Bacterial diversity dynamics in a long-term petroleum-contaminated soil

Journal of Environmental Science and Health - Part A Toxic/Hazardous Substances and Environmental Engineering

Volumn 46, Issue 3, 2011, Pages 281-290

  Lee, Eun Hee ^a   Lee, Sang Hyon ^a   Cho, Kyung Suk ^a  

^a Ewha Womans University   (South Korea)

Author keywords

Bacterial community; Contaminated soil; Correlation analysis; Petroleum hydrocarbon

Indexed keywords

BACTERIAL COMMUNITY; BACTERIAL COMMUNITY STRUCTURE; BACTERIAL DIVERSITY; CANONICAL CORRESPONDENCE ANALYSIS; CONTAMINATED SOILS; CORRELATION ANALYSIS; GRADIENT GEL ELECTROPHORESIS; J VALUE; MICROBIAL ACTIVITIES; ORGANIC MATTER CONTENT; PCR-DGGE; PETROLEUM HYDROCARBONS; PETROLEUM-CONTAMINATED SOIL; POSITIVE CORRELATIONS; SOIL SAMPLE; SOIL SAMPLING; TERMINAL RESTRICTION FRAGMENT LENGTH POLYMORPHISMS; TOLUENE MONOOXYGENASES; TOTAL PETROLEUM HYDROCARBONS;

DYNAMICS; ELECTROPHORESIS; GENES; PETROLEUM CHEMISTRY; SOIL POLLUTION; SOIL SURVEYS; TOLUENE;

POLYMERASE CHAIN REACTION;

ADENOSINE TRIPHOSPHATE; BACTERIAL ENZYME; ORGANIC MATTER; PETROLEUM; TOLUENE MONOOXYGENASE; UNCLASSIFIED DRUG; PRIMER DNA;

ARTICLE; DENATURING GRADIENT GEL ELECTROPHORESIS; MICROBIAL ACTIVITY; MICROBIAL DIVERSITY; NONHUMAN; POLYMERASE CHAIN REACTION; RESTRICTION FRAGMENT; SOIL MICROFLORA; SOIL POLLUTION; BIODIVERSITY; GENETICS; MICROBIOLOGY; RESTRICTION FRAGMENT LENGTH POLYMORPHISM; SOIL POLLUTANT; SOUTH KOREA;

BACTERIA (MICROORGANISMS);

ADENOSINE TRIPHOSPHATE; BIODIVERSITY; DENATURING GRADIENT GEL ELECTROPHORESIS; DNA PRIMERS; PETROLEUM; POLYMERASE CHAIN REACTION; POLYMORPHISM, RESTRICTION FRAGMENT LENGTH; REPUBLIC OF KOREA; SOIL MICROBIOLOGY; SOIL POLLUTANTS;

EID: 79955002212     PISSN: 10934529     EISSN: 15324117     Source Type: Journal    
DOI: 10.1080/10934529.2011.535435     Document Type: Article

References (32)

1. Milcic-Terzic, J.; Vidal-Lopez, Y.; Saval, S. Detection of catabolic genes in indigenous microbial consortia isolated from a diesel contaminated soil. Bioresour. Technol. 2001, 78, 47-54. (Pubitemid 32101520)
2. Whittaker, M.; Pollard, S.J.T.; Fallick, T.E. Characterization of refractory wastes at heavy oil-contaminated sites: A review of conventional and novel methods. Environ. Technol. 1995, 16, 1009-1033. (Pubitemid 26014508)
3. Margesin, R.; Hämmerle, M.; Tscherko, D. Microbial activity and community composition during bioremediation of diesel-oilcontaminated soil: Effects of hydrocarbon concentration, fertilizers, and incubation time. Microb. Ecol. 2007, 53, 259-269.
4. Wang, Z.; Yang, C.; Kelly-Hooper, F.; Hollebone, B.P.; Peng, X.; Brown, C.E.; Landriault, M.; Sun, J.; Yang, Z. Forensic differentiation of biogenic organic compounds from petroleum hydrocarbons in biogenic and petrogenic compounds cross-contaminated soils and sediments. J. Chromatogr. A 2009, 1216, 1174-1191.
5. Cavalca, L.; Di Gennaro, P.; Colmbo,M.; Andreoni,V.; Bernasconi, S.;Ronco, I.; Bestetti,G.Distribution of catabolic pathways in some hydrocarbon-degrading bacteria from a subsurface polluted soil. Res. Microbiol. 2000, 151, 877-887. (Pubitemid 32011815)
6. Leahy, J.C.; Colwell, R.R. Microbial degradation of hydrocarbons in the environment. Microbiol. Mol. Biol. Rev. 1990, 54, 305-315.
7. Miller, R.N.; Vogel, C. In situ bioreclamation: Applications and investigations for hydrocarbon and contaminated site remediation. Butterworth-Heinmann, Boston, MA, USA, 1991; 283-302.
8. Atlas, R.M.; Cerniglia, C.E. Bioremediation of petroleum pollutants. Bioscience 1995, 45, 332-338.
9. Evans,F.F.;Rosado,A.S.; Sebastian,G.V.;Casella,R.; Machado, P.; Holmström, C.; Kjelleberg, S.; Van Elsas, J.D.; Seldin, L. Impact of oil contamination and biostimulation on the diversity of indigenous bacterial communities in soil microcosms. FEMS Microbiol. Ecol. 2004, 49, 295-305. (Pubitemid 38925336)
10. Maila, M.P.; Randima, P.; Surridge, K.; Drønen, K.; Cloete, T.E. Evaluation of microbial diversity of different soil layers at a contaminated diesel site. Int. Biodeterior. Biodegrad. 2005, 55, 39-44. (Pubitemid 40118190)
11. Song,D.;Katayama, A.Monitoring microbial community in a subsurface soil contaminated with hydrocarbons by quinine profile. Chemosphere 2005, 59, 305-314. (Pubitemid 40341895)
12. Bordenave, S.; Goñi-Urriza, M.S.; Caumette, P.; Duran, R. Effects of heavy fuel oil on the bacterial community structure of a pristine microbial mat. Appl. Environ. Microbiol. 2007, 73, 6089-6097. (Pubitemid 47548017)
13. Ringelberg, D.; Richmond, M.; Foley, K.; Reynolds, C. Utility of lipid biomarkers in support of bioremediation efforts at army sites. J. Microbiol. Methods 2008, 74, 17-25. (Pubitemid 351685740)
14. Koo, S.-Y.; Hong, S.H.; Ryu, H.W.; Cho, K.S. Plant growthpromoting trait of rhizobacteria isolated from soil contaminated with petroleum and heavy metals. J. Microbiol. Biotechnol. 2010, 20, 587-593.
15. Castaño,A.; Trazona, J.V.ATP assay on cell monolayers as an index of cytotoxicity. Bull. Environ. Contam. Toxicol. 1994, 53, 309-316. (Pubitemid 24180568)
16. Muyzer, G.; Brinkhoff, T.; Nübel, U.; Santegoeds, C.; Schäfer, H.; Wawer, C. Denaturing gradient gel electrophoresis (DGGE) in microbial ecology. In Molecular microbial ecology manual, vol. 3.4.4.; Akkermans, A.D.L., van Elsas, J.D., de Bruijn, F.J. Eds.; Kluwer Academic Publishers, Dordrecht, The Netherlands, 1998; 1-27.
17. Muyzer, G.; Teske, A.; Wirsen, C.O.; Jannasch, H.W. Phylogenetic relationships of Thimicrospira species and their identification in deep-sea hydrothermal vent samples by denaturing gradient gel electrophoresis of 16S rDNA fragments. Arch. Microbiol. 1995, 164, 165-172.
18. Cho, W.; Lee, E.-H.; Shim, E.H.; Kim, J.; Ryu, H.W.; Cho, K.S. Bacterial communities of biofilms sampled from seepage groundwater contaminated with petroleum oil. J. Microbiol. Biotechnol. 2005, 15, 952-964. (Pubitemid 41671830)
19. Shannon, C.R.; Weaver, W. The mathematical theory of communication. University of Illinois Press, Urbana, Illinois, USA, 1963.
20. Lee, E.-H.; Ryu, H.W.; Cho, K.S. Removal of benzene and toluene in polyurethane biofilter immobilized with Rhodococcus sp. EH831 under transient loading. Bioresour. Technol. 2009, 100, 5656-5663.
21. Egert, M.; Friedrich, M.W. Formation of pseudo-terminal restriction fragments, a PCR related bias affection terminal restriction fragments length polymorphism analysis of microbial community structure. Appl. Environ. Microbiol. 2003, 69, 2555-2562. (Pubitemid 36560329)
22. Hendrickx, B.; Junca, H.; Vosahlova, J.; Lindner, A.; Rüegg, I.; Bucheli-Witschel,M.; Faber, F.; Egli, T.;Mau,M.; Schlömann, M.; Brennerova,M.; Brenner,V.; Pieper,D.H.;Top,E.M.; Dejonghe,W.; Bastiaens, L.; Springae, D. Alternative primer sets for PCR detection of genotypes involved in bacterial aerobic BTEX degradation: Distribution of the genes in BTEX degrading isolates and in subsurface soils of a BTEX contaminated industrial site. J. Microbiol. Meth. 2006, 64, 250-265. (Pubitemid 43112124)
23. McCune, B.; Mefford, M.J. Multivariate analysis of ecological data, version 4. MjM Software Design, Gleneden Beach, Oregon, USA, 1999.
24. ter Braak, C.J.F.; Šmilauer, P. CANOCO reference manual and canoDraw for windows user's guide: Software for canonical community ordination (version 4.5).Microcomputer Power, Ithaca, New York, USA, 2002.
25. Margesin, R.; Labbé, D.; Schinner, F.; Greer, C.W.; Whyte, L.G. Characterization of hydrocarbon-degrading microbial populations in contaminated and pristineAlpine soils.Appl.Environ. Microbiol. 2003, 69, 3085-3092. (Pubitemid 36693309)
26. Fierera, N.; Schimela, J.P.; Holden, P.A. Variations in microbial community composition through two soil depth profiles. Soil Biol. Biochem. 2003, 35, 167-176. (Pubitemid 36339470)
27. MacNaughton, S.J.; Stephen, J.R.; Venosa, A.D.; Davis, G.A.; Chang, Y.J.; White, D.C. Microbial population changes during bioremediation of an experimental oil spill. Appl. Environ. Microbiol. 1999, 65, 3566-3574. (Pubitemid 29398987)
28. Lindstrom, J.E.; Barry, R.P.; Braddock, J.F. Long-term effects on microbial communities after a subarctic oil spill. Soil Biol. Biochem. 1999, 31, 1677-1689. (Pubitemid 29432547)
29. Margesin, R.; Zimmerbauer, A.; Schinner, F. Monitoring of bioremediation by soil biological activities. Chemosphere 2000, 40, 339-346. (Pubitemid 30016614)
30. Liang, Y.; Li, G.; Van Nostrand, J.D.; He, Z.; Wu, L.; Deng, Y.; Zhang, X.; Zhou, Z. Microarray-based analysis of microbial functional diversity along an oil contamination gradient in oil field. FEMS Microbiol. Ecol. 2009, 70, 324-333.
31. Junca, H.; Pieper, D. Functional gene diversity analysis in BTEX contaminated soils by means of PCR-SSCP DNA fingerprinting: comparative diversity assessment against bacterial isolates and PCR-DNA clone libraries. Environ. Microbiol. 2004, 6, 95-110. (Pubitemid 38204135)
32. Holden, P.A.; Firestone,M.K. Soil microorganisms in soil cleanup: how can we improve our understanding? J. Environ. Qual. 1997, 26, 32-40. (Pubitemid 27052342)