메뉴 건너뛰기




Volumn 70, Issue 9, 2004, Pages 5708-5713

Widespread occurrence of a novel division of bacteria identified by 16S rRNA gene sequences originally found in deep marine sediments

Author keywords

[No Author keywords available]

Indexed keywords

COASTAL ZONES; DNA SEQUENCES; GENES; MARINE ENGINEERING; RNA; SEDIMENTS;

EID: 4644305740     PISSN: 00992240     EISSN: None     Source Type: Journal    
DOI: 10.1128/AEM.70.9.5708-5713.2004     Document Type: Article
Times cited : (95)

References (36)
  • 1
    • 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, K. E., A. J. Weightman, and J. C. Fry. 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.
    • (2002) Nucleic Acids Res. , vol.30 , pp. 3481-3489
    • Ashelford, K.E.1    Weightman, A.J.2    Fry, J.C.3
  • 2
    • 0030899619 scopus 로고    scopus 로고
    • Desulfovibrio profundis sp. nov., a novel barophilic sulfate-reducing bacterium from the deep sediment layers in the Japan Sea
    • Bale, S. J., K. Goodman, P. A. Rochelle, J. R. Marchesi, J. C. Fry, A. J. Weightman, and R. J. Parkes. 1997. Desulfovibrio profundis sp. nov., a novel barophilic sulfate-reducing bacterium from the deep sediment layers in the Japan Sea. Int. J. Syst. Bacteriol. 47:515-521.
    • (1997) Int. J. Syst. Bacteriol. , vol.47 , pp. 515-521
    • Bale, S.J.1    Goodman, K.2    Rochelle, P.A.3    Marchesi, J.R.4    Fry, J.C.5    Weightman, A.J.6    Parkes, R.J.7
  • 3
    • 0035068917 scopus 로고    scopus 로고
    • A multiple-outgroup approach to resolving division-level phylogenetic relationships using 16S rDNA data
    • Daleri, D., P. Hugenholtz, and L. L. Blackall. 2001. A multiple-outgroup approach to resolving division-level phylogenetic relationships using 16S rDNA data. Int. J. Syst. Evol. Microbiol. 51:385-391.
    • (2001) Int. J. Syst. Evol. Microbiol. , vol.51 , pp. 385-391
    • Daleri, D.1    Hugenholtz, P.2    Blackall, L.L.3
  • 4
    • 0013258174 scopus 로고    scopus 로고
    • Molecular characterization of sulfate-reducing bacteria in the Guaymas Basin
    • Dhillon, A., A. Teske, J. Dillon, D. A. Stahl, and M. L. Sogin. 2003. Molecular characterization of sulfate-reducing bacteria in the Guaymas Basin. Appl. Environ. Microbiol. 69:2765-2772.
    • (2003) Appl. Environ. Microbiol. , vol.69 , pp. 2765-2772
    • Dhillon, A.1    Teske, A.2    Dillon, J.3    Stahl, D.A.4    Sogin, M.L.5
  • 5
    • 0034069650 scopus 로고    scopus 로고
    • Expanding the known diversity and environmental distribution of an uncultured phylogenetic division of bacteria
    • Dojka, M. A., J. K. Harris, and N. R. Pace. 2000. Expanding the known diversity and environmental distribution of an uncultured phylogenetic division of bacteria. Appl. Environ. Microbiol. 66:1617-1621.
    • (2000) Appl. Environ. Microbiol. , vol.66 , pp. 1617-1621
    • Dojka, M.A.1    Harris, J.K.2    Pace, N.R.3
  • 6
    • 0033582323 scopus 로고    scopus 로고
    • Microsporidia are related to fungi: Evidence from the largest subunit of RNA polymerase II and other proteins
    • Hirt, R. P., J. M. Logsdon, B. Healy, M. W. Dorey, W. F. Doolittle, and T. M. Embley. 1999. Microsporidia are related to fungi: evidence from the largest subunit of RNA polymerase II and other proteins. Proc. Natl. Acad. Sci. USA 96:580-585.
    • (1999) Proc. Natl. Acad. Sci. USA , vol.96 , pp. 580-585
    • Hirt, R.P.1    Logsdon, J.M.2    Healy, B.3    Dorey, M.W.4    Doolittle, W.F.5    Embley, T.M.6
  • 7
    • 0031662188 scopus 로고    scopus 로고
    • Impact of culture-independent studies on the emerging phylogenetic view of bacterial diversity
    • Hugenholtz, P., B. M. Goebel, and N. R. Pace. 1998. Impact of culture-independent studies on the emerging phylogenetic view of bacterial diversity. J. Bacteriol. 180:4765-4774.
    • (1998) J. Bacteriol. , vol.180 , pp. 4765-4774
    • Hugenholtz, P.1    Goebel, B.M.2    Pace, N.R.3
  • 8
    • 0035748326 scopus 로고    scopus 로고
    • Archaeology of Archaea: Geomicrobiological record of Pleistocene thermal events concealed in a deep-sea subseafloor environment
    • Inagaki, F., K. Takai, T. Komatsu, T. Kanamatsu, K. Fujioka, and K. Horikoshi. 2001. Archaeology of Archaea: geomicrobiological record of Pleistocene thermal events concealed in a deep-sea subseafloor environment. Extremophiles 5:385-392.
    • (2001) Extremophiles , vol.5 , pp. 385-392
    • Inagaki, F.1    Takai, K.2    Komatsu, T.3    Kanamatsu, T.4    Fujioka, K.5    Horikoshi, K.6
  • 10
    • 0031980181 scopus 로고    scopus 로고
    • Extremely barophilic bacteria isolated from the Mariana Trench, Challenger Deep, at a depth of 11,000 meters
    • Kato, C., L. Li, Y. Nogi, Y. Nakamura, J. Tamaoka, and K. Horikoshi. 1998. Extremely barophilic bacteria isolated from the Mariana Trench, Challenger Deep, at a depth of 11,000 meters. Appl. Environ. Microbiol. 64:1510-1513.
    • (1998) Appl. Environ. Microbiol. , vol.64 , pp. 1510-1513
    • Kato, C.1    Li, L.2    Nogi, Y.3    Nakamura, Y.4    Tamaoka, J.5    Horikoshi, K.6
  • 11
    • 0038107871 scopus 로고    scopus 로고
    • Molecular analysis of deep subsurface microbial communities in Nankai Trough sediments (ODP Leg 190, site 1176)
    • Karmas, K. A., D. C. Smith, V. Edgcomb, and A. Teske. 2003. Molecular analysis of deep subsurface microbial communities in Nankai Trough sediments (ODP Leg 190, site 1176). FEMS Microbiol. Ecol. 45:115-125.
    • (2003) FEMS Microbiol. Ecol. , vol.45 , pp. 115-125
    • Karmas, K.A.1    Smith, D.C.2    Edgcomb, V.3    Teske, A.4
  • 12
    • 0028181246 scopus 로고
    • Reconstructing evolutionary trees from DNA and protein sequences: Paralinear distances
    • Lake, J. A. 1994. Reconstructing evolutionary trees from DNA and protein sequences: paralinear distances. Proc. Natl. Acad. Sci. USA 91:1455-1459.
    • (1994) Proc. Natl. Acad. Sci. USA , vol.91 , pp. 1455-1459
    • Lake, J.A.1
  • 14
    • 0032882298 scopus 로고    scopus 로고
    • Microbial diversity in sediments collected from the deepest cold-seep area, the Japan Trench
    • Li, L., C. Kato, and K. Horikoshi. 1999. Microbial diversity in sediments collected from the deepest cold-seep area, the Japan Trench. Mar. Biotechnol. 1:391-400.
    • (1999) Mar. Biotechnol. , vol.1 , pp. 391-400
    • Li, L.1    Kato, C.2    Horikoshi, K.3
  • 15
    • 0029935637 scopus 로고    scopus 로고
    • Evolution of chlorophyll and bacteriochlorophyll: The problem of invariant sites in sequence analysis
    • Lockhart, P. J., A. W. D. Larkum, M. A. Steel, P. J. Waddel, and D. Penny. 1996. Evolution of chlorophyll and bacteriochlorophyll: the problem of invariant sites in sequence analysis. Proc. Natl. Acad. Sci. USA 93:1930-1934.
    • (1996) Proc. Natl. Acad. Sci. USA , vol.93 , pp. 1930-1934
    • Lockhart, P.J.1    Larkum, A.W.D.2    Steel, M.A.3    Waddel, P.J.4    Penny, D.5
  • 16
    • 0031937375 scopus 로고    scopus 로고
    • Design and evaluation of useful bacterium-specific PCR primers that amplify genes coding for bacterial 16S rRNA
    • Marches!, J. R., T. Sato, A. J. Weightman, T. A. Martin, J. C. Fry, S. J. Hiom, and W. G. Wade. 1998. Design and evaluation of useful bacterium-specific PCR primers that amplify genes coding for bacterial 16S rRNA. Appl. Environ. Microbiol. 64:795-799.
    • (1998) Appl. Environ. Microbiol. , vol.64 , pp. 795-799
    • Marchesi, J.R.1    Sato, T.2    Weightman, A.J.3    Martin, T.A.4    Fry, J.C.5    Hiom, S.J.6    Wade, W.G.7
  • 17
    • 0034535113 scopus 로고    scopus 로고
    • Methanogen and bacterial diversity and distribution in deep gas hydrate sediments from the Cascadia Margin as revealed by 16S rRNA molecular analysis
    • Marchesi, J. R., A. J. Weightman, B. A. Cragg, R. J. Parkes, and J. C. Fry. 2001. Methanogen and bacterial diversity and distribution in deep gas hydrate sediments from the Cascadia Margin as revealed by 16S rRNA molecular analysis. FEMS Microbiol. Ecol. 34:221-228.
    • (2001) FEMS Microbiol. Ecol. , vol.34 , pp. 221-228
    • Marchesi, J.R.1    Weightman, A.J.2    Cragg, B.A.3    Parkes, R.J.4    Fry, J.C.5
  • 18
    • 0027460328 scopus 로고
    • Profiling of complex microbial populations by denaturing gradient gel electrophoresis analysis of polymerase chain reaction-amplified genes coding for 16S rRNA
    • Muyzer, G., E. C. De Waal, and A. G. Uitterlinden. 1993. Profiling of complex microbial populations by denaturing gradient gel electrophoresis analysis of polymerase chain reaction-amplified genes coding for 16S rRNA. Appl. Environ. Microbiol. 59:695-700.
    • (1993) Appl. Environ. Microbiol. , vol.59 , pp. 695-700
    • Muyzer, G.1    De Waal, E.C.2    Uitterlinden, A.G.3
  • 19
    • 1342289953 scopus 로고    scopus 로고
    • Diversity of prokaryotes and methanogenesis in deep subsurface sediments from the Nankai Trough, Ocean Drilling Program Leg 190
    • Newberry, C. J., G. Webster, A. J. Weightman, and J. C. Fry. 2004. Diversity of prokaryotes and methanogenesis in deep subsurface sediments from the Nankai Trough, Ocean Drilling Program Leg 190. Environ. Microbiol. 6:274-287.
    • (2004) Environ. Microbiol. , vol.6 , pp. 274-287
    • Newberry, C.J.1    Webster, G.2    Weightman, A.J.3    Fry, J.C.4
  • 21
    • 0031737821 scopus 로고    scopus 로고
    • How good are deep phylogenetic trees?
    • Philippe, H., and J. Laurent. 1998. How good are deep phylogenetic trees? Curr. Opin. Genet. Dev. 8:616-623.
    • (1998) Curr. Opin. Genet. Dev. , vol.8 , pp. 616-623
    • Philippe, H.1    Laurent, J.2
  • 23
    • 0034628432 scopus 로고    scopus 로고
    • Stable-isotope probing as a tool in microbial ecology
    • Radajewski, S., P. Ineson, N. R. Parekh, and J. C. Murrell. 2000. Stable-isotope probing as a tool in microbial ecology. Nature 403:646-649.
    • (2000) Nature , vol.403 , pp. 646-649
    • Radajewski, S.1    Ineson, P.2    Parekh, N.R.3    Murrell, J.C.4
  • 26
    • 0028019502 scopus 로고
    • Effect of sample handling on estimation of bacterial diversity in marine sediments by 16S rRNA gene sequence diversity
    • Rochelle, P. A., B. A. Cragg, J. C. Fry, R. J. Parkes, and A. J. Weightman. 1994. Effect of sample handling on estimation of bacterial diversity in marine sediments by 16S rRNA gene sequence diversity. FEMS Microbiol. Ecol. 15:215-226.
    • (1994) FEMS Microbiol. Ecol. , vol.15 , pp. 215-226
    • Rochelle, P.A.1    Cragg, B.A.2    Fry, J.C.3    Parkes, R.J.4    Weightman, A.J.5
  • 27
    • 0003319275 scopus 로고    scopus 로고
    • Leg 190 summary
    • G. F. Moore, A. Taira, A. Klaus, et al. (ed.). Ocean Drilling Program, College Station, Tex
    • Shipboard Scientific Party. 2001. Leg 190 summary, p. 1-87. In G. F. Moore, A. Taira, A. Klaus, et al. (ed.), Proceedings of the Ocean Drilling Program, initial reports. Ocean Drilling Program, College Station, Tex.
    • (2001) Proceedings of the Ocean Drilling Program, Initial Reports , pp. 1-87
  • 28
    • 4644325156 scopus 로고    scopus 로고
    • Leg 201 summary
    • S. L. D'Hondt, B. B. Jørgenson, D. J. Miller, et al. (ed.). Ocean Drilling Program, College Station, Tex
    • Shipboard Scientific Party. 2003. Leg 201 summary, p. 1-81. In S. L. D'Hondt, B. B. Jørgenson, D. J. Miller, et al. (ed.), Proceedings of the Ocean Drilling Program, initial reports. Ocean Drilling Program, College Station, Tex.
    • (2003) Proceedings of the Ocean Drilling Program, Initial Reports , pp. 1-81
  • 29
    • 0036242945 scopus 로고    scopus 로고
    • Enumeration of 16S rDNA of Desulfotomacutum lineage 1 in rice field soil by real-time PCR with SybrGreen detection
    • Stubner, S. 2002. Enumeration of 16S rDNA of Desulfotomacutum lineage 1 in rice field soil by real-time PCR with SybrGreen detection. J. Microbiol. Methods 50:155-164.
    • (2002) J. Microbiol. Methods , vol.50 , pp. 155-164
    • Stubner, S.1
  • 32
    • 0031574072 scopus 로고    scopus 로고
    • The ClustalX-Windows interface: Flexible strategies for multiple sequence alignment aided by quality analysis tools
    • Thompson, J. D., T. J. Gibson, F. Plewniak, F. Jeanmougin, and D. G. Higgins. 1997. The ClustalX-Windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res. 25:4876-4882.
    • (1997) Nucleic Acids Res. , vol.25 , pp. 4876-4882
    • Thompson, J.D.1    Gibson, T.J.2    Plewniak, F.3    Jeanmougin, F.4    Higgins, D.G.5
  • 33
    • 0036135250 scopus 로고    scopus 로고
    • Grassland management regimens reduce small-scale heterogeneity and species diversity of β-proteobacterial ammonia oxidizer populations
    • Webster, G., T. M. Embley, and J. I. Presser. 2002. Grassland management regimens reduce small-scale heterogeneity and species diversity of β-proteobacterial ammonia oxidizer populations. Appl. Environ. Microbiol. 68:20-30.
    • (2002) Appl. Environ. Microbiol. , vol.68 , pp. 20-30
    • Webster, G.1    Embley, T.M.2    Presser, J.I.3
  • 34
    • 0142091782 scopus 로고    scopus 로고
    • Assessment of bacterial community structure in the deep sub-seafloor biosphere by 16S rDNA-based techniques: A cautionary tale
    • Webster, G., C. J. Newberry, J. C. Fry, and A. J. Weightman. 2003. Assessment of bacterial community structure in the deep sub-seafloor biosphere by 16S rDNA-based techniques: a cautionary tale. J. Microbiol. Methods 55:155-164.
    • (2003) J. Microbiol. Methods , vol.55 , pp. 155-164
    • Webster, G.1    Newberry, C.J.2    Fry, J.C.3    Weightman, A.J.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.