Genetic analysis of dioxin dioxygenase of Sphingomonas sp. strain RW1: Catabolic genes dispersed on the genome

Journal of Bacteriology

Volumn 180, Issue 15, 1998, Pages 3954-3966

  Armengaud, Jean ^a   Happe, Birgitta ^a   Timmis, Kenneth N ^a  

^a HELMHOLTZ CENTRE FOR INFECTION RESEARCH   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

DIBENZODIOXIN DERIVATIVE; DIBENZOFURAN; DIOXIN DIOXYGENASE; FERROUS ION; HYDROLASE; IRON SULFUR PROTEIN; OXYGENASE; UNCLASSIFIED DRUG;

ARTICLE; BACTERIAL GENE; BINDING SITE; BIODEGRADATION; CATABOLISM; CISTRON; CONTROLLED STUDY; ENZYME SUBUNIT; GENE EXPRESSION; GENETIC ANALYSIS; GENOME; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; PSEUDOMONAS; SPHINGOMONAS;

SPHINGOMONAS;

EID: 0031859323     PISSN: 00219193     EISSN: None     Source Type: Journal    
DOI: 10.1128/jb.180.15.3954-3966.1998     Document Type: Article

References (41)

1. Armengaud, J., and K. N. Timmis. 1997. Molecular characterization of Fdx1, a putidaredoxin-type [2Fe-2S] ferredoxin able to transfer electrons to the dioxin dioxygenase of Sphingomonas sp. RW1. Eur. J. Biochem. 247:833-842.
2. Armengaud, J., and K. N. Timmis. 1998. The reductase RedA2 of the multicomponent dioxin dioxygenase system of Sphingomonas sp. RW1 is related to class-I cytochrome P450-type reductases. Eur. J. Biochem. 253: 437-444.
3. Asturias, J. A., E. Diaz, and K. N. Timmis. 1995. The evolutionary relationship of biphenyl dioxygenase from gram-positive Rhodococcus globendus P6 to multicomponent dioxygenases from gram-negative bacteria. Gene 156:11-18.
4. Batie, C. J., D. P. Ballou, and C. C. Correll. 1992. Phthalate dioxygenase reductase and related flavin-iron-sulfur containing electron transferases, p. 543-566. In F. Müller (ed.), Chemistry and biochemistry of flavoenzymes. CRC Press, Boca Raton, Fla.
5. Beil, S., B. Happe, K. N. Timmis, and D. H. Pieper. 1997. Genetic and biochemical characterization of the broad spectrum chlorobenzene dioxygenase from Burkholderia sp. strain PS12: dechlorination of 1,2,4,5-tetrachlorobenzene. Eur. J. Biochem. 247:190-199.
6. Brady, L., A. M. Brzozowski, Z. S. Derewenda, E. Dodson, G. Dodson, S. Tolley, J. P. Turkenburg, L. Christiansen, B. Huge-Jensen, L. Norskov, et al. 1990. A serine protease triad forms the catalytic centre of a triacylglycerol lipase. Nature 343:767-770.
7. Bünz, P. V., and A. M. Cook. 1993. Dibenzofuran 4,4a-dioxygenase from Sphingomonas sp. strain RW1: angular dioxygenation by a three-component enzyme system. J. Bacteriol. 175:6467-6475.
8. Bünz, P. V., R. Falchetto, and A. M. Cook. 1993. Purification of two isofunctional hydrolases (EC 3.7.1.8) in the degradative pathway for dibenzofuran in Sphingomonas sp. strain RW1. Biodegradation 4:171-178.
9. Diaz, E., and K. N. Timmis. 1995. Identification of functional residues in a 2-hydroxymuconic semialdehyde hydrolase. A new member of the alpha/beta hydrolase-fold family of enzymes which cleaves carbon-carbon bonds. J. Biol. Chem. 270:6403-6411.
10. Eaton, R. W. 1996. p-Cumate catabolic pathway in Pseudomonas putida F1: cloning and characterization of DNA carrying the cmt operon. J. Bacteriol. 178:1351-1362.
11. Eaton, R. W., and K. N. Timmis. 1986. Characterization of a plasmid-specified pathway for catabolism of isopropylbenzene in Pseudomonas putida RE204. J. Bacteriol. 168:123-131.
12. Ensley, B. D., B. J. Ratzkin, T. D. Osslund, M. J. Simon, L. P. Wackelt, and D. T. Gibson. 1983. Expression of naphthalene oxidation genes in Escherichia coli results in the biosynthesis of indigo. Science 222:167-169.
13. Erickson, B. D., and F. J. Mondello. 1992. Nucleotide sequencing and transcriptional mapping of the genes encoding biphenyl dioxygenase, a multicomponent polychlorinated-biphenyl-degrading enzyme in Pseudomonas strain LB400. J. Bacteriol. 174:2903-2912.
14. Fortnagel, P., H. Harms, R.-M. Wittich, S. Krohn, H. Meyer, V. Sinnwell, H. Wilkes, and W. Francke. 1990. Metabolism of dibenzofuran by Pseudomonas sp. strain HH69 and the mixed culture HH27. Appl. Environ. Microbiol. 56:1148-1156.
15. Franklin, F. C., M. Bagdasarian, M. M. Bagdasarian, and K. N. Timmis. 1981. Molecular and functional analysis of the TOL plasmid pWWO from Pseudomonas putida and cloning of genes for the entire regulated aromatic ring meta cleavage pathway. Proc. Natl. Acad. Sci. USA 78:7458-7462.
16. Furukawa, K., and T. Miyazaki. 1986. Cloning of a gene cluster encoding biphenyl and chlorobiphenyl degradation in Pseudomonas pseudoalcaligenes. J. Bacteriol. 166:392-398.
17. Gibson, D. T., S. M. Resnick, K. Lee, J. M. Brand, D. S. Torok, L. P. Wackett, M. J. Schocken, and B. E. Haigler. 1995. Desaturation, dioxygenation, and monooxygenation reactions catalyzed by naphthalene dioxygenase from Pseudomonas sp. strain 9816-4. J. Bacteriol. 177:2615-2621.
18. 17a.Happe, B. Unpublished results.
19. Happe, B., L. D. Eltis, H. Poth, R. Hedderich, and K. N. Timmis. 1993. Characterization of 2,2′,3-trihydroxybiphenyl dioxygenase, an extradiol dioxygenase from the dibenzofuran- and dibenzo-p-dioxin-degrading bacterium Sphingomonas sp. strain RW1. J. Bacteriol. 175:7313-7320.
20. Harayama, S., and K. N. Timmis. 1992. Aerobic biodegradation of aromatic hydrocarbons by bacteria, p. 99-156. In H. S. Sigel and A. Sigel (ed.), Metal ions in biological systems. Marcel Dekker, New York, N.Y.
21. Harms, H., R.-M. Wittich, V. Sinnwell, H. Meyer, P. Fortnagel, and W. Francke. 1990. Transformation of dibenzo-p-dioxin by Pseudomonas sp. strain HH69. Appl. Environ. Microbiol. 56:1157-1159.
22. 20a.Hofer, B. Unpublished results.
23. Jiang, H., R. E. Parales, N. A. Lynch, and D. T. Gibson. 1996. Site-directed mutagenesis of conserved amino acids in the alpha subunit of toluene dioxygenase: potential mononuclear non-heme iron coordination sites. J. Bacteriol. 178:3133-3139.
24. Kim, Y.-C., S.-J. Kim, C.-K. Kim, and S,-J. Kim. 1996. A novel organization of phn operons responsible for biodegradation of polyaromatic hydrocarbons (PAHs) by Pseudomonas sp. strain DJ77, p. 189-190. In K. N. Timmis and J. Lalucat (ed.), Biodegradation of organic pollutants. Abstract book, UIB-GBF-CSIC-TUB symposium. GBF, Braunschweig, Germany.
25. Klecka, G. M., and D. T. Gibson. 1979. Metabolism of dibenzo[1,4]dioxan by a Pseudomonas species. Biochem. J. 180:639-645.
26. Kovach, M. E., R. W. Phillips, P. H. Elzer, R. M. N. Roop, and K. M. Peterson. 1994. pBBR1MCS: a broad-host-range cloning vector. BioTechniques 16:800-802.
27. McKay, D. B., M. Seeger, M. Zielinski, B. Hofer, and K. N. Timmis. 1997. Heterologous expression of biphenyl dioxygenase-encoding genes from a gram-positive broad-spectrum polychlorinated biphenyl degrader and characterization of chlorobiphenyl oxidation by the gene products. J. Bacteriol. 179:1924-1930.
28. Mermod, N., S. Harayama, and K. N. Timmis. 1986. New route to bacterial production of indigo. Bio/Technology 4:321-324.
29. Monna, L., T. Omori, and T. Kodama. 1993. Microbial degradation of dibenzofuran, fluorene, and dibenzo-p-dioxin by Staphylococcus auriculans DBF63. Appl. Environ. Microbiol. 59:285-289.
30. Robertson, J. B., J. C. Spain, J. D. Haddock, and D. T. Gibson. 1992. Oxidation of nitrotoluenes by toluene dioxygenase: evidence for a monooxygenase reaction. Appl. Environ. Microbiol. 58:2643-2648.
31. 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.
32. Sato, S. I., J. W. Nam, K. Kasuga, H. Nojiri, H. Yamane, and T. Omori. 1997. Identification and characterization of genes encoding carbazole 1,9a-dioxygenase in Pseudomonas sp. strain CA10. J. Bacteriol. 179:4850-4858.
33. Schmid, A., B. Rothe, J. Altenbuchner, W. Ludwig, and K. H. Engesser. 1997. Characterization of three distinct extradiol dioxygenases involved in mineralization of dibenzofuran by Terrabacter sp. strain DPO360. J. Bacteriol. 179:53-62.
34. Strubel, V., K. H. Engesser, P. Fischer, and H. J. Knackmuss. 1991. 3-(2-Hydroxyphenyl)catechol as substrate for proximal meta ring cleavage in dibenzofuran degradation by Brevibacterium sp. strain DPO 1361. J. Bacteriol. 173:1932-1937.
35. Strubel, V., H. G. Rast, W. Fietz, H. J. Knackmuss, and K. H. Engesser. 1989. Enrichment of dibenzofuran utilizing bacteria with high co-metabolic potential towards dibenzodioxin and other anellated aromatics. FEMS Microbiol. Lett. 49:233-238.
36. Taira, K., J. Hirose, S. Hayashida, and K. Furukawa. 1992. Analysis of bph operon from the polychlorinated biphenyl-degrading strain of Pseudomonas pseudoalcaligenes KF707. J. Biol. Chem. 267:4844-4853.
37. Van den Berg, M., J. De Jongh, H. Poiger, and J. R. Olson. 1994. The toxicokinetics and metabolism of polychlorinated dibenzo-p-dioxins (PC-DDs) and dibenzofurans (PCDFs) and their relevance for toxicity. Crit. Rev. Toxicol. 24:1-74.
38. Wittich, R. M., H. Wilkes, V. Sinnwell, W. Francke, and P. Fortnagel. 1992. Metabolism of dibenzo-p-dioxin by Sphingomonas sp. strain RW1. Appl. Environ. Microbiol. 58:1005-1010.
39. Yen, W. K., D. T. Gibson, and T. N. Liu. 1977. Toluene dioxygenase: a multicomponent enzyme system. Biochem. Biophys. Res. Commun. 78:401-410.
40. Zylstra, G. J., and D. T. Gibson. 1989. Toluene degradation by Pseudomonas putida F1. Nucleotide sequence of the todC1C2BADE genes and their expression in Escherichia coli. J. Biol. Chem. 264:14940-14946.
41. Zylstra, G. J., A. K. Goyal, and E. Kim. 1996. Diversity of genes for polycyclic aromatic hydrocarbon degradation, p. 38-41. In J. L. Ramos, (ed.), Environmental biotechnology. Abstract book, EC-US Task Force on Biotechnology Research symposium. CSIC, Granada, Spain.