Structure and functional analyses of bacterial communities changes in microbial mats following petroleum exposure

Ophelia

Volumn 58, Issue 3, 2004, Pages 195-203

  Bordenave, Sylvain ^a   Fourçans, Aude ^a   Blanchard, Sophie ^a   Goñi, Maria Soledad ^a   Caumette, Pierre ^a   Duran, Robert ^a  

^a UNIVERSITÉ DE PAU ET DES PAYS DE L'ADOUR   (France)

Author keywords

Biodegradation; Biodiversity; Hydrocarbons; Microbial mats; T RFLP

Indexed keywords

BACTERIUM; COMMUNITY STRUCTURE; CRUDE OIL; MICROBIAL MAT; OIL POLLUTION; POLLUTION EFFECT;

BOUCHES-DU-RHONE; CAMARGUE; EASTERN HEMISPHERE; EURASIA; EUROPE; FRANCE; PROVENCE-ALPES-COTE D'AZUR; SALINS-DE-GIRAUD; WESTERN EUROPE; WORLD;

BACTERIA (MICROORGANISMS); BURKHOLDERIA; CHLOROFLEXUS; CYTOPHAGA; DESULFOVIBRIO; OTUS;

EID: 11844256975     PISSN: 00785326     EISSN: None     Source Type: Journal    
DOI: 10.1080/00785236.2004.10410227     Document Type: Article

References (38)

1. Abed, R.M., Safi, N.M., Koster, J., de Beer, D., El-Nahhal, Y, Rullkotter, J. and García-Pichel, F. 2002. Microbial diversity of a heavily polluted microbial mat and its community changes following degradation of petroleum compounds. Appl. Environ. Microbiol. 68(4): 1674-1683
2. Blackwood, C.B., Marsh, T., Kim, S.H. and Paul, E.A. 2003. Terminal restriction fragment length polymorphism data analysis for quantitative comparison of mi’ crobial communities. Appl. Environ. Microbiol. 69(2): 926-932
3. Brezna, B., Khan, A.A. and Cerniglia, C.E. 2003. Molecular characterization of dioxygenases from polycyclic aromatic hydrocarbon-degrading Mycobacterium spp. FEMSMicrobiol. Lett. 223(2): 177-183
4. Caumette, P., Matheron, R., Raymond, N. and Relexans, J.-C. 1994. Microbial mats in the hypersaline ponds of Mediterranean salterns (Salins-de-Giraud, France). FEMS Microbiol. Ecol. 13: 273-286
5. Cerniglia, C.E., Van Baalen, C. and Gibson, D.T. 1980. Oxidation of biphenyl by the cyanobacterium, Oscillataria sp., strain JCM. Arch. Microbiol. 125(3): 203-207
6. Contzen, M. and Stolz, A. 2000. Characterization of the genes for two protocatechuate 3, 4rdioxygenases from the 4rSulfocatechol-degrading bacterium Agrobacterium radiobacterstrain S2. J. Bacterial 182(21): 6123-6129
7. Dahllof, I. 2002. Molecular community analysis of microbial diversity. Curt Opin. BiotechnoL 13(3): 213-217
8. Ensley, B.D., Gibson, D.T. and Laborde, A.L. 1982. Oxidation of naphthalene by a multicomponent enzyme system from Pseudomonas sp. strain NCIB 9816. J. BacterioL 149(3): 948-954
9. Feng, Y, Khoo, H.E. and Poh, C.L. 1999. Purification and characterization of gentisate 1,2-dioxygenases from Pseudomonas alcaligenes NCIB 9867 and Pseudomonas putida NCIB 9869. Appl. Environ. Microbiol 65(3): 946-950
10. Giani, D., Seeler, J., Giani, L. and Wolfgang, E.K. 1989. Microbial mats and physiochemistry in a saltern in the Bretagne (France) and in a laboratory scale saltern model. FEMS Microbiol. Ecol. 62: 151-162
11. Haddad, S., Eby, D.M. and Neidle, E.L. 2001. Cloning and expression of the benzoate dioxygenase genes from Khodococcus sp. strain 19070. Appl. Environ. Microbiol 67(6): 2507-2514
12. Hoffmann, L. 1996. Recolonisation of the intertidal flats by microbial mats after the Gulf War oil spill. In. Krupp, F., Abuzinada, A.H. and Nader, IA. (Eds.) A marine wildlife sanctuary for the Arabian Gulf: environmental research and conservation following the 1991 Gulf War oil spill. Riyad, Saudi Arabia, and Seneckenberg Research Institue, Frankfurt, Germany, pp. 96-115
13. Kanaly, R.A., Bartha, R., Watanabe, K. and Harayama, S. 2000. Rapid mineralization of benzo[a]pyrene by a microbial consortium growing on diesel fuel. Appl. Environ. Microbiol. 66(10): 4205-4211
14. Kanaly, R.A., Harayama, S. and Watanabe, K. 2002. Rhodanobacter sp. strain BPC1 in a benzo[a]pyrenemineralizing bacterial consortium. Appl. Environ. Microbiol 68(12): 5826-5833
15. Kang, B.S., Ha, J.Y., Lim, J.C., Lee, J., Kim, C.K., Min, K.R. and Kim, Y. 1998. Structure of catechol 2,3-dioxygenase gene from Alcaligenes eutrophus 335. Biochem. Biophys. Res. Commun. 245(3): 791-796
16. Kasai, Y., Kishira, H., Syutsubo, K and Harayama, S. 2001. Molecular detection of marine bacterial populations on beaches contaminated by the Nakhodka tanker oil-spill accident. Environ. Microbiol 3(4): 246-255
17. Khan, A.A., Wang, R.F., Cao, W.W., Doerge, D.R., Wennerstrom, D. and Cerniglia, C.E. 2001. Molecular cloning, nucleotide sequence, and expression of genes encoding a polycyclic aromatic ring dioxygenase from Mycobacterium sp. strain PYR-1. Appl. Environ. Alicrobiol. 67(8): 3577-3585
18. Lane, D.J. 1991. 16S/23S rRNA sequencing. In: Stackenbradt, E. and Goodfellow, M. (Eds.) Nucleic acid techniques in bacterial systematics. Wiley, Chichester, pp. 115-175
19. Leahy, J.G. and Colwell, R.R. 1990. Microbial degradation of hydrocarbons in the environment. Microbiol. Rev. 54(3): 305-315
20. Liu, W.T., Marsh, T.L., Cheng, H. and Forney, L.J. 1997. Characterization of microbial diversity by determining terminal restriction fragment length polymorphisms of genes encoding 16S rRNA. Appl. Environ. Microbiol. 63(11): 4516-4522
21. MacNaughton, S.J., Stephen, J.R., Venosa, A.D., Davis, G.A., Chang, YJ. and White, D.C. 1999. Microbial population changes during bioremediation of an experimental oil spill. Appl. Environ. Microbiol. 65(8): 3566-3574
22. Megharaj, M., Singleton, I., McClure, N.C. and Naidu, R. 2000. Influence of petroleum hydrocarbon contamination on microalgae and microbial activities in a long-term contaminated soil. Arch. Environ. Contam. Toxicol 38(4): 439-445
23. Moser, R. and Stahl, U. 2001. Insights into the genetic diversity of initial dioxygenases from PAH-degrading bacteria. Appl. Microbiol. Biotechnol. 55(5): 609-618
24. Muyzer, G., de Waal, E.C. and Uitterlinden, A.G. 1993. 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(3): 695-700
25. Muyzer, G., Teske, A., Wirsen, C.O. and Jannasch, H.W. 1995. Phylogenetic relationships of Thiomicrospira species and their identification in deep-sea hydrothermal vent samples by denaturing gradient gel electrophoresis of 16S rDNA fragments. Arch. Microbiol 164(3): 165-172
26. Narro, M.L., Cerniglia, C.E., Van Baalen, C. and Gibson, D.T. 1992. Metabolism of phenanthrene by the marine cyanobacterium Agmenellum quadruplicatum PR-6. Appl. Environ. Microbiol 58(4): 1351-1359
27. Nogales, B., Moore, E.R., Llobet-Brossa, E., Rossello-Mora, R., Amann, R. and Timmis, K.N. 2001. Combined use of 16S ribosomal DNA and 16S rRNA to study the bacterial community of polychlorinated biphenyl-polluted soil. Appl. Environ. Microbiol 67(4): 1874-1884
28. Olsen, G.J., Lane, D.J., Giovannoni, S.J., Pace, N.R. and Stahl, D.A. 19S6. Microbial ecology and evolution: a ribosomal RNA approach. Annu. Rev. Microbiol 40: 337-365
29. Precigou, S., Gotilas, P. and Duran, R. 2001. Rapid and specific identification of nitrile hydratase (NHase)encoding genes in soil samples by polymerase chain reaction. FEMS Microbiol Lett. 204(1): 155-161
30. Radwan, S.S. and Al-Hasan, R.H. 2000. Oil pollution and cyanobacteria. In: B. A. Whitton and M. Potts (Eds.). The ecology of cyanobacteria. Kluwer Academic Publishers, Dordrecht, The Netherlands, pp. 307-319
31. Resnick, S.M. and Gibson, D.T. 1996. Regioand stereospecific oxidation of fluorene, dibenzofuran, and dibenzothiophene by naphthalene dioxygenase from Pseudomonas sp. strain NCIB 9816-4. Appl Environ. Microbiol 62(11): 4073-4080
32. Richardson, R.E., Bhupathiraju, V.K., Song, D.L., Goulet, T.A. and Alvarez-Cohen, L. 2002. Phylogenetic characterization of microbial communities that reductively dechlorinate TCE based upon a combination of molecular techniques. Environ. Sci. Technol. 36(12): 2652-2662
33. Rios-Hernandez, LA., Gieg, L.M. and Suflita, J.M. 2003. Biodegradation of an alicyclic hydrocarbon by a sulfate-reducing enrichment from a gas condensate-contaminated aquifer. Appl. Environ. Microbiol. 69(1): 434-443
34. Röling, W. F. M., Milner, M. G., Martin Jones D., Fratepietro, F., Swannell R. P. J., Daniel, F. and Head, I. M. 2004. Bacterial Community Dynamics and Hydrocarbon Degradation during a Field-Scale Evaluation of Bioremediation on a Mudflat Beach Contaminated with Buried Oil. Appl. Environ. Microbiol. 70(5): 2603-2613
35. Stach, J.E. and Burns, R.G. 2002. Enrichment versus biofilm culture: a functional and phylogenetic comparison of polycyclic aromatic hydrocarbon-degrading microbial communities. Environ. Microbiol 4(3): 169-182
36. Van Gemerden, H. 1993. Microbial mats: Ajoint of venture. Mar. Geol. 113: 3-25
37. Watts, J.E., Wu, Q., Schreier, S.B., May, H.D. and Sowers, K.R. 2001. Comparative analysis of polychlorinated biphenyl-dechlorinating communities in enrichment cultures using three different molecular screening techniques. Environ. MicrobioL 3(11): 710-719
38. Wu, Q., Watts, J.E., Sowers, K.R. and May, H.D. 2002. Identification of a bacterium that specifically catalyzes the reductive dechlorination of polychlorinated biphenyls with doubly flanked chlorines. Appl. Environ. MicrobioL 68(2): 807-81