메뉴 건너뛰기




Volumn 52, Issue 4, 2006, Pages 427-431

Molecular analysis of the ammonia oxidizing bacterial community in the surface soil layer of a Japanese paddy field

Author keywords

Ammonia oxidizing bacteria; amoA; DGGE; Nitrosospira; Surface paddy soil

Indexed keywords

BACTERIA (MICROORGANISMS); NITROSOMONADALES; NITROSOMONAS; NITROSOSPIRA;

EID: 33746445959     PISSN: 00380768     EISSN: 17470765     Source Type: Journal    
DOI: 10.1111/j.1747-0765.2006.00058.x     Document Type: Article
Times cited : (20)

References (26)
  • 1
    • 0344562909 scopus 로고    scopus 로고
    • An evaluated improvement of the extinction dilution method for isolation of ammonia-oxidizing bacteria
    • Aakra A, Utaker JB, Nes IF, Bakken LR 1999: An evaluated improvement of the extinction dilution method for isolation of ammonia-oxidizing bacteria. J. Microbiol. Meth., 39, 23-31.
    • (1999) J. Microbiol. Meth. , vol.39 , pp. 23-31
    • Aakra, A.1    Utaker, J.B.2    Nes, I.F.3    Bakken, L.R.4
  • 2
    • 0142040853 scopus 로고    scopus 로고
    • Patterns of community change among ammonia oxidizers in meadow soils upon long term incubation at different temperatures
    • Avrahami S, Conrad R 2003: Patterns of community change among ammonia oxidizers in meadow soils upon long term incubation at different temperatures. Appl. Environ. Microbiol., 69, 6152-6164.
    • (2003) Appl. Environ. Microbiol. , vol.69 , pp. 6152-6164
    • Avrahami, S.1    Conrad, R.2
  • 3
    • 0042197522 scopus 로고    scopus 로고
    • Effects of temperature and fertilizer on activity and community of soil ammonia oxidizers
    • Avrahami S, Liesack W, Conrad R 2003: Effects of temperature and fertilizer on activity and community of soil ammonia oxidizers. Environ. Microbiol., 5, 5691-5705.
    • (2003) Environ. Microbiol. , vol.5 , pp. 5691-5705
    • Avrahami, S.1    Liesack, W.2    Conrad, R.3
  • 4
    • 23944433934 scopus 로고    scopus 로고
    • Loss of variability of ammonia-oxidizing bacteria correlates with increasing salinity in an estuary system
    • Bernhard AE, Donn T, Giblin AE, Stahl DA 2005: Loss of variability of ammonia-oxidizing bacteria correlates with increasing salinity in an estuary system. Environ. Microbiol., 7, 1289-1297.
    • (2005) Environ. Microbiol. , vol.7 , pp. 1289-1297
    • Bernhard, A.E.1    Donn, T.2    Giblin, A.E.3    Stahl, D.A.4
  • 5
    • 0036276617 scopus 로고    scopus 로고
    • Influence of different cultivars on populations of ammonia oxidizing bacteria in the root environment of rice
    • Briones AM, Okabe S, Umemiya Y, Ramsing NB, Reichardt W, Okuyama H 2002: Influence of different cultivars on populations of ammonia oxidizing bacteria in the root environment of rice. Appl. Environ. Microbiol., 68, 3067-3075.
    • (2002) Appl. Environ. Microbiol. , vol.68 , pp. 3067-3075
    • Briones, A.M.1    Okabe, S.2    Umemiya, Y.3    Ramsing, N.B.4    Reichardt, W.5    Okuyama, H.6
  • 6
    • 0030790950 scopus 로고    scopus 로고
    • Direct molecular biological analysis of ammonia oxidizing bacteria populations in cultivated soil plots treated with swine manure
    • Hastings RC, Ceccherini MT, Michlaus N et al. 1997: Direct molecular biological analysis of ammonia oxidizing bacteria populations in cultivated soil plots treated with swine manure. FEMS Microbiol. Ecol., 23, 45-54.
    • (1997) FEMS Microbiol. Ecol. , vol.23 , pp. 45-54
    • Hastings, R.C.1    Ceccherini, M.T.2    Michlaus, N.3
  • 7
    • 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 AJ et al. 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, A.J.3
  • 9
    • 0142038908 scopus 로고    scopus 로고
    • Phylogenetic study on CTO primer amplified ammonia oxidizing bacteria and β-Proteobacteria associated with rice roots grown in a flooded paddy soil
    • Ikenaga M, Asakawa S, Muraoka Y, Kimura M 2003: Phylogenetic study on CTO primer amplified ammonia oxidizing bacteria and β-Proteobacteria associated with rice roots grown in a flooded paddy soil. Soil Sci. Plant Nutr., 49, 719-727.
    • (2003) Soil Sci. Plant Nutr. , vol.49 , pp. 719-727
    • Ikenaga, M.1    Asakawa, S.2    Muraoka, Y.3    Kimura, M.4
  • 10
    • 0002891608 scopus 로고    scopus 로고
    • Anaerobic microbiology in waterlogged rice fields
    • Eds J Bollag and G Stotzky, Marcel Dekker, New York
    • Kimura M 2000: Anaerobic microbiology in waterlogged rice fields. In Soil Biochemistry, Eds J Bollag and G Stotzky, pp. 35-138. Marcel Dekker, New York.
    • (2000) Soil Biochemistry , pp. 35-138
    • Kimura, M.1
  • 11
    • 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, Emberly TM, Woldendrop 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    Emberly, T.M.5    Woldendrop, J.W.6
  • 12
    • 0034548634 scopus 로고    scopus 로고
    • Changes in the community structure of ammonia oxidizing bacteria during secondary succession of calcareous grasslands
    • Kowalchuk GA, Stienstra AW, Heilig GHJ, Stephen JR, Woldendrop JW 2000: Changes in the community structure of ammonia oxidizing bacteria during secondary succession of calcareous grasslands. Environ. Microbiol., 2, 99-100.
    • (2000) Environ. Microbiol. , vol.2 , pp. 99-100
    • Kowalchuk, G.A.1    Stienstra, A.W.2    Heilig, G.H.J.3    Stephen, J.R.4    Woldendrop, J.W.5
  • 14
    • 0346401146 scopus 로고    scopus 로고
    • Molecular analysis of β-proteobacterial ammonia oxidizer populations in surface layers of a submerged paddy soil microcosm
    • Murase J, Itoh K, Kano M, Kimura M 2003: Molecular analysis of β-proteobacterial ammonia oxidizer populations in surface layers of a submerged paddy soil microcosm. Soil Sci. Plant Nutr. 49, 909-913.
    • (2003) Soil Sci. Plant Nutr. , vol.49 , pp. 909-913
    • Murase, J.1    Itoh, K.2    Kano, M.3    Kimura, M.4
  • 15
    • 33645183226 scopus 로고    scopus 로고
    • Denaturing gel electrophoresis (DGGE) in microbial ecology
    • Eds GA Kowalchuck, FJ de Bruijn, IM Head, ADL Akkermans, J Dirk van Elasas, Kluwer Academic Publishers, Dordrecht
    • Muyzer G, Brinkhoff T, Nubel U, santegoeds C, Schafer H, Wawer C 2004: Denaturing gel electrophoresis (DGGE) in microbial ecology. In Molecular Microbial Ecology Manual, 2nd edn, Eds GA Kowalchuck, FJ de Bruijn, IM Head, ADL Akkermans, J Dirk van Elasas, pp. 743-770. Kluwer Academic Publishers, Dordrecht.
    • (2004) Molecular Microbial Ecology Manual, 2nd Edn , pp. 743-770
    • Muyzer, G.1    Brinkhoff, T.2    Nubel, U.3    Santegoeds, C.4    Schafer, H.5    Wawer, C.6
  • 16
    • 0036242855 scopus 로고    scopus 로고
    • Denaturing gradient gel electrophoresis (DGGE) approaches to study the diversity of ammonia-oxidizing bacteria
    • Nicolaisen MH, Ramsing NB 2002: Denaturing gradient gel electrophoresis (DGGE) approaches to study the diversity of ammonia-oxidizing bacteria. J. Microbiol. Meth., 50, 189-203.
    • (2002) J. Microbiol. Meth. , vol.50 , pp. 189-203
    • Nicolaisen, M.H.1    Ramsing, N.B.2
  • 17
    • 4344569176 scopus 로고    scopus 로고
    • Nitrification-denitrification dynamics and community structure of ammonia oxidizing bacteria in a high yield irrigated Philippine rice field
    • Nicolaisen MH, Risgaard-Petersen N, Revsbech NP, Reichardt W, Ramsing NB 2004: Nitrification-denitrification dynamics and community structure of ammonia oxidizing bacteria in a high yield irrigated Philippine rice field. FEMS Microbiol. Ecol., 49, 359-369.
    • (2004) FEMS Microbiol. Ecol. , vol.49 , pp. 359-369
    • Nicolaisen, M.H.1    Risgaard-Petersen, N.2    Revsbech, N.P.3    Reichardt, W.4    Ramsing, N.B.5
  • 18
    • 0032976059 scopus 로고    scopus 로고
    • In situ analysis of nitrifying biofilms as determined by in situ hybridization and the use of microelectrodes
    • Okabe SH, Satoh H, Watanabe Y 1999: In situ analysis of nitrifying biofilms as determined by in situ hybridization and the use of microelectrodes. Appl. Environ. Microbiol., 65, 3182-3191.
    • (1999) Appl. Environ. Microbiol. , vol.65 , pp. 3182-3191
    • Okabe, S.H.1    Satoh, H.2    Watanabe, Y.3
  • 19
    • 0030203863 scopus 로고    scopus 로고
    • TreeView: An application to display phylogenetic trees on personal computers
    • Page RD 1996: TreeView: an application to display phylogenetic trees on personal computers. Comput. Appl Biosci., 12, 357-358.
    • (1996) Comput. Appl. Biosci. , vol.12 , pp. 357-358
    • Page, R.D.1
  • 20
    • 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, Pommerenning-Roser A, Juretschko S, Schmid MC, Koops HP, Wanger 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    Pommerenning-Roser, A.2    Juretschko, S.3    Schmid, M.C.4    Koops, H.P.5    Wanger, M.6
  • 21
    • 0030814870 scopus 로고    scopus 로고
    • The ammonia monooxygenase structural gene amoA as a functional marker. Molecular fine scale analysis of natural ammonia-oxidizing populations
    • Rotthauwe JH, Witzel KP, Liesack W 1997: The ammonia monooxygenase structural gene amoA as a functional marker. Molecular fine scale analysis of natural ammonia-oxidizing populations. Appl. Environ. Microbiol., 63, 4704-4712.
    • (1997) Appl. Environ. Microbiol. , vol.63 , pp. 4704-4712
    • Rotthauwe, J.H.1    Witzel, K.P.2    Liesack, W.3
  • 22
    • 0029805297 scopus 로고    scopus 로고
    • Molecular diversity of soil and marine 16S rRNA gene sequences related to beta-subgroup ammonia-oxidizing bacteria
    • Stephen JR, McCaig AE, Smith Z, Prosser JI, Embley TM 1996: Molecular diversity of soil and marine 16S rRNA gene sequences related to beta-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
  • 23
    • 0031574072 scopus 로고    scopus 로고
    • The ClustalX windows interface: Flexible strategies for multiple sequence alignment aided by quality analysis tools
    • Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG 1997: The ClustalX windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res., 24, 4876-4882.
    • (1997) Nucleic Acids Res. , vol.24 , pp. 4876-4882
    • Thompson, J.D.1    Gibson, T.J.2    Plewniak, F.3    Jeanmougin, F.4    Higgins, D.G.5
  • 24
    • 1842576603 scopus 로고    scopus 로고
    • DGGE method for analyzing 16S rDNA of methanogenic archael community in paddy field soil
    • Watanabe T, Asakawa S, Nakamura A, Nagaoka K, Kimura M 2004: DGGE method for analyzing 16S rDNA of methanogenic archael community in paddy field soil FEMS Microbiol. Lett., 232, 153-163.
    • (2004) FEMS Microbiol. Lett. , vol.232 , pp. 153-163
    • Watanabe, T.1    Asakawa, S.2    Nakamura, A.3    Nagaoka, K.4    Kimura, M.5
  • 25
    • 0036135250 scopus 로고    scopus 로고
    • Grassland management regimes reduce small scale heterogeneity and species diversity of beta proteobacterial ammonia oxidizer populations
    • Webster G, Embley M, Prosser I 2002: Grassland management regimes reduce small scale heterogeneity and species diversity of beta proteobacterial ammonia oxidizer populations. Appl. Environ. Microbiol., 68, 20-30.
    • (2002) Appl. Environ. Microbiol. , vol.68 , pp. 20-30
    • Webster, G.1    Embley, M.2    Prosser, I.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.