-18047567|pmid-16131593|pmid-19426209|pmid-17555441|pmid-15916613|pmid-12867454|pmid-16131593|pmid-12824337
Thus, the presence of GGA residues in the predicted hairpin loop may help to mediate the observed high-affinity interactions between CsrA and the cel mRNA.
[ "54", "30", "54", "63", "22", "12", "11", "54", "56" ]
155
43,365
0
false
Thus, the presence of GGA residues in the predicted hairpin loop may help to mediate the observed high-affinity interactions between CsrA and the cel mRNA.
[]
Thus, the presence of GGA residues in the predicted hairpin loop may help to mediate the observed high-affinity interactions between CsrA and the cel mRNA.
true
true
true
true
true
7,511
3
DISCUSSION
1
6
[ "B6", "B8", "B11", "B12", "B31" ]
20,378,712
pmid-8845188|pmid-2202727|NA|pmid-19270402|pmid-17347522|pmid-6389120|pmid-6298187|pmid-6319368|pmid-3924892|pmid-1368704|pmid-1406270|pmid-17383221|pmid-12067347|pmid-12867454|pmid-15916613|pmid-17526692
The csrA mutation did not influence the stability of the cel transcript (Figure 5C), but led to a 4- to 5-fold increase in cel translational efficiency (Table 3).
[ "6", "8", "11", "12", "31" ]
162
43,366
0
false
The csrA mutation did not influence the stability of the cel transcript (Figure 5C), but led to a 4- to 5-fold increase in cel translational efficiency (Table 3).
[]
The csrA mutation did not influence the stability of the cel transcript (Figure 5C), but led to a 4- to 5-fold increase in cel translational efficiency (Table 3).
true
true
true
true
true
7,512
3
DISCUSSION
1
6
[ "B6", "B8", "B11", "B12", "B31" ]
20,378,712
pmid-8845188|pmid-2202727|NA|pmid-19270402|pmid-17347522|pmid-6389120|pmid-6298187|pmid-6319368|pmid-3924892|pmid-1368704|pmid-1406270|pmid-17383221|pmid-12067347|pmid-12867454|pmid-15916613|pmid-17526692
In most cases, CsrA downregulates its mRNA target levels by binding to the leader region, which blocks translation and also promotes mRNA decay (6,8,11,12).
[ "6", "8", "11", "12", "31" ]
156
43,367
0
false
In most cases, CsrA downregulates its mRNA target levels by binding to the leader region, which blocks translation and also promotes mRNA decay.
[ "6,8,11,12" ]
In most cases, CsrA downregulates its mRNA target levels by binding to the leader region, which blocks translation and also promotes mRNA decay.
true
true
true
true
true
7,512
3
DISCUSSION
1
31
[ "B6", "B8", "B11", "B12", "B31" ]
20,378,712
pmid-8845188|pmid-2202727|NA|pmid-19270402|pmid-17347522|pmid-6389120|pmid-6298187|pmid-6319368|pmid-3924892|pmid-1368704|pmid-1406270|pmid-17383221|pmid-12067347|pmid-12867454|pmid-15916613|pmid-17526692
In contrast, CsrA repressed translational efficiency of the cel gene without a corresponding alteration in mRNA stability, as observed previously for hfq gene expression (31).
[ "6", "8", "11", "12", "31" ]
175
43,368
1
false
In contrast, CsrA repressed translational efficiency of the cel gene without a corresponding alteration in mRNA stability, as observed previously for hfq gene expression.
[ "31" ]
In contrast, CsrA repressed translational efficiency of the cel gene without a corresponding alteration in mRNA stability, as observed previously for hfq gene expression.
true
true
true
true
true
7,512
3
DISCUSSION
1
6
[ "B6", "B8", "B11", "B12", "B31" ]
20,378,712
pmid-8845188|pmid-2202727|NA|pmid-19270402|pmid-17347522|pmid-6389120|pmid-6298187|pmid-6319368|pmid-3924892|pmid-1368704|pmid-1406270|pmid-17383221|pmid-12067347|pmid-12867454|pmid-15916613|pmid-17526692
Because no prior examples such as cel have been studied, in which CsrA regulates via an internal mRNA segment, as opposed to the 5′-leader, it is not clear whether decoupled translation control and mRNA stability represents a major theme for this type of regulatory mechanism.
[ "6", "8", "11", "12", "31" ]
276
43,369
0
false
Because no prior examples such as cel have been studied, in which CsrA regulates via an internal mRNA segment, as opposed to the 5′-leader, it is not clear whether decoupled translation control and mRNA stability represents a major theme for this type of regulatory mechanism.
[]
Because no prior examples such as cel have been studied, in which CsrA regulates via an internal mRNA segment, as opposed to the 5′-leader, it is not clear whether decoupled translation control and mRNA stability represents a major theme for this type of regulatory mechanism.
true
true
true
true
true
7,512
4
DISCUSSION
1
64
[ "B64", "B65", "B66", "B67", "B68 B69 B70" ]
20,378,712
pmid-2045785|pmid-17347522|pmid-2453841|pmid-368581|pmid-2417233|pmid-2992951|pmid-2433046|pmid-1370426|pmid-10348874|pmid-1695894
It is notable that the half-life of cel transcript (∼18 min) is much longer than that of the majority of E. coli mRNA, with an average lifetime of 2–4 min (64,65).
[ "64", "65", "66", "67", "68–70" ]
163
43,370
0
false
It is notable that the half-life of cel transcript (∼18 min) is much longer than that of the majority of E. coli mRNA, with an average lifetime of 2–4 min.
[ "64,65" ]
It is notable that the half-life of cel transcript (∼18 min) is much longer than that of the majority of E. coli mRNA, with an average lifetime of 2–4 min.
true
true
true
true
true
7,513
4
DISCUSSION
1
64
[ "B64", "B65", "B66", "B67", "B68 B69 B70" ]
20,378,712
pmid-2045785|pmid-17347522|pmid-2453841|pmid-368581|pmid-2417233|pmid-2992951|pmid-2433046|pmid-1370426|pmid-10348874|pmid-1695894
Perhaps the T2 transcriptional hairpin terminator at 3′terminus of cel gene functions as a protective barrier against 3′exonucleolytic attack (66,67).
[ "64", "65", "66", "67", "68–70" ]
150
43,371
0
false
Perhaps the T2 transcriptional hairpin terminator at 3′terminus of cel gene functions as a protective barrier against 3′exonucleolytic attack.
[ "66,67" ]
Perhaps the T2 transcriptional hairpin terminator at 3′terminus of cel gene functions as a protective barrier against 3′exonucleolytic attack.
true
true
true
true
true
7,513
4
DISCUSSION
1
64
[ "B64", "B65", "B66", "B67", "B68 B69 B70" ]
20,378,712
pmid-2045785|pmid-17347522|pmid-2453841|pmid-368581|pmid-2417233|pmid-2992951|pmid-2433046|pmid-1370426|pmid-10348874|pmid-1695894
Our unpublished data revealed that mutations which destabilize the T1 stem–loop structure were sufficient to target cel mRNA for rapid degradation.
[ "64", "65", "66", "67", "68–70" ]
147
43,372
0
false
Our unpublished data revealed that mutations which destabilize the T1 stem–loop structure were sufficient to target cel mRNA for rapid degradation.
[]
Our unpublished data revealed that mutations which destabilize the T1 stem–loop structure were sufficient to target cel mRNA for rapid degradation.
true
true
true
true
true
7,513
4
DISCUSSION
1
68–70
[ "B64", "B65", "B66", "B67", "B68 B69 B70" ]
20,378,712
pmid-2045785|pmid-17347522|pmid-2453841|pmid-368581|pmid-2417233|pmid-2992951|pmid-2433046|pmid-1370426|pmid-10348874|pmid-1695894
Furthermore, these results suggest that the 5′RNA secondary structure must also impede endonucleolytic cleavage, typically considered to be the rate-limiting step in mRNA decay, and stabilize the downstream transcript (68–70).
[ "64", "65", "66", "67", "68–70" ]
226
43,373
1
false
Furthermore, these results suggest that the 5′RNA secondary structure must also impede endonucleolytic cleavage, typically considered to be the rate-limiting step in mRNA decay, and stabilize the downstream transcript.
[ "68–70" ]
Furthermore, these results suggest that the 5′RNA secondary structure must also impede endonucleolytic cleavage, typically considered to be the rate-limiting step in mRNA decay, and stabilize the downstream transcript.
true
true
true
true
true
7,513
4
DISCUSSION
1
64
[ "B64", "B65", "B66", "B67", "B68 B69 B70" ]
20,378,712
pmid-2045785|pmid-17347522|pmid-2453841|pmid-368581|pmid-2417233|pmid-2992951|pmid-2433046|pmid-1370426|pmid-10348874|pmid-1695894
Thus, we propose that both the T1 and T2 secondary structures, proximal and distal to the cel gene respectively, provide some degree of protection from nucleolytic attack, resulting in the unusual longevity of the cel mRNA.
[ "64", "65", "66", "67", "68–70" ]
223
43,374
0
false
Thus, we propose that both the T1 and T2 secondary structures, proximal and distal to the cel gene respectively, provide some degree of protection from nucleolytic attack, resulting in the unusual longevity of the cel mRNA.
[]
Thus, we propose that both the T1 and T2 secondary structures, proximal and distal to the cel gene respectively, provide some degree of protection from nucleolytic attack, resulting in the unusual longevity of the cel mRNA.
true
true
true
true
true
7,513
5
DISCUSSION
1
3
[ "B3", "B50", "B71", "B72" ]
20,378,712
pmid-12694612|pmid-11567002|pmid-12193630|pmid-11333217
CsrA indirectly activates the transcription of csrB and csrC via the BarA/UvrY two-component system, constituting an autoregulatory circuit for CsrA, CsrB and CsrC (3,50,71).
[ "3", "50", "71", "72" ]
174
43,375
0
false
CsrA indirectly activates the transcription of csrB and csrC via the BarA/UvrY two-component system, constituting an autoregulatory circuit for CsrA, CsrB and CsrC.
[ "3,50,71" ]
CsrA indirectly activates the transcription of csrB and csrC via the BarA/UvrY two-component system, constituting an autoregulatory circuit for CsrA, CsrB and CsrC.
true
true
true
true
true
7,514
5
DISCUSSION
1
3
[ "B3", "B50", "B71", "B72" ]
20,378,712
pmid-12694612|pmid-11567002|pmid-12193630|pmid-11333217
Although the key players and cascade of Csr regulatory circuitry are now understood, how Csr system is connected with other global regulatory networks and how it responds to varied environmental stimuli are relatively unexplored.
[ "3", "50", "71", "72" ]
229
43,376
0
false
Although the key players and cascade of Csr regulatory circuitry are now understood, how Csr system is connected with other global regulatory networks and how it responds to varied environmental stimuli are relatively unexplored.
[]
Although the key players and cascade of Csr regulatory circuitry are now understood, how Csr system is connected with other global regulatory networks and how it responds to varied environmental stimuli are relatively unexplored.
true
true
true
true
true
7,514
5
DISCUSSION
1
3
[ "B3", "B50", "B71", "B72" ]
20,378,712
pmid-12694612|pmid-11567002|pmid-12193630|pmid-11333217
In accordance with the function of CsrB and CsrC in antagonism of CsrA activity, the ratio of CsrA:CsrB/CsrC is important for the regulation of CsrA activity.
[ "3", "50", "71", "72" ]
158
43,377
0
false
In accordance with the function of CsrB and CsrC in antagonism of CsrA activity, the ratio of CsrA:CsrB/CsrC is important for the regulation of CsrA activity.
[]
In accordance with the function of CsrB and CsrC in antagonism of CsrA activity, the ratio of CsrA:CsrB/CsrC is important for the regulation of CsrA activity.
true
true
true
true
true
7,514
5
DISCUSSION
1
3
[ "B3", "B50", "B71", "B72" ]
20,378,712
pmid-12694612|pmid-11567002|pmid-12193630|pmid-11333217
Here, we reveal the first evidence of a biologically significant interconnected between the SOS response network and the Csr system.
[ "3", "50", "71", "72" ]
132
43,378
0
false
Here, we reveal the first evidence of a biologically significant interconnected between the SOS response network and the Csr system.
[]
Here, we reveal the first evidence of a biologically significant interconnected between the SOS response network and the Csr system.
true
true
true
true
true
7,514
5
DISCUSSION
1
3
[ "B3", "B50", "B71", "B72" ]
20,378,712
pmid-12694612|pmid-11567002|pmid-12193630|pmid-11333217
Both CsrB and CsrC RNA levels were drastically decreased under the stress of SOS response (Figure 7B).
[ "3", "50", "71", "72" ]
102
43,379
0
false
Both CsrB and CsrC RNA levels were drastically decreased under the stress of SOS response (Figure 7B).
[]
Both CsrB and CsrC RNA levels were drastically decreased under the stress of SOS response (Figure 7B).
true
true
true
true
true
7,514
5
DISCUSSION
1
3
[ "B3", "B50", "B71", "B72" ]
20,378,712
pmid-12694612|pmid-11567002|pmid-12193630|pmid-11333217
In contrast, the amount of CsrA was not changed (Figure 7A), indicating that the intracellular CsrA activity should be elevated during the SOS response.
[ "3", "50", "71", "72" ]
152
43,380
0
false
In contrast, the amount of CsrA was not changed (Figure 7A), indicating that the intracellular CsrA activity should be elevated during the SOS response.
[]
In contrast, the amount of CsrA was not changed (Figure 7A), indicating that the intracellular CsrA activity should be elevated during the SOS response.
true
true
true
true
true
7,514
5
DISCUSSION
1
3
[ "B3", "B50", "B71", "B72" ]
20,378,712
pmid-12694612|pmid-11567002|pmid-12193630|pmid-11333217
The results of reporter assays and determination of csrB-lacZ and csrC-lacZ transcripts level revealed that transcription of csrB/csrC was reduced during SOS induction (Figure 7C and D).
[ "3", "50", "71", "72" ]
186
43,381
0
false
The results of reporter assays and determination of csrB-lacZ and csrC-lacZ transcripts level revealed that transcription of csrB/csrC was reduced during SOS induction (Figure 7C and D).
[]
The results of reporter assays and determination of csrB-lacZ and csrC-lacZ transcripts level revealed that transcription of csrB/csrC was reduced during SOS induction (Figure 7C and D).
true
true
true
true
true
7,514
5
DISCUSSION
1
3
[ "B3", "B50", "B71", "B72" ]
20,378,712
pmid-12694612|pmid-11567002|pmid-12193630|pmid-11333217
Furthermore, the effect of SOS response on csrB/csrC transcription apparently is mediated indirectly, as no LexA box was found in the upstream promoter region of csrB or csrC.
[ "3", "50", "71", "72" ]
175
43,382
0
false
Furthermore, the effect of SOS response on csrB/csrC transcription apparently is mediated indirectly, as no LexA box was found in the upstream promoter region of csrB or csrC.
[]
Furthermore, the effect of SOS response on csrB/csrC transcription apparently is mediated indirectly, as no LexA box was found in the upstream promoter region of csrB or csrC.
true
true
true
true
true
7,514
5
DISCUSSION
1
72
[ "B3", "B50", "B71", "B72" ]
20,378,712
pmid-12694612|pmid-11567002|pmid-12193630|pmid-11333217
One possible explanation consistent with our data is that BarA may be the regulatory target of SOS response that affects CsrB/CsrC levels, since barA expression was reported to be downregulated by UV damage (72).
[ "3", "50", "71", "72" ]
212
43,383
1
false
One possible explanation consistent with our data is that BarA may be the regulatory target of SOS response that affects CsrB/CsrC levels, since barA expression was reported to be downregulated by UV damage.
[ "72" ]
One possible explanation consistent with our data is that BarA may be the regulatory target of SOS response that affects CsrB/CsrC levels, since barA expression was reported to be downregulated by UV damage.
true
true
true
true
true
7,514
5
DISCUSSION
1
3
[ "B3", "B50", "B71", "B72" ]
20,378,712
pmid-12694612|pmid-11567002|pmid-12193630|pmid-11333217
Further characterization of the regulatory mechanism involved the SOS induction and the transcription factor for csrB/csrC is subject of our future investigations.
[ "3", "50", "71", "72" ]
163
43,384
0
false
Further characterization of the regulatory mechanism involved the SOS induction and the transcription factor for csrB/csrC is subject of our future investigations.
[]
Further characterization of the regulatory mechanism involved the SOS induction and the transcription factor for csrB/csrC is subject of our future investigations.
true
true
true
true
true
7,514
6
DISCUSSION
0
null
null
20,378,712
null
The sequence alignment of the cei–cel intercistronic regions of the E group colicins (E2, E3 and E6 to E9) exhibited a high degree of similarity, almost exceeding 99% (Figure S1).
null
179
43,385
0
false
null
null
The sequence alignment of the cei–cel intercistronic regions of the E group colicins (E2, E3 and E6 to E9) exhibited a high degree of similarity, almost exceeding 99% (Figure S1).
true
true
true
true
true
7,515
6
DISCUSSION
0
null
null
20,378,712
null
Thus, we hypothesize that the CsrA protein is likely to serve as a regulator of lysis protein expression of the E-group colicins.
null
129
43,386
0
false
null
null
Thus, we hypothesize that the CsrA protein is likely to serve as a regulator of lysis protein expression of the E-group colicins.
true
true
true
true
true
7,515
7
DISCUSSION
1
73
[ "B73", "B74", "B49", "B75", "B35", "B42", "B75", "B75", "B35", "B42", "B75", "B3", "B50", "B71" ]
20,378,712
pmid-6095211|pmid-16000763|pmid-2453841|pmid-2987857|pmid-2045785|pmid-17347522|pmid-2987857|pmid-2987857|pmid-2045785|pmid-17347522|pmid-2987857|pmid-12694612|pmid-11567002|pmid-12193630
Expression of the ColE7 operon must be tightly controlled to safeguard the colicin-producing cells from committing suicide.
[ "73", "74", "49", "75", "35", "42", "75", "75", "35", "42", "75", "3", "50", "71" ]
123
43,387
0
false
Expression of the ColE7 operon must be tightly controlled to safeguard the colicin-producing cells from committing suicide.
[]
Expression of the ColE7 operon must be tightly controlled to safeguard the colicin-producing cells from committing suicide.
true
true
true
true
true
7,516
7
DISCUSSION
1
73
[ "B73", "B74", "B49", "B75", "B35", "B42", "B75", "B75", "B35", "B42", "B75", "B3", "B50", "B71" ]
20,378,712
pmid-6095211|pmid-16000763|pmid-2453841|pmid-2987857|pmid-2045785|pmid-17347522|pmid-2987857|pmid-2987857|pmid-2045785|pmid-17347522|pmid-2987857|pmid-12694612|pmid-11567002|pmid-12193630
How the colicinogenic cells achieve the coordinative expression of the polycistronic colicin cluster genes is largely unknown.
[ "73", "74", "49", "75", "35", "42", "75", "75", "35", "42", "75", "3", "50", "71" ]
126
43,388
0
false
How the colicinogenic cells achieve the coordinative expression of the polycistronic colicin cluster genes is largely unknown.
[]
How the colicinogenic cells achieve the coordinative expression of the polycistronic colicin cluster genes is largely unknown.
true
true
true
true
true
7,516
7
DISCUSSION
1
73
[ "B73", "B74", "B49", "B75", "B35", "B42", "B75", "B75", "B35", "B42", "B75", "B3", "B50", "B71" ]
20,378,712
pmid-6095211|pmid-16000763|pmid-2453841|pmid-2987857|pmid-2045785|pmid-17347522|pmid-2987857|pmid-2987857|pmid-2045785|pmid-17347522|pmid-2987857|pmid-12694612|pmid-11567002|pmid-12193630
The overlapping reading frames suggest that translational coupling between the bacteriocin and immunity genes is important for the stoichiometric expression of Col–Im complex and safeguard of colicinogenic cells (73,74).
[ "73", "74", "49", "75", "35", "42", "75", "75", "35", "42", "75", "3", "50", "71" ]
220
43,389
0
false
The overlapping reading frames suggest that translational coupling between the bacteriocin and immunity genes is important for the stoichiometric expression of Col–Im complex and safeguard of colicinogenic cells.
[ "73,74" ]
The overlapping reading frames suggest that translational coupling between the bacteriocin and immunity genes is important for the stoichiometric expression of Col–Im complex and safeguard of colicinogenic cells.
true
true
true
true
true
7,516
7
DISCUSSION
1
73
[ "B73", "B74", "B49", "B75", "B35", "B42", "B75", "B75", "B35", "B42", "B75", "B3", "B50", "B71" ]
20,378,712
pmid-6095211|pmid-16000763|pmid-2453841|pmid-2987857|pmid-2045785|pmid-17347522|pmid-2987857|pmid-2987857|pmid-2045785|pmid-17347522|pmid-2987857|pmid-12694612|pmid-11567002|pmid-12193630
Our present studies, together with previous reports (49,75), clearly indicate that the cel gene of ColE7 is downregulated at both the transcriptional and the translational levels, and raise the possibility that the expression of cel gene may be fine-tuned in response to environmental signals.
[ "73", "74", "49", "75", "35", "42", "75", "75", "35", "42", "75", "3", "50", "71" ]
293
43,390
0
false
Our present studies, together with previous reports, clearly indicate that the cel gene of ColE7 is downregulated at both the transcriptional and the translational levels, and raise the possibility that the expression of cel gene may be fine-tuned in response to environmental signals.
[ "49,75" ]
Our present studies, together with previous reports, clearly indicate that the cel gene of ColE7 is downregulated at both the transcriptional and the translational levels, and raise the possibility that the expression of cel gene may be fine-tuned in response to environmental signals.
true
true
true
true
true
7,516
7
DISCUSSION
1
73
[ "B73", "B74", "B49", "B75", "B35", "B42", "B75", "B75", "B35", "B42", "B75", "B3", "B50", "B71" ]
20,378,712
pmid-6095211|pmid-16000763|pmid-2453841|pmid-2987857|pmid-2045785|pmid-17347522|pmid-2987857|pmid-2987857|pmid-2045785|pmid-17347522|pmid-2987857|pmid-12694612|pmid-11567002|pmid-12193630
Previous studies have reported that under the SOS responsive stress, T1 stem–loop structure of the ColE7 operon serves as a transcriptional terminator to reduce read-through from the SOS responsive promoter upstream of the operon (35,42,75).
[ "73", "74", "49", "75", "35", "42", "75", "75", "35", "42", "75", "3", "50", "71" ]
241
43,391
0
false
Previous studies have reported that under the SOS responsive stress, T1 stem–loop structure of the ColE7 operon serves as a transcriptional terminator to reduce read-through from the SOS responsive promoter upstream of the operon.
[ "35,42,75" ]
Previous studies have reported that under the SOS responsive stress, T1 stem–loop structure of the ColE7 operon serves as a transcriptional terminator to reduce read-through from the SOS responsive promoter upstream of the operon.
true
true
true
true
true
7,516
7
DISCUSSION
1
73
[ "B73", "B74", "B49", "B75", "B35", "B42", "B75", "B75", "B35", "B42", "B75", "B3", "B50", "B71" ]
20,378,712
pmid-6095211|pmid-16000763|pmid-2453841|pmid-2987857|pmid-2045785|pmid-17347522|pmid-2987857|pmid-2987857|pmid-2045785|pmid-17347522|pmid-2987857|pmid-12694612|pmid-11567002|pmid-12193630
The present study demonstrates that the transcription of csrB and csrC is decreased remarkably in response to SOS induction via unknown factor(s).
[ "73", "74", "49", "75", "35", "42", "75", "75", "35", "42", "75", "3", "50", "71" ]
146
43,392
0
false
The present study demonstrates that the transcription of csrB and csrC is decreased remarkably in response to SOS induction via unknown factor(s).
[]
The present study demonstrates that the transcription of csrB and csrC is decreased remarkably in response to SOS induction via unknown factor(s).
true
true
true
true
true
7,516
7
DISCUSSION
1
73
[ "B73", "B74", "B49", "B75", "B35", "B42", "B75", "B75", "B35", "B42", "B75", "B3", "B50", "B71" ]
20,378,712
pmid-6095211|pmid-16000763|pmid-2453841|pmid-2987857|pmid-2045785|pmid-17347522|pmid-2987857|pmid-2987857|pmid-2045785|pmid-17347522|pmid-2987857|pmid-12694612|pmid-11567002|pmid-12193630
Thus, reduction of these two sRNAs should enhance the availability of CsrA to repress translation of the Lys protein (Figure 8).
[ "73", "74", "49", "75", "35", "42", "75", "75", "35", "42", "75", "3", "50", "71" ]
128
43,393
0
false
Thus, reduction of these two sRNAs should enhance the availability of CsrA to repress translation of the Lys protein (Figure 8).
[]
Thus, reduction of these two sRNAs should enhance the availability of CsrA to repress translation of the Lys protein (Figure 8).
true
true
true
true
true
7,516
7
DISCUSSION
1
75
[ "B73", "B74", "B49", "B75", "B35", "B42", "B75", "B75", "B35", "B42", "B75", "B3", "B50", "B71" ]
20,378,712
pmid-6095211|pmid-16000763|pmid-2453841|pmid-2987857|pmid-2045785|pmid-17347522|pmid-2987857|pmid-2987857|pmid-2045785|pmid-17347522|pmid-2987857|pmid-12694612|pmid-11567002|pmid-12193630
This may help to ensure that the cel gene product does not exceed the lethal threshold level (75) and safeguard the colicinogenic cells from suicide incurred by the overexpression of Lys during SOS response.
[ "73", "74", "49", "75", "35", "42", "75", "75", "35", "42", "75", "3", "50", "71" ]
207
43,394
1
false
This may help to ensure that the cel gene product does not exceed the lethal threshold level and safeguard the colicinogenic cells from suicide incurred by the overexpression of Lys during SOS response.
[ "75" ]
This may help to ensure that the cel gene product does not exceed the lethal threshold level and safeguard the colicinogenic cells from suicide incurred by the overexpression of Lys during SOS response.
true
true
true
true
true
7,516
7
DISCUSSION
1
73
[ "B73", "B74", "B49", "B75", "B35", "B42", "B75", "B75", "B35", "B42", "B75", "B3", "B50", "B71" ]
20,378,712
pmid-6095211|pmid-16000763|pmid-2453841|pmid-2987857|pmid-2045785|pmid-17347522|pmid-2987857|pmid-2987857|pmid-2045785|pmid-17347522|pmid-2987857|pmid-12694612|pmid-11567002|pmid-12193630
Clearly, additional studies are needed to provide a detailed understanding of the interrelationship between the Csr regulatory network and the global SOS response system, including the Col operons.
[ "73", "74", "49", "75", "35", "42", "75", "75", "35", "42", "75", "3", "50", "71" ]
197
43,395
0
false
Clearly, additional studies are needed to provide a detailed understanding of the interrelationship between the Csr regulatory network and the global SOS response system, including the Col operons.
[]
Clearly, additional studies are needed to provide a detailed understanding of the interrelationship between the Csr regulatory network and the global SOS response system, including the Col operons.
true
true
true
true
true
7,516
7
DISCUSSION
1
73
[ "B73", "B74", "B49", "B75", "B35", "B42", "B75", "B75", "B35", "B42", "B75", "B3", "B50", "B71" ]
20,378,712
pmid-6095211|pmid-16000763|pmid-2453841|pmid-2987857|pmid-2045785|pmid-17347522|pmid-2987857|pmid-2987857|pmid-2045785|pmid-17347522|pmid-2987857|pmid-12694612|pmid-11567002|pmid-12193630
Figure 8.Schematic model of interconnection between the activation of CsrA and the SOS-responsive signaling in the colicinogenic E. coli.
[ "73", "74", "49", "75", "35", "42", "75", "75", "35", "42", "75", "3", "50", "71" ]
137
43,396
0
false
Figure 8.Schematic model of interconnection between the activation of CsrA and the SOS-responsive signaling in the colicinogenic E. coli.
[]
Figure 8.Schematic model of interconnection between the activation of CsrA and the SOS-responsive signaling in the colicinogenic E. coli.
true
true
true
true
true
7,516
7
DISCUSSION
1
73
[ "B73", "B74", "B49", "B75", "B35", "B42", "B75", "B75", "B35", "B42", "B75", "B3", "B50", "B71" ]
20,378,712
pmid-6095211|pmid-16000763|pmid-2453841|pmid-2987857|pmid-2045785|pmid-17347522|pmid-2987857|pmid-2987857|pmid-2045785|pmid-17347522|pmid-2987857|pmid-12694612|pmid-11567002|pmid-12193630
Two transcripts can be produced from the ColE operon after induction of the SOS responsive promoter.
[ "73", "74", "49", "75", "35", "42", "75", "75", "35", "42", "75", "3", "50", "71" ]
100
43,397
0
false
Two transcripts can be produced from the ColE operon after induction of the SOS responsive promoter.
[]
Two transcripts can be produced from the ColE operon after induction of the SOS responsive promoter.
true
true
true
true
true
7,516
7
DISCUSSION
1
73
[ "B73", "B74", "B49", "B75", "B35", "B42", "B75", "B75", "B35", "B42", "B75", "B3", "B50", "B71" ]
20,378,712
pmid-6095211|pmid-16000763|pmid-2453841|pmid-2987857|pmid-2045785|pmid-17347522|pmid-2987857|pmid-2987857|pmid-2045785|pmid-17347522|pmid-2987857|pmid-12694612|pmid-11567002|pmid-12193630
In the presence of T1 stem–loop structure, only a portion of the transcripts read through to the cel gene from the SOS promoter, resulting in the production of a long transcript, which consists of the cea, cei and cel genes (35,42,75).
[ "73", "74", "49", "75", "35", "42", "75", "75", "35", "42", "75", "3", "50", "71" ]
235
43,398
0
false
In the presence of T1 stem–loop structure, only a portion of the transcripts read through to the cel gene from the SOS promoter, resulting in the production of a long transcript, which consists of the cea, cei and cel genes.
[ "35,42,75" ]
In the presence of T1 stem–loop structure, only a portion of the transcripts read through to the cel gene from the SOS promoter, resulting in the production of a long transcript, which consists of the cea, cei and cel genes.
true
true
true
true
true
7,516
7
DISCUSSION
1
73
[ "B73", "B74", "B49", "B75", "B35", "B42", "B75", "B75", "B35", "B42", "B75", "B3", "B50", "B71" ]
20,378,712
pmid-6095211|pmid-16000763|pmid-2453841|pmid-2987857|pmid-2045785|pmid-17347522|pmid-2987857|pmid-2987857|pmid-2045785|pmid-17347522|pmid-2987857|pmid-12694612|pmid-11567002|pmid-12193630
In this work, we provide evidence that CsrA RNA-binding protein represses translation of the cel mRNA.
[ "73", "74", "49", "75", "35", "42", "75", "75", "35", "42", "75", "3", "50", "71" ]
102
43,399
0
false
In this work, we provide evidence that CsrA RNA-binding protein represses translation of the cel mRNA.
[]
In this work, we provide evidence that CsrA RNA-binding protein represses translation of the cel mRNA.
true
true
true
true
true
7,516
7
DISCUSSION
1
73
[ "B73", "B74", "B49", "B75", "B35", "B42", "B75", "B75", "B35", "B42", "B75", "B3", "B50", "B71" ]
20,378,712
pmid-6095211|pmid-16000763|pmid-2453841|pmid-2987857|pmid-2045785|pmid-17347522|pmid-2987857|pmid-2987857|pmid-2045785|pmid-17347522|pmid-2987857|pmid-12694612|pmid-11567002|pmid-12193630
In addition, sequences in the loop of the T1 stem–loop structure and the cel SD sequence are important for CsrA binding.
[ "73", "74", "49", "75", "35", "42", "75", "75", "35", "42", "75", "3", "50", "71" ]
120
43,400
0
false
In addition, sequences in the loop of the T1 stem–loop structure and the cel SD sequence are important for CsrA binding.
[]
In addition, sequences in the loop of the T1 stem–loop structure and the cel SD sequence are important for CsrA binding.
true
true
true
true
true
7,516
7
DISCUSSION
1
73
[ "B73", "B74", "B49", "B75", "B35", "B42", "B75", "B75", "B35", "B42", "B75", "B3", "B50", "B71" ]
20,378,712
pmid-6095211|pmid-16000763|pmid-2453841|pmid-2987857|pmid-2045785|pmid-17347522|pmid-2987857|pmid-2987857|pmid-2045785|pmid-17347522|pmid-2987857|pmid-12694612|pmid-11567002|pmid-12193630
Furthermore, CsrB and CsrC RNA levels are drastically reduced under the stress of SOS response via unknown factors (bottom).
[ "73", "74", "49", "75", "35", "42", "75", "75", "35", "42", "75", "3", "50", "71" ]
124
43,401
0
false
Furthermore, CsrB and CsrC RNA levels are drastically reduced under the stress of SOS response via unknown factors (bottom).
[]
Furthermore, CsrB and CsrC RNA levels are drastically reduced under the stress of SOS response via unknown factors (bottom).
true
true
true
true
true
7,516
7
DISCUSSION
1
73
[ "B73", "B74", "B49", "B75", "B35", "B42", "B75", "B75", "B35", "B42", "B75", "B3", "B50", "B71" ]
20,378,712
pmid-6095211|pmid-16000763|pmid-2453841|pmid-2987857|pmid-2045785|pmid-17347522|pmid-2987857|pmid-2987857|pmid-2045785|pmid-17347522|pmid-2987857|pmid-12694612|pmid-11567002|pmid-12193630
BarA-UvrY is a two component signal transduction system and UvrY is the transcriptional activator of the two small RNA (sRNAs), the CsrB and CsrC, which antagonize CsrA by sequestering this protein (3,50,71).
[ "73", "74", "49", "75", "35", "42", "75", "75", "35", "42", "75", "3", "50", "71" ]
208
43,402
0
false
BarA-UvrY is a two component signal transduction system and UvrY is the transcriptional activator of the two small RNA (sRNAs), the CsrB and CsrC, which antagonize CsrA by sequestering this protein.
[ "3,50,71" ]
BarA-UvrY is a two component signal transduction system and UvrY is the transcriptional activator of the two small RNA (sRNAs), the CsrB and CsrC, which antagonize CsrA by sequestering this protein.
true
true
true
true
true
7,516
7
DISCUSSION
1
73
[ "B73", "B74", "B49", "B75", "B35", "B42", "B75", "B75", "B35", "B42", "B75", "B3", "B50", "B71" ]
20,378,712
pmid-6095211|pmid-16000763|pmid-2453841|pmid-2987857|pmid-2045785|pmid-17347522|pmid-2987857|pmid-2987857|pmid-2045785|pmid-17347522|pmid-2987857|pmid-12694612|pmid-11567002|pmid-12193630
Hence, reduced levels of CsrB/C lead to the decreased capacity to sequester CsrA.
[ "73", "74", "49", "75", "35", "42", "75", "75", "35", "42", "75", "3", "50", "71" ]
81
43,403
0
false
Hence, reduced levels of CsrB/C lead to the decreased capacity to sequester CsrA.
[]
Hence, reduced levels of CsrB/C lead to the decreased capacity to sequester CsrA.
true
true
true
true
true
7,516
7
DISCUSSION
1
73
[ "B73", "B74", "B49", "B75", "B35", "B42", "B75", "B75", "B35", "B42", "B75", "B3", "B50", "B71" ]
20,378,712
pmid-6095211|pmid-16000763|pmid-2453841|pmid-2987857|pmid-2045785|pmid-17347522|pmid-2987857|pmid-2987857|pmid-2045785|pmid-17347522|pmid-2987857|pmid-12694612|pmid-11567002|pmid-12193630
Thus, during SOS response, more CsrA should be available to negatively regulate translation of the cel mRNA (bottom).
[ "73", "74", "49", "75", "35", "42", "75", "75", "35", "42", "75", "3", "50", "71" ]
117
43,404
0
false
Thus, during SOS response, more CsrA should be available to negatively regulate translation of the cel mRNA (bottom).
[]
Thus, during SOS response, more CsrA should be available to negatively regulate translation of the cel mRNA (bottom).
true
true
true
true
true
7,516
7
DISCUSSION
1
73
[ "B73", "B74", "B49", "B75", "B35", "B42", "B75", "B75", "B35", "B42", "B75", "B3", "B50", "B71" ]
20,378,712
pmid-6095211|pmid-16000763|pmid-2453841|pmid-2987857|pmid-2045785|pmid-17347522|pmid-2987857|pmid-2987857|pmid-2045785|pmid-17347522|pmid-2987857|pmid-12694612|pmid-11567002|pmid-12193630
Note that horizontal arrows represent the transcriptional activity and the thickness of the arrows indicates the degree of the strength of the transcriptional activity.
[ "73", "74", "49", "75", "35", "42", "75", "75", "35", "42", "75", "3", "50", "71" ]
168
43,405
0
false
Note that horizontal arrows represent the transcriptional activity and the thickness of the arrows indicates the degree of the strength of the transcriptional activity.
[]
Note that horizontal arrows represent the transcriptional activity and the thickness of the arrows indicates the degree of the strength of the transcriptional activity.
true
true
true
true
true
7,516
7
DISCUSSION
1
73
[ "B73", "B74", "B49", "B75", "B35", "B42", "B75", "B75", "B35", "B42", "B75", "B3", "B50", "B71" ]
20,378,712
pmid-6095211|pmid-16000763|pmid-2453841|pmid-2987857|pmid-2045785|pmid-17347522|pmid-2987857|pmid-2987857|pmid-2045785|pmid-17347522|pmid-2987857|pmid-12694612|pmid-11567002|pmid-12193630
P, promoter; SD, Shine-Dalgarno sequence; , sequestering or inhibitory effect; , aborted translation; , phosphorylation; , DNA damage induction; ?, an undetermined mechanism.
[ "73", "74", "49", "75", "35", "42", "75", "75", "35", "42", "75", "3", "50", "71" ]
174
43,406
0
false
P, promoter; SD, Shine-Dalgarno sequence;, sequestering or inhibitory effect;, aborted translation;, phosphorylation;, DNA damage induction; ?, an undetermined mechanism.
[]
P, promoter; SD, Shine-Dalgarno sequence;, sequestering or inhibitory effect;, aborted translation;, phosphorylation;, DNA damage induction; ?, an undetermined mechanism.
true
true
true
true
true
7,516
8
DISCUSSION
1
35
[ "B35", "B42", "B75", "B3", "B50", "B71" ]
20,378,712
pmid-2045785|pmid-17347522|pmid-2987857|pmid-12694612|pmid-11567002|pmid-12193630
Schematic model of interconnection between the activation of CsrA and the SOS-responsive signaling in the colicinogenic E. coli.
[ "35", "42", "75", "3", "50", "71" ]
128
43,407
0
false
Schematic model of interconnection between the activation of CsrA and the SOS-responsive signaling in the colicinogenic E. coli.
[]
Schematic model of interconnection between the activation of CsrA and the SOS-responsive signaling in the colicinogenic E. coli.
true
true
true
true
true
7,517
8
DISCUSSION
1
35
[ "B35", "B42", "B75", "B3", "B50", "B71" ]
20,378,712
pmid-2045785|pmid-17347522|pmid-2987857|pmid-12694612|pmid-11567002|pmid-12193630
Two transcripts can be produced from the ColE operon after induction of the SOS responsive promoter.
[ "35", "42", "75", "3", "50", "71" ]
100
43,408
0
false
Two transcripts can be produced from the ColE operon after induction of the SOS responsive promoter.
[]
Two transcripts can be produced from the ColE operon after induction of the SOS responsive promoter.
true
true
true
true
true
7,517
8
DISCUSSION
1
35
[ "B35", "B42", "B75", "B3", "B50", "B71" ]
20,378,712
pmid-2045785|pmid-17347522|pmid-2987857|pmid-12694612|pmid-11567002|pmid-12193630
In the presence of T1 stem–loop structure, only a portion of the transcripts read through to the cel gene from the SOS promoter, resulting in the production of a long transcript, which consists of the cea, cei and cel genes (35,42,75).
[ "35", "42", "75", "3", "50", "71" ]
235
43,409
0
false
In the presence of T1 stem–loop structure, only a portion of the transcripts read through to the cel gene from the SOS promoter, resulting in the production of a long transcript, which consists of the cea, cei and cel genes.
[ "35,42,75" ]
In the presence of T1 stem–loop structure, only a portion of the transcripts read through to the cel gene from the SOS promoter, resulting in the production of a long transcript, which consists of the cea, cei and cel genes.
true
true
true
true
true
7,517
8
DISCUSSION
1
35
[ "B35", "B42", "B75", "B3", "B50", "B71" ]
20,378,712
pmid-2045785|pmid-17347522|pmid-2987857|pmid-12694612|pmid-11567002|pmid-12193630
In this work, we provide evidence that CsrA RNA-binding protein represses translation of the cel mRNA.
[ "35", "42", "75", "3", "50", "71" ]
102
43,410
0
false
In this work, we provide evidence that CsrA RNA-binding protein represses translation of the cel mRNA.
[]
In this work, we provide evidence that CsrA RNA-binding protein represses translation of the cel mRNA.
true
true
true
true
true
7,517
8
DISCUSSION
1
35
[ "B35", "B42", "B75", "B3", "B50", "B71" ]
20,378,712
pmid-2045785|pmid-17347522|pmid-2987857|pmid-12694612|pmid-11567002|pmid-12193630
In addition, sequences in the loop of the T1 stem–loop structure and the cel SD sequence are important for CsrA binding.
[ "35", "42", "75", "3", "50", "71" ]
120
43,411
0
false
In addition, sequences in the loop of the T1 stem–loop structure and the cel SD sequence are important for CsrA binding.
[]
In addition, sequences in the loop of the T1 stem–loop structure and the cel SD sequence are important for CsrA binding.
true
true
true
true
true
7,517
8
DISCUSSION
1
35
[ "B35", "B42", "B75", "B3", "B50", "B71" ]
20,378,712
pmid-2045785|pmid-17347522|pmid-2987857|pmid-12694612|pmid-11567002|pmid-12193630
Furthermore, CsrB and CsrC RNA levels are drastically reduced under the stress of SOS response via unknown factors (bottom).
[ "35", "42", "75", "3", "50", "71" ]
124
43,412
0
false
Furthermore, CsrB and CsrC RNA levels are drastically reduced under the stress of SOS response via unknown factors (bottom).
[]
Furthermore, CsrB and CsrC RNA levels are drastically reduced under the stress of SOS response via unknown factors (bottom).
true
true
true
true
true
7,517
8
DISCUSSION
1
35
[ "B35", "B42", "B75", "B3", "B50", "B71" ]
20,378,712
pmid-2045785|pmid-17347522|pmid-2987857|pmid-12694612|pmid-11567002|pmid-12193630
BarA-UvrY is a two component signal transduction system and UvrY is the transcriptional activator of the two small RNA (sRNAs), the CsrB and CsrC, which antagonize CsrA by sequestering this protein (3,50,71).
[ "35", "42", "75", "3", "50", "71" ]
208
43,413
0
false
BarA-UvrY is a two component signal transduction system and UvrY is the transcriptional activator of the two small RNA (sRNAs), the CsrB and CsrC, which antagonize CsrA by sequestering this protein.
[ "3,50,71" ]
BarA-UvrY is a two component signal transduction system and UvrY is the transcriptional activator of the two small RNA (sRNAs), the CsrB and CsrC, which antagonize CsrA by sequestering this protein.
true
true
true
true
true
7,517
8
DISCUSSION
1
35
[ "B35", "B42", "B75", "B3", "B50", "B71" ]
20,378,712
pmid-2045785|pmid-17347522|pmid-2987857|pmid-12694612|pmid-11567002|pmid-12193630
Hence, reduced levels of CsrB/C lead to the decreased capacity to sequester CsrA.
[ "35", "42", "75", "3", "50", "71" ]
81
43,414
0
false
Hence, reduced levels of CsrB/C lead to the decreased capacity to sequester CsrA.
[]
Hence, reduced levels of CsrB/C lead to the decreased capacity to sequester CsrA.
true
true
true
true
true
7,517
8
DISCUSSION
1
35
[ "B35", "B42", "B75", "B3", "B50", "B71" ]
20,378,712
pmid-2045785|pmid-17347522|pmid-2987857|pmid-12694612|pmid-11567002|pmid-12193630
Thus, during SOS response, more CsrA should be available to negatively regulate translation of the cel mRNA (bottom).
[ "35", "42", "75", "3", "50", "71" ]
117
43,415
0
false
Thus, during SOS response, more CsrA should be available to negatively regulate translation of the cel mRNA (bottom).
[]
Thus, during SOS response, more CsrA should be available to negatively regulate translation of the cel mRNA (bottom).
true
true
true
true
true
7,517
8
DISCUSSION
1
35
[ "B35", "B42", "B75", "B3", "B50", "B71" ]
20,378,712
pmid-2045785|pmid-17347522|pmid-2987857|pmid-12694612|pmid-11567002|pmid-12193630
Note that horizontal arrows represent the transcriptional activity and the thickness of the arrows indicates the degree of the strength of the transcriptional activity.
[ "35", "42", "75", "3", "50", "71" ]
168
43,416
0
false
Note that horizontal arrows represent the transcriptional activity and the thickness of the arrows indicates the degree of the strength of the transcriptional activity.
[]
Note that horizontal arrows represent the transcriptional activity and the thickness of the arrows indicates the degree of the strength of the transcriptional activity.
true
true
true
true
true
7,517
8
DISCUSSION
1
35
[ "B35", "B42", "B75", "B3", "B50", "B71" ]
20,378,712
pmid-2045785|pmid-17347522|pmid-2987857|pmid-12694612|pmid-11567002|pmid-12193630
P, promoter; SD, Shine-Dalgarno sequence; , sequestering or inhibitory effect; , aborted translation; , phosphorylation; , DNA damage induction; ?, an undetermined mechanism.
[ "35", "42", "75", "3", "50", "71" ]
174
43,417
0
false
P, promoter; SD, Shine-Dalgarno sequence;, sequestering or inhibitory effect;, aborted translation;, phosphorylation;, DNA damage induction; ?, an undetermined mechanism.
[]
P, promoter; SD, Shine-Dalgarno sequence;, sequestering or inhibitory effect;, aborted translation;, phosphorylation;, DNA damage induction; ?, an undetermined mechanism.
true
true
true
true
true
7,517
0
INTRODUCTION
1
1
[ "B1", "B2", "B3" ]
20,061,370
pmid-18082599|pmid-11430828|pmid-12556884|pmid-14595109
The DNA damage response (DDR) is a complex signal transduction network that functions to regulate the cellular response to genotoxic stress (1).
[ "1", "2", "3" ]
144
43,418
1
false
The DNA damage response (DDR) is a complex signal transduction network that functions to regulate the cellular response to genotoxic stress.
[ "1" ]
The DNA damage response (DDR) is a complex signal transduction network that functions to regulate the cellular response to genotoxic stress.
true
true
true
true
true
7,518