메뉴 건너뛰기




Volumn 7, Issue 10, 2005, Pages 1525-1534

Incidence of novel and potentially archaeal nitrogenase genes in the deep Northeast Pacific Ocean

Author keywords

[No Author keywords available]

Indexed keywords

ARCHAEAL DNA; NITROGENASE; NITROGENASE REDUCTASE; OXIDOREDUCTASE; SEA WATER;

EID: 25144431975     PISSN: 14622912     EISSN: None     Source Type: Journal    
DOI: 10.1111/j.1462-2920.2005.00836.x     Document Type: Article
Times cited : (30)

References (47)
  • 1
    • 0029832927 scopus 로고    scopus 로고
    • Perspectives on archaeal diversity, thermophily and monophyly from environmental rRNA sequences
    • Barns, S.M., Delwiche, C.F., Palmer, J.D., and Pace, N.R. (1996) Perspectives on archaeal diversity, thermophily and monophyly from environmental rRNA sequences. Proc Natl Acad Sci USA 93: 9188-9193.
    • (1996) Proc Natl Acad Sci USA , vol.93 , pp. 9188-9193
    • Barns, S.M.1    Delwiche, C.F.2    Palmer, J.D.3    Pace, N.R.4
  • 2
    • 0036135990 scopus 로고    scopus 로고
    • Comparative genomic analysis of archaeal genotypic variants in a single population and in two different oceanic provinces
    • Béjà, O., Koonin, E.V., Aravind, L., Taylor, L.T., Seitz, H., Stein, J.L., et al. (2002) Comparative genomic analysis of archaeal genotypic variants in a single population and in two different oceanic provinces. Appl Environ Microbiol 68: 335-345.
    • (2002) Appl Environ Microbiol , vol.68 , pp. 335-345
    • Béjà, O.1    Koonin, E.V.2    Aravind, L.3    Taylor, L.T.4    Seitz, H.5    Stein, J.L.6
  • 3
    • 0032835775 scopus 로고    scopus 로고
    • Significant differences between the G+C content of synonymous codons in orthologous genes and the genomic G+C content
    • Bellgard, M.I., and Gojobori, T. (1999) Significant differences between the G+C content of synonymous codons in orthologous genes and the genomic G+C content. Gene 238: 33-37.
    • (1999) Gene , vol.238 , pp. 33-37
    • Bellgard, M.I.1    Gojobori, T.2
  • 5
    • 0034471436 scopus 로고    scopus 로고
    • Compared geochemical signatures and the evolution of Menez Gwen (37°50'N) and Lucky Strike (37°17'N) hydrothermal fluids, south of the Azores Triple Junction on the Mid-Atlantic Ridge
    • Charlou, J.L., Donval, J.P., Douville, E., Jean-Baptiste, P., Radford-Knoery, J., Fouquet, Y., et al. (2000) Compared geochemical signatures and the evolution of Menez Gwen (37°50'N) and Lucky Strike (37°17'N) hydrothermal fluids, south of the Azores Triple Junction on the Mid-Atlantic Ridge. Chem Geol 171: 49-75.
    • (2000) Chem Geol , vol.171 , pp. 49-75
    • Charlou, J.L.1    Donval, J.P.2    Douville, E.3    Jean-Baptiste, P.4    Radford-Knoery, J.5    Fouquet, Y.6
  • 6
    • 0027988426 scopus 로고
    • Cloning, DNA sequencing, and characterization of a nifD-homologous gene from the archaeon Methanosarcina barkeri 227 which resembles nifD1 from the eubacterium Clostridium pasteurianum
    • Chien, Y.-T., and Zinder, S.H. (1994) Cloning, DNA sequencing, and characterization of a nifD-homologous gene from the archaeon Methanosarcina barkeri 227 which resembles nifD1 from the eubacterium Clostridium pasteurianum. J Bacteriol 176: 6590-6598.
    • (1994) J Bacteriol , vol.176 , pp. 6590-6598
    • Chien, Y.-T.1    Zinder, S.H.2
  • 8
    • 0031769609 scopus 로고    scopus 로고
    • Everything in moderation: Archaea as 'non-extremophiles'
    • DeLong, E.F. (1998) Everything in moderation: archaea as 'non-extremophiles'. Curr Opin Genet Dev 8: 649-654.
    • (1998) Curr Opin Genet Dev , vol.8 , pp. 649-654
    • DeLong, E.F.1
  • 9
    • 0242600661 scopus 로고    scopus 로고
    • Hydrothermal recharge and discharge across 50 km guided by seamounts on a young ridge flank
    • Fisher, A.T., Davis, E.E., Hutnak, M., Spiess, V., Zuhlsdorff, L., Cherkaoui, A., et al. (2003) Hydrothermal recharge and discharge across 50 km guided by seamounts on a young ridge flank. Nature 421: 618-621.
    • (2003) Nature , vol.421 , pp. 618-621
    • Fisher, A.T.1    Davis, E.E.2    Hutnak, M.3    Spiess, V.4    Zuhlsdorff, L.5    Cherkaoui, A.6
  • 11
    • 0033534584 scopus 로고    scopus 로고
    • A nonhyperthermophilic common ancestor to extant life forms
    • Galtier, N., Tourasse, N., and Gouy, M. (1999) A nonhyperthermophilic common ancestor to extant life forms. Science 283: 220-221.
    • (1999) Science , vol.283 , pp. 220-221
    • Galtier, N.1    Tourasse, N.2    Gouy, M.3
  • 12
    • 0033867966 scopus 로고    scopus 로고
    • Taxonomic, phylogenetic, and ecological diversity of methanogenic Archaea
    • Garcia, J.-L., Patel, B.K.C., and Ollivier, B. (2000) Taxonomic, phylogenetic, and ecological diversity of methanogenic Archaea. Anaerobe 6: 205-226.
    • (2000) Anaerobe , vol.6 , pp. 205-226
    • Garcia, J.-L.1    Patel, B.K.C.2    Ollivier, B.3
  • 13
    • 0000803388 scopus 로고
    • The population frequencies of species and the estimation of population parameters
    • Good, I.J. (1953) The population frequencies of species and the estimation of population parameters. Biometrika 40: 237-262.
    • (1953) Biometrika , vol.40 , pp. 237-262
    • Good, I.J.1
  • 14
    • 1842442575 scopus 로고    scopus 로고
    • The evolutionary history of nitrogen fixation, as assessed by NifD
    • Henson, B.J., Watson, L.E., and Barnum, S.R. (2004) The evolutionary history of nitrogen fixation, as assessed by NifD. J Mol Evol 58: 390-399.
    • (2004) J Mol Evol , vol.58 , pp. 390-399
    • Henson, B.J.1    Watson, L.E.2    Barnum, S.R.3
  • 15
    • 0036211208 scopus 로고    scopus 로고
    • Temporal changes in archaeal diversity and chemistry in a mid-ocean ridge subseafloor habitat
    • Huber, J.A., Butterfield, D.A., and Baross, J.A. (2002) Temporal changes in archaeal diversity and chemistry in a mid-ocean ridge subseafloor habitat. Appl Environ Microbiol 68: 1585-1594.
    • (2002) Appl Environ Microbiol , vol.68 , pp. 1585-1594
    • Huber, J.A.1    Butterfield, D.A.2    Baross, J.A.3
  • 16
    • 0037375056 scopus 로고    scopus 로고
    • Bacterial diversity in a subseafloor habitat following a deep-sea volcanic eruption
    • Huber, J.A., Butterfield, D.A., and Baross, J.A. (2003) Bacterial diversity in a subseafloor habitat following a deep-sea volcanic eruption. FEMS Microbiol Ecol 43: 393-409.
    • (2003) FEMS Microbiol Ecol , vol.43 , pp. 393-409
    • Huber, J.A.1    Butterfield, D.A.2    Baross, J.A.3
  • 18
    • 0022197949 scopus 로고
    • Geomicrobiology of deep-sea hydrothermal vents
    • Jannasch, H.W., and Mottl, M.J. (1985) Geomicrobiology of deep-sea hydrothermal vents. Science 229: 717-725.
    • (1985) Science , vol.229 , pp. 717-725
    • Jannasch, H.W.1    Mottl, M.J.2
  • 19
    • 4143136662 scopus 로고    scopus 로고
    • Ecological significance of microdiversity: Identical 16S rRNA gene sequences can be found in bacteria with highly divergent genomes and ecophysiologies
    • Jaspers, E., and Overmann, J. (2004) Ecological significance of microdiversity: identical 16S rRNA gene sequences can be found in bacteria with highly divergent genomes and ecophysiologies. Appl Environ Microbiol 70: 4831-4839.
    • (2004) Appl Environ Microbiol , vol.70 , pp. 4831-4839
    • Jaspers, E.1    Overmann, J.2
  • 21
    • 0035945618 scopus 로고    scopus 로고
    • Archaeal dominance in the mesopelagic zone of the Pacific Ocean
    • Karner, M.B., DeLong, E.F., and Karl, D.M. (2001) Archaeal dominance in the mesopelagic zone of the Pacific Ocean. Nature 409: 507-510.
    • (2001) Nature , vol.409 , pp. 507-510
    • Karner, M.B.1    DeLong, E.F.2    Karl, D.M.3
  • 22
    • 0003038349 scopus 로고
    • Reduced gases and bacteria in hydrothermal fluids: The Galapagos Spreading Center and 21°N East Pacific Rise
    • Smith, K.L. (ed.). New York, NY, USA: Plenum Publishing
    • Lilley, M.D., Baross, J.A., and Gordon, L.I. (1984) Reduced gases and bacteria in hydrothermal fluids: the Galapagos Spreading Center and 21°N East Pacific Rise. In Hydrothermal Processes at Seafloor Spreading Centers. Smith, K.L. (ed.). New York, NY, USA: Plenum Publishing, pp. 411-449.
    • (1984) Hydrothermal Processes at Seafloor Spreading Centers , pp. 411-449
    • Lilley, M.D.1    Baross, J.A.2    Gordon, L.I.3
  • 24
    • 17644441088 scopus 로고    scopus 로고
    • Comparative analysis of a genome fragment of an uncultivated mesopelagic crenarchaeote reveals multiple horizontal gene transfers
    • López-García, P., Brochier, C., Moreira, D., and Rodríguez-Valera, F. (2004) Comparative analysis of a genome fragment of an uncultivated mesopelagic crenarchaeote reveals multiple horizontal gene transfers. Environ Microbiol 6: 19-34.
    • (2004) Environ Microbiol , vol.6 , pp. 19-34
    • López-García, P.1    Brochier, C.2    Moreira, D.3    Rodríguez- Valera, F.4
  • 25
    • 0035206819 scopus 로고    scopus 로고
    • Molecular analyses of methyl-coenyzme M reductase α-subunit (mcrA) genes in rice field soil and enrichment cultures reveal the methanogenic phenotype of a novel archaeal lineage
    • Lueders, T., Chin, K.-J., Conrad, R., and Friedrich, M. (2001) Molecular analyses of methyl-coenyzme M reductase α-subunit (mcrA) genes in rice field soil and enrichment cultures reveal the methanogenic phenotype of a novel archaeal lineage. Environ Microbiol 3: 194-204.
    • (2001) Environ Microbiol , vol.3 , pp. 194-204
    • Lueders, T.1    Chin, K.-J.2    Conrad, R.3    Friedrich, M.4
  • 26
    • 0036856362 scopus 로고    scopus 로고
    • The mcrA gene as an alternative to 16S rRNA in the phylogenetic analysis of methanogen populations in landfill
    • Luton, P.E., Wayne, J.M., Sharp, R.J., and Riley, P.W. (2002) The mcrA gene as an alternative to 16S rRNA in the phylogenetic analysis of methanogen populations in landfill. Microbiology 148: 3521-3530.
    • (2002) Microbiology , vol.148 , pp. 3521-3530
    • Luton, P.E.1    Wayne, J.M.2    Sharp, R.J.3    Riley, P.W.4
  • 27
    • 0032997366 scopus 로고    scopus 로고
    • Detection of methanogenic archaea in seawater particles and the digestive tract of a marine fish species
    • van der Maarel, M.J.E.C., Sprenger, W., Haanstra, R., and Forney, L.J. (1999) Detection of methanogenic archaea in seawater particles and the digestive tract of a marine fish species. FEMS Microbiol Lett 173: 189-194.
    • (1999) FEMS Microbiol Lett , vol.173 , pp. 189-194
    • Van Der Maarel, M.J.E.C.1    Sprenger, W.2    Haanstra, R.3    Forney, L.J.4
  • 28
    • 0031851853 scopus 로고    scopus 로고
    • GCUA: General codon usage analysis
    • McInerney, J.O. (1998) GCUA: general codon usage analysis. Bioinformatics 14: 372-373.
    • (1998) Bioinformatics , vol.14 , pp. 372-373
    • McInerney, J.O.1
  • 29
    • 0027842277 scopus 로고
    • Methanogenic bacteria in seawater
    • Marty, D.G. (1993) Methanogenic bacteria in seawater. Limnol Oceanogr 38: 452-456.
    • (1993) Limnol Oceanogr , vol.38 , pp. 452-456
    • Marty, D.G.1
  • 30
    • 0034114417 scopus 로고    scopus 로고
    • A few cosmopolitan phylotypes dominate planktonic archaeal assemblages in widely different oceanic provinces
    • Massana, R., DeLong, E.F., and Pedrós-Alió, C. (2000) A few cosmopolitan phylotypes dominate planktonic archaeal assemblages in widely different oceanic provinces. Appl Environ Microbiol 66: 1777-1787.
    • (2000) Appl Environ Microbiol , vol.66 , pp. 1777-1787
    • Massana, R.1    DeLong, E.F.2    Pedrós-Alió, C.3
  • 31
    • 0346195660 scopus 로고    scopus 로고
    • Phylogenetic diversity of nitrogenase (nifH) genes in deep-sea and hydrothermal vent environments of the Juan de Fuca Ridge
    • Mehta, M.P., Butterfield, D.A., and Baross, J.A. (2003) Phylogenetic diversity of nitrogenase (nifH) genes in deep-sea and hydrothermal vent environments of the Juan de Fuca Ridge. Appl Environ Microbiol 69: 960-970.
    • (2003) Appl Environ Microbiol , vol.69 , pp. 960-970
    • Mehta, M.P.1    Butterfield, D.A.2    Baross, J.A.3
  • 32
    • 0031961032 scopus 로고    scopus 로고
    • Warm springs discovered on 3.5 Ma oceanic crust, eastern flank of the Juan de Fuca Ridge
    • Mottl, M.J., Wheat, G., Baker, E., Becker, N., Davis, E., Feely, R., et al. (1998) Warm springs discovered on 3.5 Ma oceanic crust, eastern flank of the Juan de Fuca Ridge. Geology 26: 51-54.
    • (1998) Geology , vol.26 , pp. 51-54
    • Mottl, M.J.1    Wheat, G.2    Baker, E.3    Becker, N.4    Davis, E.5    Feely, R.6
  • 33
    • 0031847928 scopus 로고    scopus 로고
    • Diversity of deep-sea hydrothermal vent Archaea from Loihi Seamount, Hawaii
    • Moyer, C.L, Tiedje, J.M., Dobbs, F.C., and Karl, D.M. (1998) Diversity of deep-sea hydrothermal vent Archaea from Loihi Seamount, Hawaii. Deep-Sea Res II 45: 303-317.
    • (1998) Deep-Sea Res II , vol.45 , pp. 303-317
    • Moyer, C.L.1    Tiedje, J.M.2    Dobbs, F.C.3    Karl, D.M.4
  • 34
    • 0033754312 scopus 로고    scopus 로고
    • Marine planktonic archaea take up amino acids
    • Ouverney, C.C., and Fuhrman, J.A. (2000) Marine planktonic archaea take up amino acids. Appl Environ Microbiol 66: 4829-4833.
    • (2000) Appl Environ Microbiol , vol.66 , pp. 4829-4833
    • Ouverney, C.C.1    Fuhrman, J.A.2
  • 35
    • 15844365305 scopus 로고    scopus 로고
    • A psychrophilic crenarchaeon inhabits a marine sponge: Cenarchaeum symbiosum gen. nov., sp. nov.
    • Preston, C.M., Wu, K.Y., Molinski, T.F., and DeLong, E.F. (1996) A psychrophilic crenarchaeon inhabits a marine sponge: Cenarchaeum symbiosum gen. nov., sp. nov. Proc Natl Acad Sci USA 93: 6241-6246.
    • (1996) Proc Natl Acad Sci USA , vol.93 , pp. 6241-6246
    • Preston, C.M.1    Wu, K.Y.2    Molinski, T.F.3    DeLong, E.F.4
  • 37
    • 0036205377 scopus 로고    scopus 로고
    • TREE-PUZZLE: Maximum likelihood phylogenetic analysis using quartets and parallel computing
    • Schmidt, H.A., Strimmer, K., Vingron, M., and von Haeseler, A. (2002) TREE-PUZZLE: maximum likelihood phylogenetic analysis using quartets and parallel computing. Bioinformatics 18: 502-504.
    • (2002) Bioinformatics , vol.18 , pp. 502-504
    • Schmidt, H.A.1    Strimmer, K.2    Vingron, M.3    Von Haeseler, A.4
  • 38
    • 0002356720 scopus 로고
    • Contrary habitats for redox-specific processes: Methanogenesis in oxic waters and oxidation in anoxic waters
    • Sleigh, M.A. (ed.). Chicester, UK: Ellis Horwood
    • Sieburth, J.M. (1987) Contrary habitats for redox-specific processes: methanogenesis in oxic waters and oxidation in anoxic waters. In Microbes in the Sea. Sleigh, M.A. (ed.). Chicester, UK: Ellis Horwood, pp. 11-38.
    • (1987) Microbes in the Sea , pp. 11-38
    • Sieburth, J.M.1
  • 40
    • 0035956962 scopus 로고    scopus 로고
    • A novel microbial habitat in the mid-ocean ridge subseafloor
    • Summit, M., and Baross, J.A. (2001) A novel microbial habitat in the mid-ocean ridge subseafloor. Proc Natl Acad Sci USA 98: 2158-2163.
    • (2001) Proc Natl Acad Sci USA , vol.98 , pp. 2158-2163
    • Summit, M.1    Baross, J.A.2
  • 41
    • 0002232851 scopus 로고    scopus 로고
    • Marine prokaryote diversity
    • Reysenbach, A.-L. (ed.). New York, NY, USA: Wiley-Liss
    • Suzuki, M.T., and DeLong, E.F. (2002) Marine prokaryote diversity. In Biodiversity of Microbial Life. Reysenbach, A.-L. (ed.). New York, NY, USA: Wiley-Liss, pp. 209-234.
    • (2002) Biodiversity of Microbial Life , pp. 209-234
    • Suzuki, M.T.1    DeLong, E.F.2
  • 42
    • 9744270182 scopus 로고    scopus 로고
    • Spatial distribution of marine crenarchaeota group I in the vicinity of deep-sea hydrothermal systems
    • Takai, K., Oida, H., Suzuki, Y., Hirayama, H., Nakagawa, S., Nunoura, T., et al. (2004) Spatial distribution of marine crenarchaeota group I in the vicinity of deep-sea hydrothermal systems. Appl Environ Microbiol 70: 2404-2413.
    • (2004) Appl Environ Microbiol , vol.70 , pp. 2404-2413
    • Takai, K.1    Oida, H.2    Suzuki, Y.3    Hirayama, H.4    Nakagawa, S.5    Nunoura, T.6
  • 43
    • 0035031966 scopus 로고    scopus 로고
    • A general empirical model of protein evolution derived from multiple protein families using a maximum-likelihood approach
    • Whelan, S., and Goldman, N. (2001) A general empirical model of protein evolution derived from multiple protein families using a maximum-likelihood approach. Mol Biol Evol 18: 691-699.
    • (2001) Mol Biol Evol , vol.18 , pp. 691-699
    • Whelan, S.1    Goldman, N.2
  • 45
    • 0001975986 scopus 로고
    • Phylogenetic classification of nitrogen-fixing organisms
    • Stacey, G., Burris, R.H., and Evans, H.J. (eds.). New York, USA: Chapman & Hall
    • Young, J.P.W. (1992) Phylogenetic classification of nitrogen-fixing organisms. In Biological Nitrogen Fixation. Stacey, G., Burris, R.H., and Evans, H.J. (eds.). New York, USA: Chapman & Hall, pp. 43-86.
    • (1992) Biological Nitrogen Fixation , pp. 43-86
    • Young, J.P.W.1
  • 46
    • 0031664504 scopus 로고    scopus 로고
    • New nitrogen-fixing microorganisms detected in oligotrophic oceans by amplification of nitrogenase (nifH) genes
    • Zehr, J.P., Mellon, M.T., and Zani, S. (1998) New nitrogen-fixing microorganisms detected in oligotrophic oceans by amplification of nitrogenase (nifH) genes. Appl Environ Microbiol 64: 3444-3450.
    • (1998) Appl Environ Microbiol , vol.64 , pp. 3444-3450
    • Zehr, J.P.1    Mellon, M.T.2    Zani, S.3
  • 47
    • 0038234799 scopus 로고    scopus 로고
    • Nitrogenase gene diversity and microbial community structure: A cross-system comparison
    • Zehr, J.P., Jenkins, B.D., Short, S.M., and Steward, G.F. (2003) Nitrogenase gene diversity and microbial community structure: a cross-system comparison. Environ Microbiol 5: 539-554.
    • (2003) Environ Microbiol , vol.5 , pp. 539-554
    • Zehr, J.P.1    Jenkins, B.D.2    Short, S.M.3    Steward, G.F.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.