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Volumn 186, Issue 7, 2004, Pages 1933-1944

Complete Genomic Sequence of the Virulent Salmonella Bacteriophage SP6

Author keywords

[No Author keywords available]

Indexed keywords

DNA; EXONUCLEASE; RHO FACTOR; RNA POLYMERASE;

EID: 0346449046     PISSN: 00219193     EISSN: None     Source Type: Journal    
DOI: 10.1128/JB.186.7.1933-1944.2004     Document Type: Article
Times cited : (67)

References (57)
  • 2
    • 1642359720 scopus 로고
    • On the fine structure of the temperate bacteriophages P1, P2 and P22
    • Nederlandse Vereniging voor Electronenmicroscopie, Delft, The Netherlands
    • Anderson, T. 1960. On the fine structure of the temperate bacteriophages P1, P2 and P22, p. 1008. In Proceedings of the European Regional Conference on Electron Microscopy, vol. 2. Nederlandse Vereniging voor Electronenmicroscopie, Delft, The Netherlands.
    • (1960) Proceedings of the European Regional Conference on Electron Microscopy , vol.2 , pp. 1008
    • Anderson, T.1
  • 4
    • 0030666337 scopus 로고    scopus 로고
    • Prokaryotic 5′-3′ exonucleases share a common core structure with gamma-delta resolvase
    • Artymiuk, P. J., T. A. Ceska, D. Suck, and J. R. Sayers. 1997. Prokaryotic 5′-3′ exonucleases share a common core structure with gamma-delta resolvase. Nucleic Acids Res. 25:4224-4229.
    • (1997) Nucleic Acids Res. , vol.25 , pp. 4224-4229
    • Artymiuk, P.J.1    Ceska, T.A.2    Suck, D.3    Sayers, J.R.4
  • 6
    • 0027338848 scopus 로고
    • Native marine bacteriophages
    • Børsheim, K. Y. 1993. Native marine bacteriophages. FEMS Microbiol. Ecol. 102:141-159.
    • (1993) FEMS Microbiol. Ecol. , vol.102 , pp. 141-159
    • Børsheim, K.Y.1
  • 7
    • 0023056643 scopus 로고
    • Sequences of three promoters for the bacteriophage SP6 RNA polymerase
    • Brown, J. E., J. F. Klement, and W. T. McAllister. 1986. Sequences of three promoters for the bacteriophage SP6 RNA polymerase. Nucleic Acids Res. 14:3521-3526.
    • (1986) Nucleic Acids Res. , vol.14 , pp. 3521-3526
    • Brown, J.E.1    Klement, J.F.2    McAllister, W.T.3
  • 8
    • 0037059610 scopus 로고    scopus 로고
    • Phage genomics: Small is beautiful
    • Brussow, H., and R. W. Hendrix. 2002. Phage genomics: small is beautiful. Cell 108:13-16.
    • (2002) Cell , vol.108 , pp. 13-16
    • Brussow, H.1    Hendrix, R.W.2
  • 9
    • 0020326042 scopus 로고
    • Bacteriophage SP6-specific RNA polymerase. I. Isolation and characterization of the enzyme
    • Butler, E. T., and M. J. Chamberlin. 1982. Bacteriophage SP6-specific RNA polymerase. I. Isolation and characterization of the enzyme. J. Biol. Chem. 257:5772-5778.
    • (1982) J. Biol. Chem. , vol.257 , pp. 5772-5778
    • Butler, E.T.1    Chamberlin, M.J.2
  • 11
    • 0025746254 scopus 로고
    • Frameshifting in gene 10 of bacteriophage T7
    • Condron, B. G., J. F. Atkins, and R. F. Gesteland. 1991. Frameshifting in gene 10 of bacteriophage T7. J. Bacteriol. 173:6998-7003.
    • (1991) J. Bacteriol. , vol.173 , pp. 6998-7003
    • Condron, B.G.1    Atkins, J.F.2    Gesteland, R.F.3
  • 12
    • 0026048052 scopus 로고
    • An analysis of sequences stimulating frameshifting in the decoding of gene 10 of bacteriophage T7
    • Condron, B. G., R. F. Gesteland, and J. F. Atkins. 1991. An analysis of sequences stimulating frameshifting in the decoding of gene 10 of bacteriophage T7. Nucleic Acids Res. 19:5607-5612.
    • (1991) Nucleic Acids Res. , vol.19 , pp. 5607-5612
    • Condron, B.G.1    Gesteland, R.F.2    Atkins, J.F.3
  • 14
    • 0020964297 scopus 로고
    • Complete nucleotide sequence of bacteriophage T7 DNA and the locations of T7 genetic elements
    • Dunn, J. J., and F. W. Studier. 1983. Complete nucleotide sequence of bacteriophage T7 DNA and the locations of T7 genetic elements. J. Mol. Biol. 166:477-535.
    • (1983) J. Mol. Biol. , vol.166 , pp. 477-535
    • Dunn, J.J.1    Studier, F.W.2
  • 16
    • 0001641598 scopus 로고
    • Confidence limits on phylogenies with a molecular clock
    • Felsenstein, J. 1985. Confidence limits on phylogenies with a molecular clock. Syst. Zool. 34:152-161.
    • (1985) Syst. Zool. , vol.34 , pp. 152-161
    • Felsenstein, J.1
  • 17
    • 0000461280 scopus 로고
    • Confidence limits on phylogenies: An approach using the bootstrap
    • Felsenstein, J. 1985. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783-791.
    • (1985) Evolution , vol.39 , pp. 783-791
    • Felsenstein, J.1
  • 18
    • 0016110957 scopus 로고
    • The evolutionary advantage of recombination
    • Felsenstein, J. 1974. The evolutionary advantage of recombination. Genetics 78:737-756.
    • (1974) Genetics , vol.78 , pp. 737-756
    • Felsenstein, J.1
  • 19
    • 0000122573 scopus 로고
    • PHYLIP - Phylogeny inference package (version 3.2)
    • Felsenstein, J. 1989. PHYLIP - phylogeny inference package (version 3.2). Cladistics 5:164-166.
    • (1989) Cladistics , vol.5 , pp. 164-166
    • Felsenstein, J.1
  • 20
    • 0037449787 scopus 로고    scopus 로고
    • The tail spike protein of Shigella phage Sf6. A structural homolog of Salmonella phage P22 tail spike protein without sequence similarity in the beta-helix domain
    • Freiberg, A., R. Morona, L. Van den Bosch, C. Jung, J. Behlke, N. Carlin, R. Seckler, and U. Baxa. 2003. The tail spike protein of Shigella phage Sf6. A structural homolog of Salmonella phage P22 tail spike protein without sequence similarity in the beta-helix domain. J. Biol. Chem. 278:1542-1548.
    • (2003) J. Biol. Chem. , vol.278 , pp. 1542-1548
    • Freiberg, A.1    Morona, R.2    Van Den Bosch, L.3    Jung, C.4    Behlke, J.5    Carlin, N.6    Seckler, R.7    Baxa, U.8
  • 21
    • 0041888273 scopus 로고    scopus 로고
    • The genome sequence of Yersinia pestis bacteriophage φA1122 reveals an intimate history with the coliphage T3 and T7 genomes
    • Garcia, E., J. M. Elliott, E. Ramanculov, P. S. Chain, M. C. Chu, and I. J. Molineux. 2003. The genome sequence of Yersinia pestis bacteriophage φA1122 reveals an intimate history with the coliphage T3 and T7 genomes. J. Bacteriol. 185:5248-5262.
    • (2003) J. Bacteriol. , vol.185 , pp. 5248-5262
    • Garcia, E.1    Elliott, J.M.2    Ramanculov, E.3    Chain, P.S.4    Chu, M.C.5    Molineux, I.J.6
  • 22
    • 0031955116 scopus 로고    scopus 로고
    • Consed: A graphical tool for sequence finishing
    • Gordon, D., C. Abajian, and P. Green. 1998. Consed: a graphical tool for sequence finishing. Genome Res. 8:195-202.
    • (1998) Genome Res. , vol.8 , pp. 195-202
    • Gordon, D.1    Abajian, C.2    Green, P.3
  • 23
    • 0036597231 scopus 로고    scopus 로고
    • Bacteriophages: Evolution of the majority
    • Hendrix, R. W. 2002. Bacteriophages: evolution of the majority. Theor. Popul. Biol. 61:471-480.
    • (2002) Theor. Popul. Biol. , vol.61 , pp. 471-480
    • Hendrix, R.W.1
  • 24
    • 0033514996 scopus 로고    scopus 로고
    • Evolutionary relationships among diverse bacteriophages and prophages: All the world's a phage
    • Hendrix, R. W., M. C. Smith, R. N. Burns, M. E. Ford, and G. F. Hatfull. 1999. Evolutionary relationships among diverse bacteriophages and prophages: all the world's a phage. Proc. Natl. Acad. Sci. 96:2192-2197.
    • (1999) Proc. Natl. Acad. Sci. , vol.96 , pp. 2192-2197
    • Hendrix, R.W.1    Smith, M.C.2    Burns, R.N.3    Ford, M.E.4    Hatfull, G.F.5
  • 25
    • 0034716946 scopus 로고    scopus 로고
    • Genomic sequences of bacteriophages HK97 and HK022: Pervasive genetic mosaicism in the lambdoid bacteriophages
    • Juhala, R. J., M. E. Ford, R. L. Duda, A. Youlton, G. F. Hatfull, and R. W. Hendrix. 2000. Genomic sequences of bacteriophages HK97 and HK022: pervasive genetic mosaicism in the lambdoid bacteriophages. J. Mol. Biol. 299:27-51.
    • (2000) J. Mol. Biol. , vol.299 , pp. 27-51
    • Juhala, R.J.1    Ford, M.E.2    Duda, R.L.3    Youlton, A.4    Hatfull, G.F.5    Hendrix, R.W.6
  • 26
    • 0020320665 scopus 로고
    • Bacteriophage SP6-specific RNA polymerase. II. Mapping of SP6 DNA and selective in vitro transcription
    • Kassavetis, G. A., E. T. Butler, D. Roulland, and M. J. Chamberlin. 1982. Bacteriophage SP6-specific RNA polymerase. II. Mapping of SP6 DNA and selective in vitro transcription. J. Biol. Chem. 257:5779-5788.
    • (1982) J. Biol. Chem. , vol.257 , pp. 5779-5788
    • Kassavetis, G.A.1    Butler, E.T.2    Roulland, D.3    Chamberlin, M.J.4
  • 27
    • 0023664098 scopus 로고
    • Nucleotide sequence and expression of the cloned gene of bacteriophage SP6 RNA polymerase
    • Kotani, H., Y. Ishizaki, N. Hiraoka, and A. Obayashi. 1987. Nucleotide sequence and expression of the cloned gene of bacteriophage SP6 RNA polymerase. Nucleic Acids Res. 15:2653-2664.
    • (1987) Nucleic Acids Res. , vol.15 , pp. 2653-2664
    • Kotani, H.1    Ishizaki, Y.2    Hiraoka, N.3    Obayashi, A.4
  • 28
    • 0038045774 scopus 로고    scopus 로고
    • The complete genomic sequence of lytic bacteriophage gh-1 infecting Pseudomonas putida-evidence for close relationship to the T7 group
    • Kovalyova, I. V., and A. M. Kropinski. 2003. The complete genomic sequence of lytic bacteriophage gh-1 infecting Pseudomonas putida-evidence for close relationship to the T7 group. Virology 311:305-315.
    • (2003) Virology , vol.311 , pp. 305-315
    • Kovalyova, I.V.1    Kropinski, A.M.2
  • 29
    • 0021770860 scopus 로고
    • Functional messenger RNAs are produced by SP6 in vitro transcription of cloned cDNAs
    • Krieg, P. A., and D. A. Melton. 1984. Functional messenger RNAs are produced by SP6 in vitro transcription of cloned cDNAs. Nucleic Acids Res. 12:7057-7070.
    • (1984) Nucleic Acids Res. , vol.12 , pp. 7057-7070
    • Krieg, P.A.1    Melton, D.A.2
  • 30
    • 0023623129 scopus 로고
    • In vitro RNA synthesis with SP6 RNA polymerase
    • Krieg, P. A., and D. A. Melton. 1987. In vitro RNA synthesis with SP6 RNA polymerase. Methods Enzymol. 155:397-415.
    • (1987) Methods Enzymol. , vol.155 , pp. 397-415
    • Krieg, P.A.1    Melton, D.A.2
  • 32
    • 0036719291 scopus 로고    scopus 로고
    • Imbroglios of viral taxonomy: Genetic exchange and failings of phenetic approaches
    • Lawrence, J. G., G. F. Hatfull, and R. W. Hendrix. 2002. Imbroglios of viral taxonomy: genetic exchange and failings of phenetic approaches. J. Bacteriol. 184:4891-4905.
    • (2002) J. Bacteriol. , vol.184 , pp. 4891-4905
    • Lawrence, J.G.1    Hatfull, G.F.2    Hendrix, R.W.3
  • 33
    • 0026076261 scopus 로고
    • DNA-dependent RNA polymerase from bacteriophage T3 transcribes and amplifies an RNA template in vitro
    • Leary, S. L., H. J. Baum, and Z. G. Loewy. 1991. DNA-dependent RNA polymerase from bacteriophage T3 transcribes and amplifies an RNA template in vitro. Gene 106:93-96.
    • (1991) Gene , vol.106 , pp. 93-96
    • Leary, S.L.1    Baum, H.J.2    Loewy, Z.G.3
  • 34
    • 0027214234 scopus 로고
    • Two base pairs at -9 and -8 distinguish between the bacteriophage T7 and SP6 promoters
    • Lee, S. S., and C. Kang. 1993. Two base pairs at -9 and -8 distinguish between the bacteriophage T7 and SP6 promoters. J. Biol. Chem. 268:19299-19304.
    • (1993) J. Biol. Chem. , vol.268 , pp. 19299-19304
    • Lee, S.S.1    Kang, C.2
  • 35
    • 0029985398 scopus 로고    scopus 로고
    • Asymmetric substitution patterns in the two DNA strands of bacteria
    • Lobry, J. R. 1996. Asymmetric substitution patterns in the two DNA strands of bacteria. Mol. Biol. Evol. 13:660-665.
    • (1996) Mol. Biol. Evol. , vol.13 , pp. 660-665
    • Lobry, J.R.1
  • 36
    • 0030854739 scopus 로고    scopus 로고
    • tRNAscan-SE: A program for improved detection of transfer RNA genes in genomic sequence
    • Lowe, T. M., and S. R. Eddy. 1997. tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence. Nucleic Acids Res. 25:955-964.
    • (1997) Nucleic Acids Res. , vol.25 , pp. 955-964
    • Lowe, T.M.1    Eddy, S.R.2
  • 37
    • 0021770917 scopus 로고
    • Efficient in vitro synthesis of biologically active RNA and RNA hybridization probes from plasmids containing a bacteriophage SP6 promoter
    • Melton, D. A., P. A. Krieg, M. R. Rebagliati, T. Maniatis, K. Zinn, and M. R. Green. 1984. Efficient in vitro synthesis of biologically active RNA and RNA hybridization probes from plasmids containing a bacteriophage SP6 promoter. Nucleic Acids Res. 12:7035-7056.
    • (1984) Nucleic Acids Res. , vol.12 , pp. 7035-7056
    • Melton, D.A.1    Krieg, P.A.2    Rebagliati, M.R.3    Maniatis, T.4    Zinn, K.5    Green, M.R.6
  • 38
    • 0031731825 scopus 로고    scopus 로고
    • Phage P22 tail spike protein: Removal of head-binding domain unmasks effects of folding mutations on native-state thermal stability
    • Miller, S., B. Schuler, and R. Seckler. 1998. Phage P22 tail spike protein: removal of head-binding domain unmasks effects of folding mutations on native-state thermal stability. Protein Sci. 7:2223-2232.
    • (1998) Protein Sci. , vol.7 , pp. 2223-2232
    • Miller, S.1    Schuler, B.2    Seckler, R.3
  • 39
    • 1442300823 scopus 로고    scopus 로고
    • Peptidoglycan hydrolytic activities associated with bacteriophage virions
    • Moak, M., and I. J. Molineux. 2004. Peptidoglycan hydrolytic activities associated with bacteriophage virions. Mol. Microbiol. 51:1169-1183.
    • (2004) Mol. Microbiol. , vol.51 , pp. 1169-1183
    • Moak, M.1    Molineux, I.J.2
  • 40
    • 0001224667 scopus 로고
    • Some genetic aspects of sex
    • Muller, H. 1932. Some genetic aspects of sex. Am. Nat. 66:118-138.
    • (1932) Am. Nat. , vol.66 , pp. 118-138
    • Muller, H.1
  • 41
    • 0024279626 scopus 로고
    • Transcription initiation site selection and abortive initiation cycling of phage SP6 RNA polymerase
    • Nam, S. C., and C. W. Kang. 1988. Transcription initiation site selection and abortive initiation cycling of phage SP6 RNA polymerase. J. Biol. Chem. 263:18123-18127.
    • (1988) J. Biol. Chem. , vol.263 , pp. 18123-18127
    • Nam, S.C.1    Kang, C.W.2
  • 43
    • 0343279454 scopus 로고
    • Preparation of capped RNA transcripts using T7 RNA polymerase
    • Nielsen, D. A., and D. J. Shapiro. 1986. Preparation of capped RNA transcripts using T7 RNA polymerase. Nucleic Acids Res. 14:5936.
    • (1986) Nucleic Acids Res. , vol.14 , pp. 5936
    • Nielsen, D.A.1    Shapiro, D.J.2
  • 44
    • 0033624448 scopus 로고    scopus 로고
    • Bacteriophage φYeO3-12, specific for Yersinia enterocolitica serotype O:3, is related to coliphages T3 and T7
    • Pajunen, M., S. Kiljunen, and M. Skurnik. 2000. Bacteriophage φYeO3-12, specific for Yersinia enterocolitica serotype O:3, is related to coliphages T3 and T7. J. Bacteriol. 182:5114-5120.
    • (2000) J. Bacteriol. , vol.182 , pp. 5114-5120
    • Pajunen, M.1    Kiljunen, S.2    Skurnik, M.3
  • 45
    • 0036300881 scopus 로고    scopus 로고
    • Complete nucleotide sequence and likely recombinatorial origin of bacteriophage T3
    • Pajunen, M. I., M. R. Elizondo, M. Skurnik, J. Kieleczawa, and I. J. Molineux. 2002. Complete nucleotide sequence and likely recombinatorial origin of bacteriophage T3. J. Mol. Biol. 319:1115-1132.
    • (2002) J. Mol. Biol. , vol.319 , pp. 1115-1132
    • Pajunen, M.I.1    Elizondo, M.R.2    Skurnik, M.3    Kieleczawa, J.4    Molineux, I.J.5
  • 47
    • 0023375195 scopus 로고
    • The neighbor-joining method: A new method for reconstructing phylogenetic trees
    • Saitou, N., and M. Nei. 1987. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 4:406-425.
    • (1987) Mol. Biol. Evol. , vol.4 , pp. 406-425
    • Saitou, N.1    Nei, M.2
  • 48
    • 0032518163 scopus 로고    scopus 로고
    • Microbial gene identification using interpolated Markov models
    • Salzberg, S. L., A. L. Delcher, S. Kasif, and O. White. 1998. Microbial gene identification using interpolated Markov models. Nucleic Acids Res. 26:544-548.
    • (1998) Nucleic Acids Res. , vol.26 , pp. 544-548
    • Salzberg, S.L.1    Delcher, A.L.2    Kasif, S.3    White, O.4
  • 50
    • 0023793659 scopus 로고
    • Translation initiation controls the relative rates of expression of the bacteriophage lambda late genes
    • Sampson, L. L., R. W. Hendrix, W. M. Huang, and S. R. Casjens. 1988. Translation initiation controls the relative rates of expression of the bacteriophage lambda late genes. Proc. Natl. Acad. Sci. 85:5439-5443.
    • (1988) Proc. Natl. Acad. Sci. , vol.85 , pp. 5439-5443
    • Sampson, L.L.1    Hendrix, R.W.2    Huang, W.M.3    Casjens, S.R.4
  • 51
    • 0036239912 scopus 로고    scopus 로고
    • Bacteriophage SP6 is closely related to phages K1-5, K5, and K1E but encodes a tail protein very similar to that of the distantly related P22
    • Scholl, D., S. Adhya, and C. R. Merril. 2002. Bacteriophage SP6 is closely related to phages K1-5, K5, and K1E but encodes a tail protein very similar to that of the distantly related P22. J. Bacteriol. 184:2833-2836.
    • (2002) J. Bacteriol. , vol.184 , pp. 2833-2836
    • Scholl, D.1    Adhya, S.2    Merril, C.R.3
  • 53
    • 0034635975 scopus 로고    scopus 로고
    • Effects of saturation mutagenesis of the phage SP6 promoter on transcription activity, presented by activity logos
    • Shin, I., J. Kim, C. R. Cantor, and C. Kang. 2000. Effects of saturation mutagenesis of the phage SP6 promoter on transcription activity, presented by activity logos. Proc. Natl. Acad. Sci. 97:3890-3895.
    • (2000) Proc. Natl. Acad. Sci. , vol.97 , pp. 3890-3895
    • Shin, I.1    Kim, J.2    Cantor, C.R.3    Kang, C.4
  • 55
    • 0034700987 scopus 로고    scopus 로고
    • Characterization of a novel DNA primase from the Salmonella typhimurium bacteriophage SP6
    • Tseng, T. Y., D. N. Frick, and C. C. Richardson. 2000. Characterization of a novel DNA primase from the Salmonella typhimurium bacteriophage SP6. Biochemistry 39:1643-1654.
    • (2000) Biochemistry , vol.39 , pp. 1643-1654
    • Tseng, T.Y.1    Frick, D.N.2    Richardson, C.C.3
  • 56
    • 0036937356 scopus 로고    scopus 로고
    • Global features of the Pseudomonas putida KT2440 genome sequence
    • Weinel, C., K. E. Nelson, and B. Tummler. 2002. Global features of the Pseudomonas putida KT2440 genome sequence. Environ. Microbiol. 4:809-818.
    • (2002) Environ. Microbiol. , vol.4 , pp. 809-818
    • Weinel, C.1    Nelson, K.E.2    Tummler, B.3
  • 57
    • 0141926716 scopus 로고    scopus 로고
    • Genome and proteome of Listeria monocytogenes phage PSA: An unusual case for programmed +1 translational frameshifting in structural protein synthesis
    • Zimmer, M., E. Sattelberger, R. B. Inman, R. Calendar, and M. J. Loessner. 2003. Genome and proteome of Listeria monocytogenes phage PSA: an unusual case for programmed +1 translational frameshifting in structural protein synthesis. Mol. Microbiol. 50:303-317.
    • (2003) Mol. Microbiol. , vol.50 , pp. 303-317
    • Zimmer, M.1    Sattelberger, E.2    Inman, R.B.3    Calendar, R.4    Loessner, M.J.5


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