Culture-independent characterization of a gene responsible for nitrogen fixation in the symbiotic microbial community in the gut of the termite Neotermes koshunensis

Applied and Environmental Microbiology

Volumn 65, Issue 11, 1999, Pages 4935-4942

  Noda, Satoko ^a,c   Ohkuma, Moriya ^a,b   Usami, Ron ^c   Horikoshi, Koki ^c   Kudo, Toshiaki ^a,c  

^a INST OF PHYS AND CHEMICAL RESEARCH   (Japan)

^b JAPAN SCIENCE AND TECHNOLOGY AGENCY   (Japan)

^c TOYO UNIVERSITY   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL DNA; BACTERIAL PROTEIN; COMPLEMENTARY DNA; MESSENGER RNA; MOLYBDENUM; NITROGENASE;

ARCHAEBACTERIUM; ARTICLE; BACTERIUM CULTURE; CONTROLLED STUDY; GENE EXPRESSION; GENE EXPRESSION REGULATION; GENE SEQUENCE; GENETIC ANALYSIS; GENETIC ORGANIZATION; INTESTINE FLORA; NITROGEN FIXATION; NONHUMAN;

NEOTERMES KOSHUNENSIS;

EID: 0032755033     PISSN: 00992240     EISSN: None     Source Type: Journal    
DOI: 10.1128/aem.65.11.4935-4942.1999     Document Type: Article

References (39)

1. 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.
2. Back, J.-M., and C. M. Kenerly. 1998. Detection and enumeration of a genetically modified fungus in soil environments by quantitative competitive polymerase chain reaction. FEMS Microbiol. Ecol. 25:419-428.
3. Benemann, J. R. 1973. Nitrogen fixation in termites. Science 181:164-165.
4. Bishop, R. E., and R. Premakumar. 1992. Alternative nitrogen fixation systems, p. 736-762. In G. Stacy, R. H. Burris, and H. J. Evans (ed.), Biological nitrogen fixation. Chapman and Hall, New York, N.Y.
5. Bogan, B. W., B. Schoenike, R. T. Lamar, and D. Cullen. 1996. Manganase peroxidase mRNA and enzyme activity levels during bioremediation of polycyclic aromatic hydrocarbon-contaminated soil with Phanerochaete chrysosporium. Appl. Environ. Microbiol. 62:2381-2386.
6. Braun, S. T., L. M. Proctor, S. Zani, M. T. Mellon, and J. P. Zehr. 1999. Molecular evidence for zooplankton-associated nitrogen-fixing anaerobes based on amplification of the nifH gene. FEMS Microbiol. Ecol. 28:273-279.
7. Breznak, J. A. 1982. Intestinal microbiota of termites and other xylophagous insects. Ann. Rev. Microbiol. 36:323-343.
8. Breznak, J. A., W. J. Brill, J. W. Mertins, and H. C. Coppel. 1973. Nitrogen fixation in termites. Nature 244:577-580.
9. 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.
10. Chien, Y.-T., and S. H. Zinder. 1994. Cloning, DNA sequencing, and characterization of a nifD-homologous gene from the archaeon Methanosarcina barkeri 227 which resembles nifD1 from the eubacterium Clostridium pasteurianum. J. Bacteriol. 176:6590-6598.
11. Chien, Y.-T., and S. H. Zinder. 1996. Cloning, functional organization, transcript studies, and phylogenetic analysis of the complete nitrogenase structural genes (nifHDK2) and associated genes in the archaeon Methanosarcina barkeri 227. J. Bacteriol. 178:143-148.
12. Dean, D. R., and M. R. Jacobson. 1992. Biochemical genetics of nitrogenase, p. 763-834. In G. Stacy, R. H. Burns, and H. J. Evans (ed.), Biological nitrogen fixation. Chapman and Hall, New York, N.Y.
13. Felsenstein, J. 1989. PHYLIP - phylogeny inference package version 3.5. Cladistics 5:164-166.
14. Gettemy, J. M., B. Ma, M. Alic, and M. H. Gold. 1998. Reverse transcription-PCR analysis of the regulation of the manganese peroxidase gene family. Appl. Environ. Microbiol. 64:569-574.
15. Gilliland, G., S. Perrin, and H. F. Bunn. 1990. Competitive PCR for quantitation of mRNA, p. 50-69. In M. A. Innis, D. H. Gelfand, J. J. Sninsky, and T. J. White (ed.), PCR protocols: a guide to methods and applications. Academic Press, Inc., San Diego, Calif.
16. Kessler, P. S., J. McLarnan, and J. A. Leigh. 1997. Nitrogenase phylogeny and the molybdenum dependence of nitrogen fixation in Methanococcus maripaludis. J. Bacteriol. 179:541-543.
17. Lee, S.-Y., J. Bollinger, D. Bezdicek, and A. Ogram. 1996. Estimation of the abundance of an uncultured soil bacterial strain by a competitive quantitative PCR method. Appl. Environ. Microbiol. 62:3787-3793.
18. 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.
19. Masepohl, B., and W. Klipp. 1996. Organization and regulation of genes encoding the molybdenum nitrogenase and the alternative nitrogenase in Rhodobacter capsulatus. Arch. Microbiol. 165:80-90.
20. Meckenstock, R., P. Steinle, J. R. van der Meer, and M. Snozzi. 1998. Quantification of bacterial mRNA involved in degradation of 1,2,4-trichlorobenzene by Pseudomonas sp. strain P51 from liquid culture and from river sediment by reverse transcriptase PCR (RT/PCR). FEMS Microbiol. Lett. 167:123-129.
21. Merrick, M. J., and R. A. Edwards. 1995. Nitrogen control in bacteria. Microbiol. Rev. 59:604-622.
22. Moriya, S., M. Ohkuma, and T. Kudo. 1998. Phylogenetic position of symbiotic protist Dinenympha exilis in the hindgut of the termite Reticulitermes speratus inferred from the protein phylogeny of elongation factor 1α. Gene 210:221-227.
23. Muyzer, G. E., C. de Waal, and A. G. Uitterlineden. 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.
24. Noda, S., M. Ohkuma, and T. Kudo. Unpublished data.
25. Ohkuma, M., and T. Kudo. 1996. Phylogenetic diversity of the intestinal bacterial community in the termite Reticulitermes speratus. Appl. Environ. Microbiol. 62:461-468.
26. Ohkuma, M., S. Noda, and T. Kudo. 1999. Phylogenetic diversity of nitrogen fixation genes in the symbiotic microbial community in the gut of diverse termites. Appl. Environ. Microbiol. 65:4926-4934.
27. 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.
28. Ohkuma, M., K. Ohtoko, C. Grunau, S. Moriya, and T. Kudo. 1998. Phylogenetic identification of the symbiotic hypermastigote Trichonympha agilis in the hindgut of the termite Reticulitemes speratus based on small-subunit rRNA sequence. J. Eukaryot. Microbiol. 45:439-444.
29. Reilly, K., and G. T. Attwood. 1998. Detection of Clostridium proteoclasticum and closely related strains in the rumen by competitive PCR. Appl. Environ. Microbiol. 64:907-913.
30. Sibold, L., M. Henriquet, O. Possot, and J.-P. Aubert. 1991. Nucleotide sequence of nifH regions from Methanobacterium ivanovii and Methanosarcina barkeri 227 and characterization of glnB-like genes. Res. Microbiol. 142:5-12.
31. Tayasu, I., A. Sugimoto, E. Wada, and T. Abe. 1994. Xylophagous termites depending on atmospheric nitrogen. Naturwissenschaften 81:229-231.
32. Thompson, J. D., D. G. Higgins, and T. J. Gibson. 1994. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res. 22:4673-4680.
33. Tsai, S.-J., and M. C. Wiltbank. 1996. Quantification of mRNA using competitive RT-PCR with standard curve methodology. BioTechniques 21:862-866.
34. 2-fixing bacterial diversity detected in rice roots by molecular evolutionary analysis of nifH gene sequences. J. Bacteriol. 177:1414-1417.
35. Widmer, F., B. T. Shaffer, L. A. Porteous, and R. J. Seidler. 1999. Analysis of nifH gene pool complexity in soil and litter at a Douglas fir forest site in the Oregon Cascade mountain range. Appl. Environ. Microbiol. 65:374-380.
36. Wilson, M. S., C. Bakermans, and E. L. Madsen. 1999. In situ, real-time catabolic gene expression: extraction and characterization of naphthalene dioxygenase mRNA transcripts from groundwater. Appl. Environ. Microbiol. 65:80-87.
37. Zarchar, V., R. A. Thomas, and A. S. Goustin. 1993. Absolute quantification of target DNA: a simple competitive PCR for efficient analysis of multiple samples. Nucleic Acids Res. 21:2017-2018.
38. Zehr, J. P., M. T. Mellon, and S. Zani. 1998. New nitrogen-fixing microorganisms detected in oligotrophic oceans by amplification of nitrogenase (nifH) genes. Appl. Environ. Microbiol. 64:3444-3450.
39. Zehr, J. P., M. Mellon, S. Braun, W. Litaker, T. Steppe, and H. W. Paerl. 1995. Diversity of heterotrophic nitrogen fixation genes in a marine cyanobacterial mat. Appl. Environ. Microbiol. 61:2527-2532.