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Volumn 55, Issue 2, 2005, Pages 601-610

Topological insulators inhibit diffusion of transcription-induced positive supercoils in the chromosome of Escherichia coli

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL DNA; DNA TOPOISOMERASE (ATP HYDROLYSING);

EID: 13144257718     PISSN: 0950382X     EISSN: None     Source Type: Journal    
DOI: 10.1111/j.1365-2958.2004.04411.x     Document Type: Article
Times cited : (56)

References (47)
  • 1
    • 0000117110 scopus 로고    scopus 로고
    • Repeated sequences
    • Neidhardt, F.C. (ed.). Washington, D.C.: American Society for Microbiology
    • Bachellier, S., Gilson, E., Hofnung, M., and Hill, C.W. (1996) Repeated sequences. In Escherichia Coli and Salmonella. Neidhardt, F.C. (ed.). Washington, D.C.: American Society for Microbiology, pp. 1263-1286.
    • (1996) Escherichia Coli and Salmonella , pp. 1263-1286
    • Bachellier, S.1    Gilson, E.2    Hofnung, M.3    Hill, C.W.4
  • 3
    • 0023162378 scopus 로고
    • All three elements of the lac ps promoter mediate its transcriptional response to DNA supercoiling
    • Borowiec, J.A., and Gralla, J.D. (1987) All three elements of the lac ps promoter mediate its transcriptional response to DNA supercoiling. J Mol Biol 195: 89-97.
    • (1987) J Mol Biol , vol.195 , pp. 89-97
    • Borowiec, J.A.1    Gralla, J.D.2
  • 4
    • 0023708084 scopus 로고
    • The pMTL nic-cloning vectors. I. Improved pUC polylinker regions to facilitate the use of sonicated DNA for nucleotide sequencing
    • Chambers, S.P., Prior, S.E., Barstow, D.A., and Minton, N.P. (1988) The pMTL nic-cloning vectors. I. Improved pUC polylinker regions to facilitate the use of sonicated DNA for nucleotide sequencing. Gene 68: 139-149.
    • (1988) Gene , vol.68 , pp. 139-149
    • Chambers, S.P.1    Prior, S.E.2    Barstow, D.A.3    Minton, N.P.4
  • 5
    • 0042733395 scopus 로고    scopus 로고
    • Direct interaction between Escherichia coli RNA polymerase and the zinc ribbon domains of DNA topoisomerase I
    • Cheng, B., Zhu, C.X., Ji, C., Ahumada, A., and Tse-Dinh, Y.C. (2003) Direct interaction between Escherichia coli RNA polymerase and the zinc ribbon domains of DNA topoisomerase I. J Biol Chem 278: 30705-30710.
    • (2003) J Biol Chem , vol.278 , pp. 30705-30710
    • Cheng, B.1    Zhu, C.X.2    Ji, C.3    Ahumada, A.4    Tse-Dinh, Y.C.5
  • 6
    • 0028901438 scopus 로고
    • Effects of the pSC101 partition (par) locus on in vivo DNA supercoiling near the plasmid replication origin
    • Conley, D.L., and Cohen, S.N. (1995) Effects of the pSC101 partition (par) locus on in vivo DNA supercoiling near the plasmid replication origin. Nucleic Acids Res 23: 701-707.
    • (1995) Nucleic Acids Res , vol.23 , pp. 701-707
    • Conley, D.L.1    Cohen, S.N.2
  • 7
    • 0034669232 scopus 로고    scopus 로고
    • Preferential relaxation of positively supercoiled DNA by E. coli topoisomerase IV in single-molecule and ensemble measurements
    • Crisona, N.J., Strick, T.R., Bensimon, D., Croquette, V., and Cozzarelli, N.R. (2000) Preferential relaxation of positively supercoiled DNA by E. coli topoisomerase IV in single-molecule and ensemble measurements. Genes Dev 14: 2881-2892.
    • (2000) Genes Dev , vol.14 , pp. 2881-2892
    • Crisona, N.J.1    Strick, T.R.2    Bensimon, D.3    Croquette, V.4    Cozzarelli, N.R.5
  • 8
    • 0035868644 scopus 로고    scopus 로고
    • Topoisomerase IV, alone, unknots DNA in E. coli
    • Deibler, R.W., Rahmati, S., and Zechiedrich, E.L. (2001) Topoisomerase IV, alone, unknots DNA in E. coli. Genes Dev 15: 748-761.
    • (2001) Genes Dev , vol.15 , pp. 748-761
    • Deibler, R.W.1    Rahmati, S.2    Zechiedrich, E.L.3
  • 9
    • 0033852525 scopus 로고    scopus 로고
    • Activation and silencing of leu-500 promoter by transcription-induced DNA supercoiling in the Salmonella chromosome
    • El Hanafi, D., and Bossi, L. (2000) Activation and silencing of leu-500 promoter by transcription-induced DNA supercoiling in the Salmonella chromosome. Mol Microbiol 37: 583-594.
    • (2000) Mol Microbiol , vol.37 , pp. 583-594
    • El Hanafi, D.1    Bossi, L.2
  • 10
    • 0030698083 scopus 로고    scopus 로고
    • In vivo cleavage of Escherichia coli BIME-2 repeats by DNA gyrase: Genetic characterization of the target and identification of the cut site
    • Espeli, O., and Boccard, F. (1997) In vivo cleavage of Escherichia coli BIME-2 repeats by DNA gyrase: genetic characterization of the target and identification of the cut site. Mol Microbiol 26: 767-777.
    • (1997) Mol Microbiol , vol.26 , pp. 767-777
    • Espeli, O.1    Boccard, F.2
  • 11
    • 0035976716 scopus 로고    scopus 로고
    • Transcription attenuation associated with bacterial repetitive extragenic BIME elements
    • Espeli, O., Moulin, L., and Boccard, F. (2001) Transcription attenuation associated with bacterial repetitive extragenic BIME elements. J Mol Biol 314: 375-386.
    • (2001) J Mol Biol , vol.314 , pp. 375-386
    • Espeli, O.1    Moulin, L.2    Boccard, F.3
  • 12
    • 0037249352 scopus 로고    scopus 로고
    • Temporal regulation of topoisomerase IV activity in E. coli
    • Espéli, O., Levine, C., Massing, H., and Marians, K.J. (2003) Temporal regulation of topoisomerase IV activity in E. coli. Mol Cell 11: 189-201.
    • (2003) Mol Cell , vol.11 , pp. 189-201
    • Espéli, O.1    Levine, C.2    Massing, H.3    Marians, K.J.4
  • 14
    • 0022729123 scopus 로고
    • DNA gyrase complex with DNA: Determinants for site-specific DNA breakage
    • Fisher, L.M., Barot, H.A., and Cullen, M.E. (1986) DNA gyrase complex with DNA: determinants for site-specific DNA breakage. EMBO J 5: 1411-1418.
    • (1986) EMBO J , vol.5 , pp. 1411-1418
    • Fisher, L.M.1    Barot, H.A.2    Cullen, M.E.3
  • 15
    • 0024278509 scopus 로고
    • DNA gyrase on the bacterial chromosome. Oxolinic acid-induced DNA cleavage in the dnaA-gyrB region
    • Franco, R.J., and Drlica, K. (1988) DNA gyrase on the bacterial chromosome. Oxolinic acid-induced DNA cleavage in the dnaA-gyrB region. J Mol Biol 201: 229-233.
    • (1988) J Mol Biol , vol.201 , pp. 229-233
    • Franco, R.J.1    Drlica, K.2
  • 16
    • 0029018327 scopus 로고
    • Tight regulation, modulation, and high-level expression by vectors containing the arabinose PBAD promoter
    • Guzman, L.M., Belin, D., Carson, M.J., and Beckwith, J. (1995) Tight regulation, modulation, and high-level expression by vectors containing the arabinose PBAD promoter. J Bacteriol 177: 4121-4130.
    • (1995) J Bacteriol , vol.177 , pp. 4121-4130
    • Guzman, L.M.1    Belin, D.2    Carson, M.J.3    Beckwith, J.4
  • 18
    • 0019435921 scopus 로고
    • Mapping the topography of DNA wrapped around gyrase by nucleolytic and chemical probing of complexes of unique DNA sequences
    • Kirkegaard, K., and Wang, J.C. (1981) Mapping the topography of DNA wrapped around gyrase by nucleolytic and chemical probing of complexes of unique DNA sequences. Cell 23: 721-729.
    • (1981) Cell , vol.23 , pp. 721-729
    • Kirkegaard, K.1    Wang, J.C.2
  • 20
    • 0023433855 scopus 로고
    • Supercoiling of the DNA template during transcription
    • Liu, L.F., and Wang, J.C. (1987) Supercoiling of the DNA template during transcription. Proc Natl Acad Sci USA 84: 7024-7027.
    • (1987) Proc Natl Acad Sci USA , vol.84 , pp. 7024-7027
    • Liu, L.F.1    Wang, J.C.2
  • 21
    • 0022361531 scopus 로고
    • Sites of reaction of Escherichia coli DNA gyrase on pBR322 in vivo as revealed by oxolinic acid-induced plasmid linearization
    • Lockshon, D., and Morris, D.R. (1985) Sites of reaction of Escherichia coli DNA gyrase on pBR322 in vivo as revealed by oxolinic acid-induced plasmid linearization. J Mol Biol 181: 63-74.
    • (1985) J Mol Biol , vol.181 , pp. 63-74
    • Lockshon, D.1    Morris, D.R.2
  • 22
    • 0027971436 scopus 로고
    • Left-handed Z-DNA and in vivo supercoil density in the Escherichia coli chromosome
    • Lukomski, S., and Wells, R.D. (1994) Left-handed Z-DNA and in vivo supercoil density in the Escherichia coli chromosome. Proc Natl Acad Sci USA 91: 9980-9984.
    • (1994) Proc Natl Acad Sci USA , vol.91 , pp. 9980-9984
    • Lukomski, S.1    Wells, R.D.2
  • 23
    • 0030861452 scopus 로고    scopus 로고
    • Independent and tight regulation of transcriptional units in Escherichia coli via the LacR/O, the TetR/O and AraC/I1-12 regulatory elements
    • Lutz, R., and Bujard, H. (1997) Independent and tight regulation of transcriptional units in Escherichia coli via the LacR/O, the TetR/O and AraC/I1-12 regulatory elements. Nucleic Acids Res 25: 1203-1210.
    • (1997) Nucleic Acids Res , vol.25 , pp. 1203-1210
    • Lutz, R.1    Bujard, H.2
  • 24
    • 0025029191 scopus 로고
    • Superhelical torsion in cellular DNA responds directly to environmental and genetic factors
    • McClellan, J.A., Boublikova, P., Palecek, E., and Lilley, D.M. (1990) Superhelical torsion in cellular DNA responds directly to environmental and genetic factors. Proc Natl Acad Sci USA 87: 8373-8377.
    • (1990) Proc Natl Acad Sci USA , vol.87 , pp. 8373-8377
    • McClellan, J.A.1    Boublikova, P.2    Palecek, E.3    Lilley, D.M.4
  • 25
    • 0020554566 scopus 로고
    • Regulation of the genes for E. coli DNA gyrase: Homeostatic control of DNA supercoiling
    • Menzel, R., and Gellert, M. (1983) Regulation of the genes for E. coli DNA gyrase: homeostatic control of DNA supercoiling. Cell 34: 105-113.
    • (1983) Cell , vol.34 , pp. 105-113
    • Menzel, R.1    Gellert, M.2
  • 26
    • 0023136608 scopus 로고
    • Fusions of the Escherichia coli gyrA and gyrB control regions to the galactokinase gene are inducible by coumermycin treatment
    • Menzel, R., and Gellert, M. (1987) Fusions of the Escherichia coli gyrA and gyrB control regions to the galactokinase gene are inducible by coumermycin treatment. J Bacteriol 169: 1272-1278.
    • (1987) J Bacteriol , vol.169 , pp. 1272-1278
    • Menzel, R.1    Gellert, M.2
  • 27
    • 0003785155 scopus 로고
    • Cold Spring Harbor, NY: Cold Spring Harbor Laboratory
    • Miller, J. (1992) Experiments in Molecular Genetics. Cold Spring Harbor, NY: Cold Spring Harbor Laboratory.
    • (1992) Experiments in Molecular Genetics
    • Miller, J.1
  • 28
    • 0018422012 scopus 로고
    • Site-specific cleavage of DNA by E. coli DNA gyrase
    • Morrison, A., and Cozzarelli, N.R. (1979) Site-specific cleavage of DNA by E. coli DNA gyrase. Cell 17: 175-184.
    • (1979) Cell , vol.17 , pp. 175-184
    • Morrison, A.1    Cozzarelli, N.R.2
  • 29
    • 0032509089 scopus 로고    scopus 로고
    • A quantitative UV laser footprinting analysis of the interaction of IHF with specific binding sites: Re-evaluation of the effective concentration of IHF in the cell
    • Murtin, C., Engelhorn, M., Geiselmann, J., and Boccard, F. (1998) A quantitative UV laser footprinting analysis of the interaction of IHF with specific binding sites: re-evaluation of the effective concentration of IHF in the cell. J Mol Biol 284: 949-961.
    • (1998) J Mol Biol , vol.284 , pp. 949-961
    • Murtin, C.1    Engelhorn, M.2    Geiselmann, J.3    Boccard, F.4
  • 30
    • 0025285536 scopus 로고
    • Bending and supercoiling of DNA at the attachment site of bacteriophage lambda
    • Nash, H.A. (1990) Bending and supercoiling of DNA at the attachment site of bacteriophage lambda. Trends Biochem Sci 15: 222-227.
    • (1990) Trends Biochem Sci , vol.15 , pp. 222-227
    • Nash, H.A.1
  • 31
    • 0002480960 scopus 로고    scopus 로고
    • The HU and IHF proteins: Accessory factors for complex protein-DNA assemblies
    • Lin, E.C.C., and Lynch, A.S. (eds). Austin, TX: R.G. Landes Company
    • Nash, H.A. (1996) The HU and IHF proteins: accessory factors for complex protein-DNA assemblies. In Regulation of Gene Expression in Escherichia Coli. Lin, E.C.C., and Lynch, A.S. (eds). Austin, TX: R.G. Landes Company, pp. 149-179.
    • (1996) Regulation of Gene Expression in Escherichia Coli , pp. 149-179
    • Nash, H.A.1
  • 32
    • 17744418982 scopus 로고
    • Mutants of E. coli K 12 unable to grow on methyl-beta-D-glucuronide: Map location of uidA locus of the structural gene of beta-D-glucuronidase
    • Novel, G., and Novel, M. (1973) Mutants of E. coli K 12 unable to grow on methyl-beta-D-glucuronide: map location of uidA locus of the structural gene of beta-D-glucuronidase. Mol Gen Genet 120: 319-335.
    • (1973) Mol Gen Genet , vol.120 , pp. 319-335
    • Novel, G.1    Novel, M.2
  • 33
    • 0022429185 scopus 로고
    • Mapping of DNA gyrase cleavage sites in vivo oxolinic acid induced cleavages in plasmid pBR322
    • O'Connor, M.B., and Malamy, M.H. (1985) Mapping of DNA gyrase cleavage sites in vivo oxolinic acid induced cleavages in plasmid pBR322. J Mol Biol 181: 545-550.
    • (1985) J Mol Biol , vol.181 , pp. 545-550
    • O'Connor, M.B.1    Malamy, M.H.2
  • 34
    • 19244372639 scopus 로고    scopus 로고
    • Variable structures of Fis-DNA complexes determined by flanking DNA-protein contacts
    • Pan, C.Q., Finkel, S.E., Cramton, S.E., Feng, J.A., Sigman, D.S., and Johnson, B.C. (1996) Variable structures of Fis-DNA complexes determined by flanking DNA-protein contacts. J Mol Biol 264: 675-695.
    • (1996) J Mol Biol , vol.264 , pp. 675-695
    • Pan, C.Q.1    Finkel, S.E.2    Cramton, S.E.3    Feng, J.A.4    Sigman, D.S.5    Johnson, B.C.6
  • 35
    • 0033858188 scopus 로고    scopus 로고
    • Genetic analysis of the strong gyrase site (SGS) of bacteriophage Mu: Localization of determinants required for promoting Mu replication
    • Pato, M.L., and Banerjee, M. (2000) Genetic analysis of the strong gyrase site (SGS) of bacteriophage Mu: localization of determinants required for promoting Mu replication. Mol Microbiol 37: 800-810.
    • (2000) Mol Microbiol , vol.37 , pp. 800-810
    • Pato, M.L.1    Banerjee, M.2
  • 36
    • 0016737648 scopus 로고
    • Separate regulation of transport and biosynthesis of leucine, isoleucine, and valine in bacteria
    • Quay, S.C., Oxender, D.L., Tsuyumu, S., and Umbarger, H.E. (1975) Separate regulation of transport and biosynthesis of leucine, isoleucine, and valine in bacteria. J Bacteriol 122: 994-1000.
    • (1975) J Bacteriol , vol.122 , pp. 994-1000
    • Quay, S.C.1    Oxender, D.L.2    Tsuyumu, S.3    Umbarger, H.E.4
  • 37
    • 0024975168 scopus 로고
    • Stabilization of Z DNA in vivo by localized supercoiling
    • Rahmouni, A.R., and Wells, R.D. (1989) Stabilization of Z DNA in vivo by localized supercoiling. Science 246: 358-363.
    • (1989) Science , vol.246 , pp. 358-363
    • Rahmouni, A.R.1    Wells, R.D.2
  • 38
    • 0026502006 scopus 로고
    • Direct evidence for the effect of transcription on local DNA supercoiling in vivo
    • Rahmouni, A.R., and Wells, R.D. (1992) Direct evidence for the effect of transcription on local DNA supercoiling in vivo. J Mol Biol 223: 131-144.
    • (1992) J Mol Biol , vol.223 , pp. 131-144
    • Rahmouni, A.R.1    Wells, R.D.2
  • 39
    • 0030451819 scopus 로고    scopus 로고
    • Crystal structure of an IHF-DNA complex: A protein-induced DNA U-turn
    • Rice, P.A., Yang, S., Mizuuchi, K., and Nash, H.A. (1996) Crystal structure of an IHF-DNA complex: a protein-induced DNA U-turn. Cell 87: 1295-1306.
    • (1996) Cell , vol.87 , pp. 1295-1306
    • Rice, P.A.1    Yang, S.2    Mizuuchi, K.3    Nash, H.A.4
  • 40
    • 0036251235 scopus 로고    scopus 로고
    • Promoter protection by a transcription factor acting as a local topological homeostat
    • Rochman, M., Aviv, M., Glaser, G., and Muskhelishvili, G. (2002) Promoter protection by a transcription factor acting as a local topological homeostat. EMBO Rep 3: 355-360.
    • (2002) EMBO Rep , vol.3 , pp. 355-360
    • Rochman, M.1    Aviv, M.2    Glaser, G.3    Muskhelishvili, G.4
  • 41
    • 0037118622 scopus 로고    scopus 로고
    • Phage HK022-based integrative vectors for the insertion of genes in the chromosome of multiply marked Escherichia coli strains
    • Rossignol, M., Moulin, L., and Boccard, F. (2002) Phage HK022-based integrative vectors for the insertion of genes in the chromosome of multiply marked Escherichia coli strains. FEMS Microbiol Lett 213: 45-49.
    • (2002) FEMS Microbiol Lett , vol.213 , pp. 45-49
    • Rossignol, M.1    Moulin, L.2    Boccard, F.3
  • 42
    • 0035077726 scopus 로고    scopus 로고
    • Transcription induces a supercoil domain barrier in bacteriophage Mu
    • Scheirer, K.E., and Higgins, N.P. (2001) Transcription induces a supercoil domain barrier in bacteriophage Mu. Biochimie 83: 155-159.
    • (2001) Biochimie , vol.83 , pp. 155-159
    • Scheirer, K.E.1    Higgins, N.P.2
  • 43
    • 0028219725 scopus 로고
    • Stereoselectivity of DNA catenane fusion by resolvase
    • Stark, W.M., Parker, C.N., Halford, S.E., and Boocock, M.R. (1994) Stereoselectivity of DNA catenane fusion by resolvase. Nature 368: 76-78.
    • (1994) Nature , vol.368 , pp. 76-78
    • Stark, W.M.1    Parker, C.N.2    Halford, S.E.3    Boocock, M.R.4
  • 44
    • 0034690257 scopus 로고    scopus 로고
    • Single-molecule analysis of DNA uncoiling by a type II topoisomerase
    • Strick, T.R., Croquette, V., and Bensimon, D. (2000) Single-molecule analysis of DNA uncoiling by a type II topoisomerase. Nature 404: 901-904.
    • (2000) Nature , vol.404 , pp. 901-904
    • Strick, T.R.1    Croquette, V.2    Bensimon, D.3
  • 45
    • 0024022068 scopus 로고
    • The partition locus of plasmid pSC101 is a specific binding site for DNA gyrase
    • Wahle, E., and Kornberg, A. (1988) The partition locus of plasmid pSC101 is a specific binding site for DNA gyrase. EMBO J 7: 1889-1895.
    • (1988) EMBO J , vol.7 , pp. 1889-1895
    • Wahle, E.1    Kornberg, A.2
  • 46
    • 0024279845 scopus 로고
    • Transcription generates positively and negatively supercoiled domains in the template
    • Wu, H.Y., Shyy, S.H., Wang, J.C., and Liu, L.F. (1988) Transcription generates positively and negatively supercoiled domains in the template. Cell 53: 433-440.
    • (1988) Cell , vol.53 , pp. 433-440
    • Wu, H.Y.1    Shyy, S.H.2    Wang, J.C.3    Liu, L.F.4


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