Phylogenetic and kinetic diversity of aerobic vinyl chloride-assimilating bacteria from contaminated sites

Applied and Environmental Microbiology

Volumn 68, Issue 12, 2002, Pages 6162-6171

  Coleman, Nicholas V ^a   Mattes, Timothy E ^b   Gossett, James M ^b   Spain, Jim C ^a,c  

^a AIR FORCE RESEARCH LABORATORY   (United States)

^b School of Operations Research and Industrial Engineering   (United States)

^c AIR FORCE RESEARCH LABORATORY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BIODEGRADATION; CONTAMINATION; ENZYME KINETICS; SOLVENTS; STRAIN; VINYL RESINS;

NATURAL ATTENUATION;

BACTERIOLOGY;

UNSPECIFIC MONOOXYGENASE; VINYL CHLORIDE;

BACTERIUM; PHYLOGENETICS; SPATIAL DISTRIBUTION; SPECIES DIVERSITY;

ACTINOBACTERIA; AEROBIC BACTERIUM; ARTICLE; BACTERIUM CONTAMINATION; BACTERIUM ISOLATION; BIODEGRADATION; GENETIC VARIABILITY; MICROCOSM; MYCOBACTERIUM; NONHUMAN; PHYLOGENY;

BACTERIA, AEROBIC; BIODEGRADATION, ENVIRONMENTAL; ETHYLENES; HYDROGEN-ION CONCENTRATION; KINETICS; OXYGEN CONSUMPTION; PHYLOGENY; VINYL CHLORIDE; WATER POLLUTANTS, CHEMICAL;

ACTINOBACTERIA (CLASS); BACTERIA (MICROORGANISMS); MYCOBACTERIUM; NOCARDIOIDES; UNCULTURED ACTINOMYCETE;

EID: 0242500935     PISSN: 00992240     EISSN: None     Source Type: Journal    
DOI: 10.1128/AEM.68.12.6162-6171.2002     Document Type: Article

References (61)

1. Allen, J. R., and S. A. Ensign. 1997. Purification to homogeneity and reconstitution of the individual components of the epoxide carboxylase multiprotein enzyme complex from Xanthobacter strain Py2. J. Biol. Chem. 272:32121-32128.
2. Alvarez-Cohen, L., and P. L. McCarty. 1991. Effects of toxicity, aeration, and reductant supply on trichloroethylene transformation by a mixed methanotrophic culture. Appl. Environ. Microbiol. 57:228-235.
3. Alvarez-Cohen, L., and G. E. Speitel, Jr. 2001. Kinetics of aerobic cometabolism of chlorinated solvents. Biodegradation 12:105-126.
4. Bradley, P. M., and F. H. Chapelle. 1996. Anaerobic mineralization of vinyl chloride in Fe(III)-reducing aquifer sediments. Environ. Sci. Technol. 30:2084-2086.
5. Bradley, P. M., F. H. Chapelle, and D. R. Lovley. 1998. Humic acids as electron acceptors for anaerobic microbial oxidation of vinyl chloride and dichloroethene. Appl. Environ. Microbiol. 64:3102-3105.
6. Brock, T. D., and M. T. Madigan. 1991. Biology of microorganisms, 6th ed. p. 121. Prentice-Hall, Englewood Cliffs, N.J.
7. Bucher, J. R., G. Cooper, J. K. Haseman, C. W. Jameson, M. Longnecker, F. Kamel, R. Maronpot, H. B. Matthews, R. Melnick, R. Newbold, R. W. Tennant, C. Thompson, and M. Waalkes. 2001. Ninth report on carcinogens. National Toxicology Program, U.S. Dept. of Health and Human Services, Washington, D.C. [Online.] http://ehis.niehs.nih.gov/roc/ninth/known/vinylchloride.pdf.
8. Casal, M., and J. R. Calero. 1974. Mycobacterium gadium sp. nov., a new species of rapid-growing scotochromogenic mycobacteria. Tubercle 55:299-308.
9. Coleman, N. V., T. E. Mattes, J. M. Gossett, and J. C. Spain. 2002. Biodegradation of cis-dichloroethene as the sole carbon source by a β-proteobacterium. Appl. Environ. Microbiol. 68:2726-2730.
10. de Bont, J. A. M. 1976. Oxidation of ethylene by soil bacteria. Antonie Leeuwenhoek 42:59-71.
11. de Bont, J. A. M., and W. Harder. 1978. Metabolism of ethylene by Mycobacterium E 20. FEMS Microbiol. Lett. 3:89-93.
12. de Bont, J. A. M., M. M. Atwood, S. B. Primrose, and W. Harder. 1979. Epoxidation of short-chain alkenes in Mycobacterium E20: the involvement of a specific monooxygenase. FEMS Microbiol. Lett. 6:183-188.
13. de Bruijn, F. J. 1992. Use of repetitive (repetitive extragenic palindromic and enterobacterial repetitive intergeneric consensus) sequences and the polymerase chain reaction to fingerprint the genomes of Rhizobium meliloti isolates and other soil bacteria. Appl. Environ. Microbiol. 58:2180-2187.
14. Edwards, E. A., and E. E. Cox. 1997. Field and laboratory studies of sequential anaerobic-aerobic chlorinated solvent biodegradation, p. 261-265. In B. C. Alleman, and A. Leeman, (ed.), In situ and on-site bioremediation, vol. 3. Battelle Press, Columbus, Ohio.
15. Ensign, S. A., M. R. Hyman, and D. J. Arp. 1992. Cometabolic degradation of chlorinated alkenes by alkene monooxygenase in a propylene-grown Xanthobacter strain. Appl. Environ. Microbiol. 58:3038-3046.
16. Ewers, J., D. Freier-Schröder, and H.-J. Knackmuss. 1990. Selection of trichloroethene (TCE) degrading bacteria that resist inactivation by TCE. Arch. Microbiol. 154:410-413.
17. Fennell, D. E., A. B. Carroll, J. M. Gossett, and S. H. Zinder. 2001. Assessment of indigenous reductive dechlorinating potential at a TCE-contaminated site using microcosms, polymerase chain reaction analysis, and site data. Environ. Sci. Technol. 35:1830-1839.
18. Fox, B. G., J. G. Borneman, L. P. Wackett, and J. D. Lipscomb. 1990. Haloalkene oxidation by the soluble methane monooxygenase from Methylosinus trichosporium OB3b: mechanistic and environmental implications. Biochemistry 29:6419-6427.
19. Freedman, D. L., and J. M. Gossett. 1989. Biological reductive dechlorination of tetrachloroethylene and trichloroethylene to ethylene under methanogenic conditions. Appl. Environ. Microbiol. 55:2144-2151.
20. Freedman, D. L., and S. D. Herz. 1996. Use of ethylene and ethane as primary substrates for aerobic cometabolism of vinyl chloride. Water Environ. Res. 68:320-328.
21. Friedrich, M., R. J. Grosser, E. A. Kern, W. P. Inskeep, and D. M. Ward. 2000. Effect of model sorptive phases on phenanthrene biodegradation: molecular analysis of enrichments and isolates suggests selection based on bioavailability. Appl. Environ. Microbiol. 66:2703-2710.
22. 2 chlorinated hydrocarbons. Environ. Sci. Technol. 21:202-208.
23. Habets-Crützen, A. Q. H., L. E. S. Brink, C. G. van Ginkel, J. A. M. de Bont, and J. Tramper. 1984. Production of epoxides from gaseous alkenes by resting-cell suspensions and immobilized cells of alkene-utilizing bacteria. Appl. Microbiol. Biotechnol. 20:245-250.
24. Hartmans, S., A. Kaptein, J. Tramper, and J. A. M. de Bont. 1992. Characterization of a Mycobacterium sp. and a Xanthobacter sp. for the removal of vinyl chloride and 1,2-dichloroethane from waste gases. Appl. Microbiol. Biotechnol. 37:796-801.
25. Hartmans, S., and J. A. M. de Bont. 1992. Aerobic vinyl chloride metabolism in Mycobacterium aurum L1. Appl. Environ. Microbiol. 58:1220-1226.
26. Hartmans, S., J. A. M. de Bont, J. Tramper, and K. C. A. M. Luyben. 1985. Bacterial degradation of vinyl chloride. Biotechnol. Lett. 7:383-388.
27. Heath, L. S., G. L. Sloan, and H. E. Heath. 1986. A simple and generally applicable procedure for releasing DNA from bacterial cells. Appl. Environ. Microbiol. 51:1138-1140.
28. Hendrickson, E. R., J. A. Payne, R. M. Young, M. G. Starr, M. P. Perry, S. Fahnestock, D. E. Ellis, and R. C. Ebersole. 2002. Molecular analysis of Dehalococcoides 16S ribosomal DNA from chloroethene-contaminated sites throughout North America and Europe. Appl. Environ. Microbiol. 68:485-495.
29. Hohnstock-Ashe, A. M., S. M. Plummer, R. M. Yager, P. Baveye, and E. L. Madsen. 2001. Further biogeochemical characterization of a trichloroethene-contaminated fractured dolomite aquifer: electron source and microbial communities involved in reductive dechlorination. Environ. Sci. Technol. 35:4449-4456.
30. Holliger, C., D. Hahn, H. Harmsen, W. Ludwig, W. Schumacher, B. Tindall, F. Vasquez, N. Weiss, and A. J. Zehnder. 1998. Dehalobacter restrictus gen. nov. and sp. nov., a strictly anaerobic bacterium that reductively dechlorinates tetra- and trichloroethene in an anaerobic respiration. Arch. Microbiol. 169:313-321.
31. Kalb, V. F., and R. W. Bernlohr. 1977. A new spectrophotometric assay for protein in cell extracts. Anal. Biochem. 82:362-371.
32. Keppler, F., R. Borchars, J. Pracht, S. Rheinberger, and H. Scholer. 2002. Natural formation of vinyl chloride in the terrestrial environment. Environ. Sci. Technol. 36:2479-2483.
33. Kielhorn, J., C. Melber, U. Wahnschaffe, A. Aitio, and I. Mangelsdorf. 2000. Vinyl chloride: still a cause for concern. Environ. Health Perspect. 108:579-588.
34. Koziollek, P., D. Bryniok, and H.-J. Knackmuss. 1999. Ethene as an auxiliary substrate for the cooxidation of cis-dichloroethene and vinyl chloride. Arch. Microbiol. 172:240-246.
35. Krumholz, L. R., R. Sharp, and S. S. Fishbain. 1996. A freshwater anaerobe coupling acetate oxidation to tetrachloroethylene dehalogenation. Appl. Environ. Microbiol. 62:4108-4113.
36. Lee, M. D., J. M. Odom, and R. J. Buchanan, Jr. 1998. New perspectives on microbial dehalogenation of chlorinated solvents: insights from the field. Annu. Rev. Microbiol. 52:423-452.
37. Lorah, M. M., and L. D. Olsen. 1999. Degradation of 1,1,2,2-tetrachloroethane in a freshwater tidal wetland: field and laboratory evidence. Environ. Sci. Technol. 33:227-234.
38. Malachowsky, K. J., T. J. Phelps, A. B. Teboli, D. E. Minnikin, and D. C. White. 1994. Aerobic mineralization of trichloroethylene, vinyl chloride, and aromatic compounds by Rhodococcus species. Appl. Environ. Microbiol. 60:542-548.
39. Maymó-Gatell, X., T. Anguish, and S. H. Zinder. 1999. Reductive dechlorination of chlorinated ethenes and 1,2-dichloroethane by "Dehalococcoides ethenogenes" 195. Appl. Environ. Microbiol. 65:3108-3113.
40. Maymó-Gatell, X., Y.-T. Chien, J. M. Gossett, and S. H. Zinder. 1997. Isolation of a bacterium that reductively dechlorinates tetrachloroethene to ethene. Science 276:1568-1571.
41. McCarty, P. L. 1997. Breathing with chlorinated solvents. Science 276:1521-1522.
42. Meyers, P. R., W. R. Bourn, L. M. Steyn, P. D. van Helden, A. D. Beyers, and G. D. Brown. 1998. Novel method for rapid measurement of growth of mycobacteria in detergent-free media. J. Clin. Microbiol. 36:2752-2754.
43. Newman, L. M., and L. P. Wackett. 1997. Trichloroethylene oxidation by purified toluene 2-monooxygenase: products, kinetics, and turnover-dependent inactivation. J. Bacteriol. 179:90-96.
44. Pitulle, C., M. Dorsch, J. Kazda, J. Wolters, and E. Stackebrandt. 1992. Phylogeny of rapidly growing members of the genus Mycobacterium. Int. J. Syst. Bacteriol. 42:337-343.
45. Sambrook, J., and D. W. Russell. 2001. Molecular cloning: a laboratory manual, 3rd ed. Cold Spring Harbor Laboratory Press, New York, N.Y.
46. Schneider, J., R. Grosser, K. Jayasimhulu, W. Xue, and D. Warshawsky, 1996. Degradation of pyrene, benz[a]anthracene, and benzo[a]pyrene by Mycobacterium sp. strain RJGII-135, isolated from a former coal gasification site. Appl. Environ. Microbiol. 62:13-19.
47. Semprini, L. 1997. Strategies for the aerobic co-metabolism of chlorinated solvents. Curr. Opin. Biotechnol. 8:296-308.
48. Shim, H., D. Ryoo, P. Barbieri, and T. K. Wood. 2001. Aerobic degradation of mixtures of tetrachloroethylene, trichloroethylene, dichloroethylenes, and vinyl chloride by toluene-o-xylene monooxygenase of Pseudomonas stutzeri OX1. Appl. Microbiol. Biotechnol. 56:265-269.
49. Squillace, P. J., M. J. Moran, W. W. Lapham, C. V. Price, R. M. Clawges, and J. S. Zogorski. 1999. Volatile organic compounds in untreated ambient groundwater of the United States, 1985-1995. Environ. Sci. Technol. 33:4176-4187.
50. Stackebrandt, E., and B. M. Goebel. 1994. A place for DNA-DNA reassociation and 16S rRNA sequence analysis in the present species definition in bacteriology. Int. J. Syst. Bacteriol. 44:846-849.
51. Tortoli, E., R. M. Kroppenstedt, A. Bartoloni, G. Caroli, I. Jan, J. Pawlowski, and S. Emler. 1999. Mycobacterium tusciae sp. nov. Int. J. Syst. Bacteriol. 49:1839-1844.
52. Tsukamura, M., and S. Mizuno. 1977. Numerical analysis of relationships among rapidly growing, scotochromogenic mycobacteria. J. Gen. Microbiol. 98:511-517.
53. Tsukamura, M., and S. Ichiyama. 1986. Numerical classification of rapidly growing nonphotochromogenic mycobacteria. Microbiol. Immunol. 30:863-882.
54. van der Meer, J. R., C. Werlen, S. F. Nishino, and J. C. Spain. 1998. Evolution of a pathway for chlorobenzene metabolism leads to natural attenuation in contaminated groundwater. Appl. Environ. Microbiol. 64:4185-4193.
55. van Hylckama Vlieg, J. E. T., J. Kingma, A. J. van den Wijngaard, and D. B. Janssen. 1998. A glutathione S-transferase with activity towards cis-dichloroepoxyethane is involved in isoprene utilization by Rhodococcus sp. strain AD45. Appl. Environ. Microbiol. 64:2800-2805.
56. Vannelli, T., M. Logan, D. M. Arciero, and A. B. Hooper. 1990. Degradation of halogenated aliphatic compounds by the ammonia-oxidizing bacterium Nitrosomonas europaea. Appl. Environ. Microbiol. 56:1169-1171.
57. Verce, M. F., R. L. Ulrich, and D. L. Freedman. 2000. Characterization of an isolate that uses vinyl chloride as a growth substrate under aerobic conditions. Appl. Environ. Microbiol. 66:3535-3542.
58. Verce, M. F., R. L. Ulrich, and D. L. Freedman. 2001. Transition from cometabolic to growth-linked biodegradation of vinyl chloride by a Pseudomonas sp. isolated on ethene. Environ. Sci. Technol. 35:4242-4251.
59. Vogel, T. M., and P. L. McCarty. 1985. Biotransformation of tetrachloroethylene to trichloroethylene, dichloroethylene, vinyl chloride, and carbon dioxide under methanogenic conditions. Appl. Environ. Microbiol. 49:1080-1083.
60. Yagi, O., A. Hashimoto, K. Iwasaki, and M. Nakajima. 1999. Aerobic degradation of 1,1,1-trichloroethane by Mycobacterium spp. isolated from soil. Appl. Environ. Microbiol. 65:4693-4696.
61. Yeager, C. M., P. J. Bottomley, and D. J. Arp. 2001. Cytotoxicity associated with trichloroethylene oxidation in Burkholderia cepacia G4. Appl. Environ. Microbiol. 67:2107-2115.