Topp E, Mulbry WM, Zhu H, Nour SM, Cuppels D (2000) Characterization of S-Triazine herbicide metabolism by a Nocardioides sp. isolated
from agricultural soils. Appl Environ Microbiol 66:3134–3141
Topp E, Martin-Laurent F, Hartmann A, Soulas G (2004) Bioremediation of atrazine-contamined soil. In: Gan JJ, Zhu PC, Aust SD,
Lemley AT (eds) Pesticide, decontamination and detoxification.
American Chemical Society, Washington, DC, pp 141–154
Topp E, Chapman R, Devers-Lamrani M, Hartmann A, Martin-Laurent
F, Marti R, Sabourin L, Scott A, Sumaraha M (2013) Accelerated
biodegradation of veterinary antibiotics in agricultural soil following long-term exposure, and isolation of a sulfonamide-degrading
microbacterium. J Environ Qual 42:173–178
Trefault N, de la Iglesia R, Molina AM, Manzano M, Ledger T,
Pe ´rez-Pantoja D, Sa ´nchez MA, Stuardo M, Gonza ´lez B (2004)
Genetic organization of the catabolic plasmid pJP4 from Ralstonia
eutropha JMP134 (pJP4) reveals mechanisms of adaptation to
chloroaromatic pollutants and evolution of specialized
chloroaromatic degradation pathways. Environ Microbiol 6:655–668
Tuomela M, Vikman M, Hatakka A, Ita ¨vaara M (2000) Biodegradation
of lignin in a compost environment: a review. Bioresour Technol
72:169–183
Udikovic-Kolic N, Scott C, Martin-Laurent F (2012) Evolution of
atrazine-degrading capabilities in the environment. Appl Microbiol
Biotechnol 96:1175–1189
Vallaeys T, Courde L, Mc Gown C, Wright AD, Fulthorpe RR (1999)
Phylogenetic analyses indicate independent recruitment of diverse
gene cassettes during assemblage of the 2,4-D catabolic pathway.
FEMS Microbiol Ecol 28:373–382
van Beilen JB, Panke S, Lucchini S, Franchini AG, Ro ¨thlisberger M,
Witholt B (2001) Analysis of Pseudomonas putida alkane degradation gene clusters and flanking insertion sequences: evolution and
regulation of the alk genes. Microbiology 147:1621–1630
van der Meer JR (1997) Evolution of novel metabolic pathways for the
degradation of chloroaromatic compounds. Antonie Van
Leeuwenhoek 71:159–178
Van der Meer JR, Sentchilo V (2003) Genomic islands and the evolution
of catabolic pathways in bacteria. Curr Opin Biotechnol 14:248–254
van der Meer JR, de Vos WM, Harayama S, der Zehn- AJB (1992)
Molecular mechanisms of genetic adaptation to xenobiotic
compounds. Microbiol Rev 56:677–694
van der Roest HF, Lawrence DP, van Bentem AGN (2002) Membrane
bioreactors for municipal wastewater treatment. IWA Publishing,
London
van Eerd LL, Hoagland RE, Zablotowicz RM, Hall JC (2003)
Pesticide metabolism in plants and microorganisms. Weed Sci
51:472–495
van Haandel A, van der Lubbe J (2007) Handbook biological wastewater treatment. Quist Publishing, Leidschendam
van Hamme JD, Singh A, Ward OP (2003) Recent advances in petroleum microbiology. Microbiol Mol Biol Rev 67:503–549
Vandecasteele J-P (2008) Petroleum microbiology. Tomes 1 et 2.
Editions Technip, Paris
Vesilind PA (2003) Wastewater treatment plant design. IWA Publishing, London
Waid JS (1972) The possible importance of transfer factors in the
bacterial degradation of herbicides in natural ecosystems. Res Rev
44:65–71
Wang YT (2000) Microbial reduction of chromate. In: Lovley DR (ed)
Environmental microbe-metal interactions. ASM Press,
Washington, DC, pp 225–235
Wang L, Samac DA, Shapir N, Wackett LP, Vance CP, Olszewski NE,
Sadowsky MJ (2005) Biodegradation of atrazine in transgenic
plants expressing a modified bacterial atrazine chlorohydrolase
(atzA) gene. Plant Biotechnol J 3:475–486
Wang C-M, Shyu C-L, Ho S-P, Chiou S-H (2007) Species diversity and
substrate utilisation patterns of thermophilic bacterial communities
in hot aerobic poultry and cattle manure composts. Microbiol Ecol
54:1–9
White C, Gadd GM (1996) Mixed sulphate-reducing cultures for the
bioprecipitation of toxic metals: factorial and response analysis of
the effects of dilution rate, sulphate and substrate concentration.
Biodegradation 14:139–151
White LG, Bourbonnie `re L, Greer CW (1997) Biodegradation of petroleum hydrocarbons by psychrotrophic Pseudomonas strains
possessing both alkane (alk) and naphthalene (nah) catabolic
pathways. Appl Environ Microbiol 63:3719–3723
Wick LY, Colangelo T, Harms H (2001) Kinetics of mass transferlimited bacterial growth on solid PAHs. Environ Sci Technol
35:354–361
Wick LY, De Munain AR, Springael D, Harms H (2002) Responses of
Mycobacterium sp. LB501T to the low bioavailability of solid
anthracene. Appl Microbiol Biotechnol 58:378–385
Widdel F, Rabus R (2001) Anaerobic biodegradation of saturated and
aromatic hydrocarbons. Curr Opin Biotechnol 12:259–276
Widdowson MA, Shearer S, Andersen RG, Novak JT (2005) Remediation of polycyclic aromatic hydrocarbon compounds in groundwater
using poplar trees. Environ Sci Technol 39:1598–1605
Williams PT (2005) Waste treatment and disposal. Wiley, Chichester
Woodard and Curran, Inc, (2006) Industrial waste treatment handbook.
Elsevier, Burlington
WRB IWG (2006) World reference base for soil resource, 2nd ed.
World Resources Report 103, FAO, Rome
Yadav JS, Quensen JF III, Tiedje JM, Reddy CA (1995) Degradation of
polychlorinated biphenyl mixtures (Aroclors 1242, 1254, and 1260)
by the white rot fungus Phanerochaete chrysosporium as evidenced
by congener-specific analysis. Appl Environ Microbiol 61:2560–2565
Yakimov MM, Timmis KN, Golyshin PN (2007) Obligate
oil-degrading marine bacteria. Curr Opin Biotechnol 18:257–266
Yi H, Crowley DE (2007) Biostimulation of PAH degradation with
plants containing high concentrations of linoleic acid. Environ Sci
Technol 41:4382–4388
Zengler K, Heider J, Rossello ´-Mora R, Widdel F (1999) Phototrophic
utilisation of toluene under anoxic conditions by a new strain of
Blastochloris sulfoviridis. Arch Microbiol 172:204–212
16 Applied Microbial Ecology and Bioremediation
753
from agricultural soils. Appl Environ Microbiol 66:3134–3141
Topp E, Martin-Laurent F, Hartmann A, Soulas G (2004) Bioremediation of atrazine-contamined soil. In: Gan JJ, Zhu PC, Aust SD,
Lemley AT (eds) Pesticide, decontamination and detoxification.
American Chemical Society, Washington, DC, pp 141–154
Topp E, Chapman R, Devers-Lamrani M, Hartmann A, Martin-Laurent
F, Marti R, Sabourin L, Scott A, Sumaraha M (2013) Accelerated
biodegradation of veterinary antibiotics in agricultural soil following long-term exposure, and isolation of a sulfonamide-degrading
microbacterium. J Environ Qual 42:173–178
Trefault N, de la Iglesia R, Molina AM, Manzano M, Ledger T,
Pe ´rez-Pantoja D, Sa ´nchez MA, Stuardo M, Gonza ´lez B (2004)
Genetic organization of the catabolic plasmid pJP4 from Ralstonia
eutropha JMP134 (pJP4) reveals mechanisms of adaptation to
chloroaromatic pollutants and evolution of specialized
chloroaromatic degradation pathways. Environ Microbiol 6:655–668
Tuomela M, Vikman M, Hatakka A, Ita ¨vaara M (2000) Biodegradation
of lignin in a compost environment: a review. Bioresour Technol
72:169–183
Udikovic-Kolic N, Scott C, Martin-Laurent F (2012) Evolution of
atrazine-degrading capabilities in the environment. Appl Microbiol
Biotechnol 96:1175–1189
Vallaeys T, Courde L, Mc Gown C, Wright AD, Fulthorpe RR (1999)
Phylogenetic analyses indicate independent recruitment of diverse
gene cassettes during assemblage of the 2,4-D catabolic pathway.
FEMS Microbiol Ecol 28:373–382
van Beilen JB, Panke S, Lucchini S, Franchini AG, Ro ¨thlisberger M,
Witholt B (2001) Analysis of Pseudomonas putida alkane degradation gene clusters and flanking insertion sequences: evolution and
regulation of the alk genes. Microbiology 147:1621–1630
van der Meer JR (1997) Evolution of novel metabolic pathways for the
degradation of chloroaromatic compounds. Antonie Van
Leeuwenhoek 71:159–178
Van der Meer JR, Sentchilo V (2003) Genomic islands and the evolution
of catabolic pathways in bacteria. Curr Opin Biotechnol 14:248–254
van der Meer JR, de Vos WM, Harayama S, der Zehn- AJB (1992)
Molecular mechanisms of genetic adaptation to xenobiotic
compounds. Microbiol Rev 56:677–694
van der Roest HF, Lawrence DP, van Bentem AGN (2002) Membrane
bioreactors for municipal wastewater treatment. IWA Publishing,
London
van Eerd LL, Hoagland RE, Zablotowicz RM, Hall JC (2003)
Pesticide metabolism in plants and microorganisms. Weed Sci
51:472–495
van Haandel A, van der Lubbe J (2007) Handbook biological wastewater treatment. Quist Publishing, Leidschendam
van Hamme JD, Singh A, Ward OP (2003) Recent advances in petroleum microbiology. Microbiol Mol Biol Rev 67:503–549
Vandecasteele J-P (2008) Petroleum microbiology. Tomes 1 et 2.
Editions Technip, Paris
Vesilind PA (2003) Wastewater treatment plant design. IWA Publishing, London
Waid JS (1972) The possible importance of transfer factors in the
bacterial degradation of herbicides in natural ecosystems. Res Rev
44:65–71
Wang YT (2000) Microbial reduction of chromate. In: Lovley DR (ed)
Environmental microbe-metal interactions. ASM Press,
Washington, DC, pp 225–235
Wang L, Samac DA, Shapir N, Wackett LP, Vance CP, Olszewski NE,
Sadowsky MJ (2005) Biodegradation of atrazine in transgenic
plants expressing a modified bacterial atrazine chlorohydrolase
(atzA) gene. Plant Biotechnol J 3:475–486
Wang C-M, Shyu C-L, Ho S-P, Chiou S-H (2007) Species diversity and
substrate utilisation patterns of thermophilic bacterial communities
in hot aerobic poultry and cattle manure composts. Microbiol Ecol
54:1–9
White C, Gadd GM (1996) Mixed sulphate-reducing cultures for the
bioprecipitation of toxic metals: factorial and response analysis of
the effects of dilution rate, sulphate and substrate concentration.
Biodegradation 14:139–151
White LG, Bourbonnie `re L, Greer CW (1997) Biodegradation of petroleum hydrocarbons by psychrotrophic Pseudomonas strains
possessing both alkane (alk) and naphthalene (nah) catabolic
pathways. Appl Environ Microbiol 63:3719–3723
Wick LY, Colangelo T, Harms H (2001) Kinetics of mass transferlimited bacterial growth on solid PAHs. Environ Sci Technol
35:354–361
Wick LY, De Munain AR, Springael D, Harms H (2002) Responses of
Mycobacterium sp. LB501T to the low bioavailability of solid
anthracene. Appl Microbiol Biotechnol 58:378–385
Widdel F, Rabus R (2001) Anaerobic biodegradation of saturated and
aromatic hydrocarbons. Curr Opin Biotechnol 12:259–276
Widdowson MA, Shearer S, Andersen RG, Novak JT (2005) Remediation of polycyclic aromatic hydrocarbon compounds in groundwater
using poplar trees. Environ Sci Technol 39:1598–1605
Williams PT (2005) Waste treatment and disposal. Wiley, Chichester
Woodard and Curran, Inc, (2006) Industrial waste treatment handbook.
Elsevier, Burlington
WRB IWG (2006) World reference base for soil resource, 2nd ed.
World Resources Report 103, FAO, Rome
Yadav JS, Quensen JF III, Tiedje JM, Reddy CA (1995) Degradation of
polychlorinated biphenyl mixtures (Aroclors 1242, 1254, and 1260)
by the white rot fungus Phanerochaete chrysosporium as evidenced
by congener-specific analysis. Appl Environ Microbiol 61:2560–2565
Yakimov MM, Timmis KN, Golyshin PN (2007) Obligate
oil-degrading marine bacteria. Curr Opin Biotechnol 18:257–266
Yi H, Crowley DE (2007) Biostimulation of PAH degradation with
plants containing high concentrations of linoleic acid. Environ Sci
Technol 41:4382–4388
Zengler K, Heider J, Rossello ´-Mora R, Widdel F (1999) Phototrophic
utilisation of toluene under anoxic conditions by a new strain of
Blastochloris sulfoviridis. Arch Microbiol 172:204–212
16 Applied Microbial Ecology and Bioremediation
753