A functional 4-hydroxysalicylate/hydroxyquinol degradative pathway gene cluster is linked to the initial dibenzo-p-dioxin pathway genes in Sphingomonas sp. strain RW1

Journal of Bacteriology

Volumn 181, Issue 11, 1999, Pages 3452-3461

  Armengaud, Jean ^a,b   Timmis, Kenneth N ^a   Wittich, Rolf Michael ^a  

^a HELMHOLTZ CENTRE FOR INFECTION RESEARCH   (Germany)

^b INSTITUT DE BIOLOGIE STRUCTURALE   (France)

Author keywords

[No Author keywords available]

Indexed keywords

1,2,4 BENZENETRIOL; DIBENZODIOXIN DERIVATIVE; DIBENZOFURAN; OXYGENASE; SALICYLIC ACID DERIVATIVE; SUCCINATE DEHYDROGENASE;

ARTICLE; BACTERIAL GENE; BACTERIUM ISOLATION; CONTROLLED STUDY; GENE CLUSTER; NONHUMAN; NUCLEOTIDE SEQUENCE; OPEN READING FRAME; PRIORITY JOURNAL; SEQUENCE ANALYSIS; SPHINGOMONAS;

BACTERIA (MICROORGANISMS); ESCHERICHIA COLI; NEGIBACTERIA; PROKARYOTA; SPHINGOMONAS; SPHINGOMONAS SP.;

EID: 0033040221     PISSN: 00219193     EISSN: None     Source Type: Journal    
DOI: 10.1128/jb.181.11.3452-3461.1999     Document Type: Article

References (48)

1. Arfmann, H.-A., K. N. Timmis, and R.-M. Wittich. 1997. Mineralization of 4-chlorodibenzofuran by a consortium consisting of Sphingomonas sp. strain RW1 and Burkholderia sp. strain JWS. Appl. Environ. Microbiol. 63:3458-3462.
2. Armengaud, J., J. Gaillard, E. Forest, and Y. Jouanneau. 1995. Characterization of a 2[4Fe-4S) ferredoxin obtained by chemical insertion of the Fe-S clusters into the apoferredoxin II from Rhodobacter capsulatus. Eur. J. Biochem. 231:396-404.
3. Armengaud, J., B. Happe, and K. N. Timmis. 1998. Genetic analysis of dioxin dioxygenase of Sphingomonas sp. strain RW1: catabolic genes dispersed on the genome. J. Bacteriol. 180:3954-3966.
4. Armengaud, J., C. Meyer, and Y. Jouanneau. 1994. Recombinant expression of the fdxD gene of Rhodobacter capsulatus and characterization of its product, a [2Fe-2S] ferredoxin. Biochem. J. 300:413-418.
5. Armengaud, J., C. Meyer, and Y. Jouanneau. 1997. A [2Fe-2S] ferredoxin (FdVI) is essential for growth of the photosynthetic bacterium Rhodobacter capsulatus. J. Bacteriol. 179:3304-3309.
6. 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.
7. Armengaud, J., and K. N. Timmis. 1998. The reducTase RedA2 of the multi-component dioxin dioxygenase system of Sphingomonas sp. RW1 is related to class-I cytochrome P450-type reductases. Eur. J. Biochem. 253: 437-444.
8. 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.
9. 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.
10. Claverie, J. M. 1994. A streamlined random sequencing strategy for finding coding exons. Genomics 23:575-581.
11. Corkey, B. E., M. Brandt, R. J. Williams, and J. R. Williamson. 1981. Assay of short-chain acyl coenzyme A intermediates in tissue extracts by high-pressure liquid chromatography. Anal. Biochem. 118:30-41.
12. Daubaras, D. L., C. D. Hershberger, K. Kitano, and A. M. Chakrabarty. 1995. Sequence analysis of a gene cluster involved in metabolism of 2,4,5-trichlorophenoxyacetic acid by Burkholderia cepacia AC1100. Appl. Environ. Microbiol. 61:1279-1289.
13. Daubaras, D. L., K. Saido, and A. M. Chakrabarty. 1996. Purification of hydroxyquinol 1,2-dioxygenase and maleylacetate reductase: the lower pathway of 2,4,5-trichlorophenoxyacetic acid metabolism by Burkholderia cepacia AC1100. Appl. Environ. Microbiol. 62:4276-4279.
14. Doten, R. C., K. L. Ngai, D. J. Mitchell, and L. N. Ornston. 1987. Cloning and genetic organization of the pea gene cluster from Acinetobacter calcoaceticus. J. Bacteriol. 169:3168-3174.
15. Fetherston, J. D., J. W. Lillard, Jr., and R. D. Perry. 1995. Analysis of the pesticin receptor from Yersinia pestis: role in iron-deficient growth and possible regulation by its siderophore. J. Bacteriol. 177:1824-1833.
16. Fortnagel, P., H. Harms, R.-M. Wittich, W. Francke, S. Krohn, and H. Meyer. 1989. Cleavage of dibenzofuran and dibenzodioxin ring systems by a Pseudomonas bacterium. Naturwissenschaften 76:222-223.
17. Golovleva, L. A., O. Zaborina, R. Pertsova, B. Baskunov, Y. Schurukhin, and S. Kuzmin. 1991. Degradation of polychlorinated phenols by Streptomyces rochei 303. Biodegradation 2:201-208.
18. 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.
19. Harms, H., H. Wilkes, R.-M. Wittich, and P. Fortnagel. 1995. Metabolism of hydroxydibenzofurans, methoxydibenzofurans, acetoxydibenzofurans, and nitrodibenzofurans by Sphingomonas sp. strain HH69. Appl. Environ. Microbiol. 61:2499-2505.
20. Harwood, C. S., N. N. Nichols, M. K. Kim, J. L. Ditty, and R. E. Parales. 1994. Identification of the pcaRKF gene cluster from Pseudomonas putida: involvement in chemotaxis, biodegradation, and transport of 4-hydroxybenzoate. J. Bacteriol. 176:6479-6488.
21. Hofmann, K., and W. Stoffel. TMPRED program. (Online.] Swiss Institute for Experimental Cancer Research, Epalinges s/ Lausanne, Switzerland. http://www.isrec.isb-sib.ch/software/TMPRED_form.html. [25 April 1999, last date accessed.]
22. Kaschabek, S. R., and W. Reineke. 1992. Maleylacetate reductase of Pseudomonas sp. strain B13: dechlorination of chloromaleylacetates, metabolites in the degradation of chloroaromatic compounds. Arch. Microbiol. 158:412-417.
23. Latus, M., H.-J. Seitz, J. Eberspächer, and F. Lingens. 1995. Purification and characterization of hydroxyquinol 1,2-dioxygenase from Azotobacter sp. strain GP1. Appl. Environ. Microbiol. 41:2453-2460.
24. Megharaj, M., R.-M. Wittich, R. Blasco, D. H. Pieper, and K. N. Timmis. 1997. Superior survival and degradation of dibenzo-p-dioxin and dibenzofuran in soil by soil-adapted Sphingomonas sp. strain RW1. Appl. Microbiol. Biotechnol. 48:109-114.
25. Muller, C., L. Petruschka, H. Cuypers, G. Burchhardt, and H. Herrmann. 1996. Carbon catabolite repression of phenol degradation in Pseudomonas putida is mediated by the inhibition of the activator protein PhIR. J. Bacteriol. 178:2030-2036.
26. Parales, R. E., and C. S. Harwood. 1992. Characterization of the genes encoding β-ketoadipate: succinyl-coenzyme A transferase in Pseudomonas putida. J. Bacteriol. 174:4657-4666.
27. Peoples, O. P., and A. J. Sinskey. 1989. Poly-beta-hydroxybutyrate biosynthesis in Alcaligenes eutrophus H16. Characterization of the genes encoding β-ketothiolase and acetoacetyl-CoA reductase. J. Biol. Chem. 264:15293-15297.
28. Peterson, J. A., M. C. Lorence, and B. Amarneb. 1990. Putidaredoxin reductase and putidaredoxin. Cloning, sequence determination, and heterologous expression of the proteins. J. Biol. Chem. 265:6066-6073.
29. Poth, H., and B. Averhoff. Unpublished results.
30. Rakin, A., E. Saken, D. Harmsen, and J. Heesemann. 1994. The pesticin receptor of Yersinia enterocolitica: a novel virulence factor with dual function. Mol. Microbiol. 13:253-263.
31. Sambrook, J., E. F. Fritsch, and T. Maniatis. 1989. Molecular cloning: a laboratory manual, 2nd ed., Cold Spring Harbor Press, Cold Spring Harbor, N.Y.
32. Schmid, A. 1997. Der Metabolismus von 2-Hydroxybiphenyl-Verbindungen in Pseudomonas azelaica HBP1. Ph.D. thesis. University of Stuttgart, Stuttgart, Germany.
33. Schmidt, S., R.-M. Wittich, D. Erdmann, H. Wilkes, W. Francke, and P. Fortnagel. 1992. Biodegradation of diphenyl ether and its monohalogenated derivatives by Sphingomonas sp. strain SS3. Appl. Environ. Microbiol. 58: 2744-2750.
34. Schmidt, S., R.-M. Wittich, P. Fortnagel, D. Erdmann, and W. Francke. 1992. Metabolism of 3-methyldiphenyl ether by Sphingomonas sp. SS31. FEMS Microbiol. Lett. 75:253-258.
35. Seibert, V., K. Sladler-Fritzsche, and M. Schlömann. 1993. Purification and characterization of maleylacetate reductase from Alcaligenes eutrophus JMP134(pJP4). J. Bacteriol. 175:6745-6754.
36. Stolz, A., and H.-J. Knackmuss. 1993. Degradation of 2,4-dihydroxybenzoate by Pseudomonas sp. BN9. FEMS Microbiol. Lett. 108:219-224.
37. Suske, W. A., M. Held, A. Schmid, T. Fleischmann, M. G. Wubbolts, and H.-P. Kohler. 1997. Purification and characterization of 2-hydroxybiphenyl 3-monooxygenase, a novel NADH-dependent, FAD-containing aromatic hydroxylase from Pseudomonas azelaica HBP1. J. Biol. Chem. 272:24257-24265.
38. Uotila, J. S., V. H. Kitunen, T. Coole, T. Saastamoinen, M. Salkinoja-Salonen, and J. H. Apajalahti. 1995. Metabolism of halohydroquinones in Rhodococcus chlorophenolicus PCP-1. Biodegradation 6:119-126.
39. Wang, Y., M. Rawlings, D. T. Gibson, D. Labbe, H. Bergeron, R. Brousseau, and P. C. Lau. 1995. Identification of a membrane protein and a truncated LysR-type regulator associated with the toluene degradation pathway in Pseudomonas putida F1. Mol. Gen. Genet. 246:570-579.
40. Werwath, J., H.-A. Arfmann, D. H. Pieper, K. N. Timmis, and R.-M. Wittich. 1998. Biochemical and genetic characterization of a gentisate 1,2-dioxygenase from Sphingomonas sp. strain RW5. J. Bacteriol. 180:4171-4176.
41. Wheatcroft, R., and S. Laberge. 1991. Identification and nucleotide sequence of Rhizobium meliloti insertion sequence ISRm3: similarity between the putative transposase encoded by ISRm3 and those encoded by Staphylococcus aureus IS256 and Thiobacillus ferrooxidans IST2. J. Bacteriol. 173:2530-2538.
42. Wilkes, H., R.-M. Wittich, K. N. Timmis, P. Fortnagel, and W. Francke. 1996. Degradation of chlorinated dibenzofurans and dibenzo-p-dioxins by Sphingomonas sp. strain RW1. Appl. Environ. Microbiol. 62:367-371.
43. Wittich, R.-M. (ed.). 1998. Biodegradation of dioxins and furans, p. 1-28. Springer-Verlag, Heidelberg, Germany.
44. 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.
45. Yabuuchi, E., I. Yano, H. Oyaizu, Y. Hashimoto, T. Ezaki, and H. Yamamoto. 1990. Proposals of Sphingomonas paucimobilis gen. nov. and comb. nov., Sphingomonas parapaucimobilis sp. nov., Sphingomonas yanoikuyae sp. nov., Sphingomonas adhaesiva sp. nov., Sphingomonas capsulata comb, nov., and two genospecies of the genus Sphingomonas. Microbiol. Immunol. 34: 99-119.
46. Yeh, W. K., and L. N. Ornston. 1981. Evolutionarily homologous α2β2 oligomeric structures in beta-ketoadipate succinyl-CoA transferases from Acinetobacter calcoaceticus and Pseudomonas putida. J. Biol. Chem. 256: 1565-1569.
47. Yoshida, K., K. Shindo, H. Sano, S. Seki, M. Fujimura, N. Yanai, Y. Miwa, and Y. Fujita. 1996. Sequencing of a 65kb region of the Bacillus subtilis genome containing the lic and cel loci, and creation of a 177 kb contig covering the gnt-sacXY region. Microbiology 142:3113-3123.
48. Zaborina, O., D. L. Daubaras, A. Zago, L. Xun, K. Saido, T. Klem, D. Nikolic, and A. M. Chakrabarty. 1998. Novel pathway for conversion of chlorohydroxyquinol to maleylacetate in Burkholderia cepacia AC 1100. J. Bacteriol. 180:4667-4675.