Molecular characterization of microbial populations at two sites with differing reductive dechlorination abilities

Biodegradation

Volumn 17, Issue 6, 2006, Pages 523-534

  Rahm, Brian G ^a   Chauhan, Sadhana ^b   Holmes, Victor F ^a   Macbeth, Tamzen W ^c   Sorenson Jr , Kent S ^d   Alvarez Cohen, Lisa ^a  

^a Berkeley   (United States)

^b UNIVERSITY OF TEXAS MEDICAL BRANCH   (United States)

^c North Wind Incorporated   (United States)

^d CDM SMITH   (United States)

Author keywords

Bioaugmentation; Bioremediation; Dehalococcoides; Perchloroethene; Reductive dechlorination; Trichloroethene

Indexed keywords

BIOREMEDIATION; DECHLORINATION; DEGRADATION; MICROORGANISMS; POPULATION STATISTICS; SOLVENTS;

BIOAUGMENTATION; DEHALOCOCCOIDES; PERCHLOROETHENE; REDUCTIVE DECHLORINATION; TRICHLOROETHENE;

SOIL POLLUTION CONTROL;

TETRACHLOROETHYLENE; TRICHLOROETHYLENE;

BIOREMEDIATION; DECHLORINATION; DEGRADATION; MICROORGANISMS; POPULATION STATISTICS; SOIL POLLUTION CONTROL; SOLVENTS;

BACTERIUM; CLONE; CONTAMINATED LAND; DECHLORINATION; DEGRADATION; ETHYLENE; GENE EXPRESSION; MICROBIAL COMMUNITY; MOLECULAR ANALYSIS; POLYMERASE CHAIN REACTION; RNA; SOLVENT;

ARTICLE; BACTERIUM; BIOREMEDIATION; CLASSIFICATION; COMPARATIVE STUDY; HAZARDOUS WASTE; METABOLISM; METHODOLOGY; MICROBIOLOGY; MOLECULAR CLONING; POLYMERASE CHAIN REACTION; RESTRICTION FRAGMENT LENGTH POLYMORPHISM; UNITED STATES;

BACTERIA; BIODEGRADATION, ENVIRONMENTAL; CALIFORNIA; CLONING, MOLECULAR; HAZARDOUS WASTE; IDAHO; POLYMERASE CHAIN REACTION; POLYMORPHISM, RESTRICTION FRAGMENT LENGTH; SOIL MICROBIOLOGY; TETRACHLOROETHYLENE; TRICHLOROETHYLENE;

CALIFORNIA; NORTH AMERICA; ORANGE COUNTY [CALIFORNIA]; SEAL BEACH; UNITED STATES;

DEHALOCOCCOIDES;

EID: 33750550629     PISSN: 09239820     EISSN: None     Source Type: Journal    
DOI: 10.1007/s10532-005-9023-9     Document Type: Article

References (35)

1. Adrian L & Szewzyk U, et al. (2000) Bacterial dehalorespiration with chlorinated benzenes. Nature 408: 580-583
2. Altschul SF & Gish W, et al. (1990) Basic Local Alignment Search Tool. J. Mol. Bio. 215(3): 403-410
3. Benson DA & Karsch-Mizrachi I, et al. (2000) Genbank. Nucleic Acids Res. 28(1): 15-18
4. Christensen J & Stencil J, et al. (2003) Rapid identification of bacteria from positive blood cultures by terminal restriction fragment length polymorphism profile analysis of the 16S rRNA gene. J. Clin. Microbiol. 41(8): 3790-3800
5. Cole JR & Chai B, et al. (2005) The Ribosomal Database Project (RDP-II): sequences and tools for high-throughput rRNA analysis. Nucleic Acids Res. 33(Database Issue): D294-D296
6. Cupples AM & Spormann AM, et al. (2003) Growth of a Dehalococcoides-like microorganism on vinyl chloride and cis-dichloroethene as electron acceptors as determined by competitive PCR. Appl. Environ. Microbiol. 69(2): 953-959
7. Dojka MA & Hugenholtz P, et al. (1998) Microbial diversity in a hydrocarbon- and chlorinated-solvent-contaminated aquifer undergoing intrinsic bioremediation. Appl. Environ. Microbiol. 64(10): 3869-3877
8. Drake HL (1994) Acetogenesis, Acetogenic Bacteria, and the Acetyl-CoA "Wood/Ljungdahl" Pathway: Past and Current Perspectives. Chapman and Hall, New York
9. Duhamel M & Wehr S, et al. (2002) Comparison of anaerobic dechlorinating enrichment cultures maintained on tetrachloroethene, trichloroethene, cis-dichloroethene and vinyl chloride. Water Res. 36(17): 4193-4202
10. El Fantroussi S & Naveau H, et al. (1998) Anaerobic dechlorinating bacteria. Biotechnol. Progr. 14(2): 167-188
11. Fennell DE & Gossett JM, et al. (1997) Comparison of butyric acid, ethanol, lactic acid, and propionic acid as hydrogen donors for the reductive dechlorination of tetrachloroethene. Environ. Sci. Technol. 31(3): 918-926
12. French JH, Rossi A, et al. (2003) Phased in situ biostimulation/ bioaugmentation pilot testing in a coastal aquifer. Proceedings of the 8th International In Situ and On-Site Bioremediation Symposium
13. Godsy E & Warren E, et al. (2003) The role of microbial reductive dechlorination of TCE at a phytoremediation site. Int. J. Phytoremediat. 5(1): 73-87
14. He J & Ritalahti K, et al. (2003) Complete detoxification of vinyl chloride by an anaerobic enrichment culture and identification of the reductively dechlorinating population as a Dehalococcoides species. Appl. Environ. Microbiol. 69(2): 996-1003
15. He J & Ritalahti K, et al. (2003) Detoxification of vinyl chloride to ethene coupled to growth of an anaerobic bacterium. Nature 424(6944): 62-65
16. Hendrickson ER & Payne JA, et al. (2002) Molecular analysis of Dehalococcoides 16S ribosomal DNA from chloroethene-contaminated sites throughout North America and Europe. Appl. Environ. Microbiol. 68(2): 485-495
17. Holliger C & Schraa G, et al. (1993) A highly purified enrichment culture couples the reductive dechlorination of tetrachloroethene to growth. Appl. Environ. Microbiol. 59(9): 2991-2997
18. Lash L (2000) Metabolism of trichloroethylene. Environ. Health Persp. 108: 177-200
19. Lee MD & Odom JM, et al. (1998) New perspectives on microbial dehalogenation of chlorinated solvents: insights from the field. Annu. Rev. Microbiol. 52: 423-452
20. Lendvay JM & Loffler FE, et al. (2003) Bioreactive barriers: a comparison of bioaugmentation and biostimulation for chlorinated solvent remediation. Environ. Sci. Technol. 37(7): 1422-1431
21. Liu WT & Marsh TL, et al. (1997) Characterization of microbial diversity by determining terminal restriction fragment length polymorphisms of genes encoding 16S rRNA. Appl. Environ. Microbiol. 63(11): 4516-4522
22. Macbeth TW & Cummings DE, et al. (2004) Molecular characterization of a dechlorinating community resulting from in situ biostimulation in a TCE-contaminated deep fractured basalt aquifer and comparison to a derivative laboratory culture. Appl. Environ. Microbiol. 70(12): 7329-7341
23. Major D & McMaster M, et al. (2002) Field demonstration of successful bioaugmentation to achieve dechlorination of tetrachloroethene to ethene. Environ. Sci. Technol. 36(23): 5106-5116
24. Maymo-Gatell X & Chien Y, et al. (1997) Isolation of a bacterium that reductively dechlorinates tetrachloroethene to ethene. Science 276: 1568-1571
25. Mills DK & Fitzgerald K, et al. (2003) A comparison of DNA profiling techniques for monitoring nutrient impact on microbial community composition during bioremediation of petroleum-contaminated soils. J. Microbiol. Methods 54(1): 57-74
26. Panaro NJ & Yuen PK, et al. (2000) Evaluation of DNA fragment sizing and quantification by the Agilent 2100 bioanalyzer. Clin. Chem. 46(11): 1851-1853
27. Puls RW & Barcelona MJ (1996) Low-flow (minimal drawdown) ground-water sampling procedures. Office of Research and Development and Office of Solid Waste and Emergency Response
28. Richardson RE & Bhupathiraju VK, et al. (2002) Phylogenetic characterization of microbial communities that reductively dechlorinate TCE based upon a combination of molecular techniques. Environ. Sci. Technol. 36(12): 2652-2662
29. Rogers G & Hart C, et al. (2003) Bacterial diversity in cases of lung infection in cystic fibrosis patients: 16S ribosomal DNA (rDNA) length heterogeneity PCR and 16S rDNA terminal restriction fragment length polymorphism profiling. J. Clin. Microbiol. 41(8): 3548-3558
30. Seshadri R & Adrian L, et al. (2005) Genome sequence of the PCE-dechlorinating bacterium Dehalococcoides ethenogenes. Science 307(5706): 105-108
31. Smits THM & Devenoges C, et al. (2004) Development of a real-time PCR method for quantification of the three genera Dehalobacter, Dehalococcoides, and Desulfitobacterium in microbial communities. J. Microbiol. Methods 57(3): 369-378
32. Song DL & Conrad ME, et al. (2002) Stable carbon isotope fractionation during enhanced in situ bioremediation of trichloroethene. Environ. Sci. Technol. 36(10): 2262-2268
33. Sorenson KS & Peterson LN, et al. (2000) An evaluation of aerobic trichloroethene attenuation using first-order rate estimation. Bioremediation J. 4(4): 337-357
34. Takai K & Mormile M, et al. (2003) Shifts in archaeal communities associated with lithological and geochemical variations in subsurface Cretaceous rock. Environ. Microbiol. 5(4): 309-320
35. Watts JE & Wu Q, et al. (2001) Comparative analysis of polychlorinated biphenyl-dechlorinating communities in enrichment cultures using three different molecular screening techniques. Environ. Microbiol. 3(11): 710-719