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Volumn 6, Issue 9, 2011, Pages

Biological consequences of ancient gene acquisition and duplication in the large genome of candidatus Solibacter usitatus Ellin6076

Author keywords

[No Author keywords available]

Indexed keywords

ACIDOBACTERIUM; AMINO ACID SEQUENCE; ARTICLE; BACTERIAL GENOME; BACTERIAL STRAIN; BACTERIOPHAGE; BACTERIUM; CONTROLLED STUDY; GENE DUPLICATION; GENE LOSS; GENE ORDER; GENETIC TRANSDUCTION; GENOME ANALYSIS; GENOME SIZE; HORIZONTAL GENE TRANSFER; NONHUMAN; NUCLEOTIDE SEQUENCE; PARALOGY; PLASMID; PREVALENCE; PULSED FIELD GEL ELECTROPHORESIS; SOLIBACTER USITATUS; UNINDEXED SEQUENCE; ACIDOBACTERIA; BACTERIAL GENE; CODON; GENETIC SELECTION; GENETICS; PHYLOGENY; SEQUENCE HOMOLOGY; STATISTICAL MODEL;

EID: 80052851351     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0024882     Document Type: Article
Times cited : (47)

References (85)
  • 1
    • 0032963409 scopus 로고    scopus 로고
    • Wide Distribution and Diversity of Members of the Bacterial Kingdom Acidobacterium in the Environment
    • Barns SM, Takala SL, Kuske CR, (1999) Wide Distribution and Diversity of Members of the Bacterial Kingdom Acidobacterium in the Environment. Appl Environ Microbiol 65: 1731-1737.
    • (1999) Appl Environ Microbiol , vol.65 , pp. 1731-1737
    • Barns, S.M.1    Takala, S.L.2    Kuske, C.R.3
  • 2
    • 0032914126 scopus 로고    scopus 로고
    • Levels of bacterial community diversity in four arid soils compared by cultivation and 16S rRNA gene cloning
    • Dunbar J, Takala S, Barns SM, Davis JA, Kuske CR, (1999) Levels of bacterial community diversity in four arid soils compared by cultivation and 16S rRNA gene cloning. Appl Environ Microbiol 65: 1662-1669.
    • (1999) Appl Environ Microbiol , vol.65 , pp. 1662-1669
    • Dunbar, J.1    Takala, S.2    Barns, S.M.3    Davis, J.A.4    Kuske, C.R.5
  • 3
    • 55949124350 scopus 로고    scopus 로고
    • Isolation of novel bacteria, including a candidate division, from geothermal soil in New Zealand
    • Stott MB, Crowe MA, Mountain BW, Smirnova AV, Hou S, et al. (2008) Isolation of novel bacteria, including a candidate division, from geothermal soil in New Zealand. Environ Microbiol 10: 2030-2041.
    • (2008) Environ Microbiol , vol.10 , pp. 2030-2041
    • Stott, M.B.1    Crowe, M.A.2    Mountain, B.W.3    Smirnova, A.V.4    Hou, S.5
  • 4
    • 33644952722 scopus 로고    scopus 로고
    • Identifying the dominant soil bacterial taxa in libraries of 16S rRNA and 16S rRNA genes
    • Janssen PH, (2006) Identifying the dominant soil bacterial taxa in libraries of 16S rRNA and 16S rRNA genes. Appl Environ Microbiol 72: 1719-1728.
    • (2006) Appl Environ Microbiol , vol.72 , pp. 1719-1728
    • Janssen, P.H.1
  • 5
    • 48749116908 scopus 로고    scopus 로고
    • Phylogenetic analyses of ribosomal DNA-containing bacterioplankton genome fragments from a 4000 m vertical profile in the North Pacific Subtropical Gyre
    • Pham VD, Konstantinidis KT, Palden T, DeLong EF, (2008) Phylogenetic analyses of ribosomal DNA-containing bacterioplankton genome fragments from a 4000 m vertical profile in the North Pacific Subtropical Gyre. Environ Microbiol 10: 2313-2330.
    • (2008) Environ Microbiol , vol.10 , pp. 2313-2330
    • Pham, V.D.1    Konstantinidis, K.T.2    Palden, T.3    DeLong, E.F.4
  • 6
  • 7
    • 18444388290 scopus 로고    scopus 로고
    • Investigation of the microbial ecology of intertidal hot springs by using diversity analysis of 16S rRNA and chitinase genes
    • Hobel CFV, Marteinsson VT, Hreggvidsson GO, Kristjansson JK, (2005) Investigation of the microbial ecology of intertidal hot springs by using diversity analysis of 16S rRNA and chitinase genes. Appl Environ Microbiol 71: 2771-2776.
    • (2005) Appl Environ Microbiol , vol.71 , pp. 2771-2776
    • Hobel, C.F.V.1    Marteinsson, V.T.2    Hreggvidsson, G.O.3    Kristjansson, J.K.4
  • 8
    • 0026080952 scopus 로고
    • Acidobacterium capsulatum gen. nov., sp. nov.: an acidophilic chemoorganotrophic bacterium containing menaquinone from acidic mineral environment
    • Kishimoto N, Kosako Y, Tano T, (1991) Acidobacterium capsulatum gen. nov., sp. nov.: an acidophilic chemoorganotrophic bacterium containing menaquinone from acidic mineral environment. Curr Microbiol 22: 1-7.
    • (1991) Curr Microbiol , vol.22 , pp. 1-7
    • Kishimoto, N.1    Kosako, Y.2    Tano, T.3
  • 9
    • 34248225741 scopus 로고    scopus 로고
    • Acidobacteria Phylum Sequences in Uranium-Contaminated Subsurface Sediments Greatly Expand the Known Diversity within the Phylum
    • Barns SM, Cain EC, Sommerville L, Kuske CR, (2007) Acidobacteria Phylum Sequences in Uranium-Contaminated Subsurface Sediments Greatly Expand the Known Diversity within the Phylum. Appl Environ Microbiol 73: 3113-3116.
    • (2007) Appl Environ Microbiol , vol.73 , pp. 3113-3116
    • Barns, S.M.1    Cain, E.C.2    Sommerville, L.3    Kuske, C.R.4
  • 10
    • 0041461927 scopus 로고    scopus 로고
    • Glycogen-accumulating organisms in laboratory-scale and full-scale wastewater treatment processes
    • Crocetti GR, Banfield JF, Keller J, Bond PL, Blackall LL, (2002) Glycogen-accumulating organisms in laboratory-scale and full-scale wastewater treatment processes. Microbiology 148: 3353-3364.
    • (2002) Microbiology , vol.148 , pp. 3353-3364
    • Crocetti, G.R.1    Banfield, J.F.2    Keller, J.3    Bond, P.L.4    Blackall, L.L.5
  • 11
    • 0033831538 scopus 로고    scopus 로고
    • Phylogenetic analysis of bacterial communities in mesophilic and thermophilic bioreactors treating pharmaceutical wastewater
    • LaPara TM, Nakatsu CH, Pantea L, Alleman JE, (2000) Phylogenetic analysis of bacterial communities in mesophilic and thermophilic bioreactors treating pharmaceutical wastewater. Appl Environ Microbiol 66: 3951-3959.
    • (2000) Appl Environ Microbiol , vol.66 , pp. 3951-3959
    • LaPara, T.M.1    Nakatsu, C.H.2    Pantea, L.3    Alleman, J.E.4
  • 12
    • 37549027613 scopus 로고    scopus 로고
    • SILVA: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB
    • Pruesse E, Quast C, Knittel K, Fuchs BM, Ludwig W, et al. (2007) SILVA: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB. Nucleic Acids Res 35: 7188-7196.
    • (2007) Nucleic Acids Res , vol.35 , pp. 7188-7196
    • Pruesse, E.1    Quast, C.2    Knittel, K.3    Fuchs, B.M.4    Ludwig, W.5
  • 13
    • 34547568706 scopus 로고    scopus 로고
    • Candidatus Chloracidobacterium thermophilum: An Aerobic Phototrophic Acidobacterium
    • Bryant DA, Costas AMG, Maresca JA, Chew AGM, Klatt CG, et al. (2007) Candidatus Chloracidobacterium thermophilum: An Aerobic Phototrophic Acidobacterium. Science 317: 523-526.
    • (2007) Science , vol.317 , pp. 523-526
    • Bryant, D.A.1    Costas, A.M.G.2    Maresca, J.A.3    Chew, A.G.M.4    Klatt, C.G.5
  • 14
    • 0032733240 scopus 로고    scopus 로고
    • Geothrix fermentans gen. nov., sp. nov., a novel Fe (III)-reducing bacteirum from a hydrocarbon-contaminated aquifer
    • Coates J, Ellis DJ, Gaw CV, Lovley DR, (1999) Geothrix fermentans gen. nov., sp. nov., a novel Fe (III)-reducing bacteirum from a hydrocarbon-contaminated aquifer. Int J Syst and Evol Microbiol 49: 1615-1622.
    • (1999) Int J Syst and Evol Microbiol , vol.49 , pp. 1615-1622
    • Coates, J.1    Ellis, D.J.2    Gaw, C.V.3    Lovley, D.R.4
  • 15
    • 34247606048 scopus 로고    scopus 로고
    • Isolation and characterization of newly isolated soil bacteria that define Terriglobus gen. nov., in the phylum Acidobacteria
    • Eichorst SA, Breznak JA, Schmidt TM, (2007) Isolation and characterization of newly isolated soil bacteria that define Terriglobus gen. nov., in the phylum Acidobacteria. Appl Environ Microbiol 73: 2708-2717.
    • (2007) Appl Environ Microbiol , vol.73 , pp. 2708-2717
    • Eichorst, S.A.1    Breznak, J.A.2    Schmidt, T.M.3
  • 16
    • 79551492681 scopus 로고    scopus 로고
    • Influence of plant polymers on the distribution and cultivation of bacteria in the phylum Acidobacteria
    • Eichorst SA, Kuske CR, Schmidt TM, (2011) Influence of plant polymers on the distribution and cultivation of bacteria in the phylum Acidobacteria. Appl Environ Microbiol 77: 586-596.
    • (2011) Appl Environ Microbiol , vol.77 , pp. 586-596
    • Eichorst, S.A.1    Kuske, C.R.2    Schmidt, T.M.3
  • 17
    • 55849095838 scopus 로고    scopus 로고
    • Acanthopleuribacter pedis gen. nov., sp. nov., a marine bacterium isolated from a chiton, and description of Acanthopleuribacteraceae fam. nov., Acanthopleuribacterales ord. nov., Holophagaceae fam. nov., Holophagales ord. nov. and Holophagae classis nov. in the phylum 'Acidobacteria'
    • Fukunaga Y, Kurahashi M, Yanagi K, Yokota A, Harayama S, (2008) Acanthopleuribacter pedis gen. nov., sp. nov., a marine bacterium isolated from a chiton, and description of Acanthopleuribacteraceae fam. nov., Acanthopleuribacterales ord. nov., Holophagaceae fam. nov., Holophagales ord. nov. and Holophagae classis nov. in the phylum 'Acidobacteria'. Int J Syst Evol Microbiol 58: 2597-2601.
    • (2008) Int J Syst Evol Microbiol , vol.58 , pp. 2597-2601
    • Fukunaga, Y.1    Kurahashi, M.2    Yanagi, K.3    Yokota, A.4    Harayama, S.5
  • 18
    • 47049112538 scopus 로고    scopus 로고
    • Edaphobacter modestus gen. nov., sp. nov. and Edaphobacter aggregans sp. nov., two novel acidobacteria isolated from alpine and forest soils
    • Koch IH, Gich F, Dunfield PF, Overmann J, (2008) Edaphobacter modestus gen. nov., sp. nov. and Edaphobacter aggregans sp. nov., two novel acidobacteria isolated from alpine and forest soils. Int J Syst Bacteriol 58: 1114-1122.
    • (2008) Int J Syst Bacteriol , vol.58 , pp. 1114-1122
    • Koch, I.H.1    Gich, F.2    Dunfield, P.F.3    Overmann, J.4
  • 19
    • 76549113040 scopus 로고    scopus 로고
    • Bryobacter aggregatus gen. nov., sp. nov., a peat-inhabiting, aerobic chemo-organotroph from subdivision 3 of the Acidobacteria
    • Kulichevskaya IS, Suzina NE, Liesack W, Dedysh SN, (2010) Bryobacter aggregatus gen. nov., sp. nov., a peat-inhabiting, aerobic chemo-organotroph from subdivision 3 of the Acidobacteria. Int J Syst Evol Microbiol 60: 301-306.
    • (2010) Int J Syst Evol Microbiol , vol.60 , pp. 301-306
    • Kulichevskaya, I.S.1    Suzina, N.E.2    Liesack, W.3    Dedysh, S.N.4
  • 20
    • 0027937278 scopus 로고
    • Holophaga foetida gen. nov., sp. nov., a new, homoacetogenic bacterium degrading methoxylated aromatic compounds
    • Liesack W, Bak F, Kreft J-U, Stackebrandt E, (1994) Holophaga foetida gen. nov., sp. nov., a new, homoacetogenic bacterium degrading methoxylated aromatic compounds. Arch Microbiol 162: 85-90.
    • (1994) Arch Microbiol , vol.162 , pp. 85-90
    • Liesack, W.1    Bak, F.2    Kreft, J.-U.3    Stackebrandt, E.4
  • 21
    • 78650071259 scopus 로고    scopus 로고
    • Granulicella paludicola gen. nov., sp. nov., G. pectinivorans sp. nov., G. aggregans sp. nov. and G. rosea nov., novel acidophilic, polymer-degrading acidobacteria from Sphagnum peat bog
    • Pankratov TA, Dedysh SN, (2010) Granulicella paludicola gen. nov., sp. nov., G. pectinivorans sp. nov., G. aggregans sp. nov. and G. rosea nov., novel acidophilic, polymer-degrading acidobacteria from Sphagnum peat bog. Int J Syst Evol Microbiol 60: 2951-2959.
    • (2010) Int J Syst Evol Microbiol , vol.60 , pp. 2951-2959
    • Pankratov, T.A.1    Dedysh, S.N.2
  • 22
  • 23
    • 48249144818 scopus 로고    scopus 로고
    • Dynamics of Genome Rearrangement in Bacterial Populations
    • Darling AE, Miklos I, Ragan MA, (2008) Dynamics of Genome Rearrangement in Bacterial Populations. PLoS Genet 4: e1000128.
    • (2008) PLoS Genet , vol.4
    • Darling, A.E.1    Miklos, I.2    Ragan, M.A.3
  • 25
    • 80052832684 scopus 로고    scopus 로고
    • Large bacterial genomes, &9 Mb
    • Wackett LP, (2008) Large bacterial genomes, &9 Mb. Environ Microbiol 10: 3423-3424.
    • (2008) Environ Microbiol , vol.10 , pp. 3423-3424
    • Wackett, L.P.1
  • 26
    • 0037040394 scopus 로고    scopus 로고
    • Microbial minimism: Genome reduction in bacterial pathogens
    • Moran NA, (2002) Microbial minimism: Genome reduction in bacterial pathogens. Cell 108: 583-586.
    • (2002) Cell , vol.108 , pp. 583-586
    • Moran, N.A.1
  • 27
    • 0035843908 scopus 로고    scopus 로고
    • Genes lost and genes found: evolution of bacterial pathogenesis and symbiosis
    • Ochman H, Moran NA, (2001) Genes lost and genes found: evolution of bacterial pathogenesis and symbiosis. Science 292: 1096-1099.
    • (2001) Science , vol.292 , pp. 1096-1099
    • Ochman, H.1    Moran, N.A.2
  • 28
    • 33645221999 scopus 로고    scopus 로고
    • The nature and dynamics of bacterial genomes
    • Ochman H, Davalos LM, (2006) The nature and dynamics of bacterial genomes. Science 311: 1730-1733.
    • (2006) Science , vol.311 , pp. 1730-1733
    • Ochman, H.1    Davalos, L.M.2
  • 29
    • 1542327668 scopus 로고    scopus 로고
    • Trends between gene content and genome size in prokaryotic species with larger genomes
    • Konstantinidis KT, Tiedje JM, (2004) Trends between gene content and genome size in prokaryotic species with larger genomes. Proc Natl Acad Sci USA 101: 3160-3165.
    • (2004) Proc Natl Acad Sci USA , vol.101 , pp. 3160-3165
    • Konstantinidis, K.T.1    Tiedje, J.M.2
  • 31
    • 0034634395 scopus 로고    scopus 로고
    • The evolutionary fate and consequences of duplicate genes
    • Lynch M, Conery JS, (2000) The evolutionary fate and consequences of duplicate genes. Science 290: 1151-1155.
    • (2000) Science , vol.290 , pp. 1151-1155
    • Lynch, M.1    Conery, J.S.2
  • 33
    • 1642266935 scopus 로고    scopus 로고
    • Gene duplication and biased functional retention of paralogs in bacteial genomes
    • Gevers D, Vandepoele K, Simillion C, Van de Peer Y, (2004) Gene duplication and biased functional retention of paralogs in bacteial genomes. Trends Microbiol 12: 148-154.
    • (2004) Trends Microbiol , vol.12 , pp. 148-154
    • Gevers, D.1    Vandepoele, K.2    Simillion, C.3    van de Peer, Y.4
  • 35
    • 0345237922 scopus 로고    scopus 로고
    • IslandPath: aiding detection of genomic islands in prokaryotes
    • Hsiao W, Wan I, Jones SM, Brinkman FS, (2003) IslandPath: aiding detection of genomic islands in prokaryotes. Bioinformatics 19: 418-420.
    • (2003) Bioinformatics , vol.19 , pp. 418-420
    • Hsiao, W.1    Wan, I.2    Jones, S.M.3    Brinkman, F.S.4
  • 36
    • 0037825641 scopus 로고    scopus 로고
    • Prophages and bacterial genomics: what have we learned so far?
    • Casjens S, (2003) Prophages and bacterial genomics: what have we learned so far? Mol Microbiol 49: 277-300.
    • (2003) Mol Microbiol , vol.49 , pp. 277-300
    • Casjens, S.1
  • 37
    • 16444385662 scopus 로고    scopus 로고
    • Intervening sequenes of regularly spaced prokaryotic repeats derive from foreign genetic elements
    • Mojica FJM, Diez-Villasenor C, Garcia-Martinez J, Soria E, (2005) Intervening sequenes of regularly spaced prokaryotic repeats derive from foreign genetic elements. J Mol Evol 60: 174-182.
    • (2005) J Mol Evol , vol.60 , pp. 174-182
    • Mojica, F.J.M.1    Diez-Villasenor, C.2    Garcia-Martinez, J.3    Soria, E.4
  • 38
    • 39149142575 scopus 로고    scopus 로고
    • CRISPR-a widespread system that provides acquired resistance against phages in bacteria and archaea
    • Sorek R, Kunin V, Hugenholtz P, (2008) CRISPR-a widespread system that provides acquired resistance against phages in bacteria and archaea. Nat Rev Microbiol 6: 181-186.
    • (2008) Nat Rev Microbiol , vol.6 , pp. 181-186
    • Sorek, R.1    Kunin, V.2    Hugenholtz, P.3
  • 39
    • 0036267740 scopus 로고    scopus 로고
    • Identification of genes that are associated with DNA repeats in prokaryotes
    • Jansen R, van Embden JDA, Gaastra W, Schouls LM, (2002) Identification of genes that are associated with DNA repeats in prokaryotes. Mol Microbiol 43: 1565-1575.
    • (2002) Mol Microbiol , vol.43 , pp. 1565-1575
    • Jansen, R.1    van Embden, J.D.A.2    Gaastra, W.3    Schouls, L.M.4
  • 40
    • 34248400310 scopus 로고    scopus 로고
    • A guild of 45 CRISPR-associated (Cas) protein families and multiple CRISPR/Cas subtypes exist in prokaryotic genomes
    • Haft DH, Selengut JD, Mongodin EF, Nelson KE, (2005) A guild of 45 CRISPR-associated (Cas) protein families and multiple CRISPR/Cas subtypes exist in prokaryotic genomes. PLoS Comput Biol 1: 474-483.
    • (2005) PLoS Comput Biol , vol.1 , pp. 474-483
    • Haft, D.H.1    Selengut, J.D.2    Mongodin, E.F.3    Nelson, K.E.4
  • 41
  • 42
    • 0004036449 scopus 로고    scopus 로고
    • Molecular Evolution and Phylogenetics
    • Oxford, Oxford University Press
    • Nei M, Kumar S, (2000) Molecular Evolution and Phylogenetics. Oxford Oxford University Press.
    • (2000)
    • Nei, M.1    Kumar, S.2
  • 44
    • 33746191929 scopus 로고    scopus 로고
    • The complete genome of Rhodococcus sp. RHA1 provides insights into a catabolic powerhouse
    • McLeod MP, Warren RL, Hsiao WWL, Araki N, Myhre M, et al. (2006) The complete genome of Rhodococcus sp. RHA1 provides insights into a catabolic powerhouse. Proc Natl Acad Sci USA 103: 15582-15587.
    • (2006) Proc Natl Acad Sci USA , vol.103 , pp. 15582-15587
    • McLeod, M.P.1    Warren, R.L.2    Hsiao, W.W.L.3    Araki, N.4    Myhre, M.5
  • 45
    • 0034078335 scopus 로고    scopus 로고
    • EstA, a gene coding for a cell-bound esterase from Paenibacillus sp. BP-23, is a new member of the bacterial subclass of type B carboxylesterases
    • Prim N, Blanco A, Martínez J, Pastor FIJ, Diaz P, (2000) estA, a gene coding for a cell-bound esterase from Paenibacillus sp. BP-23, is a new member of the bacterial subclass of type B carboxylesterases. Res Microbiol 151: 303-312.
    • (2000) Res Microbiol , vol.151 , pp. 303-312
    • Prim, N.1    Blanco, A.2    Martínez, J.3    Pastor, F.I.J.4    Diaz, P.5
  • 46
    • 0029670577 scopus 로고    scopus 로고
    • Directed evolution of a para-nitrobenzyl esterase for aqueous-organic solvents
    • Moore JC, Arnold FH, (1996) Directed evolution of a para-nitrobenzyl esterase for aqueous-organic solvents. Nat Biotechnol 14: 458-467.
    • (1996) Nat Biotechnol , vol.14 , pp. 458-467
    • Moore, J.C.1    Arnold, F.H.2
  • 47
    • 0034650902 scopus 로고    scopus 로고
    • Novel fold and assembly of the repetitive B region of the Staphylococcus aureus collagen-binding surface protein
    • Deivanayagam CC, Rich RL, Carson M, Owens RT, Danthuluri S, et al. (2000) Novel fold and assembly of the repetitive B region of the Staphylococcus aureus collagen-binding surface protein. Structure 8: 67-78.
    • (2000) Structure , vol.8 , pp. 67-78
    • Deivanayagam, C.C.1    Rich, R.L.2    Carson, M.3    Owens, R.T.4    Danthuluri, S.5
  • 48
    • 39549116934 scopus 로고    scopus 로고
    • Insertion sequences show diverse and recent activities in Cyanobacteria and Archaea
    • Zhou F, Olman V, Xu Y, (2008) Insertion sequences show diverse and recent activities in Cyanobacteria and Archaea. BMC Genomics 9: 36-46.
    • (2008) BMC Genomics , vol.9 , pp. 36-46
    • Zhou, F.1    Olman, V.2    Xu, Y.3
  • 49
    • 33745004429 scopus 로고    scopus 로고
    • Mutations and rearrangements in the genome of Sulfolobus solfataricus P2
    • Redder P, Garrett RA, (2006) Mutations and rearrangements in the genome of Sulfolobus solfataricus P2. J Bacteriol 188: 4198-4206.
    • (2006) J Bacteriol , vol.188 , pp. 4198-4206
    • Redder, P.1    Garrett, R.A.2
  • 50
    • 0042318548 scopus 로고    scopus 로고
    • Associations Between Inverted Repeats and the Structural Evolution of Bacterial Genomes
    • Achaz G, Coissac E, Netter P, Rocha EPC, (2003) Associations Between Inverted Repeats and the Structural Evolution of Bacterial Genomes. Genetics 164: 1279-1289.
    • (2003) Genetics , vol.164 , pp. 1279-1289
    • Achaz, G.1    Coissac, E.2    Netter, P.3    Rocha, E.P.C.4
  • 51
    • 63849332675 scopus 로고    scopus 로고
    • Isolation and characterization of soil acidobacteria
    • Melbourne, Australia, University of Melbourne
    • Sait M, (2008) Isolation and characterization of soil acidobacteria. Melbourne, Australia University of Melbourne.
    • (2008)
    • Sait, M.1
  • 52
    • 79952834577 scopus 로고    scopus 로고
    • Acidipila rosea gen.nov., sp.nov., an acidophilic chemoorganotrophic bacterium belonging to the phylum Acidobacteria
    • Okamura K, Kawai A, Yamada T, Hirashi A, (2011) Acidipila rosea gen.nov., sp.nov., an acidophilic chemoorganotrophic bacterium belonging to the phylum Acidobacteria. FEMS Microbiol Lett 317: 138-142.
    • (2011) FEMS Microbiol Lett , vol.317 , pp. 138-142
    • Okamura, K.1    Kawai, A.2    Yamada, T.3    Hirashi, A.4
  • 53
    • 33750283857 scopus 로고    scopus 로고
    • Burkholderia xenovorans LB400 harbors a multi-replicon, 9.73-Mbp genome shaped for versatility
    • Chain PSG, Denef VJ, Konstantinidis KT, Vergez LM, Agullo L, et al. (2006) Burkholderia xenovorans LB400 harbors a multi-replicon, 9.73-Mbp genome shaped for versatility. Proc Natl Acad Sci USA 103: 15280-15287.
    • (2006) Proc Natl Acad Sci USA , vol.103 , pp. 15280-15287
    • Chain, P.S.G.1    Denef, V.J.2    Konstantinidis, K.T.3    Vergez, L.M.4    Agullo, L.5
  • 56
    • 40549127742 scopus 로고    scopus 로고
    • Changes in bacterial and archaeal community structure and functional diversity along a geochemically variable soil profile
    • Hansel CM, Fendorf S, Jardine PM, Francis CA, (2008) Changes in bacterial and archaeal community structure and functional diversity along a geochemically variable soil profile. Appl Environ Microbiol 74: 1620-1633.
    • (2008) Appl Environ Microbiol , vol.74 , pp. 1620-1633
    • Hansel, C.M.1    Fendorf, S.2    Jardine, P.M.3    Francis, C.A.4
  • 57
    • 0036136025 scopus 로고    scopus 로고
    • Spatial and resource factors influencing high microbial diversity in soil
    • Zhou J, Xia B, Treves DS, Wu LY, Marsh TL, et al. (2002) Spatial and resource factors influencing high microbial diversity in soil. Appl Environ Microbiol 68: 326-334.
    • (2002) Appl Environ Microbiol , vol.68 , pp. 326-334
    • Zhou, J.1    Xia, B.2    Treves, D.S.3    Wu, L.Y.4    Marsh, T.L.5
  • 58
    • 33745045466 scopus 로고    scopus 로고
    • The Burkholderia cepacia rpoE gene is not involved in exopolysaccharide production and onion pathogenicity
    • Devescovi G, Venturi V, (2006) The Burkholderia cepacia rpoE gene is not involved in exopolysaccharide production and onion pathogenicity. Can J Microbiol 52: 260-265.
    • (2006) Can J Microbiol , vol.52 , pp. 260-265
    • Devescovi, G.1    Venturi, V.2
  • 59
    • 22144441675 scopus 로고    scopus 로고
    • Shifts from glucose to certain secondary carbon-sources result in activation of the extracytoplasmic function sigma factor sigmaE in Salmonella enterica serovar Typhimurium
    • Kenyon WJ, Thomas SM, Johnson E, Pallen MJ, Spector MP, (2005) Shifts from glucose to certain secondary carbon-sources result in activation of the extracytoplasmic function sigma factor sigmaE in Salmonella enterica serovar Typhimurium. Microbiology 151: 2373-2383.
    • (2005) Microbiology , vol.151 , pp. 2373-2383
    • Kenyon, W.J.1    Thomas, S.M.2    Johnson, E.3    Pallen, M.J.4    Spector, M.P.5
  • 60
    • 0034903883 scopus 로고    scopus 로고
    • The Mycobacterium tuberculosis ECF sigma factor sigmaE: role in global gene expression and survival in macrophages
    • Manganelli R, Voskuil MI, Schoolnik GK, Smith I, (2001) The Mycobacterium tuberculosis ECF sigma factor sigmaE: role in global gene expression and survival in macrophages. Mol Microbiol 41: 423-437.
    • (2001) Mol Microbiol , vol.41 , pp. 423-437
    • Manganelli, R.1    Voskuil, M.I.2    Schoolnik, G.K.3    Smith, I.4
  • 62
    • 0034780493 scopus 로고    scopus 로고
    • Periplasmic stress and ECF sigma factors
    • Raivio TL, Silhavy TJ, (2001) Periplasmic stress and ECF sigma factors. Annu Rev Microbiol 55: 591-624.
    • (2001) Annu Rev Microbiol , vol.55 , pp. 591-624
    • Raivio, T.L.1    Silhavy, T.J.2
  • 63
    • 68449099013 scopus 로고    scopus 로고
    • Lead(II) resistance in Cupriavidus metallidurans CH34: interplay between plasmid and chromosomally-located functions
    • Taghavi S, Lesaulnier C, Monchy S, Wattiez R, Mergeay M, et al. (2009) Lead(II) resistance in Cupriavidus metallidurans CH34: interplay between plasmid and chromosomally-located functions. Antonie Van Leeuwenhoek 96: 171-182.
    • (2009) Antonie Van Leeuwenhoek , vol.96 , pp. 171-182
    • Taghavi, S.1    Lesaulnier, C.2    Monchy, S.3    Wattiez, R.4    Mergeay, M.5
  • 64
    • 0036267552 scopus 로고    scopus 로고
    • The alternative sigma factor sigmaE controls antioxidant defences required for Salmonella virulence and stationary-phase survival
    • Testerman TL, Vazquez-Torres A, Xu Y, Jones-Carson J, Libby SJ, et al. (2002) The alternative sigma factor sigmaE controls antioxidant defences required for Salmonella virulence and stationary-phase survival. Mol Microbiol 43: 771-782.
    • (2002) Mol Microbiol , vol.43 , pp. 771-782
    • Testerman, T.L.1    Vazquez-Torres, A.2    Xu, Y.3    Jones-Carson, J.4    Libby, S.J.5
  • 65
    • 31144454629 scopus 로고    scopus 로고
    • Conserved and variable functions of the sigmaE stress response in related genomes
    • Rhodius VA, Suh WC, Nonaka G, West J, Gross CA, (2006) Conserved and variable functions of the sigmaE stress response in related genomes. PLoS Biol 4: e2.
    • (2006) PLoS Biol , vol.4
    • Rhodius, V.A.1    Suh, W.C.2    Nonaka, G.3    West, J.4    Gross, C.A.5
  • 66
    • 51149098736 scopus 로고    scopus 로고
    • An extra-cytoplasmic function sigma factor and anti-sigma factor control carotenoid biosynthesis in Azospirillum brasilense
    • Thirunavukkarasu N, Mishra MN, Spaepen S, Vanderleyden J, Gross CA, et al. (2008) An extra-cytoplasmic function sigma factor and anti-sigma factor control carotenoid biosynthesis in Azospirillum brasilense. Microbiology 154: 2096-2105.
    • (2008) Microbiology , vol.154 , pp. 2096-2105
    • Thirunavukkarasu, N.1    Mishra, M.N.2    Spaepen, S.3    Vanderleyden, J.4    Gross, C.A.5
  • 67
    • 0027399389 scopus 로고
    • Characterization of a locus determining the mucoid status of Pseudomonas aeruginosa: AlgU shows sequence similarities with a Bacillus sigma factor
    • Martin DW, Holloway BW, Deretic V, (1993) Characterization of a locus determining the mucoid status of Pseudomonas aeruginosa: AlgU shows sequence similarities with a Bacillus sigma factor. J Bacteriol 175: 1153-1164.
    • (1993) J Bacteriol , vol.175 , pp. 1153-1164
    • Martin, D.W.1    Holloway, B.W.2    Deretic, V.3
  • 68
    • 44649171625 scopus 로고    scopus 로고
    • Millimeter-scale genetic gradients and community-level molecular convergence in a hypersaline microbial mat
    • Kunin V, Raes J, Harris JK, Spears JR, Walker JJ, et al. (2008) Millimeter-scale genetic gradients and community-level molecular convergence in a hypersaline microbial mat. Mol Syst Biol 4: 198.
    • (2008) Mol Syst Biol , vol.4 , pp. 198
    • Kunin, V.1    Raes, J.2    Harris, J.K.3    Spears, J.R.4    Walker, J.J.5
  • 69
    • 31144466457 scopus 로고    scopus 로고
    • Genomic blueprint of Hahella chejuensis, a marine microbe producing an algicidal agent
    • Jeong H, Yim JH, Lee C, Choi SH, Park YK, et al. (2005) Genomic blueprint of Hahella chejuensis, a marine microbe producing an algicidal agent. Nucleic Acids Res 33: 7066-7073.
    • (2005) Nucleic Acids Res , vol.33 , pp. 7066-7073
    • Jeong, H.1    Yim, J.H.2    Lee, C.3    Choi, S.H.4    Park, Y.K.5
  • 70
    • 0036928484 scopus 로고    scopus 로고
    • Complete genomic sequence of nitrogen-fixing symbiotic bacterium Bradyrhizobium japonicum USDA110
    • Kaneko T, Nakamura Y, Sato S, Minamisawa K, Uchiumi T, et al. (2002) Complete genomic sequence of nitrogen-fixing symbiotic bacterium Bradyrhizobium japonicum USDA110. DNA Res 9: 189-197.
    • (2002) DNA Res , vol.9 , pp. 189-197
    • Kaneko, T.1    Nakamura, Y.2    Sato, S.3    Minamisawa, K.4    Uchiumi, T.5
  • 71
    • 0034739881 scopus 로고    scopus 로고
    • Complete genome structure of the nitrogen-fixing symbiotic bacterium Mesorhizobium loti
    • Kaneko T, Nakamura Y, Sato S, Asamizu E, Kato T, et al. (2000) Complete genome structure of the nitrogen-fixing symbiotic bacterium Mesorhizobium loti. DNA Res 7: 331-338.
    • (2000) DNA Res , vol.7 , pp. 331-338
    • Kaneko, T.1    Nakamura, Y.2    Sato, S.3    Asamizu, E.4    Kato, T.5
  • 72
    • 0038561132 scopus 로고    scopus 로고
    • Complete genome sequence and comparative analysis of the industrial microorganism Streptomyces avermitilis
    • Ikeda H, Ishikawa J, Hanamoto A, Shinose M, Kikuchi H, et al. (2003) Complete genome sequence and comparative analysis of the industrial microorganism Streptomyces avermitilis. Nat Biotechnol 21: 526-531.
    • (2003) Nat Biotechnol , vol.21 , pp. 526-531
    • Ikeda, H.1    Ishikawa, J.2    Hanamoto, A.3    Shinose, M.4    Kikuchi, H.5
  • 73
    • 0033555906 scopus 로고    scopus 로고
    • Tandem repeats finder: a program to analyze DNA sequences
    • Benson G, (1999) Tandem repeats finder: a program to analyze DNA sequences. Nucleic Acids Res 27: 573-580.
    • (1999) Nucleic Acids Res , vol.27 , pp. 573-580
    • Benson, G.1
  • 74
    • 6344289639 scopus 로고    scopus 로고
    • Inverted Repeat Structure of the Human Genome: The X-Chromosome Contains a Preponderance of Large, Highly Homologous Inverted Repeats That Contain Testes Genes
    • Warburton PE, Giordano J, Cheung F, Gelfand Y, Benson G, (2004) Inverted Repeat Structure of the Human Genome: The X-Chromosome Contains a Preponderance of Large, Highly Homologous Inverted Repeats That Contain Testes Genes. Genome Res 14: 1861-1869.
    • (2004) Genome Res , vol.14 , pp. 1861-1869
    • Warburton, P.E.1    Giordano, J.2    Cheung, F.3    Gelfand, Y.4    Benson, G.5
  • 79
    • 0032524384 scopus 로고    scopus 로고
    • Analysing genomes with cumulative skew diagrams
    • Grigoriev A, (1998) Analysing genomes with cumulative skew diagrams. Nucleic Acids Res 26: 2286-2290.
    • (1998) Nucleic Acids Res , vol.26 , pp. 2286-2290
    • Grigoriev, A.1
  • 80
    • 48249102000 scopus 로고    scopus 로고
    • Phylogeny.fr: robust phylogenetic analysis for the non-specialist
    • Dereeper A, Guignon V, Blanc G, Audic S, Buffet S, et al. (2008) Phylogeny.fr: robust phylogenetic analysis for the non-specialist. Nucleic Acids Res 36: W465-W469.
    • (2008) Nucleic Acids Res , vol.36 , pp. 465-469
    • Dereeper, A.1    Guignon, V.2    Blanc, G.3    Audic, S.4    Buffet, S.5
  • 81
    • 79957613599 scopus 로고    scopus 로고
    • MEGA5: Molecular Evolutionary Genetics Analysis using Maximum Likelihood, Evolutionary Distance, and Maximum Parsimony Methods
    • doi:10.1093/molbev/msr121
    • Tamura K, Peterson D, Peterson N, Stecher G, Nei M, et al. (2011) MEGA5: Molecular Evolutionary Genetics Analysis using Maximum Likelihood, Evolutionary Distance, and Maximum Parsimony Methods. Mol Biol Evol doi:10.1093/molbev/msr121.
    • (2011) Mol Biol Evol
    • Tamura, K.1    Peterson, D.2    Peterson, N.3    Stecher, G.4    Nei, M.5
  • 82
    • 78649661858 scopus 로고    scopus 로고
    • Assessing substitution saturation with DAMBE
    • In: Lemey P, editors, Cambridge, UK, Cambridge University Press
    • Xia X, Lemey P, (2009) Assessing substitution saturation with DAMBE. In: Lemey P, editors. The Phylogenetic Handbook Cambridge, UK Cambridge University Press pp. 611-626.
    • (2009) The Phylogenetic Handbook , pp. 611-626
    • Xia, X.1    Lemey, P.2
  • 85
    • 0028839560 scopus 로고
    • Heterogeneity of genome sizes among natural isolates of Escherichia coli
    • Bergthorsson U, Ochman H, (1995) Heterogeneity of genome sizes among natural isolates of Escherichia coli. J Bacteriol 177: 5784-5789.
    • (1995) J Bacteriol , vol.177 , pp. 5784-5789
    • Bergthorsson, U.1    Ochman, H.2


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