메뉴 건너뛰기




Volumn 70, Issue 4, 2004, Pages 1999-2012

Evolution of the Core Genome of Pseudomonas syringae, a Highly Clonal, Endemic Plant Pathogen

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIA; GENES; GENETIC ENGINEERING; MUTAGENESIS; PATHOLOGY; PLANTS (BOTANY);

EID: 1642319596     PISSN: 00992240     EISSN: None     Source Type: Journal    
DOI: 10.1128/AEM.70.4.1999-2012.2004     Document Type: Article
Times cited : (373)

References (61)
  • 1
    • 0037223888 scopus 로고    scopus 로고
    • The evolutionary genomics of pathogen recombination
    • Awadalla, P. 2003. The evolutionary genomics of pathogen recombination. Nat. Rev. Genet. 4:50-60.
    • (2003) Nat. Rev. Genet. , vol.4 , pp. 50-60
    • Awadalla, P.1
  • 2
    • 0026911267 scopus 로고
    • Split decomposition: A new and useful approach to phylogenetic analysis of distance data
    • Bandelt, H. J., and A. W. Dress. 1992. Split decomposition: a new and useful approach to phylogenetic analysis of distance data. Mol. Phylogenet. Evol. 1:242-252.
    • (1992) Mol. Phylogenet. Evol. , vol.1 , pp. 242-252
    • Bandelt, H.J.1    Dress, A.W.2
  • 3
    • 0036699888 scopus 로고    scopus 로고
    • The utility of the incongruence length difference test
    • Barker, F. K., and F. M. Lutzoni. 2002. The utility of the incongruence length difference test. Syst. Biol. 51:625-637.
    • (2002) Syst. Biol. , vol.51 , pp. 625-637
    • Barker, F.K.1    Lutzoni, F.M.2
  • 5
    • 0030816742 scopus 로고    scopus 로고
    • Can three incongruence tests predict when data should be combined?
    • Cunningham, C. W. 1997. Can three incongruence tests predict when data should be combined? Mol. Biol. Evol. 14:733-740.
    • (1997) Mol. Biol. Evol. , vol.14 , pp. 733-740
    • Cunningham, C.W.1
  • 6
    • 0022595516 scopus 로고
    • Generation and characterization of Tn5 insertion mutations in Pseudomonas syringae pv. tomato
    • Cuppels, D. A. 1986. Generation and characterization of Tn5 insertion mutations in Pseudomonas syringae pv. tomato. Appl. Environ. Microbiol. 51:323-327.
    • (1986) Appl. Environ. Microbiol. , vol.51 , pp. 323-327
    • Cuppels, D.A.1
  • 7
    • 0036221248 scopus 로고    scopus 로고
    • When does the incongruence length difference test fail?
    • Darlu, P., and G. Lecointre. 2002. When does the incongruence length difference test fail? Mol. Biol. Evol. 19:432-437.
    • (2002) Mol. Biol. Evol. , vol.19 , pp. 432-437
    • Darlu, P.1    Lecointre, G.2
  • 8
    • 0000973939 scopus 로고
    • Identification and molecular mapping of a single Arabidopsis thaliana locus determining resistance to a phytopathogenic Pseudomonas syringae isolate
    • Debener, T., H. Lehnackers, M. Arnold, and J. L. Dangl. 1991. Identification and molecular mapping of a single Arabidopsis thaliana locus determining resistance to a phytopathogenic Pseudomonas syringae isolate. Plant J. 1:289-302.
    • (1991) Plant J. , vol.1 , pp. 289-302
    • Debener, T.1    Lehnackers, H.2    Arnold, M.3    Dangl, J.L.4
  • 9
    • 0023734087 scopus 로고
    • Genetic diversity and relationships of two pathovars of Pseudomonas syringae
    • Denny, T. P., M. N. Gilmour, and R. K. Selander. 1988. Genetic diversity and relationships of two pathovars of Pseudomonas syringae. J. Gen. Microbiol. 134:1949-1960.
    • (1988) J. Gen. Microbiol. , vol.134 , pp. 1949-1960
    • Denny, T.P.1    Gilmour, M.N.2    Selander, R.K.3
  • 10
    • 0025718335 scopus 로고
    • Induction of Arabidopsis defense genes by virulent and avirulent Pseudomonas syringae strains and by a cloned avirulence gene
    • Dong, X., M. Mindrinos, K. R. Davis, and F. M. Ausubel. 1991. Induction of Arabidopsis defense genes by virulent and avirulent Pseudomonas syringae strains and by a cloned avirulence gene. Plant Cell 3:61-72.
    • (1991) Plant Cell , vol.3 , pp. 61-72
    • Dong, X.1    Mindrinos, M.2    Davis, K.R.3    Ausubel, F.M.4
  • 11
    • 0027453558 scopus 로고
    • Split decomposition: A technique to analyze viral evolution
    • Dopazo, J., A. Dress, and A. Haeseler. 1993. Split decomposition: a technique to analyze viral evolution. Proc. Natl. Acad. Sci. USA 90:10320-10324.
    • (1993) Proc. Natl. Acad. Sci. USA , vol.90 , pp. 10320-10324
    • Dopazo, J.1    Dress, A.2    Haeseler, A.3
  • 15
    • 0032733829 scopus 로고    scopus 로고
    • The relative contributions of recombination and mutation to the divergence of clones of Neisseria meningitidis
    • Fell, E. J., M. C. Maiden, M. Achtman, and B. G. Spratt. 1999. The relative contributions of recombination and mutation to the divergence of clones of Neisseria meningitidis. Mol. Biol. Evol. 16:1496-1502.
    • (1999) Mol. Biol. Evol. , vol.16 , pp. 1496-1502
    • Fell, E.J.1    Maiden, M.C.2    Achtman, M.3    Spratt, B.G.4
  • 16
    • 0034128665 scopus 로고    scopus 로고
    • Estimating recombinational parameters in Streptococcus pneumoniae from multilocus sequence typing data
    • Feil, E. J., J. M. Smith, M. C. Enright, and B. G. Spratt. 2000. Estimating recombinational parameters in Streptococcus pneumoniae from multilocus sequence typing data. Genetics 154:1439-1450.
    • (2000) Genetics , vol.154 , pp. 1439-1450
    • Feil, E.J.1    Smith, J.M.2    Enright, M.C.3    Spratt, B.G.4
  • 17
    • 0034769889 scopus 로고    scopus 로고
    • Recombination and the population structures of bacterial pathogens
    • Feil, E. J., and B. G. Spratt. 2001. Recombination and the population structures of bacterial pathogens. Annu. Rev. Microbiol. 55:561-590.
    • (2001) Annu. Rev. Microbiol. , vol.55 , pp. 561-590
    • Feil, E.J.1    Spratt, B.G.2
  • 18
    • 0003437299 scopus 로고
    • Distributed by the author. Department of Genetics, University of Washington, Seattle
    • Felsenstein, J. 1993. PHYLIP (phylogeny inference package), 3.5c ed. Distributed by the author. Department of Genetics, University of Washington, Seattle.
    • (1993) PHYLIP (Phylogeny Inference Package), 3.5c Ed.
    • Felsenstein, J.1
  • 19
    • 0030821992 scopus 로고    scopus 로고
    • Statistical tests of neutrality of mutations against population growth, hitchhiking and background selection
    • Fu, Y. X. 1997. Statistical tests of neutrality of mutations against population growth, hitchhiking and background selection. Genetics 147:915-925.
    • (1997) Genetics , vol.147 , pp. 915-925
    • Fu, Y.X.1
  • 20
    • 0026757044 scopus 로고
    • DNA relatedness among the pathovar strains of Pseudomonas syringae subsp. savastanoi Janse (1982) and proposal of Pseudomonas savastanoi sp. nov.
    • Gardan, L., C. Bollet, M. Abughorrah, F. Grimont, and P. A. D. Grimont. 1992. DNA relatedness among the pathovar strains of Pseudomonas syringae subsp. savastanoi Janse (1982) and proposal of Pseudomonas savastanoi sp. nov. Int. J. Syst. Bacteriol. 42:606-612.
    • (1992) Int. J. Syst. Bacteriol. , vol.42 , pp. 606-612
    • Gardan, L.1    Bollet, C.2    Abughorrah, M.3    Grimont, F.4    Grimont, P.A.D.5
  • 21
    • 0031436694 scopus 로고    scopus 로고
    • Recombination and clonality in natural populations of Escherichia coli
    • Guttman, D. S. 1997. Recombination and clonality in natural populations of Escherichia coli. Trends Ecol. Evol. 12:16-22.
    • (1997) Trends Ecol. Evol. , vol.12 , pp. 16-22
    • Guttman, D.S.1
  • 22
    • 0028605344 scopus 로고
    • Clonal divergence in Escherichia coli as a result of recombination, not mutation
    • Guttman, D. S., and D. E. Dykhuizen. 1994. Clonal divergence in Escherichia coli as a result of recombination, not mutation. Science 266:1380-1383.
    • (1994) Science , vol.266 , pp. 1380-1383
    • Guttman, D.S.1    Dykhuizen, D.E.2
  • 23
    • 0035136805 scopus 로고    scopus 로고
    • Functional analysis of the type III effectors AvrRpt2 and AvrRpm1 of Pseudomonas syringae with the use of a single-copy genomic integration system
    • Guttman, D. S., and J. T. Greenberg. 2001. Functional analysis of the type III effectors AvrRpt2 and AvrRpm1 of Pseudomonas syringae with the use of a single-copy genomic integration system. Mol. Plant-Microbe Interact. 14:145-155.
    • (2001) Mol. Plant-Microbe Interact. , vol.14 , pp. 145-155
    • Guttman, D.S.1    Greenberg, J.T.2
  • 24
    • 0036500995 scopus 로고    scopus 로고
    • A functional screen for the type III (Hrp) secretome of the plant pathogen Pseudomonas syringae
    • Guttman, D. S., B. A. Vinatzer, S. F. Sarkar, M. Ranall, and J. T. Greefiberg. 2002. A functional screen for the type III (Hrp) secretome of the plant pathogen Pseudomonas syringae. Science 295:1722-1726.
    • (2002) Science , vol.295 , pp. 1722-1726
    • Guttman, D.S.1    Vinatzer, B.A.2    Sarkar, S.F.3    Ranall, M.4    Greefiberg, J.T.5
  • 25
    • 0034980876 scopus 로고    scopus 로고
    • Ecological fitness, genomic islands and bacterial pathogenicity: A Darwinian view of the evolution of microbes
    • Hacker, J., and E. Carniel. 2001. Ecological fitness, genomic islands and bacterial pathogenicity: a Darwinian view of the evolution of microbes. EMBO Rep. 2:376-381.
    • (2001) EMBO Rep. , vol.2 , pp. 376-381
    • Hacker, J.1    Carniel, E.2
  • 26
    • 0034038637 scopus 로고    scopus 로고
    • The alternative sigma factor RpoN is required for hrp activity in Pseudomonas syringae pv. maculicola and acts at the level of hrpL transcription
    • Hendrickson, E. L., P. Guevera, and F. M. Ausubel. 2000. The alternative sigma factor RpoN is required for hrp activity in Pseudomonas syringae pv. maculicola and acts at the level of hrpL transcription. J. Bacteriol. 182:3508-3516.
    • (2000) J. Bacteriol. , vol.182 , pp. 3508-3516
    • Hendrickson, E.L.1    Guevera, P.2    Ausubel, F.M.3
  • 27
    • 0033827553 scopus 로고    scopus 로고
    • Bacteria in the leaf ecosystem with emphasis on Pseudomonas syringae - A pathogen, ice nucleus, and epiphyte
    • Hirano, S. S., and C. D. Upper. 2000. Bacteria in the leaf ecosystem with emphasis on Pseudomonas syringae-a pathogen, ice nucleus, and epiphyte. Microbiol. Mol. Biol. Rev. 64:624-653.
    • (2000) Microbiol. Mol. Biol. Rev. , vol.64 , pp. 624-653
    • Hirano, S.S.1    Upper, C.D.2
  • 29
    • 0023612034 scopus 로고
    • Estimating the recombination parameter of a finite population model without selection
    • Hudson, R. R. 1987. Estimating the recombination parameter of a finite population model without selection. Genet. Res. 50:245-250.
    • (1987) Genet. Res. , vol.50 , pp. 245-250
    • Hudson, R.R.1
  • 30
    • 0031678692 scopus 로고    scopus 로고
    • SplitsTree: Analyzing and visualizing evolutionary data
    • Huson, D. H. 1998. SplitsTree: analyzing and visualizing evolutionary data. Bioinformatics 14:68-73.
    • (1998) Bioinformatics , vol.14 , pp. 68-73
    • Huson, D.H.1
  • 31
    • 16544394070 scopus 로고    scopus 로고
    • Pseudomonas syringae (saprophytic strain) and "fruit yeasts"
    • C. Weeden, T. Shelton, Y. Li, and M. Hoffmann (ed.). [Online.] Cornell University, Ithaca, N.Y.
    • Janisiewicz, W. 2002. Pseudomonas syringae (saprophytic strain) and "fruit yeasts." In C. Weeden, T. Shelton, Y. Li, and M. Hoffmann (ed.), Biological control: a guide to natural enemies in North America. [Online.] Cornell University, Ithaca, N.Y. http://www.nysaes.cornell.edu/ent/biocontrol.
    • (2002) Biological Control: A Guide to Natural Enemies in North America
    • Janisiewicz, W.1
  • 32
    • 0036137328 scopus 로고    scopus 로고
    • Sequence type analysis and recombinational tests (START)
    • Jolley, K. A., E. J. Feil, M.-S. Chan, and M. C. J. Maiden. 2001. Sequence type analysis and recombinational tests (START). Bioinformatics 17:1230-1231.
    • (2001) Bioinformatics , vol.17 , pp. 1230-1231
    • Jolley, K.A.1    Feil, E.J.2    Chan, M.-S.3    Maiden, M.C.J.4
  • 33
    • 43349086724 scopus 로고
    • Two simple media for the demonstration of phycocyanin and fluorescin
    • King, E. O., M. K. Ward, and D. E. Raney. 1954. Two simple media for the demonstration of phycocyanin and fluorescin. J. Lab. Clin. Med. 44:301-307.
    • (1954) J. Lab. Clin. Med. , vol.44 , pp. 301-307
    • King, E.O.1    Ward, M.K.2    Raney, D.E.3
  • 34
    • 0034575442 scopus 로고    scopus 로고
    • Methods to detect selection in populations with applications to the human
    • Kreitman, M. 2000. Methods to detect selection in populations with applications to the human. Annu. Rev. Genomics Hum. Genet. 1:539-559.
    • (2000) Annu. Rev. Genomics Hum. Genet. , vol.1 , pp. 539-559
    • Kreitman, M.1
  • 36
    • 0028294049 scopus 로고
    • MEGA-molecular evolutionary genetics analysis software for microcomputers
    • Kumar, S., K. Tamura, and M. Nei. 1994. MEGA-molecular evolutionary genetics analysis software for microcomputers. Comput. Appl. Biosci. 10:189-191.
    • (1994) Comput. Appl. Biosci. , vol.10 , pp. 189-191
    • Kumar, S.1    Tamura, K.2    Nei, M.3
  • 37
    • 0022997655 scopus 로고
    • Gene cluster of Pseudomonas syringae pv. phaseolicola controls pathogenicity of bean plants and hypersensitivity of nonhost plants
    • Lindgren, P. B., R. C. Peet, and N. J. Panopoulos. 1986. Gene cluster of Pseudomonas syringae pv. phaseolicola controls pathogenicity of bean plants and hypersensitivity of nonhost plants. J. Bacteriol. 168:512-522.
    • (1986) J. Bacteriol. , vol.168 , pp. 512-522
    • Lindgren, P.B.1    Peet, R.C.2    Panopoulos, N.J.3
  • 39
    • 0000284492 scopus 로고
    • Lack of evidence for in situ fluorescent pigment production by Pseudomonas syringae pv. syringae on bean leaf surfaces
    • Loper, J. E., and S. E. Lindow. 1987. Lack of evidence for in situ fluorescent pigment production by Pseudomonas syringae pv. syringae on bean leaf surfaces. Phytopathology 77:1449-1454.
    • (1987) Phytopathology , vol.77 , pp. 1449-1454
    • Loper, J.E.1    Lindow, S.E.2
  • 41
    • 0034539018 scopus 로고    scopus 로고
    • Population structure and evolutionary dynamics of pathogenic bacteria
    • Maynard Smith, J., E. J. Feil, and N. H. Smith. 2000. Population structure and evolutionary dynamics of pathogenic bacteria. Bioessays 22:1115-1122.
    • (2000) Bioessays , vol.22 , pp. 1115-1122
    • Maynard Smith, J.1    Feil, E.J.2    Smith, N.H.3
  • 42
    • 0031897789 scopus 로고    scopus 로고
    • Detecting recombination from gene trees
    • Maynard Smith, J., and N. H. Smith. 1998. Detecting recombination from gene trees. Mol. Biol. Evol. 15:590-599.
    • (1998) Mol. Biol. Evol. , vol.15 , pp. 590-599
    • Maynard Smith, J.1    Smith, N.H.2
  • 44
    • 0036199914 scopus 로고    scopus 로고
    • A coalescent-based method for detecting and estimating recombination from gene sequences
    • McVean, G., P. Awadalla, and P. Fearnhead. 2002. A coalescent-based method for detecting and estimating recombination from gene sequences. Genetics 160:1231-1241.
    • (2002) Genetics , vol.160 , pp. 1231-1241
    • McVean, G.1    Awadalla, P.2    Fearnhead, P.3
  • 45
    • 0000147290 scopus 로고
    • The implications of congruence in Menidia
    • Mickevich, M. E., and J. S. Farris. 1981. The implications of congruence in Menidia. Syst. Zool. 30:351-370.
    • (1981) Syst. Zool. , vol.30 , pp. 351-370
    • Mickevich, M.E.1    Farris, J.S.2
  • 46
    • 0031773680 scopus 로고    scopus 로고
    • MODELTEST: Testing the model of DNA substitution
    • Posada, D., and K. A. Crandall. 1998. MODELTEST: testing the model of DNA substitution. Bioinformatics 14:817-818.
    • (1998) Bioinformatics , vol.14 , pp. 817-818
    • Posada, D.1    Crandall, K.A.2
  • 48
    • 0036773016 scopus 로고    scopus 로고
    • GENIE: Estimating demographic history from molecular phylogenies
    • Pybus, O. G., and A. Rambaut. 2002. GENIE: estimating demographic history from molecular phylogenies. Bioinformatics 18:1404-1405.
    • (2002) Bioinformatics , vol.18 , pp. 1404-1405
    • Pybus, O.G.1    Rambaut, A.2
  • 49
    • 0033911330 scopus 로고    scopus 로고
    • An integrated framework for the inference of viral population history from reconstructed genealogies
    • Pybus, O. G., A. Rambaut, and P. H. Harvey. 2000. An integrated framework for the inference of viral population history from reconstructed genealogies. Genetics 155:1429-1437.
    • (2000) Genetics , vol.155 , pp. 1429-1437
    • Pybus, O.G.1    Rambaut, A.2    Harvey, P.H.3
  • 50
    • 0032972599 scopus 로고    scopus 로고
    • DnaSP version 3: An integrated program for molecular population genetics and molecular evolution analysis
    • Rozas, J., and R. Rozas. 1999. DnaSP version 3: an integrated program for molecular population genetics and molecular evolution analysis. Bioinformatics 15:174-175.
    • (1999) Bioinformatics , vol.15 , pp. 174-175
    • Rozas, J.1    Rozas, R.2
  • 51
    • 0028793170 scopus 로고
    • Identification of breakpoints in intergenotypic recombinants of HIV type 1 by bootscanning
    • Salminen, M. O., J. K. Carr, D. S. Burke, and F. E. McCutchan. 1995. Identification of breakpoints in intergenotypic recombinants of HIV type 1 by bootscanning. AIDS Res. Hum. Retrovir. 11:1423-1425.
    • (1995) AIDS Res. Hum. Retrovir. , vol.11 , pp. 1423-1425
    • Salminen, M.O.1    Carr, J.K.2    Burke, D.S.3    McCutchan, F.E.4
  • 52
    • 0036213858 scopus 로고    scopus 로고
    • A phylogenomic study of the OCTase genes in Pseudomonas syringae pathovars: The horizontal transfer of the argK-tox cluster and the evolutionary history of OCTase genes on their genomes
    • Sawada, H., S. Kanaya, M. Tsuda, F. Suzuki, K. Azegami, and N. Saitou. 2002. A phylogenomic study of the OCTase genes in Pseudomonas syringae pathovars: the horizontal transfer of the argK-tox cluster and the evolutionary history of OCTase genes on their genomes. J. Mol. Evol. 54:437-457.
    • (2002) J. Mol. Evol. , vol.54 , pp. 437-457
    • Sawada, H.1    Kanaya, S.2    Tsuda, M.3    Suzuki, F.4    Azegami, K.5    Saitou, N.6
  • 53
    • 0033278645 scopus 로고    scopus 로고
    • Phylogenetic analysis of Pseudomonas syringae pathovars suggests the horizontal gene transfer of argK and the evolutionary stability of hrp gene cluster
    • Sawada, H., F. Suzuki, I. Matsuda, and N. Saitou. 1999. Phylogenetic analysis of Pseudomonas syringae pathovars suggests the horizontal gene transfer of argK and the evolutionary stability of hrp gene cluster. J. Mol. Evol. 49:627-644.
    • (1999) J. Mol. Evol. , vol.49 , pp. 627-644
    • Sawada, H.1    Suzuki, F.2    Matsuda, I.3    Saitou, N.4
  • 55
    • 0032766857 scopus 로고    scopus 로고
    • Multiple comparisons of log-likelihoods with applications to phylogenetic inference
    • Shimodaira, H., and M. Hasegawa. 1999. Multiple comparisons of log-likelihoods with applications to phylogenetic inference. Mol. Biol. Evol. 16:1114-1116.
    • (1999) Mol. Biol. Evol. , vol.16 , pp. 1114-1116
    • Shimodaira, H.1    Hasegawa, M.2
  • 56
    • 0034798494 scopus 로고    scopus 로고
    • The relative contributions of recombination and point mutation to the diversification of bacterial clones
    • Spratt, B. G., W. P. Hanage, and E. J. Feil. 2001. The relative contributions of recombination and point mutation to the diversification of bacterial clones. Curr. Opin. Microbiol. 4:602-606.
    • (2001) Curr. Opin. Microbiol. , vol.4 , pp. 602-606
    • Spratt, B.G.1    Hanage, W.P.2    Feil, E.J.3
  • 57
    • 0035211479 scopus 로고    scopus 로고
    • Exploring the demographic history of DNA sequences using the generalized skyline plot
    • Strimmer, K., and O. G. Pybus. 2001. Exploring the demographic history of DNA sequences using the generalized skyline plot. Mol. Biol. Evol. 18:2298-2305.
    • (2001) Mol. Biol. Evol. , vol.18 , pp. 2298-2305
    • Strimmer, K.1    Pybus, O.G.2
  • 58
    • 0027457239 scopus 로고
    • Ecological and genetic analysis of copper and streptomycin resistance in Pseudomonas syringae pv. syringae
    • Sundin, G. W., and C. L. Bender. 1993. Ecological and genetic analysis of copper and streptomycin resistance in Pseudomonas syringae pv. syringae. Appl. Environ. Microbiol. 59:1018-1024.
    • (1993) Appl. Environ. Microbiol. , vol.59 , pp. 1018-1024
    • Sundin, G.W.1    Bender, C.L.2
  • 60
    • 0024313579 scopus 로고
    • Statistical methods for testing the neutral mutation hypothesis by DNA polymorphism
    • Tajima, F. 1989. Statistical methods for testing the neutral mutation hypothesis by DNA polymorphism. Genetics 123:585-595.
    • (1989) Genetics , vol.123 , pp. 585-595
    • Tajima, F.1
  • 61
    • 0020558165 scopus 로고
    • Multilocus genetic structure in natural populations of Escherichia coli
    • Whittam, T. S., H. Ochman, and R. K. Selander. 1983. Multilocus genetic structure in natural populations of Escherichia coli. Proc. Natl. Acad. Sci. USA 80:1751-1755.
    • (1983) Proc. Natl. Acad. Sci. USA , vol.80 , pp. 1751-1755
    • Whittam, T.S.1    Ochman, H.2    Selander, R.K.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.