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Volumn , Issue , 2006, Pages 105-139

Bacterial phylogeny reconstruction from molecular sequences

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EID: 84900223105     PISSN: None     EISSN: None     Source Type: Book    
DOI: 10.1007/978-3-540-31292-5_5     Document Type: Chapter
Times cited : (15)

References (154)
  • 2
    • 1942443733 scopus 로고    scopus 로고
    • Divergence and redundancy of 16S rRNA sequences in genomes with multiple rrn operons
    • Acinas SG, Marcelino LA, Klepac-Ceraj V, Polz MF (2004b) Divergence and redundancy of 16S rRNA sequences in genomes with multiple rrn operons. J Bacteriol 186:2629-2635
    • (2004) J Bacteriol , vol.186 , pp. 2629-2635
    • Acinas, S.G.1    Marcelino, L.A.2    Klepac-Ceraj, V.3    Polz, M.F.4
  • 3
    • 9744231340 scopus 로고    scopus 로고
    • Dissection of phylogenetic relationships among 19 rapidly growing Mycobacterium species by 16S rRNA, hsp65, sodA, reck and rpoB gene sequencing
    • Adekambi T, Drancourt M (2004) Dissection of phylogenetic relationships among 19 rapidly growing Mycobacterium species by 16S rRNA, hsp65, sodA, reck and rpoB gene sequencing. Int J Syst Evol Microbiol 54:2095-2105
    • (2004) Int J Syst Evol Microbiol , vol.54 , pp. 2095-2105
    • Adekambi, T.1    Drancourt, M.2
  • 4
    • 0036842986 scopus 로고    scopus 로고
    • Genome sequence of the endocellular obligate symbiont of tsetse flies, Wigglesworthia glossinidia
    • Akman L, Yamashita A, Watanabe H, Oshima K, Shiba T, Hattori M, Aksoy S (2002) Genome sequence of the endocellular obligate symbiont of tsetse flies, Wigglesworthia glossinidia. Nat Genet 32:402-407
    • (2002) Nat Genet , vol.32 , pp. 402-407
    • Akman, L.1    Yamashita, A.2    Watanabe, H.3    Oshima, K.4    Shiba, T.5    Hattori, M.6    Aksoy, S.7
  • 6
    • 0028946084 scopus 로고
    • Phylogenetic identification and in situ detection of individual microbial cells without cultivation
    • Amann RI, Ludwig W, Schleifer KH (1995) Phylogenetic identification and in situ detection of individual microbial cells without cultivation. Microbiol Rev 59:143-169
    • (1995) Microbiol Rev , vol.59 , pp. 143-169
    • Amann, R.I.1    Ludwig, W.2    Schleifer, K.H.3
  • 8
    • 0034681511 scopus 로고    scopus 로고
    • Evidence for a high frequency of simultaneous double-nucleotide substitutions
    • Averof M, Rokas A, Wolfe KH, Sharp PM (2000) Evidence for a high frequency of simultaneous double-nucleotide substitutions. Science 287:1283-1286
    • (2000) Science , vol.287 , pp. 1283-1286
    • Averof, M.1    Rokas, A.2    Wolfe, K.H.3    Sharp, P.M.4
  • 9
    • 0242384034 scopus 로고    scopus 로고
    • Review and re-analysis of domain-specific 16S primers
    • Baker GC, Smith JJ, Cowan DA (2003) Review and re-analysis of domain-specific 16S primers. J Microbiol Methods 55:541-555
    • (2003) J Microbiol Methods , vol.55 , pp. 541-555
    • Baker, G.C.1    Smith, J.J.2    Cowan, D.A.3
  • 10
    • 0034637111 scopus 로고    scopus 로고
    • The complete atomic structure of the large ribosomal subunit at 2.4 A resolution
    • Ban N, Nissen P, Hansen J, Moore PB, Steitz TA (2000) The complete atomic structure of the large ribosomal subunit at 2.4 A resolution. Science 289:905-920
    • (2000) Science , vol.289 , pp. 905-920
    • Ban, N.1    Nissen, P.2    Hansen, J.3    Moore, P.B.4    Steitz, T.A.5
  • 11
    • 0027361334 scopus 로고
    • Evaluation of a technique for identification of Shiga-like toxin-producing Escherichia coli by using polymerase chain reaction and digoxigenin-labeled probes
    • Begum D, Strockbine NA, Sowers EG, Jackson MP (1993) Evaluation of a technique for identification of Shiga-like toxin-producing Escherichia coli by using polymerase chain reaction and digoxigenin-labeled probes. J Clin Microbiol 31:3153-3156
    • (1993) J Clin Microbiol , vol.31 , pp. 3153-3156
    • Begum, D.1    Strockbine, N.A.2    Sowers, E.G.3    Jackson, M.P.4
  • 13
    • 2142814314 scopus 로고    scopus 로고
    • Crystal structures of Escherichia coli topoisomerase IV ParE subunit (24 and 43 kilodaltons): A single residue dictates differences in novobiocin potency against topoisomerase IV and DNA gyrase
    • Bellon S, Parsons JD, Wei Y, Hayakawa K, Swenson LL, Charifson PS, Lippke JA, Aldape R, Gross CH (2004) Crystal structures of Escherichia coli topoisomerase IV ParE subunit (24 and 43 kilodaltons): a single residue dictates differences in novobiocin potency against topoisomerase IV and DNA gyrase. Antimicrob Agents Chemother 48:1856-1864
    • (2004) Antimicrob Agents Chemother , vol.48 , pp. 1856-1864
    • Bellon, S.1    Parsons, J.D.2    Wei, Y.3    Hayakawa, K.4    Swenson, L.L.5    Charifson, P.S.6    Lippke, J.A.7    Aldape, R.8    Gross, C.H.9
  • 15
    • 0033948149 scopus 로고    scopus 로고
    • Phylogenetic depth of the bacterial genera Aquifex and Thermotoga inferred from analysis of ribosomal protein, elongation factor, and RNA polymerase subunit sequences
    • Bocchetta M, Gribaldo S, Sanangelantoni A, Cammarano P (2000) Phylogenetic depth of the bacterial genera Aquifex and Thermotoga inferred from analysis of ribosomal protein, elongation factor, and RNA polymerase subunit sequences. J Mol Evol 50:366-380
    • (2000) J Mol Evol , vol.50 , pp. 366-380
    • Bocchetta, M.1    Gribaldo, S.2    Sanangelantoni, A.3    Cammarano, P.4
  • 16
    • 0035201828 scopus 로고    scopus 로고
    • Phylogenetic inferences from molecular sequences: Review and critique
    • Brocchieri L (2001) Phylogenetic inferences from molecular sequences: review and critique. Theor Popul Biol 59:27-40
    • (2001) Theor Popul Biol , vol.59 , pp. 27-40
    • Brocchieri, L.1
  • 18
    • 0033860303 scopus 로고    scopus 로고
    • Bias in phylogenetic reconstruction of vertebrate rhodopsin sequences
    • Chang BS, Campbell DL (2000) Bias in phylogenetic reconstruction of vertebrate rhodopsin sequences. Mol Biol Evol 17:1220-1231
    • (2000) Mol Biol Evol , vol.17 , pp. 1220-1231
    • Chang, B.S.1    Campbell, D.L.2
  • 19
    • 0030024243 scopus 로고    scopus 로고
    • Sequence heterogeneities among 16S ribosomal RNA sequences, and their effect on phylogenetic analyses at the species level
    • Cilia V, Lafay B, Christen R (1996) Sequence heterogeneities among 16S ribosomal RNA sequences, and their effect on phylogenetic analyses at the species level. Mol Biol Evol 13:451-461
    • (1996) Mol Biol Evol , vol.13 , pp. 451-461
    • Cilia, V.1    Lafay, B.2    Christen, R.3
  • 20
    • 0029027263 scopus 로고
    • Intraspecific variation in smallsubunit rRNA sequences in GenBank: Why single sequences may not adequately represent prokaryotic taxa
    • Clayton RA, Sutton G, Hinkle PS Jr, Bult C, Fields C (1995) Intraspecific variation in smallsubunit rRNA sequences in GenBank: why single sequences may not adequately represent prokaryotic taxa. Int J Syst Bacteriol 45:595-599
    • (1995) Int J Syst Bacteriol , vol.45 , pp. 595-599
    • Clayton, R.A.1    Sutton, G.2    Hinkle Jr., P.S.3    Bult, C.4    Fields, C.5
  • 21
    • 0036407157 scopus 로고    scopus 로고
    • What are bacterial species?
    • Cohan FM (2002) What are bacterial species? Annu Rev Microbiol 56:457-487
    • (2002) Annu Rev Microbiol , vol.56 , pp. 457-487
    • Cohan, F.M.1
  • 22
    • 23944436830 scopus 로고    scopus 로고
    • Concepts of bacterial biodiversity for the age of genomics
    • Fraser CM, Read T, Nelson KE ed, Humana, Totowa
    • Cohan FM (2004) Concepts of bacterial biodiversity for the age of genomics. In: Fraser CM, Read T, Nelson KE (ed) Microbial genomes. Humana, Totowa, pp 175-194
    • (2004) Microbial Genomes , pp. 175-194
    • Cohan, F.M.1
  • 24
    • 2942566096 scopus 로고    scopus 로고
    • Prokaryotic diversity and its limits: Microbial community structure in nature and implications for microbial ecology
    • Curtis TP, Sloan WT (2004) Prokaryotic diversity and its limits: microbial community structure in nature and implications for microbial ecology. Curr Opin Microbiol 7:221-226
    • (2004) Curr Opin Microbiol , vol.7 , pp. 221-226
    • Curtis, T.P.1    Sloan, W.T.2
  • 26
    • 0036061865 scopus 로고    scopus 로고
    • A phylogenomic approach to bacterial phylogeny: Evidence of a core of genes sharing a common history
    • Daubin V, Gouy M, Perriere G (2002) A phylogenomic approach to bacterial phylogeny: evidence of a core of genes sharing a common history. Genome Res 12:1080-1090
    • (2002) Genome Res , vol.12 , pp. 1080-1090
    • Daubin, V.1    Gouy, M.2    Perriere, G.3
  • 27
    • 0042027842 scopus 로고    scopus 로고
    • Phylogenetics and the cohesion of bacterial genomes
    • Daubin V, Moran NA, Ochman H (2003) Phylogenetics and the cohesion of bacterial genomes. Science 301:829-832
    • (2003) Science , vol.301 , pp. 829-832
    • Daubin, V.1    Moran, N.A.2    Ochman, H.3
  • 28
    • 0035527414 scopus 로고    scopus 로고
    • Environmental diversity of bacteria and archaea
    • DeLong EF, Pace NR (2001) Environmental diversity of bacteria and archaea. Syst Biol 50:470-478
    • (2001) Syst Biol , vol.50 , pp. 470-478
    • DeLong, E.F.1    Pace, N.R.2
  • 29
    • 0029561021 scopus 로고
    • The reck gene of Borrelia burgdorferi
    • Dew-Jager K, Yu WQ, Huang WM (1995) The reck gene of Borrelia burgdorferi. Gene 167:137-140
    • (1995) Gene , vol.167 , pp. 137-140
    • Dew-Jager, K.1    Yu, W.Q.2    Huang, W.M.3
  • 30
  • 31
    • 0031981808 scopus 로고    scopus 로고
    • Santa Rosalia revisited: Why are there so many species of bacteria?
    • Dykhuizen DE (1998) Santa Rosalia revisited: why are there so many species of bacteria? Antonie Van Leeuwenhoek 73:25-33
    • (1998) Antonie van Leeuwenhoek , vol.73 , pp. 25-33
    • Dykhuizen, D.E.1
  • 32
    • 0024444791 scopus 로고
    • Isolation and direct complete nucleotide determination of entire genes. Characterization of a gene coding for 16S ribosomal RNA
    • Edwards U, Rogall T, Blocker H, Emde M, Bottger EC (1989) Isolation and direct complete nucleotide determination of entire genes. Characterization of a gene coding for 16S ribosomal RNA. Nucleic Acids Res 17:7843-7853
    • (1989) Nucleic Acids Res , vol.17 , pp. 7843-7853
    • Edwards, U.1    Rogall, T.2    Blocker, H.3    Emde, M.4    Bottger, E.C.5
  • 33
    • 84959798530 scopus 로고
    • Cases in which parsimony or compatibility methods will be positively misleading
    • Felsenstein J (1978) Cases in which parsimony or compatibility methods will be positively misleading. Syst Zool 27:401-410
    • (1978) Syst Zool , vol.27 , pp. 401-410
    • Felsenstein, J.1
  • 34
    • 0019797407 scopus 로고
    • Evolutionary trees from DNA sequences: A maximum likelihood approach
    • Felsenstein J (1981) Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17:368-376
    • (1981) J Mol Evol , vol.17 , pp. 368-376
    • Felsenstein, J.1
  • 36
    • 0033004743 scopus 로고    scopus 로고
    • Compositional bias may affect both DNA-based and proteinbased phylogenetic reconstructions
    • Foster PG, Hickey DA (1999) Compositional bias may affect both DNA-based and proteinbased phylogenetic reconstructions. J Mol Evol 48:284-290
    • (1999) J Mol Evol , vol.48 , pp. 284-290
    • Foster, P.G.1    Hickey, D.A.2
  • 39
    • 9044222878 scopus 로고    scopus 로고
    • HSP60 gene sequences as universal targets for microbial species identification: Studies with coagulase-negative staphylococci
    • Goh SH, Potter S, Wood JO, Hemmingsen SM, Reynolds RP, Chow AW (1996) HSP60 gene sequences as universal targets for microbial species identification: studies with coagulase-negative staphylococci. J Clin Microbiol 34:818-823
    • (1996) J Clin Microbiol , vol.34 , pp. 818-823
    • Goh, S.H.1    Potter, S.2    Wood, J.O.3    Hemmingsen, S.M.4    Reynolds, R.P.5    Chow, A.W.6
  • 40
    • 0034870192 scopus 로고    scopus 로고
    • Quantifying biodiversity: Procedures and pitfalls in the measurement and comparison of species richness
    • Gotelli NJ, Colwell RK (2001) Quantifying biodiversity: procedures and pitfalls in the measurement and comparison of species richness. Ecol Lett 4:379-391
    • (2001) Ecol Lett , vol.4 , pp. 379-391
    • Gotelli, N.J.1    Colwell, R.K.2
  • 41
    • 0032956536 scopus 로고    scopus 로고
    • Discontinuous occurrence of the hsp70 (dnaK) gene among Archaea and sequence features of HSP70 suggest a novel outlook on phylogenies inferred from this protein
    • Gribaldo S, Lumia V, Creti R, de Macario EC, Sanangelantoni A, Cammarano P (1999) Discontinuous occurrence of the hsp70 (dnaK) gene among Archaea and sequence features of HSP70 suggest a novel outlook on phylogenies inferred from this protein. J Bacteriol 181:434-443
    • (1999) J Bacteriol , vol.181 , pp. 434-443
    • Gribaldo, S.1    Lumia, V.2    Creti, R.3    De Macario, E.C.4    Sanangelantoni, A.5    Cammarano, P.6
  • 42
    • 0019293443 scopus 로고
    • Reproducivility and correlation study of three deoxiribonucleic acid hybridization procedures
    • Grimont P A D, Popoff MY, Frimond F, Coynault C, Lemelin M. (1980) Reproducivility and correlation study of three deoxiribonucleic acid hybridization procedures. Curr Microbiol 4:325-330
    • (1980) Curr Microbiol , vol.4 , pp. 325-330
    • Grimont, P.A.D.1    Popoff, M.Y.2    Frimond, F.3    Coynault, C.4    Lemelin, M.5
  • 43
    • 0031794743 scopus 로고    scopus 로고
    • Protein phylogenies and signature sequences: A reappraisal of evolutionary relationships among archaebacteria, eubacteria, and eukaryotes
    • Gupta RS (1998) Protein phylogenies and signature sequences: a reappraisal of evolutionary relationships among archaebacteria, eubacteria, and eukaryotes. Microbiol Mol Biol Rev 62:1435-1491
    • (1998) Microbiol Mol Biol Rev , vol.62 , pp. 1435-1491
    • Gupta, R.S.1
  • 44
    • 0028261409 scopus 로고
    • Lessons from an evolving rRNA: 16S and 23S rRNA structures from a comparative perspective
    • Gutell RR, Larsen N, Woese CR (1994) Lessons from an evolving rRNA: 16S and 23S rRNA structures from a comparative perspective. Microbiol Rev 58:10-26
    • (1994) Microbiol Rev , vol.58 , pp. 10-26
    • Gutell, R.R.1    Larsen, N.2    Woese, C.R.3
  • 45
    • 0036600570 scopus 로고    scopus 로고
    • The accuracy of ribosomal RNA comparative structure models
    • Gutell RR, Lee JC, Cannone JJ (2002) The accuracy of ribosomal RNA comparative structure models. Curr Opin Struct Biol 12:301-310
    • (2002) Curr Opin Struct Biol , vol.12 , pp. 301-310
    • Gutell, R.R.1    Lee, J.C.2    Cannone, J.J.3
  • 47
    • 0028215621 scopus 로고
    • Codon usage patterns suggest independent evolution of two catabolic operons on toluene-degradative plasmid TOL pWWO of Pseudomonas putida
    • Harayama S (1994) Codon usage patterns suggest independent evolution of two catabolic operons on toluene-degradative plasmid TOL pWWO of Pseudomonas putida. J Mol Evol 38:328-335
    • (1994) J Mol Evol , vol.38 , pp. 328-335
    • Harayama, S.1
  • 48
    • 0027232202 scopus 로고
    • Comparison of the nucleotide sequences of the meta-cleavage pathway genes of TOL plasmid pWWO from Pseudomonas putida with other metacleavage genes suggests that both single and multiple nucleotide substitutions contribute to enzyme evolution
    • Harayama S, Rekik M (1993) Comparison of the nucleotide sequences of the meta-cleavage pathway genes of TOL plasmid pWWO from Pseudomonas putida with other metacleavage genes suggests that both single and multiple nucleotide substitutions contribute to enzyme evolution. Mol Gen Genet 239:81-89
    • (1993) Mol Gen Genet , vol.239 , pp. 81-89
    • Harayama, S.1    Rekik, M.2
  • 49
    • 0141502460 scopus 로고    scopus 로고
    • Taxonomic re-evaluation of whorl-forming Streptomyces (formerly Streptoverticillium) species by using phenotypes, DNA-DNA hybridization and sequences of gyrB, and proposal of Streptomyces luteireticuli (ex Katoh and Arai 1957) corrig., sp. nov., nom. rev
    • Hatano K, Nishii T, Kasai H (2003) Taxonomic re-evaluation of whorl-forming Streptomyces (formerly Streptoverticillium) species by using phenotypes, DNA-DNA hybridization and sequences of gyrB, and proposal of Streptomyces luteireticuli (ex Katoh and Arai 1957) corrig., sp. nov., nom. rev. Int J Syst Evol Microbiol 53:1519-1529
    • (2003) Int J Syst Evol Microbiol , vol.53 , pp. 1519-1529
    • Hatano, K.1    Nishii, T.2    Kasai, H.3
  • 51
    • 0022516669 scopus 로고
    • Evolutionary change in 5S rRNA secondary structure and a phylogenic tree of 352 5S rRNA species
    • Hori H, Osawa S (1986) Evolutionary change in 5S rRNA secondary structure and a phylogenic tree of 352 5S rRNA species. Biosystems 19:163-172
    • (1986) Biosystems , vol.19 , pp. 163-172
    • Hori, H.1    Osawa, S.2
  • 52
    • 0037217221 scopus 로고    scopus 로고
    • Chimeric 16S rDNA sequences of diverse origin are accumulating in the public databases
    • Hugenholtz P, Huber T (2003) Chimeric 16S rDNA sequences of diverse origin are accumulating in the public databases. Int J Syst Evol Microbiol 53:289-293
    • (2003) Int J Syst Evol Microbiol , vol.53 , pp. 289-293
    • Hugenholtz, P.1    Huber, T.2
  • 53
    • 0035487318 scopus 로고    scopus 로고
    • Counting the uncountable: Statistical approaches to estimating microbial diversity
    • Hughes JB, Hellmann JJ, Ricketts TH, Bohannan BJ (2002a) Counting the uncountable: statistical approaches to estimating microbial diversity. Appl Environ Microbiol 67:4399-4406
    • (2002) Appl Environ Microbiol , vol.67 , pp. 4399-4406
    • Hughes, J.B.1    Hellmann, J.J.2    Ricketts, T.H.3    Bohannan, B.J.4
  • 55
    • 0019824131 scopus 로고
    • Correlation between the abundance of Escherichia coli transfer RNAs and the occurrence of the respective codons in its protein genes: A proposal for a synonymous codon choice that is optimal for the E. coli translational system
    • Ikemura T (1981) Correlation between the abundance of Escherichia coli transfer RNAs and the occurrence of the respective codons in its protein genes: a proposal for a synonymous codon choice that is optimal for the E. coli translational system. J Mol Biol 151:389-409
    • (1981) J Mol Biol , vol.151 , pp. 389-409
    • Ikemura, T.1
  • 56
    • 0024358140 scopus 로고
    • Evolutionary relationship of archaebacteria, eubacteria, and eukaryotes inferred from phylogenetic trees of duplicated genes
    • Iwabe N, Kuma K, Hasegawa M, Osawa S, Miyata T (1989) Evolutionary relationship of archaebacteria, eubacteria, and eukaryotes inferred from phylogenetic trees of duplicated genes. Proc Natl Acad Sci USA 86:9355-9359
    • (1989) Proc Natl Acad Sci USA , vol.86 , pp. 9355-9359
    • Iwabe, N.1    Kuma, K.2    Hasegawa, M.3    Osawa, S.4    Miyata, T.5
  • 57
    • 0033616714 scopus 로고    scopus 로고
    • Horizontal gene transfer among genomes: The complexity hypothesis
    • Jain R, Rivera MC, Lake JA (1999) Horizontal gene transfer among genomes: the complexity hypothesis. Proc Natl Acad Sci USA 96:3801-3806
    • (1999) Proc Natl Acad Sci USA , vol.96 , pp. 3801-3806
    • Jain, R.1    Rivera, M.C.2    Lake, J.A.3
  • 58
    • 0034807791 scopus 로고    scopus 로고
    • New approach to phylogenetic analysis of the genus Bifidobacterium based on partial HSP60 gene sequences
    • Jian W, Zhu L, Dong X (2001) New approach to phylogenetic analysis of the genus Bifidobacterium based on partial HSP60 gene sequences. Int J Syst Evol Microbiol 51:1633-1638
    • (2001) Int J Syst Evol Microbiol , vol.51 , pp. 1633-1638
    • Jian, W.1    Zhu, L.2    Dong, X.3
  • 59
    • 0025061094 scopus 로고
    • Limitations of the evolutionary parsimony method of phylogenetic analysis
    • Jin L, Nei M (1990a) Limitations of the evolutionary parsimony method of phylogenetic analysis. Mol Biol Evol 7:82-102
    • (1990) Mol Biol Evol , vol.7 , pp. 82-102
    • Jin, L.1    Nei, M.2
  • 61
    • 0015905932 scopus 로고
    • Use of nucleic-acid homologies in the taxonomy of anaerobic bacteria
    • Johnson JL (1973) Use of nucleic-acid homologies in the taxonomy of anaerobic bacteria. Int J Syst Bacterid 23:308-315
    • (1973) Int J Syst Bacterid , vol.23 , pp. 308-315
    • Johnson, J.L.1
  • 62
    • 0000732090 scopus 로고
    • Evolution of protein molecules
    • Munro HN ed, Academic, New York
    • Jukes TH, Cantor CR (1969) Evolution of protein molecules. In: Munro HN (ed) Mammalian protein metabolism. Academic, New York, pp 21-132
    • (1969) Mammalian Protein Metabolism , pp. 21-132
    • Jukes, T.H.1    Cantor, C.R.2
  • 63
    • 0025259313 scopus 로고
    • Methods for assessing the statistical significance of molecular sequence features by using general scoring schemes
    • Karlin S, Altschul SF (1990) Methods for assessing the statistical significance of molecular sequence features by using general scoring schemes. Proc Natl Acad Sci USA 87:2264-2268
    • (1990) Proc Natl Acad Sci USA , vol.87 , pp. 2264-2268
    • Karlin, S.1    Altschul, S.F.2
  • 64
    • 0028970713 scopus 로고
    • Bacterial classifications derived from reck protein sequence comparisons
    • Karlin S, Weinstock GM, Brendel V (1995) Bacterial classifications derived from reck protein sequence comparisons. J Bacteriol 177:6881-6893
    • (1995) J Bacteriol , vol.177 , pp. 6881-6893
    • Karlin, S.1    Weinstock, G.M.2    Brendel, V.3
  • 65
    • 1842332701 scopus 로고    scopus 로고
    • Compositional biases of bacterial genomes and evolutionary implications
    • Karlin S, Mrazek J, Campbell AM (1997) Compositional biases of bacterial genomes and evolutionary implications. J Bacteriol 179:3899-3913
    • (1997) J Bacteriol , vol.179 , pp. 3899-3913
    • Karlin, S.1    Mrazek, J.2    Campbell, A.M.3
  • 67
    • 0033986599 scopus 로고    scopus 로고
    • Differentiation of phylogenetically related slowly growing mycobacteria by their gyrB sequences
    • Kasai H, Ezaki T, Harayama S (2000) Differentiation of phylogenetically related slowly growing mycobacteria by their gyrB sequences. J Clin Microbiol 38:301-308
    • (2000) J Clin Microbiol , vol.38 , pp. 301-308
    • Kasai, H.1    Ezaki, T.2    Harayama, S.3
  • 68
    • 0025027077 scopus 로고
    • New topoisomerase essential for chromosome segregation in E. coli
    • Kato J, Nishimura Y, Imamura R, Niki H, Hiraga S, Suzuki H (1990) New topoisomerase essential for chromosome segregation in E. coli. Cell 63:393-404
    • (1990) Cell , vol.63 , pp. 393-404
    • Kato, J.1    Nishimura, Y.2    Imamura, R.3    Niki, H.4    Hiraga, S.5    Suzuki, H.6
  • 69
    • 0019296687 scopus 로고
    • A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences
    • Kimura M (1980) A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 16:111-120
    • (1980) J Mol Evol , vol.16 , pp. 111-120
    • Kimura, M.1
  • 71
    • 0036139211 scopus 로고    scopus 로고
    • MEGA2: Molecular evolutionary genetics analysis software
    • Kumar S, Tamura K, Jakobsen IB, Nei M (2001) MEGA2: molecular evolutionary genetics analysis software. Bioinformatics 17:1244-1245
    • (2001) Bioinformatics , vol.17 , pp. 1244-1245
    • Kumar, S.1    Tamura, K.2    Jakobsen, I.B.3    Nei, M.4
  • 73
    • 0037216028 scopus 로고    scopus 로고
    • Phylogenetic study of Staphylococcus and Macrococcus species based on partial hsp60 gene sequences
    • Kwok AY, Chow AW (2003) Phylogenetic study of Staphylococcus and Macrococcus species based on partial hsp60 gene sequences. Int J Syst Evol Microbiol 53:87-92
    • (2003) Int J Syst Evol Microbiol , vol.53 , pp. 87-92
    • Kwok, A.Y.1    Chow, A.W.2
  • 74
    • 1142297445 scopus 로고    scopus 로고
    • Gyrb as a phylogenetic discriminator for members of the Bacillus anthracis-cereus-thuringiensis group
    • La Due MT, Satomi M, Agata N, Venkateswaran K (2004) gyrB as a phylogenetic discriminator for members of the Bacillus anthracis-cereus- thuringiensis group. J Microbiol Methods 56:383-394
    • (2004) J Microbiol Methods , vol.56 , pp. 383-394
    • La Due, M.T.1    Satomi, M.2    Agata, N.3    Venkateswaran, K.4
  • 75
    • 0037166285 scopus 로고    scopus 로고
    • An open conformation of the Thermus thertnophilus gyrase B ATP-binding domain
    • Lamour V, Hoermann L, Jeltsch JM, Oudet P, Moras D (2002) An open conformation of the Thermus thertnophilus gyrase B ATP-binding domain. J Biol Chem 277:18947-18953
    • (2002) J Biol Chem , vol.277 , pp. 18947-18953
    • Lamour, V.1    Hoermann, L.2    Jeltsch, J.M.3    Oudet, P.4    Moras, D.5
  • 77
    • 0035800661 scopus 로고    scopus 로고
    • Evolution of tuf genes: Ancient duplication, differential loss and gene conversion
    • Lathe WC 3rd, Bork P (2001) Evolution of tuf genes: ancient duplication, differential loss and gene conversion. FEBS Lett 502:113-116
    • (2001) FEBS Lett , vol.502 , pp. 113-116
    • Lathe III, W.C.1    Bork, P.2
  • 78
    • 1342271382 scopus 로고    scopus 로고
    • From gene trees to organismal phylogeny in prokaryotes: The case of the y-Proteobacteria
    • Lerat E, Daubin V, Moran NA. (2003) From gene trees to organismal phylogeny in prokaryotes: the case of the y-Proteobacteria. PLoS Biol 1:E19
    • (2003) PLoS Biol , vol.1
    • Lerat, E.1    Daubin, V.2    Moran, N.A.3
  • 79
    • 0036308535 scopus 로고    scopus 로고
    • Genetic diversity of the outer surface protein C gene of southern Borrelia isolates and its possible epidemiological, clinical, and pathogenetic implications
    • Lin T, Oliver JH Jr, Gao L (2002) Genetic diversity of the outer surface protein C gene of southern Borrelia isolates and its possible epidemiological, clinical, and pathogenetic implications. J Clin Microbiol 40:2572-2583
    • (2002) J Clin Microbiol , vol.40 , pp. 2572-2583
    • Lin, T.1    Oliver Jr., J.H.2    Gao, L.3
  • 80
    • 0027359258 scopus 로고
    • Evolution of the reck gene and the molecular phylogeny of bacteria
    • Lloyd AT, Sharp PM (1993) Evolution of the reck gene and the molecular phylogeny of bacteria. J Mol Evol 37:399-407
    • (1993) J Mol Evol , vol.37 , pp. 399-407
    • Lloyd, A.T.1    Sharp, P.M.2
  • 81
    • 0035875112 scopus 로고    scopus 로고
    • Survey and summary: The applications of universal DNA base analogues
    • Loakes D (2001) Survey and summary: the applications of universal DNA base analogues. Nucleic Acids Res 29:2437-2447
    • (2001) Nucleic Acids Res , vol.29 , pp. 2437-2447
    • Loakes, D.1
  • 82
    • 0027998116 scopus 로고
    • Bacterial phylogeny based on 16S and 23S rRNA sequence analysis
    • Ludwig W, Schleifer KH (1994) Bacterial phylogeny based on 16S and 23S rRNA sequence analysis. FEMS Microbiol Rev 15:155-173
    • (1994) FEMS Microbiol Rev , vol.15 , pp. 155-173
    • Ludwig, W.1    Schleifer, K.H.2
  • 84
    • 4644290878 scopus 로고    scopus 로고
    • Estimating bacterial diversity from clone libraries with flat rank abundance distributions
    • Lunn M, Sloan WT, Curtis TP (2004) Estimating bacterial diversity from clone libraries with flat rank abundance distributions. Environ Microbiol 6:1081-1085
    • (2004) Environ Microbiol , vol.6 , pp. 1081-1085
    • Lunn, M.1    Sloan, W.T.2    Curtis, T.P.3
  • 86
    • 0026629643 scopus 로고
    • Phylogenetic interrelationships of members of the genera Aeromonas and Plesiomonas as determined by 16S ribosomal DNA sequencing: Lack of congruence with results of DNA-DNA hybridizations
    • Martinez-Murcia AJ, Benlloch S, Collins MD (1992) Phylogenetic interrelationships of members of the genera Aeromonas and Plesiomonas as determined by 16S ribosomal DNA sequencing: lack of congruence with results of DNA-DNA hybridizations. Int J Syst Bacteriol 42:412-421
    • (1992) Int J Syst Bacteriol , vol.42 , pp. 412-421
    • Martinez-Murcia, A.J.1    Benlloch, S.2    Collins, M.D.3
  • 87
    • 3242876311 scopus 로고    scopus 로고
    • BLAST: At the core of a powerful and diverse set of sequence analysis tools
    • McGinnis S, Madden TL (2004) BLAST: at the core of a powerful and diverse set of sequence analysis tools. Nucleic Acids Res 32:W20-W25
    • (2004) Nucleic Acids Res , vol.32
    • McGinnis, S.1    Madden, T.L.2
  • 88
    • 0024241467 scopus 로고
    • The characterization of enzymatically amplified eukaryotic 16S-like rRNA-coding regions
    • Medlin L, Elwood HJ, Stickel S, Sogin ML (1988) The characterization of enzymatically amplified eukaryotic 16S-like rRNA-coding regions. Gene 71:491-499
    • (1988) Gene , vol.71 , pp. 491-499
    • Medlin, L.1    Elwood, H.J.2    Stickel, S.3    Sogin, M.L.4
  • 89
    • 0036731845 scopus 로고    scopus 로고
    • Molecular evolution of aromatic polyketides and comparative sequence analysis of polyketide ketosynthase and 16S ribosomal DNA genes from various Streptomyces species
    • Metsa-Ketela M, Halo L, Munukka E, Hakala J, Mantsala P, Ylihonko K (2002) Molecular evolution of aromatic polyketides and comparative sequence analysis of polyketide ketosynthase and 16S ribosomal DNA genes from various Streptomyces species. Appl Environ Microbiol 68:4472-4479
    • (2002) Appl Environ Microbiol , vol.68 , pp. 4472-4479
    • Metsa-Ketela, M.1    Halo, L.2    Munukka, E.3    Hakala, J.4    Mantsala, P.5    Ylihonko, K.6
  • 90
    • 2942665966 scopus 로고    scopus 로고
    • Phylogenetic analysis of gastric and enterohepatic Helicobacter species based on partial HSP60 gene sequences
    • Mikkonen TP, Karenlampi RI, Hanninen ML (2004) Phylogenetic analysis of gastric and enterohepatic Helicobacter species based on partial HSP60 gene sequences. Int J Syst Evol Microbiol 54:753-758
    • (2004) Int J Syst Evol Microbiol , vol.54 , pp. 753-758
    • Mikkonen, T.P.1    Karenlampi, R.I.2    Hanninen, M.L.3
  • 91
    • 0030669211 scopus 로고    scopus 로고
    • Rpob sequence analysis as a novel basis for bacterial identification
    • Mollet C, Drancourt M, Raoult D (1997) rpoB sequence analysis as a novel basis for bacterial identification. Mol Microbiol 26:1005-1011
    • (1997) Mol Microbiol , vol.26 , pp. 1005-1011
    • Mollet, C.1    Drancourt, M.2    Raoult, D.3
  • 92
    • 0029866448 scopus 로고    scopus 로고
    • Accelerated evolution and Muller's rachet in endosymbiotic bacteria
    • Moran NA (1996) Accelerated evolution and Muller's rachet in endosymbiotic bacteria. Proc Natl Acad Sci USA 93:2873-2378
    • (1996) Proc Natl Acad Sci USA , vol.93 , pp. 2873-2378
    • Moran, N.A.1
  • 93
    • 0029798105 scopus 로고    scopus 로고
    • Analysis of the beta' subunit of DNA-dependent RNA polymerase does not support the hypothesis inferred from 16S rRNA analysis that Oenococcus oeni (formerly Leuconostoc oenos) is a tachytelic (fast-evolving) bacterium
    • Morse R, Collins MD, O'Hanlon K, Wallbanks S, Richardson PT (1996) Analysis of the beta' subunit of DNA-dependent RNA polymerase does not support the hypothesis inferred from 16S rRNA analysis that Oenococcus oeni (formerly Leuconostoc oenos) is a tachytelic (fast-evolving) bacterium. Int J Syst Bacteriol 46:1004-1009
    • (1996) Int J Syst Bacteriol , vol.46 , pp. 1004-1009
    • Morse, R.1    Collins, M.D.2    O'Hanlon, K.3    Wallbanks, S.4    Richardson, P.T.5
  • 97
    • 0034682335 scopus 로고    scopus 로고
    • Lateral gene transfer and the nature of bacterial innovation
    • Ochman H, Lawrence JG, Groisman EA (2000) Lateral gene transfer and the nature of bacterial innovation. Nature 405:299-304
    • (2000) Nature , vol.405 , pp. 299-304
    • Ochman, H.1    Lawrence, J.G.2    Groisman, E.A.3
  • 99
    • 9644268091 scopus 로고    scopus 로고
    • Development of PCR primers specific for the amplification and direct sequencing of gyrB genes from microbacteria, order Actinomycetales
    • Richert K, Brambilla E, Stackebrandt E (2005) Development of PCR primers specific for the amplification and direct sequencing of gyrB genes from microbacteria, order Actinomycetales. J Microbiol Methods 60:115-123
    • (2005) J Microbiol Methods , vol.60 , pp. 115-123
    • Richert, K.1    Brambilla, E.2    Stackebrandt, E.3
  • 100
    • 0026684272 scopus 로고
    • Evidence that eukaryotes and eocyte prokaryotes are immediate relatives
    • Rivera MC, Lake JA (1992) Evidence that eukaryotes and eocyte prokaryotes are immediate relatives. Science 257:74-76
    • (1992) Science , vol.257 , pp. 74-76
    • Rivera, M.C.1    Lake, J.A.2
  • 101
    • 0028949206 scopus 로고
    • The mechanisms of DNA topoisomerases
    • Roca, J (1995) The mechanisms of DNA topoisomerases. Trends Biochem Sci 20:156-160
    • (1995) Trends Biochem Sci , vol.20 , pp. 156-160
    • Roca, J.1
  • 102
    • 2942528667 scopus 로고    scopus 로고
    • The path of the DNA along the dimer interface of topoisomerase II
    • Roca J (2004) The path of the DNA along the dimer interface of topoisomerase II. J Biol Chem 279:25783-25788
    • (2004) J Biol Chem , vol.279 , pp. 25783-25788
    • Roca, J.1
  • 103
    • 8744310123 scopus 로고    scopus 로고
    • Codon usage bias from tRNA's point of view: Redundancy, specialization, and efficient decoding for translation optimization
    • Rocha EP (2004) Codon usage bias from tRNA's point of view: redundancy, specialization, and efficient decoding for translation optimization. Genome Res 14:2279-2286
    • (2004) Genome Res , vol.14 , pp. 2279-2286
    • Rocha, E.P.1
  • 104
    • 1242284655 scopus 로고    scopus 로고
    • An analysis of determinants of amino acids substitution rates in bacterial proteins
    • Rocha EP, Danchin A (2004) An analysis of determinants of amino acids substitution rates in bacterial proteins. Mol Biol Evol 21:108-116
    • (2004) Mol Biol Evol , vol.21 , pp. 108-116
    • Rocha, E.P.1    Danchin, A.2
  • 106
    • 0043122986 scopus 로고    scopus 로고
    • CODEHOP (consensus-degenerate hybrid oligonucleotide primer) PCR primer design
    • Rose TM, Henikoff JG, Henikoff S (2003) CODEHOP (consensus-degenerate hybrid oligonucleotide primer) PCR primer design. Nucleic Acids Res 31:3763-3766
    • (2003) Nucleic Acids Res , vol.31 , pp. 3763-3766
    • Rose, T.M.1    Henikoff, J.G.2    Henikoff, S.3
  • 108
    • 0028238297 scopus 로고
    • Use of deoyinosinecontaining primers vs degenerate primers for polymerase chain reaction based on ambiguous sequence information
    • Rossolini GM, Cresti S, Ingianni A, Cattani P, Riccio ML, Satta G (1994) Use of deoyinosinecontaining primers vs degenerate primers for polymerase chain reaction based on ambiguous sequence information. Mol Cell Probes 8:91-98
    • (1994) Mol Cell Probes , vol.8 , pp. 91-98
    • Rossolini, G.M.1    Cresti, S.2    Ingianni, A.3    Cattani, P.4    Riccio, M.L.5    Satta, G.6
  • 109
    • 0023375195 scopus 로고
    • The neighbor-joining method: A new method for reconstructing phylogenetic trees
    • Saitou N, Nei M (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
  • 110
    • 3042826875 scopus 로고    scopus 로고
    • Identification and phylogenetic sorting of bacterial lineages with universally conserved genes and proteins
    • Santos SR, Ochman H (2004) Identification and phylogenetic sorting of bacterial lineages with universally conserved genes and proteins. Environ Microbiol 6:754-759
    • (2004) Environ Microbiol , vol.6 , pp. 754-759
    • Santos, S.R.1    Ochman, H.2
  • 113
    • 0037417067 scopus 로고    scopus 로고
    • Resistance genes of aminocoumarin producers: Two type II topoisomerase genes confer resistance against coumermycin Al and clorobiocin
    • Schmutz E, Muhlenweg A, Li SM, Heide L (2003) Resistance genes of aminocoumarin producers: two type II topoisomerase genes confer resistance against coumermycin Al and clorobiocin. Antimicrob Agents Chemother 47:869-877
    • (2003) Antimicrob Agents Chemother , vol.47 , pp. 869-877
    • Schmutz, E.1    Muhlenweg, A.2    Li, S.M.3    Heide, L.4
  • 114
    • 0034618559 scopus 로고    scopus 로고
    • Genome sequence of the endocellular bacterial symbiont of aphids Buchnera sp. APS
    • Shigenobu S, Watanabe H, Hattori M, Sakaki Y, Ishikawa H (2000) Genome sequence of the endocellular bacterial symbiont of aphids Buchnera sp. APS. Nature 407:81-86
    • (2000) Nature , vol.407 , pp. 81-86
    • Shigenobu, S.1    Watanabe, H.2    Hattori, M.3    Sakaki, Y.4    Ishikawa, H.5
  • 115
    • 1542614592 scopus 로고    scopus 로고
    • Empirical models for substitution in ribosomal RNA
    • Smith AD, Lui TW, Tillier ER (2003) Empirical models for substitution in ribosomal RNA. Mol Biol Evol 21:419-427
    • (2003) Mol Biol Evol , vol.21 , pp. 419-427
    • Smith, A.D.1    Lui, T.W.2    Tillier, E.R.3
  • 116
    • 0027305615 scopus 로고
    • Evidence from Aeromonas for genetic crossing-over in ribosomal sequences
    • Sneath PH (1993) Evidence from Aeromonas for genetic crossing-over in ribosomal sequences. Int J Syst Bacteriol 43:626-629
    • (1993) Int J Syst Bacteriol , vol.43 , pp. 626-629
    • Sneath, P.H.1
  • 118
    • 0024724926 scopus 로고
    • DNA hybridization in animal taxonomy: A critique from first principles
    • Springer M, Krajewski C (1989) DNA hybridization in animal taxonomy: a critique from first principles. Q Rev Biol 64:291-318
    • (1989) Q Rev Biol , vol.64 , pp. 291-318
    • Springer, M.1    Krajewski, C.2
  • 119
    • 0028028182 scopus 로고
    • Taxonomic note: A place for DNA-DNA reassociation and 16S rRNA sequence analysis in the present species definition in bacteriology
    • Stackebrandt E and Gobel BM (1994) Taxonomic note: a place for DNA-DNA reassociation and 16S rRNA sequence analysis in the present species definition in bacteriology. Int J Syst Bacteriol 44:846-849
    • (1994) Int J Syst Bacteriol , vol.44 , pp. 846-849
    • Stackebrandt, E.1    Gobel, B.M.2
  • 121
    • 0034048695 scopus 로고    scopus 로고
    • Identification of the novobiocin biosynthetic gene cluster of Streptomyces spheroides NCIB 11891
    • Steffensky M, Muhlenweg A, Wang ZX, Li SM, Heide L (2000) Identification of the novobiocin biosynthetic gene cluster of Streptomyces spheroides NCIB 11891. Antimicrob Agents Chemother 44:1214-1222
    • (2000) Antimicrob Agents Chemother , vol.44 , pp. 1214-1222
    • Steffensky, M.1    Muhlenweg, A.2    Wang, Z.X.3    Li, S.M.4    Heide, L.5
  • 122
    • 0344430318 scopus 로고    scopus 로고
    • The variable part of the dnaK gene as an alternative marker for phylogenetic studies of rhizobia and related alpha Proteobacteria
    • Stepkowski T, Czaplinska M, Miedzinska K, Moulin L (2003) The variable part of the dnaK gene as an alternative marker for phylogenetic studies of rhizobia and related alpha Proteobacteria. Syst Appl Microbiol 26:483-494
    • (2003) Syst Appl Microbiol , vol.26 , pp. 483-494
    • Stepkowski, T.1    Czaplinska, M.2    Miedzinska, K.3    Moulin, L.4
  • 123
    • 0024039558 scopus 로고
    • Cloning and characterization of a DNA gyrase B gene from Streptomyces sphaeroides that confers resistance to novobiocin
    • Thiara AS, Cundliffe E (1988) Cloning and characterization of a DNA gyrase B gene from Streptomyces sphaeroides that confers resistance to novobiocin. EMBO J 7:2255-2259
    • (1988) EMBO J , vol.7 , pp. 2255-2259
    • Thiara, A.S.1    Cundliffe, E.2
  • 125
    • 0031574072 scopus 로고    scopus 로고
    • The Clustal X windows interface: Flexible strategies for multiple sequence alignment aided by quality analysis tools
    • Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG (1997) The Clustal X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 24:4876-4882
    • (1997) Nucleic Acids Res , vol.24 , pp. 4876-4882
    • Thompson, J.D.1    Gibson, T.J.2    Plewniak, F.3    Jeanmougin, F.4    Higgins, D.G.5
  • 126
    • 0036566806 scopus 로고    scopus 로고
    • Heteroduplexes in mixed-template amplifications: Formation, consequence and elimination by 'reconditioning PCR'
    • Thompson JR, Marcelino LA, Polz MF (2002) Heteroduplexes in mixed-template amplifications: formation, consequence and elimination by 'reconditioning PCR'. Nucleic Acids Res 30:2083-2088
    • (2002) Nucleic Acids Res , vol.30 , pp. 2083-2088
    • Thompson, J.R.1    Marcelino, L.A.2    Polz, M.F.3
  • 128
    • 0025256110 scopus 로고
    • Comparison of phenotypic diversity and DNA heterogeneity in a population of soil bacteria
    • Torsvik V, Salte K, Sorheim R, Goksoyr J (1990b) Comparison of phenotypic diversity and DNA heterogeneity in a population of soil bacteria. Appl Environ Microbiol 56:776-781
    • (1990) Appl Environ Microbiol , vol.56 , pp. 776-781
    • Torsvik, V.1    Salte, K.2    Sorheim, R.3    Goksoyr, J.4
  • 129
    • 0037052493 scopus 로고    scopus 로고
    • Prokaryotic diversity - Magnitude, dynamics, and controlling factors
    • Torsvik V, Ovreas L, Thingstad TF (2002) Prokaryotic diversity - magnitude, dynamics, and controlling factors. Science 296:1064-1066
    • (2002) Science , vol.296 , pp. 1064-1066
    • Torsvik, V.1    Ovreas, L.2    Thingstad, T.F.3
  • 131
    • 0029789623 scopus 로고    scopus 로고
    • A quantitative map of nucleotide substitution rates in bacterial rRNA
    • Van de Peer Y, Chapelle S, De Wachter R (1996) A quantitative map of nucleotide substitution rates in bacterial rRNA. Nucleic Acids Res 24:3381-3391
    • (1996) Nucleic Acids Res , vol.24 , pp. 3381-3391
    • Van De Peer, Y.1    Chapelle, S.2    De Wachter, R.3
  • 134
    • 0027309533 scopus 로고
    • Rates and patterns of base change in the small subunit ribosomal RNA gene
    • Vawter L, Brown WM (1993) Rates and patterns of base change in the small subunit ribosomal RNA gene. Genetics 134:597-608
    • (1993) Genetics , vol.134 , pp. 597-608
    • Vawter, L.1    Brown, W.M.2
  • 136
    • 0028343191 scopus 로고
    • Evolutionary relationships among bacterial groups as inferred from GroEL (Chaperonin) sequence comparisons
    • Viale AM, Arakaki AK, Soncini FC, Ferreyra RG (1994) Evolutionary relationships among bacterial groups as inferred from GroEL (Chaperonin) sequence comparisons. Int J Syst Bacteriol 44:527-533
    • (1994) Int J Syst Bacteriol , vol.44 , pp. 527-533
    • Viale, A.M.1    Arakaki, A.K.2    Soncini, F.C.3    Ferreyra, R.G.4
  • 137
    • 0037406933 scopus 로고    scopus 로고
    • Species-wide variation in the Escherichia coli flagellin (H-antigen) gene
    • Wang L, Rothemund D, Curd H, Reeves PR (2003) Species-wide variation in the Escherichia coli flagellin (H-antigen) gene. I Bacteriol 185:2936-2943
    • (2003) I Bacteriol , vol.185 , pp. 2936-2943
    • Wang, L.1    Rothemund, D.2    Curd, H.3    Reeves, P.R.4
  • 138
    • 0033743319 scopus 로고    scopus 로고
    • Identification of the coumermycin A (l) biosynthetic gene cluster of Streptomyces rishiriensis DSM 40489
    • Wang ZX, Li SM, Heide L (2000) Identification of the coumermycin A (l) biosynthetic gene cluster of Streptomyces rishiriensis DSM 40489. Antimicrob Agents Chemother 44:3040-3048
    • (2000) Antimicrob Agents Chemother , vol.44 , pp. 3040-3048
    • Wang, Z.X.1    Li, S.M.2    Heide, L.3
  • 139
    • 0033014982 scopus 로고    scopus 로고
    • An outbreak of nonflocculating catabolic populations caused the breakdown of a phenol-digesting activated-sludge process
    • Watanabe K, Teramoto M, Harayama S (1999) An outbreak of nonflocculating catabolic populations caused the breakdown of a phenol-digesting activated-sludge process. Appl Environ Microbiol 65:2813-2819
    • (1999) Appl Environ Microbiol , vol.65 , pp. 2813-2819
    • Watanabe, K.1    Teramoto, M.2    Harayama, S.3
  • 140
    • 0035795219 scopus 로고    scopus 로고
    • Design and evaluation of PCR primers to amplify 16S ribosomal DNA fragments used for community fingerprinting
    • Watanabe K, Kodama Y, Harayama S (2001a) Design and evaluation of PCR primers to amplify 16S ribosomal DNA fragments used for community fingerprinting. J Microbiol Methods 44:253-262
    • (2001) J Microbiol Methods , vol.44 , pp. 253-262
    • Watanabe, K.1    Kodama, Y.2    Harayama, S.3
  • 141
    • 0035167764 scopus 로고    scopus 로고
    • ICB database: The gyrB database for identification and classification of bacteria
    • Watanabe K, Nelson J, Harayama S, Kasai H (2001b) ICB database: the gyrB database for identification and classification of bacteria. Nucleic Acids Res 29:344-345
    • (2001) Nucleic Acids Res , vol.29 , pp. 344-345
    • Watanabe, K.1    Nelson, J.2    Harayama, S.3    Kasai, H.4
  • 143
    • 0029098588 scopus 로고
    • Structure and mechanism of DNA topoisomerases
    • Wigley DB (1995) Structure and mechanism of DNA topoisomerases. Annu Rev Biophys Biomol Struct 24:185-208
    • (1995) Annu Rev Biophys Biomol Struct , vol.24 , pp. 185-208
    • Wigley, D.B.1
  • 144
    • 0026428621 scopus 로고
    • Crystal structure of an N-terminal fragment of the DNA gyrase B protein
    • Wigley DB, Davies GJ, Dodson EJ, Maxwell A, Dodson G (1991) Crystal structure of an N-terminal fragment of the DNA gyrase B protein. Nature 351:624-629
    • (1991) Nature , vol.351 , pp. 624-629
    • Wigley, D.B.1    Davies, G.J.2    Dodson, E.J.3    Maxwell, A.4    Dodson, G.5
  • 146
    • 0025300402 scopus 로고
    • Towards a natural system of organisms: Proposal for the domains Archaea, Bacteria, and Eucarya
    • Woese CR, Kandler O, Wheelis ML (1990) Towards a natural system of organisms: proposal for the domains Archaea, Bacteria, and Eucarya. Proc Natl Acad Sci USA 87:4576-4579
    • (1990) Proc Natl Acad Sci USA , vol.87 , pp. 4576-4579
    • Woese, C.R.1    Kandler, O.2    Wheelis, M.L.3
  • 147
    • 0035945246 scopus 로고    scopus 로고
    • Distribution of substitution rates and location of insertion sites in the tertiary structure of ribosomal RNA
    • Wuyts J, Van de Peer Y, De Wachter R (2001) Distribution of substitution rates and location of insertion sites in the tertiary structure of ribosomal RNA. Nucleic Acids Res 29:5017-5028
    • (2001) Nucleic Acids Res , vol.29 , pp. 5017-5028
    • Wuyts, J.1    Van De Peer, Y.2    De Wachter, R.3
  • 148
    • 0028948030 scopus 로고
    • PCR amplification and direct sequencing of gyrB genes with universal primers and their application to the detection and taxonomic analysis of Pseudomonas putida strains
    • Yamamoto S, Harayama S (1995) PCR amplification and direct sequencing of gyrB genes with universal primers and their application to the detection and taxonomic analysis of Pseudomonas putida strains. Appl Environ Microbiol 61:1104-1109
    • (1995) Appl Environ Microbiol , vol.61 , pp. 1104-1109
    • Yamamoto, S.1    Harayama, S.2
  • 149
    • 0029863154 scopus 로고    scopus 로고
    • Phylogenetic analysis of Acinetobacter strains based on the nucleotide sequences of gyrB genes and on the amino acid sequences of their products
    • Yamamoto S, Harayama S (1996) Phylogenetic analysis of Acinetobacter strains based on the nucleotide sequences of gyrB genes and on the amino acid sequences of their products. Int J Syst Bacterid 46:506-511
    • (1996) Int J Syst Bacterid , vol.46 , pp. 506-511
    • Yamamoto, S.1    Harayama, S.2
  • 150
    • 0031827993 scopus 로고    scopus 로고
    • Phylogenetic relationships of Pseudomonas putida strains deduced from the nucleotide sequences of gyrB, rpoD and 16S rRNA genes
    • Yamamoto S, Harayama S (1998) Phylogenetic relationships of Pseudomonas putida strains deduced from the nucleotide sequences of gyrB, rpoD and 16S rRNA genes. Int J Syst Bacterid 48:813-819
    • (1998) Int J Syst Bacterid , vol.48 , pp. 813-819
    • Yamamoto, S.1    Harayama, S.2
  • 151
    • 0032931780 scopus 로고    scopus 로고
    • Phylogenetic structures of the genus Acinetobacter based on gyrB sequences: Comparison with the grouping by DNA-DNA hybridization
    • Yamamoto S, Bouvet PJ, Harayama S (1999) Phylogenetic structures of the genus Acinetobacter based on gyrB sequences: comparison with the grouping by DNA-DNA hybridization. Int J Syst Bacteriol 49:87-95
    • (1999) Int J Syst Bacteriol , vol.49 , pp. 87-95
    • Yamamoto, S.1    Bouvet, P.J.2    Harayama, S.3
  • 153
    • 0345328128 scopus 로고    scopus 로고
    • Gene sequences useful for predicting relatedness of whole genomes in bacteria
    • Zeigler DR (2003) Gene sequences useful for predicting relatedness of whole genomes in bacteria. Int J Syst Evol Microbiol 53:1893-1900
    • (2003) Int J Syst Evol Microbiol , vol.53 , pp. 1893-1900
    • Zeigler, D.R.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.