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Volumn 63, Issue 4, 1997, Pages 1489-1497

Analysis of ammonia-oxidizing bacteria of the β subdivision of the class Proteobacteria in coastal sand dunes by denaturing gradient gel electrophoresis and sequencing of PCR-amplified 16S ribosomal DNA fragments

Author keywords

[No Author keywords available]

Indexed keywords

AMMONIA; RIBOSOME DNA;

EID: 0030901922     PISSN: 00992240     EISSN: None     Source Type: Journal    
DOI: 10.1128/aem.63.4.1489-1497.1997     Document Type: Article
Times cited : (729)

References (45)
  • 1
    • 0018401930 scopus 로고
    • Population ecology of nitrifying bacteria
    • Belser, L. W. 1979. Population ecology of nitrifying bacteria. Annu. Rev. Microbiol. 33:309-333.
    • (1979) Annu. Rev. Microbiol. , vol.33 , pp. 309-333
    • Belser, L.W.1
  • 2
    • 0001861914 scopus 로고
    • The biology of nitrifying organisms
    • J. M. Shirley and L. L. Barton (ed.), Academic Press, Ltd., London, United Kingdom
    • Bock, E., H.-P. Koops, H. Harms, and B. Ahlers. 1991. The biology of nitrifying organisms, p. 171-200. In J. M. Shirley and L. L. Barton (ed.), Variations in autotrophic life. Academic Press, Ltd., London, United Kingdom.
    • (1991) Variations in Autotrophic Life , pp. 171-200
    • Bock, E.1    Koops, H.-P.2    Harms, H.3    Ahlers, B.4
  • 3
    • 0019513663 scopus 로고
    • Gene organization and primary structure of a ribosomal RNA opcron from Escherichia coli
    • Brosius, J., T. L. Dull, D. D. Sleeter, and H. F. Noller. 1981. Gene organization and primary structure of a ribosomal RNA opcron from Escherichia coli. J. Mol. Biol. 148:107-127.
    • (1981) J. Mol. Biol. , vol.148 , pp. 107-127
    • Brosius, J.1    Dull, T.L.2    Sleeter, D.D.3    Noller, H.F.4
  • 4
    • 0001203261 scopus 로고
    • Ureolytic nitrification at low pH by Nitrosospira spec
    • De Boer, W., and H. J. Laanbroek. 1989. Ureolytic nitrification at low pH by Nitrosospira spec. Arch. Microbiol. 152:935-941.
    • (1989) Arch. Microbiol. , vol.152 , pp. 935-941
    • De Boer, W.1    Laanbroek, H.J.2
  • 6
    • 0029138062 scopus 로고
    • Ammonium-oxidation by a chemolithotrophic bacterium belonging to the genus Nitrosospira
    • De Boer, W., P. J. A. Klein Gunnewiek, and H. J. Laanbroek. 1995. Ammonium-oxidation by a chemolithotrophic bacterium belonging to the genus Nitrosospira. Soil Biol. Biochem. 27:127-132.
    • (1995) Soil Biol. Biochem. , vol.27 , pp. 127-132
    • De Boer, W.1    Klein Gunnewiek, P.J.A.2    Laanbroek, H.J.3
  • 7
    • 0024444791 scopus 로고
    • Isolation and direct complete nucleotide determination of entire genes. Characterization of a gene coding for 16S ribosomal RNA
    • Edwards, U., T. Rogall, H. Blöcker, M. Emde and E. C. Böttger. 1989. Isolation and direct complete nucleotide determination of entire genes. Characterization of a gene coding for 16S ribosomal RNA. Nucleic Acids Res. 17:7843-7853.
    • (1989) Nucleic Acids Res. , vol.17 , pp. 7843-7853
    • Edwards, U.1    Rogall, T.2    Blöcker, H.3    Emde, M.4    Böttger, E.C.5
  • 9
    • 0030063913 scopus 로고    scopus 로고
    • Denaturing gradient gel electrophoresis profiles of 16S rRNA-defined populations inhabiting a hot spring microbial mat community
    • Ferris, M. J., G. Muyzer, and D. M. Ward. 1996. Denaturing gradient gel electrophoresis profiles of 16S rRNA-defined populations inhabiting a hot spring microbial mat community. Appl. Environ. Microbiol. 62:340-146.
    • (1996) Appl. Environ. Microbiol. , vol.62 , pp. 340-1146
    • Ferris, M.J.1    Muyzer, G.2    Ward, D.M.3
  • 10
    • 0028159914 scopus 로고
    • Development of the nitrogen cycle in the soils of a coastal dune succession
    • Gerlach, A., E. A. Albers, and W. Broedlin. 1994. Development of the nitrogen cycle in the soils of a coastal dune succession. Acta Bot. Neerl. 43:189-203.
    • (1994) Acta Bot. Neerl. , vol.43 , pp. 189-203
    • Gerlach, A.1    Albers, E.A.2    Broedlin, W.3
  • 11
    • 0003626440 scopus 로고
    • Bloomington, Indiana. Available from the author
    • Gilbert, D. G. 1993. SeqApp sequence alignment editor. Bloomington, Indiana. (Available from the author at ftp.bio.indiana.edu.)
    • (1993) SeqApp Sequence Alignment Editor
    • Gilbert, D.G.1
  • 12
    • 0027184336 scopus 로고
    • The phylogeny of autotrophic ammonium-oxidizing bacteria as determined by analysis of 16S ribosomal RNA gene sequences
    • Head, I. M., W. D. Hiorns, T. M. Embley, A. J. McCarthy, and J. R. Saunders. 1993. The phylogeny of autotrophic ammonium-oxidizing bacteria as determined by analysis of 16S ribosomal RNA gene sequences. J. Gen. Microbiol. 139:1147-1153.
    • (1993) J. Gen. Microbiol. , vol.139 , pp. 1147-1153
    • Head, I.M.1    Hiorns, W.D.2    Embley, T.M.3    McCarthy, A.J.4    Saunders, J.R.5
  • 14
    • 0029669586 scopus 로고    scopus 로고
    • Comparative analysis of nitrifying bacteria associated with freshwater and marine aquaria
    • Hovanec, T. A., and E. F. DeLong. 1996. Comparative analysis of nitrifying bacteria associated with freshwater and marine aquaria. Appl. Environ. Microbiol. 62:2888-2896.
    • (1996) Appl. Environ. Microbiol. , vol.62 , pp. 2888-2896
    • Hovanec, T.A.1    DeLong, E.F.2
  • 15
    • 0000732090 scopus 로고
    • Evolution of protein molecules
    • H. N. Munro (ed.), Academic Press, Inc., New York, N.Y.
    • Jukes, T. H., and C. R. Cantor. 1969. Evolution of protein molecules, p. 21-132. In H. N. Munro (ed.), Mammalian protein metabolism. Academic Press, Inc., New York, N.Y.
    • (1969) Mammalian Protein Metabolism , pp. 21-132
    • Jukes, T.H.1    Cantor, C.R.2
  • 19
    • 0029875526 scopus 로고    scopus 로고
    • Screening of differentially amplified cDNA products from RNA arbitrarily primed PCR fingerprints using single strand conformational polymorphism (SSCP) gels
    • Mathieu-Daude, F., R. Cheng, J. Welsh, and M. McClelland. 1996. Screening of differentially amplified cDNA products from RNA arbitrarily primed PCR fingerprints using single strand conformational polymorphism (SSCP) gels. Nucleic Acids Res. 24:1504-1507.
    • (1996) Nucleic Acids Res. , vol.24 , pp. 1504-1507
    • Mathieu-Daude, F.1    Cheng, R.2    Welsh, J.3    McClelland, M.4
  • 20
    • 0028240270 scopus 로고
    • Molecular analysis of enrichment cultures of marine ammonium oxidisers
    • McCaig, A. E., T. M. Embley, and J. I. Prosser. 1994. Molecular analysis of enrichment cultures of marine ammonium oxidisers. FEMS Microbiol. Lett. 120:363-368.
    • (1994) FEMS Microbiol. Lett. , vol.120 , pp. 363-368
    • McCaig, A.E.1    Embley, T.M.2    Prosser, J.I.3
  • 21
    • 0030001221 scopus 로고    scopus 로고
    • Phylogenetic probes for analyzing abundance and spatial organization of nitrifying bacteria
    • Mobarry, B. K., M. Wagner, V. Urbain, B. E. Rittmann, and D. A. Stahl. 1996. Phylogenetic probes for analyzing abundance and spatial organization of nitrifying bacteria. Appl. Environ. Microbiol. 62:2156-216.
    • (1996) Appl. Environ. Microbiol. , vol.62 , pp. 2156-2216
    • Mobarry, B.K.1    Wagner, M.2    Urbain, V.3    Rittmann, B.E.4    Stahl, D.A.5
  • 22
    • 0027460328 scopus 로고
    • Profiling 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 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
  • 23
    • 0001868071 scopus 로고
    • Denaturing gradient gel electrophoresis of PCR-amplified 16S rDNA. A new molecular approach to analyze the genetic diversity of mixed microbial communities, chapter 3.4.4
    • A. D. I. Akkermans, J. D. Van Elsas, and F. J. De Bruijn (ed.), Kluwer Academic Publishers, Dordrecht, The Netherlands
    • Muyzer, G., S. Hottentrager, A. Teske, and C. Wawer. 1995. Denaturing gradient gel electrophoresis of PCR-amplified 16S rDNA. A new molecular approach to analyze the genetic diversity of mixed microbial communities, chapter 3.4.4. In A. D. I. 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
    • Muyzer, G.1    Hottentrager, S.2    Teske, A.3    Wawer, C.4
  • 24
    • 0023476285 scopus 로고
    • Detection and localization of single base changes by denaturing gradient electrophoresis
    • Myers, R. M., T. Maniatis, and L. S. Lerman. 1987. Detection and localization of single base changes by denaturing gradient electrophoresis. Methods Enzymol. 155:501-527.
    • (1987) Methods Enzymol. , vol.155 , pp. 501-527
    • Myers, R.M.1    Maniatis, T.2    Lerman, L.S.3
  • 25
    • 0343822537 scopus 로고
    • National Collections of Industrial and Marine Bacteria Ltd., Aberdeen, Scotland
    • National Collections of Industrial and Marine Bacteria. 1994. NCIMB catalogue of strains. National Collections of Industrial and Marine Bacteria Ltd., Aberdeen, Scotland.
    • (1994) NCIMB Catalogue of Strains
  • 28
    • 0024822090 scopus 로고
    • Autotrophic nitrification in bacteria
    • Prosser, J. I. 1989. Autotrophic nitrification in bacteria. Adv. Microbiol. Physiol. 30:125-181.
    • (1989) Adv. Microbiol. Physiol. , vol.30 , pp. 125-181
    • Prosser, J.I.1
  • 29
    • 0023375195 scopus 로고
    • The neighbor-joining method: A new method for reconstructing phylogenetic trees
    • Saitou, N., and M. Nei. 1987. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 4:406-425.
    • (1987) Mol. Biol. Evol. , vol.4 , pp. 406-425
    • Saitou, N.1    Nei, M.2
  • 31
    • 0000023099 scopus 로고
    • Attachment of a 40-base pair G+C-rich sequence (GC-clamp) to genomic DNa fragments by the polymerase chain reaction results in improved detection of single-base changes
    • Sheffield, V. C., D. R. Cox, L. S. Lerman, and R. M. Myers. 1987. Attachment of a 40-base pair G+C-rich sequence (GC-clamp) to genomic DNA fragments by the polymerase chain reaction results in improved detection of single-base changes. Proc. Natl. Acad. Sci. USA 86:232-236.
    • (1987) Proc. Natl. Acad. Sci. USA , vol.86 , pp. 232-236
    • Sheffield, V.C.1    Cox, D.R.2    Lerman, L.S.3    Myers, R.M.4
  • 33
    • 0029805297 scopus 로고    scopus 로고
    • Molecular diversity of soil and marine 16S rDNA sequences related to β-subgroup ammonia-oxidizing bacteria
    • Stephen, J. R., A. E. McCaig, Z. Smith, J. I. Prosser, and T. M. Embley. 1996. Molecular diversity of soil and marine 16S rDNA sequences related to β-subgroup ammonia-oxidizing bacteria. Appl. Environ. Microbiol. 62:4147-4154.
    • (1996) Appl. Environ. Microbiol. , vol.62 , pp. 4147-4154
    • Stephen, J.R.1    McCaig, A.E.2    Smith, Z.3    Prosser, J.I.4    Embley, T.M.5
  • 34
    • 0030067991 scopus 로고    scopus 로고
    • Bias caused by template annealing in the amplification of mixtures of 16S rRNA genes by PCR
    • Suzuki, M. T., and S. J. Giovannoni. 1996. Bias caused by template annealing in the amplification of mixtures of 16S rRNA genes by PCR. Appl. Environ. Microbiol. 62:625-630.
    • (1996) Appl. Environ. Microbiol. , vol.62 , pp. 625-630
    • Suzuki, M.T.1    Giovannoni, S.J.2
  • 35
    • 0029667164 scopus 로고    scopus 로고
    • Distribution of sulfate-reducing bacteria in a stratified fjord (Mariager Fjord, Denmark) as evaluated by most-probable-number counts and denaturing gradient gel electrophoresis of PCR-amplified ribosomal DNA fragments
    • Teske, A., C. Wawer, G. Muyzer, and N. B. Ramsing. 1996. Distribution of sulfate-reducing bacteria in a stratified fjord (Mariager Fjord, Denmark) as evaluated by most-probable-number counts and denaturing gradient gel electrophoresis of PCR-amplified ribosomal DNA fragments. Appl. Environ. Microbiol. 62:1405-1415.
    • (1996) Appl. Environ. Microbiol. , vol.62 , pp. 1405-1415
    • Teske, A.1    Wawer, C.2    Muyzer, G.3    Ramsing, N.B.4
  • 36
    • 0028079873 scopus 로고
    • Evolutionary relationships among ammonia- And nitrite-oxidizing bacteria
    • Teske, A., E. Elm, J. M. Regan, S. Toze, B. E. Rittmann, and D. A. Stahl. 1994. Evolutionary relationships among ammonia-and nitrite-oxidizing bacteria. J. Bacteriol. 176:6623-6630.
    • (1994) J. Bacteriol. , vol.176 , pp. 6623-6630
    • Teske, A.1    Elm, E.2    Regan, J.M.3    Toze, S.4    Rittmann, B.E.5    Stahl, D.A.6
  • 37
    • 0025670980 scopus 로고
    • Nitrification in Dutch heathland soils. I. General soil characteristics and nitrification in undisturbed soil cores
    • Troelstra, S. R., R. Wagenaar, and W. De Boer. 1990. Nitrification in Dutch heathland soils. I. General soil characteristics and nitrification in undisturbed soil cores. Plant Soil 127:179-142.
    • (1990) Plant Soil , vol.127 , pp. 179-1142
    • Troelstra, S.R.1    Wagenaar, R.2    De Boer, W.3
  • 38
    • 0030040940 scopus 로고    scopus 로고
    • Phylogenetic analysis of seven new isolates of ammonia-oxidising bacteria based on 16S rRNA gene sequences
    • Utäker, J. B., L. Bakken, Q. Q. Jiang, and I. F. Nes. 1996. Phylogenetic analysis of seven new isolates of ammonia-oxidising bacteria based on 16S rRNA gene sequences. Syst. Appl. Microbiol. 18:549-559.
    • (1996) Syst. Appl. Microbiol. , vol.18 , pp. 549-559
    • Utäker, J.B.1    Bakken, L.2    Jiang, Q.Q.3    Nes, I.F.4
  • 40
    • 0028916453 scopus 로고
    • Detection of ammonium-oxidizing bacteria in the beta-subclass of the class Proteobacteria in aquatic samples with the PCR
    • Voytek, M. A., and B. B. Ward. 1995. Detection of ammonium-oxidizing bacteria in the beta-subclass of the class Proteobacteria in aquatic samples with the PCR. Appl. Environ. Microbiol. 61:1444-1450.
    • (1995) Appl. Environ. Microbiol. , vol.61 , pp. 1444-1450
    • Voytek, M.A.1    Ward, B.B.2
  • 42
    • 0025923821 scopus 로고
    • Chelex 100 as a medium for simple extraction of DNA for PCR-hased typing from forensic material
    • Walsh, P. S., D. A. Metzger, and R. Higuchi. 1991. Chelex 100 as a medium for simple extraction of DNA for PCR-hased typing from forensic material. BioTechniques 10:506-513.
    • (1991) BioTechniques , vol.10 , pp. 506-513
    • Walsh, P.S.1    Metzger, D.A.2    Higuchi, R.3
  • 43
    • 0029077890 scopus 로고
    • Genetic diversity of Desulfovibrio spp. in environmental samples analyzed by denaturing gradient gel electrophoresis of (NiFe) hydrogenase gene fragments
    • Wawer, C., and G. Muyzer. 1995. Genetic diversity of Desulfovibrio spp. in environmental samples analyzed by denaturing gradient gel electrophoresis of (NiFe) hydrogenase gene fragments. Appl. Environ. Microbiol. 61:2203-2210.
    • (1995) Appl. Environ. Microbiol. , vol.61 , pp. 2203-2210
    • Wawer, C.1    Muyzer, G.2


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