메뉴 건너뛰기




Volumn 77, Issue 7, 2011, Pages 2513-2521

Quantitative metagenomic analyses based on average genome size normalization

Author keywords

[No Author keywords available]

Indexed keywords

COMMUNITY ANALYSIS; COMMUNITY STRUCTURES; GENE CONTENT; GENOME SIZES; GENOMICS; MARINE SOURCES; METABOLIC CAPABILITIES; METAGENOMES; METAGENOMIC ANALYSIS; METAGENOMICS; MICROBIAL COMMUNITIES; QUANTITATIVE CHARACTERIZATION; QUANTITATIVE METHOD; RELATIVE ABUNDANCE; RRNA GENES;

EID: 79953276286     PISSN: 00992240     EISSN: 10985336     Source Type: Journal    
DOI: 10.1128/AEM.02167-10     Document Type: Article
Times cited : (28)

References (41)
  • 2
    • 74549198200 scopus 로고    scopus 로고
    • The GAAS metagenomic tool and its estimations of viral and microbial average genome size in four major biomes
    • Angly, F. E., et al. 2009. The GAAS metagenomic tool and its estimations of viral and microbial average genome size in four major biomes. PLoS Comput. Biol. 5:e1000593.
    • (2009) PLoS Comput. Biol. , vol.5
    • Angly, F.E.1
  • 3
    • 0027303801 scopus 로고
    • Enzymes of the reductive citric acid cycle in the autotrophic eubacterium Aquifex pyrophilus and the archaebacterium Thermoproteus neutrophilus
    • Beh, M., G. Strauss, R. Huber, K. O. Stetter, and G. Fuchs. 1993. Enzymes of the reductive citric acid cycle in the autotrophic eubacterium Aquifex pyrophilus and the archaebacterium Thermoproteus neutrophilus. Arch. Microbiol. 160:306-311.
    • (1993) Arch. Microbiol. , vol.160 , pp. 306-311
    • Beh, M.1    Strauss, G.2    Huber, R.3    Stetter, K.O.4    Fuchs, G.5
  • 5
    • 77954834592 scopus 로고    scopus 로고
    • Average genome size: a potential source of bias in comparative metagenomics
    • Beszteri, B., B. Temperton, S. Frickenhaus, and S. J. Giovannoni. 2010. Average genome size: a potential source of bias in comparative metagenomics. ISME J. 4:1075-1077.
    • (2010) ISME J , vol.4 , pp. 1075-1077
    • Beszteri, B.1    Temperton, B.2    Frickenhaus, S.3    Giovannoni, S.J.4
  • 6
    • 0017079720 scopus 로고
    • Ribulose 1,5-diphosphate carboxylase and Chlorobium thiosulfatophilum
    • Buchanan, B. B., and R. Sirevåg. 1976. Ribulose 1,5-diphosphate carboxylase and Chlorobium thiosulfatophilum. Arch. Microbiol. 109:15-19.
    • (1976) Arch. Microbiol. , vol.109 , pp. 15-19
    • Buchanan, B.B.1    Sirevåg, R.2
  • 7
    • 33846131262 scopus 로고    scopus 로고
    • Use of 16S rRNA and rpoB genes as molecular markers for microbial ecology studies
    • Case, R. J., et al. 2007. Use of 16S rRNA and rpoB genes as molecular markers for microbial ecology studies. Appl. Environ. Microbiol. 73:278-288.
    • (2007) Appl. Environ. Microbiol. , vol.73 , pp. 278-288
    • Case, R.J.1
  • 8
    • 79953285537 scopus 로고    scopus 로고
    • Reference deleted
    • Reference deleted.
  • 9
    • 0023182977 scopus 로고
    • Enzymes and genes of microbial autotrophy
    • Codd, G. A., and D. Vakeria. 1987. Enzymes and genes of microbial autotrophy. Microbiol. Sci. 4:154-159.
    • (1987) Microbiol. Sci. , vol.4 , pp. 154-159
    • Codd, G.A.1    Vakeria, D.2
  • 10
    • 0037251969 scopus 로고    scopus 로고
    • The Ribosomal Database Project (RDP-II): previewing a new autoaligner that allows regular updates and the new prokaryotic taxonomy
    • Cole, J. R., et al. 2003. The Ribosomal Database Project (RDP-II): previewing a new autoaligner that allows regular updates and the new prokaryotic taxonomy. Nucleic Acids Res. 31:442-443.
    • (2003) Nucleic Acids Res , vol.31 , pp. 442-443
    • Cole, J.R.1
  • 11
    • 0041386044 scopus 로고    scopus 로고
    • Genome sequence of the cyanobacterium Prochlorococcus marinus SS120, a nearly minimal oxyphototrophic genome
    • Dufresne, A., et al. 2003. Genome sequence of the cyanobacterium Prochlorococcus marinus SS120, a nearly minimal oxyphototrophic genome. Proc. Natl. Acad. Sci. U. S. A. 100:10020-10025.
    • (2003) Proc. Natl. Acad. Sci. U. S. A. , vol.100 , pp. 10020-10025
    • Dufresne, A.1
  • 12
    • 0037047102 scopus 로고    scopus 로고
    • The complete genome sequence of Chlorobium tepidum TLS, a photosynthetic, anaerobic, green-sulfur bacterium
    • Eisen, J. A., et al. 2002. The complete genome sequence of Chlorobium tepidum TLS, a photosynthetic, anaerobic, green-sulfur bacterium. Proc. Natl. Acad. Sci. U. S. A. 99:9509-9514.
    • (2002) Proc. Natl. Acad. Sci. U. S. A. , vol.99 , pp. 9509-9514
    • Eisen, J.A.1
  • 13
    • 4544272017 scopus 로고    scopus 로고
    • Modified pathway to synthesize ribulose 1,5-bisphosphate in methanogenic Archaea
    • Finn, M. W., and F. R. Tabita. 2004. Modified pathway to synthesize ribulose 1,5-bisphosphate in methanogenic Archaea. J. Bacteriol. 186:6360-6366.
    • (2004) J. Bacteriol. , vol.186 , pp. 6360-6366
    • Finn, M.W.1    Tabita, F.R.2
  • 15
    • 42349100152 scopus 로고    scopus 로고
    • Critical evaluation of two primers commonly used for amplification of bacterial 16S rRNA genes
    • Frank, J. A., et al. 2008. Critical evaluation of two primers commonly used for amplification of bacterial 16S rRNA genes. Appl. Environ. Microbiol. 74:2461-2470.
    • (2008) Appl. Environ. Microbiol. , vol.74 , pp. 2461-2470
    • Frank, J.A.1
  • 16
    • 32844465575 scopus 로고    scopus 로고
    • Proteorhodopsin lateral gene transfer between marine planktonic Bacteria and Archaea
    • Frigaard, N. U., A. Martinez, T. J. Mincer, and E. F. DeLong. 2006. Proteorhodopsin lateral gene transfer between marine planktonic Bacteria and Archaea. Nature 439:847-850.
    • (2006) Nature , vol.439 , pp. 847-850
    • Frigaard, N.U.1    Martinez, A.2    Mincer, T.J.3    DeLong, E.F.4
  • 17
    • 0032967969 scopus 로고    scopus 로고
    • Oxygen uncouples light absorption by the chlorosome antenna and photosynthetic electron transfer in the green sulfur bacterium Chlorobium tepidum
    • Frigaard, N. U., and K. Masuura. 1999. Oxygen uncouples light absorption by the chlorosome antenna and photosynthetic electron transfer in the green sulfur bacterium Chlorobium tepidum. Biochim. Biophys. Acta 1412:108-117.
    • (1999) Biochim. Biophys. Acta , vol.1412 , pp. 108-117
    • Frigaard, N.U.1    Masuura, K.2
  • 18
    • 0033150071 scopus 로고    scopus 로고
    • The meromictic lakes and stratified marine basins of the Vestfold Hills East Antarctica
    • Gibson, J. A. E. 1999. The meromictic lakes and stratified marine basins of the Vestfold Hills, East Antarctica. Antarctic Sci. 11:175-192.
    • (1999) Antarctic Sci. , vol.11 , pp. 175-192
    • Gibson, J.A.E.1
  • 19
    • 27744438187 scopus 로고    scopus 로고
    • Proteorhodopsin in the ubiquitous marine bacterium SAR11
    • Giovannoni, S. J., et al. 2005. Proteorhodopsin in the ubiquitous marine bacterium SAR11. Nature 438:82-85.
    • (2005) Nature , vol.438 , pp. 82-85
    • Giovannoni, S.J.1
  • 20
    • 0024287365 scopus 로고
    • A functional five-enzyme complex of chloroplasts involved in the Calvin cycle
    • Gontero, B., M. L. Cárdenas, and J. Ricard. 1988. A functional five-enzyme complex of chloroplasts involved in the Calvin cycle. Eur. J. Biochem. 173: 437-443.
    • (1988) Eur. J. Biochem. , vol.173 , pp. 437-443
    • Gontero, B.1    Cárdenas, M.L.2    Ricard, J.3
  • 21
    • 0032192790 scopus 로고    scopus 로고
    • Molecular biological access to the chemistry of unknown soil microbes: a new frontier for natural products
    • Handelsman, J., M. R. Rondon, S. F. Brady, J. Clardy, and R. M. Goodman. 1998. Molecular biological access to the chemistry of unknown soil microbes: a new frontier for natural products. Chem. Biol. 5:R245-R249.
    • (1998) Chem. Biol. , vol.5
    • Handelsman, J.1    Rondon, M.R.2    Brady, S.F.3    Clardy, J.4    Goodman, R.M.5
  • 22
    • 0034836201 scopus 로고    scopus 로고
    • ATP-citrate lyase from the green sulfur bacterium Chlorobium limicola is a heteromeric enzyme composed of two distinct gene products
    • Kanao, T., T. Fukui, H. Atomi, and T. Imanaka. 2001. ATP-citrate lyase from the green sulfur bacterium Chlorobium limicola is a heteromeric enzyme composed of two distinct gene products. Eur. J. Biochem. 268:1670-1678.
    • (2001) Eur. J. Biochem. , vol.268 , pp. 1670-1678
    • Kanao, T.1    Fukui, T.2    Atomi, H.3    Imanaka, T.4
  • 23
    • 0034074410 scopus 로고    scopus 로고
    • rRNA operon copy number reflects ecological strategies of bacteria
    • Klappenbach, J. A., J. M. Dunbar, and T. M. Schmidt. 2000. rRNA operon copy number reflects ecological strategies of bacteria. Appl. Environ. Microbiol. 66:1328-1333.
    • (2000) Appl. Environ. Microbiol. , vol.66 , pp. 1328-1333
    • Klappenbach, J.A.1    Dunbar, J.M.2    Schmidt, T.M.3
  • 24
    • 0027283509 scopus 로고
    • The Ribosomal Database Project
    • Larsen, N., et al. 1993. The Ribosomal Database Project. Nucleic Acids Res. 21:3021-3023.
    • (1993) Nucleic Acids Res , vol.21 , pp. 3021-3023
    • Larsen, N.1
  • 25
    • 70350200851 scopus 로고    scopus 로고
    • Multiple antioxidant proteins protect Chlorobaculum tepidum against oxygen and reactive oxygen species
    • Li, H., S. Jubelirer, A. M. Garcia Costas, N. U. Frigaard, and D. A. Bryant. 2009. Multiple antioxidant proteins protect Chlorobaculum tepidum against oxygen and reactive oxygen species. Arch. Microbiol. 191:853-867.
    • (2009) Arch. Microbiol. , vol.191 , pp. 853-867
    • Li, H.1    Jubelirer, S.2    Garcia Costas, A.M.3    Frigaard, N.U.4    Bryant, D.A.5
  • 26
    • 34548725601 scopus 로고    scopus 로고
    • Resourceful heterotrophs make the most of light in the coastal ocean
    • Moran, M. A., and W. L. Miller. 2007. Resourceful heterotrophs make the most of light in the coastal ocean. Nat. Rev. Microbiol. 5:792-800.
    • (2007) Nat. Rev. Microbiol. , vol.5 , pp. 792-800
    • Moran, M.A.1    Miller, W.L.2
  • 27
    • 38949113807 scopus 로고    scopus 로고
    • Bacterial carbon processing by generalist species in the coastal ocean
    • Mou, X., S. Sun, R. A. Edwards, R. E. Hodson, and M. A. Moran. 2008. Bacterial carbon processing by generalist species in the coastal ocean. Nature 451:708-711.
    • (2008) Nature , vol.451 , pp. 708-711
    • Mou, X.1    Sun, S.2    Edwards, R.A.3    Hodson, R.E.4    Moran, M.A.5
  • 28
    • 34547636898 scopus 로고    scopus 로고
    • New roads lead to Rubisco in Archaebacteria
    • Mueller-Cajar, O., and M. R. Badger. 2007. New roads lead to Rubisco in Archaebacteria. BioEssays 29:722-724.
    • (2007) BioEssays , vol.29 , pp. 722-724
    • Mueller-Cajar, O.1    Badger, M.R.2
  • 29
    • 25644458211 scopus 로고    scopus 로고
    • The subsystems approach to genome annotation and its use in the project to annotate 1000 genomes
    • Overbeek, R., et al. 2005. The subsystems approach to genome annotation and its use in the project to annotate 1000 genomes. Nucleic Acids Res. 33:5691-5702.
    • (2005) Nucleic Acids Res , vol.33 , pp. 5691-5702
    • Overbeek, R.1
  • 31
    • 0000657055 scopus 로고
    • Carbon assimilation pathways in sulfate-reducing bacteria II. Enzymes of a reductive citric acid cycle in the autotrophic Desulfobacter hydrogenophilus
    • Schauder, R., F. Widdel, and G. Fuchs. 1987. Carbon assimilation pathways in sulfate-reducing bacteria II. Enzymes of a reductive citric acid cycle in the autotrophic Desulfobacter hydrogenophilus. Arch. Microbiol. 148:218-225.
    • (1987) Arch. Microbiol. , vol.148 , pp. 218-225
    • Schauder, R.1    Widdel, F.2    Fuchs, G.3
  • 32
    • 0023447129 scopus 로고
    • Pathway of acetate assimilation in autotrophic and heterotrophic methanococci
    • Shieh, J. S., and W. B. Whitman. 1987. Pathway of acetate assimilation in autotrophic and heterotrophic methanococci. J. Bacteriol. 169:5327-5329.
    • (1987) J. Bacteriol. , vol.169 , pp. 5327-5329
    • Shieh, J.S.1    Whitman, W.B.2
  • 33
    • 0014869477 scopus 로고
    • Carbon dioxide fixation in green sulphur bacteria
    • Sirevåg, R., and J. G. Ormerod. 1970. Carbon dioxide fixation in green sulphur bacteria. Biochem. J. 120:399-408.
    • (1970) Biochem. J. , vol.120 , pp. 399-408
    • Sirevåg, R.1    Ormerod, J.G.2
  • 34
    • 8744259789 scopus 로고    scopus 로고
    • Life history implications of rRNA gene copy number in Escherichia coli
    • Stevenson, B. S., and T. M. Schmidt. 2004. Life history implications of rRNA gene copy number in Escherichia coli. Appl. Environ. Microbiol. 70:6670-6677.
    • (2004) Appl. Environ. Microbiol. , vol.70 , pp. 6670-6677
    • Stevenson, B.S.1    Schmidt, T.M.2
  • 35
    • 11144354360 scopus 로고    scopus 로고
    • Environmental genome shotgun sequencing of the Sargasso Sea
    • Venter, J. C., et al. 2004. Environmental genome shotgun sequencing of the Sargasso Sea. Science 304:66-74.
    • (2004) Science , vol.304 , pp. 66-74
    • Venter, J.C.1
  • 36
    • 0030802448 scopus 로고    scopus 로고
    • The reductive tricarboxylic acid cycle of carbon dioxide assimilation: initial studies and purification of ATPcitrate lyase from the green sulfur bacterium Chlorobium tepidum
    • Wahlund, T. M., and F. R. Tabita. 1997. The reductive tricarboxylic acid cycle of carbon dioxide assimilation: initial studies and purification of ATPcitrate lyase from the green sulfur bacterium Chlorobium tepidum. J. Bacteriol. 179:4859-4867.
    • (1997) J. Bacteriol. , vol.179 , pp. 4859-4867
    • Wahlund, T.M.1    Tabita, F.R.2
  • 37
    • 35148876440 scopus 로고    scopus 로고
    • Metagenomic analysis of the microbial community associated with the coral Porites asteoides
    • Wegley, L., R. Edwards, B. Brito-Rodriguez, and F. Rohwer. 2007. Metagenomic analysis of the microbial community associated with the coral Porites asteoides. Environ. Microbiol. 9:2707-2719.
    • (2007) Environ. Microbiol. , vol.9 , pp. 2707-2719
    • Wegley, L.1    Edwards, R.2    Brito-Rodriguez, B.3    Rohwer, F.4
  • 38
    • 54449093397 scopus 로고    scopus 로고
    • The genome of Cyanothece 51142, a unicellular diazotrophic cyanobacterium important in the marine nitrogen cycle
    • Welsh, E. A., et al. 2008. The genome of Cyanothece 51142, a unicellular diazotrophic cyanobacterium important in the marine nitrogen cycle. Proc. Natl. Acad. Sci. U. S. A. 105:15094-15099.
    • (2008) Proc. Natl. Acad. Sci. U. S. A. , vol.105 , pp. 15094-15099
    • Welsh, E.A.1
  • 39
    • 33846062023 scopus 로고    scopus 로고
    • Database resources of the National Center for Biotechnology Information
    • Database issue
    • Wheeler, D. L., et al. 2007. Database resources of the National Center for Biotechnology Information. Nucleic Acids Res. 35(Database issue):D5-D12.
    • (2007) Nucleic Acids Res , vol.35
    • Wheeler, D.L.1
  • 40
    • 0033570050 scopus 로고    scopus 로고
    • Rubredoxin from the green sulfur bacterium Chlorobium tepidum functions as an electron acceptor for pyruvate ferredoxin oxidoreductase
    • Yoon, K. S., R. Hille, C. Hemann, and F. R. Tabita. 1999. Rubredoxin from the green sulfur bacterium Chlorobium tepidum functions as an electron acceptor for pyruvate ferredoxin oxidoreductase. J. Biol. Chem. 274:29772-29778.
    • (1999) J. Biol. Chem. , vol.274 , pp. 29772-29778
    • Yoon, K.S.1    Hille, R.2    Hemann, C.3    Tabita, F.R.4
  • 41
    • 38149140067 scopus 로고    scopus 로고
    • Global phylogeography of marine Synechococcus and Prochlorococcus reveals distinct partitioning of lineages among oceanic biomes
    • Zwirglmaier, K., et al. 2008. Global phylogeography of marine Synechococcus and Prochlorococcus reveals distinct partitioning of lineages among oceanic biomes. Environ. Microbiol. 10:147-161.
    • (2008) Environ. Microbiol. , vol.10 , pp. 147-161
    • Zwirglmaier, K.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.