Mutation analysis of PobR and PcaU, closely related transcriptional activators in Acinetobacter

Journal of Bacteriology

Volumn 180, Issue 19, 1998, Pages 5058-5069

  Kok, Ruben G ^a   D'Argenio, David A ^a   Ornston, L Nicholas ^a  

^a YALE UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

4 HYDROXYBENZOIC ACID; ADIPIC ACID DERIVATIVE; BACTERIAL DNA; HELIX LOOP HELIX PROTEIN; MUTANT PROTEIN; PROTOCATECHUIC ACID; TRANSCRIPTION FACTOR;

ACINETOBACTER; AMINO ACID SEQUENCE; AMINO ACID SUBSTITUTION; ARTICLE; CONTROLLED STUDY; DNA SEQUENCE; GENE MUTATION; NONHUMAN; NUCLEIC ACID BASE SUBSTITUTION; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; PROTEIN DNA BINDING; PROTEIN DOMAIN; PROTEIN STRUCTURE; TRANSCRIPTION REGULATION;

ACINETOBACTER;

EID: 0031683974     PISSN: 00219193     EISSN: None     Source Type: Journal    
DOI: 10.1128/jb.180.19.5058-5069.1998     Document Type: Article

References (48)

1. Averhoff, B. A., L. A. Gregg-Jolly, D. A. Elsemore, and L. N. Ornston. 1992. Genetic analysis of supraoperonic clustering by use of natural transformation in Acinetobacter calcoaceticus. J. Bacteriol. 174:200-204.
2. Belitsky, B. R., and A. L. Sonenshein. 1997. Altered transcription activation specificity of a mutant form of Bacillus subtilis GltR, a LysR family member. J. Bacteriol. 179:1035-1043.
3. Bradford, M. M. 1976. A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding. Anal. Biochem. 72:248-254.
4. Cánovas, J. L., L. N. Ornston, and R. Y. Stanier. 1967. Evolutionary significance of metabolic control systems. Science 156:1695-1699.
5. Cebolla, A., C. Sousa, and V. de Lorenzo. 1997. Effector specificity mutants of the transcriptional activator NahR of naphthalene degrading Pseudomonas define protein sites involved in binding of aromatic inducers. J. Biol. Chem. 272:3986-3992.
6. Collier, L. S., and E. L. Neidle. 1996. Characterization of BenM, a LysR-type transcriptional activator regulating benzoate degradation in Acinetobacter calcoaceticus, abstr. K-127, p. 557. In Abstracts of the 96th General Meeting of the American Society for Microbiology 1996. American Society for Microbiology, Washington, D.C.
7. de Lorenzo, V., and J. Pérez-Martin. 1996. Regulatory noise in prokaryotic promoters: how bacteria learn to respond to novel environmental signals. Mol. Microbiol. 19:1177-1184.
8. DiMarco, A. A., B. Averhoff, and L. N. Ornston. 1993. Identification of the transcriptional activator pobR and characterization of its role in the expression of pobA, the structural gene for p-hydroxybenzoate hydroxylase in Acinetobacter calcoaceticus. J. Bacteriol. 175:4499-4506.
9. DiMarco, A. A., and L. N. Ornston. 1994. Regulation of p-hydroxybenzoate hydroxylase synthesis by PobR bound to an operator in Acinetobacter calcoaceticus. J. Bacteriol. 176:4277-4284.
10. Elsemore, D. A., and L. N. Ornston. 1994. The pca-pob supraoperonic cluster of Acinetobacter calcoaceticus contains quiA, the structural gene for quinateshikimate dehydrongenase. J. Bacteriol. 176:7659-7666.
11. Elsemore, D. A., and L. N. Ornston. 1995. Unusual ancestry of dehydratases associated with quinate catabolism in Acinetobacter calcoaceticus. J. Bacteriol. 177:5971-5978.
12. Everett, M., T. Walsh, G. Guay, and P. Bennett. 1995. GcvA, a LysR-type transcriptional regulator protein, activates expression of the cloned Citrobacter freundii ampC β-lactamase gene in Escherichia coli: cross-talk between DNA-binding proteins. Microbiology 141:419-430.
13. 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.
14. Gaines, G. L., III, L. Smith, and E. L. Neidle. 1996. Novel nuclear magnetic resonance spectroscopy methods demonstrate preferential carbon source utilization by Acinetobacter calcoaceticus. J. Bacteriol. 178:6833-6841.
15. Gerischer, U., D. A. D'Argenio, and L. N. Ornston. 1996. IS1236, a newly discovered member of the IS3 family, exhibits varied patterns of insertion into the Acinetobacter calcoaceticus chromosome. Microbiology 142:1825-1831.
16. Gerischer, U., and L. N. Ornston. 1995. Spontaneous mutations in pcaH and -G, structural genes for protocatechuate 3,4-dioxygenase in Acinetobacter calcoaceticus. J. Bacteriol. 177:1336-1347.
17. Gerischer, U., A. Segura, and L. N. Ornston. 1998. PcaU, transcriptional activator of genes for protocatechuate utilization in Acinetobacter. J. Bacteriol. 180:1512-1524.
18. Gralton, E. M., A. L. Campbell, and E. L. Neidle. 1997. Directed introduction of DNA cleavage sites to produce a high-resolution genetic and physical map of the Acinetobacter sp. strain ADP1 (BD413) chromosome. Microbiology 143:1345-1357.
19. Hanahan, D. 1983. Studies on transformation of Escherichia coli with plasmids. J. Mol. Biol. 166:557-580.
20. Henikoff, S., G. W. Haughn, J. M. Calvo, and J. C. Wallace. 1988. A large family of bacterial activator proteins. Proc. Natl. Acad. Sci. USA 85:6602-6606.
21. Hugouvieux-Cotte-Pattat, N., G. Condemine, W. Nasser, and S. Reverchon. 1996. Regulation of pectinolysis in Erwinia chrysanthemi. Annu. Rev. Microbiol. 50:213-257.
22. Juni, E., and A. Janick. 1969. Transformation of Acinetobacter calcoaceticus (Bacterium anitratum). J. Bacteriol. 98:281-288.
23. Kok, R. G., D. A. D'Argenio, and L. N. Ornston. 1997. Combining localized PCR-mutagenesis and natural transformation in direct genetic analysis of a transcriptional regulator gene, pobR. J. Bacteriol. 179:4270-4276.
24. Kok, R. G., J. J. van Thor, I. M. Nugteren-Roodzant, M. B. W. Brouwer, M. R. Egmond, C. B. Nudel, B. Vosman, and K. J. Hellingwerf. 1995. Characterization of the extracellular lipase, LipA, of Acinetobacter calcoaceticus BD413 and sequence analysis of the cloned structural gene. Mol. Microbiol. 15:803-818.
25. Kok, R. G., J. J. van Thor, I. M. Nugteren-Roodzant, B. Vosman, and K. J. Hellingwerf. 1995. Characterization of lipase-deficient mutants of Acinetobacter calcoaceticus BD413: identification of a periplasmic lipase chaperone essential for the production of extracellular lipase. J. Bacteriol. 177:3295-3307.
26. 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.
27. Leveau, J. H., and J. R. van der Meer.1996. The tfdR gene product can successfully take over the role of the insertion element-inactivated TfdT protein as a transcriptional activator of the tfdCDEF gene cluster, which encodes chlorocatechol degradation in Ralstonia eutropha JMP134(pJP4). J. Bacteriol. 178:6824-6832.
28. Nichols, N. N., and C. S. Harwood. 1995. Repression of 4-hydroxybenzoate transport and degradation by benzoate: a new layer of regulatory control in the Pseudomonas putida β-ketoadipate pathway. J. Bacteriol. 177:7033-7040.
29. Ornston, L. N., and D. Parke. 1997. The evolution of induction mechanisms in bacteria: insights derived from study of the β-ketoadipate pathway. Curr. Top. Regul. 12:209-262.
30. Pabo, C. O., and R. T. Sauer. 1992. Transcription factors: structural families and principles of DNA recognition. Annu. Rev. Biochem. 61:1053-1095.
31. Parke, D. 1997. Acquisition, reorganization, and merger of genes: novel management of the β-ketoadipate pathway in Agrobacterium tumefaciens. FEMS Microbiol. Lett. 146:3-12.
32. Parsek, M. R., S. M. McFall, D. L. Shinabarger, and A. M. Chakrabarty. 1994. Interaction of two LysR-type regulatory proteins CatR and ClcR with heterologous promoters: functional and evolutionary implications. Proc. Natl. Acad. Sci. USA 91:12393-12397.
33. 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.
34. Peeters, B. P. H., J. H. de Boer, S. Bron, and G. Venema. 1988. Structural plasmid instability in Bacillus subtilis: effect of direct and inverted repeats. Mol. Gen. Genet. 212:450-458.
35. Ramos, J. L., A. Stolz, W. Reineke, and K. N. Timmis. 1986. Altered effector specificities in regulators of gene expression: TOL plasmid xylS mutants and their use to engineer expansion of the range of aromatics degraded by bacteria. Proc. Natl. Acad. Sci. USA 83:8467-8471.
36. Ramos, J. L., A. Wasserfallen, K. Rose, and K. N. Timmis. Redesigning metabolic routes: manipulation of TOL plasmid pathway for eatabolism of alkylbenzoates. Science 235:593-596.
37. Rojo, F., D. H. Pieper, K.-H. Engesser, H.-J, Knackmuss, and K. N. Timmis. 1987. Assemblage of ortho cleavage roule for simultaneous degradation of chloro- and methylaromatics. Science 238:1395-1398.
38. Romero-Arroyo, C. E., M. A. Schell, G. L. Gaines III, and E. L. Neidle. 1995. catM encodes a LysR-type transcriptional activator regulating catechol degradation in Acinetobacter calcoaceticus. J. Bacteriol. 177:5891-5898.
39. Romero-Steiner, S., R. E. Parales, C. S. Harwood, and J. E. Houghton.1994. Characterization of the pcaR regulatory gene from Pseudomonas putida, which is required for the complete degradation of p-hydroxybenzoate. J. Bacteriol. 176:5771-5779.
40. Sambrook, J., E. F. Fritsch, and T. Maniatis. 1989. Molecular cloning: a laboratory manual. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y.
41. Schell, M. A. 1993. Molecular biology of the LysR family of transcriptional regulators. Annu. Rev. Microbiol. 47:597-626.
42. Schell, M. A., P. H. Brown, and S. Raju. 1990. Use of saturation mutagenesis to localize probable functional domains in the NahR protein, a LysR-type transcription activator. J. Biol. Chem. 265:3844-3850.
43. Smith, C. P., and K. F. Chater. 1988. Structure and regulation of controlling sequences for the Streptomyces coelicolor glycerol operon. J. Mol. Biol. 204: 569-580.
44. Stanier, R. Y. 1951. Simultaneous adaptation: a new technique for the study of metabolic pathways. J. Bacteriol. 177:339-348.
45. Sunnarborg, A., D. Klumpp, T. Chung, and D. C. LaPorte. 1990. Regulation of the glyoxylate bypass operon: cloning and characterization of iclR. J. Bacteriol. 172:2642-2649.
46. Timmis, K. N., R. J. Steffan, and R. Unterman. 1994. Designing microorganisms for the treatment of toxic wastes. Annu. Rev. Microbiol. 48:525-557.
47. Velterop, J. S., M. A. Dijkhuizen, R. van't Hof, and P. W. Postma.1995. A versatile vector for controlled expression of genes in Escherichia coli and Salmonella typhimurium. Gene 153:63-65.
48. von Lintig, J., D. Kreusch, and J. Schröder. 1994. Opine-regulated promoters and LysR-type regulators in the nopaline (noc) and octopine (occ) catabolic regions of Ti plasmids of Agrobacterium tumefaciens. J. Bacteriol. 176:495-503.