Microbial transformation of organic chemicals in natural environments: Fate of chemicals and substantiation of microbial involvement through enrichment culturing techniques

Soil Mineral Microbe-Organic Interactions: Theories and Applications

Volumn , Issue , 2008, Pages 175-198

  Gu, Ji Dong ^a  

^a UNIVERSITY OF HONG KONG   (Hong Kong)

Author keywords

[No Author keywords available]

Indexed keywords

EID: 84891420725     PISSN: None     EISSN: None     Source Type: Book    
DOI: 10.1007/978-3-540-77686-4_7     Document Type: Chapter

References (112)

1. Arias YM, Tebo BM (2003) Cr (VI) Reduction by sulfidogenic and nonsulfidogenic microbial consortia. Appl Environ Microbiol 69:1847-1853
2. Adrian L, Manz W, Szewzyk U, Görisch H (1998) Physiological characterization of a bacterial consortium reductively dechlorinating 1, 2, 3-and 1, 2, 4-trichlorobenzene. Appl Environ Microbiol 64:496-503
3. Aleshchenkova ZM, Smsonova AS, Semochkina NF, Baikova SV, Tolstolutskaya LI, Begel'man MM (1997) Utilization of isophthalic acid esters by Rhodococci. Microbiol 66:515-518
4. Alexander M (1994) Biodegradation and bioremediation. Academic Press, San Diego, California
5. Armstrong DE, Chesters G, Harris RF (1967) Atrazine hydrolysis in soil. Soil Sci Soc Am Proc 31:61-66
6. Atlas R (1995) Bioremediation. Chem Eng News (April 3, 1995) 32-42
7. Bakker DP, Postmus BR, Busscher HJ, Van der Mei HC (2004) Bacterial strains isolated from different niches can exhibit different patterns of adhesion to substrata. Appl Environ Microbiol 70:3758-3760
8. Berry DF, Francis AJ, Bollag J-M (1987) Microbial metabolism of homocyclic and heterocyclic aromatic compounds under anaerobic conditions. Micorbiol Rev 51:43-59
9. Berry DF, Gu J-D, Reneau RB, Jr. (1991) Biodegradation of heterocyclic aromatic based pesticides and related chemicals under anaerobic conditions. Adv Agron 1:93-95
10. Bollag J-M, Liu S-Y (1990) Biological transformation processes of pesticides. In: Cheng HH (ed) Pesticides in the soil environment: processes, Impacts and Modeling. Soil Science Society of America, Madison, Wisconsin, pp 169-211.
11. Boonchan S, Britz ML, Stanley GA (2000) Degradation and mineralization of high-molecular-weight polycyclic aromatic hydrocarbons by defined fungalbacterial cocultures. Appl Environ Microbiol 66:1007-1019
12. Callaghan AV, Gieg LM, Kropp KG, Suflita JM, Young LY (2006) Comparison of mechanisms of alkane metabolism under sulfate-reducing conditions among two bacterial isolates and a bacterial consortium. Appl Environ Microbiol 72:4274-4282
13. Carvalho MF, Alves C C T, Ferreira M I M, De Marco P, Castro P M L (2002) Isolation and initial characterization of a bacterial consortium able to mineralize fluorobenzene. Appl Environ Microbiol 68:102-105
14. Cheung KH, Gu J-D (2005) Reduction of chromate (CrO42-) by a Bacillus magnetarium isolated from marine. World J Microbiol Biotechnol 21:213-219
15. Cheung KH, Gu J-D (2007) Mechanism of hexavalent chromium detoxification by microorganisms and bioremediation application potential: A review. Int Biodeter Biodegr 59:8-15
16. Cheung KH, Lai HY, Gu J-D (2006) Membrane-associated hexavalent chromium reductase of Bacillus megaterium TKW3 with induced expression. J Microbiol Biotechnol 16:855-862
17. Christensen BB, Haagensen J A J, Heydorn A, Molin S (2002) Metabolic commensalism and competition in a two-species microbial consortium. Appl Environ Microbiol 68:2495-2502
18. Dejonghe W, Berteloot E, Goris J, Boon N, Crul K, Maertens S, Höfte M, De Vos P, Verstraete W, Top EM (2003) Synergistic degradation of linuron by a bacterial consortium and isolation of a single linuron-degrading Variovorax Strain. Appl Environ Microbiol 69:1532-1541
19. De Souza ML, Newcombe D, Alvey S, Crowley DE, Hay A, Sadowsky MJ, Wackett LP (1998) Molecular basis of a bacterial consortium: interspecies catabolism of atrazine. Appl Environ Microbiol 64:178-184
20. De Souza ML, Newcombe D, Alvey S, Crowley DE, Hay A, Sadowsky MJ, Wackett LP (2000) Molecular basis of a bacterial consortium: interspecies catabolism of atrazine. Appl Environ Microbiol 66:1252
21. Diao HF, Li XY, Gu JD, Shi HC, Xie ZM (2004) Electron microscopic investigation of the bactericidal action of electrochemical disinfection in comparison with chlorination, ozonation and Fenton reaction. Process Biochem 39:1421-1426
22. Dilly O, Loem J B, Vos A, Munch JC (2004) Bacterial diversity in agricultural soils during litter decomposition. Appl Environ Microbiol 70:468-474
23. Dizdaroglu M (1991) Chemical determination of free radical-induced damage to DNA. Free Radical Biol Med 10:225-242
24. Eaton RW, Ribbons DW (1982) Metabolism of dimethylphthalate by Micrococcus sp. strain 12B. J Bacteriol 151:465-467
25. El-Fantroussi S (2000) Enrichment and molecular characterization of a bacterial culture that degrades methoxy-methyl urea herbicides and their aniline derivatives. Appl Environ Microbiol 66:5110-5115
26. Entcheva P, Liebl W, Johann A, Hartsch T, Streit WR (2001) Direct cloning from enrichment cultures, a reliable strategy for isolation of complete operons and genes from microbial consortia. Appl Environ Microbiol 67:89-99
27. Fan Y, Wang Y, Qian P, Gu J-D (2004) Optimization of phthalic acid batch biodegradation and the use of modified Richards model for modeling degradation. Int Biodeterior Biodegrad 53:57-63
28. Ficker M, Krastel K, Orlicky S, Edwards E (1999) Molecular characterization of a toluene-degrading methanogenic consortium. Appl Environ Microbiol 65:5576-5585
29. Ganji SH, Karigar CS, Pujar BG (1995) Metabolism of dimethylterephthalate by Aspergillus niger. Biodegrad 6:61-66
30. Glaeser J, Overmann J (2003) Characterization and in situ carbon metabolism of phototrophic consortia. Appl Environ Microbiol 69:3739-3750
31. Gross RA, Gu J-D, Eberiel D, McCarthy SP (1995) Laboratory scale composting test methods to determine polymer biodegradability: model studies on cellulose acetate. J Macromol Sci-Pure Appl Chem A32:613-628
32. Grossart H-P, Kiørboe T, Tang K, Ploug H (2003) Bacterial colonization of particles: growth and interactions. Appl Environ Microbiol 69:3500-3509
33. Gschwend PM, MacFarlane JK, Newman KA (1985) Volatile halogenated organic compounds released to seawater from temperate marine macroalgae. Science 227:1033-1035
34. Gu J-D, Berry DF (1991) Degradation of substituted indoles by an indoledegrading methanogenic consortium. Appl Environ Microbiol 57:2622-2627
35. Gu J-D, Berry DF (1992) Metabolism of 3-methylindole by a methanogenic consortium. Appl Environl Microbiol 58:2667-2669
36. Gu J-D, Berry DF, Taraban RH, Martens DC, Walker, Jr HL, Edmonds WJ (1992) Biodegradability of Atrazine, Cyanazine, and Dicamba in wetland soils. Virginia Water Resource Research Center, Bulletin No 172, Virginia Tech, Blacksburg, Virginia. 72 pp
37. Gu J-D, Eberiel DT, McCarthy SP, Gross RA (1993a) Cellulose acetate biodegradability upon exposure to simulated aerobic composting and anaerobic bioreactor environments. J Environ Polym Degr 1:143-153
38. Gu J-D, Eberiel D, McCarthy SP, Gross RA (1993b) Degradation and mineralization of cellulose acetate in simulated thermophilic compost environments. J Environ Polym Degr 1:281-291
39. Gu J-D, Coulter S, Eberiel D, McCarthy SP, Gross RA (1993c) A respirometric method to measure mineralization of polymeric materials in a matured compost environment. J Environ Polym Degr 1:293-299
40. Gu J-D, Yang S, Welton R, Eberiel D, McCarthy SP, Gross RA (1994) Effects of environmental parameters on degradability of polymer films. J Environ Polym Degr 2:129-135
41. Gu J-D, Mitchell R (1995) Microbiological influenced corrosion of metal, degradation and deterioration of materials of space applications. Chin J Mater Res 9(suppl.):473-489
42. Gu J-D, Belay B, Mitchell R (2001) Protection of catheter surfaces from adhesion of Pseudomonas aeruginosa by a combination of silver ions and lectins. World J Microbiol Biotech 17:173-179
43. Gu J-D, Fan Y, Shi H (2002) Relationship between structures of substituted indolic compounds and their degradation by marine anaerobic microorganisms. Mar. Poll Bull 45:379-384
44. Gu J, Fan Y, Gu J-D (2003a) Biodegradability of atrazine, cyanzine and dicamba under methanogenic conditions in three soils of China. Chemosphere 52:1515-1521
45. Gu J-G, Qiao C, Gu J-D (2003b) Biodegradation of the herbicides atrazine, cyanazine and dicamba by methanogenic enrichment cultures from selective soils of China. Bull Environ Contam Toxicol 71:924-932
46. Gu J-D, Li J, Wang Y (2004) Degradation of the endocrine-disrupting dimethyl phthalate ester isomers by aerobic microorganisms isolated from mangrove sediment. In: Verstraete WAA (ed) European symposium on environmental biotechnology, ESEB 2004. Balkema Publishers, London, pp 557-561.
47. Gu J-D, Li J, Wang Y (2005) Biochemical pathway and degradation of phthalate ester isomers by bacteria. Wat Sci Technol 52(8):241-248
48. Haggblom MM, Young LY (1995) Anaerobic degradation of halogenated phenols by sulfate-reducing consortia. Appl Environ Microbiol 61:1546-1550
49. Hashizume K, Nanya J, Toda C, Yasui T, Nagano H, Kojima N (2002) Phthalate esters detected in various water samples and biodegradation of the phthlates by microbes isolated from river water. Biol Pharm Bull 25:209-214
50. Hoigné J (1990) Formulation and calibration of environmental reaction kinetics: oxidations by aqueous photooxidants as an example. In: Stumm W (ed), Aquatic chemical kinetics: reaction rates of processes in natural waters. Wiley, New York, pp 43-70
51. Jhanson R, Ackerman CE, Scow KM (1999) Biodegradation of methyl tert-butyl ether by a bacterial pure culture. Appl Environ Microbiol 65:4788-4792
52. Kanaly RA, Bartha R, Watanabe K, Harayama S (2000) Rapid mineralization of benzo[a]pyrene by a microbial consortium growing on diesel fuel. Appl Environ Microbiol 66:4205-4211
53. Kanaly RA, Harayama S, Watanabe K (2002) Rhodanobacter sp. strain BPC1 in a benzo[a]pyrene-mineralizing bacterial consortium. Appl Environ Microbiol 68:5826-5833
54. Keyser P, BG Pujar, RW Eaton (1976) Biodegradation of the phthalates and their esters by bacteria. Environ Health Persp 18:159-166
55. Kleinsteuber S, Riis V, Fetzer I, Harms H, Müller S (2006) Population dynamics within a microbial consortium during growth on diesel fuel in saline environments. Appl Environ Microbiol 72:3531-3542
56. Koizumi Y, Kelly JJ, Nakagawa T, Urakawa H, El-Fantroussi S, Al-Muzaini S, Fukui M, Urushigawa Y, Stahl DA (2002) Parallel characterization of anaerobic toluene-and ethylbenzene-degrading microbial consortia by PCR-denaturing gradient gel electrophoresis, RNA-DNA membrane hybridization, and DNA microarray technology. Appl Environ Microbiol 68:3215-3225
57. Kuo C, Genthner B R S (1996) Effect of added heavy metal ions on biotransformation and biodegradation of 2-chlorophenol and 3-chlorobenzoate in anaerobic bacterial consortia. Appl Environ Microbiol 62:2317-2323
58. Lepine F, Bisaillon J, Milot S, Khalid TH, Beaudet R, Villemur R (1996) Transformation of phenol into phenylalanine by a methanogenic consortium. Appl Environ Microbiol 62:809-814
59. Li K, Gu J-D (2004) Biodegradation of di-n-butyl phthalate by mangrove microorganism Rhodococcus rubber 1K. Chin J Appl Ecol 16:1566-1568 (in Chinese)
60. Li J, Gu J-D (2006) Biodegradation of dimethyl terephthalate by Pasteurella multocida Sa follows a novel biochemical pathway. Ecotoxicol 15:391-397
61. Li J, Gu J-D (2007) Complete degradation of dimethyl isophthalate requires the biochemical cooperation between Klebsiella oxytoca Sc and Methylobacterium mesophilium Sr isolated from wetland sediment. Sci Total Environ 380:181-187
62. Li J, Gu J-D, Pan L (2005a) Transformation of dimethyl phthalate, dimethyl isophthalate and dimethyl terephthalate by Rhodococcus rubber Sa and modeling the processes using the modified Gompertz model. Int Biodeterior Biodegrad 55:223-232
63. Li J, Gu J-D, Yao J-H (2005b) Degradation of dimethyl terephthalate by Pasteurella multocida Sa and Sphingomonas paucimobilis Sy isolated from mangrove sediment. Int Biodeterior Biodegrad 56:158-165
64. Lin C, Gu J-G, Qiao C, Gu J-D (2006) Degradation of the herbicides atrazine, cyanazine and dicamba in sediment of Pearl River delta of Southern China under methanogenic conditions. Biol Fertil Soils 42:395-401
65. Lünsdorf H, Erb RW, Abraham W-R, Timmis KN (2000) 'Clay hutches': a novel interaction between bacteria and clay minerals. Environ Microbiol 2:161-168
66. McBride MB (1987). Adsorption and oxidation of phenolic compounds by iron and manganese oxides. Soil Sci Soc Am J 52:985-993
67. McBride MB, Sikora F., Wesselink LG (1988) Complexation and catalyzed oxidative polymerization of catechol by aluminum in acidic solution. Soil Sci Soc Am J 51:1466-1472
68. McGill WB, Hunt HW, Woodmansee RG, Reuss JO (1981) Phoenix, a model of the dynamics of carbon and nitrogen in grassland soils. In: Clark FE, Rosswall T (eds), Terrestrial nitrogen cycles. Ecological Bulletin (Stockholm) 33:49-115
69. Middeldorp P J M, De Wolf J, Zehnder A J B, Schraa G (1997) Enrichment and properties of a 1, 2, 4-trichlorobenzene-dechlorinating methanogenic microbial consortium. Appl Environ Microbiol 63:1225-1229
70. Miller ME, Alexander M (1991) Kinetics of bacterial degradation of benzylamine in a montmorillonite suspension. Environ Sci Technol 25:240-245
71. Montville R, Schaffner DW (2003) Inoculum size influences bacterial cross contamination between surfaces. Appl Environ Microbiol 69:7188-7193
72. Mortland, MM (1970) Clay-organic complexes and interactions. Advances in Agronomy 22:75-117
73. Mueller RF, Nielsen PH (1996) Characterization of thermophilic consortia from tTwo souring oil reservoirs. Appl Environ Microbiol 62:3083-3087
74. Niazi JH, Prasad DT, Karegoudar TB (2001) Initial degradation of dimethylphthalate by esterases from Bacillus species. FEMS Microbiol Lett 196:201-205
75. Obst M, Krug A, Luftmann H, Steinbüchel A (2005) Degradation of cyanophycin by Sedimentibacter hongkongensis strain KI and Citrobacter amalonaticus strain G isolated from an anaerobic bacterial consortium. Appl Environ Microbiol 71:3642-3652
76. Pancost RD, Damsté J S S, De Lint S, Van der Maarel M J E C, Gottschal JC, The Medinaut Shipboard Scientific Party (2000) Biomarker evidence for widespread anaerobic methane oxidation in mediterranean sediments by a consortium of methanogenic archaea and bacteria. Appl Environ Microbiol 66:1126-1132
77. Patel DS, Desai AJ, Desai JD (1998) Biodegradation of dimethylterephthalate by Comamonas acidovorans D-4. Indian J Exper Biol 36:321-324
78. Pelizzetti E., Maurino V, Minero C, Carlin V, Pramauro E, Zerbinati O, Tosato ML (1990) Photocatalytic degradation of atrazine and other s-triazine herbicides. Environ Sci Technol 24:1559-1565
79. Rooney D, Kennedy N, Deering L, Gleeson D, Clipson N (2006) Effect of sheep urine deposition on the bacterial community structure in an acidic upland grassland soil. Appl Environ Microbiol 72:7231-7237
80. Schwarzenbach RP, Westall J (1981) Transport of nonpolar organic compounds from surface water to groundwater. Laboratory sorption studies. Environ Sci Technol 15:1360-1367
81. Sivamurthy K, Wamy BM, Pujar BG (1991) Transformation of dimethylterephthalate by the fungus Sclerotium rolfsii. FEMS Microbiol Lett 79:37-40
82. Skipper HD, Gilmour CM, Furtick WR (1967) Microbial versus chemical degradation of atrazine in soils. Soil Sci Soc Am Proc 31:653-656
83. Sliwinski MK, Goodman RM (2004) Comparison of crenarchaeal consortia inhabiting the rhizosphere of diverse terrestrial plants with those in bulk soil in native environments. Appl Environ Microbiol 70:1821-1826
84. Stumm W, Morgan JJ (1996). Aquatic chemistry - chemical equlibrium and rates in Natural Waters (3rd edn). Wiley, New York
85. Vega D, Bastide J (2003) Dimethylphthalate hydrolysis by specific microbial esterase. Chemosphere 51:663-668
86. Wackett LP, Hershberger CD (2001) Biocatalysis and biodegradation: Microbial Transformation of Organic Compounds. ASM, Washington DC
87. Wang T S C, Huang PM, Chou C-H, Chen J-H (1986) The role of soil minerals in the abiotic polymerization of phenolic compounds and formation of humic substances. In: Huang PM and Schnitzer M (eds) Interactions of soil minerals with natural organics and microbes. Soil Science Society of America, Madison, Wisconsin, pp 252-281
88. Wang Y, Fan Y, Gu J-D (2003a) Microbial degradation of the endocrinedisrupting chemicals phthalic acid and dimethyl phthalate ester under aerobic conditions. Bull Environ Contam Toxicol 71:810-818
89. Wang Y, Fan Y, Gu J-D (2003b) Aerobic degradation of phthalic acid by Comamonas acidovoran fy-1 and dimethyl phthalate ester by two reconstituted consortia from sewage sludge at high concentrations. World J Microbiol Biotechnol 19:811-815
90. Wang Y, Fan Y, Gu J-D (2004) Dimethyl phthalate ester degradation by two planktonic and immobilized bacterial consortia. Int Biodeterior Biodegrad 53:93-101
91. Wang Y, Gu J-D (2006) Degradation of dimethyl isophthalate by Viarovorax paradoxus T4 isolated from deep-ocean sediment of South China Sea. J Human Ecol Risk Assess 12:236-247
92. Wang Y, Leung PC, Qian P, Gu J-D (2006) Antibiotic resistance and plasmid profile of environmental isolates of Vibrio species from Mai Po Nature Reserve, Hong Kong. Ecotoxicol 15:371-378
93. Whiteley AS, Bailey MJ (2000) Bacterial community structure and physiological state within an industrial phenol bioremediation system. Appl Environ Microbiol 66:2400-2407
94. Willardson BM, Wilkins JF, Rand TA, Schupp JM, Hill KK, Keim P, Jackson PJ (1998) Development and testing of a bacterial biosensor for toluene-based environmental contaminants. Appl Environ Microbiol 64:1006-1012
95. Wu Q, Sowers KR, May HD (2000) Establishment of a polychlorinated biphenyldechlorinating microbial consortium, specific for doubly flanked chlorines, in a defined, sediment-free medium. Appl Environ Microbiol 66:49-53
96. Xu X-R, Zhao Z-Y, Li X-Y, Gu J-D (2004) Chemical oxidative degradation of mehyl tert-butyl ether in aqueous solution by Fenton's reagent. Chemosphere 55:73-79
97. 2 by purge-and-trap gas chromatography-mass spectrometry. Microchem J 77:71-77
98. Xu XR, Li HB, Gu J-D (2005a) Biodegradation of an endocrine-disrupting chemical di-n-butyl phthalate ester by Pseudomonas fluorescens B-1. Int Biodeterior Biodegrad 55:9-15
99. Xu XR, Li HB, Gu J-D (2005b) Degradation of n-butyl benzyl phthalate by Pseudomonas fluorescens B-1 isolated from mangrove sediment. J Microbiol Biotechnol 15:946-951
100. 2 process. Chemosphere 63:254-260
101. Yin B, Gu J-D, Wan N (2005) Degradation of indole by enrichment culture and Pseudonmonas aeruginosa Gs isolated from mangrove sediment. Int Biodeterior Biodegrad 56:243-248
102. Yin B, Gu J-D, Huang L (2006) Aerobic degradation of 3-methylindole by Pseudomonas aeruginosa isolated from mangrove sediment. J Human Ecol Risk Assess 12:248-258
103. Yin B, Crowley D, Sparovek G, De Melo WJ, Borneman J (2000) Bacterial functional redundancy along a soil reclamation gradient. Appl Environ Microbiol 66:4361-4365
104. Yu C-P, Ahuja R, Sayler G, Chu K-H (2005) Quantitative molecular assay for fingerprinting microbial communities of wastewater and estrogen-degrading consortia. Appl Environ Microbiol 71:1433-1444
105. Yu, XZ, Gu J-D (2006) Uptake, metabolism, and toxicity of methyl tert-butyl ether (MTBE) in weeping willows. J Hardz Mat B137:1417-1423
106. Yu, XZ, Gu J-D (2007a) Differences in Michaelis-Menten kinetics for different cultivars of maize during cyanide removal. Ecotoxicol Environ Saf 67:254-259
107. Yu, XZ, Gu J-D (2007b) Accumulation and distribution of trivalent chromium and effects on hybrid willow (Salix matsudana Koidz × alba L.) metabolism. Arch Environ Contam Toxicol 52:503-511
108. Yu, XZ, Gu J-D (2007c) Metabolic responses of weeping willows to selenate and selenite. Environ Sci Pollut Res 14:510-517
109. Yu, XZ, Gu J-D (2007d) Effects of available nitrogen on the uptake and assimilation of ferrocyanide and ferricyanide complexes in weeping willows. J Hazard Mater doi:10.1016/j.jhazmat.2007.12.020
110. Yu, XZ, Gu J-D, Liu S (2007a) Biotransformation and metabolic response of cyanide in weeping willows. J Hazard Mater 147:838-844
111. Yu, XZ, Gu J-D, Huang S-Z (2007b) Hexavalent chromium induced stress and metabolic responses in hybrid willows. Ecotoxicol 16:299-309
112. Zeng F, Cui K, Li X, Fu J, Sheng G (2004) Biodegradation kinetics of phthalate esters by Pseudomonas fluorescences FS1. Process Biochem 39:1125-1129