Cascade regulation of the toluene-3-monooxygenase operon (tbuA1UBVA2C) of Burkholderia pickettit PKO1: Role of the tbuA1 promoter (PtbuA1) in the expression of its cognate activator, TbuT

Journal of Bacteriology

Volumn 178, Issue 21, 1996, Pages 6327-6337

  Byrne, Armando M ^a   Olsen, Ronald H ^a  

^a UNIVERSITY OF MICHIGAN MEDICAL SCHOOL   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

TOLUENE; UNSPECIFIC MONOOXYGENASE;

ARTICLE; BINDING SITE; DNA SEQUENCE; GENE EXPRESSION; GENE EXPRESSION REGULATION; NONHUMAN; OPERON; PRIORITY JOURNAL; PROMOTER REGION; PSEUDOMONADACEAE; SEQUENCE ANALYSIS; STRUCTURAL GENE; TRANSCRIPTION INITIATION;

BURKHOLDERIA; PSEUDOMONADACEAE;

EID: 0029858051     PISSN: 00219193     EISSN: None     Source Type: Journal    
DOI: 10.1128/jb.178.21.6327-6337.1996     Document Type: Article

References (58)

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., C. Michan, K. N. Timmis, and J. L. Ramos. 1989. Regulator and enzyme specificities of the TOL plasmid-encoded upper pathway for degradation of aromatic hydrocarbons and expansion of the substrate range of the pathway. J. Bacteriol. 171:6782-6790.
3. Altendorf, K., P. Voelkner, and W. Puppe. 1914 The sensor kinase KdpD and the response regulator KdpE control expression of the kdpFABC operon in Escherichia coli. Res. Microbiol. 145:374-381.
4. Brosius, J., R. L. Cate, and A. P. Perlmutter. 1982. Precise location of two promoters for the beta-lactamase gene of pBR322: S1 mapping of ribonucleic acid isolated from Escherichia coli or synthesized in vitro. J. Biol. Chem. 257:9205-9210.
5. Byrne, A. M., J. J. Kukor, and R. H. Olsen. 1993. Sequence analysis of the BTEX-degradative thuABC operon of Pseudomonas pickettii PKO1 functional under oxygen limited conditions, abstr. K-81, p. 274. In Abstracts of the 93th General Meeting of the American Society for Microbiology 1993. American Society for Microbiology, Washington, D.C.
6. Byrne, A. M., J. J. Kukor, and R. H. Olsen. 1995. Sequence analysis of the gene cluster encoding toluene-3-monooxygenase from Psuedomonas pickettii PKO1. Gene 154:65-70.
7. Byrne, A. M., and R. H. Olsen. Unpublished data.
8. Craig, N. L., and H. A. Nash. 1984. E. coli integration host factor binds to specific sites in DNA. Cell 39:707-716.
9. Delgado, A., and J. L. Ramos. 1994. Genetic evidence for activation of the positive transcriptional regulator XylR, a member of the NtrC family of regulators, by effector binding. J. Biol. Chem. 269:8059-8062.
10. 54-dependent Pu promoter of TOL plasmid. EMBO J. 10:1159-1167.
11. Deretic, V., W. M. Konyecsni, C. D. Mohr, D. W. Martin, and N. S. Hibler. 1989. Common denominators of promoter control in Pseudomonas and other bacteria. Bio/Technology 7:1249-1254.
12. Devereux, J., P. Haeberli, and O. Smithies. 1984. A comprehensive set of sequence analysis programs for the VAX. Nucleic Acids Res. 12:387-395.
13. Drummond, M., P. Whitty, and J. Wooton. 1986. Sequence domain relationships of ntrC and nifA from Klebsiella pneumoniae: homologies to other regulatory proteins. EMBO J. 5:441-447.
14. Fernández, S., V. Shingler, and V. de Lorenzo. 1994. Cross-regulation by XylR and DmpR activators of Pseudomonas putida suggests that transcriptional control of biodegradative operons evolves independently of catabolic genes. J. Bacteriol. 176:5052-5058.
15. Figurski, D. H., and D. R. Helinski. 1979. Replication of an origin-containing derivative of plasmid RK2 dependent on a plasmid function provided in tram. Proc. Natl. Acad. Sci. USA 76:1648-1652.
16. Francesconi, S. C., A. C. Blake, and M. S. Shields. 1995. Nucleotide sc quence, organization, and regulation of the toluene ortho-monooxygenase operon of Pseudomonas cepacia G4 and its constitutive variants, abstr. K-198, p. 570. In Abstracts of the 15th General Meeting of the American Society for Microbiology 1995. American Society for Microbiology, Washington, D.C.
17. Genetics Computer Group. 1994. Program manual for the Wisconsin GCG package, version 8, September 1994. Genetics Computer Group, Madison, Wis.
18. Gomada, M., S. Inouye, H. Imaishi, A. Nakazawa, and T. Nakazawa. 1992. Analysis of an upstream regulatory sequence required for activation of the regulatory gene xylS in xylene metabolism directed by the TOL plasmid of Pseudomonas putida. Mol. Gen. Genet. 233:419-426.
19. Hanahan, D. 1985. Techniques for transformation of E. coli, p. 109-136. In D. M. Glover (ed.), The practical approach, vol. 1. DNA cloning. IRL Press, Ltd., Oxford.
20. Inouye, S., A. Nakazawa, and T. Nakazawa. 1987. Expression of the regulatory gene xylS on the TOL plasmid is positively controlled by the xylR gene product. Proc. Natl. Acad. Sci. USA 84:5182-5186.
21. Inouye, S., A. Nakazawa, and T. Nakazawa. 1988. Nucleotide sequence of the regulatory gene xylR of the TOL plasmid from Pseudomonas putida. Gene 66:301-306.
22. Inouye, S. A., 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.
23. Johnson, G. R. 1995. Cloning and characterization of genes encoding toluene monooxygenases from Pseudomonas sp. strain JS150. Ph.D. dissertation. University of Michigan, Ann Arbor.
24. 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.
25. Kaphammer, B., J. J. Kukor, and R. H. Olsen. 1990. Cloning and characterization of a novel toluene degradative pathway from Pseudamonas pickettii PKO1, abstr. K-145, p. 243. In Abstracts of the 90th Annual Meeting of the American Society for Microbiology 1990. American Society for Microbiology, Washington, D.C.
26. Kukor, J. J., and R. H. Olsen. 1991. Genetic organization and regulation of a meta cleavage pathway for catechols produced from catabolism from toluene, benzene, phenol, and cresols by Psudomonas pickettii PKO1. J. Bacteriol. 173:4587-4594.
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. Kustu, S., A. K. North, and D. S. Weiss. 1991. Prokaryotic transcriptional enhancers and enhancer binding proteins. Trends Biochem. Sci. 16:397-402.
29. Leahy, J. G., A. M. Byrne, and R. H. Olsen. 1996. Comparison of factors influencing trichloroethylene degradation by toluene-oxidizing bacteria. Appl. Environ. Microbiol. 62:825-833.
30. Marqués, S., and J. L. Ramos. 1993. Transcriptional control of the Pseudomonas putida TOL plasmid catabolic pathways. Mol. Microbiol. 9:923-929.
31. Miller, J. H. 1972. Experiments in molecular genetics. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y.
32. 54 bacterial enhancer-binding protein family: mechanism of action and phylogenetic relationship of their functional domains. J. Bacteriol. 175:6067-6074.
33. Newman, L. M., and L. P. Wackett. 1995. Purification and characterization of toluene 2-monooxygenase from Burkholderia cepacia G4. Biochemistry 34: 14066-14076.
34. Ng, L. C., C. L. Poh, and V. Shingler. 1995. Aromatic effector activation of the NtrC-like transcriptional regulator PhhR limits the catabolic potential of the (methyl)phenol degradative pathway it controls. J. Bacteriol. 177:1485-1490.
35. Olsen, R. H., G. DeBusscher, and W. R. McCombie. 1982. Development of broad-host-range vectors and gene banks: self-cloning of the Pseudomonas aeuginosa PAO1 chromosome. J. Bacteriol. 150:60-69.
36. 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.
37. Pavel, H., M. Forsman, and V. Shingler. 1994. An aromatic effector specificity mutant of the transcriptional regulator DmpR overcomes the growth constraints of Pseudomonas sp. strain CF600 on para-substituted methylphenols. J. Bacteriol. 176:7550-7557.
38. 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.
39. Pérez-Martín, J., K. N. Timmis, and V. de Lorenzo. 1994. Co-regulation by bent DNA. J. Biol. Chem. 269:22657-22662.
40. Polarek, J. W., G. Williams, and W. Epstein. 1992. The products of the kdpDE operon are required for expression of the Kdp ATPase of Escherichia coli. J. Bacteriol. 174:2145-2151.
41. Pontiggia, A., A. Negri, M. Baltrame, and M. E. Bianchi. 1993. Protein HU binds specifically to kinked DNA. Microbiology 7:343-350.
42. Rothmel, R. K., D. L. Shinabarger, M. R. Parsek, T. L. Aldrich, and A. M. Chakrabarty. 1991. Functional analysis of the Pseudomonas putida regulatory protein CatR: transcriptional studies and determination of the CatR DNA-binding site by hydroxyl-radical footprinting. J. Bacteriol. 173:4717-4724.
43. 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.
44. Sanger, F., S. Nicklen, and A. R. Coulson. 1977. DNA sequencing with chain-terminating inhibitors. Proc. Natl. Acad. Sci. USA 74:5463-5467.
45. 54 -dependent regulators: derepression as a control mechanism. Mol. Microbiol. 19:409-416.
46. 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.
47. Shingler, V., and T. Moore. 1994. Sensing aromatic compounds by DmpR transcriptional activator of phenol-calanolizing Pseudomonas sp. strain CF600. J. Bacteriol. 176:1555-1560.
48. Smith, A. W., and B. H. Iglewski. 1989. Transformation of Pseudomonas aeruginosa by electroporation. Nucleic Acids Res. 17:10509.
49. Stock, J. B., A. J. Ninfa, and A. M. Stock. 1989. Protein phosphorylation and regulation of adaptive responses in bacteria. Microbiol. Rev. 53:450-490.
50. 54-dependent Po promoter controlling the Pseudomonas-derived (methyl)phenol dmp operon of pVI150. J. Bacteriol. 178:3727-3735.
51. Takeo, M. 1995. Unpublished data.
52. Tanaka, I., K. Appelt, J. Dijk, S. White, and K. Wilson. 1984. 3-A resolution structure of a protein with histone-like properties in prokaryotes. Nature (London) 310:376-381.
53. Ueno-Nishio, S., S. Mango, L. J. Reitzer, and B. Magasanik. 1984. Identification and regulation of the glnL operator-promoter of the complex glnALG operon of Escherichia coli. J. Bacteriol. 160:379-384.
54. Vogel, H. J., and D. M. Bonner. 1956. Acetylornithinase of Escherichia coli. partial purification and some properties. J. Biol. Chem. 218:97-106.
55. Walderhaug, M. O., J. W. Polarek, P. Voelkner, J. M. Daniel, J. E. Hesse, K. Altendorf, and W. Epstein. 1992. KdpD and KdpE, proteins that control expression of the kdpABC operon. are members of the two-component sensor-effector class of regulators. J. Bacteriol. 174:2152-2159.
56. Worsey, M. J., and P. A. Williams. 1975. Metabolism of toluene and xylenes by Pseudomonas putida (arvilla) mt-2: evidence for a new function of the TOL plasmid. J. Bacteriol. 124:7-13.
57. Yen, K.-M., and M. R. Karl. 1992. Identification of a new gene, tmoF, in the Pseudomonas mendocina KR1 gene cluster encoding toluene-4-monooxygenase. J. Bactcriol. 174:7253-7261.
58. 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 KR gene cluster encoding toluene-4-monooxygenase. J. Bacteriol. 173:5315-5327.