메뉴 건너뛰기




Volumn 9, Issue 3, 2015, Pages 914-932

Complete genome sequence of the Phaeobacter gallaeciensis type strain CIP 105210T (= DSM 26640T = BS107T)

Author keywords

Alphaproteobacteria; Phaeobacter inhibens; Plasmid wealth; Replication systems; Roseobacter group; Sister species

Indexed keywords

GENOME; GENOMIC ISLAND; PECTEN MAXIMUS; PLASMID; PROPHAGE; REARING; REPLICON; TYPE STRAIN;

EID: 84954121175     PISSN: None     EISSN: 19443277     Source Type: Journal    
DOI: 10.4056/sigs.5179110     Document Type: Article
Times cited : (17)

References (85)
  • 1
    • 0031798779 scopus 로고    scopus 로고
    • Roseobacter gallaeciensis sp. nov., a new marine bacterium isolated from rearings and collectors of the scallop Pecten maximus
    • PubMed
    • Ruiz-Ponte C, Cilia V, Lambert C, Nicolas JL. Roseobacter gallaeciensis sp. nov., a new marine bacterium isolated from rearings and collectors of the scallop Pecten maximus. Int J Syst Bacteriol 1998; 48:537-542. PubMed http://dx.doi.org/10.1099/00207713-48-2-537
    • (1998) Int J Syst Bacteriol , vol.48 , pp. 537-542
    • Ruiz-Ponte, C.1    Cilia, V.2    Lambert, C.3    Nicolas, J.L.4
  • 2
    • 33745300025 scopus 로고    scopus 로고
    • Reclassification of Roseobacter gallaeciensis Ruiz-Ponte et a. 1998 as Phaeobacter gallaeciensis gen. nov., comb. nov., description of Phaeobacter inhibens sp. nov., re-classification of Ruegeria algicola (Lafay et al. 1995) Uchino et al. 1999 as Marinovum algicola
    • PubMed
    • Martens T, Heidorn T, Pukall R, Simon M, Tindall BJ, Brinkhoff T. Reclassification of Roseobacter gallaeciensis Ruiz-Ponte et al. 1998 as Phaeobacter gallaeciensis gen. nov., comb. nov., description of Phaeobacter inhibens sp. nov., re-classification of Ruegeria algicola (Lafay et al. 1995) Uchino et al. 1999 as Marinovum algicola. Int J Syst Evol Microbiol 2006; 56:1293-1304. PubMed http://dx.doi.org/10.1099/ijs.0.63724-0
    • (2006) Int J Syst Evol Microbiol , vol.56 , pp. 1293-1304
    • Martens, T.1    Heidorn, T.2    Pukall, R.3    Simon, M.4    Tindall, B.J.5    Brinkhoff, T.6
  • 3
    • 84887071726 scopus 로고    scopus 로고
    • Molecular and phenotypic analyses reveal the non-identity of the Phaeobacter gallaeciensis type strain deposits CIP 105210 T and DSM 17395
    • PubMed
    • Buddruhs N, Pradella S, Göker M, Päuker O, Pukall R, Spröer C, Schumann P, Petersen J, Brinkhoff T. Molecular and phenotypic analyses reveal the non-identity of the Phaeobacter gallaeciensis type strain deposits CIP 105210 T and DSM 17395. Int J Syst Evol Microbiol 2013; 63:4340-4349. PubMed http://dx.doi.org/10.1099/ijs.0.053900-0
    • (2013) Int J Syst Evol Microbiol , vol.63 , pp. 4340-4349
    • Buddruhs, N.1    Pradella, S.2    Göker, M.3    Päuker, O.4    Pukall, R.5    Spröer, C.6    Schumann, P.7    Petersen, J.8    Brinkhoff, T.9
  • 4
    • 84871308793 scopus 로고    scopus 로고
    • Phaeobacter gallaeciensis genomes from globally opposite lo-cations reveal high similarity of adaptation to sur-face life
    • PubMed
    • Thole S, Kalhoefer D, Voget S, Berger M, Engelhardt T, Liesegang H, Wollherr A, Kjelleberg S, Daniel R, Simon M, et al. Phaeobacter gallaeciensis genomes from globally opposite lo-cations reveal high similarity of adaptation to sur-face life. ISME J 2012; 6:2229-2244. PubMed http://dx.doi.org/10.1038/ismej.2012.62
    • (2012) ISME J , vol.6 , pp. 2229-2244
    • Thole, S.1    Kalhoefer, D.2    Voget, S.3    Berger, M.4    Engelhardt, T.5    Liesegang, H.6    Wollherr, A.7    Kjelleberg, S.8    Daniel, R.9    Simon, M.10
  • 5
    • 57149090078 scopus 로고    scopus 로고
    • Phaeobacter and Ruegeria species of the Roseobacter clade colo-nize separate niches in a Danish Turbot (Scophthalmus maximus)-rearing farm and antag-onize Vibrio anguillarum under different growth conditions
    • PubMed
    • Porsby CH, Nielsen KF, Gram L. Phaeobacter and Ruegeria species of the Roseobacter clade colo-nize separate niches in a Danish Turbot (Scophthalmus maximus)-rearing farm and antag-onize Vibrio anguillarum under different growth conditions. Appl Environ Microbiol 2008; 74:7356-7364. PubMed http://dx.doi.org/10.1128/AEM.01738-08
    • (2008) Appl Environ Microbiol , vol.74 , pp. 7356-7364
    • Porsby, C.H.1    Nielsen, K.F.2    Gram, L.3
  • 6
    • 82655180438 scopus 로고    scopus 로고
    • Genomes and virulence factors of novel bacterial pathogens causing bleaching dis-ease in the marine red alga Delisea pulchra
    • PubMed
    • Fernandes N, Case RJ, Longford SR, Seyedsayamdost MR, Steinberg PD, Kjelleberg S, Thomas T. Genomes and virulence factors of novel bacterial pathogens causing bleaching dis-ease in the marine red alga Delisea pulchra. PLoS ONE 2011; 6:e27387. PubMed http://dx.doi.org/10.1371/journal.pone.0027387
    • (2011) PLoS ONE , vol.6
    • Fernandes, N.1    Case, R.J.2    Longford, S.R.3    Seyedsayamdost, M.R.4    Steinberg, P.D.5    Kjelleberg, S.6    Thomas, T.7
  • 7
    • 79953096570 scopus 로고    scopus 로고
    • The Jekyll-and-Hyde chemistry of Phaeobacter gallaeciensis
    • PubMed
    • Seyedsayamdost MR, Case RJ, Kolter R, Clardy J. The Jekyll-and-Hyde chemistry of Phaeobacter gallaeciensis. Nat Chem 2011; 3:331-335. PubMed http://dx.doi.org/10.1038/nchem.1002
    • (2011) Nat Chem , vol.3 , pp. 331-335
    • Seyedsayamdost, M.R.1    Case, R.J.2    Kolter, R.3    Clardy, J.4
  • 8
    • 80755136928 scopus 로고    scopus 로고
    • Roseobacticides: small molecule modulators of an algal-bacterial symbiosis
    • PubMed
    • Seyedsayamdost MR, Carr G, Kolter R, Clardy J. Roseobacticides: small molecule modulators of an algal-bacterial symbiosis. J Am Chem Soc 2011; 133:18343-18349. PubMed http://dx.doi.org/10.1021/ja207172s
    • (2011) J Am Chem Soc , vol.133 , pp. 18343-18349
    • Seyedsayamdost, M.R.1    Carr, G.2    Kolter, R.3    Clardy, J.4
  • 10
    • 75549086416 scopus 로고    scopus 로고
    • The Genomes OnLine Database (GOLD) in 2009: status of genomic and metagenomic projects and their associated metadata
    • PubMed
    • Liolios K, Chen IM, Mavromatis K, Tavernarakis N, Hugenholtz P, Markowitz VM, Kyrpides NC. The Genomes OnLine Database (GOLD) in 2009: status of genomic and metagenomic projects and their associated metadata. Nucleic Acids Res 2010; 38:D346-D354. PubMed http://dx.doi.org/10.1093/nar/gkp848
    • (2010) Nucleic Acids Res , vol.38 , pp. D346-D354
    • Liolios, K.1    Chen, I.M.2    Mavromatis, K.3    Tavernarakis, N.4    Hugenholtz, P.5    Markowitz, V.M.6    Kyrpides, N.C.7
  • 12
    • 84887052328 scopus 로고    scopus 로고
    • Genome sequence of Phaeobacter inhibens type strain (T5T), a second-ary metabolite producing member of the marine Roseobacter clade, and emendation of the spe-cies description of Phaeobacter inhibens
    • PubMed
    • Dogs M, Teshima H, Petersen J, Fiebig A, Chertkov O, Dalingault H, Chen A, Pati A, Goodwin LA, Chain P, et al. Genome sequence of Phaeobacter inhibens type strain (T5T), a second-ary metabolite producing member of the marine Roseobacter clade, and emendation of the spe-cies description of Phaeobacter inhibens. Stand Genomic Sci 2013; 9:142-159. PubMed http://dx.doi.org/10.4056/sigs.4287962
    • (2013) Stand Genomic Sci , vol.9 , pp. 142-159
    • Dogs, M.1    Teshima, H.2    Petersen, J.3    Fiebig, A.4    Chertkov, O.5    Dalingault, H.6    Chen, A.7    Pati, A.8    Goodwin, L.A.9    Chain, P.10
  • 13
    • 84881043340 scopus 로고    scopus 로고
    • Genome sequence of Phaeobacter caeruleus type strain (DSM 24564T), a surface-associated member of the marine Roseobacter clade
    • PubMed
    • Beyersmann PG, Chertkov O, Petersen J, Fiebig A, Chen A, Pati A, Ivanova N, Lapidus A, Goodwin LA, Chain P, et al. Genome sequence of Phaeobacter caeruleus type strain (DSM 24564T), a surface-associated member of the marine Roseobacter clade. Stand Genomic Sci 2013; 8:403-419. PubMed http://dx.doi.org/10.4056/sigs.3927626
    • (2013) Stand Genomic Sci , vol.8 , pp. 403-419
    • Beyersmann, P.G.1    Chertkov, O.2    Petersen, J.3    Fiebig, A.4    Chen, A.5    Pati, A.6    Ivanova, N.7    Lapidus, A.8    Goodwin, L.A.9    Chain, P.10
  • 14
    • 84887052328 scopus 로고    scopus 로고
    • Genome sequence of Phaeobacter daeponensis type strain (DSM 23529T), a facultatively anaerobic bacterium iso-lated from marine sediment, and emendation of Phaeobacter daeponensis
    • PubMed
    • Dogs M, Teshima H, Petersen J, Fiebig A, Chertkov O, Dalingault H, Chen A, Pati A, Goodwin LA, Chain P, et al. Genome sequence of Phaeobacter daeponensis type strain (DSM 23529T), a facultatively anaerobic bacterium iso-lated from marine sediment, and emendation of Phaeobacter daeponensis. Stand Genomic Sci 2013; 9:142-159. PubMed http://dx.doi.org/10.4056/sigs.4287962
    • (2013) Stand Genomic Sci , vol.9 , pp. 142-159
    • Dogs, M.1    Teshima, H.2    Petersen, J.3    Fiebig, A.4    Chertkov, O.5    Dalingault, H.6    Chen, A.7    Pati, A.8    Goodwin, L.A.9    Chain, P.10
  • 15
    • 84881031716 scopus 로고    scopus 로고
    • Genome sequence of the Leisingera aquimarina type strain DSM 24565T, a member of the marine Roseobacter clade rich in extrachromosomal elements
    • PubMed
    • Riedel T, Teshima H, Petersen J, Fiebig A, Davenport K, Daligault H, Erkkila T, Gu W, Munk C, Xu Y, et al. Genome sequence of the Leisingera aquimarina type strain DSM 24565T, a member of the marine Roseobacter clade rich in extrachromosomal elements. Stand Genomic Sci 2013; 8:389-402. PubMed http://dx.doi.org/10.4056/sigs.3858183
    • (2013) Stand Genomic Sci , vol.8 , pp. 389-402
    • Riedel, T.1    Teshima, H.2    Petersen, J.3    Fiebig, A.4    Davenport, K.5    Daligault, H.6    Erkkila, T.7    Gu, W.8    Munk, C.9    Xu, Y.10
  • 16
    • 84887093261 scopus 로고    scopus 로고
    • Complete genome sequence of the marine methyl-halide oxidizing Leisingera methylohalidivorans type strain (DSM 14336T), a member of the Roseobacter clade
    • PubMed
    • Buddruhs N, Chertkov O, Petersen J, Fiebig A, Chen A, Pati A, Ivanova N, Lapidus A, Goodwin LA, Chain P, et al. Complete genome sequence of the marine methyl-halide oxidizing Leisingera methylohalidivorans type strain (DSM 14336T), a member of the Roseobacter clade. Stand Ge-nomic Sci 2013; 9:128-141. PubMed http://dx.doi.org/10.4056/sigs.4297965
    • (2013) Stand Ge-nomic Sci , vol.9 , pp. 128-141
    • Buddruhs, N.1    Chertkov, O.2    Petersen, J.3    Fiebig, A.4    Chen, A.5    Pati, A.6    Ivanova, N.7    Lapidus, A.8    Goodwin, L.A.9    Chain, P.10
  • 18
    • 84859982600 scopus 로고    scopus 로고
    • Visualization and curve-parameter estimation strategies for efficient exploration of phenotype microarray kinetics
    • PubMed
    • Vaas LAI, Sikorski J, Michael V, Göker M, Klenk HP. Visualization and curve-parameter estimation strategies for efficient exploration of phenotype microarray kinetics. PLoS ONE 2012; 7:e34846. PubMed http://dx.doi.org/10.1371/journal.pone.0034846
    • (2012) PLoS ONE , vol.7
    • Vaas, L.A.I.1    Sikorski, J.2    Michael, V.3    Göker, M.4    Klenk, H.P.5
  • 19
  • 22
    • 0025300402 scopus 로고
    • Towards a natural system of organisms: proposal for the do-mains Archaea, Bacteria, and Eucarya
    • PubMed
    • Woese CR, Kandler O, Wheelis ML. Towards a natural system of organisms: proposal for the do-mains Archaea, Bacteria, and Eucarya. Proc Natl Acad Sci USA 1990; 87:4576-4579. PubMed http://dx.doi.org/10.1073/pnas.87.12.4576
    • (1990) Proc Natl Acad Sci USA , vol.87 , pp. 4576-4579
    • Woese, C.R.1    Kandler, O.2    Wheelis, M.L.3
  • 23
    • 84988888640 scopus 로고    scopus 로고
    • Phylum XIV. Proteobacteria phyl. nov
    • Brenner D, Krieg N, Staley J, Garrity G, eds. Second Edition. New York: Springer
    • Garrity G, Bell J, Lilburn T. Phylum XIV. Proteobacteria phyl. nov. In: Brenner D, Krieg N, Staley J, Garrity G, eds. Bergey's Manual of Sys-tematic Bacteriology, Vol. 2 Part B The Gammaproteobacteria. Second Edition. New York: Springer; 2005:1.
    • (2005) Bergey's Manual of Sys-tematic Bacteriology, The Gammaproteobacteria , vol.2 , pp. 1
    • Garrity, G.1    Bell, J.2    Lilburn, T.3
  • 24
    • 84988831827 scopus 로고    scopus 로고
    • Class I. Alphaproteobacteria class. nov
    • Garrity G, Brenner D, Krieg N, Staley J, eds. Second Edition. New York: Springer
    • Garrity G, Bell J, Lilburn T. Class I. Alphaproteobacteria class. nov. In: Garrity G, Brenner D, Krieg N, Staley J, eds. Bergey's Manu-al of Systematic Bacteriology, Volume 2, Part C. Second Edition. New York: Springer; 2005:1.
    • (2005) Bergey's Manu-al of Systematic Bacteriology , vol.2 , pp. 1
    • Garrity, G.1    Bell, J.2    Lilburn, T.3
  • 25
    • 33746265973 scopus 로고    scopus 로고
    • Validation List No. 107. List of new names and new combinations previously effectively, but not validly, published
    • PubMed
    • Validation List No. 107. List of new names and new combinations previously effectively, but not validly, published. Int J Syst Evol Microbiol 2006; 56:1-6. PubMed http://dx.doi.org/10.1099/ijs.0.64188-0
    • (2006) Int J Syst Evol Microbiol , vol.56 , pp. 1-6
  • 26
    • 33646193540 scopus 로고    scopus 로고
    • Order III. Rhodobacterales ord. nov
    • Garrity G, Brenner D, Krieg N, Staley J, eds. Second Edition. New York: Springer
    • Garrity G, Bellm J, Lilburn T. Order III. Rhodobacterales ord. nov. In: Garrity G, Brenner D, Krieg N, Staley J, eds. Bergey's Manual of Sys-tematic Bacteriology, Volume 2, Part C. Second Edition. New York: Springer; 2005:161.
    • (2005) Bergey's Manual of Sys-tematic Bacteriology , vol.2 , pp. 161
    • Garrity, G.1    Bellm, J.2    Lilburn, T.3
  • 27
    • 33646193540 scopus 로고    scopus 로고
    • Family III. Rhodobacteraceae fam. nov
    • Garrity GM, Brenner DJ, Krieg NR, Staley JT, eds. Second Edition. New York: Springer
    • Garrity GM, Bell JA, Lilburn T. Family III. Rhodobacteraceae fam. nov. In: Garrity GM, Brenner DJ, Krieg NR, Staley JT, eds. Bergey's Manual of Systematic Bacteriology, Volume 2, Part C. Second Edition. New York: Springer; 2005:161.
    • (2005) Bergey's Manual of Systematic Bacteriology , vol.2 , pp. 161
    • Garrity, G.M.1    Bell, J.A.2    Lilburn, T.3
  • 28
    • 34248198910 scopus 로고    scopus 로고
    • Phaeobacter daeponensis sp. nov., isolated from a tidal flat of the Yellow Sea in Korea
    • PubMed
    • Yoon JH, Kang SJ, Lee SY, Oh TK. Phaeobacter daeponensis sp. nov., isolated from a tidal flat of the Yellow Sea in Korea. Int J Syst Evol Microbiol 2007; 57:856-861. PubMed http://dx.doi.org/10.1099/ijs.0.64779-0
    • (2007) Int J Syst Evol Microbiol , vol.57 , pp. 856-861
    • Yoon, J.H.1    Kang, S.J.2    Lee, S.Y.3    Oh, T.K.4
  • 31
    • 84988896006 scopus 로고    scopus 로고
    • List of growth media at the DSMZ: http://www.dsmz.de/catalogues/catalogue-microorganisms/culture-technology/list-of-media-for-microorganisms.html
  • 32
    • 77952299957 scopus 로고    scopus 로고
    • Prodigal: prokaryotic gene recognition and translation initiation site identifi cation
    • PubMed
    • Hyatt D, Chen GL, LoCascio PF, Land ML, Larimer FW, Hauser LJ. Prodigal: prokaryotic gene recognition and translation initiation site identifi cation. BMC Bioinformatics 2010; 11:119. PubMed http://dx.doi.org/10.1186/1471-2105-11-119
    • (2010) BMC Bioinformatics , vol.11 , pp. 119
    • Hyatt, D.1    Chen, G.L.2    LoCascio, P.F.3    Land, M.L.4    Larimer, F.W.5    Hauser, L.J.6
  • 34
    • 0030770619 scopus 로고    scopus 로고
    • The relaxosome protein MobC promotes conjugal plasmid mobilization by ex-tending DNA strand separation to the nick site at the origin of transfer
    • PubMed
    • Zhang S, Meyer R. The relaxosome protein MobC promotes conjugal plasmid mobilization by ex-tending DNA strand separation to the nick site at the origin of transfer. Mol Microbiol 1997; 25:509-516. PubMed http://dx.doi.org/10.1046/j.1365-2958.1997.4861849.x
    • (1997) Mol Microbiol , vol.25 , pp. 509-516
    • Zhang, S.1    Meyer, R.2
  • 35
    • 0017404563 scopus 로고
    • The soluble me-thane mono-oxygenase of Methylococcus capsulatus (Bath). Its ability to oxygenate n-alkanes, n-alkenes, ethers, and alicyclic, aromatic and heterocyclic compounds
    • PubMed
    • Colby J, Stirling DI, Dalton H. The soluble me-thane mono-oxygenase of Methylococcus capsulatus (Bath). Its ability to oxygenate n-alkanes, n-alkenes, ethers, and alicyclic, aromatic and heterocyclic compounds. Biochem J 1977; 165:395-402. PubMed
    • (1977) Biochem J , vol.165 , pp. 395-402
    • Colby, J.1    Stirling, D.I.2    Dalton, H.3
  • 36
    • 0028999344 scopus 로고
    • Cloning, sequencing and heterologous expression of the monoamine oxi-dase gene from Aspergillus niger
    • PubMed
    • Schilling B, Lerch K. Cloning, sequencing and heterologous expression of the monoamine oxi-dase gene from Aspergillus niger. Mol Gen Genet 1995; 247:430-438. PubMed http://dx.doi.org/10.1007/BF00293144
    • (1995) Mol Gen Genet , vol.247 , pp. 430-438
    • Schilling, B.1    Lerch, K.2
  • 37
    • 84895110183 scopus 로고    scopus 로고
    • The moron comes of age
    • PubMed
    • Cumby N, Davidson AR, Maxwell KL. The moron comes of age. Bacteriophage 2012; 2:225-228. PubMed http://dx.doi.org/10.4161/bact.23146
    • (2012) Bacteriophage , vol.2 , pp. 225-228
    • Cumby, N.1    Davidson, A.R.2    Maxwell, K.L.3
  • 38
    • 0032542358 scopus 로고    scopus 로고
    • Crystal structure of the ATP-binding subunit of an ABC transporter
    • PubMed
    • Hung LW, Wang IX, Nikaido K, Liu PQ, Ames GF, Kim SH. Crystal structure of the ATP-binding subunit of an ABC transporter. Nature 1998; 396:703-707. PubMed http://dx.doi.org/10.1038/25393
    • (1998) Nature , vol.396 , pp. 703-707
    • Hung, L.W.1    Wang, I.X.2    Nikaido, K.3    Liu, P.Q.4    Ames, G.F.5    Kim, S.H.6
  • 39
    • 61449201423 scopus 로고    scopus 로고
    • IslandViewer: an in-tegrated interface for computational identification and visualization of genomic islands
    • PubMed
    • Langille MGI, Brinkman FSL. IslandViewer: an in-tegrated interface for computational identification and visualization of genomic islands. Bioinformat-ics 2009; 25:664-665. PubMed http://dx.doi.org/10.1093/bioinformatics/btp030
    • (2009) Bioinformat-ics , vol.25 , pp. 664-665
    • Langille, M.G.I.1    Brinkman, F.S.L.2
  • 40
    • 50149094265 scopus 로고    scopus 로고
    • Evalua-tion of genomic island predictors using a compar-ative genomics approach
    • PubMed
    • Langille MG, Hsiao WWL, Brinkman FSL. Evalua-tion of genomic island predictors using a compar-ative genomics approach. BMC Bioinformatics 2008; 9:329. PubMed http://dx.doi.org/10.1186/1471-2105-9-329
    • (2008) BMC Bioinformatics , vol.9 , pp. 329
    • Langille, M.G.1    Hsiao, W.W.L.2    Brinkman, F.S.L.3
  • 42
    • 0345237922 scopus 로고    scopus 로고
    • IslandPath: aiding detection of genomic islands in prokaryotes
    • PubMed
    • Hsiao W, Wan I, Jones SJ, Brinkman FSL. IslandPath: aiding detection of genomic islands in prokaryotes. Bioinformatics 2003; 19:418-420. PubMed http://dx.doi.org/10.1093/bioinformatics/btg004
    • (2003) Bioinformatics , vol.19 , pp. 418-420
    • Hsiao, W.1    Wan, I.2    Jones, S.J.3    Brinkman, F.S.L.4
  • 45
    • 44249083757 scopus 로고    scopus 로고
    • Occurrence and expression of gene transfer agent genes in marine bacterioplankton
    • PubMed
    • Biers EJ, Wang K, Pennington C, Belas R, Chen F, Moran MA. Occurrence and expression of gene transfer agent genes in marine bacterioplankton. Appl Environ Microbiol 2008; 74:2933-2939. PubMed http://dx.doi.org/10.1128/AEM.02129-07
    • (2008) Appl Environ Microbiol , vol.74 , pp. 2933-2939
    • Biers, E.J.1    Wang, K.2    Pennington, C.3    Belas, R.4    Chen, F.5    Moran, M.A.6
  • 46
    • 77950802816 scopus 로고    scopus 로고
    • Introducing the bacterial "chromid": not a chro-mosome, not a plasmid
    • PubMed
    • Harrison PW, Lower RPJ, Kim NKD, Young JPW. Introducing the bacterial "chromid": not a chro-mosome, not a plasmid. Trends Microbiol 2010; 18:141-148. PubMed http://dx.doi.org/10.1016/j.tim.2009.12.010
    • (2010) Trends Microbiol , vol.18 , pp. 141-148
    • Harrison, P.W.1    Lower, R.P.J.2    Kim, N.K.D.3    Young, J.P.W.4
  • 47
    • 84876672324 scopus 로고    scopus 로고
    • Extrachromosomal, extraordinary and essential-the plasmids of the Roseobacter clade
    • PubMed
    • Petersen J, Frank O, Göker M, Pradella S. Extrachromosomal, extraordinary and essential-the plasmids of the Roseobacter clade. Appl Microbiol Biotechnol 2013; 97:2805-2815. PubMed http://dx.doi.org/10.1007/s00253-013-4746-8
    • (2013) Appl Microbiol Biotechnol , vol.97 , pp. 2805-2815
    • Petersen, J.1    Frank, O.2    Göker, M.3    Pradella, S.4
  • 48
    • 79952164212 scopus 로고    scopus 로고
    • Origin and evolution of a novel DnaA-like plasmid replication type in Rhodobacterales
    • PubMed
    • Petersen J, Brinkmann H, Berger M, Brinkhoff T, Päuker O, Pradella S. Origin and evolution of a novel DnaA-like plasmid replication type in Rhodobacterales . Mol Biol Evol 2011; 28:1229-1240. PubMed http://dx.doi.org/10.1093/molbev/msq310
    • (2011) Mol Biol Evol , vol.28 , pp. 1229-1240
    • Petersen, J.1    Brinkmann, H.2    Berger, M.3    Brinkhoff, T.4    Päuker, O.5    Pradella, S.6
  • 49
    • 70349686606 scopus 로고    scopus 로고
    • Diversity and evolution of repABC type plasmids in Rhodobacterales
    • PubMed
    • Petersen J, Brinkmann H, Pradella S. Diversity and evolution of repABC type plasmids in Rhodobacterales . Environ Microbiol 2009; 11:2627-2638. PubMed http://dx.doi.org/10.1111/j.1462-2920.2009.01987.x
    • (2009) Environ Microbiol , vol.11 , pp. 2627-2638
    • Petersen, J.1    Brinkmann, H.2    Pradella, S.3
  • 50
    • 0030866307 scopus 로고    scopus 로고
    • Com-plete nucleotide sequence of the replicator region of Paracoccus (Thiobacillus) versutus pTAV1 plasmid and its correlation to several plasmids of Agrobacterium and Rhizobium species
    • PubMed
    • Bartosik D, Wlodarczyk M, Thomas CM. Com-plete nucleotide sequence of the replicator region of Paracoccus (Thiobacillus) versutus pTAV1 plasmid and its correlation to several plasmids of Agrobacterium and Rhizobium species. Plasmid 1997; 38:53-59. PubMed http://dx.doi.org/10.1006/plas.1997.1295
    • (1997) Plasmid , vol.38 , pp. 53-59
    • Bartosik, D.1    Wlodarczyk, M.2    Thomas, C.M.3
  • 51
    • 79958220279 scopus 로고    scopus 로고
    • Phylogeny and compatibility: plasmid classification in the genomics era
    • PubMed
    • Petersen J. Phylogeny and compatibility: plasmid classification in the genomics era. Arch Microbiol 2011; 193:313-321. PubMed
    • (2011) Arch Microbiol , vol.193 , pp. 313-321
    • Petersen, J.1
  • 52
    • 1842456892 scopus 로고    scopus 로고
    • The versatile bacterial type IV secretion systems
    • PubMed
    • Cascales E, Christie PJ. The versatile bacterial type IV secretion systems. Nat Rev Microbiol 2003; 1:137-149. PubMed http://dx.doi.org/10.1038/nrmicro753
    • (2003) Nat Rev Microbiol , vol.1 , pp. 137-149
    • Cascales, E.1    Christie, P.J.2
  • 53
    • 0035753462 scopus 로고    scopus 로고
    • Mechanisms of plasmid stable maintenance with special focus on plasmid addiction systems
    • PubMed
    • Zielenkiewicz U, Ceglowski P. Mechanisms of plasmid stable maintenance with special focus on plasmid addiction systems. Acta Biochim Pol 2001; 48:1003-1023. PubMed
    • (2001) Acta Biochim Pol , vol.48 , pp. 1003-1023
    • Zielenkiewicz, U.1    Ceglowski, P.2
  • 54
    • 84863304598 scopus 로고    scopus 로고
    • R Founda-tion for Statistical Computing, Vienna, Austria
    • R Development Core Team. R: A language and evironment for statistical computing. R Founda-tion for Statistical Computing, Vienna, Austria 2008. ISBN 3-900051-07-0.
    • (2008) R: A language and evironment for statistical computing
  • 55
    • 33745612095 scopus 로고    scopus 로고
    • Pvclust: an R package for assessing the uncertainty in hierarchical clus-tering
    • PubMed
    • Suzuki R, Shimodaira H. Pvclust: an R package for assessing the uncertainty in hierarchical clus-tering. Bioinformatics 2006; 22:1540-1542. PubMed http://dx.doi.org/10.1093/bioinformatics/btl117
    • (2006) Bioinformatics , vol.22 , pp. 1540-1542
    • Suzuki, R.1    Shimodaira, H.2
  • 56
    • 0028850367 scopus 로고
    • Siderophores: Structure and Function of Microbial Iron Transport Compounds
    • PubMed
    • Neilands JB. Siderophores: Structure and Function of Microbial Iron Transport Compounds. J Biol Chem 1995; 270:26723-26726. PubMed http://dx.doi.org/10.1074/jbc.270.45.26723
    • (1995) J Biol Chem , vol.270 , pp. 26723-26726
    • Neilands, J.B.1
  • 57
    • 40549094625 scopus 로고    scopus 로고
    • Genetic dissection of tropodithietic acid biosyn-thesis by marine roseobacters
    • PubMed
    • Geng H, Bruhn JB, Nielsen KF, Gram L, Belas R. Genetic dissection of tropodithietic acid biosyn-thesis by marine roseobacters. Appl Environ Microbiol 2008; 74:1535-1545. PubMed http://dx.doi.org/10.1128/AEM.02339-07
    • (2008) Appl Environ Microbiol , vol.74 , pp. 1535-1545
    • Geng, H.1    Bruhn, J.B.2    Nielsen, K.F.3    Gram, L.4    Belas, R.5
  • 58
    • 0033198608 scopus 로고    scopus 로고
    • The inter-action between RTX toxins and target cells
    • PubMed
    • Lally ET, Hill RB, Kieba IR, Korostoff J. The inter-action between RTX toxins and target cells. Trends Microbiol 1999; 7:356-361. PubMed http://dx.doi.org/10.1016/S0966-842X(99)01530-9
    • (1999) Trends Microbiol , vol.7 , pp. 356-361
    • Lally, E.T.1    Hill, R.B.2    Kieba, I.R.3    Korostoff, J.4
  • 59
    • 0034519831 scopus 로고    scopus 로고
    • The rhamnose pathway
    • PubMed
    • Giraud MF, Naismith JH. The rhamnose pathway. Curr Opin Struct Biol 2000; 10:687-696. PubMed http://dx.doi.org/10.1016/S0959-440X(00)00145-7
    • (2000) Curr Opin Struct Biol , vol.10 , pp. 687-696
    • Giraud, M.F.1    Naismith, J.H.2
  • 60
    • 79551484126 scopus 로고    scopus 로고
    • N15: the linear phage-plasmid
    • PubMed
    • Ravin NV. N15: the linear phage-plasmid. Plas-mid 2011; 65:102-109. PubMed http://dx.doi.org/10.1016/j.plasmid.2010.12.004
    • (2011) Plas-mid , vol.65 , pp. 102-109
    • Ravin, N.V.1
  • 61
    • 0032832751 scopus 로고    scopus 로고
    • The plasmid prophage N15: a linear DNA with covalently closed ends
    • PubMed
    • Rybchin VN, Svarchevsky AN. The plasmid prophage N15: a linear DNA with covalently closed ends. Mol Microbiol 1999; 33:895-903. PubMed http://dx.doi.org/10.1046/j.1365-2958.1999.01533.x
    • (1999) Mol Microbiol , vol.33 , pp. 895-903
    • Rybchin, V.N.1    Svarchevsky, A.N.2
  • 62
    • 33751205662 scopus 로고    scopus 로고
    • Biosensing Systems for the Detection of Bacterial Quorum Signaling Molecules
    • PubMed
    • Kumari A, Pasini P, Deo SK, Flomenhoft D, Shashidhar S, Daunert S. Biosensing Systems for the Detection of Bacterial Quorum Signaling Molecules. Anal Chem 2006; 78:7603-7609. PubMed http://dx.doi.org/10.1021/ac061421n
    • (2006) Anal Chem , vol.78 , pp. 7603-7609
    • Kumari, A.1    Pasini, P.2    Deo, S.K.3    Flomenhoft, D.4    Shashidhar, S.5    Daunert, S.6
  • 63
    • 79959366565 scopus 로고    scopus 로고
    • Draft genome of Phaeobacter gallaeciensis ANG1, a dominant member of the accessory nidamental gland of Euprymna scolopes
    • PubMed
    • Collins AJ, Nyholm SV. Draft genome of Phaeobacter gallaeciensis ANG1, a dominant member of the accessory nidamental gland of Euprymna scolopes. J Bacteriol 2011; 193:3397-3398. PubMed http://dx.doi.org/10.1128/JB.05139-11
    • (2011) J Bacteriol , vol.193 , pp. 3397-3398
    • Collins, A.J.1    Nyholm, S.V.2
  • 64
    • 84874011652 scopus 로고    scopus 로고
    • Genome sequence-based species delimitation with confidence intervals and improved distance functions
    • PubMed
    • Meier-Kolthoff JP, Auch AF, Klenk HP, Göker M. Genome sequence-based species delimitation with confidence intervals and improved distance functions. BMC Bioinformatics 2013; 14:60. PubMed http://dx.doi.org/10.1186/1471-2105-14-60
    • (2013) BMC Bioinformatics , vol.14 , pp. 60
    • Meier-Kolthoff, J.P.1    Auch, A.F.2    Klenk, H.P.3    Göker, M.4
  • 66
    • 76849088617 scopus 로고    scopus 로고
    • Notes on the characterization of pro-karyote strains for taxonomic purposes
    • PubMed
    • Tindall BJ, Rosselló-Móra R, Busse HJ, Ludwig W, Kämpfer P. Notes on the characterization of pro-karyote strains for taxonomic purposes. Int J Syst Evol Microbiol 2010; 60:249-266. PubMed http://dx.doi.org/10.1099/ijs.0.016949-0
    • (2010) Int J Syst Evol Microbiol , vol.60 , pp. 249-266
    • Tindall, B.J.1    Rosselló-Móra, R.2    Busse, H.J.3    Ludwig, W.4    Kämpfer, P.5
  • 67
    • 79952176138 scopus 로고    scopus 로고
    • The genome sequence of Methanohalophilus mahii SLPT reveals differences in the energy metabolism among members of the Methanosarcinaceae inhabiting freshwater and saline environments
    • PubMed
    • Spring S, Scheuner C, Lapidus A, Lucas S, Glavina Del Rio T, Tice H, Copeland A, Cheng JF, Chen F, et al. The genome sequence of Methanohalophilus mahii SLPT reveals differences in the energy metabolism among members of the Methanosarcinaceae inhabiting freshwater and saline environments. Archaea 2010; 2010:690737. PubMed http://dx.doi.org/10.1155/2010/690737
    • (2010) Archaea , vol.2010 , pp. 690737
    • Spring, S.1    Scheuner, C.2    Lapidus, A.3    Lucas, S.4    Glavina Del Rio, T.5    Tice, H.6    Copeland, A.7    Cheng, J.F.8    Chen, F.9
  • 68
    • 0034043778 scopus 로고    scopus 로고
    • Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis
    • PubMed
    • Castresana J. Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis. Mol Biol Evol 2000; 17:540-552. PubMed http://dx.doi.org/10.1093/oxfordjournals.molbev.a026334
    • (2000) Mol Biol Evol , vol.17 , pp. 540-552
    • Castresana, J.1
  • 69
    • 79960901452 scopus 로고    scopus 로고
    • Codivergence of Mycoviruses with Their Hosts
    • PubMed
    • Göker M, Scheuner C, Klenk HP, Stielow JB, Menzel W. Codivergence of Mycoviruses with Their Hosts. PLoS ONE 2011; 6:e22252. PubMed http://dx.doi.org/10.1371/journal.pone.0022252
    • (2011) PLoS ONE , vol.6
    • Göker, M.1    Scheuner, C.2    Klenk, H.P.3    Stielow, J.B.4    Menzel, W.5
  • 70
    • 84863601275 scopus 로고    scopus 로고
    • Complete genome sequence of the ter-mite hindgut bacterium Spirochaeta coccoides type strain (SPN1T), reclassification in the genus Sphaerochaeta as Sphaerochaeta coccoides comb. nov. and emendations of the family Spirochaetaceae and the genus Sphaerochaeta
    • PubMed
    • Abt B, Han C, Scheuner C, Lu M, Lapidus A, Nolan M, Lucas S, Hammon N, Deshpande S, Cheng JF, et al. Complete genome sequence of the ter-mite hindgut bacterium Spirochaeta coccoides type strain (SPN1T), reclassification in the genus Sphaerochaeta as Sphaerochaeta coccoides comb. nov. and emendations of the family Spirochaetaceae and the genus Sphaerochaeta. Stand Genomic Sci 2012; 6:194-209. PubMed http://dx.doi.org/10.4056/sigs.2796069
    • (2012) Stand Genomic Sci , vol.6 , pp. 194-209
    • Abt, B.1    Han, C.2    Scheuner, C.3    Lu, M.4    Lapidus, A.5    Nolan, M.6    Lucas, S.7    Hammon, N.8    Deshpande, S.9    Cheng, J.F.10
  • 72
    • 0036529479 scopus 로고    scopus 로고
    • An ef-ficient algorithm for large-scale detection of pro-tein families
    • PubMed
    • Enright AJ, Van Dongen SM, Ouzounis CA. An ef-ficient algorithm for large-scale detection of pro-tein families. Nucleic Acids Res 2002; 30:1575-1584. PubMed http://dx.doi.org/10.1093/nar/30.7.1575
    • (2002) Nucleic Acids Res , vol.30 , pp. 1575-1584
    • Enright, A.J.1    Van Dongen, S.M.2    Ouzounis, C.A.3
  • 73
    • 0141519279 scopus 로고    scopus 로고
    • OrthoMCL: identi-fication of ortholog groups for eukaryotic ge-nomes
    • PubMed
    • Li L, Stoeckert CJ, Jr., Roos DS. OrthoMCL: identi-fication of ortholog groups for eukaryotic ge-nomes. Genome Res 2003; 13:2178-2189. PubMed http://dx.doi.org/10.1101/gr.1224503
    • (2003) Genome Res , vol.13 , pp. 2178-2189
    • Li, L.1    Stoeckert, C.J.2    Roos, D.S.3
  • 74
    • 3042666256 scopus 로고    scopus 로고
    • MUSCLE: multiple sequence alignment with high accuracy and high throughput
    • PubMed
    • Edgar RC. MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res 2004; 32:1792-1797. PubMed http://dx.doi.org/10.1093/nar/gkh340
    • (2004) Nucleic Acids Res , vol.32 , pp. 1792-1797
    • Edgar, R.C.1
  • 75
    • 0038391401 scopus 로고    scopus 로고
    • RASCAL: rapid scanning and correction of multiple se-quence alignments
    • PubMed
    • Thompson JD, Thierry JCC, Poch O. RASCAL: rapid scanning and correction of multiple se-quence alignments. Bioinformatics 2003; 19:1155-1161. PubMed http://dx.doi.org/10.1093/bioinformatics/btg133
    • (2003) Bioinformatics , vol.19 , pp. 1155-1161
    • Thompson, J.D.1    Thierry, J.C.C.2    Poch, O.3
  • 77
    • 0019797407 scopus 로고
    • Evolutionary trees from DNA se-quences: a maximum likelihood approach
    • PubMed
    • Felsenstein J. Evolutionary trees from DNA se-quences: a maximum likelihood approach. J Mol Evol 1981; 17:368-376. PubMed http://dx.doi.org/10.1007/BF01734359
    • (1981) J Mol Evol , vol.17 , pp. 368-376
    • Felsenstein, J.1
  • 78
    • 84959747425 scopus 로고
    • Toward defining the course of evolu-tion: minimum change on a specified tree topolo-gy
    • Fitch WM. Toward defining the course of evolu-tion: minimum change on a specified tree topolo-gy. Syst Zool 1971; 20:406-416. http://dx.doi.org/10.2307/2412116
    • (1971) Syst Zool , vol.20 , pp. 406-416
    • Fitch, W.M.1
  • 79
    • 0038048942 scopus 로고    scopus 로고
    • Parsimony, likelihood, and simplici-ty
    • Goloboff PA. Parsimony, likelihood, and simplici-ty. Cladistics 2003; 19:91-103. http://dx.doi.org/10.1111/j.1096-0031.2003.tb00297.x
    • (2003) Cladistics , vol.19 , pp. 91-103
    • Goloboff, P.A.1
  • 80
    • 33750403801 scopus 로고    scopus 로고
    • RAxML-VI-HPC: maximum likeli-hood-based phylogenetic analyses with thousands of taxa and mixed models
    • PubMed
    • Stamatakis A. RAxML-VI-HPC: maximum likeli-hood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics 2006; 22:2688-2690. PubMed http://dx.doi.org/10.1093/bioinformatics/btl446
    • (2006) Bioinformatics , vol.22 , pp. 2688-2690
    • Stamatakis, A.1
  • 81
    • 50249100595 scopus 로고    scopus 로고
    • A rapid bootstrap algorithm for the RAxML web servers
    • PubMed
    • Stamatakis A, Hoover P, Rougemont J. A rapid bootstrap algorithm for the RAxML web servers. Syst Biol 2008; 57:758-771. PubMed http://dx.doi.org/10.1080/10635150802429642
    • (2008) Syst Biol , vol.57 , pp. 758-771
    • Stamatakis, A.1    Hoover, P.2    Rougemont, J.3
  • 84
    • 36849014457 scopus 로고    scopus 로고
    • An empirical test of the midpoint rooting method
    • Hess PN, De Moraes Russo CA. An empirical test of the midpoint rooting method. Biol J Linn Soc Lond 2007; 92:669-674. http://dx.doi.org/10.1111/j.1095-8312.2007.00864.x
    • (2007) Biol J Linn Soc Lond , vol.92 , pp. 669-674
    • Hess, P.N.1    De Moraes Russo, C.A.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.