Identification of Hyphomicrobium spp. using PCR-amplified fragments of the mxaF gene as a molecular marker

Systematic and Applied Microbiology

Volumn 20, Issue 3, 1997, Pages 387-396

  Fesefeldt, Andreas ^a   Gliesche, Christian G ^a  

^a UNIVERSITY OF KIEL   (Germany)

Author keywords

Activated sludge; Denaturing gradient gel electrophoresis; Groundwater; Hyphomicrobium; Methanol dehydrogenase; Methylotrophic bacteria; mxaF

Indexed keywords

DNA FRAGMENT; GROUND WATER; LAKE WATER;

ARTICLE; BACTERIUM IDENTIFICATION; BIOFILM; DENATURING GRADIENT GEL ELECTROPHORESIS; DNA DNA HYBRIDIZATION; ELECTROPHORETIC MOBILITY; ENZYME SUBUNIT; GENETIC MARKER; HYPHOMICROBIUM; METHYLOTROPHIC BACTERIUM; NONHUMAN; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; SOUTHERN BLOTTING; TAXONOMY;

BACTERIA (MICROORGANISMS); HYPHOMICROBIUM;

EID: 0030882070     PISSN: 07232020     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0723-2020(97)80007-0     Document Type: Article

References (22)

1. 1 compounds. (J. C. Murrel and D. P. Kelly, eds.). Andover, UK, Intercept Ltd. (1993).
2. AUSUBEL, F. M., BRENT, R., KINGSTON, R. E., MOORE, D. D., SEIDMAN, J. G., SMITH, J. A., STRUHL, K.: Current Protocols in Molecular Biology. New York, Wiley & Sons (1991).
3. BELYAEV, A. S., CHERNYKH, N. A., GAL'CHENKO, V. F. IVANOV, M. V.: Detection of methylotrophs in natural samples by amplification of a fragment of the moxF gene. Microbiologiya 64, 788-791 (engl. transl.: 667-669) (1995).
4. FERRIS, M. J., MUYZER, G., WARD, D. M.: Denaturing gradient gel electrophoresis profiles of 16S rRNA-defined populations inhabiting a hot spring microbial mat community. Appl. Environ. Microbiol. 62, 340-346 (1996).
5. FESEFELDT, A. GLIESCHE, C. G: Genetic characterization of Hyphomicrobium spp. and detection in environmental samples, p. 83 (PB051). In: Abstracts of the VAAM-Frühjahrstagung, Bayreuth, Germany. BIOspektrum Sonderheft. Heidelberg, Germany, Spektrum Akademischer Verlag GmbH (1996).
6. FESEFELDT, A., POETSCH, M., GLIESCHE, C. G.: Development of a species-specific gene probe for Hyphomicrobium facilis using the inverse polymerase chain reaction. Appl. Environ. Microbiol. 63, 335-337 (1997).
7. GLIESCHE, C. G., MENZEL, M., FESEFELDT, A.: A rapid method for creating species-specific gene probes for methylotrophic bacteria. J. Microbiol. Methods 28, 25-34 (1997).
8. HENSIEK, R., KRUPP, G., STACKEBRANDT, E. R. G.: Development of diagnostic oligonucleotide probes for four Lactobacillus species occurring in the intestinal tract. System. Appl. Microbiol. 15, 123-128 (1992).
9. HIRSCH, P.: Genus Hyphomicrobium Stutzer and Hartleb 1898, 76AL*, pp. 1895-1904. In: Bergey's Manual of Systematic Bacteriology, vol. 3. (J. T. Staley, M. P. Bryant, N. Pfennig and J. G. Holt, eds.). Baltimore, Williams and Wilkins (1989).
10. HOLM, N. C., GLIESCHE, C. G., HIRSCH, P.: Diversity and structure of Hyphomicrobium populations in a sewage treatment plant and its adjacent receiving lake. Appl. Environ. Microbiol. 62, 522-528 (1996).
11. KLOOS, K., FESEFELDT, A., GLIESCHE, C. G., BOTHE, H.: DNA-probing indicates the occurrence of denitrification and nitrogen fixation genes in Hyphomicrobium: Distribution of denitrifying and nitrogen fixing isolates of Hyphomicrobium in a sewage treatment plant. FEMS Microbiol. Ecol. 18, 205-213 (1995).
12. MCDONALD, I. R., KENNA, E. M., MURRELL, J. C.: Detection of methanotrophic bacteria in environmental samples with the PCR. Appl. Environ. Microbiol. 61, 116-121 (1995).
13. MURRAY, A. E., HOLLIBAUGH, J. T., ORREGO, C.: Phylogenetic composition of bacterioplankton from two California estuaries compared by denaturing gradient gel electrophoresis of 16S rDNA fragments. Appl. Environ. Microbiol. 62, 2676-2680 (1996).
14. MUYZER, G., DE WAAL, E. C., UITTERLINDEN, A. G.: 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).
15. MUYZER, G., HOTTENTRÄGER, S., TESKE, A., WAVER, C.: Denaturing̈ gradient gel electrophoresis of PCR-amplified 16S rDNA - a new molecular approach to analyse the genetic diversity of mixed microbial communities, pp. 3.4.4.: 1-23. In: Molecular Microbial Ecology Manual (A. D. L. Akkermans, J. D. van Elsas, and F. J. de Bruijn, eds.). AA Dordrecht, The Netherlands, Kluwer Academic Publishers (1996).
16. RÖLLEKE, S., MUYZER, G., WAVER, C., WANNER, G., LUBITZ, W.: 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).
17. SAMBROOK, J. E., FRITSCH, F., MANIATIS, T.: Molecular cloning: A Laboratory Manual, vol. 1-3. Cold Spring Harbor, NY, Cold Spring Harbor Laboratory Press (1989).
18. STEPHENS, R. L., HAYGOOD, M. G., LIDSTROM, M. E.: Identification of putative methanol dehydrogenase (moxF) structura genes in methylotrophs and cloning of moxF genes fron Methylococcus capsulatus Bath and Methylomonas albus BG 8. J. Bacteriol. 170, 2063-2069 (1988).
19. TESKE, A., WAVER, C., MUYZER, G., RAMSING, N. B.: Distribu tion of sulfate-reducing bacteria in a stratified fjord (Manager Fjord, Denmark) as evaluated by most-probable-number counts and denaturing gradient gel electrophoresis of PCR-amplified ribosomal DNA fragments. Appl. Envrion. Microbiol. 62, 1405-1415 (1995).
20. URAKAMI, T., KOMAGATA, K.: Electrophoretic comparison of enzymes in the gram negative methanol-utilizing bacteria. J. Gen. Appl. Microbiol. 27, 381-403 (1981).
21. URAKAMI, T., SASAKI, J., SUZUKI, K.-I., KOMAGATA, K.: Characterization and description of Hyphomicrobium denitrificans sp. nov. Int. J. Syst. Bacteriol. 45, 528-532 (1995).
22. WAVER, C., MUYZER, G.: Genetic diversity of Desulfovibrio spp. in environmental samples analyzed by denaturing gradient gel electrophoresis of [NiFe] hydrogenase gene fragments Appl. Environ. Microbiol. 61, 2203-2110 (1995).