메뉴 건너뛰기




Volumn 14, Issue 6, 2013, Pages 683-695

An infection-relevant transcriptomic compendium for salmonella enterica serovar typhimurium

Author keywords

[No Author keywords available]

Indexed keywords

RNA; TRANSCRIPTOME; TRANSFER RNA;

EID: 84890302568     PISSN: 19313128     EISSN: 19346069     Source Type: Journal    
DOI: 10.1016/j.chom.2013.11.010     Document Type: Article
Times cited : (369)

References (65)
  • 1
    • 0031459386 scopus 로고    scopus 로고
    • A small, stable RNA induced by oxidative stress: Role as a pleiotropic regulator and antimutator
    • S. Altuvia, D. Weinstein-Fischer, A. Zhang, L. Postow, and G. Storz A small, stable RNA induced by oxidative stress: role as a pleiotropic regulator and antimutator Cell 90 1997 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
  • 2
  • 4
    • 85011940038 scopus 로고    scopus 로고
    • A comprehensive study of the contribution of Salmonella enterica serovar Typhimurium SPI2 effectors to bacterial colonization, survival, and replication in typhoid fever, macrophage, and epithelial cell infection models
    • M.M. Buckner, M.A. Croxen, E.T. Arena, and B.B. Finlay A comprehensive study of the contribution of Salmonella enterica serovar Typhimurium SPI2 effectors to bacterial colonization, survival, and replication in typhoid fever, macrophage, and epithelial cell infection models Virulence 2 2011 208 216
    • (2011) Virulence , vol.2 , pp. 208-216
    • Buckner, M.M.1    Croxen, M.A.2    Arena, E.T.3    Finlay, B.B.4
  • 5
    • 84867577054 scopus 로고    scopus 로고
    • An atlas of Hfq-bound transcripts reveals 3′ UTRs as a genomic reservoir of regulatory small RNAs
    • Y. Chao, K. Papenfort, R. Reinhardt, C.M. Sharma, and J. Vogel An atlas of Hfq-bound transcripts reveals 3′ UTRs as a genomic reservoir of regulatory small RNAs EMBO J. 31 2012 4005 4019
    • (2012) EMBO J. , vol.31 , pp. 4005-4019
    • Chao, Y.1    Papenfort, K.2    Reinhardt, R.3    Sharma, C.M.4    Vogel, J.5
  • 9
    • 84878482772 scopus 로고    scopus 로고
    • High-resolution transcriptome maps reveal strain-specific regulatory features of multiple Campylobacter jejuni isolates
    • G. Dugar, A. Herbig, K.U. Förstner, N. Heidrich, R. Reinhardt, K. Nieselt, and C.M. Sharma High-resolution transcriptome maps reveal strain-specific regulatory features of multiple Campylobacter jejuni isolates PLoS Genet. 9 2013 e1003495
    • (2013) PLoS Genet. , vol.9 , pp. 1003495
    • Dugar, G.1    Herbig, A.2    Förstner, K.U.3    Heidrich, N.4    Reinhardt, R.5    Nieselt, K.6    Sharma, C.M.7
  • 10
    • 84875737333 scopus 로고    scopus 로고
    • Salmonella enterica serovar Typhimurium skills to succeed in the host: Virulence and regulation
    • A. Fàbrega, and J. Vila Salmonella enterica serovar Typhimurium skills to succeed in the host: virulence and regulation Clin. Microbiol. Rev. 26 2013 308 341
    • (2013) Clin. Microbiol. Rev. , vol.26 , pp. 308-341
    • Fàbrega, A.1    Vila, J.2
  • 11
    • 63749110404 scopus 로고    scopus 로고
    • Control of Salmonella pathogenicity island-2 gene expression
    • E. Fass, and E.A. Groisman Control of Salmonella pathogenicity island-2 gene expression Curr. Opin. Microbiol. 12 2009 199 204
    • (2009) Curr. Opin. Microbiol. , vol.12 , pp. 199-204
    • Fass, E.1    Groisman, E.A.2
  • 12
    • 84880080554 scopus 로고    scopus 로고
    • Identification of Salmonella pathogenicity island-2 type III secretion system effectors involved in intramacrophage replication of S enterica serovar typhimurium: Implications for rational vaccine design
    • R. Figueira, K.G. Watson, D.W. Holden, and S. Helaine Identification of Salmonella pathogenicity island-2 type III secretion system effectors involved in intramacrophage replication of S. enterica serovar typhimurium: implications for rational vaccine design MBio 4 2013 e00065
    • (2013) MBio , vol.4 , pp. 00065
    • Figueira, R.1    Watson, K.G.2    Holden, D.W.3    Helaine, S.4
  • 13
    • 84858860817 scopus 로고    scopus 로고
    • A conserved RpoS-dependent small RNA controls the synthesis of major porin OmpD
    • K.S. Fröhlich, K. Papenfort, A.A. Berger, and J. Vogel A conserved RpoS-dependent small RNA controls the synthesis of major porin OmpD Nucleic Acids Res. 40 2012 3623 3640
    • (2012) Nucleic Acids Res. , vol.40 , pp. 3623-3640
    • Fröhlich, K.S.1    Papenfort, K.2    Berger, A.A.3    Vogel, J.4
  • 14
    • 34848901978 scopus 로고    scopus 로고
    • Salmonella pathogenicity island 4-mediated adhesion is coregulated with invasion genes in Salmonella enterica
    • R.G. Gerlach, D. Jäckel, N. Geymeier, and M. Hensel Salmonella pathogenicity island 4-mediated adhesion is coregulated with invasion genes in Salmonella enterica Infect. Immun. 75 2007 4697 4709
    • (2007) Infect. Immun. , vol.75 , pp. 4697-4709
    • Gerlach, R.G.1    Jäckel, D.2    Geymeier, N.3    Hensel, M.4
  • 15
    • 84855444572 scopus 로고    scopus 로고
    • Integrating global regulatory input into the Salmonella pathogenicity island 1 type III secretion system
    • Y.A. Golubeva, A.Y. Sadik, J.R. Ellermeier, and J.M. Slauch Integrating global regulatory input into the Salmonella pathogenicity island 1 type III secretion system Genetics 190 2012 79 90
    • (2012) Genetics , vol.190 , pp. 79-90
    • Golubeva, Y.A.1    Sadik, A.Y.2    Ellermeier, J.R.3    Slauch, J.M.4
  • 16
    • 84871599142 scopus 로고    scopus 로고
    • How deep is deep enough for RNA-Seq profiling of bacterial transcriptomes?
    • B.J. Haas, M. Chin, C. Nusbaum, B.W. Birren, and J. Livny How deep is deep enough for RNA-Seq profiling of bacterial transcriptomes? BMC Genomics 13 2012 734
    • (2012) BMC Genomics , vol.13 , pp. 734
    • Haas, B.J.1    Chin, M.2    Nusbaum, C.3    Birren, B.W.4    Livny, J.5
  • 17
    • 79954417053 scopus 로고    scopus 로고
    • The challenge of relating gene expression to the virulence of Salmonella enterica serovar Typhimurium
    • M. Hébrard, C. Kröger, S.K. Sivasankaran, K. Händler, and J.C. Hinton The challenge of relating gene expression to the virulence of Salmonella enterica serovar Typhimurium Curr. Opin. Biotechnol. 22 2011 200 210
    • (2011) Curr. Opin. Biotechnol. , vol.22 , pp. 200-210
    • Hébrard, M.1    Kröger, C.2    Sivasankaran, S.K.3    Händler, K.4    Hinton, J.C.5
  • 20
    • 16344389554 scopus 로고    scopus 로고
    • Identification of Salmonella functions critical for bacterial cell division within eukaryotic cells
    • T. Henry, F. García-Del Portillo, and J.P. Gorvel Identification of Salmonella functions critical for bacterial cell division within eukaryotic cells Mol. Microbiol. 56 2005 252 267
    • (2005) Mol. Microbiol. , vol.56 , pp. 252-267
    • Henry, T.1    García-Del Portillo, F.2    Gorvel, J.P.3
  • 22
    • 0019407618 scopus 로고
    • Aromatic-dependent Salmonella typhimurium are non-virulent and effective as live vaccines
    • S.K. Hoiseth, and B.A. Stocker Aromatic-dependent Salmonella typhimurium are non-virulent and effective as live vaccines Nature 291 1981 238 239
    • (1981) Nature , vol.291 , pp. 238-239
    • Hoiseth, S.K.1    Stocker, B.A.2
  • 24
    • 54249116230 scopus 로고
    • Genetic regulatory mechanisms in the synthesis of proteins
    • F. Jacob, and J. Monod Genetic regulatory mechanisms in the synthesis of proteins J. Mol. Biol. 3 1961 318 356
    • (1961) J. Mol. Biol. , vol.3 , pp. 318-356
    • Jacob, F.1    Monod, J.2
  • 25
    • 0024291962 scopus 로고
    • Passive protection of calves against experimental infection with Salmonella typhimurium
    • P.W. Jones, P. Collins, and M.M. Aitken Passive protection of calves against experimental infection with Salmonella typhimurium Vet. Rec. 123 1988 536 541
    • (1988) Vet. Rec. , vol.123 , pp. 536-541
    • Jones, P.W.1    Collins, P.2    Aitken, M.M.3
  • 26
    • 0036226551 scopus 로고    scopus 로고
    • Salmonella effectors within a single pathogenicity island are differentially expressed and translocated by separate type III secretion systems
    • L.A. Knodler, J. Celli, W.D. Hardt, B.A. Vallance, C. Yip, and B.B. Finlay Salmonella effectors within a single pathogenicity island are differentially expressed and translocated by separate type III secretion systems Mol. Microbiol. 43 2002 1089 1103
    • (2002) Mol. Microbiol. , vol.43 , pp. 1089-1103
    • Knodler, L.A.1    Celli, J.2    Hardt, W.D.3    Vallance, B.A.4    Yip, C.5    Finlay, B.B.6
  • 27
    • 58649103548 scopus 로고    scopus 로고
    • Characterization of the myo-inositol utilization island of Salmonella enterica serovar Typhimurium
    • C. Kröger, and T.M. Fuchs Characterization of the myo-inositol utilization island of Salmonella enterica serovar Typhimurium J. Bacteriol. 191 2009 545 554
    • (2009) J. Bacteriol. , vol.191 , pp. 545-554
    • Kröger, C.1    Fuchs, T.M.2
  • 30
    • 33750220325 scopus 로고    scopus 로고
    • Regulation of Salmonella pathogenicity island 2 genes by independent environmental signals
    • S. Löber, D. Jäckel, N. Kaiser, and M. Hensel Regulation of Salmonella pathogenicity island 2 genes by independent environmental signals Int. J. Med. Microbiol. 296 2006 435 447
    • (2006) Int. J. Med. Microbiol. , vol.296 , pp. 435-447
    • Löber, S.1    Jäckel, D.2    Kaiser, N.3    Hensel, M.4
  • 31
    • 40749120149 scopus 로고    scopus 로고
    • Coordinate regulation of Salmonella pathogenicity island 1 (SPI1) and SPI4 in Salmonella enterica serovar Typhimurium
    • K.L. Main-Hester, K.M. Colpitts, G.A. Thomas, F.C. Fang, and S.J. Libby Coordinate regulation of Salmonella pathogenicity island 1 (SPI1) and SPI4 in Salmonella enterica serovar Typhimurium Infect. Immun. 76 2008 1024 1035
    • (2008) Infect. Immun. , vol.76 , pp. 1024-1035
    • Main-Hester, K.L.1    Colpitts, K.M.2    Thomas, G.A.3    Fang, F.C.4    Libby, S.J.5
  • 32
    • 0035100582 scopus 로고    scopus 로고
    • Regulation of RpoS by a novel small RNA: The characterization of RprA
    • N. Majdalani, S. Chen, J. Murrow, K. St John, and S. Gottesman Regulation of RpoS by a novel small RNA: the characterization of RprA Mol. Microbiol. 39 2001 1382 1394
    • (2001) Mol. Microbiol. , vol.39 , pp. 1382-1394
    • Majdalani, N.1    Chen, S.2    Murrow, J.3    St John, K.4    Gottesman, S.5
  • 37
    • 45549088326 scopus 로고    scopus 로고
    • The transcriptional landscape of the yeast genome defined by RNA sequencing
    • U. Nagalakshmi, Z. Wang, K. Waern, C. Shou, D. Raha, M. Gerstein, and M. Snyder The transcriptional landscape of the yeast genome defined by RNA sequencing Science 320 2008 1344 1349
    • (2008) Science , vol.320 , pp. 1344-1349
    • Nagalakshmi, U.1    Wang, Z.2    Waern, K.3    Shou, C.4    Raha, D.5    Gerstein, M.6    Snyder, M.7
  • 38
    • 70349739736 scopus 로고    scopus 로고
    • The Integrated Genome Browser: Free software for distribution and exploration of genome-scale datasets
    • J.W. Nicol, G.A. Helt, S.G. Blanchard Jr., A. Raja, and A.E. Loraine The Integrated Genome Browser: free software for distribution and exploration of genome-scale datasets Bioinformatics 25 2009 2730 2731
    • (2009) Bioinformatics , vol.25 , pp. 2730-2731
    • Nicol, J.W.1    Helt, G.A.2    Blanchard, Jr.S.G.3    Raja, A.4    Loraine, A.E.5
  • 41
    • 77958028354 scopus 로고    scopus 로고
    • Regulatory RNA in bacterial pathogens
    • K. Papenfort, and J. Vogel Regulatory RNA in bacterial pathogens Cell Host Microbe 8 2010 116 127
    • (2010) Cell Host Microbe , vol.8 , pp. 116-127
    • Papenfort, K.1    Vogel, J.2
  • 42
    • 33751383274 scopus 로고    scopus 로고
    • SigmaE-dependent small RNAs of Salmonella respond to membrane stress by accelerating global omp mRNA decay
    • K. Papenfort, V. Pfeiffer, F. Mika, S. Lucchini, J.C. Hinton, and J. Vogel SigmaE-dependent small RNAs of Salmonella respond to membrane stress by accelerating global omp mRNA decay Mol. Microbiol. 62 2006 1674 1688
    • (2006) Mol. Microbiol. , vol.62 , pp. 1674-1688
    • Papenfort, K.1    Pfeiffer, V.2    Mika, F.3    Lucchini, S.4    Hinton, J.C.5    Vogel, J.6
  • 43
    • 84859451156 scopus 로고    scopus 로고
    • The ancestral SgrS RNA discriminates horizontally acquired Salmonella mRNAs through a single G-U wobble pair
    • K. Papenfort, D. Podkaminski, J.C. Hinton, and J. Vogel The ancestral SgrS RNA discriminates horizontally acquired Salmonella mRNAs through a single G-U wobble pair Proc. Natl. Acad. Sci. USA 109 2012 E757 E764
    • (2012) Proc. Natl. Acad. Sci. USA , vol.109
    • Papenfort, K.1    Podkaminski, D.2    Hinton, J.C.3    Vogel, J.4
  • 44
    • 84876234571 scopus 로고    scopus 로고
    • Small RNA-Mediated Activation of Sugar Phosphatase mRNA Regulates Glucose Homeostasis
    • K. Papenfort, Y. Sun, M. Miyakoshi, C.K. Vanderpool, and J. Vogel Small RNA-Mediated Activation of Sugar Phosphatase mRNA Regulates Glucose Homeostasis Cell 153 2013 426 437
    • (2013) Cell , vol.153 , pp. 426-437
    • Papenfort, K.1    Sun, Y.2    Miyakoshi, M.3    Vanderpool, C.K.4    Vogel, J.5
  • 45
    • 36148969305 scopus 로고    scopus 로고
    • A small non-coding RNA of the invasion gene island (SPI-1) represses outer membrane protein synthesis from the Salmonella core genome
    • V. Pfeiffer, A. Sittka, R. Tomer, K. Tedin, V. Brinkmann, and J. Vogel A small non-coding RNA of the invasion gene island (SPI-1) represses outer membrane protein synthesis from the Salmonella core genome Mol. Microbiol. 66 2007 1174 1191
    • (2007) Mol. Microbiol. , vol.66 , pp. 1174-1191
    • Pfeiffer, V.1    Sittka, A.2    Tomer, R.3    Tedin, K.4    Brinkmann, V.5    Vogel, J.6
  • 46
    • 77951589688 scopus 로고    scopus 로고
    • Cooperation between translating ribosomes and RNA polymerase in transcription elongation
    • S. Proshkin, A.R. Rahmouni, A. Mironov, and E. Nudler Cooperation between translating ribosomes and RNA polymerase in transcription elongation Science 328 2010 504 508
    • (2010) Science , vol.328 , pp. 504-508
    • Proshkin, S.1    Rahmouni, A.R.2    Mironov, A.3    Nudler, E.4
  • 47
    • 0034443263 scopus 로고    scopus 로고
    • Salmonella enterica serovar typhimurium invasion is repressed in the presence of bile
    • A.M. Prouty, and J.S. Gunn Salmonella enterica serovar typhimurium invasion is repressed in the presence of bile Infect. Immun. 68 2000 6763 6769
    • (2000) Infect. Immun. , vol.68 , pp. 6763-6769
    • Prouty, A.M.1    Gunn, J.S.2
  • 48
    • 84865728811 scopus 로고    scopus 로고
    • Antisense transcription is pervasive but rarely conserved in enteric bacteria
    • e00156-e00112
    • R. Raghavan, D.B. Sloan, and H. Ochman Antisense transcription is pervasive but rarely conserved in enteric bacteria MBio 3 2012 e00156-e00112
    • (2012) MBio , vol.3
    • Raghavan, R.1    Sloan, D.B.2    Ochman, H.3
  • 49
    • 0014024046 scopus 로고
    • The estimation of doses of Salmonella typhimurium suitable for the experimental production of disease in calves
    • J.D. Rankin, and R.J. Taylor The estimation of doses of Salmonella typhimurium suitable for the experimental production of disease in calves Vet. Rec. 78 1966 706 707
    • (1966) Vet. Rec. , vol.78 , pp. 706-707
    • Rankin, J.D.1    Taylor, R.J.2
  • 50
    • 79958037599 scopus 로고    scopus 로고
    • Genome sequences of Salmonella enterica serovar typhimurium, Choleraesuis, Dublin, and Gallinarum strains of well- defined virulence in food-producing animals
    • E.J. Richardson, B. Limaye, H. Inamdar, A. Datta, K.S. Manjari, G.D. Pullinger, N.R. Thomson, R.R. Joshi, M. Watson, and M.P. Stevens Genome sequences of Salmonella enterica serovar typhimurium, Choleraesuis, Dublin, and Gallinarum strains of well- defined virulence in food-producing animals J. Bacteriol. 193 2011 3162 3163
    • (2011) J. Bacteriol. , vol.193 , pp. 3162-3163
    • Richardson, E.J.1    Limaye, B.2    Inamdar, H.3    Datta, A.4    Manjari, K.S.5    Pullinger, G.D.6    Thomson, N.R.7    Joshi, R.R.8    Watson, M.9    Stevens, M.P.10
  • 52
    • 77749314807 scopus 로고    scopus 로고
    • So similar, yet so different: Uncovering distinctive features in the genomes of Salmonella enterica serovars Typhimurium and Typhi
    • S.C. Sabbagh, C.G. Forest, C. Lepage, J.M. Leclerc, and F. Daigle So similar, yet so different: uncovering distinctive features in the genomes of Salmonella enterica serovars Typhimurium and Typhi FEMS Microbiol. Lett. 305 2010 1 13
    • (2010) FEMS Microbiol. Lett. , vol.305 , pp. 1-13
    • Sabbagh, S.C.1    Forest, C.G.2    Lepage, C.3    Leclerc, J.M.4    Daigle, F.5
  • 54
  • 56
    • 0029982562 scopus 로고    scopus 로고
    • The RNA chain elongation rate of the lambda late mRNA is unaffected by high levels of ppGpp in the absence of amino acid starvation
    • K. Tedin, and U. Bläsi The RNA chain elongation rate of the lambda late mRNA is unaffected by high levels of ppGpp in the absence of amino acid starvation J. Biol. Chem. 271 1996 17675 17686
    • (1996) J. Biol. Chem. , vol.271 , pp. 17675-17686
    • Tedin, K.1    Bläsi, U.2
  • 57
    • 84874181433 scopus 로고    scopus 로고
    • Using topology to tame the complex biochemistry of genetic networks
    • M. Thattai Using topology to tame the complex biochemistry of genetic networks Philos. Trans. A. Math Phys. Eng. Sci. 371 2013 20110548
    • (2013) Philos. Trans. A. Math Phys. Eng. Sci. , vol.371 , pp. 20110548
    • Thattai, M.1
  • 59
    • 77950441670 scopus 로고    scopus 로고
    • Identification of the regulatory logic controlling Salmonella pathoadaptation by the SsrA-SsrB two-component system
    • A.M. Tomljenovic-Berube, D.T. Mulder, M.D. Whiteside, F.S. Brinkman, and B.K. Coombes Identification of the regulatory logic controlling Salmonella pathoadaptation by the SsrA-SsrB two-component system PLoS Genet. 6 2010 e1000875
    • (2010) PLoS Genet. , vol.6 , pp. 1000875
    • Tomljenovic-Berube, A.M.1    Mulder, D.T.2    Whiteside, M.D.3    Brinkman, F.S.4    Coombes, B.K.5
  • 60
    • 79960433506 scopus 로고    scopus 로고
    • Hfq and its constellation of RNA
    • J. Vogel, and B.F. Luisi Hfq and its constellation of RNA Nat. Rev. Microbiol. 9 2011 578 589
    • (2011) Nat. Rev. Microbiol. , vol.9 , pp. 578-589
    • Vogel, J.1    Luisi, B.F.2
  • 61
    • 84872033704 scopus 로고    scopus 로고
    • Measurement of mRNA abundance using RNA-seq data: RPKM measure is inconsistent among samples
    • G.P. Wagner, K. Kin, and V.J. Lynch Measurement of mRNA abundance using RNA-seq data: RPKM measure is inconsistent among samples Theory Biosci. 131 2012 281 285
    • (2012) Theory Biosci. , vol.131 , pp. 281-285
    • Wagner, G.P.1    Kin, K.2    Lynch, V.J.3
  • 62
    • 84890310834 scopus 로고    scopus 로고
    • A model based criterion for gene expression calls using RNA-seq data
    • G.P. Wagner, K. Kin, and V.J. Lynch A model based criterion for gene expression calls using RNA-seq data Theory Biosci. 132 2013 159 164
    • (2013) Theory Biosci. , vol.132 , pp. 159-164
    • Wagner, G.P.1    Kin, K.2    Lynch, V.J.3
  • 63
    • 1942487896 scopus 로고    scopus 로고
    • Gene expression patterns during swarming in Salmonella typhimurium: Genes specific to surface growth and putative new motility and pathogenicity genes
    • Q. Wang, J.G. Frye, M. McClelland, and R.M. Harshey Gene expression patterns during swarming in Salmonella typhimurium: genes specific to surface growth and putative new motility and pathogenicity genes Mol. Microbiol. 52 2004 169 187
    • (2004) Mol. Microbiol. , vol.52 , pp. 169-187
    • Wang, Q.1    Frye, J.G.2    McClelland, M.3    Harshey, R.M.4
  • 65
    • 69949161187 scopus 로고    scopus 로고
    • Multiple redundant stress resistance mechanisms are induced in Salmonella enterica serovar Typhimurium in response to alteration of the intracellular environment via TLR4 signalling
    • J.A. Wright, S.S. Tötemeyer, I. Hautefort, C. Appia-Ayme, M. Alston, V. Danino, G.K. Paterson, P. Mastroeni, N. Ménager, and M. Rolfe Multiple redundant stress resistance mechanisms are induced in Salmonella enterica serovar Typhimurium in response to alteration of the intracellular environment via TLR4 signalling Microbiology 155 2009 2919 2929
    • (2009) Microbiology , vol.155 , pp. 2919-2929
    • Wright, J.A.1    Tötemeyer, S.S.2    Hautefort, I.3    Appia-Ayme, C.4    Alston, M.5    Danino, V.6    Paterson, G.K.7    Mastroeni, P.8    Ménager, N.9    Rolfe, M.10


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.