-
1
-
-
0033932017
-
A regulatory RNA (PrrB RNA) modulates expression of secondary metabolite genes in Pseudomonas fluorescens F113
-
Aarons, S., Abbas, A., Adams, C., Fenton, A., and O'Gara, F. (2000). A regulatory RNA (PrrB RNA) modulates expression of secondary metabolite genes in Pseudomonas fluorescens F113. J. Bacteriol. 182, 3913-3919.
-
(2000)
J. Bacteriol.
, vol.182
, pp. 3913-3919
-
-
Aarons, S.1
Abbas, A.2
Adams, C.3
Fenton, A.4
O'Gara, F.5
-
2
-
-
0032716841
-
Growth phase-dependent variation in protein composition of the Escherichia coli nucleoid
-
Ali, A.T., Iwata, A., Nishimura, A., Ueda, S., and Ishihama, A. (1999). Growth phase-dependent variation in protein composition of the Escherichia coli nucleoid. J. Bacteriol. 181, 6361-6370.
-
(1999)
J. Bacteriol.
, vol.181
, pp. 6361-6370
-
-
Ali, A.T.1
Iwata, A.2
Nishimura, A.3
Ueda, S.4
Ishihama, A.5
-
3
-
-
0031459386
-
A small, stable RNA induced by oxidative stress: Role as a pleiotropic regulator and antimutator
-
Altuvia, S., Weinstein-Fischer, D., Zhang, A., Postow, L., and Storz, G. (1997). A small, stable RNA induced by oxidative stress: role as a pleiotropic regulator and antimutator. Cell 90, 43-53.
-
(1997)
Cell
, vol.90
, pp. 43-53
-
-
Altuvia, S.1
Weinstein-Fischer, D.2
Zhang, A.3
Postow, L.4
Storz, G.5
-
4
-
-
0037370020
-
A uniform system for microRNA annotation
-
Ambros, V., Bartel, B., Bartel, D.P., Burge, C.B., Carrington, J.C., Chen, X., Dreyfuss, G., Eddy, S.R., Griffiths-Jones, S., Marshall, M., et al. (2003). A uniform system for microRNA annotation. RNA 9, 277-279.
-
(2003)
RNA
, vol.9
, pp. 277-279
-
-
Ambros, V.1
Bartel, B.2
Bartel, D.P.3
Burge, C.B.4
Carrington, J.C.5
Chen, X.6
Dreyfuss, G.7
Eddy, S.R.8
Griffiths-Jones, S.9
Marshall, M.10
-
5
-
-
0037154430
-
Expression of a small RNA, BS203 RNA, from the yocI-yocJ intergenic region of Bacillus subtilis genome
-
Ando, Y., Asari, S., Suzuma, S., Yamane, K., and Nakamura, K. (2002). Expression of a small RNA, BS203 RNA, from the yocI-yocJ intergenic region of Bacillus subtilis genome. FEMS Microbiol. Lett. 207, 29-33.
-
(2002)
FEMS Microbiol. Lett.
, vol.207
, pp. 29-33
-
-
Ando, Y.1
Asari, S.2
Suzuma, S.3
Yamane, K.4
Nakamura, K.5
-
6
-
-
14844284580
-
A small bacterial RNA regulates a putative ABC transporter
-
Antal, M., Bordeau, V., Douchin, V., and Felden, B. (2005). A small bacterial RNA regulates a putative ABC transporter. J. Biol. Chem. 280, 7901-7908.
-
(2005)
J. Biol. Chem.
, vol.280
, pp. 7901-7908
-
-
Antal, M.1
Bordeau, V.2
Douchin, V.3
Felden, B.4
-
7
-
-
0034725539
-
fhlA repression by OxyS RNA: Kissing complex formation at two sites results in a stable antisense-target RNA complex
-
Argaman, L. and Altuvia, S. (2000). fhlA repression by OxyS RNA: kissing complex formation at two sites results in a stable antisense-target RNA complex. J. Mol. Biol. 300, 1101-1112.
-
(2000)
J. Mol. Biol.
, vol.300
, pp. 1101-1112
-
-
Argaman, L.1
Altuvia, S.2
-
8
-
-
0035954304
-
Novel small RNA-encoding genes in the intergenic regions of Escherichia coli
-
Argaman, L., Hershberg, R., Vogel, J., Bejerano, G., Wagner, E.G.H., Margalit, H., and Altuvia, S. (2001). Novel small RNA-encoding genes in the intergenic regions of Escherichia coli. Curr. Biol. 11, 941-950.
-
(2001)
Curr. Biol.
, vol.11
, pp. 941-950
-
-
Argaman, L.1
Hershberg, R.2
Vogel, J.3
Bejerano, G.4
Wagner, E.G.H.5
Margalit, H.6
Altuvia, S.7
-
9
-
-
29044436786
-
Identification of cyanobacterial non-coding RNAs by comparative genome analysis
-
Axmann, I.M., Kensche, P., Vogel, J., Kohl, S., Herzel, H., and Hess, W.R. (2005). Identification of cyanobacterial non-coding RNAs by comparative genome analysis. Genome Biol. 6, R73.
-
(2005)
Genome Biol.
, vol.6
-
-
Axmann, I.M.1
Kensche, P.2
Vogel, J.3
Kohl, S.4
Herzel, H.5
Hess, W.R.6
-
10
-
-
17844379221
-
6S RNA is a widespread regulator of eubacterial RNA polymerase that resembles an open promoter
-
Barrick, J.E., Sudarsan, N., Weinberg, Z., Ruzzo, W.L., and Breaker, R.R. (2005). 6S RNA is a widespread regulator of eubacterial RNA polymerase that resembles an open promoter. RNA 11, 774-784.
-
(2005)
RNA
, vol.11
, pp. 774-784
-
-
Barrick, J.E.1
Sudarsan, N.2
Weinberg, Z.3
Ruzzo, W.L.4
Breaker, R.R.5
-
11
-
-
0036354598
-
Analyzing mRNA-protein complexes using a yeast three-hybrid system
-
Bernstein, D.S., Buter, N., Stumpf, C., and Wickens, M. (2002). Analyzing mRNA-protein complexes using a yeast three-hybrid system. Methods 26, 123-141.
-
(2002)
Methods
, vol.26
, pp. 123-141
-
-
Bernstein, D.S.1
Buter, N.2
Stumpf, C.3
Wickens, M.4
-
12
-
-
15444350252
-
The complete genome sequence of Escherichia coli K-12
-
Blattner, F.R., Plunkett, G. III, Bloch, C.A., Perna, N.T., Burland, V., Riley, M., Collado-Vides, J., Glasner, J.D., Rode, C.K., Mayhew, G.F., et al. (1997). The complete genome sequence of Escherichia coli K-12. Science 277, 1453-1474.
-
(1997)
Science
, vol.277
, pp. 1453-1474
-
-
Blattner, F.R.1
Plunkett III, G.2
Bloch, C.A.3
Perna, N.T.4
Burland, V.5
Riley, M.6
Collado-Vides, J.7
Glasner, J.D.8
Rode, C.K.9
Mayhew, G.F.10
-
13
-
-
0015208767
-
Sequence of 6S RNA of E. coli
-
Brownlee, G.G. (1971). Sequence of 6S RNA of E. coli. Nat. New Biol. 229, 147-149.
-
(1971)
Nat. New Biol.
, vol.229
, pp. 147-149
-
-
Brownlee, G.G.1
-
14
-
-
0035477134
-
A computational approach to identify genes for functional RNAs in genomic sequences
-
Carter, R.J., Dubchak, I., and Holbrook, S.R. (2001). A computational approach to identify genes for functional RNAs in genomic sequences. Nucleic Acids Res. 29, 3928-3938.
-
(2001)
Nucleic Acids Res.
, vol.29
, pp. 3928-3938
-
-
Carter, R.J.1
Dubchak, I.2
Holbrook, S.R.3
-
15
-
-
0036271043
-
A bioinformatics based approach to discover small RNA genes in the Escherichia coli genome
-
Chen, S., Lesnik, E.A., Hall, T.A., Sampath, R., Griffey, R.H., Ecker, D.J., and Blyn, L.B. (2002). A bioinformatics based approach to discover small RNA genes in the Escherichia coli genome. Biosystems 65, 157-177.
-
(2002)
Biosystems
, vol.65
, pp. 157-177
-
-
Chen, S.1
Lesnik, E.A.2
Hall, T.A.3
Sampath, R.4
Griffey, R.H.5
Ecker, D.J.6
Blyn, L.B.7
-
16
-
-
4944236203
-
MicC, a second small-RNA regulator of Omp protein expression in Escherichia coli
-
Chen, S., Zhang, A.X., Blyn, L.B., and Storz, G. (2004). MicC, a second small-RNA regulator of Omp protein expression in Escherichia coli. J. Bacteriol. 186, 6689-6697.
-
(2004)
J. Bacteriol.
, vol.186
, pp. 6689-6697
-
-
Chen, S.1
Zhang, A.X.2
Blyn, L.B.3
Storz, G.4
-
17
-
-
2442645227
-
The RNA-binding protein Hfq of Listeria monocytogenes: Role in stress tolerance and virulence
-
Christiansen, J.K., Larsen, M.H., Ingmer, H., Sogaard-Andersen, L., and Kallipolitis, B.H. (2004). The RNA-binding protein Hfq of Listeria monocytogenes: role in stress tolerance and virulence. J. Bacteriol. 186, 3355-3362.
-
(2004)
J. Bacteriol.
, vol.186
, pp. 3355-3362
-
-
Christiansen, J.K.1
Larsen, M.H.2
Ingmer, H.3
Sogaard-Andersen, L.4
Kallipolitis, B.H.5
-
18
-
-
20444473805
-
Characterization of the small untranslated RNA RyhB and its regulon in Vibrio cholerae
-
Davis, B.M., Quinones, M., Pratt, J., Ding, Y., and Waldor, M.K. (2005). Characterization of the small untranslated RNA RyhB and its regulon in Vibrio cholerae. J. Bacteriol. 187, 4005-4014.
-
(2005)
J. Bacteriol.
, vol.187
, pp. 4005-4014
-
-
Davis, B.M.1
Quinones, M.2
Pratt, J.3
Ding, Y.4
Waldor, M.K.5
-
19
-
-
0026079941
-
Discovery of a rhizobial RNA that is essential for symbiotic root nodule development
-
Ebeling, S., Kundig, C., and Hennecke, H. (1991). Discovery of a rhizobial RNA that is essential for symbiotic root nodule development. J. Bacteriol. 173, 6373-6382.
-
(1991)
J. Bacteriol.
, vol.173
, pp. 6373-6382
-
-
Ebeling, S.1
Kundig, C.2
Hennecke, H.3
-
20
-
-
0035863097
-
RNA interference is mediated by 21- and 22-nucleotide RNAs
-
Elbashir, S.M., Lendeckel, W., and Tuschl, T. (2001). RNA interference is mediated by 21- and 22-nucleotide RNAs. Genes Dev. 15, 188-200.
-
(2001)
Genes Dev.
, vol.15
, pp. 188-200
-
-
Elbashir, S.M.1
Lendeckel, W.2
Tuschl, T.3
-
21
-
-
0015500282
-
Bacterial proteins required for replication of phage Q ribonucleic acid. Purification and properties of host factor I, a ribonucleic acid-binding protein
-
Franze de Fernandez, M.T., Hayward, W.S., and August, J.T. (1972). Bacterial proteins required for replication of phage Q ribonucleic acid. Purification and properties of host factor I, a ribonucleic acid-binding protein. J. Biol. Chem. 247, 824-831.
-
(1972)
J. Biol. Chem.
, vol.247
, pp. 824-831
-
-
Franze De Fernandez, M.T.1
Hayward, W.S.2
August, J.T.3
-
22
-
-
0036566827
-
Two-piece tmRNA in cyanobacteria and its structural analysis
-
Gaudin, C., Zhou, X., Williams, K.P., and Felden, B. (2002). Two-piece tmRNA in cyanobacteria and its structural analysis. Nucleic Acids Res. 30, 2018-2024.
-
(2002)
Nucleic Acids Res.
, vol.30
, pp. 2018-2024
-
-
Gaudin, C.1
Zhou, X.2
Williams, K.P.3
Felden, B.4
-
23
-
-
1542320707
-
Hfq, a new chaperoning role: Binding to messenger RNA determines access for small RNA regulator
-
Geissmann, T.A. and Touati, D. (2004). Hfq, a new chaperoning role: binding to messenger RNA determines access for small RNA regulator. EMBO J. 23, 396-405.
-
(2004)
EMBO J.
, vol.23
, pp. 396-405
-
-
Geissmann, T.A.1
Touati, D.2
-
24
-
-
0034072990
-
Identification of a small RNA within the pdh gene cluster of Mycoplasma pneumoniae and Mycoplasma genitalium
-
Göhlmann, H.W.H., Weiner, J., Schön, A., and Herrmann, R. (2000). Identification of a small RNA within the pdh gene cluster of Mycoplasma pneumoniae and Mycoplasma genitalium. J. Bacteriol. 182, 3281-3284.
-
(2000)
J. Bacteriol.
, vol.182
, pp. 3281-3284
-
-
Göhlmann, H.W.H.1
Weiner, J.2
Schön, A.3
Herrmann, R.4
-
25
-
-
4344682527
-
The small RNA regulators of Escherichia coli: Roles and mechanisms
-
Gottesman, S. (2004). The small RNA regulators of Escherichia coli: roles and mechanisms. Annu. Rev. Microbiol. 58, 303-328.
-
(2004)
Annu. Rev. Microbiol.
, vol.58
, pp. 303-328
-
-
Gottesman, S.1
-
26
-
-
0013566174
-
32P-labelled ribonucleic acid components. The use of polyethylenimine-cellulose (TLC) as a second dimension in separating oligoribonucleotides of '4.5 S' and 5 S from E. coli
-
32P-labelled ribonucleic acid components. The use of polyethylenimine-cellulose (TLC) as a second dimension in separating oligoribonucleotides of '4.5 S' and 5 S from E. coli. FEBS Lett. 15, 165-168.
-
(1971)
FEBS Lett.
, vol.15
, pp. 165-168
-
-
Griffin, B.E.1
-
27
-
-
0037252684
-
Rfam: An RNA family database
-
Griffiths-Jones, S., Bateman, A., Marshall, M., Khanna, A., and Eddy, S.R. (2003). Rfam: an RNA family database. Nucleic Acids Res. 31, 439-441.
-
(2003)
Nucleic Acids Res.
, vol.31
, pp. 439-441
-
-
Griffiths-Jones, S.1
Bateman, A.2
Marshall, M.3
Khanna, A.4
Eddy, S.R.5
-
28
-
-
0035143597
-
Over-synthesis of a new Escherichia coli small RNA suppresses export toxicity of DsbA′-PhoA unfoldable periplasmic proteins
-
Guigueno, A., Dassa, J., Belin, P., and Boquet, P.L. (2001). Over-synthesis of a new Escherichia coli small RNA suppresses export toxicity of DsbA′-PhoA unfoldable periplasmic proteins. J. Bacteriol. 183, 1147-1158.
-
(2001)
J. Bacteriol.
, vol.183
, pp. 1147-1158
-
-
Guigueno, A.1
Dassa, J.2
Belin, P.3
Boquet, P.L.4
-
29
-
-
0036156940
-
Regulatory RNA as mediator in GacA/RsmA-dependent global control of exoproduct formation in Pseudomonas fluorescens CHA0
-
Heeb, S., Blumer, C., and Haas, D. (2002). Regulatory RNA as mediator in GacA/RsmA-dependent global control of exoproduct formation in Pseudomonas fluorescens CHA0. J. Bacteriol. 184, 1046-1056.
-
(2002)
J. Bacteriol.
, vol.184
, pp. 1046-1056
-
-
Heeb, S.1
Blumer, C.2
Haas, D.3
-
30
-
-
0037387973
-
A survey of small RNA-encoding genes in Escherichia coli
-
Hershberg, R., Altuvia, S., and Margalit, H. (2003). A survey of small RNA-encoding genes in Escherichia coli. Nucleic Acids Res. 31, 1813-1820.
-
(2003)
Nucleic Acids Res.
, vol.31
, pp. 1813-1820
-
-
Hershberg, R.1
Altuvia, S.2
Margalit, H.3
-
31
-
-
0014220139
-
32P-labelled ribonucleic acids on polyacrylamide gels and their characterization by finger-printing
-
32P-labelled ribonucleic acids on polyacrylamide gels and their characterization by finger-printing. J. Mol. Biol. 30, 125-136.
-
(1967)
J. Mol. Biol.
, vol.30
, pp. 125-136
-
-
Hindley, J.1
-
32
-
-
0021913190
-
Escherichia coli 6S RNA gene is part of a dual-function transcription unit
-
Hsu, L.M., Zagorski, J., Wang, Z., and Fournier, M.J. (1985). Escherichia coli 6S RNA gene is part of a dual-function transcription unit. J. Bacteriol. 161, 1162-1170.
-
(1985)
J. Bacteriol.
, vol.161
, pp. 1162-1170
-
-
Hsu, L.M.1
Zagorski, J.2
Wang, Z.3
Fournier, M.J.4
-
33
-
-
0034161440
-
Charged tmRNA but not tmRNA-mediated proteolysis is essential for Neisseria gonorrhoeae viability
-
Huang, C., Wolfgang, M.C., Withey, J., Koomey, M., and Friedman, D.I. (2000). Charged tmRNA but not tmRNA-mediated proteolysis is essential for Neisseria gonorrhoeae viability. EMBO J. 19, 1098-1107.
-
(2000)
EMBO J.
, vol.19
, pp. 1098-1107
-
-
Huang, C.1
Wolfgang, M.C.2
Withey, J.3
Koomey, M.4
Friedman, D.I.5
-
34
-
-
20144380295
-
Staphylococcus aureus RNAIII and the endoribonuclease III coordinately regulate spa gene expression
-
Huntzinger, E., Boisset, S., Saveanu, C., Benito, Y., Geissmann, T., Namane, A., Lina, G., Etienne, J., Ehresmann, B., Ehresmann, C., et al. (2005). Staphylococcus aureus RNAIII and the endoribonuclease III coordinately regulate spa gene expression. EMBO J. 24, 824-835.
-
(2005)
EMBO J.
, vol.24
, pp. 824-835
-
-
Huntzinger, E.1
Boisset, S.2
Saveanu, C.3
Benito, Y.4
Geissmann, T.5
Namane, A.6
Lina, G.7
Etienne, J.8
Ehresmann, B.9
Ehresmann, C.10
-
35
-
-
0035355205
-
RNomics: An experimental approach that identifies 201 candidates for novel, small, non-messenger RNAs in mouse
-
Hüttenhofer, A., Kiefmann, M., Meier-Ewert, S., O'Brien, J., Lehrach, H., Bachellerie, J.P., and Brosius, J. (2001). RNomics: an experimental approach that identifies 201 candidates for novel, small, non-messenger RNAs in mouse. EMBO J. 20, 2943-2953.
-
(2001)
EMBO J.
, vol.20
, pp. 2943-2953
-
-
Hüttenhofer, A.1
Kiefmann, M.2
Meier-Ewert, S.3
O'Brien, J.4
Lehrach, H.5
Bachellerie, J.P.6
Brosius, J.7
-
36
-
-
0015884951
-
Small ribonucleic acids of Escherichia coli. 1. Characterization by polyacrylamide-gel electrophoresis and fingerprint analysis
-
Ikemura, T. and Dahlberg, J.E. (1973a). Small ribonucleic acids of Escherichia coli. 1. Characterization by polyacrylamide-gel electrophoresis and fingerprint analysis. J. Biol. Chem. 248, 5024-5032.
-
(1973)
J. Biol. Chem.
, vol.248
, pp. 5024-5032
-
-
Ikemura, T.1
Dahlberg, J.E.2
-
37
-
-
0015837290
-
Small ribonucleic acids of Escherichia coli. 2. Noncoordinate accumulation during stringent control
-
Ikemura, T. and Dahlberg, J.E. (1973b). Small ribonucleic acids of Escherichia coli. 2. Noncoordinate accumulation during stringent control. J. Biol. Chem. 248, 5033-5041.
-
(1973)
J. Biol. Chem.
, vol.248
, pp. 5033-5041
-
-
Ikemura, T.1
Dahlberg, J.E.2
-
38
-
-
0038341634
-
RNA-mediated control of virulence gene expression in bacterial pathogens
-
Johansson, J. and Cossart, P. (2003). RNA-mediated control of virulence gene expression in bacterial pathogens. Trends Microbiol. 11, 280-285.
-
(2003)
Trends Microbiol.
, vol.11
, pp. 280-285
-
-
Johansson, J.1
Cossart, P.2
-
39
-
-
0036062728
-
Molecular characterization of long direct repeat (LDR) sequences expressing a stable mRNA encoding for a 35-amino acid cell-killing peptide and a cis-encoded small antisense RNA in Escherichia coli
-
Kawano, M., Oshima, T., Kasai, H., and Mori, H. (2002). Molecular characterization of long direct repeat (LDR) sequences expressing a stable mRNA encoding for a 35-amino acid cell-killing peptide and a cis-encoded small antisense RNA in Escherichia coli. Mol. Microbiol. 45, 333-349.
-
(2002)
Mol. Microbiol.
, vol.45
, pp. 333-349
-
-
Kawano, M.1
Oshima, T.2
Kasai, H.3
Mori, H.4
-
40
-
-
14244257879
-
Detection of 5′- and 3′-UTR-derived small RNAs and cis-encoded antisense RNAs in Escherichia coli
-
Kawano, M., Reynolds, A.A., Miranda-Rios, J., and Storz, G. (2005). Detection of 5′- and 3′-UTR-derived small RNAs and cis-encoded antisense RNAs in Escherichia coli. Nucleic Acids Res. 33, 1040-1050.
-
(2005)
Nucleic Acids Res.
, vol.33
, pp. 1040-1050
-
-
Kawano, M.1
Reynolds, A.A.2
Miranda-Rios, J.3
Storz, G.4
-
41
-
-
0030024281
-
Role of a peptide tagging system in degradation of proteins synthesized from damaged messenger RNA
-
Keiler, K.C., Waller, P.R., and Sauer, R.T. (1996). Role of a peptide tagging system in degradation of proteins synthesized from damaged messenger RNA. Science 271, 990-993.
-
(1996)
Science
, vol.271
, pp. 990-993
-
-
Keiler, K.C.1
Waller, P.R.2
Sauer, R.T.3
-
42
-
-
0034608854
-
tmRNAs that encode proteolysis-inducing tags are found in all known bacterial genomes: A two-piece tmRNA functions in Caulobacter
-
USA
-
Keiler, K.C., Shapiro, L., and Williams, K.P. (2000). tmRNAs that encode proteolysis-inducing tags are found in all known bacterial genomes: a two-piece tmRNA functions in Caulobacter. Proc. Natl. Acad. Sci. USA 97, 7778-7783.
-
(2000)
Proc. Natl. Acad. Sci.
, vol.97
, pp. 7778-7783
-
-
Keiler, K.C.1
Shapiro, L.2
Williams, K.P.3
-
43
-
-
11344264898
-
Regulation of 6S RNA biogenesis by switching utilization of both sigma factors and endoribonucleases
-
Kim, K.S. and Lee, Y. (2004). Regulation of 6S RNA biogenesis by switching utilization of both sigma factors and endoribonucleases. Nucleic Acids Res. 32, 6057-6068.
-
(2004)
Nucleic Acids Res.
, vol.32
, pp. 6057-6068
-
-
Kim, K.S.1
Lee, Y.2
-
44
-
-
0037188546
-
Noncoding RNA genes identified in AT-rich hyperthermophiles
-
USA
-
Klein, R.J., Misulovin, Z., and Eddy, S.R. (2002). Noncoding RNA genes identified in AT-rich hyperthermophiles. Proc. Natl. Acad. Sci. USA 99, 7542-7547.
-
(2002)
Proc. Natl. Acad. Sci.
, vol.99
, pp. 7542-7547
-
-
Klein, R.J.1
Misulovin, Z.2
Eddy, S.R.3
-
45
-
-
0027401278
-
Eubacterial components similar to small nuclear ribonucleoproteins - Identification of immunoprecipitable proteins and capped RNAs in a cyanobacterium and a Gram-positive eubacterium
-
Kovacs, S.A., Oneil, J., Watcharapijarn, J., Moekirvan, C., Vijay, S., and Silva, V. (1993). Eubacterial components similar to small nuclear ribonucleoproteins - identification of immunoprecipitable proteins and capped RNAs in a cyanobacterium and a Gram-positive eubacterium. J. Bacteriol. 175, 1871-1878.
-
(1993)
J. Bacteriol.
, vol.175
, pp. 1871-1878
-
-
Kovacs, S.A.1
Oneil, J.2
Watcharapijarn, J.3
Moekirvan, C.4
Vijay, S.5
Silva, V.6
-
46
-
-
0035151016
-
Group A streptococcal growth phase-associated virulence factor regulation by a novel operon (Fas) with homologies to two-component-type regulators requires a small RNA molecule
-
Kreikemeyer, B., Boyle, M.D., Buttaro, B.A., Heinemann, M., and Podbielski, A. (2001). Group A streptococcal growth phase-associated virulence factor regulation by a novel operon (Fas) with homologies to two-component-type regulators requires a small RNA molecule. Mol. Microbiol. 39, 392-406.
-
(2001)
Mol. Microbiol.
, vol.39
, pp. 392-406
-
-
Kreikemeyer, B.1
Boyle, M.D.2
Buttaro, B.A.3
Heinemann, M.4
Podbielski, A.5
-
47
-
-
0035955374
-
Identification of novel genes coding for small expressed RNAs
-
Lagos-Quintana, M., Rauhut, R., Lendeckel, W., and Tuschl, T. (2001). Identification of novel genes coding for small expressed RNAs. Science 294, 853-858.
-
(2001)
Science
, vol.294
, pp. 853-858
-
-
Lagos-Quintana, M.1
Rauhut, R.2
Lendeckel, W.3
Tuschl, T.4
-
48
-
-
0035955361
-
An abundant class of tiny RNAs with probable regulatory roles in Caenorhabditis elegans
-
Lau, N.C., Lim, L.P., Weinstein, E.G., and Bartel, D.P. (2001). An abundant class of tiny RNAs with probable regulatory roles in Caenorhabditis elegans. Science 294, 858-862.
-
(2001)
Science
, vol.294
, pp. 858-862
-
-
Lau, N.C.1
Lim, L.P.2
Weinstein, E.G.3
Bartel, D.P.4
-
49
-
-
0034730125
-
A trans-acting RNA as a control switch in Escherichia coli: DsrA modulates function by forming alternative structures
-
USA
-
Lease, R.A. and Belfort, M. (2000). A trans-acting RNA as a control switch in Escherichia coli: DsrA modulates function by forming alternative structures. Proc. Natl. Acad. Sci. USA 97, 9919-9924.
-
(2000)
Proc. Natl. Acad. Sci.
, vol.97
, pp. 9919-9924
-
-
Lease, R.A.1
Belfort, M.2
-
50
-
-
0032514643
-
Riboregulation in Escherichia coli: DsrA RNA acts by RNA:RNA interactions at multiple loci
-
USA
-
Lease, R.A., Cusick, M.E., and Belfort, M. (1998). Riboregulation in Escherichia coli: DsrA RNA acts by RNA:RNA interactions at multiple loci. Proc. Natl. Acad. Sci. USA 95, 12456-12461.
-
(1998)
Proc. Natl. Acad. Sci.
, vol.95
, pp. 12456-12461
-
-
Lease, R.A.1
Cusick, M.E.2
Belfort, M.3
-
51
-
-
0035955366
-
An extensive class of small RNAs in Caenorhabditis elegans
-
Lee, R.C. and Ambros, V. (2001). An extensive class of small RNAs in Caenorhabditis elegans. Science 294, 862-864.
-
(2001)
Science
, vol.294
, pp. 862-864
-
-
Lee, R.C.1
Ambros, V.2
-
52
-
-
3142564584
-
The small RNA chaperone Hfq and multiple small RNAs control quorum sensing in Vibrio harveyi and Vibrio cholerae
-
Lenz, D.H., Mok, K.C., Lilley, B.N., Kulkarni, R.V., Wingreen, N.S., and Bassler, B.L. (2004). The small RNA chaperone Hfq and multiple small RNAs control quorum sensing in Vibrio harveyi and Vibrio cholerae. Cell 118, 69-82.
-
(2004)
Cell
, vol.118
, pp. 69-82
-
-
Lenz, D.H.1
Mok, K.C.2
Lilley, B.N.3
Kulkarni, R.V.4
Wingreen, N.S.5
Bassler, B.L.6
-
53
-
-
0030841920
-
The RNA molecule CsrB binds to the global regulatory protein CsrA and antagonizes its activity in Escherichia coli
-
Liu, M.Y., Gui, G., Wei, B., Preston, J.F. III, Oakford, L., Yuksel, U., Giedroc, D.P., and Romeo, T. (1997). The RNA molecule CsrB binds to the global regulatory protein CsrA and antagonizes its activity in Escherichia coli. J. Biol. Chem. 272, 17502-17510.
-
(1997)
J. Biol. Chem.
, vol.272
, pp. 17502-17510
-
-
Liu, M.Y.1
Gui, G.2
Wei, B.3
Preston III, J.F.4
Oakford, L.5
Yuksel, U.6
Giedroc, D.P.7
Romeo, T.8
-
54
-
-
7344251897
-
Characterization of a novel RNA regulator of Erwinia carotovora ssp. carotovora that controls production of extracellular enzymes and secondary metabolites
-
Liu, Y., Cui, Y., Mukherjee, A., and Chatterjee, A.K. (1998). Characterization of a novel RNA regulator of Erwinia carotovora ssp. carotovora that controls production of extracellular enzymes and secondary metabolites. Mol. Microbiol. 29, 219-234.
-
(1998)
Mol. Microbiol.
, vol.29
, pp. 219-234
-
-
Liu, Y.1
Cui, Y.2
Mukherjee, A.3
Chatterjee, A.K.4
-
55
-
-
0035100798
-
Molecular characterization of global regulatory RNA species that control pathogenicity factors in Erwinia amylovora and Erwinia herbicola pv. gypsophilae
-
Ma, W.L., Cui, Y., Liu, Y., Dumenyo, C.K., Mukherjee, A., and Chatterjee, A.K. (2001). Molecular characterization of global regulatory RNA species that control pathogenicity factors in Erwinia amylovora and Erwinia herbicola pv. gypsophilae. J. Bacteriol. 183, 1870-1880.
-
(2001)
J. Bacteriol.
, vol.183
, pp. 1870-1880
-
-
Ma, W.L.1
Cui, Y.2
Liu, Y.3
Dumenyo, C.K.4
Mukherjee, A.5
Chatterjee, A.K.6
-
56
-
-
0032514739
-
DsrA RNA regulates translation of RpoS message by an anti-antisense mechanism, independent of its action as an antisilencer of transcription
-
USA
-
Majdalani, N., Cunning, C., Sledjeski, D., Elliott, T., and Gottesman, S. (1998). DsrA RNA regulates translation of RpoS message by an anti-antisense mechanism, independent of its action as an antisilencer of transcription. Proc. Natl. Acad. Sci. USA 95, 12462-12467.
-
(1998)
Proc. Natl. Acad. Sci.
, vol.95
, pp. 12462-12467
-
-
Majdalani, N.1
Cunning, C.2
Sledjeski, D.3
Elliott, T.4
Gottesman, S.5
-
57
-
-
0035100582
-
Regulation of RpoS by a novel small RNA: The characterization of RprA
-
Majdalani, N., Chen, S., Murrow, J., John, K.S., and Gottesman, S. (2001). Regulation of RpoS by a novel small RNA: the characterization of RprA. Mol. Microbiol. 39, 1382-1394.
-
(2001)
Mol. Microbiol.
, vol.39
, pp. 1382-1394
-
-
Majdalani, N.1
Chen, S.2
Murrow, J.3
John, K.S.4
Gottesman, S.5
-
58
-
-
4444351650
-
Synthesis of group A streptococcal virulence factors is controlled by a regulatory RNA molecule
-
Mangold, M., Siller, M., Roppenser, B., Vlaminckx, B.J., Penfound, T.A., Klein, R., Novak, R., Novick, R.P., and Charpentier, E. (2004). Synthesis of group A streptococcal virulence factors is controlled by a regulatory RNA molecule. Mol. Microbiol. 53, 1515-1527.
-
(2004)
Mol. Microbiol.
, vol.53
, pp. 1515-1527
-
-
Mangold, M.1
Siller, M.2
Roppenser, B.3
Vlaminckx, B.J.4
Penfound, T.A.5
Klein, R.6
Novak, R.7
Novick, R.P.8
Charpentier, E.9
-
59
-
-
0036898607
-
Experimental RNomics: Identification of 140 candidates for small non-messenger RNAs in the plant Arabidopsis thaliana
-
Marker, C., Zemann, A., Terhorst, T., Kiefmann, M., Kastenmayer, J.P., Green, P., Bachellerie, J.P., Brosius, J., and Hüttenhofer, A. (2002). Experimental RNomics: identification of 140 candidates for small non-messenger RNAs in the plant Arabidopsis thaliana. Curr. Biol. 12, 2002-2013.
-
(2002)
Curr. Biol.
, vol.12
, pp. 2002-2013
-
-
Marker, C.1
Zemann, A.2
Terhorst, T.3
Kiefmann, M.4
Kastenmayer, J.P.5
Green, P.6
Bachellerie, J.P.7
Brosius, J.8
Hüttenhofer, A.9
-
60
-
-
0037007078
-
A small RNA regulates the expression of genes involved in iron metabolism in Escherichia coli
-
USA
-
Massé, E. and Gottesman, S. (2002). A small RNA regulates the expression of genes involved in iron metabolism in Escherichia coli. Proc. Natl. Acad. Sci. USA 99, 4620-4625.
-
(2002)
Proc. Natl. Acad. Sci.
, vol.99
, pp. 4620-4625
-
-
Massé, E.1
Gottesman, S.2
-
61
-
-
0141860088
-
Coupled degradation of a small regulatory RNA and its mRNA targets in Escherichia coli
-
Massé, E., Escorcia, F.E., and Gottesman, S. (2003). Coupled degradation of a small regulatory RNA and its mRNA targets in Escherichia coli. Genes Dev. 17, 2374-2383.
-
(2003)
Genes Dev.
, vol.17
, pp. 2374-2383
-
-
Massé, E.1
Escorcia, F.E.2
Gottesman, S.3
-
62
-
-
0035195942
-
Non-coding RNAs: The architects of eukaryotic complexity
-
Mattick, J.S. (2001). Non-coding RNAs: the architects of eukaryotic complexity. EMBO Rep. 2, 986-991.
-
(2001)
EMBO Rep.
, vol.2
, pp. 986-991
-
-
Mattick, J.S.1
-
63
-
-
0034882101
-
The evolution of controlled multitasked gene networks: The role of introns and other non-coding RNAs in the development of complex organisms
-
Mattick, J.S. and Gagen, M.J. (2001). The evolution of controlled multitasked gene networks: the role of introns and other non-coding RNAs in the development of complex organisms. Mol. Biol. Evol. 18, 1611-1630.
-
(2001)
Mol. Biol. Evol.
, vol.18
, pp. 1611-1630
-
-
Mattick, J.S.1
Gagen, M.J.2
-
64
-
-
18744396047
-
Sensing small molecules by nascent RNA: A mechanism to control transcription in bacteria
-
Mironov, A.S., Gusarov, I., Rafikov, R., Lopez, L.E., Shatalin, K., Kreneva, R.A., Perumov, D.A., and Nudler, E. (2002). Sensing small molecules by nascent RNA: a mechanism to control transcription in bacteria. Cell 111, 747-756.
-
(2002)
Cell
, vol.111
, pp. 747-756
-
-
Mironov, A.S.1
Gusarov, I.2
Rafikov, R.3
Lopez, L.E.4
Shatalin, K.5
Kreneva, R.A.6
Perumov, D.A.7
Nudler, E.8
-
65
-
-
85015766937
-
Regulation of gene expression by a small RNA transcript (MicRNA) in Escherichia coli K-12
-
Mizuno, T., Chou, M.Y., and Inouye, M. (1983). Regulation of gene expression by a small RNA transcript (MicRNA) in Escherichia coli K-12. Proc. Jpn. Acad. Ser. B Phys. Biol. Sci. 59, 335-338.
-
(1983)
Proc. Jpn. Acad. Ser. B Phys. Biol. Sci.
, vol.59
, pp. 335-338
-
-
Mizuno, T.1
Chou, M.Y.2
Inouye, M.3
-
66
-
-
0344363037
-
A unique mechanism regulating gene expression - Translational inhibition by a complementary RNA transcript (micRNA)
-
USA
-
Mizuno, T., Chou, M.Y., and Inouye, M. (1984). A unique mechanism regulating gene expression - translational inhibition by a complementary RNA transcript (micRNA). Proc. Natl. Acad. Sci. USA 81, 1966-1970.
-
(1984)
Proc. Natl. Acad. Sci.
, vol.81
, pp. 1966-1970
-
-
Mizuno, T.1
Chou, M.Y.2
Inouye, M.3
-
67
-
-
0036645490
-
Spot 42 RNA mediates discoordinate expression of the E. coli galactose operon
-
Møller, T., Franch, T., Udesen, C., Gerdes, K., and Valentin-Hansen, P. (2002). Spot 42 RNA mediates discoordinate expression of the E. coli galactose operon. Genes Dev. 16, 1696-1706.
-
(2002)
Genes Dev.
, vol.16
, pp. 1696-1706
-
-
Møller, T.1
Franch, T.2
Udesen, C.3
Gerdes, K.4
Valentin-Hansen, P.5
-
68
-
-
0029897937
-
The RNA-binding protein HF-1, known as a host factor for phage Qb RNA replication, is essential for rpoS translation in Escherichia coli
-
Muffler, A., Fischer, D., and Hengge-Aronis, R. (1996). The RNA-binding protein HF-1, known as a host factor for phage Qb RNA replication, is essential for rpoS translation in Escherichia coli. Genes Dev. 10, 1143-1151.
-
(1996)
Genes Dev.
, vol.10
, pp. 1143-1151
-
-
Muffler, A.1
Fischer, D.2
Hengge-Aronis, R.3
-
69
-
-
0027180031
-
Synthesis of staphylococcal virulence factors is controlled by a regulatory RNA molecule
-
Novick, R.P., Ross, H.F., Projan, S.J., Kornblum, J., Kreiswirth, B., and Moghazeh, S. (1993). Synthesis of staphylococcal virulence factors is controlled by a regulatory RNA molecule. EMBO J. 12, 3967-3975.
-
(1993)
EMBO J.
, vol.12
, pp. 3967-3975
-
-
Novick, R.P.1
Ross, H.F.2
Projan, S.J.3
Kornblum, J.4
Kreiswirth, B.5
Moghazeh, S.6
-
70
-
-
0035982906
-
GeneChip expression analysis of the iron starvation response in Pseudomonas aeruginosa: Identification of novel pyoverdine biosynthesis genes
-
Ochsner, U.A., Wilderman, P.J., Vasil, A.I., and Vasil, M.L. (2002). GeneChip expression analysis of the iron starvation response in Pseudomonas aeruginosa: identification of novel pyoverdine biosynthesis genes. Mol. Microbiol. 45, 1277-1287.
-
(2002)
Mol. Microbiol.
, vol.45
, pp. 1277-1287
-
-
Ochsner, U.A.1
Wilderman, P.J.2
Vasil, A.I.3
Vasil, M.L.4
-
71
-
-
4944264194
-
GadY, a small-RNA regulator of acid response genes in Escherichia coli
-
Opdyke, J.A., Kang, J.G., and Storz, G. (2004). GadY, a small-RNA regulator of acid response genes in Escherichia coli. J. Bacteriol. 186, 6698-6705.
-
(2004)
J. Bacteriol.
, vol.186
, pp. 6698-6705
-
-
Opdyke, J.A.1
Kang, J.G.2
Storz, G.3
-
72
-
-
10044298389
-
The etiological agent of Lyme disease, Borrelia burgdorferi, appears to contain only a few small RNA molecules
-
Östberg, Y., Bunikis, I., Bergström, S., and Johansson, J. (2004). The etiological agent of Lyme disease, Borrelia burgdorferi, appears to contain only a few small RNA molecules. J. Bacteriol. 186, 8472-8477.
-
(2004)
J. Bacteriol.
, vol.186
, pp. 8472-8477
-
-
Östberg, Y.1
Bunikis, I.2
Bergström, S.3
Johansson, J.4
-
73
-
-
0033036731
-
Multiple hok genes on the chromosome of Escherichia coli
-
Pedersen, K. and Gerdes, K. (1999). Multiple hok genes on the chromosome of Escherichia coli. Mol. Microbiol. 32, 1090-1102.
-
(1999)
Mol. Microbiol.
, vol.32
, pp. 1090-1102
-
-
Pedersen, K.1
Gerdes, K.2
-
74
-
-
0141850376
-
Intergenic sequence inspector: Searching and identifying bacterial RNAs
-
Pichon, C. and Felden, B. (2003). Intergenic sequence inspector: searching and identifying bacterial RNAs. Bioinformatics 19, 1707-1709.
-
(2003)
Bioinformatics
, vol.19
, pp. 1707-1709
-
-
Pichon, C.1
Felden, B.2
-
75
-
-
0025605808
-
An E. coli ribonucleoprotein containing 4.5S RNA resembles mammalian signal recognition particle
-
Poritz, M.A., Bernstein, H.D., Strub, K., Zopf, D., Wilhelm, H., and Walter, P. (1990). An E. coli ribonucleoprotein containing 4.5S RNA resembles mammalian signal recognition particle. Science 250, 1111-1117.
-
(1990)
Science
, vol.250
, pp. 1111-1117
-
-
Poritz, M.A.1
Bernstein, H.D.2
Strub, K.3
Zopf, D.4
Wilhelm, H.5
Walter, P.6
-
76
-
-
0025009469
-
E. coli 4.5S RNA is part of a ribonucleoprotein particle that has properties related to signal recognition particle
-
Ribes, V., Romisch, K., Giner, A., Dobberstein, B., and Tollervey, D. (1990). E. coli 4.5S RNA is part of a ribonucleoprotein particle that has properties related to signal recognition particle. Cell 63, 591-600.
-
(1990)
Cell
, vol.63
, pp. 591-600
-
-
Ribes, V.1
Romisch, K.2
Giner, A.3
Dobberstein, B.4
Tollervey, D.5
-
77
-
-
0033765362
-
Secondary structure alone is generally not statistically significant for the detection of non-coding RNAs
-
Rivas, E. and Eddy, S.R. (2000). Secondary structure alone is generally not statistically significant for the detection of non-coding RNAs. Bioinformatics 16, 583-605.
-
(2000)
Bioinformatics
, vol.16
, pp. 583-605
-
-
Rivas, E.1
Eddy, S.R.2
-
78
-
-
0035806973
-
Computational identification of noncoding RNAs in E. coli by comparative genomics
-
Rivas, E., Klein, R.J., Jones, T.A., and Eddy, S.R. (2001). Computational identification of noncoding RNAs in E. coli by comparative genomics. Curr. Biol. 11, 1369-1373.
-
(2001)
Curr. Biol.
, vol.11
, pp. 1369-1373
-
-
Rivas, E.1
Klein, R.J.2
Jones, T.A.3
Eddy, S.R.4
-
79
-
-
2242446202
-
Comparative genomics of thiamin biosynthesis in procaryotes. New genes and regulatory mechanisms
-
Rodionov, D.A., Vitreschak, A.G., Mironov, A.A., and Gelfand, M.S. (2002). Comparative genomics of thiamin biosynthesis in procaryotes. New genes and regulatory mechanisms. J. Biol. Chem. 277, 48949-48959.
-
(2002)
J. Biol. Chem.
, vol.277
, pp. 48949-48959
-
-
Rodionov, D.A.1
Vitreschak, A.G.2
Mironov, A.A.3
Gelfand, M.S.4
-
80
-
-
0031697252
-
Global regulation by the small RNA-binding protein CsrA and the non-coding RNA molecule CsrB
-
Romeo, T. (1998). Global regulation by the small RNA-binding protein CsrA and the non-coding RNA molecule CsrB. Mol. Microbiol. 29, 1321-1330.
-
(1998)
Mol. Microbiol.
, vol.29
, pp. 1321-1330
-
-
Romeo, T.1
-
81
-
-
0025880910
-
A simple method for cloning genes involved in glucan biosynthesis: Isolation of structural and regulatory genes for glycogen synthesis in Escherichia coli
-
Romeo, T., Moore, J., and Smith, J. (1991). A simple method for cloning genes involved in glucan biosynthesis: isolation of structural and regulatory genes for glycogen synthesis in Escherichia coli. Gene 108, 23-29.
-
(1991)
Gene
, vol.108
, pp. 23-29
-
-
Romeo, T.1
Moore, J.2
Smith, J.3
-
82
-
-
20444495294
-
Predicting non-coding RNA genes in Escherichia coli with boosted genetic programming
-
Saetrom, P., Sneve, R., Kristiansen, K.I., Snøve, O. Jr., Grünfeld, T., Rognes, T., and Seeberg, E. (2005). Predicting non-coding RNA genes in Escherichia coli with boosted genetic programming. Nucleic Acids Res. 33, 3263-3270.
-
(2005)
Nucleic Acids Res.
, vol.33
, pp. 3263-3270
-
-
Saetrom, P.1
Sneve, R.2
Kristiansen, K.I.3
Snøve Jr., O.4
Grünfeld, T.5
Rognes, T.6
Seeberg, E.7
-
83
-
-
0036567632
-
Searching for RNA genes using base-composition statistics
-
Schattner, P. (2002). Searching for RNA genes using base-composition statistics. Nucleic Acids Res. 30, 2076-2082.
-
(2002)
Nucleic Acids Res.
, vol.30
, pp. 2076-2082
-
-
Schattner, P.1
-
84
-
-
0033664358
-
RNA expression analysis using a 30 base pair resolution Escherichia coli genome array
-
Selinger, D.W., Cheung, K.J., Mei, R., Johansson, E.M., Richmond, C.S., Blattner, F.R., Lockhart, D.J., and Church, G.M. (2000). RNA expression analysis using a 30 base pair resolution Escherichia coli genome array. Nat. Biotechnol. 18, 1262-1268.
-
(2000)
Nat. Biotechnol.
, vol.18
, pp. 1262-1268
-
-
Selinger, D.W.1
Cheung, K.J.2
Mei, R.3
Johansson, E.M.4
Richmond, C.S.5
Blattner, F.R.6
Lockhart, D.J.7
Church, G.M.8
-
85
-
-
0036194029
-
Clostridial VirR/VirS regulon involves a regulatory RNA molecule for expression of toxins
-
Shimizu, T., Yaguchi, H., Ohtani, K., Banu, S., and Hayashi, H. (2002). Clostridial VirR/VirS regulon involves a regulatory RNA molecule for expression of toxins. Mol. Microbiol. 43, 257-265.
-
(2002)
Mol. Microbiol.
, vol.43
, pp. 257-265
-
-
Shimizu, T.1
Yaguchi, H.2
Ohtani, K.3
Banu, S.4
Hayashi, H.5
-
86
-
-
0030748055
-
Libraries for genomic SELEX
-
Singer, B.S., Shtatland, T., Brown, D., and Gold, L. (1997). Libraries for genomic SELEX. Nucleic Acids Res. 25, 781-786.
-
(1997)
Nucleic Acids Res.
, vol.25
, pp. 781-786
-
-
Singer, B.S.1
Shtatland, T.2
Brown, D.3
Gold, L.4
-
87
-
-
0028957883
-
A small RNA acts as an antisilencer of the H-NS-silenced rcsA gene of Escherichia coli
-
USA
-
Sledjeski, D. and Gottesman, S. (1995). A small RNA acts as an antisilencer of the H-NS-silenced rcsA gene of Escherichia coli. Proc. Natl. Acad. Sci. USA 92, 2003-2007.
-
(1995)
Proc. Natl. Acad. Sci.
, vol.92
, pp. 2003-2007
-
-
Sledjeski, D.1
Gottesman, S.2
-
88
-
-
0029739317
-
The small RNA, DsrA, is essential for the low temperature expression of RpoS during exponential growth in Escherichia coli
-
Sledjeski, D.D., Gupta, A., and Gottesman, S. (1996). The small RNA, DsrA, is essential for the low temperature expression of RpoS during exponential growth in Escherichia coli. EMBO J. 15, 3993-4000.
-
(1996)
EMBO J.
, vol.15
, pp. 3993-4000
-
-
Sledjeski, D.D.1
Gupta, A.2
Gottesman, S.3
-
89
-
-
0035104707
-
Hfq is necessary for regulation by the untranslated RNA DsrA
-
Sledjeski, D.D., Whitman, C., and Zhang, A. (2001). Hfq is necessary for regulation by the untranslated RNA DsrA. J. Bacteriol. 183, 1997-2005.
-
(2001)
J. Bacteriol.
, vol.183
, pp. 1997-2005
-
-
Sledjeski, D.D.1
Whitman, C.2
Zhang, A.3
-
90
-
-
0141681868
-
Reduced virulence of a hfq mutant of Pseudomonas aeruginosa O1
-
Sonnleitner, E., Hagens, S., Rosenau, F., Wilhelm, S., Habel, A., Jager, K.E., and Bläsi, U. (2003). Reduced virulence of a hfq mutant of Pseudomonas aeruginosa O1. Microb. Pathog. 35, 217-228.
-
(2003)
Microb. Pathog.
, vol.35
, pp. 217-228
-
-
Sonnleitner, E.1
Hagens, S.2
Rosenau, F.3
Wilhelm, S.4
Habel, A.5
Jager, K.E.6
Bläsi, U.7
-
91
-
-
0017855369
-
Ribonuclease P: An enzyme with an essential RNA component
-
USA
-
Stark, B.C., Kole, R., Bowman, E.J., and Altman, S. (1978). Ribonuclease P: an enzyme with an essential RNA component. Proc. Natl. Acad. Sci. USA 75, 3717-3721.
-
(1978)
Proc. Natl. Acad. Sci.
, vol.75
, pp. 3717-3721
-
-
Stark, B.C.1
Kole, R.2
Bowman, E.J.3
Altman, S.4
-
92
-
-
1842453716
-
Controlling mRNA stability and translation with small, noncoding RNAs
-
Storz, G., Opdyke, J.A., and Zhang, A.X. (2004). Controlling mRNA stability and translation with small, noncoding RNAs. Curr. Opin. Microbiol. 7, 140-144.
-
(2004)
Curr. Opin. Microbiol.
, vol.7
, pp. 140-144
-
-
Storz, G.1
Opdyke, J.A.2
Zhang, A.X.3
-
93
-
-
0036667443
-
Identification and characterization of novel small RNAs in the aspS-yrvM intergenic region of the Bacillus subtilis genome
-
Suzuma, S., Asari, S., Bunai, K., Yoshino, K., Ando, Y., Kakeshita, H., Rujita, M., Nakamura, K., and Yamane, K. (2002). Identification and characterization of novel small RNAs in the aspS-yrvM intergenic region of the Bacillus subtilis genome. Microbiology 148, 2591-2598.
-
(2002)
Microbiology
, vol.148
, pp. 2591-2598
-
-
Suzuma, S.1
Asari, S.2
Bunai, K.3
Yoshino, K.4
Ando, Y.5
Kakeshita, H.6
Rujita, M.7
Nakamura, K.8
Yamane, K.9
-
94
-
-
0037188531
-
Identification of 86 candidates for small non-messenger RNAs from the archaeon Archaeoglobus fulgidus
-
USA
-
Tang, T.H., Bachellerie, J.P., Rozhdestvensky, T., Bortolin, M.L., Huber, H., Drungowski, M., Elge, T., Brosius, J., and Hüttenhofer, A. (2002). Identification of 86 candidates for small non-messenger RNAs from the archaeon Archaeoglobus fulgidus. Proc. Natl. Acad. Sci. USA 99, 7536-7541.
-
(2002)
Proc. Natl. Acad. Sci.
, vol.99
, pp. 7536-7541
-
-
Tang, T.H.1
Bachellerie, J.P.2
Rozhdestvensky, T.3
Bortolin, M.L.4
Huber, H.5
Drungowski, M.6
Elge, T.7
Brosius, J.8
Hüttenhofer, A.9
-
95
-
-
13144269598
-
Identification of novel non-coding RNAs as potential antisense regulators in the archaeon Sulfolobus solfataricus
-
Tang, T.H., Polacek, N., Zywicki, M., Huber, H., Brugger, K., Garrett, R., Bachellerie, J.P., and Hüttenhofer, A. (2005). Identification of novel non-coding RNAs as potential antisense regulators in the archaeon Sulfolobus solfataricus. Mol. Microbiol. 55, 469-481.
-
(2005)
Mol. Microbiol.
, vol.55
, pp. 469-481
-
-
Tang, T.H.1
Polacek, N.2
Zywicki, M.3
Huber, H.4
Brugger, K.5
Garrett, R.6
Bachellerie, J.P.7
Hüttenhofer, A.8
-
96
-
-
0027968068
-
CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice
-
Thompson, J.D., Higgins, D.G., and Gibson, T.J. (1994). CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res. 22, 4673-4680.
-
(1994)
Nucleic Acids Res.
, vol.22
, pp. 4673-4680
-
-
Thompson, J.D.1
Higgins, D.G.2
Gibson, T.J.3
-
97
-
-
0036713509
-
Transcriptome analysis of Escherichia coli using high-density oligonucleotide probe arrays
-
Tjaden, B., Saxena, R.M., Stolyar, S., Haynor, D.R., Kolker, E., and Rosenow, C. (2002). Transcriptome analysis of Escherichia coli using high-density oligonucleotide probe arrays. Nucleic Acids Res. 30, 3732-3738.
-
(2002)
Nucleic Acids Res.
, vol.30
, pp. 3732-3738
-
-
Tjaden, B.1
Saxena, R.M.2
Stolyar, S.3
Haynor, D.R.4
Kolker, E.5
Rosenow, C.6
-
98
-
-
3242807381
-
6S RNA function enhances long-term cell survival
-
Trotochaud, A.E. and Wassarman, K.M. (2004). 6S RNA function enhances long-term cell survival. J. Bacteriol. 186, 4978-4985.
-
(2004)
J. Bacteriol.
, vol.186
, pp. 4978-4985
-
-
Trotochaud, A.E.1
Wassarman, K.M.2
-
99
-
-
18344371528
-
A highly conserved 6S RNA structure is required for regulation of transcription
-
Trotochaud, A.E. and Wassarman, K.M. (2005). A highly conserved 6S RNA structure is required for regulation of transcription. Nat. Struct. Mol. Biol. 12, 313-319.
-
(2005)
Nat. Struct. Mol. Biol.
, vol.12
, pp. 313-319
-
-
Trotochaud, A.E.1
Wassarman, K.M.2
-
100
-
-
25844458478
-
Hfq-dependent regulation of OmpA synthesis is mediated by an antisense RNA
-
Udekwu, K.I., Darfeuille, F., Vogel, J., Reimegård, J., Holmqvist, E., and Wagner, E.G.H. (2005). Hfq-dependent regulation of OmpA synthesis is mediated by an antisense RNA. Genes Dev. 19, 2355-2366.
-
(2005)
Genes Dev.
, vol.19
, pp. 2355-2366
-
-
Udekwu, K.I.1
Darfeuille, F.2
Vogel, J.3
Reimegård, J.4
Holmqvist, E.5
Wagner, E.G.H.6
-
101
-
-
0031472242
-
The E. coli signal recognition particle is required for the insertion of a subset of inner membrane proteins
-
Ulbrandt, N.D., Newitt, J.A., and Bernstein, H.D. (1997). The E. coli signal recognition particle is required for the insertion of a subset of inner membrane proteins. Cell 88, 187-196.
-
(1997)
Cell
, vol.88
, pp. 187-196
-
-
Ulbrandt, N.D.1
Newitt, J.A.2
Bernstein, H.D.3
-
102
-
-
1642565815
-
The bacterial Sm-like protein Hfq: A key player in RNA transactions
-
Valentin-Hansen, P., Eriksen, M., and Udesen, C. (2004). The bacterial Sm-like protein Hfq: a key player in RNA transactions. Mol. Microbiol. 51, 1525-1533.
-
(2004)
Mol. Microbiol.
, vol.51
, pp. 1525-1533
-
-
Valentin-Hansen, P.1
Eriksen, M.2
Udesen, C.3
-
103
-
-
0344394978
-
RsmY, a small regulatory RNA, is required in concert with RsmZ for GacA-dependent expression of biocontrol traits in Pseudomonas fluorescens CHA0
-
Valverde, C., Heeb, S., Keel, C., and Haas, D. (2003). RsmY, a small regulatory RNA, is required in concert with RsmZ for GacA-dependent expression of biocontrol traits in Pseudomonas fluorescens CHA0. Mol. Microbiol. 50, 1361-1379.
-
(2003)
Mol. Microbiol.
, vol.50
, pp. 1361-1379
-
-
Valverde, C.1
Heeb, S.2
Keel, C.3
Haas, D.4
-
104
-
-
2942597578
-
A repeated GGA motif is critical for the activity and stability of the riboregulator RsmY of Pseudomonas fluorescens
-
Valverde, C., Lindell, M., Wagner, E.G.H., and Haas, D. (2004). A repeated GGA motif is critical for the activity and stability of the riboregulator RsmY of Pseudomonas fluorescens. J. Biol. Chem. 279, 25066-25074.
-
(2004)
J. Biol. Chem.
, vol.279
, pp. 25066-25074
-
-
Valverde, C.1
Lindell, M.2
Wagner, E.G.H.3
Haas, D.4
-
105
-
-
8544271637
-
Involvement of a novel transcriptional activator and small RNA in post-transcriptional regulation of the glucose phosphoenolpyruvate phosphotransferase system
-
Vanderpool, C.K. and Gottesman, S. (2004). Involvement of a novel transcriptional activator and small RNA in post-transcriptional regulation of the glucose phosphoenolpyruvate phosphotransferase system. Mol. Microbiol. 54, 1076-1089.
-
(2004)
Mol. Microbiol.
, vol.54
, pp. 1076-1089
-
-
Vanderpool, C.K.1
Gottesman, S.2
-
106
-
-
0037100667
-
Regulation of riboflavin biosynthesis and transport genes in bacteria by transcriptional and translational attenuation
-
Vitreschak, A.G., Rodionov, D.A., Mironov, A.A., and Gelfand, M.S. (2002). Regulation of riboflavin biosynthesis and transport genes in bacteria by transcriptional and translational attenuation. Nucleic Acids Res. 30, 3141-3151.
-
(2002)
Nucleic Acids Res.
, vol.30
, pp. 3141-3151
-
-
Vitreschak, A.G.1
Rodionov, D.A.2
Mironov, A.A.3
Gelfand, M.S.4
-
107
-
-
29044442884
-
RNA mining
-
R. Hartmann, R. Bindereif, A. Schön, and E. Westhof, eds. (Weinheim, Germany: Wiley-VCH)
-
Vogel, J. and Wagner, E.G.H. (2005). RNA mining. In: Handbook of RNA Biochemistry, R. Hartmann, R. Bindereif, A. Schön, and E. Westhof, eds. (Weinheim, Germany: Wiley-VCH), pp. 595-613.
-
(2005)
Handbook of RNA Biochemistry
, pp. 595-613
-
-
Vogel, J.1
Wagner, E.G.H.2
-
108
-
-
0344237410
-
RNomics in Escherichia coli detects new sRNA species and indicates parallel transcriptional output in bacteria
-
Vogel, J., Bartels, V., Tang, T.H., Churakov, G., Slagter-Jäger, J.G., Hüttenhofer, A., and Wagner, E.G.H. (2003). RNomics in Escherichia coli detects new sRNA species and indicates parallel transcriptional output in bacteria. Nucleic Acids Res. 31, 6435-6443.
-
(2003)
Nucleic Acids Res.
, vol.31
, pp. 6435-6443
-
-
Vogel, J.1
Bartels, V.2
Tang, T.H.3
Churakov, G.4
Slagter-Jäger, J.G.5
Hüttenhofer, A.6
Wagner, E.G.H.7
-
109
-
-
11144310172
-
The small RNA IstR inhibits synthesis of an SOS-induced toxic peptide
-
Vogel, J., Argaman, L., Wagner, E.G.H., and Altuvia, S. (2004). The small RNA IstR inhibits synthesis of an SOS-induced toxic peptide. Curr. Biol. 14, 2271-2276.
-
(2004)
Curr. Biol.
, vol.14
, pp. 2271-2276
-
-
Vogel, J.1
Argaman, L.2
Wagner, E.G.H.3
Altuvia, S.4
-
110
-
-
0344494922
-
Noncoding RNAs encoded by bacterial chromosomes
-
J. Barciszewski and V. Erdmann, eds. (Georgetown, TX, USA: Landes Bioscience)
-
Wagner, E.G.H. and Vogel, J. (2003). Noncoding RNAs encoded by bacterial chromosomes. In: Noncoding RNAs, J. Barciszewski and V. Erdmann, eds. (Georgetown, TX, USA: Landes Bioscience), pp. 243-259.
-
(2003)
Noncoding RNAs
, pp. 243-259
-
-
Wagner, E.G.H.1
Vogel, J.2
-
111
-
-
0036371843
-
Antisense RNAs in bacteria and their genetic elements
-
Wagner, E.G.H., Altuvia, S., and Romby, P. (2002). Antisense RNAs in bacteria and their genetic elements. Adv. Genet. 46, 361-398.
-
(2002)
Adv. Genet.
, vol.46
, pp. 361-398
-
-
Wagner, E.G.H.1
Altuvia, S.2
Romby, P.3
-
112
-
-
4143149651
-
Consensus folding of aligned sequences as a new measure for the detection of functional RNAs by comparative genomics
-
Washietl, S. and Hofacker, I.L. (2004). Consensus folding of aligned sequences as a new measure for the detection of functional RNAs by comparative genomics. J. Mol. Biol. 342, 19-30.
-
(2004)
J. Mol. Biol.
, vol.342
, pp. 19-30
-
-
Washietl, S.1
Hofacker, I.L.2
-
113
-
-
14044272835
-
Fast and reliable prediction of noncoding RNAs
-
USA
-
Washietl, S., Hofacker, I.L., and Stadler, P.F. (2005). Fast and reliable prediction of noncoding RNAs. Proc. Natl. Acad. Sci. USA 102, 2454-2459.
-
(2005)
Proc. Natl. Acad. Sci.
, vol.102
, pp. 2454-2459
-
-
Washietl, S.1
Hofacker, I.L.2
Stadler, P.F.3
-
114
-
-
0034625237
-
6S RNA regulates E. coli RNA polymerase activity
-
Wassarman, K.M. and Storz, G. (2000). 6S RNA regulates E. coli RNA polymerase activity. Cell 101, 613-623.
-
(2000)
Cell
, vol.101
, pp. 613-623
-
-
Wassarman, K.M.1
Storz, G.2
-
115
-
-
0033012192
-
Small RNAs in Escherichia coli
-
Wassarman, K.M., Zhang, A., and Storz, G. (1999). Small RNAs in Escherichia coli. Trends Microbiol. 7, 37-45.
-
(1999)
Trends Microbiol.
, vol.7
, pp. 37-45
-
-
Wassarman, K.M.1
Zhang, A.2
Storz, G.3
-
116
-
-
0035395606
-
Identification of novel small RNAs using comparative genomics and microarrays
-
Wassarman, K.M., Repoila, F., Rosenow, C., Storz, G., and Gottesman, S. (2001). Identification of novel small RNAs using comparative genomics and microarrays. Genes Dev. 15, 1637-1651.
-
(2001)
Genes Dev.
, vol.15
, pp. 1637-1651
-
-
Wassarman, K.M.1
Repoila, F.2
Rosenow, C.3
Storz, G.4
Gottesman, S.5
-
117
-
-
0030695907
-
A novel small stable RNA, 6Sa RNA, from the cyanobacterium Synechococcus sp. strain PCC6301
-
Watanabe, T., Sugiura, R., and Sugita, M. (1997). A novel small stable RNA, 6Sa RNA, from the cyanobacterium Synechococcus sp. strain PCC6301. FEBS Lett. 416, 302-306.
-
(1997)
FEBS Lett.
, vol.416
, pp. 302-306
-
-
Watanabe, T.1
Sugiura, R.2
Sugita, M.3
-
118
-
-
0032481628
-
Identification of 10Sa RNA (tmRNA) homologues from the cyanobacterium Synechococcus sp. strain PCC6301 and related organisms
-
Watanabe, T., Sugita, M., and Sugiura, M. (1998). Identification of 10Sa RNA (tmRNA) homologues from the cyanobacterium Synechococcus sp. strain PCC6301 and related organisms. Biochim. Biophys. Acta 1396, 97-104.
-
(1998)
Biochim. Biophys. Acta
, vol.1396
, pp. 97-104
-
-
Watanabe, T.1
Sugita, M.2
Sugiura, M.3
-
119
-
-
0037899184
-
A novel sRNA component of the carbon storage regulatory system of Escherichia coli
-
Weilbacher, T., Suzuki, K., Dubey, A.K., Wang, X., Gudapaty, S., Morozov, I., Baker, C.S., Georgellis, D., Babitzke, P., and Romeo, T. (2003). A novel sRNA component of the carbon storage regulatory system of Escherichia coli. Mol. Microbiol. 48, 657-670.
-
(2003)
Mol. Microbiol.
, vol.48
, pp. 657-670
-
-
Weilbacher, T.1
Suzuki, K.2
Dubey, A.K.3
Wang, X.4
Gudapaty, S.5
Morozov, I.6
Baker, C.S.7
Georgellis, D.8
Babitzke, P.9
Romeo, T.10
-
120
-
-
3042840984
-
Identification of tandem duplicate regulatory small RNAs in Pseudomonas aeruginosa involved in iron homeostasis
-
USA
-
Wilderman, P.J., Sowa, N.A., FitzGerald, D.J., FitzGerald, P.C., Gottesman, S., Ochsner, U.A., and Vasil, M.L. (2004). Identification of tandem duplicate regulatory small RNAs in Pseudomonas aeruginosa involved in iron homeostasis. Proc. Natl. Acad. Sci. USA 101, 9792-9797.
-
(2004)
Proc. Natl. Acad. Sci.
, vol.101
, pp. 9792-9797
-
-
Wilderman, P.J.1
Sowa, N.A.2
FitzGerald, D.J.3
FitzGerald, P.C.4
Gottesman, S.5
Ochsner, U.A.6
Vasil, M.L.7
-
121
-
-
17144365857
-
Experimental RNomics in Aquifex aeolicus: Identification of small non-coding RNAs and the putative 6S RNA homolog
-
Willkomm, D.K., Minnerup, J., Hüttenhofer, A., and Hartmann, R.K. (2005). Experimental RNomics in Aquifex aeolicus: identification of small non-coding RNAs and the putative 6S RNA homolog. Nucleic Acids Res. 33, 1949-1960.
-
(2005)
Nucleic Acids Res.
, vol.33
, pp. 1949-1960
-
-
Willkomm, D.K.1
Minnerup, J.2
Hüttenhofer, A.3
Hartmann, R.K.4
-
122
-
-
0037206833
-
Thiamine derivatives bind messenger RNAs directly to regulate bacterial gene expression
-
Winkler, W., Nahvi, A., and Breaker, R.R. (2002). Thiamine derivatives bind messenger RNAs directly to regulate bacterial gene expression. Nature 419, 952-956.
-
(2002)
Nature
, vol.419
, pp. 952-956
-
-
Winkler, W.1
Nahvi, A.2
Breaker, R.R.3
-
123
-
-
0141531996
-
Purification and characterization of three members of the photolyase/cryptochrome family blue-light photoreceptors from Vibrio cholerae
-
Worthington, E.N., Kavakli, I.H., Berrocal-Tito, G., Bondo, B.E., and Sancar, A. (2003). Purification and characterization of three members of the photolyase/cryptochrome family blue-light photoreceptors from Vibrio cholerae. J. Biol. Chem. 278, 39143-39154.
-
(2003)
J. Biol. Chem.
, vol.278
, pp. 39143-39154
-
-
Worthington, E.N.1
Kavakli, I.H.2
Berrocal-Tito, G.3
Bondo, B.E.4
Sancar, A.5
-
124
-
-
0038719826
-
RNomics in Drosophila melanogaster: Identification of 66 candidates for novel non-messenger RNAs
-
Yuan, G.Z., Klambt, C., Bachellerie, J.P., Brosius, J., and Hüttenhofer, A. (2003). RNomics in Drosophila melanogaster: identification of 66 candidates for novel non-messenger RNAs. Nucleic Acids Res. 31, 2495-2507.
-
(2003)
Nucleic Acids Res.
, vol.31
, pp. 2495-2507
-
-
Yuan, G.Z.1
Klambt, C.2
Bachellerie, J.P.3
Brosius, J.4
Hüttenhofer, A.5
-
125
-
-
0032531904
-
The OxyS regulatory RNA represses rpoS translation and binds the Hfq (HF-I) protein
-
Zhang, A., Altuvia, S., Tiwari, A., Argaman, L., Hengge-Aronis, R., and Storz, G. (1998). The OxyS regulatory RNA represses rpoS translation and binds the Hfq (HF-I) protein. EMBO J. 17, 6061-6068.
-
(1998)
EMBO J.
, vol.17
, pp. 6061-6068
-
-
Zhang, A.1
Altuvia, S.2
Tiwari, A.3
Argaman, L.4
Hengge-Aronis, R.5
Storz, G.6
-
126
-
-
0141644746
-
Global analysis of small RNA and mRNA targets of Hfq
-
Zhang, A., Wassarman, K.M., Rosenow, C., Tjaden, B.C., Storz, G., and Gottesman, S. (2003). Global analysis of small RNA and mRNA targets of Hfq. Mol. Microbiol. 50, 1111-1124.
-
(2003)
Mol. Microbiol.
, vol.50
, pp. 1111-1124
-
-
Zhang, A.1
Wassarman, K.M.2
Rosenow, C.3
Tjaden, B.C.4
Storz, G.5
Gottesman, S.6
-
127
-
-
1842612028
-
Conservation analysis of small RNA genes in Escherichia coli
-
Zhang, Y., Zhang, Z., Ling, L., Shi, B., and Chen, R. (2004). Conservation analysis of small RNA genes in Escherichia coli. Bioinformatics 20, 599-603.
-
(2004)
Bioinformatics
, vol.20
, pp. 599-603
-
-
Zhang, Y.1
Zhang, Z.2
Ling, L.3
Shi, B.4
Chen, R.5
|