Polyphasic characterization of a PCP-to-phenol dechlorinating microbial community enriched from paddy soil

Science of the Total Environment

Volumn 381, Issue 1-3, 2007, Pages 233-242

  Yoshida, Naoko ^a   Yoshida, Yukina ^a   Handa, Yuko ^a   Kim, Hyo Keun ^b   Ichihara, Shigeyuki ^c   Katayama, Arata ^a  

^a NAGOYA UNIVERSITY   (Japan)

^b Korea Ginseng Corporation   (South Korea)

^c MEIJO UNIVERSITY   (Japan)

Author keywords

Anaerobic microbial community; Complete anaerobic dechlorination; Firmicutes; Paddy soil; Pentachlorophenol

Indexed keywords

ANAEROBIC MICROBIAL COMMUNITY; COMPLETE ANAEROBIC DECHLORINATION; FIRMICUTES; PADDY SOIL; PENTACHLOROPHENOL;

ANTIBIOTICS; BACTERIA; BIODIVERSITY; DECHLORINATION; POLYCHLORINATED BIPHENYLS; SOILS;

PHENOLS;

2,3,4,5 TETRACHLOROPHENOL; 3 CHLOROPHENOL; 3,4,5 TRICHLOROPHENOL; 3,5 DICHLOROPHENOL; ANTIBIOTIC AGENT; HYDROGEN; LACTIC ACID; NITRATE; PENTACHLOROPHENOL; PHENOL; PHENOL DERIVATIVE; PYRUVIC ACID; QUINONE DERIVATIVE; SULFATE; UNCLASSIFIED DRUG;

BACTERIUM; DECHLORINATION; MICROBIAL COMMUNITY; PADDY FIELD; PCP; PHENOL; SOIL; SOIL MICROORGANISM;

ANAEROBIC BACTERIUM; ARTICLE; CLOSTRIDIUM; DECHLORINATION; DESULFITOBACTERIUM; ELECTRON; ENRICHMENT CULTURE; FIRMICUTES; FLUORESCENCE IN SITU HYBRIDIZATION; GEL ELECTROPHORESIS; GRAM POSITIVE BACTERIUM; METABOLIC INHIBITION; MICROFLORA; NUCLEOTIDE SEQUENCE; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; SOIL ANALYSIS; WATER VAPOR;

BIODEGRADATION, ENVIRONMENTAL; CHLORINE; DESULFITOBACTERIUM; ELECTROPHORESIS; IN SITU HYBRIDIZATION, FLUORESCENCE; PENTACHLOROPHENOL; PHENOLS; PHYLOGENY; POLYMERASE CHAIN REACTION; QUINONES; SOIL MICROBIOLOGY;

CLOSTRIDIUM; DESULFITOBACTERIUM; FIRMICUTES; POSIBACTERIA;

EID: 34249750518     PISSN: 00489697     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.scitotenv.2007.03.021     Document Type: Article

References (39)

1. Amann R.I., Ludwig W., and Schleifer H.K. Phylogenetic identification and in situ detection of individual microbial cells without cultivation. Microbiol Rev 59 (1995) 143-169
2. Bouchard B., Beaudet R., Villemur R., McSween G., Lépine F., and Bisaillon J.-G. Isolation and characterization of Desulfitobacterium frappieri sp. nov., an anaerobic bacterium which reductively dechlorinates pentachlorophenol to 3-chlorophenol. Int J Syst Bacteriol 46 (1996) 1010-1015
3. Breitenstein A., Saano A., Salkinoja-Salonen M., Andreesen J.R., and Lechner U. Analysis of a 2,4,6-trichlorophenol-dehalogenating enrichment culture and isolation of the dehalogenating member Desulfitobacterium frappieri strain TCP-A. Arch Microbiol 175 (2001) 133-142
4. Brosius J., Palmer M.L., Kennedy P.J., and Noller H.F. Complete nucleotide sequence of a 16S rRNA gene from Escherichia coli. Proc Natl Acad Sci USA 75 (1978) 4801-4805
5. Chang Y.C., Hatsu M., Jung K., Yoo Y.S., and Takamizawa K. Isolation and characterization of a tetrachloroethylene dechlorinating bacterium, Clostridium bifermentans DPH-1. J Biosci Bioeng 89 (2000) 489-491
6. Christiansen N., and Ahring B.K. Desulfitobacterium hafniense sp. nov., an anaerobic, reductively dechlorinating bacterium. Int J Syst Bacteriol 46 (1996) 442-448
7. Cole J.R., Cascarelli A.L., Mohn W.W., and Tiedje J.M. Isolation and characterization of a novel bacterium growing via reductive dehalogenation of 2-chlorophenol. Appl Environ Microbiol 60 (1994) 3536-3542
8. Collins M.D., and Jones D. Distribution of isoprenoid quinone structural type in bacteria and their taxonomic implications. Microbiol Rev 45 (1981) 316-354
9. Daims H., Brühl A., Amann A.R., Schleifer K.-H., and Wagner M. The domain-specific probe EUB338 is insufficient for the detection of all bacteria: development and evaluation of a more comprehensive probe set. Syst Appl Microbiol 22 (1999) 434-444
10. Das A., Hugenholtz J., van Halbeek H., and Ljungdahl L.G. Structure and function of a menaquinone involved in electron transport in membranes of Clostridium thermoautotrophicum and Clostridium thermoaceticum. J Bacteriol 171 (1989) 5823-5829
11. Finneran K.T., Forbush H.M., VanPraagh C.V., and Lovley D.R. Desulfitobacterium metallireducens sp. nov., an anaerobic bacterium that couples growth to the reduction of metals and humic acids as well as chlorinated compounds. Int J Syst Evol Microbiol 52 (2002) 1929-1935
12. Gale E.F. Mechanisms of antibiotic action. Pharmacol Rev 15 (1963) 481-530
13. Gerritse J., Renard V., Pedro Gomes T.M., Lawson P.A., Collins M.D., and Gottschal J.C. Desulfitobacterium sp. strain PCE1, an anaerobic bacterium that can grow by reductive dechlorination of tetrachloroethene or ortho-chlorinated phenols. Arch Microbiol 165 (1996) 132-140
14. Gunsalus R.P., Romesser J.A., and Wolfe R.S. Preparation of coenzyme M analogues and their activity in the methyl coenzyme M reductase system of Methanobacterium thermotrophicum. Biochemistry 17 (1978) 2374-2376
15. Hiraishi A., Ueda Y., and Ishihara J. Quinone profiling of bacterial population in natural and synthetic sewage activated sludge for enhanced phosphate removal. Appl Environ Microbiol 64 (1998) 992-998
16. Ide A., Niki Y., Sakamoto F., and Watanabe I. Decomposition of pentachlorophenol in paddy soil. Agric Biol Chem 36 (1972) 1937-1944
17. Juteau P., Beaudet R., McSween G., Lépine F., Milot S., and Bisaillon J.-G. Anaerobic biodegradation of pentachlorophenol by a methanogenic consortium. Appl Microbiol Biotechnol 44 (1995) 218-224
18. Katayama A., and Fujie K. Characterization of soil microbiota with quinone profile. In: Bollag J.M., and Stozky G. (Eds). Soil biochemistry vol. 10 (2000), Dekker, New York 331-352
19. Kamashwaran S.R., and Crawford D.L. Anaerobic biodegradation of pentachlorophenol in mixtures containing cadmium by two physiologically distinct microbial enrichment cultures. J Industr Microbiol Biotech 27 (2001) 11-17
20. Kim H.-K., Inoue Y., Handa Y., Yasuda T., Lee Y.-S., and Katayama A. Anaerobic biodegradation of PCP in Japanese paddy soils. Kor J Environ Agric 23 (2004) 138-141
21. Kuwatsuka S., and Igarashi M. Degradation of PCP in soils II. The relationship between the degradation of PCP and the properties of soils, and the identification of the degradation products of PCP. Soil Sci Nutr 21 (1975) 405-414
22. Lanthier M., Juteau P., Lépine F., Beaudet R., and Villemur R. Desulfitobacterium hafniense is present in a high proportion within the biofilms of a high-performance pentachlorophenol-degrading, methanogenic fixed-film reactor. Appl Environ Microbiol 71 (2005) 1058-1065
23. Madsen T., and Licht D. Isolation and characterization of an anaerobic chlorophenol-transforming bacterium. Appl Environ Microbiol 58 (1992) 2874-2878
24. Mohn W.W., and Kennedy K.J. Reductive dehalogenation of chlorophenols by Desulfomonile tiedjei DCB-1. Appl Environ Microbiol 58 (1992) 1367-1370
25. Muyzer G., de Waal E.C., and 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 (1993) 695-700
26. Nieto M., and Perkins H.R. Physicochemical properties of vancomycin and iodovancomycin and their complexes with diacetyl-l-lysyl-d-alanyl-d-alanine. Biochem J 123 (1971) 773-787
27. Raskin L., Stromley J.M., Rittmann B.E., and Stahl D.A. Group-specific 16S rRNA hybridization probes to describe natural communities of methanogens. Appl Environ Microbiol 60 (1994) 1232-1240
28. Roser D.J. Ethidium bromide: a general purpose fluorescent stain for nucleic acid in bacteria and eucaryotes and its use in microbial ecology studies. Soil Biol Biochem 12 (1980) 329-336
29. Sanford R.A., Cole J.R., Löffler F.E., and Tiedje J.M. Characterization of Desulfitobacterium chlororespirans sp. nov., which grows by coupling the oxidation of lactate to the reductive dechlorination of 3-chloro-4-hydroxybenzoate. Appl Environ Microbiol 62 (1996) 3800-3808
30. Sanford R.A., Cole J.R., and Tiedje J.M. Characterization and description of Anaeromyxobacter dehalogenans gen. nov., sp. nov., an aryl-halorespiring facultative anaerobic myxobacterium. Appl Environ Microbiol 68 (2002) 893-900
31. Sun B., Cole J.R., Sanford R.A., and Tiedje J.M. Isolation and characterization of Desulfovibrio dechloracetivorans sp. nov., a marine dechlorinating bacterium growing by coupling the oxidation of acetate to the reductive dechlorination of 2-chlorophenol. Appl Environ Microbiol 66 (2000) 2408-2413
32. Suyama A., Iwakiri R., Kai K., Tokunaga T., Sera N., and Furukawa K. Isolation and characterization of Desulfitobacterium sp. strain Y51 capable of efficient dehalogenation of tetrachloroethene and polychloroethanes. Biosci Biotechnol Biochem 65 (2001) 1474-1481
33. Smits T.H., Devenoges C., Szynalski K., Maillard J., and Holliger C. Development of a real-time PCR method for quantification of the three genera Dehalobacter, Dehalococcoides, and Desulfitobacterium in microbial communities. J Microbiol Methods 57 (2004) 369-378
34. Takeuchi R., Suwa Y., Yamagishi T., and Yonezawa Y. Anaerobic transformation of chlorophenols in methanogenic sludge unexposed to chlorophenols. Chemosphere 41 (2000) 1457-1462
35. Taylor B.F., and Oremland R.S. Depletion of adenosine triphosphate in Desulfovibrio by oxyanions of group VI elements. Curr Microbiol 3 (1979) 101-103
36. Utkin I., Dalton D.D., and Wiegel J. Specificity of reductive dehalogenation of substituted ortho-chlorophenols by Desulfitobacterium dehalogenans JW/IU-DC1. Appl Environ Microbiol 61 (1995) 346-351
37. van de Pas B.A., Harmsen H.J., Raangs G.C., de Vos W.M., Schraa G., and Stams A.J. A Desulfitobacterium strain isolated from human feces that does not dechlorinate chloroethenes or chlorophenols. Arch Microbiol 175 (2001) 389-394
38. Yamamoto K., Kamiya T., Komuro M., Kakefuda S., Murakami R., and Takai K. Further studies on the causative agent of flat sour spoilage-clostridia. J Food Hyg Soc Jpn 27 (1986) 20-26
39. Yoshida N., Takahashi N., and Hiraishi A. Phylogenetic characterization of a polychlorinated-dioxin - dechlorinating microbial community by use of microcosm studies. Appl Environ Microbiol 71 (2005) 4325-4334