Tetrachloroethene conversion to ethene by a Dehalococcoides-containing enrichment culture from Bitterfeld

FEMS Microbiology Ecology

Volumn 72, Issue 2, 2010, Pages 297-310

  Cichocka, Danuta ^a,b   Nikolausz, Marcell ^a   Haest, Pieter Jan ^b   Nijenhuis, Ivonne ^a  

^a HELMHOLTZ CENTRE FOR ENVIRONMENTAL RESEARCH UFZ   (Germany)

^b UNIVERSITY OF LEUVEN   (Belgium)

Author keywords

Bitterfeld; Dehalococcoides; Reductive dechlorination; Tetrachloroethene; Vinyl chloride

Indexed keywords

BACTERIAL DNA; ETHYLENE; ETHYLENE DERIVATIVE; RNA 16S; TETRACHLOROETHYLENE;

AQUIFER; BACTERIUM; BIOACCUMULATION; CLONE; DECHLORINATION; ELECTROKINESIS; ELECTRON; ETHYLENE; MICROCOSM; POLYMERASE CHAIN REACTION; REAL TIME; TETRACHLOROETHYLENE;

ARTICLE; BIOREMEDIATION; CHLOROFLEXI; CULTURE MEDIUM; DNA SEQUENCE; ENZYME SPECIFICITY; GENETICS; GROWTH, DEVELOPMENT AND AGING; HALOGENATION; METABOLISM; PHYLOGENY; WATER POLLUTANT;

BIODEGRADATION, ENVIRONMENTAL; CHLOROFLEXI; CULTURE MEDIA; DNA, BACTERIAL; ETHYLENES; HALOGENATION; PHYLOGENY; RNA, RIBOSOMAL, 16S; SEQUENCE ANALYSIS, DNA; SUBSTRATE SPECIFICITY; TETRACHLOROETHYLENE; WATER POLLUTANTS, CHEMICAL;

BITTERFELD; GERMANY; SAXONY-ANHALT;

DEHALOCOCCOIDES;

EID: 77950650668     PISSN: 01686496     EISSN: 15746941     Source Type: Journal    
DOI: 10.1111/j.1574-6941.2010.00845.x     Document Type: Article

References (55)

1. Adrian L, Hansen SK, Fung JM, Gorisch H Zinder SH (2007) Growth of Dehalococcoides strains with chlorophenols as electron acceptors. Environ Sci Technol 41 : 2318 2323.
2. Altschul S, Madden T, Schaffer A, Zhang JH, Zhang Z, Miller W Lipman D (1998) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. FASEB J 12 : A1326.
3. Amann R Ludwig W (2000) Ribosomal RNA-targeted nucleic acid probes for studies in microbial ecology. FEMS Microbiol Rev 24 : 555 565.
4. ASTDR (2007) Agency for Toxic Substances and Drug Registry. ASTDR
5. Bradley P (2000) Microbial degradation of chloroethenes in groundwater systems. Hydrogeol J 8 : 104 111.
6. Chartrand M, Morrill P, Lacrampe-Couloume G Lollar B (2005) Stable isotope evidence for biodegradation of chlorinated ethenes at a fractured bedrock site. Environ Sci Technol 39 : 4848 4856.
7. Corpet F (1988) Multiple sequence alignment with hierarchical clustering. Nucleic Acids Res 16 : 10881 10890.
8. Cupples AM, Spormann AM McCarty PL (2003) Growth of a Dehalococcoides-like microorganism on vinyl chloride and cis-dichloroethene as electron acceptors as determined by competitive PCR. Appl Environ Microb 69 : 953 959.
9. Dijk JA, Breugelmans P, Philips J, Haest PJ, Smolders E Springael D (2008) Catalyzed reporter deposition-fluorescent in situ hybridization (CARD-FISH) detection of Dehalococcoides. J Microbiol Meth 73 : 142 147.
10. Duhamel M Edwards EA (2006) Microbial composition of chlorinated ethene-degrading cultures dominated by Dehalococcoides. FEMS Microbiol Ecol 58 : 538 549.
11. Duhamel M, Wehr SD, Yu L et al 2002) Comparison of anaerobic dechlorinating enrichment cultures maintained on tetrachloroethene, trichloroethene, cis-dichloroethene and vinyl chloride. Water Res 36 : 4193 4202.
12. Duhamel M, Mo K Edwards EA (2004) Characterization of a highly enriched Dehalococcoides-containing culture that grows on vinyl chloride and trichloroethene. Appl Environ Microb 70 : 5538 5545.
13. Ellis DE, Lutz EJ, Odom JM et al 2000) Bioaugmentation for accelerated in situ anaerobic bioremediation. Environ Sci Technol 34 : 2254 2260.
14. European Parliament C (2006) Regulation (EC) No 1907/2006 of the European Parliament and of the Council of 18 December 2006 concerning the Registration, Evaluation, Authorisation and Restriction of Chemicals (REACH), establishing a European Chemicals Agency, amending Directive 1999/45/EC and repealing Council Regulation (EEC) No 793/93 and Commission Regulation (EC) No 1488/94 as well as Council Directive 76/769/EEC and Commission Directives 91/155/EEC, 93/67/EEC, 93/105/EC and 2000/21/EC. Vol. COD (2003) 0256 pp. 1-849. OJ L 396, 30.12.2006.
15. Fennell DE, Nijenhuis I, Wilson SF, Zinder SH Haggblom MM (2004) Dehalococcoides ethenogenes strain 195 reductively dechlorinates diverse chlorinated aromatic pollutants. Environ Sci Technol 38 : 2075 2081.
16. Freeborn RA, West KA, Bhupathiraju VK, Chauhan S, Rahm BG, Richardson RE Alvarez-Cohen L (2005) Phylogenetic analysis of TCE-dechlorinating consortia enriched on a variety of electron donors. Environ Sci Technol 39 : 8358 8368.
17. Harkness M, Bracco A, Brennan M, Deweerd K Spivack J (1999) Use of bioaugmentation to stimulate complete reductive dechlorination of trichloroethene in Dover soil columns. Environ Sci Technol 33 : 1100 1109.
18. He J, Sung Y, Dollhopf ME, Fathepure BZ, Tiedje JM Löffler FE (2002) Acetate versus hydrogen as direct electron donors to stimulate the microbial reductive dechlorination process at chloroethene-contaminated sites. Environ Sci Technol 36 : 3945 3952.
19. He J, Ritalahti KM, Aiello MR Löffler FE (2003a) Complete detoxification of vinyl chloride by an anaerobic enrichment culture and identification of the reductively dechlorinating population as a Dehalococcoides species. Appl Environ Microb 69 : 996 1003.
20. He J, Ritalahti KM, Yang KL, Koenigsberg SS Löffler FE (2003b) Detoxification of vinyl chloride to ethene coupled to growth of an anaerobic bacterium. Nature 424 : 62 65.
21. He J, Sung Y, Krajmalnik-Brown R, Ritalahti KM Löffler FE (2005) Isolation and characterization of Dehalococcoides sp. strain FL2, a trichloroethene (TCE)- and 1,2-dichloroethene-respiring anaerobe. Environ Microbiol 7 : 1442 1450.
22. Heidrich S, Weiss H Kaschl A (2004) Attenuation reactions in a multiple contaminated aquifer in Bitterfeld (Germany). Environ Pollut 129 : 277 288.
23. Heuer H, Krsek M, Baker P, Smalla K Wellington EM (1997) Analysis of actinomycete communities by specific amplification of genes encoding 16S rRNA and gel-electrophoretic separation in denaturing gradients. Appl Environ Microb 63 : 3233 3241.
24. Holliger C, Wohlfarth G Diekert G (1998) Reductive dechlorination in the energy metabolism of anaerobic bacteria. FEMS Microbiol Rev 22 : 383 398.
25. Imfeld G, Nijenhuis I, Nikolausz M et al 2008) Assessment of in situ degradation of chlorinated ethenes and bacterial community structure in a complex contaminated groundwater system. Water Res 42 : 871 882.
26. Lane DJ (1991) 16S/23S rRNA sequencing. Nucleic Acid Techniques in Bacterial Systematics, Vol. 6 (Stackebrandt E Goodfellow M, eds), pp. 115 173. Wiley & Sons Ltd
27. Löffler FE, Cole JR, Ritalahti KM Tiedje JM (2003) Diversity of dechlorinating bacteria. Dehalogenation: Microbial Processes and Environmental Applications (Häggblom MM Bossert ID, eds), pp. 53 87. Kluwer Academic Publishers
28. Macbeth TW, Cummings DE, Spring S, Petzke LM Sorenson KS Jr. (2004) Molecular characterization of a dechlorinating community resulting from in situ biostimulation in a trichloroethene-contaminated deep, fractured basalt aquifer and comparison to a derivative laboratory culture. Appl Environ Microb 70 : 7329 7341.
29. Major DW, McMaster ML, Cox EE et al 2002) Field demonstration of successful bioaugmentation to achieve dechlorination of tetrachloroethene to ethene. Environ Sci Technol 36 : 5106 5116.
30. Maymó-Gatell X, Chien Y, Gossett JM Zinder SH (1997) Isolation of a bacterium that reductively dechlorinates tetrachloroethene to ethene. Science 276 : 1568 1571.
31. Morrill P, Lacrampe-Couloume G, Slater G et al 2005) Quantifying chlorinated ethene degradation during reductive dechlorination at Kelly AFB using stable carbon isotopes. J Contam Hydrol 76 : 279 293.
32. Müller JA, Rosner BM, Von Abendroth G, Meshulam-Simon G, McCarty PL Spormann AM (2004) Molecular identification of the catabolic vinyl chloride reductase from Dehalococcoides sp. strain VS and its environmental distribution. Appl Environ Microb 70 : 4880 4888.
33. Nijenhuis I (2002) Dehalorespiration by Dehalococcoides ethenogenes strain 195 and relatives. PhD Thesis, Cornell University.
34. Nijenhuis I, Nikolausz M, Köth A et al 2007) Assessment of the natural attenuation of chlorinated ethenes in an anaerobic contaminated aquifer in the Bitterfeld/Wolfen area using stable isotope techniques, microcosm studies and molecular biomarkers. Chemosphere 67 : 300 311.
35. Nikolausz M, Marialigeti K Kovacs G (2004) Comparison of RNA- and DNA-based species diversity investigations in rhizoplane bacteriology with respect to chloroplast sequence exclusion. J Microbiol Meth 56 : 365 373.
36. Nikolausz M, Sipos R, Revesz S, Szekely A Marialigeti K (2005) Observation of bias associated with re-amplification of DNA isolated from denaturing gradient gels. FEMS Microbiol Lett 244 : 385 390.
37. Nikolausz M, Chatzinotas A, Palatinszky M, Imfeld G, Martinez P Kästner M (2008) Single-nucleotide primer extension assay for detection and sequence typing of 'Dehalococcoides' spp. Appl Environ Microb 74 : 300 304.
38. Nikolausz M, Chatzinotas A, Tancsics A, Imfeld G Kastner M (2009a) The single-nucleotide primer extension (SNuPE) method for the multiplex detection of various DNA sequences: from detection of point mutations to microbial ecology. Biochem Soc T 37 : 454 459.
39. Nikolausz M, Chatzinotas A, Tancsics A, Imfeld G Kastner M (2009b) Evaluation of single-nucleotide primer extension for detection and typing of phylogenetic markers used for investigation of microbial communities. Appl Environ Microb 75 : 2850 2860.
40. Nübel U, Engelen B, Felske A et al 1996) Sequence heterogeneities of genes encoding 16S rRNAs in Paenibacillus polymyxa detected by temperature gradient gel electrophoresis. J Bacteriol 178 : 5636 5643.
41. Popp P, Bruggemann L, Keil P, Thuss U Weiss H (2000) Chlorobenzenes and hexachlorocyclohexanes (HCHs) in the atmosphere of Bitterfeld and Leipzig (Germany). Chemosphere 41 : 849 855.
42. Ritalahti KM Löffler FE (2004) Populations implicated in anaerobic reductive dechlorination of 1,2-dichloropropane in highly enriched bacterial communities. Appl Environ Microb 70 : 4088 4095.
43. Ritalahti KM, Löffler FE, Rasch EE Koenigsberg SS (2005) Bioaugmentation for chlorinated ethene detoxification: bioaugmentation and molecular diagnostics in the bioremediation of chlorinated ethene-contaminated sites. Ind Biotechnol 1 : 114 118.
44. Rivett M, Drewes J, Barrett M et al 2006) Chemicals: health relevance, transport and attenuation (Chapter 4). Protecting Groundwater for Health (Schmoll O, Howard G, Chilton J Chorus I, eds), pp. 81 137. On Behalf of the World Health Organisation, IWA Publishing
45. Saitou N Nei M (1987) The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4 : 406 425.
46. Scholz-Muramatsu H, Neumann A, Messmer M, Moore E Diekert G (1995) Isolation and characterization of Dehalospirillum multivorans gen. nov., sp. nov., a tetrachloroethene-utilizing, strictly anaerobic bacterium. Arch Microbiol 163 : 48 56.
47. Smidt H de Vos WM (2004) Anaerobic microbial dehalogenation. Annu Rev Microbiol 58 : 43 73.
48. Smits TH, Devenoges C, Szynalski K, Maillard J Holliger C (2004) Development of a real-time PCR method for quantification of the three genera Dehalobacter, Dehalococcoides, and Desulfitobacterium in microbial communities. J Microbiol Meth 57 : 369 378.
49. Speksnijder AG, Kowalchuk GA, De Jong S, Kline E, Stephen JR Laanbroek HJ (2001) Microvariation artifacts introduced by PCR and cloning of closely related 16S rRNA gene sequences. Appl Environ Microb 67 : 469 472.
50. Sung Y, Ritalahti KM, Apkarian RP Löffler FE (2006) Quantitative PCR confirms purity of strain GT, a novel trichloroethene-to-ethene-respiring Dehalococcoides isolate. Appl Environ Microb 72 : 1980 1987.
51. Tamura K, Dudley J, Nei M Kumar S (2007) MEGA4: molecular evolutionary genetics analysis (MEGA) software version 4.0. Mol Biol Evol 24 : 1596 1599.
52. Wu JH Liu WT (2007) Quantitative multiplexing analysis of PCR-amplified ribosomal RNA genes by hierarchical oligonucleotide primer extension reaction. Nucleic Acids Res 35 : e82.
53. Wycisk P, Weiss H, Kaschl A, Heidrich S Sommerwerk K (2003) Groundwater pollution and remediation options for multi-source contaminated aquifers (Bitterfeld/Wolfen, Germany). Toxicol Lett 140-141 : 343 351.
54. Zhang XL, Yan X, Gao PP, Wang LH, Zhou ZH Zhao LP (2005) Optimized sequence retrieval from single bands of temperature gradient gel electrophoresis profiles of the amplified 16S rDNA fragments from an activated sludge system. J Microbiol Meth 60 : 1 11.
55. Zinder SH (1998) Methanogens. Techniques in Microbial Ecology (Burlage RS, Atlas R, Stahl D, Geesey G Sayler G, eds), pp. 113 136. Oxford University Press