Effect of Sphingobium yanoikuyae B1 inoculation on bacterial community dynamics and polycyclic aromatic hydrocarbon degradation in aged and freshly PAH-contaminated soils

Environmental Pollution

Volumn 144, Issue 1, 2006, Pages 228-237

  Cunliffe, Michael ^a   Kertesz, Michael A ^a  

^a UNIVERSITY OF MANCHESTER   (United Kingdom)

Author keywords

Bacteria; Bioaugmentation; Biodegradation; Community dynamics; Denaturing gel electrophoresis; Inoculum survival; Polycyclic aromatic hydrocarbon; Soil; Sphingomonas

Indexed keywords

BACTERIA; CONTAMINATION; ELECTROPHORESIS; GELS; POLYCYCLIC AROMATIC HYDROCARBONS; SOILS;

BIOAUGMENTATION; COMMUNITY DYNAMICS; DENATURING GEL ELECTROPHORESIS; INOCULUM SURVIVAL; SPHINGOMONAS;

PATHOLOGY;

POLYCYCLIC AROMATIC HYDROCARBON;

ELECTROKINESIS; INOCULATION; MICROBIAL COMMUNITY; PAH; SOIL POLLUTION;

ARTICLE; BACTERIAL COLONIZATION; BACTERIAL FLORA; BACTERIAL SURVIVAL; BACTERIUM COMPETENCE; BIODEGRADATION; CHEMICAL INDUSTRY; COMMUNITY DYNAMICS; COMPOST; CONTROLLED STUDY; DENATURATION; ECOLOGICAL NICHE; ECOLOGY; GEL ELECTROPHORESIS; INOCULATION; MICROBIOLOGY; NONHUMAN; SOIL ANALYSIS; SOIL POLLUTION; SPHINGOBIUM YANOIKUYAE; SPHINGOMONAS;

BIODEGRADATION, ENVIRONMENTAL; DNA, BACTERIAL; ELECTROPHORESIS, POLYACRYLAMIDE GEL; INDUSTRIAL WASTE; POLYCYCLIC HYDROCARBONS, AROMATIC; SEQUENCE ANALYSIS, DNA; SOIL MICROBIOLOGY; SOIL POLLUTANTS; SPHINGOMONAS;

BACTERIA (MICROORGANISMS); SPHINGOBIUM YANOIKUYAE; SPHINGOMONAS;

EID: 33748117392     PISSN: 02697491     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.envpol.2005.12.026     Document Type: Article

References (42)

1. Amellal N., Portal J.M., Vogel T., and Berthelin J. Distribution and location of polycyclic aromatic hydrocarbons (PAHs) and PAH-degrading bacteria within polluted soil aggregates. Biodegradation 12 (2001) 49-57
2. Andreoni V., Cavalca L., Rao M.A., Nocerino G., Bernasconi S., Dell'Amico E., Colombo M., and Gianfreda L. Bacterial communities and enzyme activities of PAHs polluted soils. Chemosphere 57 (2004) 401-412
3. Bastiaens L., Springael D., Wattiau P., Harms H., deWachter R., Verachtert H., and Diels L. Isolation of adherent polycyclic aromatic hydrocarbon (PAH)-degrading bacteria using PAH-sorbing carriers. Applied and Environmental Microbiology 66 (2000) 1834-1843
4. Boon N., Goris J., De Vos P., Verstraete W., and Top E.M. Bioaugmentation of activated sludge by an indigenous 3- chloroaniline-degrading Comamonas testosteroni strain, I2gfp. Applied and Environmental Microbiology 66 (2000) 2906-2913
5. Boonchan S., Britz M.L., and Stanley G.A. Surfactant-enhanced biodegradation of high molecular weight polycyclic aromatic hydrocarbons by Stenotrophomonas maltophilia. Biotechnology and Bioengineering 59 (1998) 482-494
6. Chao W.L., and Hsu S.F. Response of the soil bacterial community to the addition of toluene and toluene-degrading bacteria. Soil Biology and Biochemistry 36 (2004) 479-487
7. Colores G.M., and Schmidt S.K. Colonization of contaminated soil by an introduced bacterium: effects of initial pentachlorophenol levels on the survival of Sphingomonas chlorophenolica strain RA2. Journal of Industrial Microbiology and Biotechnology 23 (1999) 326-331
8. Day S.J., Morse G.K., and Lester J.N. The cost effectiveness of contaminated land remediation strategies. Science of the Total Environment 201 (1997) 125-136
9. Fargione J., Brown C.S., and Tilman D. Community assembly and invasion: an experimental test of neutral versus niche processes. Proceedings of the National Academy of Sciences, USA 100 (2003) 8916-8920
10. Gibson D.T. Beijerinckia sp strain B1: a strain by any other name. Journal of Industrial Microbiology and Biotechnology 23 (1999) 284-293
11. Girvan M.S., Campbell C.D., Killham K., Prosser J.I., and Glover L.A. Bacterial diversity promotes community stability and functional resilience after perturbation. Environmental Microbiology 7 (2005) 301-313
12. Habe H., and Omori T. Genetics of polycyclic aromatic hydrocarbon metabolism in diverse aerobic bacteria. Bioscience Biotechnology and Biochemistry 67 (2003) 225-243
13. Hatzinger P.B., and Alexander M. Effect of aging of chemicals in soil on their biodegradability and extractability. Environmental Science and Technology 29 (1995) 537-545
14. Huesemann M.H., Hausmann T.S., and Fortman T.J. Does bioavailability limit biodegradation? A comparison of hydrocarbon biodegradation and desorption rates in aged soils. Biodegradation 15 (2004) 261-274
15. Jernberg C., and Jansson J.K. Impact of 4-chlorophenol contamination and/or inoculation with the 4-chlorophenol-degrading strain, Arthrobacter chlorophenolicus A6L, on soil bacterial community structure. FEMS Microbiology Ecology 42 (2002) 387-397
16. Johnsen A.R., Wick L.Y., and Harms H. Principles of microbial PAH-degradation in soil. Environmental Pollution 133 (2005) 71-84
17. Johnsen K., Andersen S., and Jacobsen C.S. Phenotypic and genotypic characterization of phenanthrene-degrading fluorescent Pseudomonas biovars. Applied and Environmental Microbiology 62 (1996) 3818-3825
18. Kanaly R.A., and Harayama S. Biodegradation of high-molecular-weight polycyclic aromatic hydrocarbons by bacteria. Journal of Bacteriology 182 (2000) 2059-2067
19. Kästner M., Breuer-Jammali M., and Mahro B. Enumeration and characterization of the soil microflora from hydrocarbon-contaminated soil sites able to mineralize polycyclic aromatic hydrocarbons (PAH). Applied Microbiology and Biotechnology 41 (1994) 267-273
20. Kästner M., Breuer-Jammali M., and Mahro B. Impact of inoculation protocols, salinity, and pH on the degradation of polycyclic aromatic hydrocarbons (PAHs) and survival of PAH-degrading bacteria introduced into soil. Applied and Environmental Microbiology 64 (1998) 359-362
21. Kennedy T.A., Naeem S., Howe K.M., Knops J.M.H., Tilman D., and Reich P. Biodiversity as a barrier to ecological invasion. Nature 417 (2002) 636-638
22. Kim E., and Zylstra G.J. Functional analysis of genes involved in biphenyl, naphthalene, phenanthrene, and m-xylene degradation by Sphingomonas yanoikuyae B1. Journal of Industrial Microbiology and Biotechnology 23 (1999) 294-302
23. Leys N., Ryngaert A., Bastiaens L., Verstraete W., Top E.M., and Springael D. Occurrence and phylogenetic diversity of Sphingomonas strains in soils contaminated with polycyclic aromatic hydrocarbons. Applied and Environmental Microbiology 70 (2004) 1944-1955
24. Leys N.M., Bastiaens L., Verstraete W., and Springael D. Influence of the carbon/nitrogen/phosphorus ratio on polycyclic aromatic hydrocarbon degradation by Mycobacterium and Sphingomonas in soil. Applied Microbiology and Biotechnology 66 (2005) 726-736
25. Lynch J.M., Benedetti A., Insam H., Nuti M.P., Smalla K., Torsvik V., and Nannipieri P. Microbial diversity in soil: ecological theories, the contribution of molecular techniques and the impact of transgenic plants and transgenic microorganisms. Biology and Fertility of Soils 40 (2004) 363-385
26. Morita R.Y. Bacteria in Oligotrophic Environments: Starvation-Survival Lifestyle (1997), Chapman & Hall, London
27. Muyzer G., De Waal E.D., 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. Applied and Environmental Microbiology 59 (1993) 695-700
28. Paul D., Pandey G., Pandey J., and Jain R.K. Accessing microbial diversity for bioremediation and environmental restoration. Trends in Biotechnology 23 (2005) 135-142
29. Pelz O., Tesar M., Wittich R.M., Moore E.R.B., Timmis K.N., and Abraham W.R. Towards elucidation of microbial community metabolic pathways: unravelling the network of carbon sharing in a pollutant- degrading bacterial consortium by immunocapture and isotopic ratio mass spectrometry. Environmental Microbiology 1 (1999) 167-174
30. Pinyakong O., Habe H., and Omori T. The unique aromatic catabolic genes in sphingomonads degrading polycyclic aromatic hydrocarbons (PAHs). Journal of General and Applied Microbiology 49 (2003) 1-19
31. Sambrook J., Fritsch E.F., and Maniatis T. Molecular Cloning: A Laboratory Manual. second ed. (1989), CSH Press, Cold Spring Harbor
32. Semple K.T., Morriss A.W.J., and Paton G.I. Bioavailability of hydrophobic organic contaminants in soils: fundamental concepts and techniques for analysis. European Journal of Soil Science 54 (2003) 809-818
33. Singer A.C., van der Gast C.J., and Thompson I.P. Perspectives and vision for strain selection in bioaugmentation. Trends in Biotechnology 23 (2005) 74-77
34. Stephen J.R., Chang Y.J., MacNaughton S.J., Whitaker S.L., Hicks C.L., Leung K.T., Flemming C.A., and White D.C. Fate of a metal-resistant inoculum in contaminated and pristine soils assessed by denaturing gradient gel electrophoresis. Environmental Toxicology and Chemistry 18 (1999) 1118-1123
35. Thompson I.P., van der Gast C.J., Ciric L., and Singer A.C. Bioaugmentation for bioremediation: the challenge of strain selection. Environmental Microbiology 7 (2005) 909-915
36. Treves D.S., Xia B., Zhou J., and Tiedje J.M. A two-species test of the hypothesis that spatial isolation influences microbial diversity in soil. Microbial Ecology 45 (2003) 20-28
37. van Veen J.A., van Overbeek L.S., and van Elsas J.D. Fate and activity of microorganisms introduced into soil. Microbiology and Molecular Biology Reviews 61 (1997) 121-135
38. Wenderoth D.F., Rosenbrock P., Abraham W.R., Pieper D.H., and Hofle M.G. Bacterial community dynamics during biostimulation and bioaugmentation experiments aiming at chlorobenzene degradation in groundwater. Microbial Ecology 46 (2003) 161-176
39. Widada J., Nojiri H., Kasuga K., Yoshida T., Habe H., and Omori T. Molecular detection and diversity of polycyclic aromatic hydrocarbon-degrading bacteria isolated from geographically diverse sites. Applied Microbiology and Biotechnology 58 (2002) 202-209
40. Wilson S.C., and Jones K.C. Bioremediation of soil contaminated with polynuclear aromatic hydrocarbons (PAHs) - a review. Environmental Pollution 81 (1993) 229-249
41. Zocca C., Di Gregorio S., Visentini F., and Vallini G. Biodiversity amongst cultivable polycyclic aromatic hydrocarbon-transforming bacteria isolated from an abandoned industrial site. FEMS Microbiology Letters 238 (2004) 375-382
42. Zylstra G.J., and Kim E. Aromatic hydrocarbon degradation by Sphingomonas yanoikuyae B1. Journal of Industrial Microbiology and Biotechnology 19 (1997) 408-414