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Volumn 6, Issue APR, 2015, Pages

A taxonomic framework for emerging groups of ecologically important marine gammaproteobacteria based on the reconstruction of evolutionary relationships using genome-scale data

Author keywords

Bacterioplankton; K selection; Oligotroph; Phylogenomics; Trophic guilds

Indexed keywords

PROTEOME; RNA 16S; RNA POLYMERASE BETA SUBUNIT; UBIQUINONE;

EID: 85032070673     PISSN: None     EISSN: 1664302X     Source Type: Journal    
DOI: 10.3389/fmicb.2015.00281     Document Type: Article
Times cited : (126)

References (87)
  • 1
    • 84863601275 scopus 로고    scopus 로고
    • T), reclassification in the genus Sphaerochaeta as Sphaerochaeta coccoides comb. nov. and emendations of the family Spirochaetaceae and the genus Sphaerochaeta
    • T), reclassification in the genus Sphaerochaeta as Sphaerochaeta coccoides comb. nov. and emendations of the family Spirochaetaceae and the genus Sphaerochaeta. Stand. Genomic Sci. 6, 194-209. doi: 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
  • 2
    • 58149305793 scopus 로고    scopus 로고
    • The rpoB gene as a tool for clinical microbiologists
    • Adékambi, T., Drancourt, M., and Raoult, D. (2009). The rpoB gene as a tool for clinical microbiologists. Trends Microbiol. 17, 37-45. doi: 10.1016/j.tim.2008.09.008.
    • (2009) Trends Microbiol , vol.17 , pp. 37-45
    • Adékambi, T.1    Drancourt, M.2    Raoult, D.3
  • 3
    • 0030801002 scopus 로고    scopus 로고
    • Gapped BLAST and PSI-BLAST: a new generation of protein database search programs
    • Altschul, S. F., Madden, T. L., Schäffer, A. A., Zhang, J., Zhang, Z., Miller, W., et al. (1997). Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. 25, 3389-3402. doi: 10.1093/nar/25.17.3389.
    • (1997) Nucleic Acids Res , vol.25 , pp. 3389-3402
    • Altschul, S.F.1    Madden, T.L.2    Schäffer, A.A.3    Zhang, J.4    Zhang, Z.5    Miller, W.6
  • 4
    • 79957438170 scopus 로고    scopus 로고
    • Novel insights into the diversity of catabolic metabolism from ten haloarchaeal genomes
    • Anderson, I., Scheuner, C., Göker, M., Mavromatis, K., Hooper, S. D., Porat, I., et al. (2011). Novel insights into the diversity of catabolic metabolism from ten haloarchaeal genomes. PLoS ONE 6:e20237. doi: 10.1371/journal.pone.0020237.
    • (2011) PLoS ONE , vol.6
    • Anderson, I.1    Scheuner, C.2    Göker, M.3    Mavromatis, K.4    Hooper, S.D.5    Porat, I.6
  • 5
    • 0001818828 scopus 로고
    • 'r-and K-selection and microbial ecology'
    • ed. K. C. Marshall (New York, NY: Plenum press)
    • Andrews, J., and Harris, R. (1986). "r-and K-selection and microbial ecology," in Advances in Microbial Ecology, Vol. 9, ed K. C. Marshall (New York, NY: Plenum press), 99-147.
    • (1986) Advances in Microbial Ecology , vol.9 , pp. 99-147
    • Andrews, J.1    Harris, R.2
  • 6
    • 80054735427 scopus 로고    scopus 로고
    • Microbulbifer chitinilyticus sp. nov. and Microbulbifer okinawensis sp. nov., chitin-degrading bacteria isolated from mangrove forests
    • Baba, A., Miyazaki, M., Nagahama, T., and Nogi, Y. (2011). Microbulbifer chitinilyticus sp. nov. and Microbulbifer okinawensis sp. nov., chitin-degrading bacteria isolated from mangrove forests. Int. J. Syst. Evol. Microbiol. 61, 2215-2220. doi: 10.1099/ijs.0.024158-0.
    • (2011) Int. J. Syst. Evol. Microbiol , vol.61 , pp. 2215-2220
    • Baba, A.1    Miyazaki, M.2    Nagahama, T.3    Nogi, Y.4
  • 7
    • 0021840811 scopus 로고
    • Cellulolytic and dextranolytic Gram-negative bacteria: revival of the genus Cellvibrio
    • Blackall, L. L., Hayward, A. C., and Sl, L. I. (1985). Cellulolytic and dextranolytic Gram-negative bacteria: revival of the genus Cellvibrio. J. Appl. Bacteriol. 59, 81-97. doi: 10.1111/j.1365-2672.1985.tb01779.x.
    • (1985) J. Appl. Bacteriol , vol.59 , pp. 81-97
    • Blackall, L.L.1    Hayward, A.C.2    Sl, L.I.3
  • 8
    • 79961085390 scopus 로고    scopus 로고
    • Pseudoteredinibacter isoporae gen. nov., sp. nov., a marine bacterium isolated from the reef-building coral Isopora palifera
    • Chen, M.-H., Sheu, S.-Y., Arun, A. B., Young, C.-C., Chen, C. A., Wang, J.-T., et al. (2011). Pseudoteredinibacter isoporae gen. nov., sp. nov., a marine bacterium isolated from the reef-building coral Isopora palifera. Int. J. Syst. Evol. Microbiol. 61, 1887-1893. doi: 10.1099/ijs.0.024190-0.
    • (2011) Int. J. Syst. Evol. Microbiol , vol.61 , pp. 1887-1893
    • Chen, M.-H.1    Sheu, S.-Y.2    Arun, A.B.3    Young, C.-C.4    Chen, C.A.5    Wang, J.-T.6
  • 9
    • 84927171752 scopus 로고    scopus 로고
    • Gilvimarinus polysaccharolyticus sp. nov., an agar-digesting bacterium isolated from seaweed, and emended description of the genus Gilvimarinus
    • Cheng, H., Zhang, S., Huo, Y.-Y., Jiang, X.-W., Zhang, X.-Q., Pan, J., et al. (2015). Gilvimarinus polysaccharolyticus sp. nov., an agar-digesting bacterium isolated from seaweed, and emended description of the genus Gilvimarinus. Int. J. Syst. Evol. Microbiol. 65, 562-569. doi: 10.1099/ijs.0.065078-0.
    • (2015) Int. J. Syst. Evol. Microbiol , vol.65 , pp. 562-569
    • Cheng, H.1    Zhang, S.2    Huo, Y.-Y.3    Jiang, X.-W.4    Zhang, X.-Q.5    Pan, J.6
  • 10
    • 0347130086 scopus 로고    scopus 로고
    • Cultivation and growth characteristics of a diverse group of oligotrophic marine gammaproteobacteria
    • Cho, J., and Giovannoni, S. J. (2004). Cultivation and growth characteristics of a diverse group of oligotrophic marine gammaproteobacteria. Appl. Environ. Microbiol. 70, 432-440. doi: 10.1128/AEM.70.1.432-440.2004.
    • (2004) Appl. Environ. Microbiol , vol.70 , pp. 432-440
    • Cho, J.1    Giovannoni, S.J.2
  • 11
    • 84998772486 scopus 로고    scopus 로고
    • Draft genome sequence of the gammaproteobacterial strain MOLA455, a representative of a ubiquitous proteorhodopsin-producing group in the ocean
    • Courties, A., Riedel, T., Jarek, M., Papadatou, M., Intertaglia, L., Lebaron, P., et al. (2014). Draft genome sequence of the gammaproteobacterial strain MOLA455, a representative of a ubiquitous proteorhodopsin-producing group in the ocean. Genome Announc. 2, 2-3. doi: 10.1128/genomeA.01203-13.
    • (2014) Genome Announc , vol.2 , pp. 2-3
    • Courties, A.1    Riedel, T.2    Jarek, M.3    Papadatou, M.4    Intertaglia, L.5    Lebaron, P.6
  • 12
    • 17744394753 scopus 로고    scopus 로고
    • Phylogenomics and the reconstruction of the tree of life
    • Delsuc, F., Brinkmann, H., and Philippe, H. (2005). Phylogenomics and the reconstruction of the tree of life. Nat. Rev. Genet. 6, 361-375. doi: 10.1038/nrg1603.
    • (2005) Nat. Rev. Genet , vol.6 , pp. 361-375
    • Delsuc, F.1    Brinkmann, H.2    Philippe, H.3
  • 13
    • 34247884431 scopus 로고    scopus 로고
    • Performance of the translational apparatus varies with the ecological strategies of bacteria
    • Dethlefsen, L., and Schmidt, T. M. (2007). Performance of the translational apparatus varies with the ecological strategies of bacteria. J. Bacteriol. 189, 3237-3245. doi: 10.1128/JB.01686-06.
    • (2007) J. Bacteriol , vol.189 , pp. 3237-3245
    • Dethlefsen, L.1    Schmidt, T.M.2
  • 14
    • 84861342496 scopus 로고    scopus 로고
    • Genomic insights to SAR86, an abundant and uncultivated marine bacterial lineage
    • Dupont, C. L., Rusch, D. B., Yooseph, S., Lombardo, M.-J., Alexander Richter, R., Valas, R., et al. (2012). Genomic insights to SAR86, an abundant and uncultivated marine bacterial lineage. ISME J. 6, 1186-1199. doi: 10.1038/ismej.2011.189.
    • (2012) ISME J , vol.6 , pp. 1186-1199
    • Dupont, C.L.1    Rusch, D.B.2    Yooseph, S.3    Lombardo, M.-J.4    Alexander Richter, R.5    Valas, R.6
  • 15
    • 3042666256 scopus 로고    scopus 로고
    • MUSCLE: multiple sequence alignment with high accuracy and high throughput
    • Edgar, R. C. (2004). MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res. 32, 1792-1797. doi: 10.1093/nar/gkh340.
    • (2004) Nucleic Acids Res , vol.32 , pp. 1792-1797
    • Edgar, R.C.1
  • 16
    • 0036529479 scopus 로고    scopus 로고
    • An efficient algorithm for large-scale detection of protein families
    • Enright, A. J., Van Dongen, S., and Ouzounis, C. A. (2002). An efficient algorithm for large-scale detection of protein families. Nucleic Acids Res. 30, 1575-1584. doi: 10.1093/nar/30.7.1575.
    • (2002) Nucleic Acids Res , vol.30 , pp. 1575-1584
    • Enright, A.J.1    Van Dongen, S.2    Ouzounis, C.A.3
  • 17
    • 0000209031 scopus 로고
    • Numerical methods for inferring evolutionary trees
    • Felsenstein, J. (1982). Numerical methods for inferring evolutionary trees. Q. Rev. Biol. 57, 379-404. doi: 10.1086/412935.
    • (1982) Q. Rev. Biol , vol.57 , pp. 379-404
    • Felsenstein, J.1
  • 18
    • 84872981638 scopus 로고    scopus 로고
    • Expression patterns reveal niche diversification in a marine microbial assemblage
    • Gifford, S. M., Sharma, S., Booth, M., and Moran, M. A. (2012). Expression patterns reveal niche diversification in a marine microbial assemblage. ISME J. 7, 281-298. doi: 10.1038/ismej.2012.96.
    • (2012) ISME J , vol.7 , pp. 281-298
    • Gifford, S.M.1    Sharma, S.2    Booth, M.3    Moran, M.A.4
  • 19
    • 84904997234 scopus 로고    scopus 로고
    • Implications of streamlining theory for microbial ecology
    • Giovannoni, S. J., Cameron Thrash, J., and Temperton, B. (2014). Implications of streamlining theory for microbial ecology. ISME J. 8, 1553-1565. doi: 10.1038/ismej.2014.60.
    • (2014) ISME J , vol.8 , pp. 1553-1565
    • Giovannoni, S.J.1    Cameron Thrash, J.2    Temperton, B.3
  • 20
    • 0036898759 scopus 로고    scopus 로고
    • Prokaryotic evolution in light of gene transfer
    • Gogarten, J. P., Doolittle, W. F., and Lawrence, J. G. (2002). Prokaryotic evolution in light of gene transfer. Mol. Biol. Evol. 19, 2226-2238. doi: 10.1093/oxfordjournals.molbev.a004046.
    • (2002) Mol. Biol. Evol , vol.19 , pp. 2226-2238
    • Gogarten, J.P.1    Doolittle, W.F.2    Lawrence, J.G.3
  • 21
    • 45749124657 scopus 로고    scopus 로고
    • TNT, a free program for phylogenetic analysis
    • Goloboff, P. A., Farris, J. S., and Nixon, K. C. (2008). TNT, a free program for phylogenetic analysis. Cladistics 24, 774-786. doi: 10.1111/j.1096-0031.2008.00217.x.
    • (2008) Cladistics , vol.24 , pp. 774-786
    • Goloboff, P.A.1    Farris, J.S.2    Nixon, K.C.3
  • 22
    • 84855806683 scopus 로고    scopus 로고
    • Maricurvus nonylphenolicus gen. nov., sp. nov., a nonylphenol-degrading bacterium isolated from seawater
    • Iwaki, H., Takada, K., and Hasegawa, Y. (2012). Maricurvus nonylphenolicus gen. nov., sp. nov., a nonylphenol-degrading bacterium isolated from seawater. FEMS Microbiol. Lett. 327, 142-147. doi: 10.1111/j.1574-6968.2011.02471.x.
    • (2012) FEMS Microbiol. Lett , vol.327 , pp. 142-147
    • Iwaki, H.1    Takada, K.2    Hasegawa, Y.3
  • 23
    • 83055185721 scopus 로고    scopus 로고
    • Description of Spongiibacter borealis sp. nov., isolated from Arctic seawater, and reclassification of Melitea salexigens Urios et al. 2008 as a later heterotypic synonym of Spongiibacter marinus Graeber et al. 2008 with emended descriptions of the genus Spongiibacter and Spongiibacter marinus
    • Jang, G. I., Hwang, C. Y., Choi, H.-G., Kang, S., and Cho, B. C. (2011a). Description of Spongiibacter borealis sp. nov., isolated from Arctic seawater, and reclassification of Melitea salexigens Urios et al. 2008 as a later heterotypic synonym of Spongiibacter marinus Graeber et al. 2008 with emended descriptions of the genus Spongiibacter and Spongiibacter marinus. Int. J. Syst. Evol. Microbiol. 61, 2895-2900. doi: 10.1099/ijs.0.028795-0.
    • (2011) Int. J. Syst. Evol. Microbiol , vol.61 , pp. 2895-2900
    • Jang, G.I.1    Hwang, C.Y.2    Choi, H.-G.3    Kang, S.4    Cho, B.C.5
  • 24
    • 79959358964 scopus 로고    scopus 로고
    • Genome sequence of strain IMCC3088, a proteorhodopsin-containing marine bacterium belonging to the OM60/NOR5 clade
    • Jang, Y., Oh, H.-M., Kang, I., Lee, K., Yang, S.-J., and Cho, J.-C. (2011b). Genome sequence of strain IMCC3088, a proteorhodopsin-containing marine bacterium belonging to the OM60/NOR5 clade. J. Bacteriol. 193, 3415-3416. doi: 10.1128/JB.05111-11.
    • (2011) J. Bacteriol , vol.193 , pp. 3415-3416
    • Jang, Y.1    Oh, H.-M.2    Kang, I.3    Lee, K.4    Yang, S.-J.5    Cho, J.-C.6
  • 25
    • 84876085477 scopus 로고    scopus 로고
    • Microbulbifer gwangyangensis sp. nov. and Microbulbifer pacificus sp. nov., isolated from marine environments
    • Jeong, S. H., Yang, S.-H., Jin, H. M., Kim, J. M., Kwon, K. K., and Jeon, C. O. (2013). Microbulbifer gwangyangensis sp. nov. and Microbulbifer pacificus sp. nov., isolated from marine environments. Int. J. Syst. Evol. Microbiol. 63, 1335-1341. doi: 10.1099/ijs.0.042606-0.
    • (2013) Int. J. Syst. Evol. Microbiol , vol.63 , pp. 1335-1341
    • Jeong, S.H.1    Yang, S.-H.2    Jin, H.M.3    Kim, J.M.4    Kwon, K.K.5    Jeon, C.O.6
  • 27
    • 0034074410 scopus 로고    scopus 로고
    • rRNA operon copy number reflects ecological strategies of bacteria
    • Klappenbach, J. A., Dunbar, J. M., and Schmidt, T. M. (2000). rRNA operon copy number reflects ecological strategies of bacteria. Appl. Environ. Microbiol. 66, 1328-1333. doi: 10.1128/AEM.66.4.1328-1333.2000.
    • (2000) Appl. Environ. Microbiol , vol.66 , pp. 1328-1333
    • Klappenbach, J.A.1    Dunbar, J.M.2    Schmidt, T.M.3
  • 28
    • 77952889628 scopus 로고    scopus 로고
    • En route to a genome-based classification of Archaea and Bacteria?
    • Klenk, H.-P., and Göker, M. (2010). En route to a genome-based classification of Archaea and Bacteria? Syst. Appl. Microbiol. 33, 175-182. doi: 10.1016/j.syapm.2010.03.003.
    • (2010) Syst. Appl. Microbiol , vol.33 , pp. 175-182
    • Klenk, H.-P.1    Göker, M.2
  • 29
    • 0027995648 scopus 로고
    • DNA-dependent RNA polymerase subunit B as a tool for phylogenetic reconstructions: branching topology of the archaeal domain
    • Klenk, H. P., and Zillig, W. (1994). DNA-dependent RNA polymerase subunit B as a tool for phylogenetic reconstructions: branching topology of the archaeal domain. J. Mol. Evol. 38, 420-432. doi: 10.1007/BF00163158.
    • (1994) J. Mol. Evol , vol.38 , pp. 420-432
    • Klenk, H.P.1    Zillig, W.2
  • 30
    • 78751527447 scopus 로고    scopus 로고
    • Networks of gene sharing among 329 proteobacterial genomes reveal differences in lateral gene transfer frequency at different phylogenetic depths
    • Kloesges, T., Popa, O., Martin, W., and Dagan, T. (2011). Networks of gene sharing among 329 proteobacterial genomes reveal differences in lateral gene transfer frequency at different phylogenetic depths. Mol. Biol. Evol. 28, 1057-1074. doi: 10.1093/molbev/msq297.
    • (2011) Mol. Biol. Evol , vol.28 , pp. 1057-1074
    • Kloesges, T.1    Popa, O.2    Martin, W.3    Dagan, T.4
  • 31
    • 24944587193 scopus 로고    scopus 로고
    • Towards a genome-based taxonomy for prokaryotes
    • Konstantinidis, K. T., and Tiedje, J. M. (2005). Towards a genome-based taxonomy for prokaryotes. J. Bacteriol. 187, 6258-6264. doi: 10.1128/JB.187.18.6258-6264.2005.
    • (2005) J. Bacteriol , vol.187 , pp. 6258-6264
    • Konstantinidis, K.T.1    Tiedje, J.M.2
  • 32
    • 84922530295 scopus 로고    scopus 로고
    • Genomic encyclopedia of bacteria and archaea: sequencing a myriad of type strains
    • Kyrpides, N. C., Hugenholtz, P., Eisen, J. A., Woyke, T., Göker, M., Parker, C. T., et al. (2014). Genomic encyclopedia of bacteria and archaea: sequencing a myriad of type strains. PLoS Biol. 12:e1001920. doi: 10.1371/journal.pbio.1001920.
    • (2014) PLoS Biol , vol.12
    • Kyrpides, N.C.1    Hugenholtz, P.2    Eisen, J.A.3    Woyke, T.4    Göker, M.5    Parker, C.T.6
  • 34
    • 45849154166 scopus 로고    scopus 로고
    • An improved general amino acid replacement matrix
    • Le, S. Q., and Gascuel, O. (2008). An improved general amino acid replacement matrix. Mol. Biol. Evol. 25, 1307-1320. doi: 10.1093/molbev/msn067.
    • (2008) Mol. Biol. Evol , vol.25 , pp. 1307-1320
    • Le, S.Q.1    Gascuel, O.2
  • 35
    • 37549026511 scopus 로고    scopus 로고
    • Dasania marina gen. nov., sp. nov., of the order Pseudomonadales, isolated from Arctic marine sediment
    • Lee, Y. K., Hong, S. G., Cho, H. H., Cho, K. H., and Lee, H. K. (2007). Dasania marina gen. nov., sp. nov., of the order Pseudomonadales, isolated from Arctic marine sediment. J. Microbiol. 45, 505-509.
    • (2007) J. Microbiol , vol.45 , pp. 505-509
    • Lee, Y.K.1    Hong, S.G.2    Cho, H.H.3    Cho, K.H.4    Lee, H.K.5
  • 36
    • 1342271382 scopus 로고    scopus 로고
    • From gene trees to organismal phylogeny in prokaryotes: the case of the γ-proteobacteria
    • Lerat, E., Daubin, V., and Moran, N. A. (2003). From gene trees to organismal phylogeny in prokaryotes: the case of the γ-proteobacteria. PLoS Biol. 1:e19. doi: 10.1371/journal.pbio.0000019.
    • (2003) PLoS Biol , vol.1
    • Lerat, E.1    Daubin, V.2    Moran, N.A.3
  • 37
    • 0141519279 scopus 로고    scopus 로고
    • OrthoMCL: identification of ortholog groups for eukaryotic genomes
    • Li, L., Stoeckert, C. J., and Roos, D. S. (2003). OrthoMCL: identification of ortholog groups for eukaryotic genomes. Genome Res. 13, 2178-2189. doi: 10.1101/gr.1224503.
    • (2003) Genome Res , vol.13 , pp. 2178-2189
    • Li, L.1    Stoeckert, C.J.2    Roos, D.S.3
  • 38
    • 84910095797 scopus 로고    scopus 로고
    • Zhongshania aliphaticivorans sp. nov., an aliphatic hydrocarbon degrading bacterium isolated from marine sediment, and transfer of Spongiibacter borealis Jang et al. 2011 to the genus Zhongshania as Zhongshania borealis comb. nov
    • Lo, N., Kang, H. J., and Jeon, C. O. (2014). Zhongshania aliphaticivorans sp. nov., an aliphatic hydrocarbon degrading bacterium isolated from marine sediment, and transfer of Spongiibacter borealis Jang et al. 2011 to the genus Zhongshania as Zhongshania borealis comb. nov. Int. J. Syst. Evol. Microbiol. 64, 3768-3774. doi: 10.1099/ijs.0.068593-0.
    • (2014) Int. J. Syst. Evol. Microbiol , vol.64 , pp. 3768-3774
    • Lo, N.1    Kang, H.J.2    Jeon, C.O.3
  • 40
    • 33847346802 scopus 로고    scopus 로고
    • Characteristics of nonylphenol polyethoxylate-degrading bacteria isolated from coastal sediments
    • Maeda, T., Hayakawa, K., You, M., Sasaki, M., Yamaji, Y., Furushita, M., et al. (2005). Characteristics of nonylphenol polyethoxylate-degrading bacteria isolated from coastal sediments. Microbes Environ. 20, 253-257. doi: 10.1264/jsme2.20.253.
    • (2005) Microbes Environ , vol.20 , pp. 253-257
    • Maeda, T.1    Hayakawa, K.2    You, M.3    Sasaki, M.4    Yamaji, Y.5    Furushita, M.6
  • 41
    • 69949116874 scopus 로고    scopus 로고
    • IMG ER: a system for microbial genome annotation expert review and curation
    • Markowitz, V. M., Mavromatis, K., Ivanova, N. N., Chen, I.-M., Chu, K., and Kyrpides, N. C. (2009). IMG ER: a system for microbial genome annotation expert review and curation. Bioinformatics 25, 2271-2278. doi: 10.1093/bioinformatics/btp393.
    • (2009) Bioinformatics , vol.25 , pp. 2271-2278
    • Markowitz, V.M.1    Mavromatis, K.2    Ivanova, N.N.3    Chen, I.-M.4    Chu, K.5    Kyrpides, N.C.6
  • 42
    • 84971265000 scopus 로고    scopus 로고
    • Complete genome sequence of DSM 30083T, the type strain (U5/41T) of Escherichia coli, and a proposal for delineating subspecies in microbial taxonomy
    • Meier-Kolthoff, J. P., Hahnke, R. L., Petersen, J., Scheuner, C., Michael, V., Fiebig, A., et al. (2014a). Complete genome sequence of DSM 30083T, the type strain (U5/41T) of Escherichia coli, and a proposal for delineating subspecies in microbial taxonomy. Stand. Genomic Sci. 9:2. doi: 10.1186/1944-3277-9-2.
    • (2014) Stand. Genomic Sci , vol.9 , pp. 2
    • Meier-Kolthoff, J.P.1    Hahnke, R.L.2    Petersen, J.3    Scheuner, C.4    Michael, V.5    Fiebig, A.6
  • 43
    • 84890634795 scopus 로고    scopus 로고
    • Taxonomic use of DNA G+C content and DNA-DNA hybridization in the genomic age
    • Meier-Kolthoff, J. P., Klenk, H. P., and Göker, M. (2014b). Taxonomic use of DNA G+C content and DNA-DNA hybridization in the genomic age. Int. J. Syst. Evol. Microbiol. 64, 352-356. doi: 10.1099/ijs.0.056994-0.
    • (2014) Int. J. Syst. Evol. Microbiol , vol.64 , pp. 352-356
    • Meier-Kolthoff, J.P.1    Klenk, H.P.2    Göker, M.3
  • 45
    • 0030669211 scopus 로고    scopus 로고
    • rpoB sequence analysis as a novel basis for bacterial identification
    • Mollet, C., Drancourt, M., and Raoult, D. (1997). rpoB sequence analysis as a novel basis for bacterial identification. Mol. Microbiol. 26, 1005-1011. doi: 10.1046/j.1365-2958.1997.6382009.x.
    • (1997) Mol. Microbiol , vol.26 , pp. 1005-1011
    • Mollet, C.1    Drancourt, M.2    Raoult, D.3
  • 46
    • 55449109855 scopus 로고    scopus 로고
    • 'Nonmedical: Pseudomonas'
    • eds M. Dworkin, S. Falkow, E. Rosenberg, K.-H. Schleifer, and E. Stackebrandt (New York, NY: Springer New York)
    • Moore, E. R. B., Tindall, B. J., Martins Dos Santos, V. A. P., Pieper, D. H., Ramos, J.-L., and Palleroni, N. J. (2006). "Nonmedical: Pseudomonas," in The Prokaryotes, Vol. 6, eds M. Dworkin, S. Falkow, E. Rosenberg, K.-H. Schleifer, and E. Stackebrandt (New York, NY: Springer New York), 646-703.
    • (2006) The Prokaryotes , vol.6 , pp. 646-703
    • Moore, E.R.B.1    Tindall, B.J.2    Martins Dos Santos, V.A.P.3    Pieper, D.H.4    Ramos, J.-L.5    Palleroni, N.J.6
  • 47
    • 77955516907 scopus 로고    scopus 로고
    • DNA sequence-based analysis of the Pseudomonas species
    • Mulet, M., Lalucat, J., and García-Valdés, E. (2010). DNA sequence-based analysis of the Pseudomonas species. Environ. Microbiol. 12, 1513-1530. doi: 10.1111/j.1462-2920.2010.02181.x.
    • (2010) Environ. Microbiol , vol.12 , pp. 1513-1530
    • Mulet, M.1    Lalucat, J.2    García-Valdés, E.3
  • 48
    • 77956514994 scopus 로고    scopus 로고
    • Genome sequence of the oligotrophic marine gammaproteobacterium HTCC2143, isolated from the Oregon Coast
    • Oh, H.-M., Kang, I., Ferriera, S., Giovannoni, S. J., and Cho, J.-C. (2010a). Genome sequence of the oligotrophic marine gammaproteobacterium HTCC2143, isolated from the Oregon Coast. J. Bacteriol. 192, 4530-4531. doi: 10.1128/JB.00683-10.
    • (2010) J. Bacteriol , vol.192 , pp. 4530-4531
    • Oh, H.-M.1    Kang, I.2    Ferriera, S.3    Giovannoni, S.J.4    Cho, J.-C.5
  • 49
    • 77950617784 scopus 로고    scopus 로고
    • Porticoccus litoralis gen. nov., sp. nov., a gammaproteobacterium isolated from the Yellow Sea
    • Oh, H.-M., Kim, H., Kim, K.-M., Min, G.-S., and Cho, J.-C. (2010b). Porticoccus litoralis gen. nov., sp. nov., a gammaproteobacterium isolated from the Yellow Sea. Int. J. Syst. Evol. Microbiol. 60, 727-732. doi: 10.1099/ijs.0.013938-0.
    • (2010) Int. J. Syst. Evol. Microbiol , vol.60 , pp. 727-732
    • Oh, H.-M.1    Kim, H.2    Kim, K.-M.3    Min, G.-S.4    Cho, J.-C.5
  • 50
    • 0020555213 scopus 로고
    • Grouping of Pseudomonas species on the basis of cellular fatty acid composition and the quinone system with special reference to the existence of 3-hydroxy fatty acids
    • Oyaizu, H., and Komagata, K. (1983). Grouping of Pseudomonas species on the basis of cellular fatty acid composition and the quinone system with special reference to the existence of 3-hydroxy fatty acids. J. Gen. Appl. Microbiol. 29, 17-40. doi: 10.2323/jgam.29.17.
    • (1983) J. Gen. Appl. Microbiol , vol.29 , pp. 17-40
    • Oyaizu, H.1    Komagata, K.2
  • 51
    • 84910038968 scopus 로고    scopus 로고
    • Simiduia curdlanivorans sp. nov., a curdlan-degrading bacterium isolated from the junction between the ocean and a freshwater spring and emended description of the genus Simiduia
    • Park, S., Kim, S.-I., Jung, Y.-T., and Yoon, J.-H. (2014). Simiduia curdlanivorans sp. nov., a curdlan-degrading bacterium isolated from the junction between the ocean and a freshwater spring and emended description of the genus Simiduia. Int. J. Syst. Evol. Microbiol. 64, 3695-3700. doi: 10.1099/ijs.0.065334-0.
    • (2014) Int. J. Syst. Evol. Microbiol , vol.64 , pp. 3695-3700
    • Park, S.1    Kim, S.-I.2    Jung, Y.-T.3    Yoon, J.-H.4
  • 52
    • 84864697570 scopus 로고    scopus 로고
    • Halioglobus japonicus gen. nov., sp. nov. and Halioglobus pacificus sp. nov., members of the class Gammaproteobacteria isolated from seawater
    • Park, S., Yoshizawa, S., Inomata, K., Kogure, K., and Yokota, A. (2012). Halioglobus japonicus gen. nov., sp. nov. and Halioglobus pacificus sp. nov., members of the class Gammaproteobacteria isolated from seawater. Int. J. Syst. Evol. Microbiol. 62, 1784-1789. doi: 10.1099/ijs.0.031443-0.
    • (2012) Int. J. Syst. Evol. Microbiol , vol.62 , pp. 1784-1789
    • Park, S.1    Yoshizawa, S.2    Inomata, K.3    Kogure, K.4    Yokota, A.5
  • 53
    • 84891817929 scopus 로고    scopus 로고
    • LPSN-list of prokaryotic names with standing in nomenclature
    • Parte, A. C. (2014). LPSN-list of prokaryotic names with standing in nomenclature. Nucleic Acids Res. 42, D613-D616. doi: 10.1093/nar/gkt1111.
    • (2014) Nucleic Acids Res , vol.42 , pp. D613-D616
    • Parte, A.C.1
  • 54
    • 0242354974 scopus 로고    scopus 로고
    • Horizontal gene transfer and phylogenetics
    • Philippe, H., and Douady, C. J. (2003). Horizontal gene transfer and phylogenetics. Curr. Opin. Microbiol. 6, 498-505. doi: 10.1016/j.mib.2003.09.008.
    • (2003) Curr. Opin. Microbiol , vol.6 , pp. 498-505
    • Philippe, H.1    Douady, C.J.2
  • 56
    • 33751234806 scopus 로고    scopus 로고
    • Patterns and mechanisms of genetic and phenotypic differentiation in marine microbes
    • Polz, M. F., Hunt, D. E., Preheim, S. P., and Weinreich, D. M. (2006). Patterns and mechanisms of genetic and phenotypic differentiation in marine microbes. Philos. Trans. R. Soc. Lond. B Biol. Sci. 361, 2009-2021. doi: 10.1098/rstb.2006.1928.
    • (2006) Philos. Trans. R. Soc. Lond. B Biol. Sci , vol.361 , pp. 2009-2021
    • Polz, M.F.1    Hunt, D.E.2    Preheim, S.P.3    Weinreich, D.M.4
  • 57
    • 84873739311 scopus 로고    scopus 로고
    • The SILVA ribosomal RNA gene database project: improved data processing and web-based tools
    • Quast, C., Pruesse, E., Yilmaz, P., Gerken, J., Schweer, T., Yarza, P., et al. (2013). The SILVA ribosomal RNA gene database project: improved data processing and web-based tools. Nucleic Acids Res. 41, D590-D596. doi: 10.1093/nar/gks1219.
    • (2013) Nucleic Acids Res , vol.41 , pp. D590-D596
    • Quast, C.1    Pruesse, E.2    Yilmaz, P.3    Gerken, J.4    Schweer, T.5    Yarza, P.6
  • 58
    • 77949414323 scopus 로고    scopus 로고
    • Umboniibacter marinipuniceus gen. nov., sp. nov., a marine gammaproteobacterium isolated from the mollusc Umbonium costatum from the Sea of Japan
    • Romanenko, L. A., Tanaka, N., and Frolova, G. M. (2010). Umboniibacter marinipuniceus gen. nov., sp. nov., a marine gammaproteobacterium isolated from the mollusc Umbonium costatum from the Sea of Japan. Int. J. Syst. Evol. Microbiol. 60, 603-609. doi: 10.1099/ijs.0.010728-0.
    • (2010) Int. J. Syst. Evol. Microbiol , vol.60 , pp. 603-609
    • Romanenko, L.A.1    Tanaka, N.2    Frolova, G.M.3
  • 59
    • 17344395665 scopus 로고
    • Comparative sequence analysis and predicted phylogeny of the DNA-dependent RNA polymerase beta subunits of Staphylococcus aureus and other eubacteria
    • Rowland, G. C., Aboshkiwa, M., and Coleman, G. (1993). Comparative sequence analysis and predicted phylogeny of the DNA-dependent RNA polymerase beta subunits of Staphylococcus aureus and other eubacteria. Biochem. Soc. Trans. 21:40S.
    • (1993) Biochem. Soc. Trans , vol.21 , pp. 40S
    • Rowland, G.C.1    Aboshkiwa, M.2    Coleman, G.3
  • 60
    • 84908327730 scopus 로고    scopus 로고
    • Indications for algae-degrading benthic microbial communities in deep-sea sediments along the Antarctic Polar Front
    • Ruff, S. E., Probandt, D., Zinkann, A. C., Iversen, M. H., Klaas, C., Würzberg, L., et al. (2014). Indications for algae-degrading benthic microbial communities in deep-sea sediments along the Antarctic Polar Front. Deep. Res. II Top. Stud. Oceanogr. 108, 6-16. doi: 10.1016/j.dsr2.2014.05.011.
    • (2014) Deep. Res. II Top. Stud. Oceanogr , vol.108 , pp. 6-16
    • Ruff, S.E.1    Probandt, D.2    Zinkann, A.C.3    Iversen, M.H.4    Klaas, C.5    Würzberg, L.6
  • 61
    • 84971201884 scopus 로고    scopus 로고
    • Complete genome sequence of Planctomyces brasiliensis type strain (DSM 5305T), phylogenomic analysis and reclassification of Planctomycetes including the descriptions of Gimesia gen. nov., Planctopirus gen. nov. and Rubinisphaera gen. nov. and emended descriptions of the order Planctomycetales and the family Planctomycetaceae
    • Scheuner, C., Tindall, B. J., Lu, M., Nolan, M., Lapidus, A., Cheng, J., et al. (2014). Complete genome sequence of Planctomyces brasiliensis type strain (DSM 5305T), phylogenomic analysis and reclassification of Planctomycetes including the descriptions of Gimesia gen. nov., Planctopirus gen. nov. and Rubinisphaera gen. nov. and emended descriptions of the order Planctomycetales and the family Planctomycetaceae. Stand. Genomic Sci. 9:10. doi: 10.1186/1944-3277-9-10.
    • (2014) Stand. Genomic Sci , vol.9 , pp. 10
    • Scheuner, C.1    Tindall, B.J.2    Lu, M.3    Nolan, M.4    Lapidus, A.5    Cheng, J.6
  • 62
    • 84930957518 scopus 로고    scopus 로고
    • Function and evolution of the Sox multienzyme complex in the marine gammaproteobacterium Congregibacter litoralis
    • Spring, S. (2014). Function and evolution of the Sox multienzyme complex in the marine gammaproteobacterium Congregibacter litoralis. ISRN Microbiol. 2014:597418. doi: 10.1155/2014/597418.
    • (2014) ISRN Microbiol , vol.2014
    • Spring, S.1
  • 63
    • 84930957519 scopus 로고    scopus 로고
    • Genome sequence of gammaproteobacterial Pseudohaliea rubra type strain DSM 19751, isolated from coastal seawater of the Mediterranean Sea
    • Spring, S., Fiebig, A., Riedel, T., Göker, M., and Klenk, H.-P. (2014). Genome sequence of gammaproteobacterial Pseudohaliea rubra type strain DSM 19751, isolated from coastal seawater of the Mediterranean Sea. Genome Announc. 2:e01208-14. doi: 10.1128/genomeA.01208-14.
    • (2014) Genome Announc , vol.2
    • Spring, S.1    Fiebig, A.2    Riedel, T.3    Göker, M.4    Klenk, H.-P.5
  • 64
    • 62849125044 scopus 로고    scopus 로고
    • The photosynthetic apparatus and its regulation in the aerobic gammaproteobacterium Congregibacter litoralis gen. nov., sp. nov
    • Spring, S., Lünsdorf, H., Fuchs, B. M., and Tindall, B. J. (2009). The photosynthetic apparatus and its regulation in the aerobic gammaproteobacterium Congregibacter litoralis gen. nov., sp. nov. PLoS ONE 4:e4866. doi: 10.1371/journal.pone.0004866.
    • (2009) PLoS ONE , vol.4
    • Spring, S.1    Lünsdorf, H.2    Fuchs, B.M.3    Tindall, B.J.4
  • 65
    • 84878010207 scopus 로고    scopus 로고
    • Mixotrophic growth of bacteriochlorophyll a-containing members of the OM60/NOR5 clade of marine gammaproteobacteria is carbon-starvation independent and correlates with the type of carbon source and oxygen availability
    • Spring, S., and Riedel, T. (2013). Mixotrophic growth of bacteriochlorophyll a-containing members of the OM60/NOR5 clade of marine gammaproteobacteria is carbon-starvation independent and correlates with the type of carbon source and oxygen availability. BMC Microbiol. 13:117. doi: 10.1186/1471-2180-13-117.
    • (2013) BMC Microbiol , vol.13 , pp. 117
    • Spring, S.1    Riedel, T.2
  • 66
    • 84878006287 scopus 로고    scopus 로고
    • Taxonomy and evolution of bacteriochlorophyll a-containing members of the OM60/NOR5 clade of marine gammaproteobacteria: description of Luminiphilus syltensis gen. nov., sp. nov., reclassification of Haliea rubra as Pseudohaliea rubra gen. nov., comb. nov., and emendation of Chromatocurvus halotolerans
    • Spring, S., Riedel, T., Spröer, C., Yan, S., Harder, J., and Fuchs, B. M. (2013). Taxonomy and evolution of bacteriochlorophyll a-containing members of the OM60/NOR5 clade of marine gammaproteobacteria: description of Luminiphilus syltensis gen. nov., sp. nov., reclassification of Haliea rubra as Pseudohaliea rubra gen. nov., comb. nov., and emendation of Chromatocurvus halotolerans. BMC Microbiol. 13:118. doi: 10.1186/1471-2180-13-118.
    • (2013) BMC Microbiol , vol.13 , pp. 118
    • Spring, S.1    Riedel, T.2    Spröer, C.3    Yan, S.4    Harder, J.5    Fuchs, B.M.6
  • 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
    • Spring, S., Scheuner, C., Lapidus, A., Lucas, S., Glavina Del Rio, T., Tice, H., et al. (2010). The genome sequence of Methanohalophilus mahii SLPT reveals differences in the energy metabolism among members of the Methanosarcinaceae inhabiting freshwater and saline environments. Archaea 2010:690737. doi: 10.1155/2010/690737.
    • (2010) Archaea , vol.2010
    • Spring, S.1    Scheuner, C.2    Lapidus, A.3    Lucas, S.4    Glavina Del Rio, T.5    Tice, H.6
  • 68
    • 33750403801 scopus 로고    scopus 로고
    • RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models
    • Stamatakis, A. (2006). RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics 22, 2688-2690. doi: 10.1093/bioinformatics/btl446.
    • (2006) Bioinformatics , vol.22 , pp. 2688-2690
    • Stamatakis, A.1
  • 69
    • 34247488726 scopus 로고    scopus 로고
    • The SAR92 clade: an abundant coastal clade of culturable marine bacteria possessing proteorhodopsin
    • Stingl, U., Desiderio, R. A., Cho, J.-C., Vergin, K. L., and Giovannoni, S. J. (2007). The SAR92 clade: an abundant coastal clade of culturable marine bacteria possessing proteorhodopsin. Appl. Environ. Microbiol. 73, 2290-2296. doi: 10.1128/AEM.02559-06.
    • (2007) Appl. Environ. Microbiol , vol.73 , pp. 2290-2296
    • Stingl, U.1    Desiderio, R.A.2    Cho, J.-C.3    Vergin, K.L.4    Giovannoni, S.J.5
  • 70
    • 84878823664 scopus 로고    scopus 로고
    • Sinobacterium caligoides gen. nov., sp. nov., a new member of the family Oceanospirillaceae isolated from the South China Sea, and emended description of Amphritea japonica
    • Su, J., Zhou, Y., Lai, Q., Li, X., Dong, P., Yang, X., et al. (2013). Sinobacterium caligoides gen. nov., sp. nov., a new member of the family Oceanospirillaceae isolated from the South China Sea, and emended description of Amphritea japonica. Int. J. Syst. Evol. Microbiol. 63, 2095-2100. doi: 10.1099/ijs.0.030965-0.
    • (2013) Int. J. Syst. Evol. Microbiol , vol.63 , pp. 2095-2100
    • Su, J.1    Zhou, Y.2    Lai, Q.3    Li, X.4    Dong, P.5    Yang, X.6
  • 71
    • 84893485915 scopus 로고    scopus 로고
    • Cellvibrio diazotrophicus sp. nov., a nitrogen-fixing bacteria isolated from the rhizosphere of salt meadow plants and emended description of the genus Cellvibrio
    • Suarez, C., Ratering, S., Kramer, I., and Schnell, S. (2014). Cellvibrio diazotrophicus sp. nov., a nitrogen-fixing bacteria isolated from the rhizosphere of salt meadow plants and emended description of the genus Cellvibrio. Int. J. Syst. Evol. Microbiol. 64, 481-486. doi: 10.1099/ijs.0.054817-0.
    • (2014) Int. J. Syst. Evol. Microbiol , vol.64 , pp. 481-486
    • Suarez, C.1    Ratering, S.2    Kramer, I.3    Schnell, S.4
  • 73
    • 34547489084 scopus 로고    scopus 로고
    • Improvement of phylogenies after removing divergent and ambiguously aligned blocks from protein sequence alignments
    • Talavera, G., and Castresana, J. (2007). Improvement of phylogenies after removing divergent and ambiguously aligned blocks from protein sequence alignments. Syst. Biol. 56, 564-577. doi: 10.1080/10635150701472164.
    • (2007) Syst. Biol , vol.56 , pp. 564-577
    • Talavera, G.1    Castresana, J.2
  • 74
    • 0036205605 scopus 로고    scopus 로고
    • Microbial diversity of hydrothermal sediments in the Guaymas Basin: evidence for anaerobic methanotrophic communities
    • Teske, A., Hinrichs, K.-U., Edgcomb, V., de Vera Gomez, A., Kysela, D., Sylva, S. P., et al. (2002). Microbial diversity of hydrothermal sediments in the Guaymas Basin: evidence for anaerobic methanotrophic communities. Appl. Environ. Microbiol. 68, 1994-2007. doi: 10.1128/AEM.68.4.1994-2007.2002.
    • (2002) Appl. Environ. Microbiol , vol.68 , pp. 1994-2007
    • Teske, A.1    Hinrichs, K.-U.2    Edgcomb, V.3    de Vera Gomez, A.4    Kysela, D.5    Sylva, S.P.6
  • 75
    • 0038391401 scopus 로고    scopus 로고
    • RASCAL: rapid scanning and correction of multiple sequence alignments
    • Thompson, J. D., Thierry, J. C., and Poch, O. (2003). RASCAL: rapid scanning and correction of multiple sequence alignments. Bioinformatics 19, 1155-1161. doi: 10.1093/bioinformatics/btg133.
    • (2003) Bioinformatics , vol.19 , pp. 1155-1161
    • Thompson, J.D.1    Thierry, J.C.2    Poch, O.3
  • 76
    • 79960181818 scopus 로고    scopus 로고
    • Eionea nigra gen. nov., sp. nov., a gammaproteobacterium from the Mediterranean Sea
    • Urios, L., Intertaglia, L., Lesongeur, F., and Lebaron, P. (2011). Eionea nigra gen. nov., sp. nov., a gammaproteobacterium from the Mediterranean Sea. Int. J. Syst. Evol. Microbiol. 61, 1677-1681. doi: 10.1099/ijs.0.023952-0.
    • (2011) Int. J. Syst. Evol. Microbiol , vol.61 , pp. 1677-1681
    • Urios, L.1    Intertaglia, L.2    Lesongeur, F.3    Lebaron, P.4
  • 77
    • 84879811676 scopus 로고    scopus 로고
    • Microbulbifer mangrovi sp. nov., a polysaccharide-degrading bacterium isolated from an Indian mangrove
    • Vashist, P., Nogi, Y., Ghadi, S. C., Verma, P., and Shouche, Y. S. (2013). Microbulbifer mangrovi sp. nov., a polysaccharide-degrading bacterium isolated from an Indian mangrove. Int. J. Syst. Evol. Microbiol. 63, 2532-2537. doi: 10.1099/ijs.0.042978-0.
    • (2013) Int. J. Syst. Evol. Microbiol , vol.63 , pp. 2532-2537
    • Vashist, P.1    Nogi, Y.2    Ghadi, S.C.3    Verma, P.4    Shouche, Y.S.5
  • 79
    • 72949101201 scopus 로고    scopus 로고
    • A phylogeny-driven genomic encyclopaedia of Bacteria and Archaea
    • Wu, D., Hugenholtz, P., Mavromatis, K., Pukall, R., Dalin, E., Ivanova, N. N., et al. (2009). A phylogeny-driven genomic encyclopaedia of Bacteria and Archaea. Nature 462, 1056-1060. doi: 10.1038/nature08656.
    • (2009) Nature , vol.462 , pp. 1056-1060
    • Wu, D.1    Hugenholtz, P.2    Mavromatis, K.3    Pukall, R.4    Dalin, E.5    Ivanova, N.N.6
  • 80
    • 55649110049 scopus 로고    scopus 로고
    • A simple, fast, and accurate method of phylogenomic inference
    • Wu, M., and Eisen, J. A. (2008). A simple, fast, and accurate method of phylogenomic inference. Genome Biol. 9:R151. doi: 10.1186/gb-2008-9-10-r151.
    • (2008) Genome Biol , vol.9 , pp. R151
    • Wu, M.1    Eisen, J.A.2
  • 81
    • 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., and Harayama, S. (1998). Phylogenetic relationships of Pseudomonas putida strains deduced from the nucleotide sequences of gyrB, rpoD and 16S rRNA genes. Int. J. Syst. Bacteriol. 48, 813-819. doi: 10.1099/00207713-48-3-813.
    • (1998) Int. J. Syst. Bacteriol , vol.48 , pp. 813-819
    • Yamamoto, S.1    Harayama, S.2
  • 82
    • 59649106985 scopus 로고    scopus 로고
    • Biogeography and phylogeny of the NOR5/OM60 clade of Gammaproteobacteria
    • Yan, S., Fuchs, B. M., Lenk, S., Harder, J., Wulf, J., Jiao, N.-Z., et al. (2009). Biogeography and phylogeny of the NOR5/OM60 clade of Gammaproteobacteria. Syst. Appl. Microbiol. 32, 124-139. doi: 10.1016/j.syapm.2008.12.001.
    • (2009) Syst. Appl. Microbiol , vol.32 , pp. 124-139
    • Yan, S.1    Fuchs, B.M.2    Lenk, S.3    Harder, J.4    Wulf, J.5    Jiao, N.-Z.6
  • 83
    • 52149085893 scopus 로고    scopus 로고
    • The all-species living tree project: a 16S rRNA-based phylogenetic tree of all sequenced type strains
    • Yarza, P., Richter, M., Peplies, J., Euzeby, J., Amann, R., Schleifer, K.-H., et al. (2008). The all-species living tree project: a 16S rRNA-based phylogenetic tree of all sequenced type strains. Syst. Appl. Microbiol. 31, 241-250. doi: 10.1016/j.syapm.2008.07.001.
    • (2008) Syst. Appl. Microbiol , vol.31 , pp. 241-250
    • Yarza, P.1    Richter, M.2    Peplies, J.3    Euzeby, J.4    Amann, R.5    Schleifer, K.-H.6
  • 84
    • 84906272014 scopus 로고    scopus 로고
    • Uniting the classification of cultured and uncultured bacteria and archaea using 16S rRNA gene sequences
    • Yarza, P., Yilmaz, P., Pruesse, E., Glöckner, F. O., Ludwig, W., Schleifer, K.-H., et al. (2014). Uniting the classification of cultured and uncultured bacteria and archaea using 16S rRNA gene sequences. Nat. Rev. Microbiol. 12, 635-645. doi: 10.1038/nrmicro3330.
    • (2014) Nat. Rev. Microbiol , vol.12 , pp. 635-645
    • Yarza, P.1    Yilmaz, P.2    Pruesse, E.3    Glöckner, F.O.4    Ludwig, W.5    Schleifer, K.-H.6
  • 85
    • 70350508188 scopus 로고    scopus 로고
    • Marinimicrobium locisalis sp. nov., isolated from a marine solar saltern, and emended description of the genus Marinimicrobium
    • Yoon, J.-H., Kang, S.-J., Jung, Y.-T., and Oh, T.-K. (2009). Marinimicrobium locisalis sp. nov., isolated from a marine solar saltern, and emended description of the genus Marinimicrobium. Int. J. Syst. Evol. Microbiol. 59, 2260-2263. doi: 10.1099/ijs.0.008458-0.
    • (2009) Int. J. Syst. Evol. Microbiol , vol.59 , pp. 2260-2263
    • Yoon, J.-H.1    Kang, S.-J.2    Jung, Y.-T.3    Oh, T.-K.4
  • 86
    • 78149272458 scopus 로고    scopus 로고
    • Genomic and functional adaptation in surface ocean planktonic prokaryotes
    • Yooseph, S., Nealson, K. H., Rusch, D. B., McCrow, J. P., Dupont, C. L., Kim, M., et al. (2010). Genomic and functional adaptation in surface ocean planktonic prokaryotes. Nature 468, 60-66. doi: 10.1038/nature09530.
    • (2010) Nature , vol.468 , pp. 60-66
    • Yooseph, S.1    Nealson, K.H.2    Rusch, D.B.3    McCrow, J.P.4    Dupont, C.L.5    Kim, M.6
  • 87
    • 84863294129 scopus 로고    scopus 로고
    • Microbulbifer marinus sp. nov. and Microbulbifer yueqingensis sp. nov., isolated from marine sediment
    • Zhang, D.-S., Huo, Y.-Y., Xu, X.-W., Wu, Y.-H., Wang, C.-S., Xu, X.-F., et al. (2012). Microbulbifer marinus sp. nov. and Microbulbifer yueqingensis sp. nov., isolated from marine sediment. Int. J. Syst. Evol. Microbiol. 62, 505-510. doi: 10.1099/ijs.0.027714-0.
    • (2012) Int. J. Syst. Evol. Microbiol , vol.62 , pp. 505-510
    • Zhang, D.-S.1    Huo, Y.-Y.2    Xu, X.-W.3    Wu, Y.-H.4    Wang, C.-S.5    Xu, X.-F.6


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