메뉴 건너뛰기




Volumn 67, Issue 4, 2001, Pages 1893-1901

Community Structure of Denitrifiers, Bacteria, and Archaea along Redox Gradients in Pacific Northwest Marine Sediments by Terminal Restriction Fragment Length Polymorphism Analysis of Amplified Nitrite Reductase (nirS) and 16S rRNA Genes

Author keywords

[No Author keywords available]

Indexed keywords

NITRATE; NITRITE; NITRITE REDUCTASE; RNA 16S; SEA WATER;

EID: 0035319656     PISSN: 00992240     EISSN: None     Source Type: Journal    
DOI: 10.1128/AEM.67.4.1893-1901.2001     Document Type: Article
Times cited : (238)

References (38)
  • 1
    • 0028946084 scopus 로고
    • Phylogenetic identification and in situ detection of individual microbial cells without cultivation
    • Amann, R. I., W. Ludwig, and K.-H. Schleifer. 1995. Phylogenetic identification and in situ detection of individual microbial cells without cultivation. Microbiol. Rev. 59:143-169.
    • (1995) Microbiol. Rev. , vol.59 , pp. 143-169
    • Amann, R.I.1    Ludwig, W.2    Schleifer, K.-H.3
  • 3
    • 0031687820 scopus 로고    scopus 로고
    • Development of PCR primer systems for amplification of nitrite reductase genes (nirK and nirS) to detect denitrifying bacteria in environmental samples
    • Braker, G., A. Fesefeldt, and K.-P. Witzel. 1998. Development of PCR primer systems for amplification of nitrite reductase genes (nirK and nirS) to detect denitrifying bacteria in environmental samples. Appl. Environ. Microbiol. 64:3769-3775.
    • (1998) Appl. Environ. Microbiol. , vol.64 , pp. 3769-3775
    • Braker, G.1    Fesefeldt, A.2    Witzel, K.-P.3
  • 4
    • 0034016758 scopus 로고    scopus 로고
    • Nitrite reductase genes (nirK and nirS) as functional markers to investigate diversity of denitrifying bacteria in Pacific Northwest marine sediment communities
    • Braker, G., J. Zhou, L. Wu, A. H. Devol, and J. M. Tiedje. 2000. Nitrite reductase genes (nirK and nirS) as functional markers to investigate diversity of denitrifying bacteria in Pacific Northwest marine sediment communities. Appl. Environ. Microbiol. 66:2096-2104.
    • (2000) Appl. Environ. Microbiol. , vol.66 , pp. 2096-2104
    • Braker, G.1    Zhou, J.2    Wu, L.3    Devol, A.H.4    Tiedje, J.M.5
  • 5
    • 0029502734 scopus 로고
    • Simultaneous nitrate and oxygen respiration in coastal sediments: Evidence for discrete diagenesis
    • Brandes, J. A., and A. H. Devol. 1995. Simultaneous nitrate and oxygen respiration in coastal sediments: evidence for discrete diagenesis. J. Mar. Res. 52:771-797.
    • (1995) J. Mar. Res. , vol.52 , pp. 771-797
    • Brandes, J.A.1    Devol, A.H.2
  • 6
    • 0030817782 scopus 로고    scopus 로고
    • Analysis of mer gene subclasses within bacterial communities in soils and sediments resolved by fluorescent-PCR-restriction fragment length polymorphism profiling
    • Bruce, K. D. 1997. Analysis of mer gene subclasses within bacterial communities in soils and sediments resolved by fluorescent-PCR-restriction fragment length polymorphism profiling. Appl. Environ. Microbiol. 63:4914-4919.
    • (1997) Appl. Environ. Microbiol. , vol.63 , pp. 4914-4919
    • Bruce, K.D.1
  • 7
    • 0019897854 scopus 로고
    • 210Pb-derived sediment accumulation and mixing rates for the Washington continental slope
    • 210Pb-derived sediment accumulation and mixing rates for the Washington continental slope. Mar. Chem. 48:135-164.
    • (1982) Mar. Chem. , vol.48 , pp. 135-164
    • Carpenter, R.1    Peterson, M.L.2    Bennett, J.T.3
  • 8
    • 0033012295 scopus 로고    scopus 로고
    • Effect of temperature on structure and function of the methanogenic archaeal community in an anoxic rice field
    • Chin, K.-J., T. Lukow, and R. Conrad. 1999. Effect of temperature on structure and function of the methanogenic archaeal community in an anoxic rice field. Appl. Environ. Microbiol. 65:2341-2349.
    • (1999) Appl. Environ. Microbiol. , vol.65 , pp. 2341-2349
    • Chin, K.-J.1    Lukow, T.2    Conrad, R.3
  • 9
    • 84977322088 scopus 로고
    • Denitrification in continental shelf sediments has major impact on the oceanic nitrogen budget
    • Christensen, J. P., J. W. Murray, A. H. Devol, and L. A. Codispoti. 1987. Denitrification in continental shelf sediments has major impact on the oceanic nitrogen budget. Global Biogeochem. Cycles 1:97-116.
    • (1987) Global Biogeochem. Cycles , vol.1 , pp. 97-116
    • Christensen, J.P.1    Murray, J.W.2    Devol, A.H.3    Codispoti, L.A.4
  • 10
    • 36849147442 scopus 로고
    • Is the ocean loosing nitrate?
    • Codispoti, L. A. 1995. Is the ocean loosing nitrate? Nature 376:724.
    • (1995) Nature , vol.376 , pp. 724
    • Codispoti, L.A.1
  • 11
    • 0026755238 scopus 로고
    • Archaea in coastal marine environments
    • DeLong, E. F. 1992. Archaea in coastal marine environments. Proc. Natl. Acad. Sci. USA 89:5685-5689.
    • (1992) Proc. Natl. Acad. Sci. USA , vol.89 , pp. 5685-5689
    • DeLong, E.F.1
  • 12
    • 0028594902 scopus 로고
    • High abundance of archaea in antarctic marine picoplankton
    • DeLong, E. F., K. Y. Wu, B. B. Prézelin, and R. V. M. Jovine. 1994. High abundance of archaea in antarctic marine picoplankton. Nature 371:695-697.
    • (1994) Nature , vol.371 , pp. 695-697
    • Delong, E.F.1    Wu, K.Y.2    Prézelin, B.B.3    Jovine, R.V.M.4
  • 13
    • 0027833494 scopus 로고
    • Benthic fluxes and nitrogen cycling in sediments of the continental margin of the eastern North Pacific
    • Devol, A. H., and J. P. Christensen. 1993. Benthic fluxes and nitrogen cycling in sediments of the continental margin of the eastern North Pacific. J. Mar. Res. 51:345-372.
    • (1993) J. Mar. Res. , vol.51 , pp. 345-372
    • Devol, A.H.1    Christensen, J.P.2
  • 14
    • 0024152983 scopus 로고
    • Phylogenies from molecular sequences: Inference and reliability
    • Felsenstein, J. 1988. Phylogenies from molecular sequences: inference and reliability. Annu. Rev. Genet. 22:521-565.
    • (1988) Annu. Rev. Genet. , vol.22 , pp. 521-565
    • Felsenstein, J.1
  • 16
    • 0038236052 scopus 로고
    • Genetics Computer Group, Madison, Wis.
    • Genetics Computer Group. 1994. GCG program manual. Genetics Computer Group, Madison, Wis.
    • (1994) GCG Program Manual
  • 18
    • 0041125886 scopus 로고    scopus 로고
    • Sedimentary organic matter preservation: A test for selective degradation under oxic conditions
    • Hedges, J. I., F. S. Hu, A. H. Devol, H. E. Hartnett, E. Tsamakis, and R. G. Keil. 1999. Sedimentary organic matter preservation: a test for selective degradation under oxic conditions. Am. J. Sci. 299:529-555.
    • (1999) Am. J. Sci. , vol.299 , pp. 529-555
    • Hedges, J.I.1    Hu, F.S.2    Devol, A.H.3    Hartnett, H.E.4    Tsamakis, E.5    Keil, R.G.6
  • 19
    • 0033988391 scopus 로고    scopus 로고
    • Identification of the major subgroups of ammonia-oxidizing bacteria in environmental samples by T-RFLP analysis of amoA PCR products
    • Horz, H.-P., J.-H. Rotthauwe, T. Luckow, and W. Liesack. 2000. Identification of the major subgroups of ammonia-oxidizing bacteria in environmental samples by T-RFLP analysis of amoA PCR products. J. Microb. Methods 39:197-204.
    • (2000) J. Microb. Methods , vol.39 , pp. 197-204
    • Horz, H.-P.1    Rotthauwe, J.-H.2    Luckow, T.3    Liesack, W.4
  • 20
    • 0030661563 scopus 로고    scopus 로고
    • Characterization of microbial diversity by determining terminal restriction fragment length polymorphisms of genes encoding 16S rRNA
    • Liu, W.-T., T. L. Marsh, H. Cheng, and L. J. Forney. 1997. Characterization of microbial diversity by determining terminal restriction fragment length polymorphisms of genes encoding 16S rRNA. Appl. Environ. Microbiol. 63:4516-4522.
    • (1997) Appl. Environ. Microbiol. , vol.63 , pp. 4516-4522
    • Liu, W.-T.1    Marsh, T.L.2    Cheng, H.3    Forney, L.J.4
  • 21
    • 0344765523 scopus 로고    scopus 로고
    • Microbial community composition of Wadden Sea sediments as revealed by fluorescence in situ hybridization
    • Llobet-Brossa, E., R. Rosselló-Mora, and R. I. Amann. 1998. Microbial community composition of Wadden Sea sediments as revealed by fluorescence in situ hybridization. Appl. Environ. Microbiol. 64:2691-2696.
    • (1998) Appl. Environ. Microbiol. , vol.64 , pp. 2691-2696
    • Llobet-Brossa, E.1    Rosselló-Mora, R.2    Amann, R.I.3
  • 22
    • 0343503030 scopus 로고    scopus 로고
    • Spatial changes in the bacterial community structure along a vertical oxygen gradient in flooded paddy soil cores
    • Lüdemann, H., I. Arth, and W. Liesack. 2000. Spatial changes in the bacterial community structure along a vertical oxygen gradient in flooded paddy soil cores. Appl. Environ. Microbiol. 66:754-762.
    • (2000) Appl. Environ. Microbiol. , vol.66 , pp. 754-762
    • Lüdemann, H.1    Arth, I.2    Liesack, W.3
  • 24
    • 0032812081 scopus 로고    scopus 로고
    • Optimization of terminal-restriction fragment length polymorphism analysis for complex marine bacterioplankton communities and comparison with denaturing gradient gel electrophoresis
    • Moeseneder, M., J. M. Arrieta, G. Muyzer, C. Winter, and G. Herndl. 1999. Optimization of terminal-restriction fragment length polymorphism analysis for complex marine bacterioplankton communities and comparison with denaturing gradient gel electrophoresis. Appl. Environ. Microbiol. 65:3518-3525.
    • (1999) Appl. Environ. Microbiol. , vol.65 , pp. 3518-3525
    • Moeseneder, M.1    Arrieta, J.M.2    Muyzer, G.3    Winter, C.4    Herndl, G.5
  • 25
    • 0031847928 scopus 로고    scopus 로고
    • Diversity of deep-sea hydrothermal vent Archaea from Loihi Seamount, Hawaii
    • Moyer, C. L., J. M. Tiedje, F. C. Dobbs, and D. M. Karl. 1998. Diversity of deep-sea hydrothermal vent Archaea from Loihi Seamount, Hawaii. Deep-Sea Res. 45:303-317.
    • (1998) Deep-Sea Res. , vol.45 , pp. 303-317
    • Moyer, C.L.1    Tiedje, J.M.2    Dobbs, F.C.3    Karl, D.M.4
  • 26
    • 0025229493 scopus 로고
    • Organic matter diagenesis in the northeast Pacific: Transition from aerobic red clay to suboxic hemipelagic sediments
    • Murray, J. W., and K. M. Kuivila. 1990. Organic matter diagenesis in the northeast Pacific: transition from aerobic red clay to suboxic hemipelagic sediments. Deep-Sea Res. 37:59-80.
    • (1990) Deep-Sea Res. , vol.37 , pp. 59-80
    • Murray, J.W.1    Kuivila, K.M.2
  • 27
    • 42949153686 scopus 로고    scopus 로고
    • Life at high salt concentrations
    • M. Dworkin (ed.), Springer-Verlag, New York, N.Y.
    • Oren, A. 1999. Life at high salt concentrations. In M. Dworkin (ed.), The prokaryotes. Springer-Verlag, New York, N.Y. (http://rizzo.springer-ny.com: 6336/contents/.)
    • (1999) The Prokaryotes
    • Oren, A.1
  • 28
    • 0034547801 scopus 로고    scopus 로고
    • An evaluation of terminal-restriction fragment length polymorphism (T-RFLP) analysis for the study of microbial community structure and dynamics
    • Osborn, A. M., E. R. B. Moore, and K. N. Timmis. 2000. An evaluation of terminal-restriction fragment length polymorphism (T-RFLP) analysis for the study of microbial community structure and dynamics. Environ. Microbiol. 2:39-50.
    • (2000) Environ. Microbiol. , vol.2 , pp. 39-50
    • Osborn, A.M.1    Moore, E.R.B.2    Timmis, K.N.3
  • 29
    • 0034079104 scopus 로고    scopus 로고
    • Effect of soil aggregate size on methanogenesis and archaeal community structure in anoxic rice field soil
    • Ramakrishnan, B., T. Lueders, R. Conrad, and M. Friedrich. 2000. Effect of soil aggregate size on methanogenesis and archaeal community structure in anoxic rice field soil. FEMS Microbiol. Ecol. 32:261-270.
    • (2000) FEMS Microbiol. Ecol. , vol.32 , pp. 261-270
    • Ramakrishnan, B.1    Lueders, T.2    Conrad, R.3    Friedrich, M.4
  • 30
    • 0034071156 scopus 로고    scopus 로고
    • Horizontal heterogeneity of denitrifying bacterial communities in marine sediments by terminal restriction fragment length polymorphism analysis
    • Scala, D. J., and L. J. Kerkhof. 2000. Horizontal heterogeneity of denitrifying bacterial communities in marine sediments by terminal restriction fragment length polymorphism analysis. Appl. Environ. Microbiol. 66:1980-1986.
    • (2000) Appl. Environ. Microbiol. , vol.66 , pp. 1980-1986
    • Scala, D.J.1    Kerkhof, L.J.2
  • 31
    • 0348101665 scopus 로고    scopus 로고
    • The denitrifying prokarotes
    • M. Dworkin (ed.), Springer-Verlag, New York, N.Y.
    • Shapleigh, J. P. 1999. The denitrifying prokarotes. In M. Dworkin (ed.), The prokaryotes. Springer-Verlag, New York, N.Y. (http://rizzo.springer-ny.com: 6336/contents/.)
    • (1999) The Prokaryotes
    • Shapleigh, J.P.1
  • 32
    • 0002521330 scopus 로고
    • Ordination
    • R. H. G. Jongman, C. J. F. ter Braak, and O. F. R van Tongeren (ed.), Cambridge University Press, Cambridge, United Kingdom
    • ter Braak, C. J. F. 1995. Ordination, p. 91-105. In R. H. G. Jongman, C. J. F. ter Braak, and O. F. R van Tongeren (ed.), Data analysis in community and landscape ecology. Cambridge University Press, Cambridge, United Kingdom.
    • (1995) Data Analysis in Community and Landscape Ecology , pp. 91-105
    • Ter Braak, C.J.F.1
  • 34
    • 0002497474 scopus 로고
    • Extraction of microbial community DNA from soils
    • A. D. L. Akkermans, J. D. van Elsas, and F. J. de Bruijn (ed.), Kluwer Academic Publishers, Dordrecht, The Netherlands
    • van Elsas, J. D., and K. Smalla. 1995. Extraction of microbial community DNA from soils, p. 1.3.3/1-1.3.3/11. In A. D. L. Akkermans, J. D. van Elsas, and F. J. de Bruijn (ed.), Molecular microbial ecology manual. Kluwer Academic Publishers, Dordrecht, The Netherlands.
    • (1995) Molecular Microbial Ecology Manual , pp. 1331-13311
    • Van Elsas, J.D.1    Smalla, K.2
  • 35
    • 0026051050 scopus 로고
    • Importance of continental margins in the marine biogeochemical cycling of carbon and nitrogen
    • Walsh, J. J. 1991. Importance of continental margins in the marine biogeochemical cycling of carbon and nitrogen. Nature 350:53-55.
    • (1991) Nature , vol.350 , pp. 53-55
    • Walsh, J.J.1
  • 36
    • 0025366456 scopus 로고
    • 16S rRNA sequences reveal numerous uncultured microorganisms in a natural community
    • Ward, D. M., R. Weller, and M. M. Bateson. 1990. 16S rRNA sequences reveal numerous uncultured microorganisms in a natural community. Nature 345:63-65.
    • (1990) Nature , vol.345 , pp. 63-65
    • Ward, D.M.1    Weller, R.2    Bateson, M.M.3
  • 37
    • 35148814913 scopus 로고    scopus 로고
    • The methanogenic bacteria
    • M. Dworkin (ed.), Springer-Verlag, New York, N.Y.
    • Whitman, W. B., T. L. Bowen, and D. R. Boone. 1999. The methanogenic bacteria. In M. Dworkin (ed.), The prokaryotes. Springer-Verlag, New York, N.Y. (http://rizzo.springer-ny.com:6336/contents/.)
    • (1999) The Prokaryotes
    • Whitman, W.B.1    Bowen, T.L.2    Boone, D.R.3
  • 38
    • 0000266664 scopus 로고
    • The denitrifying prokaryotes
    • A. Balows, H. G. Trüper, M. Dworkin, W. Harder, and K.-H. Schleifer (ed.), Springer Verlag, New York, N.Y.
    • Zumft, W. G. 1992. The denitrifying prokaryotes, p. 554-582. In A. Balows, H. G. Trüper, M. Dworkin, W. Harder, and K.-H. Schleifer (ed.), The prokaryotes. Springer Verlag, New York, N.Y.
    • (1992) The Prokaryotes , pp. 554-582
    • Zumft, W.G.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.