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Volumn 39, Issue 1, 2014, Pages 53-61

Inhibition of factor-dependent transcription termination in Escherichia coli might relieve xenogene silencing by abrogating H-NS-DNA interactions in vivo

Author keywords

Gene silencing; hns; horizontal gene transfer; rho; transcription termination

Indexed keywords

BACTERIAL DNA; DNA FRAGMENT; HISTONE LIKE NUCLEOID STRUCTURING PROTEIN;

EID: 84896037136     PISSN: 02505991     EISSN: 09737138     Source Type: Journal    
DOI: 10.1007/s12038-014-9413-4     Document Type: Article
Times cited : (14)

References (32)
  • 1
    • 84861133568 scopus 로고    scopus 로고
    • A computational pipeline for comparative ChIP-seq analyses
    • Bardet AF, He Q, Zeitlinger J and Stark A 2012 A computational pipeline for comparative ChIP-seq analyses. Nat. Protoc. 7 45-61
    • (2012) Nat. Protoc. , vol.7 , pp. 45-61
    • Bardet, A.F.1    He, Q.2    Zeitlinger, J.3    Stark, A.4
  • 2
    • 2442483884 scopus 로고    scopus 로고
    • The DNA binding protein H-NS binds to and alters the stability of RNA in vitro and in vivo
    • DOI 10.1016/j.jmb.2004.03.067, PII S0022283604003821
    • Brescia CC, Kaw MK and Sledjeski DD 2004 The DNA binding protein H-NS binds to and alters the stability of RNA in vitro and in vivo. J. Mol. Biol. 339 505-514 (Pubitemid 38625903)
    • (2004) Journal of Molecular Biology , vol.339 , Issue.3 , pp. 505-514
    • Brescia, C.C.1    Kaw, M.K.2    Sledjeski, D.D.3
  • 3
    • 84859235790 scopus 로고    scopus 로고
    • A fundamental regulatory mechanism operating through OmpR and DNA topology controls expression of Salmonella pathogenicity islands SPI-1 and SPI-2
    • Cameron ADS and Dorman CJ 2012 A fundamental regulatory mechanism operating through OmpR and DNA topology controls expression of Salmonella pathogenicity islands SPI-1 and SPI-2. PLoS Genet. 8 e1002615
    • (2012) PLoS Genet. , vol.8
    • Cameron, A.D.S.1    Dorman, C.J.2
  • 4
    • 44249091644 scopus 로고    scopus 로고
    • Termination factor Rho and its cofactors NusA and NusG silence foreign DNA in E. coli
    • DOI 10.1126/science.1152763
    • Cardinale CJ, Washburn RS, Tadigotla VR, et al. 2008 Termination factor Rho and its cofactors NusA and NusG silence foreign DNA in E. coli. Science 320 935-938 (Pubitemid 351929589)
    • (2008) Science , vol.320 , Issue.5878 , pp. 935-938
    • Cardinale, C.J.1    Washburn, R.S.2    Tadigotla, V.R.3    Brown, L.M.4    Gottesman, M.E.5    Nudler, E.6
  • 5
    • 33751098486 scopus 로고    scopus 로고
    • Bacterial chromatin organization by H-NS protein unravelled using dual DNA manipulation
    • DOI 10.1038/nature05283, PII NATURE05283
    • Dame RT, Noom MC and Wuite GJL 2006 Bacterial chromatin organization by H-NS protein unravelled using dual DNA manipulation. Nature 444 387-390 (Pubitemid 44764116)
    • (2006) Nature , vol.444 , Issue.7117 , pp. 387-390
    • Dame, R.T.1    Noom, M.C.2    Wuite, G.J.L.3
  • 7
    • 1942475805 scopus 로고    scopus 로고
    • The Protease Lon and the RNA-Binding Protein Hfq Reduce Silencing of the Escherichia coli bgl Operon by H-NS
    • DOI 10.1128/JB.186.9.2708-2716.2004
    • Dole S, Klingen Y, Nagarajavel V and Schnetz K 2004a The protease Lon and the RNA-binding protein Hfq reduce silencing of the Escherichia coli bgl operon by H-NS. J. Bacteriol. 186 2708-16 (Pubitemid 38525925)
    • (2004) Journal of Bacteriology , vol.186 , Issue.9 , pp. 2708-2716
    • Dole, S.1    Klingen, Y.2    Nagarajavel, V.3    Schnetz, K.4
  • 8
    • 1942532920 scopus 로고    scopus 로고
    • The histone-like nucleoid structuring protein H-NS represses the Escherichia coli bgl operon downstream of the promoter
    • DOI 10.1111/j.1365-2958.2004.04001.x
    • Dole S, Nagarajavel V and Schnetz K 2004b The histone-like nucleoid structuring protein H-NS represses the Escherichia coli bgl operon downstream of the promoter. Mol. Microbiol. 52 589-600 (Pubitemid 38520725)
    • (2004) Molecular Microbiology , vol.52 , Issue.2 , pp. 589-600
    • Dole, S.1    Nagarajavel, V.2    Schnetz, K.3
  • 9
    • 33846465923 scopus 로고    scopus 로고
    • H-NS, the genome sentinel
    • DOI 10.1038/nrmicro1598, PII NRMICRO1598
    • Dorman CJ 2007 H-NS, the genome sentinel. Nat. Rev. Microbiol. 5 157-61 (Pubitemid 46151874)
    • (2007) Nature Reviews Microbiology , vol.5 , Issue.2 , pp. 157-161
    • Dorman, C.J.1
  • 10
    • 0141625269 scopus 로고    scopus 로고
    • Transcription through the roadblocks: The role of RNA polymerase cooperation
    • DOI 10.1093/emboj/cdg452
    • Epshtein V, Toulmé F, Rahmouni AR, et al. 2003 Transcription through the roadblocks: the role of RNA polymerase cooperation. EMBO J. 22 4719-4727 (Pubitemid 37162908)
    • (2003) EMBO Journal , vol.22 , Issue.18 , pp. 4719-4727
    • Epshtein, V.1    Toulme, F.2    Rachid, R.A.3    Borukhov, S.4    Nudler, E.5
  • 11
    • 0022779771 scopus 로고
    • Reduced superhelicity of plasmid DNA produced by the rho-15 mutation in Escherichia coli
    • Fassler JS, Arnold GF and Tessman I 1986 Reduced superhelicity of plasmid DNA produced by the rho-15 mutation in Escherichia coli. MGG Mol. Gen. Genet. 204 424-429
    • (1986) MGG Mol. Gen. Genet. , vol.204 , pp. 424-429
    • Fassler, J.S.1    Arnold, G.F.2    Tessman, I.3
  • 12
    • 84855878005 scopus 로고    scopus 로고
    • Newly identified genetic variations in common MG1655 stock cultures
    • doi: 10.1128/JB.06087-11
    • Freddolino PL, Amini S and Tavazoie S 2011 Newly identified genetic variations in common MG1655 stock cultures. J. Bacteriol. doi: 10.1128/JB.06087-11
    • (2011) J. Bacteriol.
    • Freddolino, P.L.1    Amini, S.2    Tavazoie, S.3
  • 13
    • 79953676877 scopus 로고    scopus 로고
    • Direct and indirect effects of H-NS and Fis on global gene expression control in Escherichia coli
    • Kahramanoglou C, Seshasayee ASN, Prieto AI, et al. 2011 Direct and indirect effects of H-NS and Fis on global gene expression control in Escherichia coli. Nucleic Acids Res. 39 2073-2091
    • (2011) Nucleic Acids Res. , vol.39 , pp. 2073-2091
    • Kahramanoglou, C.1    Seshasayee, A.S.N.2    Prieto, A.I.3
  • 14
    • 26844545025 scopus 로고    scopus 로고
    • The molecular basis for the mode of action of bicyclomycin
    • DOI 10.2174/1568005054880136
    • Kohn H and Widger W 2005 Themolecular basis for the mode of action of bicyclomycin. Curr. Drug Targets Infect. Disord. 5 273-295 (Pubitemid 41460270)
    • (2005) Current Drug Targets - Infectious Disorders , vol.5 , Issue.3 , pp. 273-295
    • Kohn, H.1    Widger, W.2
  • 15
    • 67649884743 scopus 로고    scopus 로고
    • Fast and accurate short read alignment with Burrows-Wheeler transform
    • Li H and Durbin R 2009 Fast and accurate short read alignment with Burrows-Wheeler transform. Bioinformatics 25 1754-1760
    • (2009) Bioinformatics , vol.25 , pp. 1754-1760
    • Li, H.1    Durbin, R.2
  • 16
    • 77953348282 scopus 로고    scopus 로고
    • Q&A: ChIP-seq technologies and the study of gene regulation
    • Liu ET, Pott S and Huss M 2010a Q&A: ChIP-seq technologies and the study of gene regulation. BMC Biol. 8 56
    • (2010) BMC Biol. , vol.8 , pp. 56
    • Liu, E.T.1    Pott, S.2    Huss, M.3
  • 17
    • 76749118994 scopus 로고    scopus 로고
    • A divalent switch drives H-NS/DNA-binding conformations between stiffening and bridging modes
    • Liu Y, Chen H, Kenney LJ and Yan J 2010b A divalent switch drives H-NS/DNA-binding conformations between stiffening and bridging modes. Genes Dev. 24 339-344
    • (2010) Genes Dev. , vol.24 , pp. 339-344
    • Liu, Y.1    Chen, H.2    Kenney, L.J.3    Yan, J.4
  • 18
    • 33748055114 scopus 로고    scopus 로고
    • H-NS mediates the silencing of laterally acquired genes in bacteria
    • Lucchini S, Rowley G, Goldberg MD, et al. 2006 H-NS mediates the silencing of laterally acquired genes in bacteria. PLoS Pathog. 2 e81
    • (2006) PLoS Pathog. , vol.2
    • Lucchini, S.1    Rowley, G.2    Goldberg, M.D.3
  • 19
    • 33750898424 scopus 로고    scopus 로고
    • Escherichia coli histone-like protein H-NS preferentially binds to horizontally acquired DNA in association with RNA polymerase
    • DOI 10.1093/dnares/dsl009
    • Oshima T, Ishikawa S, Kurokawa K, et al. 2006 Escherichia coli histone-like protein H-NS preferentially binds to horizontally acquired DNA in association with RNA polymerase. DNA Res. 13 141-153 (Pubitemid 44726365)
    • (2006) DNA Research , vol.13 , Issue.4 , pp. 141-153
    • Oshima, T.1    Ishikawa, S.2    Kurokawa, K.3    Aiba, H.4    Ogasawara, N.5
  • 20
    • 11344266685 scopus 로고    scopus 로고
    • Genomic transcriptional response to loss of chromosomal supercoiling in Escherichia coli
    • Peter BJ, Arsuaga J, Breier AM, et al. 2004 Genomic transcriptional response to loss of chromosomal supercoiling in Escherichia coli. Genome Biol. 5 R87
    • (2004) Genome Biol. , vol.5
    • Peter, B.J.1    Arsuaga, J.2    Breier, A.M.3
  • 21
    • 84870497149 scopus 로고    scopus 로고
    • Rho and NusG suppress pervasive antisense transcription in Escherichia coli
    • Peters JM, Mooney RA, Grass JA, et al. 2012 Rho and NusG suppress pervasive antisense transcription in Escherichia coli. Genes Dev. 26 2621-2633
    • (2012) Genes Dev. , vol.26 , pp. 2621-2633
    • Peters, J.M.1    Mooney, R.A.2    Grass, J.A.3
  • 22
    • 70349328557 scopus 로고    scopus 로고
    • Rho directs widespread termination of intragenic and stable RNA transcription
    • Peters JM, Mooney RA, Kuan PF, et al. 2009 Rho directs widespread termination of intragenic and stable RNA transcription. Proc. Natl. Acad. Sci. USA 106 15406-15411
    • (2009) Proc. Natl. Acad. Sci. USA , vol.106 , pp. 15406-15411
    • Peters, J.M.1    Mooney, R.A.2    Kuan, P.F.3
  • 23
    • 79960623040 scopus 로고    scopus 로고
    • The Sm-like RNA chaperone Hfq mediates transcription antitermination at Rho-dependent terminators
    • Rabhi M, Espéli O, Schwartz A, et al. 2011 The Sm-like RNA chaperone Hfq mediates transcription antitermination at Rho-dependent terminators. EMBO J. 30 2805-2816
    • (2011) EMBO J. , vol.30 , pp. 2805-2816
    • Rabhi, M.1    Espéli, O.2    Schwartz, A.3
  • 24
    • 79960388772 scopus 로고    scopus 로고
    • Modulation of Rho-dependent transcription termination in Escherichia coli by the H-NS family of proteins
    • Saxena S and Gowrishankar J 2011 Modulation of Rho-dependent transcription termination in Escherichia coli by the H-NS family of proteins. J. Bacteriol. 193 3832-3841
    • (2011) J. Bacteriol. , vol.193 , pp. 3832-3841
    • Saxena, S.1    Gowrishankar, J.2
  • 25
    • 84863534108 scopus 로고    scopus 로고
    • NuST: Analysis of the interplay between nucleoid organization and gene expression
    • Scolari VF, Zarei M, Osella M and Lagomarsino MC 2012 NuST: analysis of the interplay between nucleoid organization and gene expression. Bioinformatics 28 1643-1644
    • (2012) Bioinformatics , vol.28 , pp. 1643-1644
    • Scolari, V.F.1    Zarei, M.2    Osella, M.3    Lagomarsino, M.C.4
  • 26
    • 84862799740 scopus 로고    scopus 로고
    • MAnorm: A robust model for quantitative comparison of ChIP-Seq data sets
    • Shao Z, Zhang Y, Yuan G-C, et al. 2012 MAnorm: a robust model for quantitative comparison of ChIP-Seq data sets. Genome Biol. 13 R16
    • (2012) Genome Biol. , vol.13
    • Shao, Z.1    Zhang, Y.2    Yuan, G.-C.3
  • 27
    • 0027999823 scopus 로고
    • Plasmids bearing hfq and the hns-like gene stpA complement hns mutants in modulating arginine decarboxylase gene expression in Escherichia coli
    • Shi X and Bennett GN 1994 Plasmids bearing hfq and the hns-like gene stpA complement hns mutants in modulating arginine decarboxylase gene expression in Escherichia coli. J. Bacteriol. 176 6769-6775 (Pubitemid 24338095)
    • (1994) Journal of Bacteriology , vol.176 , Issue.21 , pp. 6769-6775
    • Shi, X.1    Bennett, G.N.2
  • 28
    • 84879962490 scopus 로고    scopus 로고
    • Genomic analysis reveals a bi-layered epistatic control of 'expensive' genes in Escherichia coli K-12: Implications for gene silencing
    • doi: 10.1039/c3mb70035f
    • Srinivasan R, Chandraprakash D, Krishnamurthi R, et al. 2013 Genomic analysis reveals a bi-layered epistatic control of 'expensive' genes in Escherichia coli K-12: implications for gene silencing. Mol. Biosyst. doi: 10.1039/c3mb70035f
    • (2013) Mol. Biosyst.
    • Srinivasan, R.1    Chandraprakash, D.2    Krishnamurthi, R.3
  • 29
    • 53449102029 scopus 로고    scopus 로고
    • Anti-silencing: Overcoming H-NS-mediated repression of transcription in Gram-negative enteric bacteria
    • Stoebel DM, Free A and Dorman CJ 2008 Anti-silencing: overcoming H-NS-mediated repression of transcription in Gram-negative enteric bacteria. Microbiology 154 2533-2545
    • (2008) Microbiology , vol.154 , pp. 2533-2545
    • Stoebel, D.M.1    Free, A.2    Dorman, C.J.3
  • 31
    • 0032582494 scopus 로고    scopus 로고
    • Force and velocity measured for single molecules of RNA polymerase
    • DOI 10.1126/science.282.5390.902
    • Wang MD, Schnitzer MJ, Yin H, et al. 1998 Force and velocity measured for single molecules of RNA polymerase. Science 282 902-907 (Pubitemid 28507515)
    • (1998) Science , vol.282 , Issue.5390 , pp. 902-907
    • Wang, M.D.1    Schnitzer, M.J.2    Yin, H.3    Landick, R.4    Gelles, J.5    Block, S.M.6
  • 32
    • 0027195060 scopus 로고
    • Transcription termination factor rho: The site of bicyclomycin inhibition in Escherichia coli
    • Zwiefka A, Kohn H and Widger WR 1993 Transcription termination factor rho: the site of bicyclomycin inhibition in Escherichia coli. Biochemistry 32 3564-3570 (Pubitemid 23126930)
    • (1993) Biochemistry , vol.32 , Issue.14 , pp. 3564-3570
    • Zwiefka, A.1    Kohn, H.2    Widger, W.R.3


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