메뉴 건너뛰기




Volumn 2, Issue 4, 2011, Pages 925-956

Conservation and occurrence of trans-encoded sRNAs in the rhizobiales

Author keywords

Comparative analyses; Rhizobiales; Trans encoded sRNAs

Indexed keywords

TRANS ENCODED SRNA; TRANSFER RNA; UNCLASSIFIED DRUG;

EID: 84055193377     PISSN: None     EISSN: 20734425     Source Type: Journal    
DOI: 10.3390/genes2040925     Document Type: Article
Times cited : (18)

References (95)
  • 2
    • 84855845215 scopus 로고    scopus 로고
    • RhizoGATE, Available online, accessed on 25 February 2011
    • RhizoGATE - The gateway to rhizobial genomes. Available online: http://www.rhizogate.de/(accessed on 25 February 2011).
    • The Gateway to Rhizobial Genomes
  • 3
    • 0037133946 scopus 로고    scopus 로고
    • Diverse regulators of gene expression in response toenvironmental changes
    • Wassarman, K.M. Small RNAs in bacteria
    • Wassarman, K.M. Small RNAs in bacteria: Diverse regulators of gene expression in response toenvironmental changes. Cell 2002, 109, 141-144.
    • (2002) Cell , vol.109 , pp. 141-144
  • 4
    • 3142564584 scopus 로고    scopus 로고
    • The smallRNA chaperone Hfq and multiple small RNAs control quorum sensing in Vibrio harveyi and Vibriocholerae
    • Lenz, D.H.; Mok, K.C.; Lilley, B.N.; Kulkarni, R.V.; Wingreen, N.S.; Bassler, B.L. The smallRNA chaperone Hfq and multiple small RNAs control quorum sensing in Vibrio harveyi and Vibriocholerae. Cell 2004, 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
  • 5
    • 57349189421 scopus 로고    scopus 로고
    • Small toxic proteins and the antisense RNAs that repress them
    • Fozo, E.M.; Hemm, M.R.; Storz, G. Small toxic proteins and the antisense RNAs that repress them. Microbiol. Mol. Biol. Rev. 2008, 72, 579-589.
    • (2008) Microbiol. Mol. Biol. Rev , vol.72 , pp. 579-589
    • Fozo, E.M.1    Hemm, M.R.2    Storz, G.3
  • 7
    • 0032531720 scopus 로고    scopus 로고
    • The Escherichia coli OxyS regulatoryRNA represses fhlA translation by blocking ribosome binding
    • Altuvia, S.; Zhang, A.; Argaman, L.; Tiwari, A.; Storz, G. The Escherichia coli OxyS regulatoryRNA represses fhlA translation by blocking ribosome binding. EMBO J. 1998, 17, 6069-6075.
    • (1998) EMBO J , vol.17 , pp. 6069-6075
    • Altuvia, S.1    Zhang, A.2    Argaman, L.3    Tiwari, A.4    Storz, G.5
  • 8
    • 0024428411 scopus 로고
    • The function of micF RNA. micF RNAis a major factor in the thermal regulation of OmpF protein in Escherichia coli
    • Andersen, J.; Forst, S.A.; Zhao, K.; Inouye, M.; Delihas, N. The function of micF RNA. micF RNAis a major factor in the thermal regulation of OmpF protein in Escherichia coli. J. Biol. Chem. 1989, 264, 17961-17970.
    • (1989) J. Biol. Chem , vol.264 , pp. 17961-17970
    • Andersen, J.1    Forst, S.A.2    Zhao, K.3    Inouye, M.4    Delihas, N.5
  • 9
    • 4944236203 scopus 로고    scopus 로고
    • MicC, a second small-RNA regulator of Omp proteinexpression in Escherichia coli
    • Chen, S.; Zhang, A.; Blyn, L.B.; Storz, G. MicC, a second small-RNA regulator of Omp proteinexpression in Escherichia coli. J. Bacteriol. 2004, 186, 6689-6697.
    • (2004) J. Bacteriol , vol.186 , pp. 6689-6697
    • Chen, S.1    Zhang, A.2    Blyn, L.B.3    Storz, G.4
  • 10
    • 0032514739 scopus 로고    scopus 로고
    • DsrA RNA regulatestranslation of RpoS message by an anti-antisense mechanism, independent of its action as anantisilencer of transcription
    • Majdalani, N.; Cunning, C.; Sledjeski, D.; Elliott, T.; Gottesman, S. DsrA RNA regulatestranslation of RpoS message by an anti-antisense mechanism, independent of its action as anantisilencer of transcription. Proc. Natl. Acad. Sci. USA 1998, 95, 12462-12467.
    • (1998) Proc. Natl. Acad. Sci. USA , vol.95 , pp. 12462-12467
    • Majdalani, N.1    Cunning, C.2    Sledjeski, D.3    Elliott, T.4    Gottesman, S.5
  • 11
    • 0141860088 scopus 로고    scopus 로고
    • Coupled degradation of a small regulatory RNA and itsmRNA targets in Escherichia coli
    • Mass é, E.; Escorcia, F.E.; Gottesman, S
    • Mass é, E.; Escorcia, F.E.; Gottesman, S. Coupled degradation of a small regulatory RNA and itsmRNA targets in Escherichia coli. Genes Dev. 2003, 17, 2374-2383.
    • (2003) Genes Dev , vol.17 , pp. 2374-2383
  • 13
    • 4944264194 scopus 로고    scopus 로고
    • GadY, a small-RNA regulator of acid response genes inEscherichia coli
    • Opdyke, J.A.; Kang, J.G.; Storz, G. GadY, a small-RNA regulator of acid response genes inEscherichia coli. J. Bacteriol. 2004, 186, 6698-6705.
    • (2004) J. Bacteriol , vol.186 , pp. 6698-6705
    • Opdyke, J.A.1    Kang, J.G.2    Storz, G.3
  • 14
    • 34247169597 scopus 로고    scopus 로고
    • CsrB sRNA family: Sequestration of RNA-binding regulatory proteins
    • Babitzke, P.; Romeo, T. CsrB sRNA family: Sequestration of RNA-binding regulatory proteins. Curr. Opin. Microbiol. 2007, 10, 156-163.
    • (2007) Curr. Opin. Microbiol , vol.10 , pp. 156-163
    • Babitzke, P.1    Romeo, T.2
  • 15
    • 0035395606 scopus 로고    scopus 로고
    • Identification of novel smallRNAs using comparative genomics and microarrays
    • Wassarman, K.M.; Repoila, F.; Rosenow, C.; Storz, G.; Gottesman, S. Identification of novel smallRNAs using comparative genomics and microarrays. Genes Dev. 2001, 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
  • 17
    • 0035806973 scopus 로고    scopus 로고
    • Computational identification of noncoding RNAs inE. coli by comparative genomics
    • Rivas, E.; Klein, R.J.; Jones, T.A.; Eddy, S.R. Computational identification of noncoding RNAs inE. coli by comparative genomics. Curr. Biol. 2001, 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
  • 18
    • 0036271043 scopus 로고    scopus 로고
    • 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.; Blyn, L.B. A bioinformatics based approach to discover small RNA genes in the Escherichia coli genome. Biosystems 2002, 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
  • 19
    • 59449089754 scopus 로고    scopus 로고
    • Identification of smallnoncoding RNAs in Helicobacter pylori by a bioinformatics-based approach
    • Xiao, B.; Li, W.; Guo, G.; Li, B.; Liu, Z.; Jia, K.; Guo, Y.; Mao, X.; Zou, Q. Identification of smallnoncoding RNAs in Helicobacter pylori by a bioinformatics-based approach. Curr. Microbiol. 2009, 58, 258-263.
    • (2009) Curr. Microbiol , vol.58 , pp. 258-263
    • Xiao, B.1    Li, W.2    Guo, G.3    Li, B.4    Liu, Z.5    Jia, K.6    Guo, Y.7    Mao, X.8    Zou, Q.9
  • 20
    • 33746533172 scopus 로고    scopus 로고
    • Identification of 17 Pseudomonas aeruginosasRNAs and prediction of sRNA-encoding genes in 10 diverse pathogens using the bioinformatictool sRNAPredict2
    • Livny, J.; Brencic, A.; Lory, S.; Waldor, M.K. Identification of 17 Pseudomonas aeruginosasRNAs and prediction of sRNA-encoding genes in 10 diverse pathogens using the bioinformatictool sRNAPredict2. Nucleic Acids Res. 2006, 34, 3484-3493.
    • (2006) Nucleic Acids Res , vol.34 , pp. 3484-3493
    • Livny, J.1    Brencic, A.2    Lory, S.3    Waldor, M.K.4
  • 24
    • 65549111754 scopus 로고    scopus 로고
    • Infernal 1.0: Inference of RNA alignments
    • Nawrocki, E.P.; Kolbe, D.L.; Eddy, S.R. Infernal 1.0: Inference of RNA alignments. Bioinformatics 2009, 25, 1335-1337.
    • (2009) Bioinformatics , vol.25 , pp. 1335-1337
    • Nawrocki, E.P.1    Kolbe, D.L.2    Eddy, S.R.3
  • 29
    • 52449093583 scopus 로고    scopus 로고
    • High-throughput, kingdom-wide prediction andannotation of bacterial non-coding RNAs
    • Livny, J.; Teonadi, H.; Livny, M.; Waldor, M.K. High-throughput, kingdom-wide prediction andannotation of bacterial non-coding RNAs. PLoS One 2008, 3, e3197:1-e3197:12.
    • (2008) PLoS One , vol.3
    • Livny, J.1    Teonadi, H.2    Livny, M.3    Waldor, M.K.4
  • 30
    • 76949103628 scopus 로고    scopus 로고
    • Genome-wide detection of predicted non-coding RNAs in Rhizobium etli expressed duringfree-living and host-associated growth using a high-resolution tiling array
    • Vercruysse, M.; Fauvart, M.; Cloots, L.; Engelen, K.; Thijs, I.M.; Marchal, K.; Michiels, J. Genome-wide detection of predicted non-coding RNAs in Rhizobium etli expressed duringfree-living and host-associated growth using a high-resolution tiling array. BMC Genomics 2010, 11, 53:1-54:12.
    • (2010) BMC Genomics , vol.11
    • Vercruysse, M.1    Fauvart, M.2    Cloots, L.3    Engelen, K.4    Thijs, I.M.5    Marchal, K.6    Michiels, J.7
  • 31
    • 84855836835 scopus 로고    scopus 로고
    • Deep sequencinguncovers numerous small RNAs on all four replicons of the plant pathogen Agrobacteriumtumefaciens
    • in presss
    • Wilms, I.; Overl̈oper, A.; Nowrousian, M.; Sharma, C.M.; Narberhaus, F. Deep sequencinguncovers numerous small RNAs on all four replicons of the plant pathogen Agrobacteriumtumefaciens. RNA Biol. 2012, 9, in presss.
    • (2012) RNA Biol , vol.9
    • Wilms, I.1    Overl̈oper, A.2    Nowrousian, M.3    Sharma, C.M.4    Narberhaus, F.5
  • 32
    • 9644278330 scopus 로고    scopus 로고
    • Two discreteelements are required for the replication of a repABC plasmid: An antisense RNA and a stem-loopstructure
    • Venkova-Canova, T.; Sober ón, N.E.; Ram írez-Romero, M.A.; Cevallos, M.A. Two discreteelements are required for the replication of a repABC plasmid: An antisense RNA and a stem-loopstructure. Mol. Microbiol. 2004, 54, 1431-1444.
    • (2004) Mol. Microbiol , vol.54 , pp. 1431-1444
    • Venkova-Canova, T.1    Soberón, N.E.2    Ramírez-Romero, M.A.3    Cevallos, M.A.4
  • 33
    • 13144275222 scopus 로고    scopus 로고
    • The expression of a novel antisensegene mediates incompatibility within the large repABC family of alpha-proteobacterial plasmids
    • MacLellan, S.R.; Smallbone, L.A.; Sibley, C.D.; Finan, T.M. The expression of a novel antisensegene mediates incompatibility within the large repABC family of alpha-proteobacterial plasmids. Mol. Microbiol. 2005, 55, 611-623.
    • (2005) Mol. Microbiol , vol.55 , pp. 611-623
    • Maclellan, S.R.1    Smallbone, L.A.2    Sibley, C.D.3    Finan, T.M.4
  • 34
    • 39149122829 scopus 로고
    • Identification of chromosomalalpha-proteobacterial small RNAs by comparative genome analysis and detection in Sinorhizobiummeliloti strain
    • Ulv é, V.M.; Sevin, E.W.; Ch éron, A.; Barloy-Hubler, F. Identification of chromosomalalpha-proteobacterial small RNAs by comparative genome analysis and detection in Sinorhizobiummeliloti strain 1021. BMC Genomics 2007, 8, 467:1-467:16.
    • (1021) BMC Genomics , vol.8
    • Ulvé, V.M.1    Sevin, E.W.2    Chéron, A.3    Barloy-Hubler, F.4
  • 36
    • 36148952518 scopus 로고    scopus 로고
    • Identification ofdifferentially expressed small non-coding RNAs in the legume endosymbiont Sinorhizobiummeliloti by comparative genomics
    • del Val, C.; Rivas, E.; Torres-Quesada, O.; Toro, N.; Jim énez-Zurdo, J.I. Identification ofdifferentially expressed small non-coding RNAs in the legume endosymbiont Sinorhizobiummeliloti by comparative genomics. Mol. Microbiol. 2007, 66, 1080-1091.
    • (2007) Mol. Microbiol , vol.66 , pp. 1080-1091
    • del Val, C.1    Rivas, E.2    Torres-Quesada, O.3    Toro, N.4    Jiménez-Zurdo, J.I.5
  • 44
    • 44449137652 scopus 로고    scopus 로고
    • Beyond cat scratch disease: Widening spectrum ofBartonella henselae infection
    • Florin, T.A.; Zaoutis, T.E.; Zaoutis, L.B. Beyond cat scratch disease: Widening spectrum ofBartonella henselae infection. Pediatrics 2008, 121, e1413-e1425.
    • (2008) Pediatrics , vol.121
    • Florin, T.A.1    Zaoutis, T.E.2    Zaoutis, L.B.3
  • 45
    • 33751179227 scopus 로고    scopus 로고
    • Agrobacterium tumefaciens and plant cell interactions and activitiesrequired for interkingdom macromolecular transfer
    • McCullen, C.A.; Binns, A.N. Agrobacterium tumefaciens and plant cell interactions and activitiesrequired for interkingdom macromolecular transfer. Annu. Rev. Cell. Dev. Biol. 2006, 22, 101-127.
    • (2006) Annu. Rev. Cell. Dev. Biol , vol.22 , pp. 101-127
    • McCullen, C.A.1    Binns, A.N.2
  • 47
    • 34547840236 scopus 로고    scopus 로고
    • Locomotif: From graphical motif description to RNA motifsearch
    • Reeder, J.; Reeder, J.; Giegerich, R. Locomotif: From graphical motif description to RNA motifsearch. Bioinformatics 2007, 23, i392-i400.
    • (2007) Bioinformatics , vol.23
    • Reeder, J.1    Reeder, J.2    Giegerich, R.3
  • 54
    • 63749124071 scopus 로고    scopus 로고
    • Biocomputational prediction of non-codingRNAs in model cyanobacteria
    • Voss, B.; Georg, J.; Scḧon, V.; Ude, S.; Hess, W.R. Biocomputational prediction of non-codingRNAs in model cyanobacteria. BMC Genomics 2009, 10, 123:1-123:15.
    • (2009) BMC Genomics , vol.10
    • Voss, B.1    Georg, J.2    Scḧon, V.3    Ude, S.4    Hess, W.R.5
  • 56
    • 10944235924 scopus 로고    scopus 로고
    • Comparative genomic structure of prokaryotes
    • Bentley, S.D.; Parkhill, J. Comparative genomic structure of prokaryotes. Annu. Rev. Genet. 2004,38, 771-792.
    • (2004) Annu. Rev. Genet , vol.38 , pp. 771-792
    • Bentley, S.D.1    Parkhill, J.2
  • 57
    • 0030210340 scopus 로고    scopus 로고
    • Gene order is not conserved in bacterial evolution
    • Mushegian, A.R.; Koonin, E.V. Gene order is not conserved in bacterial evolution. Trends Genet. 1996, 12, 289-290.
    • (1996) Trends Genet , vol.12 , pp. 289-290
    • Mushegian, A.R.1    Koonin, E.V.2
  • 58
    • 0035058359 scopus 로고    scopus 로고
    • Evolution of prokaryotic gene order: Genome rearrangements in closelyrelated species
    • Suyama, M.; Bork, P. Evolution of prokaryotic gene order: Genome rearrangements in closelyrelated species. Trends Genet. 2001, 17, 10-13.
    • (2001) Trends Genet , vol.17 , pp. 10-13
    • Suyama, M.1    Bork, P.2
  • 59
    • 0042659544 scopus 로고    scopus 로고
    • IS Rm31, a new insertion sequence of theIS 66 family in Sinorhizobium meliloti
    • Biondi, E.G.; Femia, A.P.; Favilli, F.; Bazzicalupo, M. IS Rm31, a new insertion sequence of theIS 66 family in Sinorhizobium meliloti. Arch. Microbiol. 2003, 180, 118-126.
    • (2003) Arch. Microbiol , vol.180 , pp. 118-126
    • Biondi, E.G.1    Femia, A.P.2    Favilli, F.3    Bazzicalupo, M.4
  • 60
    • 79956348656 scopus 로고    scopus 로고
    • Modeling conserved structure patterns for functional noncoding RNA
    • Chen, Q.; Chen, Y.P.P. Modeling conserved structure patterns for functional noncoding RNA. IEEETrans. Biomed. Eng. 2011, 58, 1528-1533.
    • (2011) IEEETrans. Biomed. Eng , vol.58 , pp. 1528-1533
    • Chen, Q.1    Chen, Y.P.P.2
  • 61
    • 38049182828 scopus 로고    scopus 로고
    • A motif-based search in bacterial genomesidentifies the ortholog of the small RNA Yfr1 in all lineages of cyanobacteria
    • Voss, B.; Gierga, G.; Axmann, I.M.; Hess, W.R. A motif-based search in bacterial genomesidentifies the ortholog of the small RNA Yfr1 in all lineages of cyanobacteria. BMC Genomics 2007, 8, 375:1-375:11.
    • (2007) BMC Genomics , vol.8
    • Voss, B.1    Gierga, G.2    Axmann, I.M.3    Hess, W.R.4
  • 62
    • 34447499141 scopus 로고    scopus 로고
    • Rapid, accurate, computational discovery ofRho-independent transcription terminators illuminates their relationship to DNA uptake
    • Kingsford, C.L.; Ayanbule, K.; Salzberg, S.L. Rapid, accurate, computational discovery ofRho-independent transcription terminators illuminates their relationship to DNA uptake. Genome Biol. 2007, 8, R22:1-R22:12.
    • (2007) Genome Biol , vol.8
    • Kingsford, C.L.1    Ayanbule, K.2    Salzberg, S.L.3
  • 63
    • 71549126189 scopus 로고    scopus 로고
    • Activation of gene expression by small RNA
    • Fr̈ohlich, K.S.; Vogel, J. Activation of gene expression by small RNA. Curr. Opin. Microbiol. 2009, 12, 674-682.
    • (2009) Curr. Opin. Microbiol , vol.12 , pp. 674-682
    • Fr̈ohlich, K.S.1    Vogel, J.2
  • 64
    • 80051973174 scopus 로고    scopus 로고
    • PolyU tail of rho-independent terminator of bacterialsmall RNAs is essential for Hfq action
    • Otaka, H.; Ishikawa, H.; Morita, T.; Aiba, H. PolyU tail of rho-independent terminator of bacterialsmall RNAs is essential for Hfq action. Proc. Natl. Acad. Sci. USA 2011, 108, 13059-13064.
    • (2011) Proc. Natl. Acad. Sci. USA , vol.108 , pp. 13059-13064
    • Otaka, H.1    Ishikawa, H.2    Morita, T.3    Aiba, H.4
  • 66
    • 77952044399 scopus 로고    scopus 로고
    • Interactions of the RNA-binding protein Hfq with cspAmRNA, encoding the major cold shock protein
    • Hankins, J.S.; Denroche, H.; Mackie, G.A. Interactions of the RNA-binding protein Hfq with cspAmRNA, encoding the major cold shock protein. J. Bacteriol. 2010, 192, 2482-2490.
    • (2010) J. Bacteriol , vol.192 , pp. 2482-2490
    • Hankins, J.S.1    Denroche, H.2    Mackie, G.A.3
  • 67
    • 34247109118 scopus 로고    scopus 로고
    • Hfq structure, function and ligand binding
    • Brennan, R.G.; Link, T.M. Hfq structure, function and ligand binding. Curr. Opin. Microbiol. 2007, 10, 125-133.
    • (2007) Curr. Opin. Microbiol , vol.10 , pp. 125-133
    • Brennan, R.G.1    Link, T.M.2
  • 68
    • 79952327376 scopus 로고    scopus 로고
    • Common anddivergent features in transcriptional control of the homologous small RNAs GlmY and GlmZ inEnterobacteriaceae
    • G̈opel, Y.; L̈uttmann, D.; Heroven, A.K.; Reichenbach, B.; Dersch, P.; G̈orke, B. Common anddivergent features in transcriptional control of the homologous small RNAs GlmY and GlmZ inEnterobacteriaceae. Nucleic Acids Res. 2011, 39, 1294-1309.
    • (2011) Nucleic Acids Res , vol.39 , pp. 1294-1309
    • G̈opel, Y.1    L̈uttmann, D.2    Heroven, A.K.3    Reichenbach, B.4    Dersch, P.5    G̈orke, B.6
  • 69
    • 77958563236 scopus 로고    scopus 로고
    • An upstream Hfq binding site in the fhlA mRNA leader region facilitatesthe OxyS-fhlA interaction
    • Salim, N.N.; Feig, A.L. An upstream Hfq binding site in the fhlA mRNA leader region facilitatesthe OxyS-fhlA interaction. PLoS One 2010, 5, e13028:1-e13028:11.
    • (2010) PLoS One , vol.5
    • Salim, N.N.1    Feig, A.L.2
  • 70
    • 0037012663 scopus 로고    scopus 로고
    • Antisense-RNA regulation and RNA interference. Biochim
    • Brantl, S. Antisense-RNA regulation and RNA interference. Biochim. Biophys. Acta 2002, 1575,15-25.
    • (2002) Biophys. Acta , vol.1575 , pp. 15-25
    • Brantl, S.1
  • 71
    • 14844284580 scopus 로고    scopus 로고
    • A small bacterial RNA regulates a putative ABCtransporter
    • Antal, M.; Bordeau, V.; Douchin, V.; Felden, B. A small bacterial RNA regulates a putative ABCtransporter. J. Biol. Chem. 2005, 280, 7901-7908.
    • (2005) J. Biol. Chem , vol.280 , pp. 7901-7908
    • Antal, M.1    Bordeau, V.2    Douchin, V.3    Felden, B.A.4
  • 72
    • 79955439407 scopus 로고    scopus 로고
    • Regulatory RNAs in cyanobacteria: Developmental decisions, stressresponses and a plethora of chromosomally encoded cis-antisense RNAs
    • Georg, J.; Hess, W.R. Regulatory RNAs in cyanobacteria: Developmental decisions, stressresponses and a plethora of chromosomally encoded cis-antisense RNAs. Biol. Chem. 2011,392, 291-297.
    • (2011) Biol. Chem , vol.392 , pp. 291-297
    • Georg, J.1    Hess, W.R.2
  • 73
    • 79954421372 scopus 로고    scopus 로고
    • Small RNA-mediated control of theAgrobacterium tumefaciens GABA binding protein
    • Wilms, I.; Voss, B.; Hess, W.R.; Leichert, L.I.; Narberhaus, F. Small RNA-mediated control of theAgrobacterium tumefaciens GABA binding protein. Mol. Microbiol. 2011, 80, 492-506.
    • (2011) Mol. Microbiol , vol.80 , pp. 492-506
    • Wilms, I.1    Voss, B.2    Hess, W.R.3    Leichert, L.I.4    Narberhaus, F.5
  • 74
    • 0034072868 scopus 로고    scopus 로고
    • Probing the structure ofRNAIII, the Staphylococcus aureus agr regulatory RNA, and identification of the RNA domaininvolved in repression of protein A expression
    • Benito, Y.; Kolb, F.A.; Romby, P.; Lina, G.; Etienne, J.; Vandenesch, F. Probing the structure ofRNAIII, the Staphylococcus aureus agr regulatory RNA, and identification of the RNA domaininvolved in repression of protein A expression. RNA 2000, 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
  • 76
    • 34249881878 scopus 로고    scopus 로고
    • Staphylococcus aureus RNAIII coordinately repressesthe 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. Staphylococcus aureus RNAIII coordinately repressesthe synthesis of virulence factors and the transcription regulator Rot by an antisense mechanism. Genes Dev. 2007, 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
  • 77
    • 52049089226 scopus 로고    scopus 로고
    • Down-regulation of outer membraneproteins by noncoding RNAs: Unraveling the cAMP-CRP- and sigmaE-dependent CyaR-ompXregulatory case
    • Johansen, J.; Eriksen, M.; Kallipolitis, B.; Valentin-Hansen, P. Down-regulation of outer membraneproteins by noncoding RNAs: Unraveling the cAMP-CRP- and sigmaE-dependent CyaR-ompXregulatory case. J. Mol. Biol. 2008, 383, 1-9.
    • (2008) J. Mol. Biol , vol.383 , pp. 1-9
    • Johansen, J.1    Eriksen, M.2    Kallipolitis, B.3    Valentin-Hansen, P.4
  • 78
    • 42549165769 scopus 로고    scopus 로고
    • Systematicdeletion of Salmonella small RNA genes identifies CyaR, a conserved CRP-dependentriboregulator of OmpX synthesis
    • Papenfort, K.; Pfeiffer, V.; Lucchini, S.; Sonawane, A.; Hinton, J.C.D.; Vogel, J. Systematicdeletion of Salmonella small RNA genes identifies CyaR, a conserved CRP-dependentriboregulator of OmpX synthesis. Mol. Microbiol. 2008, 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.D.5    Vogel, J.6
  • 79
    • 58649085492 scopus 로고    scopus 로고
    • The Crp-activated small noncoding regulatory RNA CyaR (RyeE) linksnutritional status to group behavior
    • Lay, N.D.; Gottesman, S. The Crp-activated small noncoding regulatory RNA CyaR (RyeE) linksnutritional status to group behavior. J. Bacteriol. 2009, 191, 461-476.
    • (2009) J. Bacteriol , vol.191 , pp. 461-476
    • Lay, N.D.1    Gottesman, S.2
  • 80
    • 72049118448 scopus 로고    scopus 로고
    • Photooxidative stress-induced andabundant small RNAs in Rhodobacter sphaeroides
    • Berghoff, B.A.; Glaeser, J.; Sharma, C.M.; Vogel, J.; Klug, G. Photooxidative stress-induced andabundant small RNAs in Rhodobacter sphaeroides. Mol. Microbiol. 2009, 74, 1497-1512.
    • (2009) Mol. Microbiol , vol.74 , pp. 1497-1512
    • Berghoff, B.A.1    Glaeser, J.2    Sharma, C.M.3    Vogel, J.4    Klug, G.5
  • 82
    • 84855862727 scopus 로고    scopus 로고
    • NCBI genomes FTP site. Available online, accessed on 25 February 2011
    • NCBI genomes FTP site. Available online: ftp://ftp.ncbi.nlm.nih.gov/genbank/genomes/Bacteria/(accessed on 25 February 2011).
  • 83
    • 71849109186 scopus 로고    scopus 로고
    • The tedious task of finding homologous noncoding RNAgenes
    • Menzel, P.; Gorodkin, J.; Stadler, P.F. The tedious task of finding homologous noncoding RNAgenes. RNA 2009, 15, 2075-2082.
    • (2009) RNA , vol.15 , pp. 2075-2082
    • Menzel, P.1    Gorodkin, J.2    Stadler, P.F.3
  • 86
    • 13244291417 scopus 로고    scopus 로고
    • Large scale hierarchical clustering of protein sequences
    • Krause, A.; Stoye, J.; Vingron, M. Large scale hierarchical clustering of protein sequences. BMC Bioinform. 2005, 6, 15:1-15:12.
    • (2005) BMC Bioinform , vol.6
    • Krause, A.1    Stoye, J.2    Vingron, M.3
  • 87
    • 34247598415 scopus 로고    scopus 로고
    • Inferring noncoding RNA familiesand classes by means of genome-scale structure-based clustering
    • Will, S.; Reiche, K.; Hofacker, I.L.; Stadler, P.F.; Backofen, R. Inferring noncoding RNA familiesand classes by means of genome-scale structure-based clustering. PLoS Comput. Biol. 2007, 3,e65:1-e65:15.
    • (2007) PLoS Comput. Biol , vol.3
    • Will, S.1    Reiche, K.2    Hofacker, I.L.3    Stadler, P.F.4    Backofen, R.5
  • 88
    • 0036301332 scopus 로고    scopus 로고
    • Secondary structure prediction for aligned RNA sequences
    • Hofacker, I.L.; Fekete, M.; Stadler, P.F. Secondary structure prediction for aligned RNA sequences. J. Mol. Biol. 2002, 319, 1059-1066.
    • (2002) J. Mol. Biol , vol.319 , pp. 1059-1066
    • Hofacker, I.L.1    Fekete, M.2    Stadler, P.F.3
  • 90
    • 84855862726 scopus 로고    scopus 로고
    • The Bielefeld Bioinformatics Server. Available online, accessed on 10 May 2011
    • The Bielefeld Bioinformatics Server. Available online: http://bibiserv.techfak.uni-bielefeld.de/(accessed on 10 May 2011).
  • 93
    • 32544440797 scopus 로고    scopus 로고
    • RNAshapes: An integrated RNAanalysis package based on abstract shapes
    • Steffen, P.; Voss, B.; Rehmsmeier, M.; Reeder, J.; Giegerich, R. RNAshapes: An integrated RNAanalysis package based on abstract shapes. Bioinformatics 2006, 22, 500-503.
    • (2006) Bioinformatics , vol.22 , pp. 500-503
    • Steffen, P.1    Voss, B.2    Rehmsmeier, M.3    Reeder, J.4    Giegerich, R.5
  • 95
    • 24144497144 scopus 로고    scopus 로고
    • Consensus shapes: An alternative to the Sankoff algorithm for RNAconsensus structure prediction
    • Reeder, J.; Giegerich, R. Consensus shapes: An alternative to the Sankoff algorithm for RNAconsensus structure prediction. Bioinformatics 2005, 21, 3516-3523.
    • (2005) Bioinformatics , vol.21 , pp. 3516-3523
    • Reeder, J.1    Giegerich, R.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.