Characterization of the pyoluteorin biosynthetic gene cluster of Pseudomonas fluorescens Pf-5

Journal of Bacteriology

Volumn 181, Issue 7, 1999, Pages 2166-2174

  Nowak Thompson, Brian ^a,b,d   Chaney, Nancy ^a   Wing, Jenny S ^a   Gould, Steven J ^b,e   Loper, Joyce E ^a,c  

^a AGRICULTURAL RESEARCH SERVICE   (United States)

^b OREGON STATE UNIVERSITY   (United States)

^c HORTICULTURAL CROPS RESEARCH LABORATORY   (United States)

^d JEALOTT S HILL RESEARCH STATION   (United Kingdom)

^e MERCK RESEARCH LABORATORIES   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

KANAMYCIN; PYOLUTEORIN; PYRROLE DERIVATIVE; RESORCINOL; UNCLASSIFIED DRUG;

AMINO ACID SEQUENCE; ANTIFUNGAL ACTIVITY; ARTICLE; BIOSYNTHESIS; ENZYME ACTIVITY; GENE CLUSTER; GENE EXPRESSION; GENE FUSION; GENE SEQUENCE; GENETIC TRANSCRIPTION; GENOME; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; PSEUDOMONAS FLUORESCENS; REPORTER GENE;

NEGIBACTERIA; PROKARYOTA; PSEUDOMONAS; PSEUDOMONAS FLUORESCENS; PSEUDOMONAS FLUORESCENS PF-5;

EID: 0032936731     PISSN: 00219193     EISSN: None     Source Type: Journal    
DOI: 10.1128/jb.181.7.2166-2174.1999     Document Type: Article

References (62)

1. Adams, E., and L. Frank. 1980. Metabolism of proline and the hydroxyprolines. Annu. Rev. Biochem. 49:1005-1061.
2. Altschul, S. F., W. Gish, W. Miller, E. W. Meyers, and D. J. Lipman. 1990. Basic local alignment search tool. J. Mol. Biol. 215:403-410.
3. Ausubel, F., R. Brent, R. E. Kingston, D. D. Moore, J. G. Seidman, J. A. Smith, and K. Struhl. 1989. Current protocols in molecular biology. John Wiley & Sons, Inc., New York, N.Y.
4. Bangera, M. G., and L. S. Thomashow. Personal communication.
5. Bibb, M. Personal communication.
6. Bott, M., M. Meyer, and P. Dimroth. 1995. Regulation of anaerobic citrate metabolism in Klebsiella pneumoniae. Mol. Microbiol. 18:533-546.
7. Cooper, C. L., S. G. Boyce, and D. R. Lueking. 1987. Purification and characterization of Rhodobacter sphaeroides acyl carrier protein. Biochemistry 26:2740-2746.
8. S. Corbell, N. Personal communication.
9. Corbell, N., and J. Loper. 1995. A global regulator of secondary metabolite production in Pseudomonas fluorescens Pf-5. J. Bacteriol. 177:6230-6236.
10. 2] acetate incorporation. Z. Naturforsch. Sect. C. 41:532-536.
11. Dairi, T., T. Nakano, K. Aisaka, R. Katsumata, and M. Hasegawa. 1995. Cloning and nucleotide sequence of the gene responsible for chlorination of tetracycline. Biosci. Biotechnol. Biochem. 59:1099-1106.
12. de Crecy-Lagard, V., V. Blanc, P. Gil, L. Naudin, S. Lorenzon, A. Famechon, N. Bamas-Jacques, J. Crouzet, and D. Thibaut. 1997. Pristinamycin I biosynthesis in Streptomyces pristinaespiralis: molecular characterization of the first two structural peptide synthetase genes. J. Bacteriol. 179:705-713.
13. Djordjesvic, S., Y. Dong, R. Paschke, F. E. Frerman, A. W. Strauss, and J. J. P. Kim. 1994. Identification of the catalytic base in long chain acyl-CoA dehydrogenase. Biochemistry 33:4258-4264.
14. Djordjesvic, S., C. P. Pace, M. T. Stankovich, and J. J. P. Kim. 1995. Three-dimensional structure of butyryl-CoA dehydrogenase from Megasphaera elsdenii. Biochemistry 34:2163-2171.
15. Dodd, I. B., and J. B. Egan. 1990. Improved detection of helix-turn-helix DNA-binding motifs in protein sequences. Nucleic Acids Res. 18:5019-5026.
16. Dowling, D. N., and F. O'Gara. 1994. Metabolites of Pseudomonas involved in the biocontrol of plant disease. Trends Biotechnol. 12:133-144.
17. Ebrigbt, R. H. 1986. Proposed amino acid-base pair contacts for 13 sequence-specific DNA binding proteins, p. 207-219. In D. L. Oxender (ed.), Protein structure, folding, and design, Alan R. Liss, Inc., New York, N.Y.
18. Gaffney, T. D., S. T. Lam, J. Ligon, K. Gates, A. Frazelle, J. Di Maio, S. Hill, S. Goodwin, N. Torkewitz, A. M. Allshouse, H.-J. Kempf, and J. O. Becker. 1994. Global regulation of expression of antifungal factors by a Pseudomonas fluorescent biological control strain. Mol. Plant-Microbe Interact. 7:455-463.
19. Genetics Computer Group. 1994. Sequence analysis software package, version 8.0. University of Wisconsin Genetics Computer Group, Madison.
20. Hammer, P. E., D. S. Hill, S. T. Lam, K.-H. van Pee, and J. M. Ligon. 1997. Four genes from Pseudomonas fluorescens that encode the biosynthesis of pyrrolnitrin. Appl. Environ. Microbiol. 63:2147-2154.
21. Hamood, A. N., J. A. Colmer, U. A. Ochsner, and M. L. Vasil. 1996. Isolation and characterization of a Pseudomonas aeruginosa gene, ptxR, which positively regulates exotoxin A production. Mol. Microbiol. 21:97-110.
22. Helix-turn-helix, version 1.0.5. January 1994. posting date. [Online.] www.ebi .ac.uk/software/emblmac.html as file hth.hqx.
23. 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.
24. Hohaus, K., A. Altmann, W. Burd, I. Fischer, P. E. Hammer, D. S. Hill, J. M. Ligon, and K.-H. van Pée. 1997. NADH-dependent halogenases are more likely to be involved in halometabolite biosynthesis than haloperoxidases. Angew. Chem. Int. Ed. English 36:2012-2013.
25. Hopwood, D., and S. Sherman. 1990. Molecular genetics of polyketides and its comparison to fatty acid biosynthesis. Annu. Rev. Genet. 24:37-66.
26. Howell, C. R., and R. D. Stipanovic. 1980. Suppression of Pythium ultimum-induced damping-off of cotton seedlings by Pseudomonas fluorescens and its antibiotic, pyolutcorin. Phytopathology 70:712-715.
27. Jordan, P. M. 1994. Highlights in haem biosynthesis. Curr. Opin. Struct. Biol. 4:902-911.
28. Keen, N. T., S. Tamaki, D. Kobayashi, and D. Trollinger. 1988. Improved broad-host-range plasmids for DNA cloning in Gram-negative bacteria. Gene 70:191-197.
29. King, E. O., M. K. Ward, and D. E. Raney. 1954. Two simple media for the demonstration of pyocyanin and fluorescin. J. Lab. Clin. Med. 44:301-307.
30. Kirner, S., P. E. Hammer, D. S. Hill, A. Altmann, I. Fischer, L. J. Weislo, M. Lanahan, K.-H. van Pée, and J. M. Ligon. 1998. Functions encoded by pyrrolnitrin biosynthetic genes from Pseudomonas fluorescens. J. Bacteriol. 180:1939-1943.
31. Kraus, J., and J. Loper. 1995. Characterization of a genomic region required for production of the antibiotic pyoluteorin by the biological control agent Pseudomonas fluorescens Pf-5. Appl. Environ. Microbiol. 61:849-854.
32. Laville, J., C. Voisard, C. Keel, M. Maurhofer, G. DeFago, and D. Haas. 1992. Global control in Pseudomonas fluorescens mediating antibiotic synthesis and suppression of black root rot of tobacco. Proc. Natl. Acad. Sci. USA 89:1562-1566.
33. Lee, H. J. K., M. Wang, R. Paschke, A. Nandy, S. Ghisla, and J. J. P. Kim. 1996. Crystal structures of the wild type and the Glu376Gly/Thr255Glu mutant of human medium-chain acyl-CoA dehydrogenase: influence of the location of the catalytic base on substrate specificity. Biochemistry 35:12412-12420.
34. Lindgren, P. B., R. Frederick, A. G. Govindarajan, N. J. Panopoulos, B. J. Staskawicz, and S. E. Lindow. 1989. An ice nucleation reporter gene system: identification of inducible pathogenicity genes in Pseudomonas syringae pv. phaseolicola. EMBO J. 8:1291-1301.
35. Loper, J. E., and S. E. Lindow. 1997. Reporter gene systems useful in evaluating in situ gene expression by soil and plant-associated bacteria, p. 482-492. In C. J. Hurst, G. R. Knudsen, M. J. McInerney, L. D. Stetzenbach, and M. V. Walter (ed.), Manual of environmental microbiology. ASM Press, Washington, D.C.
36. Mohsen, A.-W. A., and J. Vockley. 1995. Identification of the active site catalytic residue in human isovaleryl-CoA dehydrogenase. Biochemistry 34: 10146-10152.
37. Murillo, J., H. Shen, D. Gerhold, A. Sharma, D. A. Cooksey, and N. T. Keen. 1994. Characterization of pPT23b, the plasmid involved in syringolide production by Pseudomonas syringae pv. tomato PT23. Plasmid 31:275-287.
38. Nandy, A., V. Kieweg, F. G. Krautle, P. Vock, B. Kuchler, P. Bross, J. J. P. Kim, I. Rasched, and S. Ghisla. 1996. Medium-long-chain chimeric human acyl-CoA dehydrogenase: medium-chain enzyme with the active center base arrangement of long-chain acyl-CoA dehydrogenase. Biochemistry 35: 12402-12411.
39. Neidelman, S., and J. Geigert. 1987. Biological halogenation: roles in nature, potential in industry. Endeavour 11:5-15.
40. Nowak-Thompson, B. 1997. Ph.D. thesis. Oregon State University, Corvallis.
41. Nowak-Thompson, B., S. J. Gould, and J. E. Loper. 1997. Identification and structural analysis of the genes encoding the polyketide synthase required for pyoluteorin biosynthesis in Pseudomonas fluorescens Pf-5. Gene 204:17-24.
42. Pierson, L. S., D. W. Wood, E. A. Pierson, and S. T. Chancey. 1998. N-Acyl-homoscrine lactone-mediated gene regulation in biological control by fluorescent pseudomonads: current knowledge and future work. Eur. J. Plant Pathol. 104:1-9.
43. Pfeifer, E., M. Pavela-Vrancic, H. von Dohren, and H. Kleinkauf. 1995. Characterization of tyrocidine synthase 1 (TY1): requirement of posttranslational modification for peptide biosynthesis. Biochemistry 34:7450-7459.
44. Roitman, J. N., N. E. Mahoney, and W. J. Janisiewicz. 1990. Production and composition of phenylpyrrole metabolites produced by Pseudomonas cepacia. Appl. Microbiol. Biotechnol. 34:381-386.
45. 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.
46. Sanger, F., S. Nicklen, and A. R. Coulson. 1977. DNA sequencing with chain-terminating inhibitors. Proc. Natl. Acad. Sci. USA 74:5463-5467.
47. S affects antibiotic production and biological control activity of Pseudomonas fluorescens Pf-5. Proc. Natl. Acad. Sci. USA 92: 12255-12259.
48. Schell, M. 1993. Molecular biology of the LysR family of transcriptional regulators. Annu. Rev. Microbiol. 47:597-626.
49. Schlaman, H. R. M., R. J. H. Okker, and B. J. J. Lugtenberg. 1992. Regulation of nodulation gene expression by NodD in rhizobia. J. Bacteriol. 174:5177-5182.
50. Scrutton, N. S., A. Berry, and R. N. Perham. 1990. Redesign of the coenzyme specificity of a dehydrogenase by protein engineering. Nature (London). 343:38-43.
51. Simon, R., U. Priefer, and A. Pühler. 1983. A broad host range mobilization system for in vivo genetic engineering: transposon mutagenesis in Gramnegative bacteria. Bio/Technology 1:784-791.
52. Staskawicz, B. J., D. Dahlbeck N. Keen, and C. Napoli. 1987. Molecular characterization of cloned avirulence genes from Race 0 and Race 1 of Pseudomonas syringae pv. glycinea. J. Bacteriol. 169:5789-5794.
53. 237 in catalysis of thioesterase II and of the C-terminal region of the enzyme in its interaction with fatty acid synthase. Proc. Natl. Acad. Sci. USA 90:1852-1856.
54. Tawfiq Alkafaf, N. K., K. H. Yeoman, M. Wexler, H. Hussain, and A. W. Johnston. 1997. Analysis of a Rhizobium leguminosarum gene encoding a protein homologous to glutathione S. transferases. Microbiology 143:813-822.
55. Thomashow, L., and D. Weller. 1995. Current concepts in the use of introduced bacteria for biological control: mechanisms and antifungal metabolites, p. 187-235. In G. Stacey and N. T. Keen (ed.), Plant-microbe interactions, vol. I. Chapman & Hall, New York, N.Y.
56. Tokita, K., K. Hori, T. Kurotsu, M. Kanda, and Y. Saito. 1993. Effect of single base substitutions at glycine-870 codon of gramicidin S synthase gene on proline activation. J. Biochem. 114:522-527.
57. van Pee, K.-H. 1996. Biosynthesis of halogenated metabolites by bacteria. Annu. Rev. Microbiol. 50:375-399.
58. 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.
59. Vieira, J., and J. Messing. 1982. The pUC plasmids, an M13m7-derived system for insertion mutagenesis and sequencing with synthetic universal primers. Gene 19:259-268.
60. Voisard, C., C. T. Bull, C. Keel, J. Laville, M. Maurhofer, U. Schnider, G. Defago, and D. Haas. 1994. Biocontrol of root diseases by Pseudomonas fluorescens CHA0: current concepts and experimental approaches, p. 67-89. In F. O'Gara, D. N. Dowling, and B. Boesten (ed.), Molecular biology of rhizosphere microorganisms. VCH Publishers, Weinheim, Germany.
61. West, S. E. H., and B. H. Iglewski. 1988. Codon usage in Pseudomonas aeruginosa. Nucleic Acids Res. 14:9323-9335.
62. Witkowski, A., J. Naggert, H. E. Witkowska, Z. I. Randhawa, and S. Smith. 1992. Utilization of an active serine 101-cysteine mutant to demonstrate the proximity of the catalytic serine 101 and histidine 237 residues in the thioesterase II. J. Biol. Chem. 267:18488-18492.