Characterization of an atrazine-degrading Pseudaminobacter sp. Isolated from Canadian and French agricultural soils

Applied and Environmental Microbiology

Volumn 66, Issue 7, 2000, Pages 2773-2782

  Topp, Edward ^a,b   Zhu, Hong ^a   Nour, Sarah M ^a   Houot, Sabine ^c   Lewis, Melanie ^b   Cuppels, Diane ^a,b  

^a AGRICULTURE AND AGRI FOOD CANADA   (Canada)

^b UNIVERSITY OF WESTERN ONTARIO   (Canada)

^c CEMAGREF   (France)

Author keywords

[No Author keywords available]

Indexed keywords

AGRICULTURE; ARTICLE; CANADA; FRANCE; NONHUMAN; SEQUENCE ANALYSIS; SOIL MICROFLORA; SOIL POLLUTION;

AGRICULTURE; ATRAZINE; BIODEGRADATION, ENVIRONMENTAL; CANADA; FRANCE; GENES, BACTERIAL; GENES, RRNA; HERBICIDES; PHYLOGENY; RHIZOBIACEAE; RNA, RIBOSOMAL, 16S; SEQUENCE ANALYSIS, DNA; SOIL MICROBIOLOGY; SUBSTRATE SPECIFICITY;

BACTERIA (MICROORGANISMS); CICER ARIETINUM; EMBRYOPHYTA; GLYCINE MAX; LOTUS CORNICULATUS; MEDICAGO SATIVA; NEGIBACTERIA; ORNITHOPUS PERPUSILLUS; PSEUDAMINOBACTER; RHIZOBIACEAE; TRIFOLIUM PRATENSE; ZEA MAYS;

EID: 0033931985     PISSN: 00992240     EISSN: None     Source Type: Journal    
DOI: 10.1128/AEM.66.7.2773-2782.2000     Document Type: Article

References (70)

1. Agertved, J., K. Rugge, and J. F. Barker. 1992. Transformation of the herbicides MCPP and atrazine under natural aquifer conditions. Ground Water 30:500-506.
2. Assaf, N. A., and R. F. Turco. 1994. Accelerated biodegradation of atrazine by a microbial consortium is possible in culture and soil. Biodegradation 5: 29-35.
3. Barriuso, E., and S. Houot. 1996. Rapid mineralization of the S-triazine ring of atrazine in soils in relation to soil management. Soil. Biol. Biochem. 28: 1341-1348.
4. Behki, R. M., E. Topp, W. Dick, and P. Germon. 1993. Metabolism of the herbicide atrazine by Rhodococcus strains. Appl. Environ. Microbiol. 59: 1955-1959.
5. Bichat, F., G. K. Sims, and R. L. Mulvaney. 1999. Microbial utilization of heterocyclic nitrogen from atrazine. Soil Sci. Soc. Am. J. 63:100-110.
6. Boundy-Mills, K. L., M. L. de Souza, R. T. Mandelbaum, L. P. Wackett, and M, J. Sadowsky. 1997. The atzB gene of Pseudomonas sp. strain ADP encodes the second enzyme of a novel atrazine degradation pathway. Appl. Environ. Microbiol. 63:916-923.
7. Bouquard, C., J. Ouazzani, J.-C. Promé, Y. Michel-Briand, and P. Plésiat. 1997. Dechlorination of atrazine by a Rhizobium sp. isolate. Appl. Environ. Microbiol. 63:862-866.
8. Bradford, M. M. 1976. A rapid and sensitive method for the quantitation of microgram quantities of protein using the principle of protein-dye binding. Anal. Biochem. 72:248-254.
9. Connell Hancock, T. L., A. M. Costello, M. E. Lidstrom, and R. S. Oremland. 1998. Strain IMB-1, a novel bacterium for the removal of methyl bromide in fumigated agricultural soils. Appl. Environ. Microbiol. 64:2899-2905.
10. Cook, A. M., P. Beilstein, H. Grossenbacker, and R. Hutter. 1985. Ring cleavage and degradative pathway of cyanuric acid in bacteria. Biochem. J. 231:25-30.
11. Coulter, C. J., T. G. Hamilton, W. C. McRoberts, L. Kulakov, M. J. Larkin, and D. B. Harper. 1999. Halomethane:bisulfide/halide ion methyltransferase, an unusual corrinoid enzyme of environmental significance isolated from an aerobic methylotroph using chloromethane as the sole carbon source. Appl. Environ. Microbiol. 65:4301-4312.
12. Crain, A. D., L. J. Guillette, A. A. Rooney, and D. B. Pickford. 1997. Alterations in steroidogenesis in alligators (Alligator mississippiensis) exposed naturally and experimentally to environmental contaminants. Environ. Health Perspect. 105:528-533.
13. Crawford, J. J., G. K. Sims, R. L. Mulvaney, and M. Radosevich. 1998. Biodegradation of atrazine under denitrifying conditions. Appl. Microbiol. Biotechnol. 49:618-623.
14. Cuppels, D. A., and T. Ainsworth. 1995. Molecular and physiological characterization of Pseudomonas syringae pv. tomato and Pseudomonas syringae pv. maculicola strains that produce the phytotoxin coronatine. Appl. Environ. Microbiol. 61:3530-3536.
15. de Bruijn, F. J. 1992. Use of repetitive (repetitive extragenic palindromic and enterobacterial repetitive intergenic consensus) sequences and the polymerase chain reaction to fingerprint the genomes of Rhizobium meliloti isolates and other soil bacteria. Appl. Environ. Microbiol. 58:2180-2187.
16. de Souza, M. L., M. J. Sadowsky, and L. P. Wackett. 1996. Atrazine chlorohydrolase from Pseudomonas sp. strain ADP: gene sequence, enzyme purification, and protein characterization. J. Bacteriol. 178:4894-4900.
17. de Souza, M. L., D. Newcombe, S. Alvey, D. E. Crowley, A. Hay, A. M. J. Sadowsky, and L. P. Wackett. 1998. Molecular basis of a bacterial consortium: interspecies catabolism of atrazine. Appl. Environ. Microbiol. 64:178-184.
18. de Souza, M. L., J. Seffernick, B. Martinez, M. Sadowski, and L. P. Wackett. 1998. The atrazine catabolism genes atzABC are widespread and highly conserved. J. Bacteriol. 180:1951-1954.
19. de Souza, M. L., L. P. Wackett, and M. J. Sadowsky. 1998. The atzABC genes encoding atrazine catabolism are located on a self-transmissible plasmid in Pseudomonas sp. strain ADP. Appl. Environ. Microbiol. 64:2323-2326.
20. di Gioia, D., M. Peel, F. Fava, and R. C. Wyndham. 1998. Structures of homologous composite transposons carrying cbaABC genes from Europe and North America. Appl. Environ. Microbiol. 64:1940-1946.
21. Donnelly, P. K., J. A. Entry, and D. L. Crawford. 1993. Degradation of atrazine and 2,4-dichlorophenoxyacetic acid by mycorrhizal fungi at three nitrogen concentrations in vitro. Appl. Environ. Microbiol. 59:2642-2647.
22. Dunbar, J., S. White, and L. Forney. 1997. Genetic diversity through the looking glass: effect of enrichment bias. Appl. Environ. Microbiol. 63:1326-1331.
23. Eaton, R. W., and J. S. Karns. 1991. Cloning and analysis of the s-triazine catabolic genes from Pseudomonas sp. strain NRRLB-12227. J. Bacteriol. 173:1215-1222.
24. Erickson, E. L., and K. H. Lee. 1989. Degradation of atrazine and related s-triazines. Crit. Rev. Environ. Contam. 19:1-13.
25. Esser, H. O., G. Dupuis, E. Ebert, G. J. Marco, and C. Vogel. 1975. S-Triazines, p. 129-208. In P. C. Kearney and D. D. Kaufman (ed.), Herbicides. Chemistry, degradation and mode of action, 2nd ed. Marcel Dekker Inc., New York, N.Y.
26. Funari, E., L. Barbieri, P. Bottoni, G. Del-Carlo, S. Forti, G. Giuliano, A. Marinelli, C. Santini, and A. Zavatti. 1998. Comparison of the leaching properties of alachlor, metolachlor, triazines and some of their metabolites in an experimental field. Chemosphere 36:1759-1773.
27. Gan, J., R. L. Becker, W. C. Koskinen, and D. D. Buhler. 1996. Degradation of atrazine in two soils as a function of concentration. J. Environ. Qual. 25: 1064-1072.
28. Gerhardt, P., R. G. E. Murray, W. A. Wood, and N. R. Krieg. 1994. Methods for general and molecular microbiology. American Society for Microbiology, Washington, D.C.
29. Goodrich, J. A., B. W. Lykins, and R. M. Clark. 1991. Drinking water from agriculturally contaminated ground water. J. Environ. Qual. 20:707-717.
30. Houot, S., and R. Chaussod. 1995. Impact of agricultural practices on the size and activity of the microbial biomass in a long-term field experiment. Biol. Fertil. Soil 19:309-316.
31. Hulton, C. S. J., C. F. Higgins, and P. M. Sharp. 1991. ERIC sequences: a novel family of repetitive elements in the genomes of Escherichia coli, Salmonella typhimurium and other enteric bacteria. Mol. Microbiol. 5:825-834.
32. Jarvis, B. D. W., P. Van-Berkum, W. X. Chen, S. M. Nour, M. P. Fernandez, J, C. Cleyet-Marel, and M. Gillis. 1997. Transfer of Rhizobium loti, Rhizobium huakuii, Rhizobium ciceri, Rhizobium mediterraneum, and Rhizobium tianshanense to Mesorhizobium gen. nov. Int. J. Syst. Bacteriol. 47:895-898.
33. Junker, F., and A. M. Cook. 1997. Conjugative plasmids and the degradation of arylsulfonates in Comomonas testosteroni. Appl. Environ. Microbiol. 63: 2403-2410.
34. Kado, C. I., and S. T. Liu. 1981. Rapid procedure for detection and isolation of large and small plasmids. J. Bacteriol. 145:1365-1373.
35. Kampfer, P., C. Muller, M. Mau, A. Neef, G. Auling, H. J. Busse, A. M. Osborn, and A. Stolz. 1999. Description of Pseudaminobacter gen. nov. with two new species, Pseudaminobacter salicylatoxidans sp. nov. and Pseudaminobacter defluvii sp. nov. Int. J. Syst. Bacteriol. 49:887-897.
36. Karns, J. S., and R. W. Eaton. 1997. Genes encoding s-triazine degradation are plasmid-borne in Klebsiella pneumoniae strain 99. J. Agric. Food Chem. 45:1017-1022.
37. Kaufman, D. D., and J. Blake. 1970. Degradation of atrazine by soil fungi. Soil Biol. Biochem. 2:73-80.
38. Kumar, S., K. Tamura, and M. Nei. 1993. MEGA: molecular evolutionary genetics analysis, version 1.0. The Pennsylvania State University, University Park.
39. Lane, D. J. 1991. 16S/23S rRNA sequencing, p. 114-143. In E. Stackebrandt and M. Goodfellow (ed.), Nucleic acid techniques in bacterial systematics. John Wiley and Sons, New York, N.Y.
40. Lapage, S. P., J. E. Shelton, and T. G. Mitchell. 1970. Media for the maintenance and preservation of bacteria. Methods Microbiol. 3A:1-134.
41. Liu, C.-M., P. A. McLean, C. C. Sookdeo, and F. C. Cannon. 1991. Degradation of the herbicide glyphosate by members of the family Rhizobiaceae. Appl. Environ. Microbiol. 57:1799-1804.
42. Lynch, M. J., A. E. Wopat, and M. L. O'Connor. 1980. Characterization of two new facultative methanotrophs. Appl. Environ. Microbiol. 40:400-407.
43. Mandelbaum, R. T., D. L. Allan, and L. P. Wackett. 1995. Isolation and characterization of a Pseudomonas sp. that mineralizes the s-triazine herbicide atrazine. Appl. Environ. Microbiol. 61:1451-1457.
44. Mirgain, I., G. A. Green, and H. Monteil. 1993. Degradation of atrazine in laboratory microcosms - isolation and identification of the biodegrading bacteria. Environ. Toxicol. Chem. 12:1627-1634.
45. Moore, A., and C. P. Waring. 1998. Mechanistic effects of a triazine pesticide on reproductive endocrine function in mature male Atlantic salmon (Salmo salar L.) Parr. Pestic. Biochem. Physiol. 62:41-50.
46. Mougin, C., C. Laugero, M. Asther, and V. Chaplain. 1997. Biotransformation of s-triazine herbicides and related degradation products in liquid cultures by the white rot fungus Phanerochaete chrysosporium. Pestic. Sci. 49: 169-177.
47. Muller, S. R., M. Berg, M. M. Ulrich, and R. P. Schwarzenbach. 1997. Atrazine and its primary metabolites in Swiss lakes: input characteristics and long-term behavior in the water column. Environ. Sci. Technol. 31:2104-2113.
48. Nagy, I., R. Compernolle, K. Ghys, J. Vanderleyden, and R. Demot. 1995. A single cytochrome P-450 system is involved in degradation of the herbicides EPTC (S-ethyl dipropylthiocarbamate) and atrazine by Rhodococcus sp. strain NI86/21. Appl. Environ. Microbiol. 61:2056-2060.
49. Nour, S. M., M. P. Fernandez, P. Normand, and J. C. Cleyet-Mael. 1994. Rhizobium ciceri sp. nov., consisting of strains that nodulate chickpeas (Cicer arietinum L.). Int. J. Syst. Bacteriol. 44:511-522.
50. Ostrofsky, E. B., S. J. Traina, and O. H. Tuovinen. 1997. Variation in atrazine mineralization rates in relation to agricultural management practice. J. Environ. Qual. 26:647-657.
51. Pooler, M. R., D. F. Ritchie, and J. S. Hartung. 1996. Genetic relationships among strains of Xanthomonas fragariae based on random amplified polymorphic DNA PCR, repetitive extragenic palindromic PCR, and enterobacterial repetitive intergenic consensus PCR data and generation of multiplexed PCR primers useful for the identification of this phytopathogen. Appl. Environ. Microbiol. 62:3121-3127.
52. Prévost, D., L. M. Bordeleau, S. Caudry-Reznick, H. M. Schulman, and H. Antoun. 1987. Characteristics of rhizobia isolated from three legumes indigenous to the Canadian high arctic: Astragalus alpinus, Oxytropis maydelliana, and Oxytropis arctobia. Plant Soil 98:313-324.
53. Pussemier, L., S. Goux, V. Vanderheyden, P. Debongnie, I. Tresinie, and G. Foucart. 1997. Rapid dissipation of atrazine in soils taken from various maize fields. Weed Res. 37:171-179.
54. Radosevich, M., S. J. Traina, Y. L. Hao, and O. H. Tuovinen. 1995. Degradation and mineralization of atrazine by a soil bacterial isolate. Appl. Environ. Microbiol. 61:297-302.
55. Sadowsky, M. J., Z. Tong, M. de Souza, and L. P. Wackett. 1998. atzC is a new member of the amidohydrolase protein superfamily and is homologous to other atrazine-metabolizing enzymes. J. Bacteriol. 180:152-158.
56. Sambrook, J., E. F. Fritsch, and T. Maniatis. 1989. Molecular cloning: a laboratory manual, 2nd ed. Cold Spring Harbor Laboratory, Cold Spring Harbor, N.Y.
57. Solomon, K. R., D. B. Baker, R. P. Richards, K. R. Dixon, S. J. Klaine, T. W. La Point, R. J. Kendall, C. P. Weisskopf, J. M. Giddings, J. P. Giesy, et al. 1996. Ecological risk assessment of atrazine in North American surface waters. Environ. Toxicol. Chem. 15:31-76.
58. Struthers, J. K., K. Jayachandran, and T. B. Moorman. 1998. Biodegradation of atrazine by Agrobacterium radiobacter J14a and use of this strain in bioremediation of contaminated soil. Appl. Environ. Microbiol. 64:3368-3375.
59. Thompson, J. D., D. G. Higgins, and T. J. Gibson. 1994. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res. 22:4673-4680.
60. Thurman, E. M., D. A. Goolsby, M. T. Meyer, M. S. Mills, M. I. Pomes, and D. W. Kolpin. 1992. A reconnaissance study of herbicides and their metabolites in surface water on the midwestern United States using immunoassay and gas chromatography/mass spectrometry. Environ. Sci. Technol. 26:2440-2447.
61. Tomlin, C. 1994. The pesticide manual, 10th ed. British Crop Protection Council, Farnham, United Kingdom.
62. Topp, E., D. W. Gutzman, B. Bourgoin, J. Millette, and D. S. Gamble. 1995. Rapid mineralization of the herbicide atrazine in alluvial sediments and enrichment cultures. Environ. Toxicol. Chem. 14:743-747.
63. Topp, E., R. S. Hanson, D. B. Ringerberg, D. C. White, and R. Wheatcroft. 1993. Isolation and characterization of an N-methylcarbamate insecticide-degrading methylotrophic bacterium. Appl. Environ. Microbiol. 59:3339-3349.
64. Topp, E., L. Tessier, and E. G. Gregorich. 1996. Dairy manure incorporation stimulates rapid atrazine mineralization in an agricultural soil. Can. J. Soil Sci. 76:403-409.
65. Urakami, T., H. Araki, H. Oyanagi, K. I. Suzuki, and K. Komagata. 1992. Transfer of Pseudomonas aminovorans (den Dooren de Jong 1926) to Aminobacter gen. nov. as Aminobacter aminovorans comb. nov. and description of Aminobacter aganoensis sp. nov. and Aminobacter niigataensis sp. nov. Int. J. Syst. Bacteriol. 42:84-92.
66. Vanderheyden, V., P. Debongnie, and L. Puissemier. 1997. Accelerated degradation and mineralization of atrazine in surface and subsurface soil materials. Pestic. Sci. 49:237-242.
67. Versalovic, J., M. Schneider, F. J. de Bruijn, and J. R. Lupski. 1994. Genomic fingerprinting of bacteria using repetitive sequence-based polymerase chain reaction. Methods Mol. Cell. Biol. 5:25-40.
68. Widmer, S. K., and R. F. Spalding. 1995. A natural gradient transport study of selected herbicides. J. Environ. Qual. 24:445-453.
69. Wyndham, R. C., R. K. Singh, and N. A. Straus. 1988. Catabolic instability, plasmid gene deletion and recombination in Alcaligenes sp. BR 60. Arch. Microbiol. 150:237-243.
70. Yanze-Kontchou, C., and N. Gschwind. 1994. Mineralization of the herbicide atrazine as a carbon source by a Pseudomonas strain. Appl. Environ. Microbiol. 60:4297-4302.