메뉴 건너뛰기




Volumn 63, Issue 6, 2004, Pages 715-721

Use of the ammonia-oxidizing bacterial-specific phylogenetic probe Nso1225 as a primer for fingerprint analysis of ammonia-oxidizer communities

Author keywords

[No Author keywords available]

Indexed keywords

AMMONIA; MOLECULAR MARKER; RIBOSOME RNA;

EID: 1542376228     PISSN: 01757598     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00253-003-1433-1     Document Type: Article
Times cited : (26)

References (39)
  • 1
    • 0345004957 scopus 로고    scopus 로고
    • RFLP of rRNA genes and sequencing of the 16S-23S rDNA intergenic spacer region of ammonia-oxidizing bacteria: A phylogenetic approach
    • Aakra A, Utåker JB, Nes IF (1999a) RFLP of rRNA genes and sequencing of the 16S-23S rDNA intergenic spacer region of ammonia-oxidizing bacteria: a phylogenetic approach. Int J Syst Bacteriol 49:123-130
    • (1999) Int J Syst Bacteriol , vol.49 , pp. 123-130
    • Aakra, A.1    Utåker, J.B.2    Nes, I.F.3
  • 2
    • 0344562909 scopus 로고    scopus 로고
    • An evaluated improvement of the extinction dilution method for isolation of ammonia-oxidizing bacteria
    • Aakra A, Utåker JB, Nes IF, Bakken LR (1999b) An evaluated improvement of the extinction dilution method for isolation of ammonia-oxidizing bacteria. J Microbiol Methods 39:23-31
    • (1999) J Microbiol Methods , vol.39 , pp. 23-31
    • Aakra, A.1    Utåker, J.B.2    Nes, I.F.3    Bakken, L.R.4
  • 3
    • 0035201475 scopus 로고    scopus 로고
    • Detailed phylogeny of ammonia-oxidizing bacteria determined by rDNA sequences and DNA homology values
    • Aakra A, Utåker JB, Pömmerening-Roser A, Koops HP, Nes IF (2001) Detailed phylogeny of ammonia-oxidizing bacteria determined by rDNA sequences and DNA homology values. Int J Syst Evol Microbiol 51:2021-2030
    • (2001) Int J Syst Evol Microbiol , vol.51 , pp. 2021-2030
    • Aakra, A.1    Utåker, J.B.2    Pömmerening-Roser, A.3    Koops, H.P.4    Nes, I.F.5
  • 5
    • 0034016750 scopus 로고    scopus 로고
    • Diversity and distribution of DNA sequences with affinity to ammonia-oxidizing bacteria of the β-subdivision of the class Proteobacteria in the Arctic Ocean
    • Bano N, Hollibaugh JT (2000) Diversity and distribution of DNA sequences with affinity to ammonia-oxidizing bacteria of the β-subdivision of the class Proteobacteria in the Arctic Ocean. Appl Environ Microbiol 66:1960-1969
    • (2000) Appl Environ Microbiol , vol.66 , pp. 1960-1969
    • Bano, N.1    Hollibaugh, J.T.2
  • 6
    • 0033765459 scopus 로고    scopus 로고
    • Molecular analysis of ammonia oxidation and denitrification in natural environments
    • Bothe H, Jost G, Schloter M, Ward BB, Witzel K (2000) Molecular analysis of ammonia oxidation and denitrification in natural environments. FEMS Microbiol Rev 24:673-690
    • (2000) FEMS Microbiol Rev , vol.24 , pp. 673-690
    • Bothe, H.1    Jost, G.2    Schloter, M.3    Ward, B.B.4    Witzel, K.5
  • 7
    • 0035653625 scopus 로고    scopus 로고
    • Cultivation-independent, semiautomatic determination of absolute bacterial cell numbers in environmental samples by fluorescence in situ hybridization
    • Daims H, Ramsing NB, Schleifer KH, Wagner M (2001) Cultivation- independent, semiautomatic determination of absolute bacterial cell numbers in environmental samples by fluorescence in situ hybridization. Appl Environ Microbiol 67:5810-5818
    • (2001) Appl Environ Microbiol , vol.67 , pp. 5810-5818
    • Daims, H.1    Ramsing, N.B.2    Schleifer, K.H.3    Wagner, M.4
  • 8
    • 0035286749 scopus 로고    scopus 로고
    • Community structure and activity dynamics of nitrifying bacteria in a phosphate-removing biofilm
    • Gieseke A, Purkhold U, Wagner M, Amann R, Schramm A (2001) Community structure and activity dynamics of nitrifying bacteria in a phosphate-removing biofilm. Appl Environ Microbiol 67:1351-1362
    • (2001) Appl Environ Microbiol , vol.67 , pp. 1351-1362
    • Gieseke, A.1    Purkhold, U.2    Wagner, M.3    Amann, R.4    Schramm, A.5
  • 9
    • 0002051540 scopus 로고    scopus 로고
    • BioEdit: A user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT
    • Hall TA (1999) BioEdit:a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp Ser 41:95-98
    • (1999) Nucleic Acids Symp Ser , vol.41 , pp. 95-98
    • Hall, T.A.1
  • 10
    • 0027184336 scopus 로고
    • The phylogeny of autotrophic ammonium-oxidizing bacteria as determined by analysis of 16S ribosomal RNA gene sequences
    • Head IM, Hiorns WD, Embley TM, McCarthy AJ, Saunders JR (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
  • 11
    • 1542294841 scopus 로고    scopus 로고
    • Tree-Puzzle
    • Strimmer K, von Haeseler A, Schmidt (eds) Deutsches Krebsforschungszentrum (DKFZ), Heidelberg, Germany
    • Heiko A, Schmidt KS, Vingron M, von Haeseler A (2000) TREE-PUZZLE. In: Strimmer K, von Haeseler A, Schmidt (eds) Theoretical bioinformatics, 5.0 edn. Deutsches Krebsforschungszentrum (DKFZ), Heidelberg, Germany
    • (2000) Theoretical Bioinformatics, 5.0 Edn.
    • Heiko, A.1    Schmidt, K.S.2    Vingron, M.3    Von Haeseler, A.4
  • 12
    • 0035144174 scopus 로고    scopus 로고
    • Quantification of ammonia-oxidizing bacteria in arable soil by real-time PCR
    • Hermansson A, Lindgren PE (2001) Quantification of ammonia-oxidizing bacteria in arable soil by real-time PCR. Appl Environ Microbiol 67:972-976
    • (2001) Appl Environ Microbiol , vol.67 , pp. 972-976
    • Hermansson, A.1    Lindgren, P.E.2
  • 13
    • 0028883636 scopus 로고
    • Amplification of 16S ribosomal RNA genes of autotrophic ammonia-oxidizing bacteria demonstrates the ubiquity of Nitrosospiras in the environment
    • Hiorns WD, Hastings RC, Head IM, McCarthy AJ, Saunders JR, Pickup RW, Hall GH (1995) Amplification of 16S ribosomal RNA genes of autotrophic ammonia-oxidizing bacteria demonstrates the ubiquity of Nitrosospiras in the environment. Microbiology 141:2793-2800
    • (1995) Microbiology , vol.141 , pp. 2793-2800
    • Hiorns, W.D.1    Hastings, R.C.2    Head, I.M.3    McCarthy, A.J.4    Saunders, J.R.5    Pickup, R.W.6    Hall, G.H.7
  • 14
    • 0029669586 scopus 로고    scopus 로고
    • Comparative analysis of nitrifying bacteria associated with freshwater and marine aquaria
    • Hovanec TA, DeLong EF (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
    • 0032147190 scopus 로고    scopus 로고
    • Combined molecular and conventional analyses of nitrifying bacterium diversity in activated sludge: Nitrosococcus mobilis and Nitrospira-like bacteria as dominant populations
    • Juretschko S, Timmermann G, Schmid M, Schleifer KH, Pömmerening- Roser A, Koops HP, Wagner M (1998) Combined molecular and conventional analyses of nitrifying bacterium diversity in activated sludge: Nitrosococcus mobilis and Nitrospira-like bacteria as dominant populations. Appl Environ Microbiol 64:3042-3051
    • (1998) Appl Environ Microbiol , vol.64 , pp. 3042-3051
    • Juretschko, S.1    Timmermann, G.2    Schmid, M.3    Schleifer, K.H.4    Pömmerening- Roser, A.5    Koops, H.P.6    Wagner, M.7
  • 16
    • 0021986986 scopus 로고
    • Deoxyribonucleic acid homologies among 96 strains of ammonia-oxidizing bacteria
    • Koops HP, Harms H (1985) Deoxyribonucleic acid homologies among 96 strains of ammonia-oxidizing bacteria. Arch Microbiol 141:214-218
    • (1985) Arch Microbiol , vol.141 , pp. 214-218
    • Koops, H.P.1    Harms, H.2
  • 17
    • 0025768249 scopus 로고
    • Classification of eight new species of ammonia-oxidizing bacteria: Nitrosomonas communis sp. nov., Nitrosomonas ureae sp. nov., Nitrosomonas aestuarii sp. nov., Nitrosomonas marina sp. nov., Nitrosomonas nitrosa sp. nov., Nitrosomonas eutropha sp. nov., Nitrosomonas oligotropha sp. nov. and Nitrosomonas halophila sp. nov
    • Koops HP, Böttcher B, Möller UC, Pömmerening-Roser A, Stehr G (1991) Classification of eight new species of ammonia-oxidizing bacteria: Nitrosomonas communis sp. nov., Nitrosomonas ureae sp. nov., Nitrosomonas aestuarii sp. nov., Nitrosomonas marina sp. nov., Nitrosomonas nitrosa sp. nov., Nitrosomonas eutropha sp. nov., Nitrosomonas oligotropha sp. nov. and Nitrosomonas halophila sp. nov. J Gen Microbiol 137:1689-1699
    • (1991) J Gen Microbiol , vol.137 , pp. 1689-1699
    • Koops, H.P.1    Böttcher, B.2    Möller, U.C.3    Pömmerening-Roser, A.4    Stehr, G.5
  • 18
    • 0030901922 scopus 로고    scopus 로고
    • 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
    • Kowalchuk GA, Stephen JR, De Boer W, Prosser JI, Embley TM, Woldendorp JW (1997) 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. Appl Environ Microbiol 63:1489-1497
    • (1997) Appl Environ Microbiol , vol.63 , pp. 1489-1497
    • Kowalchuk, G.A.1    Stephen, J.R.2    De Boer, W.3    Prosser, J.I.4    Embley, T.M.5    Woldendorp, J.W.6
  • 19
    • 0032436805 scopus 로고    scopus 로고
    • Community analysis of ammonia-oxidizing bacteria, in relation to oxygen availability in soils and root-oxygenated sediments, using PCR, DGGE and oligonucleotide probe hybridization
    • Kowalchuk GA, Bodelier PL, Hans G, Heilig J, Stephen JR, J. LH (1998) Community analysis of ammonia-oxidizing bacteria, in relation to oxygen availability in soils and root-oxygenated sediments, using PCR, DGGE and oligonucleotide probe hybridization. FEMS Microbiol Ecol 27:339-350
    • (1998) FEMS Microbiol Ecol , vol.27 , pp. 339-350
    • Kowalchuk, G.A.1    Bodelier, P.L.2    Hans, G.3    Heilig, J.4    Stephen, J.R.5
  • 20
    • 0034009793 scopus 로고    scopus 로고
    • Molecular analysis of ammonia-oxidizing bacteria in soil of successional grasslands of the Drentsche A (The Netherlands)
    • Kowalchuk GA, Stienstra AW, Heilig GH, Stephen JR, Woldendorp JW (2000) Molecular analysis of ammonia-oxidizing bacteria in soil of successional grasslands of the Drentsche A (The Netherlands). FEMS Microbiol Ecol 31:207-215
    • (2000) FEMS Microbiol Ecol , vol.31 , pp. 207-215
    • Kowalchuk, G.A.1    Stienstra, A.W.2    Heilig, G.H.3    Stephen, J.R.4    Woldendorp, J.W.5
  • 22
    • 0001857117 scopus 로고
    • 16S/23S rRNA sequencing
    • Goodfellows Sa (ed) Wiley, Chichester
    • Lane DJ (1991) 16S/23S rRNA sequencing. In: Goodfellows Sa (ed) Nucleic acid techniques in bacterial systematics. Wiley, Chichester, pp 177-204
    • (1991) Nucleic Acid Techniques in Bacterial Systematics , pp. 177-204
    • Lane, D.J.1
  • 23
    • 0016671427 scopus 로고
    • Length of incubation for enumerating nitrifying bacteria present in various environments
    • Matulewich VA, Strom PF, Finstein MS (1975) Length of incubation for enumerating nitrifying bacteria present in various environments. Appl. Microbiol. 29:265-268
    • (1975) Appl. Microbiol. , vol.29 , pp. 265-268
    • Matulewich, V.A.1    Strom, P.F.2    Finstein, M.S.3
  • 24
    • 0028240270 scopus 로고
    • Molecular analysis of enrichment cultures of marine ammonia oxidizers
    • McCaig AE, Embley TM, Prosser JI (1994) Molecular analysis of enrichment cultures of marine ammonia oxidizers. FEMS Microbiol Lett 120:363-367
    • (1994) FEMS Microbiol Lett , vol.120 , pp. 363-367
    • McCaig, A.E.1    Embley, T.M.2    Prosser, J.I.3
  • 26
    • 0030001221 scopus 로고    scopus 로고
    • Phylogenetic probes for analyzing abundance and spatial organization of nitrifying bacteria
    • Mobarry BK, Wagner M, Urbain V, Rittmann BE, Stahl DA (1996) Phylogenetic probes for analyzing abundance and spatial organization of nitrifying bacteria. Appl Environ Microbiol 62:2156-2162
    • (1996) Appl Environ Microbiol , vol.62 , pp. 2156-2162
    • Mobarry, B.K.1    Wagner, M.2    Urbain, V.3    Rittmann, B.E.4    Stahl, D.A.5
  • 27
    • 0030901223 scopus 로고    scopus 로고
    • Errata Phylogenetic probes for analyzing abundance and spatial organization of nitrifying bacteria
    • Mobarry BK, Wagner M, Urbain V, Rittmann BE, Stahl DA (1997) (Errata) Phylogenetic probes for analyzing abundance and spatial organization of nitrifying bacteria. Appl Environ Microbiol 63:815
    • (1997) Appl Environ Microbiol , vol.63 , pp. 815
    • Mobarry, B.K.1    Wagner, M.2    Urbain, V.3    Rittmann, B.E.4    Stahl, D.A.5
  • 28
    • 33646236070 scopus 로고    scopus 로고
    • Purification and concentration of DNA from aqueous solutions
    • Ausubel FM, Brent R, Kingston RE, Moore DD, Seidman GJ, Smith JA, Struhl K (eds) Wiley, Chichester
    • Moore DD (1996) Purification and concentration of DNA from aqueous solutions. In: Ausubel FM, Brent R, Kingston RE, Moore DD, Seidman GJ, Smith JA, Struhl K (eds) Current protocols in molecular biology. Wiley, Chichester, pp 2.1.1-2.1.10
    • (1996) Current Protocols in Molecular Biology , pp. 211-2110
    • Moore, D.D.1
  • 29
    • 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, de Waal EC, Uitterlinden AG (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
  • 30
    • 0034466757 scopus 로고    scopus 로고
    • Phylogeny of all recognized species of ammonia oxidizers based on comparative 16S rRNA and amoA sequence analysis: Implications for molecular diversity surveys
    • Purkhold U, Pömmerening-Roser A, Juretschko S, Schmid MC, Koops HP, Wagner M (2000) Phylogeny of all recognized species of ammonia oxidizers based on comparative 16S rRNA and amoA sequence analysis: implications for molecular diversity surveys. Appl Environ Microbiol 66:5368-5382
    • (2000) Appl Environ Microbiol , vol.66 , pp. 5368-5382
    • Purkhold, U.1    Pömmerening-Roser, A.2    Juretschko, S.3    Schmid, M.C.4    Koops, H.P.5    Wagner, M.6
  • 31
    • 0036135781 scopus 로고    scopus 로고
    • Ammonia- and nitrite-oxidizing bacterial communities in a pilot-scale chloraminated drinking water distribution system
    • Regan JM, Harrington GW, Noguera DR (2002) Ammonia-and nitrite-oxidizing bacterial communities in a pilot-scale chloraminated drinking water distribution system. Appl Environ Microbiol 68:73-81
    • (2002) Appl Environ Microbiol , vol.68 , pp. 73-81
    • Regan, J.M.1    Harrington, G.W.2    Noguera, D.R.3
  • 32
    • 0002211974 scopus 로고
    • Partial and complete 16S rDNA sequences, their use in generation of 16S rDNA phylogenetic trees and their implications in molecular ecological studies
    • vol. 3.1.1. Kluwer, The Netherlands
    • Stackebrandt E, Rainey FA (1995) Partial and complete 16S rDNA sequences, their use in generation of 16S rDNA phylogenetic trees and their implications in molecular ecological studies. In: Molecular microbial ecology manual, vol. 3.1.1. Kluwer, The Netherlands, pp 1-17
    • (1995) Molecular Microbial Ecology Manual , pp. 1-17
    • Stackebrandt, E.1    Rainey, F.A.2
  • 33
    • 0029805297 scopus 로고    scopus 로고
    • Molecular diversity of soil and marine 16S rRNA gene sequences related to β-subgroup ammonia-oxidizing bacteria
    • Stephen JR, McCaig AE, Smith Z, Proser JI, Embley TM (1996) Molecular diversity of soil and marine 16S rRNA gene 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    Proser, J.I.4    Embley, T.M.5
  • 34
  • 35
    • 2642611982 scopus 로고    scopus 로고
    • A qualitative evaluation of the published oligonucleotides specific for the 16S rRNA gene sequences of the ammonia-oxidizing bacteria
    • Utåker JB, Nes IF (1998) A qualitative evaluation of the published oligonucleotides specific for the 16S rRNA gene sequences of the ammonia-oxidizing bacteria. Syst Appl Microbiol 21:72-88
    • (1998) Syst Appl Microbiol , vol.21 , pp. 72-88
    • Utåker, J.B.1    Nes, I.F.2
  • 36
    • 0030040940 scopus 로고
    • Phylogenetic analysis of seven new isolates of ammonia-oxidizing bacteria based on 16S rRNA gene sequences
    • Utåker JB, Bakken L, Jiang QQ, Nes IF (1995) Phylogenetic analysis of seven new isolates of ammonia-oxidizing bacteria based on 16S rRNA gene sequences. Syst Appl Microbiol 18:549-559
    • (1995) Syst Appl Microbiol , vol.18 , pp. 549-559
    • Utåker, J.B.1    Bakken, L.2    Jiang, Q.Q.3    Nes, I.F.4
  • 37
    • 0028916453 scopus 로고
    • Detection of ammonium-oxidizing bacteria of the β-subclass of the class Proteobacteria in aquatic samples with the PCR
    • Voytek MA, Ward BB (1995) Detection of ammonium-oxidizing bacteria of the β-subclass of the class Proteobacteria in aquatic samples with the PCR. Appl Environ Microbiol 61:2811
    • (1995) Appl Environ Microbiol , vol.61 , pp. 2811
    • Voytek, M.A.1    Ward, B.B.2
  • 39
    • 0033916918 scopus 로고    scopus 로고
    • Analysis of ammonia-oxidizing bacteria from hypersaline Mono Lake, California, on the basis of 16S rRNA sequences
    • Ward BB, Martino DP, Diaz MC, Joye SB (2000) Analysis of ammonia-oxidizing bacteria from hypersaline Mono Lake, California, on the basis of 16S rRNA sequences. Appl Environ Microbiol 66:2873-2881
    • (2000) Appl Environ Microbiol , vol.66 , pp. 2873-2881
    • Ward, B.B.1    Martino, D.P.2    Diaz, M.C.3    Joye, S.B.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.