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Volumn 37, Issue 21, 2009, Pages 7239-7257

A search for small noncoding RNAs in Staphylococcus aureus reveals a conserved sequence motif for regulation

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL RNA; HOST FACTOR 1; MESSENGER RNA; RSAA RNA; RSAB RNA; RSAC RNA; RSAD RNA; RSAE RNA; RSAF RNA; RSAG RNA; RSAH RNA; RSAI RNA; RSAJ RNA; RSAK RNA; UNCLASSIFIED DRUG; UNTRANSLATED RNA;

EID: 73849116916     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkp668     Document Type: Article
Times cited : (183)

References (109)
  • 1
    • 60149089144 scopus 로고    scopus 로고
    • Regulatory RNAs in bacteria
    • Waters, L.S. and Storz, G. (2009) Regulatory RNAs in bacteria. Cell, 136, 615-628.
    • (2009) Cell , vol.136 , pp. 615-628
    • Waters, L.S.1    Storz, G.2
  • 2
    • 34250709662 scopus 로고    scopus 로고
    • Target identification of small noncoding RNAs in bacteria
    • Vogel, J. and Wagner, E.G.H. (2007) Target identification of small noncoding RNAs in bacteria. Curr. Opin. Microbiol., 10, 262-270.
    • (2007) Curr. Opin. Microbiol. , vol.10 , pp. 262-270
    • Vogel, J.1    Wagner, E.G.H.2
  • 4
    • 58149139033 scopus 로고    scopus 로고
    • A rough guide to the non-coding RNA world of Salmonella
    • Vogel, J. (2009) A rough guide to the non-coding RNA world of Salmonella. Mol. Microbiol., 71, 1-11.
    • (2009) Mol. Microbiol. , vol.71 , pp. 1-11
    • Vogel, J.1
  • 5
    • 47749093130 scopus 로고    scopus 로고
    • The bacteria fight back
    • Taubes, G. (2008) The bacteria fight back. Science, 321, 356-361.
    • (2008) Science , vol.321 , pp. 356-361
    • Taubes, G.1
  • 6
    • 58549096736 scopus 로고    scopus 로고
    • Quorum sensing in staphylococci
    • Novick, R.P. and Geisinger, E. (2008) Quorum sensing in staphylococci. Annu. Rev. Genet., 42, 541-564.
    • (2008) Annu. Rev. Genet. , vol.42 , pp. 541-564
    • Novick, R.P.1    Geisinger, E.2
  • 7
    • 17044373656 scopus 로고    scopus 로고
    • The role of sigmaB in the stress response of Gram-positive bacteria - targets for food preservation and safety
    • van Schaik, W. and Abee, T. (2005) The role of sigmaB in the stress response of Gram-positive bacteria - targets for food preservation and safety. Curr. Opin. Biotechnol., 16, 218-224.
    • (2005) Curr. Opin. Biotechnol. , vol.16 , pp. 218-224
    • van Schaik, W.1    Abee, T.2
  • 8
    • 26444600764 scopus 로고    scopus 로고
    • Small RNA genes expressed from Staphylococcus aureus genomic and pathogenicity islands with specific expression among pathogenic strains
    • Pichon, C. and Felden, B. (2005) Small RNA genes expressed from Staphylococcus aureus genomic and pathogenicity islands with specific expression among pathogenic strains. Proc. Natl Acad. Sci. USA, 102, 14249-14254.
    • (2005) Proc. Natl Acad. Sci. USA , vol.102 , pp. 14249-14254
    • Pichon, C.1    Felden, B.2
  • 9
    • 34249881878 scopus 로고    scopus 로고
    • Staphylococcus aureus RNAIII coordinately represses the synthesis of virulence factors and the transcription regulator Rot by an antisense mechanism
    • Boisset, S., Geissmann, T., Huntzinger, E., Fechter, P., Bendridi, N., Possedko, M., Chevalier, C., Helfer, A.C., Benito, Y., Jacquier, A. et al. (2007) Staphylococcus aureus RNAIII coordinately represses the synthesis of virulence factors and the transcription regulator Rot by an antisense mechanism. Genes Dev., 21, 1353-1366.
    • (2007) Genes Dev , vol.21 , pp. 1353-1366
    • Boisset, S.1    Geissmann, T.2    Huntzinger, E.3    Fechter, P.4    Bendridi, N.5    Possedko, M.6    Chevalier, C.7    Helfer, A.C.8    Benito, Y.9    Jacquier, A.10
  • 10
    • 33746561248 scopus 로고    scopus 로고
    • Inhibition of rot translation by RNAIII, a key feature of agr function
    • Geisinger, E., Adhikari, R.P., Jin, R., Ross, H.F. and Novick, R.P. (2006) Inhibition of rot translation by RNAIII, a key feature of agr function. Mol. Microbiol., 61, 1038-1048.
    • (2006) Mol. Microbiol. , vol.61 , pp. 1038-1048
    • Geisinger, E.1    Adhikari, R.P.2    Jin, R.3    Ross, H.F.4    Novick, R.P.5
  • 12
    • 33749316678 scopus 로고    scopus 로고
    • Characterization of the Staphylococcus aureus heat shock, cold shock, stringent, and SOS responses and their effects on log-phase mRNA turnover
    • Anderson, K.L., Roberts, C., Disz, T., Vonstein, V., Hwang, K., Overbeek, R., Olson, P.D., Projan, S.J. and Dunman, P.M. (2006) Characterization of the Staphylococcus aureus heat shock, cold shock, stringent, and SOS responses and their effects on log-phase mRNA turnover. J. Bacteriol., 188, 6739-6756.
    • (2006) J. Bacteriol. , vol.188 , pp. 6739-6756
    • Anderson, K.L.1    Roberts, C.2    Disz, T.3    Vonstein, V.4    Hwang, K.5    Overbeek, R.6    Olson, P.D.7    Projan, S.J.8    Dunman, P.M.9
  • 13
    • 0027180031 scopus 로고
    • 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
  • 15
    • 0029113833 scopus 로고
    • Activation of alpha-toxin translation in Staphylococcus aureus by the trans-encoded antisense RNA, RNAIII
    • Morfeldt, E., Taylor, D., von Gabain, A. and Arvidson, S. (1995) Activation of alpha-toxin translation in Staphylococcus aureus by the trans-encoded antisense RNA, RNAIII. EMBO J., 14, 4569-4577.
    • (1995) EMBO J , vol.14 , pp. 4569-4577
    • Morfeldt, E.1    Taylor, D.2    von Gabain, A.3    Arvidson, S.4
  • 16
    • 34250725542 scopus 로고    scopus 로고
    • Identification of bacterial small non-coding RNAs: experimental approaches
    • Altuvia, S. (2007) Identification of bacterial small non-coding RNAs: experimental approaches. Curr. Opin. Microbiol., 10, 257-261.
    • (2007) Curr. Opin. Microbiol. , vol.10 , pp. 257-261
    • Altuvia, S.1
  • 17
    • 34247163202 scopus 로고    scopus 로고
    • 6S RNA: a small RNA regulator of transcription
    • Wassarman, K.M. (2007) 6S RNA: a small RNA regulator of transcription. Curr. Opin. Microbiol., 10, 164-168.
    • (2007) Curr. Opin. Microbiol. , vol.10 , pp. 164-168
    • Wassarman, K.M.1
  • 18
    • 34247169597 scopus 로고    scopus 로고
    • CsrB sRNA family: sequestration of RNA-binding regulatory proteins
    • Babitzke, P. and Romeo, T. (2007) CsrB sRNA family: sequestration of RNA-binding regulatory proteins. Curr. Opin. Microbiol., 10, 156-163.
    • (2007) Curr. Opin. Microbiol. , vol.10 , pp. 156-163
    • Babitzke, P.1    Romeo, T.2
  • 19
    • 34247109118 scopus 로고    scopus 로고
    • Hfq structure, function and ligand binding
    • Brennan, R.G. and Link, T.M. (2007) Hfq structure, function and ligand binding. Curr. Opin. Microbiol., 10, 125-133.
    • (2007) Curr. Opin. Microbiol. , vol.10 , pp. 125-133
    • Brennan, R.G.1    Link, T.M.2
  • 20
    • 33847095025 scopus 로고    scopus 로고
    • No detectable effect of RNA-binding protein Hfq absence in Staphylococcus aureus
    • Bohn, C., Rigoulay, C. and Bouloc, P. (2007) No detectable effect of RNA-binding protein Hfq absence in Staphylococcus aureus. BMC Microbiol, 7, 10.
    • (2007) BMC Microbiol , vol.7 , pp. 10
    • Bohn, C.1    Rigoulay, C.2    Bouloc, P.3
  • 22
    • 66449091512 scopus 로고    scopus 로고
    • Single-pass classification of all noncoding sequences in a bacterial genome using phylogenetic profiles
    • Marchais, A., Naville, M., Bohn, C., Bouloc, P. and Gautheret, D. (2009) Single-pass classification of all noncoding sequences in a bacterial genome using phylogenetic profiles. Genome Res., 19, 1084-1092.
    • (2009) Genome Res , vol.19 , pp. 1084-1092
    • Marchais, A.1    Naville, M.2    Bohn, C.3    Bouloc, P.4    Gautheret, D.5
  • 23
    • 52449093583 scopus 로고    scopus 로고
    • Highthroughput, kingdom-wide prediction and annotation of bacterial non-coding RNAs
    • Livny, J., Teonadi, H., Livny, M. and Waldor, M.K. (2008) Highthroughput, kingdom-wide prediction and annotation of bacterial non-coding RNAs. PLoS ONE, 3, e3197.
    • (2008) PLoS ONE , vol.3
    • Livny, J.1    Teonadi, H.2    Livny, M.3    Waldor, M.K.4
  • 24
    • 0034072868 scopus 로고    scopus 로고
    • Probing the structure of RNAIII, the Staphylococcus aureus agr regulatory RNA, and identification of the RNA domain involved in repression of protein A expression
    • Benito, Y., Kolb, F.A., Romby, P., Lina, G., Etienne, J. and Vandenesch, F. (2000) Probing the structure of RNAIII, the Staphylococcus aureus agr regulatory RNA, and identification of the RNA domain involved in repression of protein A expression. RNA, 6, 668-679.
    • (2000) RNA , vol.6 , pp. 668-679
    • Benito, Y.1    Kolb, F.A.2    Romby, P.3    Lina, G.4    Etienne, J.5    Vandenesch, F.6
  • 26
    • 58049168197 scopus 로고    scopus 로고
    • MOSAIC: an online database dedicated to the comparative genomics of bacterial strains at the intra-species level
    • Chiapello, H., Gendrault, A., Caron, C., Blum, J., Petit, M.A. and El Karoui, M. (2008) MOSAIC: an online database dedicated to the comparative genomics of bacterial strains at the intra-species level. BMC Bioinformatics, 9, 498.
    • (2008) BMC Bioinformatics , vol.9 , pp. 498
    • Chiapello, H.1    Gendrault, A.2    Caron, C.3    Blum, J.4    Petit, M.A.5    El Karoui, M.6
  • 28
    • 0031438685 scopus 로고    scopus 로고
    • Searching for patterns in genomic data
    • Dsouza, M., Larsen, N. and Overbeek, R. (1997) Searching for patterns in genomic data. Trends Genet., 13, 497-498.
    • (1997) Trends Genet , vol.13 , pp. 497-498
    • Dsouza, M.1    Larsen, N.2    Overbeek, R.3
  • 29
    • 0034097451 scopus 로고    scopus 로고
    • Identification of a new repetitive element in Staphylococcus aureus
    • Cramton, S.E., Schnell, N.F., Götz, F. and Brückner, R. (2000) Identification of a new repetitive element in Staphylococcus aureus. Infect. Immun., 68, 2344-2348.
    • (2000) Infect. Immun. , vol.68 , pp. 2344-2348
    • Cramton, S.E.1    Schnell, N.F.2    Götz, F.3    Brückner, R.4
  • 30
    • 0032884579 scopus 로고    scopus 로고
    • Identification of sigma(B)-dependent genes in Bacillus subtilis using a promoter consensusdirected search and oligonucleotide hybridization
    • Petersohn, A., Bernhardt, J., Gerth, U., Hoper, D., Koburger, T., Volker, U. and Hecker, M. (1999) Identification of sigma(B)-dependent genes in Bacillus subtilis using a promoter consensusdirected search and oligonucleotide hybridization. J. Bacteriol., 181, 5718-5724.
    • (1999) J. Bacteriol. , vol.181 , pp. 5718-5724
    • Petersohn, A.1    Bernhardt, J.2    Gerth, U.3    Hoper, D.4    Koburger, T.5    Volker, U.6    Hecker, M.7
  • 31
    • 34447499141 scopus 로고    scopus 로고
    • Rapid, accurate, computational discovery of Rho-independent transcription terminators illuminates their relationship to DNA uptake
    • Kingsford, C.L., Ayanbule, K. and Salzberg, S.L. (2007) Rapid, accurate, computational discovery of Rho-independent transcription terminators illuminates their relationship to DNA uptake. Genome Biol., 8, R22.
    • (2007) Genome Biol , vol.8
    • Kingsford, C.L.1    Ayanbule, K.2    Salzberg, S.L.3
  • 32
    • 0037188546 scopus 로고    scopus 로고
    • Noncoding RNA genes identified in AT-rich hyperthermophiles
    • 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. USA , vol.99 , pp. 7542-7547
    • Klein, R.J.1    Misulovin, Z.2    Eddy, S.R.3
  • 33
    • 0003157183 scopus 로고    scopus 로고
    • Noncoding RNA gene detection using comparative sequence analysis
    • Rivas, E. and Eddy, S.R. (2001) Noncoding RNA gene detection using comparative sequence analysis. BMC Bioinformatics, 2, 8.
    • (2001) BMC Bioinformatics , vol.2 , pp. 8
    • Rivas, E.1    Eddy, S.R.2
  • 35
    • 0043123153 scopus 로고    scopus 로고
    • Vienna RNA secondary structure server
    • Hofacker, I.L. (2003) Vienna RNA secondary structure server. Nucleic Acids Res., 31, 3429-3431.
    • (2003) Nucleic Acids Res , vol.31 , pp. 3429-3431
    • Hofacker, I.L.1
  • 36
    • 0025238943 scopus 로고
    • TM-lysin gene (hld) in the regulation of virulence genes by the accessory gene regulator (agr) in Staphylococcus aureus
    • TM-lysin gene (hld) in the regulation of virulence genes by the accessory gene regulator (agr) in Staphylococcus aureus. EMBO J., 9, 1391-1399.
    • (1990) EMBO J , vol.9 , pp. 1391-1399
    • Janzon, L.1    Arvidson, S.2
  • 37
    • 8744309111 scopus 로고    scopus 로고
    • New vector for efficient allelic replacement in naturally nontransformable, low-GC-content, gram-positive bacteria
    • Arnaud, M., Chastanet, A. and Debarbouille, M. (2004) New vector for efficient allelic replacement in naturally nontransformable, low-GC-content, gram-positive bacteria. Appl. Environ. Microbiol., 70, 6887-6891.
    • (2004) Appl. Environ. Microbiol. , vol.70 , pp. 6887-6891
    • Arnaud, M.1    Chastanet, A.2    Debarbouille, M.3
  • 38
    • 43449118061 scopus 로고    scopus 로고
    • Mini-III, an unusual member of the RNase III family of enzymes, catalyses 23S ribosomal RNA maturation in B. subtilis
    • Redko, Y., Bechhofer, D.H. and Condon, C. (2008) Mini-III, an unusual member of the RNase III family of enzymes, catalyses 23S ribosomal RNA maturation in B. subtilis. Mol. Microbiol., 68, 1096-1106.
    • (2008) Mol. Microbiol. , vol.68 , pp. 1096-1106
    • Redko, Y.1    Bechhofer, D.H.2    Condon, C.3
  • 39
    • 25444518699 scopus 로고    scopus 로고
    • A generic approach for the design of whole-genome oligoarrays, validated for genomotyping, deletion mapping and gene expression analysis on Staphylococcus aureus
    • Charbonnier, Y., Gettler, B., François, P., Bento, M., Renzoni, A., Vaudaux, P., Schlegel, W. and Schrenzel, J. (2005) A generic approach for the design of whole-genome oligoarrays, validated for genomotyping, deletion mapping and gene expression analysis on Staphylococcus aureus. BMC Genomics, 6, 95.
    • (2005) BMC Genomics , vol.6 , pp. 95
    • Charbonnier, Y.1    Gettler, B.2    François, P.3    Bento, M.4    Renzoni, A.5    Vaudaux, P.6    Schlegel, W.7    Schrenzel, J.8
  • 42
    • 20144372744 scopus 로고    scopus 로고
    • Insights on evolution of virulence and resistance from the complete genome analysis of an early methicillin-resistant Staphylococcus aureus strain and a biofilm-producing methicillinresistant Staphylococcus epidermidis strain
    • Gill, S.R., Fouts, D.E., Archer, G.L., Mongodin, E.F., Deboy, R.T., Ravel, J., Paulsen, I.T., Kolonay, J.F., Brinkac, L., Beanan, M. et al. (2005) Insights on evolution of virulence and resistance from the complete genome analysis of an early methicillin-resistant Staphylococcus aureus strain and a biofilm-producing methicillinresistant Staphylococcus epidermidis strain. J. Bacteriol., 187, 2426-2438.
    • (2005) J. Bacteriol. , vol.187 , pp. 2426-2438
    • Gill, S.R.1    Fouts, D.E.2    Archer, G.L.3    Mongodin, E.F.4    Deboy, R.T.5    Ravel, J.6    Paulsen, I.T.7    Kolonay, J.F.8    Brinkac, L.9    Beanan, M.10
  • 43
    • 33644659999 scopus 로고    scopus 로고
    • Complete genome sequence of USA300, an epidemic clone of community-acquired meticillin-resistant Staphylococcus aureus
    • Diep, B.A., Gill, S.R., Chang, R.F., Phan, T.H., Chen, J.H., Davidson, M.G., Lin, F., Lin, J., Carleton, H.A., Mongodin, E.F. et al. (2006) Complete genome sequence of USA300, an epidemic clone of community-acquired meticillin-resistant Staphylococcus aureus. Lancet, 367, 731-739.
    • (2006) Lancet , vol.367 , pp. 731-739
    • Diep, B.A.1    Gill, S.R.2    Chang, R.F.3    Phan, T.H.4    Chen, J.H.5    Davidson, M.G.6    Lin, F.7    Lin, J.8    Carleton, H.A.9    Mongodin, E.F.10
  • 45
    • 33845481040 scopus 로고    scopus 로고
    • Exploring glycopeptide-resistance in Staphylococcus aureus: a combined proteomics and transcriptomics approach for the identification of resistance-related markers
    • Scherl, A., Francois, P., Charbonnier, Y., Deshusses, J.M., Koessler, T., Huyghe, A., Bento, M., Stahl-Zeng, J., Fischer, A., Masselot, A. et al. (2006) Exploring glycopeptide-resistance in Staphylococcus aureus: a combined proteomics and transcriptomics approach for the identification of resistance-related markers. BMC Genomics, 7, 296.
    • (2006) BMC Genomics , vol.7 , pp. 296
    • Scherl, A.1    Francois, P.2    Charbonnier, Y.3    Deshusses, J.M.4    Koessler, T.5    Huyghe, A.6    Bento, M.7    Stahl-Zeng, J.8    Fischer, A.9    Masselot, A.10
  • 47
    • 3943113640 scopus 로고    scopus 로고
    • Using ANOVA to analyze microarray data
    • 177
    • Churchill, G.A. (2004) Using ANOVA to analyze microarray data. BioTechniques, 37, 173-175, 177.
    • (2004) BioTechniques , vol.37 , pp. 173-175
    • Churchill, G.A.1
  • 48
    • 0023472472 scopus 로고
    • Tricine-sodium dodecyl sulfate-polyacrylamide gel electrophoresis for the separation of proteins in the range from 1 to 100 kDa
    • Schagger, H. and von Jagow, G. (1987) Tricine-sodium dodecyl sulfate-polyacrylamide gel electrophoresis for the separation of proteins in the range from 1 to 100 kDa. Anal. Biochem., 166, 368-379.
    • (1987) Anal. Biochem. , vol.166 , pp. 368-379
    • Schagger, H.1    von Jagow, G.2
  • 49
    • 55449129670 scopus 로고    scopus 로고
    • Prediction of transcriptional terminators in Bacillus subtilis and related species
    • de Hoon, M.J., Makita, Y., Nakai, K. and Miyano, S. (2005) Prediction of transcriptional terminators in Bacillus subtilis and related species. PLoS Comput. Biol., 1, e25.
    • (2005) PLoS Comput. Biol. , vol.1
    • de Hoon, M.J.1    Makita, Y.2    Nakai, K.3    Miyano, S.4
  • 50
    • 0036567632 scopus 로고    scopus 로고
    • 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
  • 51
    • 75649129134 scopus 로고    scopus 로고
    • Visualizing and exploring genomic information for non-proteincoding RNA identification using ApolloRNA
    • doi: 10.1036/nprot.20.07.285
    • Cros, M.J., Moisan, A., Cierco-Ayrolles, C. and Gaspin, C. Visualizing and exploring genomic information for non-proteincoding RNA identification using ApolloRNA. Nature Protocols, doi: 10.1036/nprot.20.07.285.
    • Nature Protocols
    • Cros, M.J.1    Moisan, A.2    Cierco-Ayrolles, C.3    Gaspin, C.4
  • 54
    • 37549035397 scopus 로고    scopus 로고
    • Genome sequence of Staphylococcus aureus strain Newman and comparative analysis of staphylococcal genomes: polymorphism and evolution of two major pathogenicity islands
    • Baba, T., Bae, T., Schneewind, O., Takeuchi, F. and Hiramatsu, K. (2008) Genome sequence of Staphylococcus aureus strain Newman and comparative analysis of staphylococcal genomes: polymorphism and evolution of two major pathogenicity islands. J. Bacteriol., 190, 300-310.
    • (2008) J. Bacteriol. , vol.190 , pp. 300-310
    • Baba, T.1    Bae, T.2    Schneewind, O.3    Takeuchi, F.4    Hiramatsu, K.5
  • 56
    • 0036771636 scopus 로고    scopus 로고
    • B modulates virulence determinant expression and stress resistance: characterization of a functional rsbU strain derived from Staphylococcus aureus 8325-4
    • B modulates virulence determinant expression and stress resistance: characterization of a functional rsbU strain derived from Staphylococcus aureus 8325-4. J. Bacteriol., 184, 5457-5467.
    • (2002) J. Bacteriol. , vol.184 , pp. 5457-5467
    • Horsburgh, M.J.1    Aish, J.L.2    White, I.J.3    Shaw, L.4    Lithgow, J.K.5    Foster, S.J.6
  • 58
    • 19444377759 scopus 로고    scopus 로고
    • Transcriptional interference-a crash course
    • Shearwin, K.E., Callen, B.P. and Egan, J.B. (2005) Transcriptional interference-a crash course. Trends Genet., 21, 339-345.
    • (2005) Trends Genet , vol.21 , pp. 339-345
    • Shearwin, K.E.1    Callen, B.P.2    Egan, J.B.3
  • 60
    • 0033527683 scopus 로고    scopus 로고
    • Specific interaction of the RNA-binding domain of the Bacillus subtilis transcriptional antiterminator GlcT with its RNA target
    • Langbein, I., Bachem, S. and Stulke, J. (1999) Specific interaction of the RNA-binding domain of the Bacillus subtilis transcriptional antiterminator GlcT with its RNA target, RAT. J. Mol. Biol., 293, 795-805.
    • (1999) RAT. J. Mol. Biol. , vol.293 , pp. 795-805
    • Langbein, I.1    Bachem, S.2    Stulke, J.3
  • 61
    • 0026465459 scopus 로고
    • Specificity determinants and structural features in the RNA target of the bacterial antiterminator proteins of the BglG/SacY family
    • Aymerich, S. and Steinmetz, M. (1992) Specificity determinants and structural features in the RNA target of the bacterial antiterminator proteins of the BglG/SacY family. Proc. Natl Acad. Sci. USA, 89, 10410-10414.
    • (1992) Proc. Natl Acad. Sci. USA , vol.89 , pp. 10410-10414
    • Aymerich, S.1    Steinmetz, M.2
  • 62
    • 25144458057 scopus 로고    scopus 로고
    • Sequence to Structure (S2S): display, manipulate and interconnect RNA data from sequence to structure
    • Jossinet, F. and Westhof, E. (2005) Sequence to Structure (S2S): display, manipulate and interconnect RNA data from sequence to structure. Bioinformatics, 21, 3320-3321.
    • (2005) Bioinformatics , vol.21 , pp. 3320-3321
    • Jossinet, F.1    Westhof, E.2
  • 63
    • 34247158257 scopus 로고    scopus 로고
    • Mechanism of RNA silencing by Hfq-binding small RNAs
    • Aiba, H. (2007) Mechanism of RNA silencing by Hfq-binding small RNAs. Curr. Opin. Microbiol., 10, 134-139.
    • (2007) Curr. Opin. Microbiol. , vol.10 , pp. 134-139
    • Aiba, H.1
  • 64
    • 34249101864 scopus 로고    scopus 로고
    • 5'-to-3' exoribonuclease activity in bacteria: role of RNase J1 in rRNA maturation and 5' stability of mRNA
    • Mathy, N., Benard, L., Pellegrini, O., Daou, R., Wen, T. and Condon, C. (2007) 5'-to-3' exoribonuclease activity in bacteria: role of RNase J1 in rRNA maturation and 5' stability of mRNA. Cell, 129, 681-692.
    • (2007) Cell , vol.129 , pp. 681-692
    • Mathy, N.1    Benard, L.2    Pellegrini, O.3    Daou, R.4    Wen, T.5    Condon, C.6
  • 65
    • 17844361922 scopus 로고    scopus 로고
    • Ribonucleases J1 and J2: two novel endoribonucleases in B subtilis with functional homology to E. coli RNase E
    • Even, S., Pellegrini, O., Zig, L., Labas, V., Vinh, J., Brechemmier-Baey, D. and Putzer, H. (2005) Ribonucleases J1 and J2: two novel endoribonucleases in B subtilis with functional homology to E. coli RNase E. Nucleic Acids Res., 33, 2141-2152.
    • (2005) Nucleic Acids Res , vol.33 , pp. 2141-2152
    • Even, S.1    Pellegrini, O.2    Zig, L.3    Labas, V.4    Vinh, J.5    Brechemmier-Baey, D.6    Putzer, H.7
  • 67
    • 51649091711 scopus 로고    scopus 로고
    • mRNA processing by RNases J1 and J2 affects Bacillus subtilis gene expression on a global scale
    • Mader, U., Zig, L., Kretschmer, J., Homuth, G. and Putzer, H. (2008) mRNA processing by RNases J1 and J2 affects Bacillus subtilis gene expression on a global scale. Mol. Microbiol., 70, 183-196.
    • (2008) Mol. Microbiol. , vol.70 , pp. 183-196
    • Mader, U.1    Zig, L.2    Kretschmer, J.3    Homuth, G.4    Putzer, H.5
  • 68
    • 34547112324 scopus 로고    scopus 로고
    • Initiation of decay of Bacillus subtilis trp leader RNA
    • Deikus, G. and Bechhofer, D.H. (2007) Initiation of decay of Bacillus subtilis trp leader RNA. J. Biol. Chem., 282, 20238-20244.
    • (2007) J. Biol. Chem. , vol.282 , pp. 20238-20244
    • Deikus, G.1    Bechhofer, D.H.2
  • 69
    • 34547842522 scopus 로고    scopus 로고
    • Processing of Bacillus subtilis small cytoplasmic RNA: evidence for an additional endonuclease cleavage site
    • Yao, S., Blaustein, J.B. and Bechhofer, D.H. (2007) Processing of Bacillus subtilis small cytoplasmic RNA: evidence for an additional endonuclease cleavage site. Nucleic Acids Res., 35, 4464-4473.
    • (2007) Nucleic Acids Res , vol.35 , pp. 4464-4473
    • Yao, S.1    Blaustein, J.B.2    Bechhofer, D.H.3
  • 70
    • 1642475071 scopus 로고    scopus 로고
    • Staphylococcus aureus capsular polysaccharides
    • O'Riordan, K. and Lee, J.C. (2004) Staphylococcus aureus capsular polysaccharides. Clinical Microbiol. Rev., 17, 218-234.
    • (2004) Clinical Microbiol. Rev. , vol.17 , pp. 218-234
    • O'Riordan, K.1    Lee, J.C.2
  • 71
    • 66749141589 scopus 로고    scopus 로고
    • At the crossroads of bacterial metabolism and virulence synthesis in Staphylococci
    • Somerville, G.A. and Proctor, R.A. (2009) At the crossroads of bacterial metabolism and virulence synthesis in Staphylococci. Microbiol. Mol. Biol. Rev., 73, 233-248.
    • (2009) Microbiol. Mol. Biol. Rev. , vol.73 , pp. 233-248
    • Somerville, G.A.1    Proctor, R.A.2
  • 72
    • 55749083578 scopus 로고    scopus 로고
    • RNAplex: a fast tool for RNA-RNA interaction search
    • Tafer, H. and Hofacker, I.L. (2008) RNAplex: a fast tool for RNA-RNA interaction search. Bioinformatics, 24, 2657-2663.
    • (2008) Bioinformatics , vol.24 , pp. 2657-2663
    • Tafer, H.1    Hofacker, I.L.2
  • 73
    • 33847371621 scopus 로고    scopus 로고
    • Identification of new noncoding RNAs in Listeria monocytogenes and prediction of mRNA targets
    • Mandin, P., Repoila, F., Vergassola, M., Geissmann, T. and Cossart, P. (2007) Identification of new noncoding RNAs in Listeria monocytogenes and prediction of mRNA targets. Nucleic Acids Res., 35, 962-974.
    • (2007) Nucleic Acids Res , vol.35 , pp. 962-974
    • Mandin, P.1    Repoila, F.2    Vergassola, M.3    Geissmann, T.4    Cossart, P.5
  • 74
    • 32644439243 scopus 로고    scopus 로고
    • Experimental approaches to identify non-coding RNAs
    • Hüttenhofer, A. and Vogel, J. (2006) Experimental approaches to identify non-coding RNAs. Nucleic Acids Res., 34, 635-646.
    • (2006) Nucleic Acids Res , vol.34 , pp. 635-646
    • Hüttenhofer, A.1    Vogel, J.2
  • 75
    • 0037133945 scopus 로고    scopus 로고
    • Computational genomics of noncoding RNA genes
    • Eddy, S.R. (2002) Computational genomics of noncoding RNA genes. Cell, 109, 137-140.
    • (2002) Cell , vol.109 , pp. 137-140
    • Eddy, S.R.1
  • 76
    • 57349189421 scopus 로고    scopus 로고
    • Small toxic proteins and the antisense RNAs that repress them
    • Fozo, E.M., Hemm, M.R. and Storz, G. (2008) Small toxic proteins and the antisense RNAs that repress them. Microbiol. Mol. Biol. Rev., 72, 579-589.
    • (2008) Microbiol. Mol. Biol. Rev. , vol.72 , pp. 579-589
    • Fozo, E.M.1    Hemm, M.R.2    Storz, G.3
  • 77
    • 46349083026 scopus 로고    scopus 로고
    • The distributions, mechanisms, and structures of metabolite-binding riboswitches
    • Barrick, J.E. and Breaker, R.R. (2007) The distributions, mechanisms, and structures of metabolite-binding riboswitches. Genome Biol., 8, R239.
    • (2007) Genome Biol , vol.8
    • Barrick, J.E.1    Breaker, R.R.2
  • 78
    • 34547558201 scopus 로고    scopus 로고
    • A computational pipeline for highthroughput discovery of cis-regulatory noncoding RNA in prokaryotes
    • Yao, Z., Barrick, J., Weinberg, Z., Neph, S., Breaker, R., Tompa, M. and Ruzzo, W.L. (2007) A computational pipeline for highthroughput discovery of cis-regulatory noncoding RNA in prokaryotes. PLoS Comput. Biol., 3, e126.
    • (2007) PLoS Comput. Biol. , vol.3
    • Yao, Z.1    Barrick, J.2    Weinberg, Z.3    Neph, S.4    Breaker, R.5    Tompa, M.6    Ruzzo, W.L.7
  • 79
    • 41649115061 scopus 로고    scopus 로고
    • Comparative genomic analysis of T-box regulatory systems in bacteria
    • Vitreschak, A.G., Mironov, A.A., Lyubetsky, V.A. and Gelfand, M.S. (2008) Comparative genomic analysis of T-box regulatory systems in bacteria. RNA, 14, 717-735.
    • (2008) RNA , vol.14 , pp. 717-735
    • Vitreschak, A.G.1    Mironov, A.A.2    Lyubetsky, V.A.3    Gelfand, M.S.4
  • 81
    • 0033824513 scopus 로고    scopus 로고
    • Regulation of the glucose-specific phosphotransferase system (PTS) of Staphylococcus carnosus by the antiterminator protein GlcT
    • Knezevic, I., Bachem, S., Sickmann, A., Meyer, H.E., Stulke, J. and Hengstenberg, W. (2000) Regulation of the glucose-specific phosphotransferase system (PTS) of Staphylococcus carnosus by the antiterminator protein GlcT. Microbiology, 146, 2333-2342.
    • (2000) Microbiology , vol.146 , pp. 2333-2342
    • Knezevic, I.1    Bachem, S.2    Sickmann, A.3    Meyer, H.E.4    Stulke, J.5    Hengstenberg, W.6
  • 82
    • 0029855920 scopus 로고    scopus 로고
    • Function of RNA secondary structures in transcriptional attenuation of the Bacillus subtilis pyr operon
    • Lu, Y., Turner, R.J. and Switzer, R.L. (1996) Function of RNA secondary structures in transcriptional attenuation of the Bacillus subtilis pyr operon. Proc. Natl Acad. Sci. USA, 93, 14462-14467.
    • (1996) Proc. Natl Acad. Sci. USA , vol.93 , pp. 14462-14467
    • Lu, Y.1    Turner, R.J.2    Switzer, R.L.3
  • 83
    • 34247165419 scopus 로고    scopus 로고
    • Ribosomal protein L20 controls expression of the Bacillus subtilis infC operon via a transcription attenuation mechanism
    • Choonee, N., Even, S., Zig, L. and Putzer, H. (2007) Ribosomal protein L20 controls expression of the Bacillus subtilis infC operon via a transcription attenuation mechanism. Nucleic Acids Res., 35, 1578-1588.
    • (2007) Nucleic Acids Res , vol.35 , pp. 1578-1588
    • Choonee, N.1    Even, S.2    Zig, L.3    Putzer, H.4
  • 84
    • 44349151867 scopus 로고    scopus 로고
    • Insertion hot spot for horizontally acquired DNA within a bidirectional small-RNA locus in Salmonella enterica
    • Balbontin, R., Figueroa-Bossi, N., Casadesus, J. and Bossi, L. (2008) Insertion hot spot for horizontally acquired DNA within a bidirectional small-RNA locus in Salmonella enterica. J. Bacteriol., 190, 4075-4078.
    • (2008) J. Bacteriol. , vol.190 , pp. 4075-4078
    • Balbontin, R.1    Figueroa-Bossi, N.2    Casadesus, J.3    Bossi, L.4
  • 85
    • 41849147481 scopus 로고    scopus 로고
    • Identification of novel genomic islands associated with small RNAs
    • Sridhar, J. and Rafi, Z.A. (2007) Identification of novel genomic islands associated with small RNAs. In Silico Biol., 7, 601-611.
    • (2007) Silico Biol , vol.7 , pp. 601-611
    • Sridhar, J.1    Rafi, Z.A.2
  • 87
    • 51549107073 scopus 로고    scopus 로고
    • Identification of a sigma B-dependent small noncoding RNA in Listeria monocytogenes
    • Nielsen, J.S., Olsen, A.S., Bonde, M., Valentin-Hansen, P. and Kallipolitis, B.H. (2008) Identification of a sigma B-dependent small noncoding RNA in Listeria monocytogenes. J. Bacteriol., 190, 6264-6270.
    • (2008) J. Bacteriol. , vol.190 , pp. 6264-6270
    • Nielsen, J.S.1    Olsen, A.S.2    Bonde, M.3    Valentin-Hansen, P.4    Kallipolitis, B.H.5
  • 88
    • 0030892308 scopus 로고    scopus 로고
    • The alternative sigma factor sigmaB in Staphylococcus aureus: regulation of the sigB operon in response to growth phase and heat shock Arch
    • Kullik, I.I. and Giachino, P. (1997) The alternative sigma factor sigmaB in Staphylococcus aureus: regulation of the sigB operon in response to growth phase and heat shock Arch. Microbiol., 167, 151-159.
    • (1997) Microbiol , vol.167 , pp. 151-159
    • Kullik, I.I.1    Giachino, P.2
  • 89
    • 0042065402 scopus 로고    scopus 로고
    • A new staphylococcal sigma factor in the conserved gene cassette: functional significance and implication for the evolutionary processes
    • Morikawa, K., Inose, Y., Okamura, H., Maruyama, A., Hayashi, H., Takeyasu, K. and Ohta, T. (2003) A new staphylococcal sigma factor in the conserved gene cassette: functional significance and implication for the evolutionary processes. Genes Cells, 8, 699-712.
    • (2003) Genes Cells , vol.8 , pp. 699-712
    • Morikawa, K.1    Inose, Y.2    Okamura, H.3    Maruyama, A.4    Hayashi, H.5    Takeyasu, K.6    Ohta, T.7
  • 92
    • 22144484167 scopus 로고    scopus 로고
    • Effect of 5'-proximal elements on decay of a model mRNA in Bacillus subtilis
    • Sharp, J.S. and Bechhofer, D.H. (2005) Effect of 5'-proximal elements on decay of a model mRNA in Bacillus subtilis. Mol. Microbiol., 57, 484-495.
    • (2005) Mol. Microbiol. , vol.57 , pp. 484-495
    • Sharp, J.S.1    Bechhofer, D.H.2
  • 93
    • 34250729202 scopus 로고    scopus 로고
    • Maturation and degradation of RNA in bacteria
    • Condon, C. (2007) Maturation and degradation of RNA in bacteria. Curr. Opin. Microbiol., 10, 271-278.
    • (2007) Curr. Opin. Microbiol. , vol.10 , pp. 271-278
    • Condon, C.1
  • 94
    • 42549165769 scopus 로고    scopus 로고
    • Systematic deletion of Salmonella small RNA genes identifies CyaR, a conserved CRP-dependent riboregulator of OmpX synthesis
    • Papenfort, K., Pfeiffer, V., Lucchini, S., Sonawane, A., Hinton, J.C. and Vogel, J. (2008) Systematic deletion of Salmonella small RNA genes identifies CyaR, a conserved CRP-dependent riboregulator of OmpX synthesis. Mol. Microbiol., 68, 890-906.
    • (2008) Mol. Microbiol. , vol.68 , pp. 890-906
    • Papenfort, K.1    Pfeiffer, V.2    Lucchini, S.3    Sonawane, A.4    Hinton, J.C.5    Vogel, J.6
  • 95
    • 50149103524 scopus 로고    scopus 로고
    • The Bacillus subtilis iron-sparing response is mediated by a Fur-regulated small RNA and three small, basic proteins
    • Gaballa, A., Antelmann, H., Aguilar, C., Khakh, S.K., Song, K.B., Smaldone, G.T. and Helmann, J.D. (2008) The Bacillus subtilis iron-sparing response is mediated by a Fur-regulated small RNA and three small, basic proteins. Proc. Natl Acad. Sci. USA, 105, 11927-11932.
    • (2008) Proc. Natl Acad. Sci. USA , vol.105 , pp. 11927-11932
    • Gaballa, A.1    Antelmann, H.2    Aguilar, C.3    Khakh, S.K.4    Song, K.B.5    Smaldone, G.T.6    Helmann, J.D.7
  • 96
    • 33646263111 scopus 로고    scopus 로고
    • Analysis of SD sequences in completed microbial genomes: non-SD-led genes are as common as SD-led genes
    • Chang, B., Halgamuge, S. and Tang, S.L. (2006) Analysis of SD sequences in completed microbial genomes: non-SD-led genes are as common as SD-led genes. Gene, 373, 90-99.
    • (2006) Gene , vol.373 , pp. 90-99
    • Chang, B.1    Halgamuge, S.2    Tang, S.L.3
  • 97
    • 34447543004 scopus 로고    scopus 로고
    • Only one of four oligopeptide transport systems mediates nitrogen nutrition in Staphylococcus aureus
    • Hiron, A., Borezee-Durant, E., Piard, J.C. and Juillard, V. (2007) Only one of four oligopeptide transport systems mediates nitrogen nutrition in Staphylococcus aureus. J. Bacteriol., 189, 5119-5129.
    • (2007) J. Bacteriol. , vol.189 , pp. 5119-5129
    • Hiron, A.1    Borezee-Durant, E.2    Piard, J.C.3    Juillard, V.4
  • 99
    • 0041744003 scopus 로고    scopus 로고
    • Correlation of acetate catabolism and growth yield in Staphylococcus aureus: implications for host-pathogen interactions
    • Somerville, G.A., Said-Salim, B., Wickman, J.M., Raffel, S.J., Kreiswirth, B.N. and Musser, J.M. (2003) Correlation of acetate catabolism and growth yield in Staphylococcus aureus: implications for host-pathogen interactions. Infect. Immun., 71, 4724-4732.
    • (2003) Infect. Immun. , vol.71 , pp. 4724-4732
    • Somerville, G.A.1    Said-Salim, B.2    Wickman, J.M.3    Raffel, S.J.4    Kreiswirth, B.N.5    Musser, J.M.6
  • 100
    • 60849135405 scopus 로고    scopus 로고
    • Complete genome sequence of Macrococcus caseolyticus strain JSCS5402, reflecting the ancestral genome of the human-pathogenic staphylococci
    • Baba, T., Kuwahara-Arai, K., Uchiyama, I., Takeuchi, F., Ito, T. and Hiramatsu, K. (2009) Complete genome sequence of Macrococcus caseolyticus strain JSCS5402, reflecting the ancestral genome of the human-pathogenic staphylococci J. Bacteriol., 191, 1180-1190.
    • (2009) J. Bacteriol. , vol.191 , pp. 1180-1190
    • Baba, T.1    Kuwahara-Arai, K.2    Uchiyama, I.3    Takeuchi, F.4    Ito, T.5    Hiramatsu, K.6
  • 102
    • 19744376336 scopus 로고    scopus 로고
    • Role of Staphylococcus aureus global regulators sae and sigmaB in virulence gene expression during device-related infection
    • Goerke, C., Fluckiger, U., Steinhuber, A., Bisanzio, V., Ulrich, M., Bischoff, M., Patti, J.M. and Wolz, C. (2005) Role of Staphylococcus aureus global regulators sae and sigmaB in virulence gene expression during device-related infection. Infect. Immun., 73, 3415-3421.
    • (2005) Infect. Immun. , vol.73 , pp. 3415-3421
    • Goerke, C.1    Fluckiger, U.2    Steinhuber, A.3    Bisanzio, V.4    Ulrich, M.5    Bischoff, M.6    Patti, J.M.7    Wolz, C.8
  • 103
    • 45749086072 scopus 로고    scopus 로고
    • RNA switches regulate initiation of translation in bacteria
    • Marzi, S., Fechter, P., Chevalier, C., Romby, P. and Geissmann, T. (2008) RNA switches regulate initiation of translation in bacteria. Biol. Chem., 389, 585-598.
    • (2008) Biol. Chem. , vol.389 , pp. 585-598
    • Marzi, S.1    Fechter, P.2    Chevalier, C.3    Romby, P.4    Geissmann, T.5
  • 104
    • 67349278437 scopus 로고    scopus 로고
    • Deep sequencing of Salmonella RNA associated with heterologous Hfq proteins in vivo reveals small RNAs as a major target class and identifies RNA processing phenotypes
    • Sittka, A., Sharma, C.M., Rolle, K. and Vogel, J. (2009) Deep sequencing of Salmonella RNA associated with heterologous Hfq proteins in vivo reveals small RNAs as a major target class and identifies RNA processing phenotypes. RNA Biol., 6, 266-275.
    • (2009) RNA Biol , vol.6 , pp. 266-275
    • Sittka, A.1    Sharma, C.M.2    Rolle, K.3    Vogel, J.4
  • 106
    • 0023807526 scopus 로고
    • Cloning, characterization, and sequencing of an accessory gene regulator (agr) in Staphylococcus aureus
    • Peng, H.L., Novick, R.P., Kreiswirth, B., Kornblum, J. and Schlievert, P. (1988) Cloning, characterization, and sequencing of an accessory gene regulator (agr) in Staphylococcus aureus. J. Bacteriol., 170, 4365-4372.
    • (1988) J. Bacteriol. , vol.170 , pp. 4365-4372
    • Peng, H.L.1    Novick, R.P.2    Kreiswirth, B.3    Kornblum, J.4    Schlievert, P.5
  • 107
    • 0002014616 scopus 로고
    • Agr: a polycistronic locus regulating exoprotein synthesis in Staphylococcus aureus
    • Novick, R. (ed.) Wiley-VCH, New York
    • Kornblum, J., Kreiswirth, B., Projan, S.J., Ross, H. and Novick, R. (1990) Agr: a polycistronic locus regulating exoprotein synthesis in Staphylococcus aureus. In Novick, R. (ed.), Molecular Biology of the staphylococci. Wiley-VCH, New York, pp. 373-401.
    • (1990) Molecular Biology of the staphylococci , pp. 373-401
    • Kornblum, J.1    Kreiswirth, B.2    Projan, S.J.3    Ross, H.4    Novick, R.5
  • 108
    • 0014019390 scopus 로고
    • Penicillinase production and intrinsic resistance to penicillins in Staphylococcus aures
    • Dyke, K.G., Jevons, M.P. and Parker, M.T. (1966) Penicillinase production and intrinsic resistance to penicillins in Staphylococcus aures. Lancet, 1, 835-838.
    • (1966) Lancet , vol.1 , pp. 835-838
    • Dyke, K.G.1    Jevons, M.P.2    Parker, M.T.3
  • 109
    • 0002527348 scopus 로고
    • Staphylococcal coagulase; mode of action and antigenicity
    • Duthie, E.S. and Lorenz, L.L. (1952) Staphylococcal coagulase; mode of action and antigenicity. J. Gen. Microbiol., 6, 95-107.
    • (1952) J. Gen. Microbiol. , vol.6 , pp. 95-107
    • Duthie, E.S.1    Lorenz, L.L.2


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