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Volumn 341, Issue 1, 2005, Pages 141-152

Gene order constrains adaptation in bacteriophage T7

Author keywords

Bacteriophage; Experimental evolution; Genome evolution; Microbial evolution; Molecular evolution

Indexed keywords

RNA POLYMERASE;

EID: 25144479277     PISSN: 00426822     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.virol.2005.07.008     Document Type: Article
Times cited : (24)

References (59)
  • 1
    • 0038241770 scopus 로고    scopus 로고
    • Development of genetic circuitry exhibiting toggle switch or oscillatory behavior in Escherichia coli
    • M.R. Atkinson, M.A. Savageau, J.T. Myers, and A.J. Ninfa Development of genetic circuitry exhibiting toggle switch or oscillatory behavior in Escherichia coli Cell 113 2003 597 607
    • (2003) Cell , vol.113 , pp. 597-607
    • Atkinson, M.R.1    Savageau, M.A.2    Myers, J.T.3    Ninfa, A.J.4
  • 2
    • 4444256116 scopus 로고    scopus 로고
    • Regulatory circuit design and evolution using phage lambda
    • S. Atsumi, and J.W. Little Regulatory circuit design and evolution using phage lambda Genes Dev. 18 2004 2086 2094
    • (2004) Genes Dev. , vol.18 , pp. 2086-2094
    • Atsumi, S.1    Little, J.W.2
  • 3
    • 0033029633 scopus 로고    scopus 로고
    • Phenotypic consequences of rearranging the P, M, and G genes of vesicular stomatitis virus
    • L.A. Ball, C.R. Pringle, B. Flanagan, V.P. Perepelitsa, and G.W. Wertz Phenotypic consequences of rearranging the P, M, and G genes of vesicular stomatitis virus J. Virol. 73 1999 4705 4712
    • (1999) J. Virol. , vol.73 , pp. 4705-4712
    • Ball, L.A.1    Pringle, C.R.2    Flanagan, B.3    Perepelitsa, V.P.4    Wertz, G.W.5
  • 4
    • 0034774475 scopus 로고    scopus 로고
    • Phages of dairy bacteria
    • H. Brüssow Phages of dairy bacteria Annu. Rev. Microbiol. 55 2001 283 303
    • (2001) Annu. Rev. Microbiol. , vol.55 , pp. 283-303
    • Brüssow, H.1
  • 5
    • 4544321685 scopus 로고    scopus 로고
    • Phages and the evolution of bacterial pathogens: From genomic rearrangements to lysogenic conversion
    • H. Brüssow, C. Canchaya, and W.D. Hardt Phages and the evolution of bacterial pathogens: from genomic rearrangements to lysogenic conversion Microbiol. Mol. Biol. Rev. 68 2004 560 602
    • (2004) Microbiol. Mol. Biol. Rev. , vol.68 , pp. 560-602
    • Brüssow, H.1    Canchaya, C.2    Hardt, W.D.3
  • 7
    • 0037825641 scopus 로고    scopus 로고
    • Prophages and bacterial genomics: What have we learned so far?
    • S. Casjens Prophages and bacterial genomics: what have we learned so far? Mol. Microbiol. 49 2003 277 300
    • (2003) Mol. Microbiol. , vol.49 , pp. 277-300
    • Casjens, S.1
  • 8
    • 77956912482 scopus 로고
    • Bacterial DNA-dependent RNA polymerases
    • P.D. Boyer Academic Press New York, NY
    • M.J. Chamberlin Bacterial DNA-dependent RNA polymerases P.D. Boyer Enzymes vol. 15 1982 Academic Press New York, NY 61 86
    • (1982) Enzymes , vol.15 , pp. 61-86
    • Chamberlin, M.J.1
  • 9
    • 77956899745 scopus 로고
    • Bacteriophage DNA-dependent RNA polymerases
    • P.D. Boyer Academic Press New York, NY
    • M.J. Chamberlin, and T. Ryan Bacteriophage DNA-dependent RNA polymerases P.D. Boyer Enzymes vol. 15 1982 Academic Press New York, NY 87 108
    • (1982) Enzymes , vol.15 , pp. 87-108
    • Chamberlin, M.J.1    Ryan, T.2
  • 10
    • 0026332799 scopus 로고
    • Functional importance of sequence in the stem-loop of a transcription terminator
    • S.W. Cheng, E.C. Lynch, K.R. Leason, D.L. Court, B.A. Shapiro, and D.I. Friedman Functional importance of sequence in the stem-loop of a transcription terminator Science 254 1991 1205 1207
    • (1991) Science , vol.254 , pp. 1205-1207
    • Cheng, S.W.1    Lynch, E.C.2    Leason, K.R.3    Court, D.L.4    Shapiro, B.A.5    Friedman, D.I.6
  • 12
    • 0018845097 scopus 로고
    • Characterization of the defects in bacteriophage T7 DNA synthesis during growth in the Escherichia coli mutant tsnB
    • M.A. DeWyngaert, and D.C. Hinkle Characterization of the defects in bacteriophage T7 DNA synthesis during growth in the Escherichia coli mutant tsnB J. Virol. 33 1980 780 788
    • (1980) J. Virol. , vol.33 , pp. 780-788
    • Dewyngaert, M.A.1    Hinkle, D.C.2
  • 15
    • 0020964297 scopus 로고
    • Complete nucleotide sequence of bacteriophage T7 DNA and the locations of T7 genetic elements
    • J.J. Dunn, and F.W. Studier Complete nucleotide sequence of bacteriophage T7 DNA and the locations of T7 genetic elements J. Mol. Biol. 166 1983 477 535
    • (1983) J. Mol. Biol. , vol.166 , pp. 477-535
    • Dunn, J.J.1    Studier, F.W.2
  • 16
    • 0034625007 scopus 로고    scopus 로고
    • Computation, prediction, and experimental tests of fitness for bacteriophage T7 mutants with permuted genomes
    • D. Endy, L. You, J. Yin, and I.J. Molineux Computation, prediction, and experimental tests of fitness for bacteriophage T7 mutants with permuted genomes Proc. Natl. Acad. Sci. U.S.A. 97 2000 5375 5380
    • (2000) Proc. Natl. Acad. Sci. U.S.A. , vol.97 , pp. 5375-5380
    • Endy, D.1    You, L.2    Yin, J.3    Molineux, I.J.4
  • 17
    • 0033578424 scopus 로고    scopus 로고
    • Systematic changes in gene expression patterns following adaptive evolution in yeast
    • T.L. Ferea, D. Botstein, P.O. Brown, and R.F. Rosenzweig Systematic changes in gene expression patterns following adaptive evolution in yeast Proc. Natl. Acad. Sci. U.S.A. 96 1999 9721 9726
    • (1999) Proc. Natl. Acad. Sci. U.S.A. , vol.96 , pp. 9721-9726
    • Ferea, T.L.1    Botstein, D.2    Brown, P.O.3    Rosenzweig, R.F.4
  • 18
    • 0033897397 scopus 로고    scopus 로고
    • Moving the glycoprotein gene of vesicular stomatitis virus to promoter-proximal positions accelerates and enhances the protective immune response
    • E.B. Flanagan, L.A. Ball, and G.W. Wertz Moving the glycoprotein gene of vesicular stomatitis virus to promoter-proximal positions accelerates and enhances the protective immune response J. Virol. 74 2000 7895 7902
    • (2000) J. Virol. , vol.74 , pp. 7895-7902
    • Flanagan, E.B.1    Ball, L.A.2    Wertz, G.W.3
  • 19
    • 6944224154 scopus 로고    scopus 로고
    • Metabolic gene-deletion strains of Escherichia coli evolve to computationally predicted growth phenotypes
    • S.S. Fong, and B.O. Palsson Metabolic gene-deletion strains of Escherichia coli evolve to computationally predicted growth phenotypes Nat. Genet. 36 2004 1056 1058
    • (2004) Nat. Genet. , vol.36 , pp. 1056-1058
    • Fong, S.S.1    Palsson, B.O.2
  • 20
    • 0029059337 scopus 로고
    • Incomplete entry of bacteriophage T7 DNA into F plasmid-containing Escherichia coli
    • L.R. García, and I.J. Molineux Incomplete entry of bacteriophage T7 DNA into F plasmid-containing Escherichia coli J. Bacteriol. 177 1995 4077 4083
    • (1995) J. Bacteriol. , vol.177 , pp. 4077-4083
    • García, L.R.1    Molineux, I.J.2
  • 21
    • 10544233778 scopus 로고    scopus 로고
    • Transcription-independent DNA translocation of bacteriophage T7 DNA into Escherichia coli
    • L.R. García, and I.J. Molineux Transcription-independent DNA translocation of bacteriophage T7 DNA into Escherichia coli J. Bacteriol. 178 1996 6921 6929
    • (1996) J. Bacteriol. , vol.178 , pp. 6921-6929
    • García, L.R.1    Molineux, I.J.2
  • 22
    • 24744451431 scopus 로고    scopus 로고
    • Evolutionary robustness of an optimal phenotype: Re-evolution of lysis in a bacteriophage deleted for its lysin gene
    • in press.
    • Heineman, R.H., Molineux, I.J., Bull, J.J., in press. Evolutionary robustness of an optimal phenotype: re-evolution of lysis in a bacteriophage deleted for its lysin gene. J. Mol. Evol. 61.
    • J. Mol. Evol. , vol.61
    • Heineman, R.H.1    Molineux, I.J.2    Bull, J.J.3
  • 23
    • 0016760686 scopus 로고
    • Helper function of T7 protein kinase in virus propagation
    • M. Hirsch-Kauffmann, P. Herrlich, H. Ponta, and M. Schweiger Helper function of T7 protein kinase in virus propagation Nature 255 1975 508 510
    • (1975) Nature , vol.255 , pp. 508-510
    • Hirsch-Kauffmann, M.1    Herrlich, P.2    Ponta, H.3    Schweiger, M.4
  • 24
    • 0037079023 scopus 로고    scopus 로고
    • Escherichia coli K-12 undergoes adaptive evolution to achieve in silico predicted optimal growth
    • R.U. Ibarra, J.S. Edwards, and B.O. Palsson Escherichia coli K-12 undergoes adaptive evolution to achieve in silico predicted optimal growth Nature 420 2002 186 189
    • (2002) Nature , vol.420 , pp. 186-189
    • Ibarra, R.U.1    Edwards, J.S.2    Palsson, B.O.3
  • 25
    • 0015873573 scopus 로고
    • Synthesis of bacteriophage-coded gene products during infection of Escherichia coli with amber mutants of T3 and T7 defective in gene 1
    • O.G. Issinger, and R. Hausmann Synthesis of bacteriophage-coded gene products during infection of Escherichia coli with amber mutants of T3 and T7 defective in gene 1 J. Virol. 11 1973 465 472
    • (1973) J. Virol. , vol.11 , pp. 465-472
    • Issinger, O.G.1    Hausmann, R.2
  • 26
    • 4344657166 scopus 로고    scopus 로고
    • Bacteriophage T7 DNA ejection into cells is initiated by an enzyme-like mechanism
    • P. Kemp, M. Gupta, and I.J. Molineux Bacteriophage T7 DNA ejection into cells is initiated by an enzyme-like mechanism Mol. Microbiol. 53 2004 1251 1265
    • (2004) Mol. Microbiol. , vol.53 , pp. 1251-1265
    • Kemp, P.1    Gupta, M.2    Molineux, I.J.3
  • 27
    • 24944579983 scopus 로고    scopus 로고
    • Changes in bacteriophage T7 virion structure at the initiation of infection
    • in press.
    • Kemp., P., García, L.R., Molineux, I.J., in press. Changes in bacteriophage T7 virion structure at the initiation of infection. Virology.
    • Virology
    • Kemp, P.1    García, L.R.2    Molineux, I.J.3
  • 29
    • 0036719291 scopus 로고    scopus 로고
    • Imbroglios of viral taxonomy: Genetic exchange and failings of phenetic approaches
    • J.G. Lawrence, G.F. Hatfull, and R.W. Hendrix Imbroglios of viral taxonomy: genetic exchange and failings of phenetic approaches J. Bacteriol. 184 2002 4891 4905
    • (2002) J. Bacteriol. , vol.184 , pp. 4891-4905
    • Lawrence, J.G.1    Hatfull, G.F.2    Hendrix, R.W.3
  • 31
    • 0033517148 scopus 로고    scopus 로고
    • Robustness of a gene regulatory circuit
    • J.W. Little, D.P. Shepley, and D.W. Wert Robustness of a gene regulatory circuit EMBO J. 18 1999 4299 4307
    • (1999) EMBO J. , vol.18 , pp. 4299-4307
    • Little, J.W.1    Shepley, D.P.2    Wert, D.W.3
  • 32
    • 17644385076 scopus 로고    scopus 로고
    • Computational representation of developmental genetic regulatory networks
    • W.J. Longabaugh, E.H. Davidson, and H. Bolouri Computational representation of developmental genetic regulatory networks Dev. Biol. 283 2005 1 16
    • (2005) Dev. Biol. , vol.283 , pp. 1-16
    • Longabaugh, W.J.1    Davidson, E.H.2    Bolouri, H.3
  • 33
    • 0023905791 scopus 로고
    • Contributions of RNA secondary structure and length of the thymidine tract to transcription termination at the thr operon attenuator
    • S.P. Lynn, L.M. Kasper, and J.F. Gardner Contributions of RNA secondary structure and length of the thymidine tract to transcription termination at the thr operon attenuator J. Biol. Chem. 263 1988 472 479
    • (1988) J. Biol. Chem. , vol.263 , pp. 472-479
    • Lynn, S.P.1    Kasper, L.M.2    Gardner, J.F.3
  • 34
    • 0029558248 scopus 로고
    • Transcribing of Escherichia coli genes with mutant T7 RNA polymerases: Stability of lacZ mRNA inversely correlates with polymerase speed
    • O.V. Makarova, E.M. Makarov, R. Sousa, and M. Dreyfus Transcribing of Escherichia coli genes with mutant T7 RNA polymerases: stability of lacZ mRNA inversely correlates with polymerase speed Proc. Natl. Acad. Sci. U.S.A. 92 1995 12250 12254
    • (1995) Proc. Natl. Acad. Sci. U.S.A. , vol.92 , pp. 12250-12254
    • Makarova, O.V.1    Makarov, E.M.2    Sousa, R.3    Dreyfus, M.4
  • 36
    • 0023903155 scopus 로고
    • Entry of bacteriophage T7 DNA into the cell and escape from host restriction
    • B.A. Moffatt, and F.W. Studier Entry of bacteriophage T7 DNA into the cell and escape from host restriction J. Bacteriol. 170 1988 2095 2105
    • (1988) J. Bacteriol. , vol.170 , pp. 2095-2105
    • Moffatt, B.A.1    Studier, F.W.2
  • 37
    • 0035043999 scopus 로고    scopus 로고
    • No syringes please, ejection of phage T7 DNA from the virion is enzyme driven
    • I.J. Molineux No syringes please, ejection of phage T7 DNA from the virion is enzyme driven Mol. Microbiol. 40 2001 1 8
    • (2001) Mol. Microbiol. , vol.40 , pp. 1-8
    • Molineux, I.J.1
  • 38
    • 4444318534 scopus 로고    scopus 로고
    • Fitness analyses of vesicular stomatitis strains with rearranged genomes reveal replicative disadvantages
    • I.S. Novella, L.A. Ball, and G.W. Wertz Fitness analyses of vesicular stomatitis strains with rearranged genomes reveal replicative disadvantages J. Virol. 78 2004 9837 9841
    • (2004) J. Virol. , vol.78 , pp. 9837-9841
    • Novella, I.S.1    Ball, L.A.2    Wertz, G.W.3
  • 40
    • 0018089826 scopus 로고
    • Early T7 gene expression: Rates of RNA synthesis and degradation, protein kinase dependent termination of transcription, and efficiency of translation
    • M.L. Pfennig-Yeh, H. Ponta, M. Hirsch-Kauffmann, H.J. Rahmsdorf, P. Herrlich, and M. Schweiger Early T7 gene expression: rates of RNA synthesis and degradation, protein kinase dependent termination of transcription, and efficiency of translation Mol. Gen. Genet. 166 1978 127 140
    • (1978) Mol. Gen. Genet. , vol.166 , pp. 127-140
    • Pfennig-Yeh, M.L.1    Ponta, H.2    Hirsch-Kauffmann, M.3    Rahmsdorf, H.J.4    Herrlich, P.5    Schweiger, M.6
  • 41
    • 0026566314 scopus 로고
    • Parameters affecting transcription termination by Escherichia coli RNA polymerase
    • R.R. Reynolds, M. Bermúdez-Cruz, and M.J. Chamberlin Parameters affecting transcription termination by Escherichia coli RNA polymerase J. Mol. Biol. 224 1992 31 51
    • (1992) J. Mol. Biol. , vol.224 , pp. 31-51
    • Reynolds, R.R.1    Bermúdez-Cruz, M.2    Chamberlin, M.J.3
  • 42
    • 0036190698 scopus 로고    scopus 로고
    • Experimental genomic evolution: Extensive compensation for loss of DNA ligase activity in a virus
    • D. Rokyta, M.R. Badgett, I.J. Molineux, and J.J. Bull Experimental genomic evolution: extensive compensation for loss of DNA ligase activity in a virus Mol. Biol. Evol. 19 2001 230 238
    • (2001) Mol. Biol. Evol. , vol.19 , pp. 230-238
    • Rokyta, D.1    Badgett, M.R.2    Molineux, I.J.3    Bull, J.J.4
  • 44
    • 0035578429 scopus 로고    scopus 로고
    • Design principles for elementary gene circuits: Elements, methods, and examples
    • M.A. Savageau Design principles for elementary gene circuits: elements, methods, and examples Chaos 11 2001 142 159
    • (2001) Chaos , vol.11 , pp. 142-159
    • Savageau, M.A.1
  • 46
    • 0016833418 scopus 로고
    • Studies on the role of bacteriophage T7 lysozyme during infection
    • S. Silberstein, M. Inouye, and F.W. Studier Studies on the role of bacteriophage T7 lysozyme during infection J. Mol. Biol. 96 1975 1 11
    • (1975) J. Mol. Biol. , vol.96 , pp. 1-11
    • Silberstein, S.1    Inouye, M.2    Studier, F.W.3
  • 47
    • 0034604380 scopus 로고    scopus 로고
    • The internal head protein gp16 controls DNA ejection from the bacteriophage T7 virion
    • J.S. Struthers-Schlinke, W.P. Robins, P. Kemp, and I.J. Molineux The internal head protein gp16 controls DNA ejection from the bacteriophage T7 virion J. Mol. Biol. 301 2000 35 45
    • (2000) J. Mol. Biol. , vol.301 , pp. 35-45
    • Struthers-Schlinke, J.S.1    Robins, W.P.2    Kemp, P.3    Molineux, I.J.4
  • 48
    • 0014603893 scopus 로고
    • The genetics and physiology of bacteriophage T7
    • F.W. Studier The genetics and physiology of bacteriophage T7 Virology 39 1969 562 574
    • (1969) Virology , vol.39 , pp. 562-574
    • Studier, F.W.1
  • 49
    • 0015526899 scopus 로고
    • Bacteriophage T7
    • F.W. Studier Bacteriophage T7 Science 176 1972 367 376
    • (1972) Science , vol.176 , pp. 367-376
    • Studier, F.W.1
  • 50
    • 0018380111 scopus 로고
    • Relationships among different strains of T7 and among T7-related bacteriophages
    • F.W. Studier Relationships among different strains of T7 and among T7-related bacteriophages Virology 95 1979 70 84
    • (1979) Virology , vol.95 , pp. 70-84
    • Studier, F.W.1
  • 51
    • 0023042283 scopus 로고
    • Use of bacteriophage T7 RNA polymerase to direct selective high-level expression of cloned genes
    • F.W. Studier, and B.A. Moffatt Use of bacteriophage T7 RNA polymerase to direct selective high-level expression of cloned genes J. Mol. Biol. 189 1986 113 130
    • (1986) J. Mol. Biol. , vol.189 , pp. 113-130
    • Studier, F.W.1    Moffatt, B.A.2
  • 52
    • 0018801605 scopus 로고
    • Genetic and physical mapping in the early region of bacteriophage T7 DNA
    • F.W. Studier, A.H. Rosenberg, M.N. Simon, and J.J. Dunn Genetic and physical mapping in the early region of bacteriophage T7 DNA J. Mol. Biol. 135 1979 917 937
    • (1979) J. Mol. Biol. , vol.135 , pp. 917-937
    • Studier, F.W.1    Rosenberg, A.H.2    Simon, M.N.3    Dunn, J.J.4
  • 53
    • 0041825399 scopus 로고    scopus 로고
    • Design principles for regulator gene expression in a repressible gene circuit
    • M.E. Wall, W.S. Hlavacek, and M.A. Savageau Design principles for regulator gene expression in a repressible gene circuit J. Mol. Biol. 332 2003 861 876
    • (2003) J. Mol. Biol. , vol.332 , pp. 861-876
    • Wall, M.E.1    Hlavacek, W.S.2    Savageau, M.A.3
  • 55
    • 0032584159 scopus 로고    scopus 로고
    • Gene rearrangement attenuates expression and lethality of a nonsegmented negative strand RNA virus
    • G.W. Wertz, V.P. Perepelitsa, and L.A. Ball Gene rearrangement attenuates expression and lethality of a nonsegmented negative strand RNA virus Proc. Natl. Acad. Sci. U.S.A. 95 1998 3501 3506
    • (1998) Proc. Natl. Acad. Sci. U.S.A. , vol.95 , pp. 3501-3506
    • Wertz, G.W.1    Perepelitsa, V.P.2    Ball, L.A.3
  • 57
    • 0020480156 scopus 로고
    • RNA polymerase-dependent mechanism for the stepwise T7 phage DNA transport from the virion into E. coli
    • S.K. Zavriev, and M.F. Shemyakin RNA polymerase-dependent mechanism for the stepwise T7 phage DNA transport from the virion into E. coli Nucleic Acids Res. 10 1982 1635 1652
    • (1982) Nucleic Acids Res. , vol.10 , pp. 1635-1652
    • Zavriev, S.K.1    Shemyakin, M.F.2
  • 58
    • 0029008516 scopus 로고
    • Isolation of transcriptionally active mutants of T7 RNA polymerase that do not support phage growth
    • X. Zhang, and F.W. Studier Isolation of transcriptionally active mutants of T7 RNA polymerase that do not support phage growth J. Mol. Biol. 250 1995 156 168
    • (1995) J. Mol. Biol. , vol.250 , pp. 156-168
    • Zhang, X.1    Studier, F.W.2
  • 59
    • 3042558419 scopus 로고    scopus 로고
    • Multiple roles of T7 RNA polymerase and T7 lysozyme during bacteriophage T7 infection
    • X. Zhang, and F.W. Studier Multiple roles of T7 RNA polymerase and T7 lysozyme during bacteriophage T7 infection J. Mol. Biol. 340 2004 707 730
    • (2004) J. Mol. Biol. , vol.340 , pp. 707-730
    • Zhang, X.1    Studier, F.W.2


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