Molecular characterization of dichloromethane-degrading Hyphomicrobium strains using 16S rDNA and DCM dehalogenase gene sequences

Systematic and Applied Microbiology

Volumn 28, Issue 7, 2005, Pages 582-587

  Nikolausz, Marcell ^a   Kappelmeyer, Uwe ^a   Nijenhuis, Ivonne ^a   Ziller, Katja ^a   Kästner, Matthias ^a  

^a HELMHOLTZ CENTRE FOR ENVIRONMENTAL RESEARCH UFZ   (Germany)

Author keywords

16S rDNA; dcmA; Dehalogenase; Dichloromethane; Hyphomicrobium

Indexed keywords

BACTERIAL ENZYME; DICHLOROMETHANE; DICHLOROMETHANE DEHALOGENASE; DNA 16S; UNCLASSIFIED DRUG;

ARTICLE; BACTERIAL GENE; BACTERIAL STRAIN; CLUSTER ANALYSIS; CONTROLLED STUDY; DNA SEQUENCE; GENE SEQUENCE; HYPHOMICROBIUM; HYPHOMICROBIUM DENITRIFICANS; MICROBIAL DEGRADATION; NONHUMAN; NUCLEOTIDE SEQUENCE; PHYLOGENY; PRIORITY JOURNAL; SEQUENCE HOMOLOGY; SPECIES DIFFERENCE;

HYPHOMICROBIUM; HYPHOMICROBIUM DENITRIFICANS;

EID: 23044489188     PISSN: 07232020     EISSN: 16180984     Source Type: Journal    
DOI: 10.1016/j.syapm.2005.03.011     Document Type: Article

References (31)

1. G. Braker, J.Z. Zhou, L.Y. Wu, A.H. Devol, and J.M. Tiedje Nitrite reductase genes (nirK and nirS) as functional markers to investigate diversity of denitrifying bacteria in Pacific northwest marine sediment communities Appl. Environ. Microbiol. 66 2000 2096 2104
2. W. Brunner, D. Staub, and T. Leisinger Bacterial degradation of dichloromethane Appl. Environ. Microbiol. 40 1980 950 958
3. N.V. Doronina, Y.A. Trotsenko, T.P. Tourova, B.B. Kuznetsov, and T. Leisinger Methylopila helvetica sp. nov. and Methylobacterium dichloromethanicum sp. nov. - novel aerobic facultatively methylotrophic bacteria utilizing dichloromethane Syst. Appl. Microbiol. 23 2000 210 218
4. N.V. Doronina, Y.A. Trotsenko, T.P. Tourova, B.B. Kuznetsov, and T. Leisinger Albibacter methylovorans gen. nov., sp. nov., a novel aerobic, facultatively autotrophic and methylotrophic bacterium that utilizes dichloromethane Int. J. Syst. Evol. Microbiol. 51 2001 1051 1058
5. R. Gaelli, and T. Leisinger Specialized bacterial strains for the removal of dichloromethane from industrial waste Conserv. Recycling 8 1985 91 100
6. D. Gisi, T. Leisinger, and S. Vuilleumier Enzyme-mediated dichloromethane toxicity and mutagenicity of bacterial and mammalian dichloromethane-active glutathione S-transferases Arch. Toxicol. 73 1999 71 79
7. K.D. Goodwin, W.J. North, and M.E. Lidstrom Production of bromoform and dibromomethane by Giant Kelp: factors affecting release and comparison to anthropogenic bromine sources Limnol. Oceanogr. 42 1997 1725 1734
8. K.D. Goodwin, J.K. Schaefer, and R.S. Oremland Bacterial oxidation of dibromomethane and methyl bromide in natural waters and enrichment cultures Appl. Environ. Microbiol. 64 1998 4629 4636
9. R.S. Hanson Introduction J.C. Murrell H. Dalton Methane and Methanol Utilizers 1992 Plenum Press New York 1 21
10. W. Harder, and M.M. Attwood Biology, physiology and biochemistry of hyphomicrobia Adv. Microbial. Physiol. 17 1978 303 359
11. L.J. Heraty, M.E. Fuller, L. Huang, T. Abrajano, and N.C. Sturchio Isotopic fractionation of carbon and chlorine by microbial degradation of dichloromethane Org. Geochem. 30 1999 793 799
12. P.H. Howard Handbook of Environmental Fate and Exposure Data for Organic Chemicals vol. 2 1990 Lewis Publisher Inc. Chelsea, Michigan pp. 176-183
13. M. Kästner Enrichment and isolation of chlorohydrocarbon degrading microorganisms under different physiological conditions 1989 Technical University of Braunschweig Braunschweig
14. M. Klein, M. Friedrich, A.J. Roger, P. Hugenholtz, S. Fishbain, H. Abicht, L.L. Blackall, D.A. Stahl, and M. Wagner Multiple lateral transfers of dissimilatory sulfite reductase genes between major lineages of sulfate-reducing prokaryotes J. Bacteriol. 183 2001 6028 6035
15. D. Kohler-Staub, S. Hartmans, R. Gälli, F. Suter, and T. Leisinger Evidence for identical dichloromethane dehalogenase in different methylotrophic bacteria J. Gen. Microbiol. 132 1986 2837 2843
16. D. Kohler-Staub, S. Frank, and T. Leisinger Dichloromethane as the sole carbon source for Hyphomicrobium sp. strain DM2 under denitrification conditions Biodegradation 6 1995 229 235
17. D.J. Lane 16S/23S rRNA sequencing E. Stackebrandt M. Goodfellow Nucleic Acid Techniques in Bacterial Systematics 1991 Wiley New York
18. D.E. Line, J. Wu, J.A. Arnold, G.D. Jennings, and A.R. Rubin Water quality of first flush runoff from 20 industrial sites Water Environ. Res. 69 1997 305 310
19. W. Ludwig, O. Strunk, R. Westram, L. Richter, H. Meier, Yadhukumar, A. Buchner, T. Lai, S. Steppi, G. Jobb, W. Forster, I. Brettske, S. Gerber, A.W. Ginhart, O. Gross, S. Grumann, S. Hermann, R. Jost, A. Konig, T. Liss, R. Lussmann, M. May, B. Nonhoff, B. Reichel, R. Strehlow, A. Stamatakis, N. Stuckmann, A. Vilbig, M. Lenke, T. Ludwig, A. Bode, and K.H. Schleifer ARB: a software environment for sequence data Nucleic Acids Res. 32 2004 1363 1371
20. A. Magli, M. Wendt, and T. Leisinger Isolation and characterization of Dehalobacterium formicoaceticum gen nov. sp. nov., a strictly anaerobic bacterium utilizing dichloromethane as source of carbon and energy Arch. Microbiol. 166 1996 101 108
21. J.R. Marchesi, T. Sato, A.J. Weightman, T.A. Martin, J.C. Fry, S.J. Hiom, D. Dymock, and W.G. Wade Design and evaluation of useful bacterium-specific PCR primers that amplify genes coding for bacterial 16S rRNA (vol. 64, p. 795, 1998) Appl. Environ. Microbiol. 64 1998 2333
22. M. Nikolausz, K. Márialigeti, and G. Kovács Comparison of RNA- and DNA-based species diversity investigations in rhizoplane bacteriology with respect to chloroplast sequence exclusion J. Microbiol. Methods. 56 2004 365 373
23. G.J. Poelarends, L.A. Kulakov, M.J. Larkin, J. Vlieg, and D.B. Janssen Roles of horizontal gene transfer and gene integration in evolution of 1,3-dichloropropene- and 1,2-dibromoethane-degradative pathways J. Bacteriol. 182 2000 2191 2199
24. U. Purkhold, A. Pommerening-Roser, S. Juretschko, M.C. Schmid, H.P. Koops, and M. Wagner 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 2000 5368 5382
25. F.A. Rainey, N. Ward-Rainey, C.G. Gliesche, and E. Stackebrandt Phylogenetic analysis and intrageneric structure of the genus Hyphomicrobium and the related genus Filomicrobium Int. J. Syst. Bacteriol. 48 1998 635 639
26. M. Schmid-Appert, K. Zoller, H. Traber, S. Vuilleumier, and T. Leisinger Association of newly discovered IS elements with the dichloromethane utilization genes of methylotrophic bacteria Microbiology-UK 143 1997 2557 2567
27. R. Scholtz, L.P. Wackett, C. Egli, A.M. Cook, and T. Leisinger Dichloromethane dehalogenase with improved catalytic activity isolated from a fast-growing dichloromethane-utilizing bacterium J. Bacteriol. 170 1988 5698 5704
28. G. Stucki, R. Gälli, H.R. Ebersold, and T. Leisinger Dehalogenation of dichloromethane by cell extracts of Hyphomicrobium DM2 Arch. Microbiol. 130 1981 366 371
29. T.P. Tourova, B.B. Kuznetsov, N.V. Doronina, and Y.A. Trotsenko Phylogenetic analysis of dichloromethane-utilizing aerobic methylotrophic bacteria Microbiology 70 2001 79 83
30. T. Urakami, J. Sasaki, K.-I. Suzuki, and K. Komagata. Characterization description of Hyphomicrobium denitrificans sp. nov. Int. J. Syst. Bacteriol. 45 1995 528 532
31. S. Vuilleumier, N. Ivos, M. Dean, and T. Leisinger Sequence variation in dichloromethane dehalogenases/glutathione S-transferases. Microbiology-SGM 147 2001 611 619