Plasmid localization and organization of melamine degradation genes in Rhodococcus sp. strain Mel

Applied and Environmental Microbiology

Volumn 78, Issue 5, 2012, Pages 1397-1403

  Dodge, Anthony G ^a   Wackett, Lawrence P ^a   Sadowsky, Michael J ^a  

^a UNIVERSITY OF MINNESOTA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

454-PYROSEQUENCING; CYANURIC ACIDS; GENES ENCODING ENZYMES; HYDROLASE GENE; METABOLIC PATHWAYS; NITROGEN ATOM; RHODOCOCCUS SP;

DEGRADATION; DNA; GENE TRANSFER; GENES; METABOLISM; STOICHIOMETRY;

MELAMINE FORMALDEHYDE RESINS;

BACTERIAL DNA; MELAMINE; NITROGEN; TRIAZINE DERIVATIVE;

BACTERIUM; DEGRADATION; ENZYME ACTIVITY; GENE TRANSFER; GENOME; METABOLISM; PLASMID; POLYMER; STOICHIOMETRY;

ARTICLE; BACTERIAL GENOME; CHEMISTRY; CULTURE MEDIUM; DNA SEQUENCE; GENE ORDER; GENETICS; GROWTH, DEVELOPMENT AND AGING; ISOLATION AND PURIFICATION; METABOLISM; MICROBIOLOGY; MOLECULAR GENETICS; MULTIGENE FAMILY; NUCLEOTIDE SEQUENCE; PLASMID; RHODOCOCCUS;

CULTURE MEDIA; DNA, BACTERIAL; GENE ORDER; GENOME, BACTERIAL; METABOLIC NETWORKS AND PATHWAYS; MOLECULAR SEQUENCE DATA; MULTIGENE FAMILY; NITROGEN; PLASMIDS; RHODOCOCCUS; SEQUENCE ANALYSIS, DNA; SOIL MICROBIOLOGY; TRIAZINES;

RHODOCOCCUS SP.;

EID: 84857099421     PISSN: 00992240     EISSN: 10985336     Source Type: Journal    
DOI: 10.1128/AEM.06468-11     Document Type: Article

References (43)

1. Assaf NA, Dick WA. 1993. Spheroplast formation and plasmid isolation from Rhodococcus spp. Biotechniques 15:1010-1012
2. Bruno WJ, Socci ND, Halpern AL. 2000. Weighted neighbor joining: a likelihood-based approach to distance-based phylogeny reconstruction. Mol. Biol. Evol. 17:189-197
3. Cameron SM, Durchschein K, Richman JE, Sadowsky MJ, Wackett LP. 2011. A new family of biuret hydrolases functioning in s-triazine ring metabolism. ACS Catal. 2011:1075-1082
4. Cheng G, Shapir N, Sadowsky MJ, Wackett LP. 2005. Allophanate hydrolase, not urease, functions in bacterial cyanuric acid metabolism. Appl. Environ. Microbiol. 71:4437-4445
5. Cook AM, Beilstein P, Grossenbacher H, Hütter R. 1985. Ring cleavage and degradative pathway of cyanuric acid in bacteria. Biochem. J. 231:25-30
6. Cook AM, Hütter R. 1981. s-Triazines as nitrogen source for bacteria. J. Agric. Food Chem. 29:1135-1143
7. Cook AM, Hütter R. 1984. Deethlysimazine: bacterial dechlorination, deamination, and complete degradation. J. Agric. Food Chem. 32:581-585
8. Dabrock B, Kesseler M, Averhoff B, Gottschalk G. 1994. Identification and characterization of a transmissible linear plasmid from Rhodococcus erythropolis BD2 that encodes isopropylbenzene and trichloroethene catabolism. Appl. Environ. Microbiol. 60:853-860
9. de Souza ML, Seffernick J, Martinez B, Sadowsky MJ, Wackett LP. 1998. The atrazine catabolism genes atzABC are widespread and highly conserved. J. Bacteriol. 180:1951-1954
10. Eaton RW, Karns JS. 1991. Cloning and analysis of s-triazine catabolic genes from Pseudomonas sp. strain NRRLB-12227. J. Bacteriol. 173:1215-1222
11. Eaton RW, Karns JS. 1991. Cloning and comparison of the DNA encoding ammelide aminohydrolase and cyanuric acid amidohydrolase from three s-triazine-degrading bacterial strains. J. Bacteriol. 173:1363-1366
12. El-Sayed WS, El-Baz AF, Othman AM. 2006. Biodegradation of melamine formaldehyde by Micrococcus sp. strain MF-1 isolated from aminoplastic wastewater effluent. Int. Biodeterior. Biodegradation 57:75-81
13. Fruchey I, Shapir N, Sadowsky MJ, Wackett LP. 2003. On the origins of cyanuric acid hydrolase: purification, substrates, and prevalence of AtzD from Pseudomonas sp. strain ADP. Appl. Environ. Microbiol. 69:3653-3657
14. Gürtler V, Mayall BC, Seviour R. 2004. Can whole genome analysis refine the taxonomy of the genus Rhodococcus? FEMS Microbiol. Rev. 28:377-403
15. Hatfield SE. 2007. Applications of triazine chemistry: education, remediation and drug delivery. Master's thesis. TexasA&MUniversity, College Station, TX
16. Ingelfinger JR. 2008. Melamine and the global implications of food contamination. N. Engl. J. Med. 359:2745-2748
17. Jutzi K, Cook AM, Hütter R. 1982. The degradative pathway of the s-triazine melamine. The steps to ring cleavage. Biochem. J. 208:679-684
18. Lane DJ. 1991. 16S/23S rRNA sequencing, p 115-175. In E. Stackebrandt and M. Goodfellow (ed), Nucleic acid techniques in bacterial systematics. John Wiley and Sons, Ltd., Chichester, United Kingdom
19. Li Q, Seffernick JL, Sadowsky MJ, Wackett LP. 2009. Thermostable cyanuric acid hydrolase from Moorella thermoacetica ATCC 39073. Appl. Environ. Microbiol. 75:6986-6991
20. Martinez B, Tomkins J, Wackett LP, Wing R, Sadowsky MJ. 2001. Complete nucleotide sequence and organization of the atrazine catabolic plasmid pADP-1 from Pseudomonas sp. strain ADP. J. Bacteriol. 183: 5684-5697
21. Mulbry WW. 1994. Purification and characterization of an inducible s-triazine hydrolase from Rhodococcus corallinus NRRL B-15444R. Appl. Environ. Microbiol. 60:613-618
22. Okamura T, Kigasawa K. 1994. Re-evaluation of the colorimetric assay for cytidine deaminase activity. Prenat. Diagn. 14:213-218
23. Sadowsky MJ, Tully RE, Cregan PB, Keyser HH. 1987. Genetic diversity in Bradyrhizobium japonicum serogroup 123 and its relation to genotypespecific nodulation of soybeans. Appl. Environ. Microbiol. 53:2624-2630
24. Sambrook J, Fritsch EF, Maniatis T. 1989. Molecular cloning: a laboratory manual, 2nd ed. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY
25. Schäfer A, et al. 1994. Small mobilizable multi-purpose cloning vectors derived from the Escherichia coli plasmids pK18 and pK19: selection of defined deletions in the chromosome of Corynebacterium glutamicum. Gene 145:69-73
26. Seffernick JL, et al. 2007. Hydroxyatrazine N-ethylaminohydrolase (AtzB): an amidohydrolase superfamily enzyme catalyzing deamination and dechlorination. J. Bacteriol. 189:6989-6997
27. Seffernick JL, de Souza ML, Sadowsky MJ, Wackett LP. 2001. Melamine deaminase and atrazine chlorohydrolase: 98 percent identical but functionally different. J. Bacteriol. 183:2405-2410
28. Seffernick JL, Dodge AG, Sadowsky MJ, Bumpus JA, Wackett LP. 2010. Bacterial ammeline metabolism via guanine deaminase. J. Bacteriol. 192: 1106-1112
29. Seffernick JL, Johnson G, Sadowsky MJ, Wackett LP. 2000. Substrate specificity of atrazine chlorohydrolase and atrazine-catabolizing bacteria. Appl. Environ. Microbiol. 66:4247-4252
30. Shao ZQ, Seffens W, Mulbry W, Behki RM. 1995. Cloning and expression of the s-triazine hydrolase gene (trzA) from Rhodococcus corallinus and development of Rhodococcus recombinant strains capable of dealkylating and dechlorinating the herbicide atrazine. J. Bacteriol. 177:5748-5755
31. Shapir N, Osborne JP, Johnson G, Sadowsky MJ, Wackett LP. 2002. Purification, substrate range, and metal center of AtzC: the N-isopropylammelide aminohydrolase involved in bacterial atrazine metabolism. J. Bacteriol. 184:5376-5384
32. Shapir N, et al. 2006. TrzN from Arthrobacter aurescens TC1 is a zinc amidohydrolase. J. Bacteriol. 188:5859-5864
33. Shelton DR, Karns JS, McCarty GW, Durham DR. 1997. Metabolism of melamine by Klebsiella terragena. Appl. Environ. Microbiol. 63:2832-2835
34. Soong CL, Ogawa J, Sakuradani E, Shimizu S. 2002. Barbiturase, a novel zinc-containing amidohydrolase involved in oxidative pyrimidine metabolism. J. Biol. Chem. 277:7051-7058
35. Sugita T, Ishiwata H, Yoshihira K, Maekawa A. 1990. Determination of melamine and three hydrolytic products by liquid chromatography. Bull. Environ. Contam. Toxicol. 44:567-571
36. Tomasek PH, Karns JS. 1989. Cloning of a carbofuran hydrolase gene from Achromobacter sp. strain WM111 and its expression in gramnegative bacteria. J. Bacteriol. 171:4038-4044
37. Vallenet D, et al. 2009. MicroScope: a platform for microbial genome annotation and comparative genomics. Database 2009:bap021
38. Vallenet D, et al. 2006. MaGe: a microbial genome annotation system supported by synteny results. Nucleic Acids Res. 34:53-65
39. Veselý M, et al. 2003. Host-vector system for phenol-degrading Rhodococcus erythropolis based on Corynebacterium plasmids. Appl. Microbiol. Biotechnol. 61:523-527
40. Wackett LP, Frias JA, Seffernick JL, Sukovich DJ, Cameron SM. 2007. Genomic and biochemical studies demonstrating the absence of an alkane-producing phenotype in Vibrio furnissii M1. Appl. Environ. Microbiol. 73:7192-7198
41. Wittcoff HA, Reuben BG, Plotkin JS. 2004. Industrial organic chemicals, 2nd ed. John Wiley and Sons, Inc., Hoboken, NJ
42. Yang JC, et al. 2007. TraA is required for megaplasmid conjugation in Rhodococcus erythropolis AN12. Plasmid 57:55-70
43. Zeyer J, Bodmer J, Hütter R. 1981. Microbial degradation of ammeline. Zentralbl. Bakteriol. Mikrobiol. Hyg. I Abt. Orig. C2:289-298.