Molecular characterization of the genes pcaG and pcaH, encoding protocatechuate 3,4-dioxygenase, which are essential for vanillin catabolism in Pseudomonas sp. strain HR199

Applied and Environmental Microbiology

Volumn 65, Issue 3, 1999, Pages 951-960

  Overhage, Jörg ^a   Kresse, Andreas U ^b   Priefert, Horst ^a   Sommer, Horst ^c   Krammer, Gerhard ^c   Rabenhorst, Jürgen ^c   Steinbüchel, Alexander ^a  

^a UNIVERSITY OF MÜNSTER   (Germany)

^b HELMHOLTZ CENTRE FOR INFECTION RESEARCH   (Germany)

^c Haarmann and Reimer GmbH   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

EUGENOL; LACTONE DERIVATIVE; NITROSOGUANIDINE; OXYGENASE; PROTOCATECHUATE 3,4 DIOXYGENASE; PROTOCATECHUIC ACID; REGULATOR PROTEIN; VANILLIN;

AMINO ACID SEQUENCE; ARTICLE; CHEMICAL MUTAGENESIS; ENZYME STRUCTURE; ENZYME SUBUNIT; GENE INSERTION; GENE LIBRARY; GENE MAPPING; GENE STRUCTURE; GENETIC ANALYSIS; MICROBIAL GROWTH; MOLECULAR MODEL; NONHUMAN; NUCLEOTIDE SEQUENCE; OPEN READING FRAME; PSEUDOMONAS; PSEUDOMONAS AERUGINOSA; REACTION ANALYSIS; RHIZOBIUM RADIOBACTER; SEQUENCE HOMOLOGY; VITAMIN METABOLISM;

PSEUDOMONAS AERUGINOSA;

EID: 0033025299     PISSN: 00992240     EISSN: None     Source Type: Journal    
DOI: 10.1128/aem.65.3.951-960.1999     Document Type: Article

References (53)

1. Bibb, M. J., P. R. Findlay, and M. W. Johnson. 1984. The relationship between base composition and codon usage in bacterial genes and its use for the simple and reliable identification of protein-coding sequences. Gene 30:157-166.
2. Bullock, W. O., J. M. Fernandez, and J. M. Stuart. 1987. XL1-Blue: a high efficiency plasmid transforming recA Escherichia coli strain with beta-galactosidase selection. BioTechniques 5:376-379.
3. Chari, R. V. J., C. P. Whitman, J. W. Kozarich, K.-L. Ngai, and L. N. Omston. 1987. Absolute stereochemical course of the 3-carboxymuconate cycloisomerases from Pseudomonas putida and Acinetobacter calcoaceticus: analysis and implications. J. Am. Chem. Soc. 109:5514-5519.
4. Chen, C. L., H. M. Chang, and T. Kirk. 1982. Aromatic acids produced during degradation of lignin in spruce wood by Phanerochaete chrysosporium. Holzforschung 36:3-9.
5. Darrah, A., and R. B. Cain. 1969. A convenient biological method for preparing β-ketoadipic acid. LABP 16:989-996.
6. Devereux, J., P. Haeberli, and O. Smithies. 1984. A comprehensive set of sequence analysis programs for the VAX. Nucleic Acids Res. 12:387-395.
7. DiMarco, A. A., B. Averhoff, E. E. Kim, and L. N. Ornston. 1993. Evolutionary divergence of pobA, the structural gene encoding p-hydroxybenzoate hydroxylase in an Acinetobacter calcoaceticus strain, well-suited for genetic analysis. Gene 125:25-33.
8. DiMarco, A. A., B. Averhoff, and L. N. Ornston. 1993. Identification of the transcriptional activator pobR and characterization of ist role in the expression of pobA, the structural gene for p-hydroxybenzoate hydroxylase in Acinetobacter calcoaceticus. J. Bacteriol. 175:4499-4506.
9. Entsch, B., Y. Nan, K. Weaich, and K. F. Scott. 1988. Sequence and organization of pobA, the gene coding for p-hydroxybenzoate hydroxylase, an inducible enzyme from Pseudomonas aeruginosa. Gene 71:279-291.
10. Entsch, B., L. Squire, and R. E. Wicks. Unpublished results.
11. Frazee, R. W., D. M. Livingston, D. C. LaPorte, and J. D. Lipscomb. 1993. Cloning, sequencing, and expression of the Pseudomonas putida protocatechuate 3,4-dioxygenase genes. J. Bacteriol. 175:6194-6202.
12. Friedrich, B., C. Hogrefe, and H. G. Schlegel. 1981. Naturally occurring genetic transfer of hydrogen-oxidizing ability between strains of Alcaligenes eutrophus. J. Bacteriol. 147:198-205.
13. Fujisawa, H., and O. Hayaishi. 1968. Protocatechuate 3,4-dioxygenase: crystallization and characterization. J. Biol. Chem. 243:2673-2681.
14. Gallegos, M.-T., C. Michán, and J. L. Ramos. 1993. The XylS/AraC family of regulators. Nucleic Acids Res. 21:807-810.
15. Goss, T. J., and P. Datta. 1985. Molecular cloning and expression of the biodegradative threonine dehydratase gene (tdc) of Escherichia coli K12. Mol. Gen. Genet. 201:308-314.
16. Hagedorn, S., and B. Kaphammer. 1994. Microbial biocatalysis in the generation of flavor and fragrance chemicals. Annu. Rev. Microbiol. 48:773-800.
17. Hanahan, D. 1983. Studies on transformation of Escherichia coli with plasmids. J. Mol. Biol. 166:557-580.
18. Hartnett, C., E. L. Neidle, K.-L. Ngai, and L. N. Ornston. 1990. DNA sequences of genes encoding Acinetobacter calcoaceticus protocatechuate 3,4-dioxygenase: evidence indicating shuffling of genes and of DNA sequences within genes during their evolutionary divergence. J. Bacteriol. 172:956-966.
19. Helin, S., P. C. Kahn, B. L. Guha, D. G. Mallows, and A. Goldman. 1995. The refined X-ray structure of muconate lactonizing enzyme from Pseudomonas putida PRS2000 at 1.85 Å resolution. J. Mol. Biol. 254:918-941.
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. Kirby, G. W., G. J. O'Loughlin, and D. J. Robins. 1975. The stereochemistry of the enzymic cyclisation of 3-carboxymuconic acid to 3-carboxymuconolactone. J. Chem. Soc. Chem. Commun. 1975:402-403.
22. Knauf, V. C., and E. W. Nesler. 1982. Wide host range cloning vectors: a cosmid clone bank of an Agrobacterium Ti plasmid. Plasmid 8:45-54.
23. Laemmli, U. K. 1970. Cleavage of structural proteins during the assembly of the head of bacteriophage T4. Nature (London) 227:680-685.
24. Lowry, O. H., N. J. Rosebrough, A. L. Farr, and R. J. Randall. 1951. Protein measurement with the Folin phenol reagent. J. Biol. Chem. 193:265-275.
25. Mazur, P., W. J. Henzel, S. Mattoo, and J. W. Kozarich. 1994. 3-Carboxycis,cis-muconate lactonizing enzyme from Neurospora crassa: an alternate cycloisomerase motif. J. Bacteriol. 176:1718-1728.
26. Ono, K., M. Nozaki, and O. Hayaishi. 1970. Purification and some properties of protocatechuate 4,5-dioxygenase. Biochim. Biophys. Acta 220:224-238.
27. Parke, D. 1996. Characterization of PcaQ, a LysR-type transcriptional activator required for catabolism of phenolic compounds, from Agrobacterium tumefaciens. J. Bacteriol. 178:266-272.
28. 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.
29. Priefert, H., J. Rabenhorst, and A. Steinbüchel. 1997. Molecular characterization of genes of Pseudomonas sp. strain HR199 involved in bioconversion of vanillin to protocatechuate. J. Bacteriol. 179:2595-2607.
30. Priefert, H., S. Hein, N. Krüger, K. Zeh, B. Schmidt, and A. Steinbüchel. 1991. Identification and molecular characterization of the Alcaligenes eutrophus H16 aco operon genes involved in acetoin catabolism. J. Bacteriol. 173:4056-4071.
31. Pries, A., H. Priefert, N. Krüger, and A. Steinbüchel. 1991. Identification and characterization of two Alcaligenes eutrophus gene loci relevant to the poly(β-hydroxybutyric acid)-leaky phenotype which exhibit homology to ptsH and ptsl of Escherichia coli. J. Bacteriol. 173:5843-5853.
32. Prieto, M. A., and J. L. Garcia. 1994. Molecular characterization of 4-hydroxy-phenylacetate 3-hydroxylase of Escherichia coli. A two-protein component enzyme. J. Biol. Chem. 269:22823-22829.
33. Rabenhorst, J. 1996. Production of methoxyphenol type natural aroma chemicals by biotransformation of eugenol with a new Pseudomonas sp. Appl. Microbiol. Biotechnol. 46:470-474.
34. 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.
35. Schlegel, H. G., H. Kaltwasser, and G. Gottschalk. 1961. Ein Submersverfahren zur Kultur wasserstoffoxidierender Bakterien: Wachstumsphysiologische Untersuchungen. Arch. Mikrobiol. 38:209-222.
36. Seibold, B., M. Matthes, M. H. M. Eppink, F. Lingens, W. J. H. Van Berkel, and R. Müller, 1996. 4-hydroxybenzoate hydroxylase from Pseudomonas sp. CBS3. Purification, characterization, gene cloning, sequence analysis and assignment of structural features determining the coenzyme specificity. Eur. J. Biochem. 239:469-478.
37. Sherman, D. R., P. J. Sabo, M. J. Hickey, T. M. Arain, G. G. Mahairas, Y. Yuan, C. E. Barry, and C. K. Stover. 1995. Disparate responses to oxidative stress in saprophytic and pathogenic mycobacteria. Proc. Natl. Acad. Sci. USA 92:6625-6629.
38. Shiotsu, Y., M. Samejima, N. Habu, and T. Yoshimoto. 1989. Enzymatic conversion of stilbenes from the inner back of Picea glehnii into aromatic aldehydes. Mukuzai Gakkaishi 35:826-831.
39. Simon, R., V. Priefer, and A. Pühler. 1983. A broad host range mobilization system for in vivo genetic engineering: transposon motagenesis in gram-negative bacteria. Bio/Technology 1:784-791.
40. Spaink, H. P., R. J. H. Okker, C. A. Wijffelman, E. Pees, and J. J. Lugtenberg. 1987. Promoters in the nodulation region of the Rhizobium leguminosarum Sym plasmid pRL1JI. Plant Mol. Biol. 9:27-39.
41. Strauss, E. C., J. A. Kobori, G. Siu, and L. E. Hood. 1986. Specific-primer-directed DNA sequencing. Anal. Biochem. 154:353-360.
42. Sung, Y.-C., and J. A. Fuchs. 1992. The Escherichia coli K-12 cyn operon is positively regulated by a member of the LysR family. J. Bacteriol. 174:3645-3650.
43. Tadasa, K., and H. Kayahara. 1983. Initial steps of eugenol degradation pathway of a microorganism. Agric. Biol. Chem. 47:2639-2640.
44. Tinoco, I., P. N. Borer, B. Dengler, M. D. Levine, O. C. Uhlenbeck, D. M. Crothers, and J. Gralla. 1973. Improved estimation of secondary structure in ribonucleic acids. Nat. (London) New Biol. 246:40-41.
45. Toms, A., and J. M. Wood. 1970. The degradation of trans-ferulic acid by Pseudomonas acidovorans. Biochemistry 9:337-343.
46. van Berkel, W., A. Westphal, K. Eschrich, M. Eppink, and A. DeKok. 1992. Substitution of Arg 214 at the substrate-binding site of p-hydroxybenzoate hydroxylase from Pseudomonas fluorescens. Eur. J. Biochem. 210:411-419.
47. Viale, A. M., H. Kobayashi, T. Akazawa, and S. Henikoff. 1991. rcbR, a gene coding for a member of the LysR family of transcriptional regulators, is located upstream of the expressed set of ribulose 1,5-bisphosphate carboxylase/oxygenase genes in the photosynthetic bacterium Chromatium vinosum. J. Bacteriol. 173:5224-5229.
48. Wallace, R. G., N. Lee, and A. V. Fowler. 1980. The araC gene of Escherichia coli: transcriptional and translational start-points and complete nucleotide sequence. Gene 12:179-190.
49. Wilbur, W. J., and D. J. Lipman. 1983. Rapid similarity searches of nucleic acid and protein data hanks. Proc. Natl. Acad. Sci. USA 80:726-730.
50. Williams, S. E., E. M. Woolridge, S. C. Ransom, J. A. Landro, P. C. Babbitt, and J. W. Kozarich. 1992. 3-Carboxy-cis,cis-muconate lactonizing enzyme from Pseudomonas putida is homologous to the class II fumarase family: a new reaction in the evolution of a mechanistic motif. Biochemistry 31:9768-9776.
51. Wolgel, S. A., and J. D. Lipscomb. 1990. Protocatechuate 2,3-dioxygenase from Bacillus macerans. Methods Enzymol. 188:95-101.
52. Wong, C. M., M. J. Dilworth, and A. R. Glenn. 4-Hydroxybenzoate hydroxylase (probA) is positively regulated bypobR in Rhizobium leguminosarium bv. viciael. Submitted for publication.
53. Zylstra, G. J., R. H. Olsen, and D. P. Ballou. 1989. Genetic organization and sequence of the Pseudomonas cepacia genes for the α and β subunits of protocatechuate 3,4-dioxygenase. J. Bacteriol. 171:5915-5921.