Characterization and role of tbuX in utilization of toluene by Ralstonia pickettii PKO1

Journal of Bacteriology

Volumn 182, Issue 5, 2000, Pages 1232-1242

  Kahng, Hyung Yeel ^a   Byrne, Armando M ^a,c   Olsen, Ronald H ^a   Kukor, Jerome J ^a,b  

^a RUTGERS UNIVERSITY   (United States)

^b UNIVERSITY OF MICHIGAN MEDICAL SCHOOL   (United States)

^c DUPONT COMPANY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BENZENE; HYDROCARBON; LONG CHAIN FATTY ACID; OUTER MEMBRANE PROTEIN; TOLUENE; UNSPECIFIC MONOOXYGENASE;

AMINO ACID SEQUENCE; ARTICLE; BACTERIAL METABOLISM; CATABOLISM; ENZYME ACTIVITY; ESCHERICHIA COLI; FATTY ACID TRANSPORT; INTERNALIZATION; NONHUMAN; NUCLEOTIDE SEQUENCE; OPEN READING FRAME; OPERON; PRIORITY JOURNAL; PROMOTER REGION; RALSTONIA; RALSTONIA PICKETTII; REGULON; SEQUENCE HOMOLOGY; TRANSCRIPTION REGULATION;

AMINO ACID SEQUENCE; BACTERIAL PROTEINS; BASE SEQUENCE; DNA, BACTERIAL; GENE DELETION; GENE EXPRESSION REGULATION, BACTERIAL; GENES, BACTERIAL; GRAM-NEGATIVE AEROBIC RODS AND COCCI; MOLECULAR SEQUENCE DATA; PROMOTER REGIONS (GENETICS); REGULATORY SEQUENCES, NUCLEIC ACID; REGULON; SEQUENCE ANALYSIS, DNA; SEQUENCE HOMOLOGY, AMINO ACID; SEQUENCE HOMOLOGY, NUCLEIC ACID; TOLUENE; TRANSCRIPTION, GENETIC;

BACTERIA (MICROORGANISMS); ESCHERICHIA COLI; NEGIBACTERIA; PROKARYOTA; RALSTONIA PICKETTII;

EID: 0033975879     PISSN: 00219193     EISSN: None     Source Type: Journal    
DOI: 10.1128/JB.182.5.1232-1242.2000     Document Type: Article

References (61)

1. Abril, M. A., M. Buck, and J. L. Ramos. 1991. Activation of the Pseudomonas TOL plasmid upper pathway operon: identification of binding sites for the positive regulator XylR and for integration host factor protein. J. Biol. Chem. 266:15832-15838.
2. Abril, M. A., and J. L. Ramos. 1993. Physical organization of the Pseudomonas TOL plasmid upper pathway operon promoter. Sequence and positional requirements for XylR-dependent activation of transcription. Mol. Gen. Genet. 239:281-288.
3. 54-RNA polymerase to the Pu promoter of Pseudomonas putida: role of IHF and αCTD. EMBO J. 17:5120-5128.
4. Black, P. N. 1991. Primary sequence of the Escherichia coli fadL gene encoding an outer membrane protein required for long-chain fatty acid transport. J. Bacteriol. 173:435-442.
5. Byrne, A. M., J. J. Kukor, and R. H. Olsen. 1995. Sequence analysis of the gene cluster encoding toluene-3-monooxygenase from Pseudomonas pickettii PKO1. Gene 154:65-70.
6. Byrne, A. M., and R. H. Olsen. 1996. Cascade regulation of the toluene-3-monooxygenase operon (tbuA1UBVA2C) of Burkholderia pickettii PKO1: role of the tbuA1 promoter (PtbuA1) in the expression of its cognate activator, TbuT. J. Bacteriol. 178:6327-6337.
7. Cohen-Bazaire, G., W. R. Sistrom, and R. Y. Stanier. 1957. Kinetic studies of pigment synthesis by non-sulphur purple bacteria. J. Cell. Comp. Physiol. 49:25-68.
8. Cuskey, S. M., V. Pecoraro, and R. H. Olsen. 1987. Initial catabolism of aromatic biogenic amines by Pseudomonas aeruginosa PAO: pathway description, mapping of mutations, and cloning of essential genes. J. Bacteriol. 169:2398-2404.
9. 54-dependent Pu promoter of TOL plasmid. EMBO J. 10:1159-1167.
10. Eaton, R. W. 1997. p-Cymene catabolic pathway in Pseudomonas putida F1: cloning and characterization of DNA encoding conversion of p-cymene to p-cumate. J. Bacteriol. 179:3171-3180.
11. Fernández, S., J. Pérez-Martín, and V. de Lorenzo. 1996. Specificity and promiscuity of catabolic promoters of Pseudomonas spp., p. 165-175. In T. Nakazawa, K. Furukawa, D. Haas, and S. Silver (ed.), Molecular biology of pseudomonads. ASM Press, Washington, D. C.
12. Figurski, D. H., and D. R. Helinski. 1979. Replication of an origin-containing derivative of plasmid RK2 dependent on a plasmid function provided in trans. Proc. Natl. Acad. Sci. USA 76:1648-1652.
13. Gomada, M., H. Imaishi, M. Miura, S. Inouye, T. Nakazawa, and A. Nakazawa. 1994. Analysis of DNA bend structure of promoter regulatory regions of xylene-metabolizing genes on the Pseudomonas TOL plasmid. J. Biochem. 116:1096-1104.
14. Habe, H., K. Kasuga, H. Nojiri, H. Yamane, and T. Omori. 1996. Analysis of cumene (isopropylhenzene) degradation genes from Pseudomonas fluorescens IP01. Appl. Environ. Microbiol. 62:4471-4477.
15. Hanahan, D. 1985. Techniques for transformation of E. coli, p. 109-136. In D. M. Glover (ed.), DNA cloning, a practical approach, vol. 1. IRL Press, Ltd., Oxford, England.
16. Hancock, R. E. W. 1987. Model membrane studies of porin function, p. 187-225. In M. Inouye (ed.), Bacterial outer membranes as model systems. John Wiley & Sons, Inc., New York, N.Y.
17. Harley, C. B., and R. P. Reynolds. 1987. Analysis of E. coli promoter sequences. Nucleic Acids Res. 15:2347-2351.
18. Holloway, B. W., V. Krishnapillai, and A. F. Morgan. 1979. Chromosomal genetics of Pseudomonas. Microbiol. Rev. 43:73-102.
19. Inouye, S., M. Gomada, U. M. X. Sangodkar, A. Nakazawa, and T. Nakazawa. 1990. Upstream regulatory sequences for transcriptional activator XylR in the first operon of xylene metabolism of the TOL plasmid. J. Mol. Biol. 216:251-260.
20. Johnson, G. R., and R. H. Olsen. 1995. Nucleotide sequence analysis of genes encoding a toluene/benzene-2-monooxygenase from Pseudomonas sp. strain JS150. Appl. Environ. Microbiol. 61:3336-3346.
21. Johnson, G. R., and R. H. Olsen. 1997. Multiple pathways for toluene degradation in Burkholderia sp. strain JS150. Appl. Environ. Microbiol. 63: 4047-4052.
22. Kim, Y., P. Ayouhi, and A. R. Harker. 1996. Constitutive expression of the cloned phenol hydroxylase gene(s) from Alcaligenes eutrophus JMP134 and concomitant trichloroethylene oxidation. Appl. Environ. Microbiol. 62:3227-3233.
23. Kukor, J. J., and R. H. Olsen. 1990. Diversity of toluene degradation following long term exposure to BTEX in situ, p. 405-421. In D. Kamely, A. Chakrabarty, and G. S. Omenn (ed.), Biotechnology and biodegradation. Gulf Publishing Co., Houston, Tex.
24. Kukor, J. J., and R. H. Olsen. 1990. Molecular cloning, characterization, and regulation of a Pseudomonas pickettii PKO1 gene encoding phenol hydroxylase and expression of the gene in Pseudomonas aeruginosa PAO1c. J. Bacteriol. 172:4624-4630.
25. Kukor, J. J., and R. H. Olsen. 1991. Genetic organization and regulation of a meta cleavage pathway for catechols produced from catabolism of toluene, benzene, phenol, and cresols by Pseudomonas pickettii PKO1. J. Bacteriol. 173:4587-4594.
26. Kukor, J. J., and R. H. Olsen. 1992. Complete nucleotide sequence of tbuD, the gene encoding phenol/cresol hydroxylase from Pseudomonas pickettii PKO1, and functional analysis of the encoded enzyme. J. Bacteriol. 174: 6518-6526.
27. Kukor, J. J., and R. H. Olsen. 1996. Catechol 2,3-dioxygenases functional in oxygen-limited (hypoxic) environments. Appl. Environ. Microbiol. 62:1728-1740.
28. Kumar, G. B., and P. N. Black. 1993. Bacterial long-chain fatty acid transport. J. Biol. Chem. 268:15469-15476.
29. Kustu, S., A. K. North, and D. Weiss. 1991. Prokaryotic transcriptional enhancers and enhancer-binding proteins. Trends Biochem. Sci. 16:397-402.
30. Laemmli, U. K. 1970. Cleavage of structural proteins during the assembly of the head of bacteriophage T4. Nature (London) 227:680-685.
31. Leahy, J. G., G. R. Johnson, and R. H. Olsen. 1997. Cross-regulation of toluene monooxygenases by the transcriptional activators TbmR and TbuT. Appl. Environ. Microbiol. 63:3736-3739.
32. Leahy, J. G., and R. H. Olsen. 1997. Kinetics of toluene degradation by toluene-oxidizing bacteria as a function of oxygen concentration, and the effect of nitrate. FEMS Microbiol. Ecol. 23:23-30.
33. N). Mol. Microbiol. 10:903-909.
34. Mikesell, M. D., J. J. Kukor, and R. H. Olsen. 1993. Metabolic diversity of aromatic hydrocarbon-degrading bacteria from a petroleum-contaminated aquifer. Biodegradation 4:249-259.
35. Miller, J. H. 1972. Experiments in molecular genetics. Cold Spring Harbor Laboratory, Cold Spring Harbor, N.Y.
36. North, A. K., K. E. Klose, K. M. Stedman, and S. Kustu. 1993. Prokaryotic enhancer-binding proteins reflect eukaryote-like modularity: the puzzle of nitrogen regulatory protein C. J. Bacteriol. 175:4267-4273.
37. Oliver, D. 1985. Protein secretion in Escherichia coli. Annu. Rev. Microbiol. 39:615-648.
38. Olsen, R. H., G. DeBusscher, and W. R. McCombie. 1982. Development of broad-host-range vectors and gene banks: self-cloning of the Pseudomonas aeruginosa PAO chromosome. J. Bacteriol. 150:60-69.
39. Olsen, R. H., and J. Hansen. 1976. Evolution and utility of a Pseudomonas aeruginosa drug resistance factor. J. Bacteriol. 125:837-844.
40. Olsen, R. H., J. J. Kukor, A. M. Byrne, and G. R. Johnson. 1997. Evidence for the evolution of a single component phenol/cresol hydroxylase from a multicomponent toluene monooxygenase. J. Indust. Microbiol. Biotechnol. 19:360-368.
41. Olsen, R. H., J. J. Kukor, and B. Kaphammer. 1994. A novel toluene-3-monooxygenase pathway cloned from Pseudomonas pickettii PKO1. J. Bacteriol. 176:3749-3756.
42. Olsen, R. H., M. D. Mikesell, and J. J. Kukor. 1994. Enumeration and characterization of BTEX-degrading bacteria from hypoxic environments functional with mixed electron acceptors. Res. Microbiol. 145:47-49.
43. Olsen, R. H., M. D. Mikesell, J. J. Kukor, and A. M. Byrne. 1995. Physiological attributes of microbial BTEX degradation in oxygen-limited environments. Environ. Health Perspect. 103:49-51.
44. 54-dependent promoter Ps of the TOL plasmid of Pseudomonas putida requires HU for transcriptional activation in vivo by XylR. J. Bacteriol. 177:3758-3763.
45. Pérez-Martin, J., and V. de Lorenzo. 1997. Clues and consequences of DNA bending in transcription. Annu. Rev. Microbiol. 51:593-628.
46. Pérez-Martin, J., K. N. Timmis, and V. de Lorenzo. 1994. Co-regulation by bent DNA. J. Biol. Chem. 269:22657-22662.
47. Ramos, J. L., S. Marques, and K. N. Timmis. 1997. Transcriptional control of the Pseudomonas TOL plasmid catabolic operons is achieved through an interplay of host factors and plasmid-encoded regulators. Annu. Rev. Microbiol. 51:341-373.
48. Salto, R., A. Delgado, M.-T. Gallegos, M. Manzanera, S. Marqués, and J. L. Ramos. 1996. Fine control of expression of the catabolic pathways of TOL plasmid of Pseudomonas putida for mineralization of aromatic hydrocarbons, p. 207-216. In T. Nakazawa, K. Furukawa, D. Haas, and S. Silver (ed.), Molecular biology of pseudomonads. ASM Press, Washington, D.C.
49. Sambrook, J., E. F. Fritsch, and T. Maniatis. 1989. Molecular cloning: a laboratory manual, 2nd ed. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y.
50. Sanger, F., S. Nicklen, and A. R. Coulsen. 1977. DNA sequencing with chain-terminating inhibitors. Proc. Natl. Acad. Sci. USA 74:5463-5467.
51. Shields, M. S., S. O. Montgomery, P. J. Chapman, S. M. Cuskey, and P. H. Pritchard. 1989. Novel pathway of toluene catabolism in the trichloroethylene-degrading bacterium G4. Appl. Environ. Microbiol. 55:1624-1629.
52. Shields, M. S., and M. J. Reagin. 1992. Selection of a Pseudomonas cepacia strain constitutive for the degradation of trichloroethylene. Appl. Environ. Microbiol. 58:3977-3983.
53. Shields, M. S., M. J. Reagin, R. R. Gerger, R. Campbell, and C. Somerville. 1995. TOM, a new aromatic degradative plasmid from Buirkholderia (Pseudomonas) cepacia G4. Appl. Environ. Microbiol. 61:1352-1356.
54. 54-dependent regulators: derepression as a control mechanism. Mol. Microbiol. 19:409-416.
55. Shingler, V., M. Bartilson, and T. Moore. 1993. Cloning and nucleotide sequence of the gene encoding the positive regulator (DmpR) of the phenol catabolic pathway encoded by pVI150 and identification of DmpR as a member of the NtrC family of transcriptional activators. J. Bacteriol. 175: 1596-1604.
56. Smith, A. W., and B. H. Iglewski. 1989. Transformation of Pseudomonas aeruginosa by electroporation. Nucleic Acids Res. 17:10509.
57. 54-dependent Po promoter controlling the Pseudomonas-derived (methyl)phenol dmp operon of pVI150. J. Bacteriol. 178:3727-3735.
58. Velasco, A., S. Alonso, J. L. García, J. Perera, and E. Díaz. 1998. Genetic and functional analysis of the styrene catabolic cluster of Pseudomonas sp. strain Y2. J. Bacteriol. 180:1063-1071.
59. Vogel, H. J., and D. M. Bonner. 1956. Acetylornithinase of Escherichia coli: partial purification and some properties. J. Biol. Chem. 218:97-106.
60. Wang, Y., M. Rawlings, D. T. Gibson, D. Labbé, H. Bergeron, R. Broussean, and P. C. K. 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.
61. Yen, K.-M., M. R. Karl, L. M. Blatt, M. J. Simon, R. B. Winter, P. R. Fausset, H. S. Lu, A. A. Harcourt, and K. K. Chen. 1991. Cloning and characterization of a Pseudomonas mendocina KR1 gene cluster encoding toluene-4-monooxygenase. J. Bacteriol. 173:5315-5327.