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Volumn 64, Issue 8, 1998, Pages 2770-2779

Genetic diversity of nifH gene sequences in Paenibacillus azotofixans strains and soil samples analyzed by denaturing gradient gel electrophoresis of PCR-amplified gene fragments

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; BACTERIAL GENE; BACTERIUM CULTURE; GENE SEQUENCE; GENETIC ANALYSIS; GENETIC VARIABILITY; NONHUMAN; PAENIBACILLUS DURUS; POLYMERASE CHAIN REACTION; SEQUENCE ANALYSIS; SEQUENCE HOMOLOGY;

EID: 0031927989     PISSN: 00992240     EISSN: None     Source Type: Journal    
DOI: 10.1128/aem.64.8.2770-2779.1998     Document Type: Article
Times cited : (134)

References (46)
  • 1
    • 0027860384 scopus 로고
    • Molecular identification of rRNa group 3 bacilli using a PCR probe test. Proposal for the creation of a genus Paenibacillus
    • Ash, C., J. A. E. Farrow, F. G. Priest, and M. D. Collins. 1993. Molecular identification of rRNA group 3 bacilli using a PCR probe test. Proposal for the creation of a genus Paenibacillus. Antonie Leeuwenhoek 64:253-260.
    • (1993) Antonie Leeuwenhoek , vol.64 , pp. 253-260
    • Ash, C.1    Farrow, J.A.E.2    Priest, F.G.3    Collins, M.D.4
  • 2
    • 0028282154 scopus 로고
    • Detection and characterization of cyanobacterial nifH genes
    • Ben-Porath, J., and J. P. Zehr. 1994. Detection and characterization of cyanobacterial nifH genes. Appl. Environ. Microbiol. 60:880-887.
    • (1994) Appl. Environ. Microbiol. , vol.60 , pp. 880-887
    • Ben-Porath, J.1    Zehr, J.P.2
  • 5
    • 0002405741 scopus 로고
    • Biochemical genetics of nitrogenase
    • G. Stacey, R. H. Burris, and H. J. Evans (ed.), Chapman and Hall, New York, N.Y.
    • Dean, D. R., and M. R. Jacobson. 1992. Biochemical genetics of nitrogenase, p. 763-834. In G. Stacey, R. H. Burris, and H. J. Evans (ed.), Biological nitrogen fixation. Chapman and Hall, New York, N.Y.
    • (1992) Biological Nitrogen Fixation , pp. 763-834
    • Dean, D.R.1    Jacobson, M.R.2
  • 6
    • 0000461280 scopus 로고
    • Confidence limits on phylogenies: An approach using the bootstrap
    • Felsenstein, J. 1985. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783-791.
    • (1985) Evolution , vol.39 , pp. 783-791
    • Felsenstein, J.1
  • 7
    • 0030063913 scopus 로고    scopus 로고
    • Denaturing gradient gel electrophoresis profiles of 16S rRNA-defined populations inhabiting a hot spring 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 mat community. Appl. Environ. Microbiol. 62:340-346.
    • (1996) Appl. Environ. Microbiol. , vol.62 , pp. 340-346
    • Ferris, M.J.1    Muyzer, G.2    Ward, D.M.3
  • 8
    • 0030613348 scopus 로고    scopus 로고
    • Seasonal distributions of dominant 16S rRNA-defined populations in a hot spring microbial mat examined by denaturing gradient gel electrophoresis
    • Ferris, M. J., and D. M. Ward. 1997. Seasonal distributions of dominant 16S rRNA-defined populations in a hot spring microbial mat examined by denaturing gradient gel electrophoresis. Appl. Environ. Microbiol. 63:1375-1381.
    • (1997) Appl. Environ. Microbiol. , vol.63 , pp. 1375-1381
    • Ferris, M.J.1    Ward, D.M.2
  • 10
    • 0003648101 scopus 로고
    • Genetics Computer Group, Madison, Wis.
    • Genetics Computer Group. 1994. Program manual for the Wisconsin package. Genetics Computer Group, Madison, Wis.
    • (1994) Program Manual for the Wisconsin Package
  • 11
  • 12
    • 0024263668 scopus 로고
    • Specific amplification with PCR of a refractory segment of genomic DNA
    • Haqqi, T. M., G. Sarkar, C. S. David, and S. S. Sommer. 1988. Specific amplification with PCR of a refractory segment of genomic DNA. Nucleic Acids Res. 16:11844.
    • (1988) Nucleic Acids Res. , vol.16 , pp. 11844
    • Haqqi, T.M.1    Sarkar, G.2    David, C.S.3    Sommer, S.S.4
  • 13
    • 0022352975 scopus 로고
    • Concurrent evolution of nitrogenase genes and 16S rRNA in Rhizobium species and other nitrogen fixing bacteria
    • Hennecke, H., K. Kaluza, B. Thony, M. Fuhrmann, W. Ludwig, and E. Stackebrandt. 1985. Concurrent evolution of nitrogenase genes and 16S rRNA in Rhizobium species and other nitrogen fixing bacteria. Arch. Microbiol. 142:342-348.
    • (1985) Arch. Microbiol. , vol.142 , pp. 342-348
    • Hennecke, H.1    Kaluza, K.2    Thony, B.3    Fuhrmann, M.4    Ludwig, W.5    Stackebrandt, E.6
  • 14
    • 0002912874 scopus 로고    scopus 로고
    • Application of denaturing gradient gel electrophoresis (DGGE) and temperature gradient gel electrophoresis (TGGE) for studying soil microbial communities
    • J. D. van Elsas, E. M. H. Wellington, and J. T. Trevors (ed.), Marcel Dekker, Inc., New York, N.Y.
    • Heuer, H., and K. Smalla. 1997. Application of denaturing gradient gel electrophoresis (DGGE) and temperature gradient gel electrophoresis (TGGE) for studying soil microbial communities, p. 353-373. In J. D. van Elsas, E. M. H. Wellington, and J. T. Trevors (ed.), Modern soil microbiology. Marcel Dekker, Inc., New York, N.Y.
    • (1997) Modern Soil Microbiology , pp. 353-373
    • Heuer, H.1    Smalla, K.2
  • 15
    • 0029920941 scopus 로고    scopus 로고
    • Variable numbers of rRNA gene operons in Bacillus cereus strains
    • Johansen, T., C. R. Carlson, and A.-B. Kolsto. 1996. Variable numbers of rRNA gene operons in Bacillus cereus strains. FEMS Microbiol. Lett. 136: 325-328.
    • (1996) FEMS Microbiol. Lett. , vol.136 , pp. 325-328
    • Johansen, T.1    Carlson, C.R.2    Kolsto, A.-B.3
  • 16
    • 0025822640 scopus 로고
    • Amplification, cloning, and sequencing of a nifH segment from aquatic microorganisms and natural communities
    • Kirshtein, J. D., H. W. Paerl, and J. Zehr. 1991. Amplification, cloning, and sequencing of a nifH segment from aquatic microorganisms and natural communities. Appl. Environ. Microbiol. 57:2645-2650.
    • (1991) Appl. Environ. Microbiol. , vol.57 , pp. 2645-2650
    • Kirshtein, J.D.1    Paerl, H.W.2    Zehr, J.3
  • 17
    • 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, G. A., J. R. Stephen, W. de Boer, J. L. Prosser, T. M. Embley, and J. W. Woldendorp. 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.L.4    Embley, T.M.5    Woldendorp, J.W.6
  • 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
    • 0001868071 scopus 로고
    • Denaturing gradient gel electrophoresis of PCR-amplified 16S rDNA - A new molecular approach to analyse the genetic diversity of mixed microbial communities, section 3.4.4
    • A. D. L. 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 analyse the genetic diversity of mixed microbial communities, section 3.4.4, p. 1-23. 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. 1-23
    • Muyzer, G.1    Hottentrager, S.2    Teske, A.3    Wawer, C.4
  • 20
    • 0023476285 scopus 로고
    • Detection and localization of single base changes by denaturing gel electrophoresis
    • Myers, R. M., T. Maniatis, and L. S. Lerman. 1987. Detection and localization of single base changes by denaturing gel 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
  • 21
    • 0024065404 scopus 로고
    • Conservation of nif sequences in Frankia
    • Normand, P., P. Simonet, and R. Bardin. 1988. Conservation of nif sequences in Frankia. Mol. Gen. Genet. 213:238-246.
    • (1988) Mol. Gen. Genet. , vol.213 , pp. 238-246
    • Normand, P.1    Simonet, P.2    Bardin, R.3
  • 22
    • 0029796310 scopus 로고    scopus 로고
    • Sequence heterogeneities of genes encoding 16S rRNAs in Paenibacillus polymyxa detected by temperature gradient gel electrophoresis
    • Nübel, U., B. Engelen, A. Felske, J. Snaidr, A. Wieshuber, R. I. Amann, W. Ludwig, and H. Backhaus. 1996. Sequence heterogeneities of genes encoding 16S rRNAs in Paenibacillus polymyxa detected by temperature gradient gel electrophoresis. J. Bacteriol. 178:5636-5643.
    • (1996) J. Bacteriol. , vol.178 , pp. 5636-5643
    • Nübel, U.1    Engelen, B.2    Felske, A.3    Snaidr, J.4    Wieshuber, A.5    Amann, R.I.6    Ludwig, W.7    Backhaus, H.8
  • 23
    • 0029765445 scopus 로고    scopus 로고
    • Diversity of nitrogen fixation genes in the symbiotic intestinal microflora of the termite Reticulitermes speratus
    • Ohkuma, M., S. Noda, R. Usami, K. Horikoshi, and T. Kudo. 1996. Diversity of nitrogen fixation genes in the symbiotic intestinal microflora of the termite Reticulitermes speratus. Appl. Environ. Microbiol. 62:2747-2752.
    • (1996) Appl. Environ. Microbiol. , vol.62 , pp. 2747-2752
    • Ohkuma, M.1    Noda, S.2    Usami, R.3    Horikoshi, K.4    Kudo, T.5
  • 24
    • 0009716230 scopus 로고
    • Identification of structural nitrogen-fixation genes in Bacillus polymyxa and Bacillus macerans
    • Oliveira, S. S., L. Seldin, and M. C. F. Bastos. 1993. Identification of structural nitrogen-fixation genes in Bacillus polymyxa and Bacillus macerans. World J. Microbiol. Biotechnol. 9:387-389.
    • (1993) World J. Microbiol. Biotechnol. , vol.9 , pp. 387-389
    • Oliveira, S.S.1    Seldin, L.2    Bastos, M.C.F.3
  • 25
    • 0028055018 scopus 로고
    • The winds of (evolutionary) change: Breathing new life into microbiology
    • Olsen, G. J., C. R. Woese, and R. Overbeek. 1994. The winds of (evolutionary) change: breathing new life into microbiology. J. Bacteriol. 176:1-6.
    • (1994) J. Bacteriol. , vol.176 , pp. 1-6
    • Olsen, G.J.1    Woese, C.R.2    Overbeek, R.3
  • 26
    • 0029949978 scopus 로고    scopus 로고
    • Identification of bacteria in a biodegraded wall painting by denaturing gradient gel electrophoresis of PCR-amplified gene fragments coding for 16S rRNA
    • Rolleke, S., G. Muyzer, C. Wawer, G. Wanner, and W. Lubitz. 1996. Identification of bacteria in a biodegraded wall painting by denaturing gradient gel electrophoresis of PCR-amplified gene fragments coding for 16S rRNA. Appl. Environ. Microbiol. 62:2059-2065.
    • (1996) Appl. Environ. Microbiol. , vol.62 , pp. 2059-2065
    • Rolleke, S.1    Muyzer, G.2    Wawer, C.3    Wanner, G.4    Lubitz, W.5
  • 27
    • 0027282505 scopus 로고
    • Isolation and partial characterization of a new linear DNA plasmid isolated from Bacillus polymyxa SCE2
    • Rosado, A. S., and L. Seldin. 1993. Isolation and partial characterization of a new linear DNA plasmid isolated from Bacillus polymyxa SCE2. J. Gen. Microbiol. 139:1277-1282.
    • (1993) J. Gen. Microbiol. , vol.139 , pp. 1277-1282
    • Rosado, A.S.1    Seldin, L.2
  • 28
    • 0029890314 scopus 로고    scopus 로고
    • Quantitative 16S rDNA targeted polymerase chain reaction and oligonucleotide hybridization for the detection of Paenibacillus azotofixans in soil and the wheat rhizosphere
    • Rosado, A. S., L. Seldin, A. C. Wolters, and J. D. van Elsas. 1996. Quantitative 16S rDNA targeted polymerase chain reaction and oligonucleotide hybridization for the detection of Paenibacillus azotofixans in soil and the wheat rhizosphere. FEMS Microbiol. Ecol. 19:153-164.
    • (1996) FEMS Microbiol. Ecol. , vol.19 , pp. 153-164
    • Rosado, A.S.1    Seldin, L.2    Wolters, A.C.3    Van Elsas, J.D.4
  • 29
    • 0031000146 scopus 로고    scopus 로고
    • Reclassification of Paenibacillus dumm (formerly Clostridium durum Smith and Cato 1974) Collins et al. 1994 as a member of the species P. azotofixans (formerly Bacillus azotofixans Seldin et al. 1984) Ash et al. 1994
    • Rosado, A. S., J. D. van Elsas, and L. Seldin. 1997. Reclassification of Paenibacillus dumm (formerly Clostridium durum Smith and Cato 1974) Collins et al. 1994 as a member of the species P. azotofixans (formerly Bacillus azotofixans Seldin et al. 1984) Ash et al. 1994. Int. J. Syst. Bacteriol. 47:569-572.
    • (1997) Int. J. Syst. Bacteriol. , vol.47 , pp. 569-572
    • Rosado, A.S.1    Van Elsas, J.D.2    Seldin, L.3
  • 30
    • 0031931483 scopus 로고    scopus 로고
    • Phenotypic and genetic diversity of Paenibacillus azotofixans strains isolated from the rhizoplane or rhizosphere soil of different grasses
    • 29a. Rosado, A. S., F. S. de Azevedo, D. W. da Cruz, J. D. van Elsas, and L. Seldin. 1998. Phenotypic and genetic diversity of Paenibacillus azotofixans strains isolated from the rhizoplane or rhizosphere soil of different grasses. J. Appl. Bacteriol. 84:216-226.
    • (1998) J. Appl. Bacteriol. , vol.84 , pp. 216-226
    • Rosado, A.S.1    De Azevedo, F.S.2    Da Cruz, D.W.3    Van Elsas, J.D.4    Seldin, L.5
  • 32
    • 0001451022 scopus 로고
    • Bacillus nitrogen fixers from Brazilian soils
    • Seldin, L., J. D. van Elsas, and E. G. C. Penido. 1983. Bacillus nitrogen fixers from Brazilian soils. Plant Soil 70:243-255.
    • (1983) Plant Soil , vol.70 , pp. 243-255
    • Seldin, L.1    Van Elsas, J.D.2    Penido, E.G.C.3
  • 33
    • 0001674207 scopus 로고
    • Bacillus azotofixans sp. nov., a nitrogen-fixing species from Brazilian soils and grass roots
    • Seldin, L., J. D. van Elsas, and E. G. C. Penido. 1984. Bacillus azotofixans sp. nov., a nitrogen-fixing species from Brazilian soils and grass roots. Int. J. Syst. Bacteriol. 34:451-456.
    • (1984) Int. J. Syst. Bacteriol. , vol.34 , pp. 451-456
    • Seldin, L.1    Van Elsas, J.D.2    Penido, E.G.C.3
  • 34
    • 0022992153 scopus 로고
    • Identification of Bacillus azotofixans using API tests
    • Seldin, L., and E. G. C. Penido. 1986. Identification of Bacillus azotofixans using API tests. Antonie Leeuwenhoek 52:403-109.
    • (1986) Antonie Leeuwenhoek , vol.52 , pp. 403-1109
    • Seldin, L.1    Penido, E.G.C.2
  • 35
    • 84909776928 scopus 로고
    • Identification of Bacillus azotofixans nitrogen fixation genes using heterologous nif probes
    • F. A. Skinner, R. M. Boddey, and I. Fendrik (ed.), Kluwer Academic Publishers, Dordrecht, The Netherlands
    • Seldin, L., M. C. F. Bastos, and E. G. C. Penido. 1989. Identification of Bacillus azotofixans nitrogen fixation genes using heterologous nif probes, p. 179-187. In F. A. Skinner, R. M. Boddey, and I. Fendrik (ed.), Nitrogen fixation with non-legumes. Kluwer Academic Publishers, Dordrecht, The Netherlands.
    • (1989) Nitrogen Fixation with Non-legumes , pp. 179-187
    • Seldin, L.1    Bastos, M.C.F.2    Penido, E.G.C.3
  • 36
    • 0025190443 scopus 로고
    • Identification of Frankia strains in nodules by hybridization of polymerase chain reaction products with strain-specific oligonucleotide probes
    • Simonet, P., P. Normand, A. Moiroud, and R. Bardin. 1990. Identification of Frankia strains in nodules by hybridization of polymerase chain reaction products with strain-specific oligonucleotide probes. Arch. Microbiol. 153: 235-240.
    • (1990) Arch. Microbiol. , vol.153 , pp. 235-240
    • Simonet, P.1    Normand, P.2    Moiroud, A.3    Bardin, R.4
  • 38
    • 0025919581 scopus 로고
    • Polymerase chain reaction: Applications in environmental microbiology
    • Steffan, R. J., and R. M. Atlas. 1991. Polymerase chain reaction: applications in environmental microbiology. Annu. Rev. Microbiol. 45:137-161.
    • (1991) Annu. Rev. Microbiol. , vol.45 , pp. 137-161
    • Steffan, R.J.1    Atlas, R.M.2
  • 39
    • 0028987145 scopus 로고
    • 2-fixing bacterial diversity detected in rice roots by molecular evolutionary analysis of nifH gene sequences
    • 2-fixing bacterial diversity detected in rice roots by molecular evolutionary analysis of nifH gene sequences. J. Bacteriol. 177:1414-1417.
    • (1995) J. Bacteriol. , vol.177 , pp. 1414-1417
    • Ueda, T.1    Suga, Y.2    Yashiro, N.3    Matsuguchi, T.4
  • 40
    • 46149132109 scopus 로고
    • Survival of Pseudomonas fluorescens and Bacillus subtilis introduced into two soils of different texture in field microplots
    • Van Elsas, J. D., A. F. Dijkstra, J. M. Govaert, and J. A. van Veen. 1986. Survival of Pseudomonas fluorescens and Bacillus subtilis introduced into two soils of different texture in field microplots. FEMS Microbiol. Ecol. 38:151-160.
    • (1986) FEMS Microbiol. Ecol. , vol.38 , pp. 151-160
    • Van Elsas, J.D.1    Dijkstra, A.F.2    Govaert, J.M.3    Van Veen, J.A.4
  • 41
    • 0030613148 scopus 로고    scopus 로고
    • Soil DNA extraction and assessment of the fate of Mycobacterium chlorophenolicum strain PCP-1 in different soils by 16S ribosomal RNA gene sequence based most-probable-number PCR and immunofluorescence
    • Van Elsas, J. D., V. Mäntynen, and A. C. Wolters. 1997. Soil DNA extraction and assessment of the fate of Mycobacterium chlorophenolicum strain PCP-1 in different soils by 16S ribosomal RNA gene sequence based most-probable-number PCR and immunofluorescence. Biol. Fertil. Soils 24:188-195.
    • (1997) Biol. Fertil. Soils , vol.24 , pp. 188-195
    • Van Elsas, J.D.1    Mäntynen, V.2    Wolters, A.C.3
  • 42
    • 0024296215 scopus 로고
    • The presence of five nifH-like sequences in Clostridium pasteurianum: Sequence divergence and transcription properties
    • Wang, S.-Z., J.-S. Chen, and J. L. Johnson. 1988. The presence of five nifH-like sequences in Clostridium pasteurianum: sequence divergence and transcription properties. Nucleic Acids Res. 16:439-454.
    • (1988) Nucleic Acids Res. , vol.16 , pp. 439-454
    • Wang, S.-Z.1    Chen, J.-S.2    Johnson, J.L.3
  • 43
    • 0029077890 scopus 로고
    • Genetic diversity of Desulfovibrio spp. in environmental samples analyzed by denaturing gel electrophoresis of [NiFe] hydrogenase gene fragments
    • Wawer, C., and G. Muyzer. 1995. Genetic diversity of Desulfovibrio spp. in environmental samples analyzed by denaturing 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
  • 44
    • 0001975986 scopus 로고
    • Phylogenetic classification of nitrogen-fixing organisms
    • G. Stacey, R. H. Burris, and H. J. Evans (ed.), Chapman and Hall, New York, N.Y.
    • Young, J. P. W. 1992. Phylogenetic classification of nitrogen-fixing organisms, p. 43-86. In G. Stacey, R. H. Burris, and H. J. Evans (ed.), Biological nitrogen fixation. Chapman and Hall, New York, N.Y.
    • (1992) Biological Nitrogen Fixation , pp. 43-86
    • Young, J.P.W.1
  • 45
    • 0024746373 scopus 로고
    • Use of degenerate oligonucleotide primers for amplification of the nifH gene from the marine cyanobacterium Trichodesmium thiebautii
    • Zehr, J., and L. McReynolds. 1989. Use of degenerate oligonucleotide primers for amplification of the nifH gene from the marine cyanobacterium Trichodesmium thiebautii. Appl. Environ. Microbiol. 55:2522-2526.
    • (1989) Appl. Environ. Microbiol. , vol.55 , pp. 2522-2526
    • Zehr, J.1    McReynolds, L.2


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