Response of the soil bacterial community to the addition of toluene and toluene-degrading bacteria

Soil Biology and Biochemistry

Volumn 36, Issue 3, 2004, Pages 479-487

  Chao, W L ^a   Hsu, S F ^a  

^a SOOCHOW UNIVERSITY   (Taiwan)

Author keywords

Bacterial community; Fatty acid methyl ester; Reverse sample genome probing; Toluene

Indexed keywords

BACTERIA; CULTIVATION; ESTERS; FATTY ACIDS; TOLUENE;

REVERSE SAMPLE GENOME PROBING (RSGP); SOIL BACTERIAL COMMUNITY;

SOILS;

BIODEGRADATION; MICROBIAL COMMUNITY; TOLUENE;

ACINETOBACTER; ACINETOBACTER SP.; AGROBACTERIUM; AGROBACTERIUM SP.; AGROBACTERIUM TUMEFACIENS; ALCALIGENES; ALCALIGENES SP.; BACILLUS SP.; BACILLUS SUBTILIS; BACTERIA (MICROORGANISMS); BURKHOLDERIA; BURKHOLDERIA SP.; CELLULOMONAS; CELLULOMONAS SP.; ERWINIA; ERWINIA SP.; GAMMAPROTEOBACTERIA; NEGIBACTERIA; POSIBACTERIA; PROTEOBACTERIA; PSEUDOMONAS; PSEUDOMONAS PUTIDA; PSEUDOMONAS SP.; RHIZOBIUM; RHIZOBIUM FREDII; SINORHIZOBIUM FREDII;

EID: 1242277878     PISSN: 00380717     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.soilbio.2003.10.025     Document Type: Article

References (42)

1. Alexander M. Biodegradation and Bioremediation. second ed. 1999;Academic Press, New York. 442 pp.
2. Bakken L.R. Culturable and nonculturable bacteria in soil. van Elsas J.D., Trevors J.T., Wellington E.M.H. Modern Soil Microbiology. 1997;47-61 Marcel Dekker, New York.
3. Baud-Grasset F., Vogel T.M. Bioaugmentation: biotreatment of contaminated soil by adding adapted bacteria. Hinchee R.E., Fredrickson J., Alleman B.C. Bioaugmentation for Site Remediation. 1995;39-49 Battelle, Columbus.
4. Boon N., Goris J., de Vos P., Verstraete W., 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. Brown B.J., Leff L.G. Comparison of fatty acid methyl ester analysis with the use of API 20E and NFT strips for identification of aquatic bacteria. Applied and Environmental Microbiology. 62:1996;2183-2185.
6. Bundy J.G., Paton G.I., Campbell C.D. Microbial communities in different soil types do not converge after diesel contamination. Journal of Applied Microbiology. 92:2002;276-288.
7. Cassel D.K., Nielsen D.R. Field capacity and available water capacity. Klute A. Methods of Soil Analysis. Part I. Physical and Mineralogical Methods. second ed. 1986;901-926 Soil Science Society of Amierica, Madison.
8. Chang B.V., Wu W.B., Yuan S.Y. Biodegradation of benzene, toluene and other aromatic compounds by Pseudomonas sp. D8. Chemosphere. 35:1997;2807-2815.
9. Chao W.L., Tien C.C., Chao C.C. Investigation of the effect of different kinds of fertilizers on the compositions of a soil microbial community using the molecular biology technique. Journal of the Chinese Agricultural Chemical Society. 35:1997;252-262.
10. Dunbar J., Takala S., Barns S.M., Davis J.A., Kuske C.R. Levels of bacterial community diversity in four arid soils compared by cultivation and 16S rRNA gene cloning. Applied and Environmental Microbiology. 65:1999;1662-1669.
11. Ellis R.J., Morgan P., Weightman A.J., Fry J.C. Cultivation-dependent and -independent approaches for determining bacterial diversity in heavy-metal-contaminated soil. Applied and Environmental Microbiology. 69:2003;3223-3230.
12. Goldstein R.M., Mallory L.M., Alexander M. Reasons for possible failure of inoculation to enhance biodegradation. Applied and Environmental Microbiology. 50:1985;977-983.
13. Greene E.A., Kay J.G., Jaber K., Stehmeier L.G., Voordouw G. Composition of soil microbial communities enriched on a mixture of aromatic hydrocarbons. Applied and Environmental Microbiology. 66:2000;5282-5289.
14. Hase C., Nievergelt J., Moenne-Loccoz Y., Defago G. Survival of biocontrol Pseudomonas fluorescens CHA0 in lysimeter effluent water depends on time of the year and soil type. Journal of Applied Microbiology. 90:2001;567-577.
15. Holben W.E. Isolation and purification of bacterial DNA from soil. Weaver R.W., Angle J.S., Bottomley P.S. Methods of Soil Analysis. Part 2. Microbiology and Biochemical Properties. 1994;727-752 Soil Science Society of America, Madison.
16. Hopkins D.W., MacNaughton S.J., O'Donnell A.G. A dispersion and differential centrifugation technique for representatively sampling micro-organisms from soil. Soil Biology & Biochemistry. 23:1991;217-225.
17. Hubert C., Shen Y., Voordouw G. Composition of toluene-degrading microbial communities from soil at different concentrations of toluene. Applied and Environmental Microbiology. 65:1999;3064-3070.
18. Juteau P., Rho D., Larocque R., LeDuy A. Analysis of the relative abundance of different types of bacteria capable of toluene degradation in a compost biofilter. Applied Microbiology and Biotechnology. 52:1999;863-868.
19. Kaiser O., Pühler O., Selbitschka W. Phylogenetic analysis of microbial diversity in the rhizosphere of oilseed rape (Brassica napus cv Westar) employing cultivation-dependent and cultivation-independent approaches. Microbial Ecology. 42:2001;136-149.
20. Kasahara Y., Hattori T. Analysis of bacterial populations in a grassland soil according to rates of development on solid media. FEMS Microbiology Ecology. 86:1991;95-102.
21. Koizumi Y., Kelly J.J., Nagakawa T., Urakawa H., El-Frantroussi S., Al-Muzaini S., Fukui M., Urushigawa Y., Stahl D.A. Parallel characterization of anaerobic toluene- and ethylbenzene-degrading microbial consortia by PCR-denaturing gradient gel electrophoresis, RNA-DNA membrane hybridization, and DNA microarray technology. Applied and Environmental Microbiology. 68:2002;3215-3225.
22. Léveillé S.A., Leduc L.G., Ferroni G.D., Telang A.J., Voordouw G. Monitoring of bacterial in acid mine environments by reverse sample genome probing. Canadian Journal of Microbiology. 47:2001;431-442.
23. Mahaffee W.F., Kloepper J.W. Bacterial communities of the rhizosphere and endorhiza associated with field-grown cucumber plants inoculated with a plant growth-promoting rhizobacterium or its genetically modified derivative. Canadian Journal of Microbiology. 43:1997;344-353.
24. Mallory L.M., Sinclair J.L., Liang L.N., Alexander M. A simple and sensitive method for assessing survival in environmental samples of species used in recombinant DNA research. Recombinant DNA Technical Bulletin. 5:1982;5-6.
25. Marshall K.C. Microbial ecology: whither goest thou? Guerrero R., Pedros-Alio C. Trends in Microbial Ecology. 1993;5-8 Spanish Society for Microbiology, Barcelona, Spain.
26. Newcombe D.A., Crowley D.E. Bioremediation of atrazine-contaminated soil by repeated applications of atrazine-degrading bacteria. Applied Microbiology and Biotechnology. 6:1999;877-882.
27. Ritz K., Griffiths B. Potential application of a community hybridization technique for assessing changes in the population structure of soil microbial communities. Soil Biology & Biochemistry. 26:1994;963-971.
28. Röling W.F.M., Milner M.G., Jones D.M., Lee K., Daniel F., Swannell R.J.P., Head I.M. Robust hydrocarbon degradation and dynamics of bacterial communities during nutrient-enhanced oil spill biodegradation. Applied and Environmental Microbiology. 68:2002;5537-5548.
29. Schoenfeld J., Gelsomino A., van Overbeek L.S., Gorissen A., Smalla K., van Elsas J.D. Effects of compost addition and simulated solarisation on the fate of Ralstonia solanacearum biovar 2 and indigenous bacteria in soil. FEMS Microbiology Ecology. 43:2003;63-74.
30. Schwieger F., Tebbe C.C. Effect of field inoculation with Sinorhizobium meliloti L33 on the composition of bacterial communities in rhizospheres of a target plant (Medicago sativa) and a non-target plant (Chenopodium album) - Linking of 16S rRNA gene-based single-strand conformation polymorphism community profiles to the diversity of cultivated bacteria. Applied and Environmental Microbiology. 66:2000;3556-3565.
31. Shi Y., Zwolinski M.D., Schreiber M.E., Bahr J.M., Sewell G.W., Hickey W.J. Molecular analysis of microbial community structures in pristine and contaminated aquifers: field and laboratory microcosm experiments. Applied and Environmental Microbiology. 65:1999;2143-2150.
32. Smit E., Leeflang P., Gommans S., van den Broek J., van Mil S., Wernars K. Diversity and seasonal fluctuations of the dominant members of the bacterial soil community in a wheat field as determined by cultivation and molecular methods. Applied and Environmental Microbiology. 67:2001;2284-2291.
33. Söderberg K.H., Bååth E. Bacterial activity along a young barley root measured by the thymidine and leucine incorporation techniques. Soil Biology & Biochemistry. 30:1998;1259-1268.
34. Sung H.H., Li H.C., Tsai F.M., Ting Y.Y., Chao W.L. Changes in the composition of Vibrio communities in pond water during tiger shrimp (Penaeus monodon) cultivation and in the hepatopancreas of healthy and diseased shrimp. Journal of Experimental Marine Biology and Ecology. 236:1999;261-271.
35. Suzuki M.T., Giovannoni S.J. Bias caused by template annealing in the amplification of mixtures of 16S rRNA genes by PCR. Applied and Environmental Microbiology. 62:1996;625-630.
36. Tani K., Masuhara M., Welikala N., Yamaguchi N., Nasu M. Change in bacterial community during biodegradation of aniline. Journal of Applied Microbiology. 84:1998;859-864.
37. van Veen J.A., van Overbeek L.S., van Elsas J.D. Fate and activity of microorganisms introduced into soil. Microbiology and Molecular Biology Reviews. 61:1997;121-135.
38. Voordouw G., Voordouw J.K., Karkhoff-Schweizer R.R., Fedorak P.M., Westlake D.W.S. Reverse sample genome probing, a new technique for identification of bacteria in environmental samples by DNA hybridization, and its application to the identification of sulfate-reducing bacteria in oil field samples. Applied and Environmental Microbiology. 57:1991;3070-3078.
39. Voordouw G., Voordouw J.K., Jack T.R., Foght J., Fedorak P.M., Westlake D.W.S. Identification of distinct communities of sulfate-reducing bacteria in oil fields by reverse sample genome probing. Applied and Environmental Microbiology. 58:1992;3542-3552.
40. Watanabe K., Hino S., Takahashi N. Effects of exogenous phenol-degrading bacteria on performance and ecosystem of activated sludge. Journal of Fermentation and Bioengineering. 82:1996;291-298.
41. Widmer F., Fließbach A., Laczkó E., Schulze-Aurich J., Zeyer J. Assessing soil biological characteristics: a comparison of bulk soil community DNA-, PLFA-, and Biolog™-analyses. Soil Biology & Biochemistry. 33:2001;1029-1036.
42. Zhou J.Z., Bruns M.A., Tiedje J.M. DNA recovery from soils of diverse composition. Applied and Environmental Microbiology. 62:1996;316-322.