메뉴 건너뛰기




Volumn 108, Issue 31, 2011, Pages 12776-12781

Activity of abundant and rare bacteria in a coastal ocean

Author keywords

Kill the winner; Microbial observatory; qPCR; SAR11; Seed bank

Indexed keywords

RIBOSOME RNA; RNA 16S; SURFACE WATER;

EID: 79961239913     PISSN: 00278424     EISSN: 10916490     Source Type: Journal    
DOI: 10.1073/pnas.1101405108     Document Type: Article
Times cited : (466)

References (39)
  • 2
    • 33744745905 scopus 로고    scopus 로고
    • Marine microbial diversity: Can it be determined?
    • Pedrós-Alió C (2006) Marine microbial diversity: Can it be determined?Trends Microbiol 14:257-263.
    • (2006) Trends Microbiol , vol.14 , pp. 257-263
    • Pedrós-Alió, C.1
  • 3
    • 20444408325 scopus 로고    scopus 로고
    • Biomass production and assimilation of dissolved organic matter by SAR11 bacteria in the Northwest Atlantic Ocean
    • DOI 10.1128/AEM.71.6.2979-2986.2005
    • Malmstrom RR, Cottrell MT, Elifantz H, Kirchman DL (2005) Biomass production and assimilation of dissolved organic matter by SAR11 bacteria in the Northwest Atlantic Ocean. Appl Environ Microbiol 71:2979-2986. (Pubitemid 40807202)
    • (2005) Applied and Environmental Microbiology , vol.71 , Issue.6 , pp. 2979-2986
    • Malmstrom, R.R.1    Cottrell, M.T.2    Elifantz, H.3    Kirchman, D.L.4
  • 4
    • 77950526876 scopus 로고    scopus 로고
    • Dormancy contributes to the maintenance of microbial diversity
    • Jones SE, Lennon JT (2010) Dormancy contributes to the maintenance of microbial diversity. Proc Natl Acad Sci USA 107:5881-5886.
    • (2010) Proc Natl Acad Sci USA , vol.107 , pp. 5881-5886
    • Jones, S.E.1    Lennon, J.T.2
  • 5
    • 0002286398 scopus 로고    scopus 로고
    • Nitrification and the marine nitrogen cycle
    • ed Kirchman DL (Wiley-Liss, New York)
    • Ward BB (2000) Nitrification and the marine nitrogen cycle. Microbial Ecology of the Oceans, ed Kirchman DL (Wiley-Liss, New York), pp 427-453.
    • (2000) Microbial Ecology of the Oceans , pp. 427-453
    • Ward, B.B.1
  • 6
    • 84891296776 scopus 로고    scopus 로고
    • Molecular ecological aspects of nitrogen fixation in the marine environment
    • ed Kirchman DL (Wiley, Hoboken, NJ), 2nd Ed
    • Zehr JP, Paerl HW (2008) Molecular ecological aspects of nitrogen fixation in the marine environment. Microbial Ecology of the Oceans, ed Kirchman DL (Wiley, Hoboken, NJ), 2nd Ed, pp 481-526.
    • (2008) Microbial Ecology of the Oceans , pp. 481-526
    • Zehr, J.P.1    Paerl, H.W.2
  • 7
    • 34248230110 scopus 로고    scopus 로고
    • Actively growing bacteria in the Inland Sea of Japan, identified by combined bromodeoxyuridine immunocapture and denaturing gradient gel electrophoresis
    • DOI 10.1128/AEM.02111-06
    • Hamasaki K, Taniguchi A, Tada Y, Long RA, Azam F (2007) Actively growing bacteria in the inland sea of Japan, identified by combined bromodeoxyuridine immunocapture and denaturing gradient gel electrophoresis. Appl Environ Microbiol 73:2787-2798. (Pubitemid 46718558)
    • (2007) Applied and Environmental Microbiology , vol.73 , Issue.9 , pp. 2787-2798
    • Hamasaki, K.1    Taniguchi, A.2    Tada, Y.3    Long, R.A.4    Azam, F.5
  • 8
    • 0037043731 scopus 로고    scopus 로고
    • Cultivation of the ubiquitous SAR11 marine bacterioplankton clade
    • Rappé MS, Connon SA, Vergin KL, Giovannoni SJ (2002) Cultivation of the ubiquitous SAR11 marine bacterioplankton clade. Nature 418:630-633.
    • (2002) Nature , vol.418 , pp. 630-633
    • Rappé, M.S.1    Connon, S.A.2    Vergin, K.L.3    Giovannoni, S.J.4
  • 10
    • 70350172888 scopus 로고    scopus 로고
    • Temporal changes in bacterial rRNA and rRNA genes in Delaware (USA) coastal waters
    • Campbell BJ, Yu L, Straza TRA, Kirchman DL (2009) Temporal changes in bacterial rRNA and rRNA genes in Delaware (USA) coastal waters. Aquat Microb Ecol 57:123-135.
    • (2009) Aquat Microb Ecol , vol.57 , pp. 123-135
    • Campbell, B.J.1    Yu, L.2    Straza, T.R.A.3    Kirchman, D.L.4
  • 11
    • 61949349707 scopus 로고    scopus 로고
    • Annual patterns of presence and activity of marine bacteria monitored by 16S rDNA-16S rRNA fingerprints in the coastal NW Mediterranean Sea
    • Lami R, Ghiglione JF, Desdevises Y, West NJ, Lebaron P (2009) Annual patterns of presence and activity of marine bacteria monitored by 16S rDNA-16S rRNA fingerprints in the coastal NW Mediterranean Sea. Aquat Microb Ecol 54:199-210.
    • (2009) Aquat Microb Ecol , vol.54 , pp. 199-210
    • Lami, R.1    Ghiglione, J.F.2    Desdevises, Y.3    West, N.J.4    Lebaron, P.5
  • 12
    • 0031734090 scopus 로고    scopus 로고
    • Implications of rRNA operon copy number and ribosome content in the marine oligotrophic ultramicrobacterium Sphingomonas sp. strain RB2256
    • Fegatella F, Lim J, Kjelleberg S, Cavicchioli R (1998) Implications of rRNA operon copy number and ribosome content in the marine oligotrophic ultramicrobacterium Sphingomonas sp. strain RB2256. Appl Environ Microbiol 64:4433-4438. (Pubitemid 28538014)
    • (1998) Applied and Environmental Microbiology , vol.64 , Issue.11 , pp. 4433-4438
    • Fegatella, F.1    Lim, J.2    Kjelleberg, S.3    Cavicchioli, R.4
  • 13
    • 0032855859 scopus 로고    scopus 로고
    • Small ribosomal RNA content in marine Proteobacteria during non-steady-state growth
    • DOI 10.1016/S0168-6496(99)00064-1, PII S0168649699000641
    • Kerkhof L, Kemp P (1999) Small ribosomal RNA content in marine Proteobacteria during non-steady-state growth. FEMS Microbiol Ecol 30:253-260. (Pubitemid 29465749)
    • (1999) FEMS Microbiology Ecology , vol.30 , Issue.3 , pp. 253-260
    • Kerkhof, L.1    Kemp, P.2
  • 14
    • 32644435694 scopus 로고    scopus 로고
    • Degradation of RNA in bacteria: Comparison of mRNA and stable RNA
    • Deutscher MP (2006) Degradation of RNA in bacteria: Comparison of mRNA and stable RNA. Nucleic Acids Res 34:659-666.
    • (2006) Nucleic Acids Res , vol.34 , pp. 659-666
    • Deutscher, M.P.1
  • 15
    • 0027338308 scopus 로고
    • Estimating the growth rate of slowly growing marine bacteria from RNA content
    • Kemp PF, Lee S, Laroche J (1993) Estimating the growth rate of slowly growing marine bacteria from RNA content. Appl Environ Microbiol 59:2594-2601.
    • (1993) Appl Environ Microbiol , vol.59 , pp. 2594-2601
    • Kemp, P.F.1    Lee, S.2    Laroche, J.3
  • 18
    • 79954996511 scopus 로고    scopus 로고
    • Ribosomal tag pyrosequencing of DNA and RNA from benthic coral reef microbiota: Community spatial structure, rare members and nitrogen-cycling guilds
    • Gaidos E, Rusch A, Ilardo M (2011) Ribosomal tag pyrosequencing of DNA and RNA from benthic coral reef microbiota: Community spatial structure, rare members and nitrogen-cycling guilds. Environ Microbiol 13:1138-1152.
    • (2011) Environ Microbiol , vol.13 , pp. 1138-1152
    • Gaidos, E.1    Rusch, A.2    Ilardo, M.3
  • 19
    • 71249091315 scopus 로고    scopus 로고
    • The seasonal structure of microbial communities in the Western English Channel
    • Gilbert JA, et al. (2009) The seasonal structure of microbial communities in the Western English Channel. Environ Microbiol 11:3132-3139.
    • (2009) Environ Microbiol , vol.11 , pp. 3132-3139
    • Gilbert, J.A.1
  • 21
    • 70349472694 scopus 로고    scopus 로고
    • Seasonality and vertical structure of microbial communities in an ocean gyre
    • Treusch AH, et al. (2009) Seasonality and vertical structure of microbial communities in an ocean gyre. ISME J 3:1148-1163.
    • (2009) ISME J , vol.3 , pp. 1148-1163
    • Treusch, A.H.1
  • 22
    • 77749309301 scopus 로고    scopus 로고
    • Trade-offs between competition and defense specialists among unicellular planktonic organisms: The "killing the winner" hypothesis revisited
    • Winter C, Bouvier T, Weinbauer MG, Thingstad TF (2010) Trade-offs between competition and defense specialists among unicellular planktonic organisms: The "killing the winner" hypothesis revisited. Microbiol Mol Biol Rev 74:42-57.
    • (2010) Microbiol Mol Biol Rev , vol.74 , pp. 42-57
    • Winter, C.1    Bouvier, T.2    Weinbauer, M.G.3    Thingstad, T.F.4
  • 23
    • 77953594953 scopus 로고    scopus 로고
    • The structure of bacterial communities in the western Arctic Ocean as revealed by pyrosequencing of 16S rRNA genes
    • Kirchman DL, Cottrell MT, Lovejoy C (2010) The structure of bacterial communities in the western Arctic Ocean as revealed by pyrosequencing of 16S rRNA genes. Environ Microbiol 12:1132-1143.
    • (2010) Environ Microbiol , vol.12 , pp. 1132-1143
    • Kirchman, D.L.1    Cottrell, M.T.2    Lovejoy, C.3
  • 24
    • 79953204638 scopus 로고    scopus 로고
    • Microarray analysis and barcoded pyrosequencing provide consistent microbial profiles depending on the source of human intestinal samples
    • van den Bogert B, de Vos WM, Zoetendal EG, Kleerebezem M (2011) Microarray analysis and barcoded pyrosequencing provide consistent microbial profiles depending on the source of human intestinal samples. Appl Environ Microbiol 77: 2071-2080.
    • (2011) Appl Environ Microbiol , vol.77 , pp. 2071-2080
    • Van Den Bogert, B.1    De Vos, W.M.2    Zoetendal, E.G.3    Kleerebezem, M.4
  • 25
    • 84891283567 scopus 로고    scopus 로고
    • Physiological structure and single-cell activity in marine bacterioplankton
    • ed Kirchman DL (Wiley-Blackwell, Hoboken, NJ)
    • del Giorgio PA, Gasol JM (2008) Physiological structure and single-cell activity in marine bacterioplankton. Microbial Ecology of the Oceans, ed Kirchman DL (Wiley-Blackwell, Hoboken, NJ), pp 243-298.
    • (2008) Microbial Ecology of the Oceans , pp. 243-298
    • Del Giorgio, P.A.1    Gasol, J.M.2
  • 26
    • 70349458100 scopus 로고    scopus 로고
    • The genomic basis of trophic strategy in marine bacteria
    • Lauro FM, et al. (2009) The genomic basis of trophic strategy in marine bacteria. Proc Natl Acad Sci USA 106:15527-15533.
    • (2009) Proc Natl Acad Sci USA , vol.106 , pp. 15527-15533
    • Lauro, F.M.1
  • 27
    • 78149272458 scopus 로고    scopus 로고
    • Genomic and functional adaptation in surface ocean planktonic prokaryotes
    • Yooseph S, et al. (2010) Genomic and functional adaptation in surface ocean planktonic prokaryotes. Nature 468:60-66.
    • (2010) Nature , vol.468 , pp. 60-66
    • Yooseph, S.1
  • 28
    • 78249241370 scopus 로고    scopus 로고
    • Growth rates of different phylogenetic bacterioplankton groups in a coastal upwelling system
    • Teira E, Martinez-Garcia S, Lonborg C, Alvarez-Salgado XA (2009) Growth rates of different phylogenetic bacterioplankton groups in a coastal upwelling system. Environ Microbiol Rep 1:545-554.
    • (2009) Environ Microbiol Rep , vol.1 , pp. 545-554
    • Teira, E.1    Martinez-Garcia, S.2    Lonborg, C.3    Alvarez-Salgado, X.A.4
  • 29
    • 78649868522 scopus 로고    scopus 로고
    • Ecosystem-specific selection pressures revealed through comparative population genomics
    • Coleman ML, Chisholm SW (2010) Ecosystem-specific selection pressures revealed through comparative population genomics. Proc Natl Acad Sci USA 107:18634-18639.
    • (2010) Proc Natl Acad Sci USA , vol.107 , pp. 18634-18639
    • Coleman, M.L.1    Chisholm, S.W.2
  • 30
    • 77649128177 scopus 로고    scopus 로고
    • The presence of the glycolysis operon in SAR11 genomes is positively correlated with ocean productivity
    • Schwalbach MS, Tripp HJ, Steindler L, Smith DP, Giovannoni SJ (2010) The presence of the glycolysis operon in SAR11 genomes is positively correlated with ocean productivity. Environ Microbiol 12:490-500.
    • (2010) Environ Microbiol , vol.12 , pp. 490-500
    • Schwalbach, M.S.1    Tripp, H.J.2    Steindler, L.3    Smith, D.P.4    Giovannoni, S.J.5
  • 31
    • 78049286743 scopus 로고    scopus 로고
    • Microbial community transcriptomes reveal microbes and metabolic pathways associated with dissolved organic matter turnover in the sea
    • McCarren J, et al. (2010) Microbial community transcriptomes reveal microbes and metabolic pathways associated with dissolved organic matter turnover in the sea. Proc Natl Acad Sci USA 107:16420-16427.
    • (2010) Proc Natl Acad Sci USA , vol.107 , pp. 16420-16427
    • McCarren, J.1
  • 32
    • 0025937463 scopus 로고
    • Is there a unique ribosome phenotype for naturally occurring Escherichia coli?
    • Mikkola R, Kurland CG (1991) Is there a unique ribosome phenotype for naturally occurring Escherichia coli? Biochimie 73:1061-1066.
    • (1991) Biochimie , vol.73 , pp. 1061-1066
    • Mikkola, R.1    Kurland, C.G.2
  • 34
    • 68249096294 scopus 로고    scopus 로고
    • Bacteriophages drive strain diversification in a marine Flavobacterium: Implications for phage resistance and physiological properties
    • Middelboe M, Holmfeldt K, Riemann L, Nybroe O, Haaber J (2009) Bacteriophages drive strain diversification in a marine Flavobacterium: Implications for phage resistance and physiological properties. Environ Microbiol 11:1971-1982.
    • (2009) Environ Microbiol , vol.11 , pp. 1971-1982
    • Middelboe, M.1    Holmfeldt, K.2    Riemann, L.3    Nybroe, O.4    Haaber, J.5
  • 35
    • 40149103278 scopus 로고    scopus 로고
    • Error-correcting barcoded primers for pyrosequencing hundreds of samples in multiplex
    • DOI 10.1038/nmeth.1184, PII NMETH.1184
    • Hamady M, Walker JJ, Harris JK, Gold NJ, Knight R (2008) Error-correcting barcoded primers for pyrosequencing hundreds of samples in multiplex. Nat Methods 5:235-237. (Pubitemid 351325646)
    • (2008) Nature Methods , vol.5 , Issue.3 , pp. 235-237
    • Hamady, M.1    Walker, J.J.2    Harris, J.K.3    Gold, N.J.4    Knight, R.5
  • 36
    • 72949107142 scopus 로고    scopus 로고
    • Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities
    • Schloss PD, et al. (2009) Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol 75:7537-7541.
    • (2009) Appl Environ Microbiol , vol.75 , pp. 7537-7541
    • Schloss, P.D.1
  • 37
    • 34548293679 scopus 로고    scopus 로고
    • Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy
    • DOI 10.1128/AEM.00062-07
    • Wang Q, Garrity GM, Tiedje JM, Cole JR (2007) Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy. Appl Environ Microbiol 73:5261-5267. (Pubitemid 47326658)
    • (2007) Applied and Environmental Microbiology , vol.73 , Issue.16 , pp. 5261-5267
    • Wang, Q.1    Garrity, G.M.2    Tiedje, J.M.3    Cole, J.R.4
  • 38
    • 0030681260 scopus 로고    scopus 로고
    • The significance of digital gene expression profiles
    • Audic S, Claverie JM (1997) The significance of digital gene expression profiles. Genome Res 7:986-995. (Pubitemid 27487763)
    • (1997) Genome Research , vol.7 , Issue.10 , pp. 986-995
    • Audic, S.1    Claverie, J.-M.2
  • 39
    • 0036682224 scopus 로고    scopus 로고
    • PRIMROSE: A computer program for generating and estimating the phylogenetic range of 16S rRNA oligonucleotide probes and primers in conjunction with the RDP-II database
    • Ashelford KE, Weightman AJ, Fry JC (2002) PRIMROSE: A computer program for generating and estimating the phylogenetic range of 16S rRNA oligonucleotide probes and primers in conjunction with the RDP-II database. Nucleic Acids Res 30:3481-3489. (Pubitemid 34845945)
    • (2002) Nucleic Acids Research , vol.30 , Issue.15 , pp. 3481-3489
    • Ashelford, K.E.1    Weightman, A.J.2    Fry, J.C.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.