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. 1995 Nov;61(11):3856–3864. doi: 10.1128/aem.61.11.3856-3864.1995

Tn5-directed cloning of pqq genes from Pseudomonas fluorescens CHA0: mutational inactivation of the genes results in overproduction of the antibiotic pyoluteorin.

U Schnider 1, C Keel 1, C Voisard 1, G Défago 1, D Haas 1
PMCID: PMC167690  PMID: 8526497

Abstract

Pseudomonas fluorescens CHA0 produces several secondary metabolites, e.g., the antibiotics pyoluteorin (Plt) and 2,4-diacetylphloroglucinol (Phl), which are important for the suppression of root diseases caused by soil-borne fungal pathogens. A Tn5 insertion mutant of strain CHA0, CHA625, does not produce Phl, shows enhanced Plt production on malt agar, and has lost part of the ability to suppress black root rot in tobacco plants and take-all in wheat. We used a rapid, two-step cloning-out procedure for isolating the wild-type genes corresponding to those inactivated by the Tn5 insertion in strain CHA625. This cloning method should be widely applicable to bacterial genes tagged with Tn5. The region cloned from P. fluorescens contained three complete open reading frames. The deduced gene products, designated PqqFAB, showed extensive similarities to proteins involved in the biosynthesis of pyrroloquinoline quinone (PQQ) in Klebsiella pneumoniae, Acinetobacter calcoaceticus, and Methylobacterium extorquens. PQQ-negative mutants of strain CHA0 were constructed by gene replacement. They lacked glucose dehydrogenase activity, could not utilize ethanol as a carbon source, and showed a strongly enhanced production of Plt on malt agar. These effects were all reversed by complementation with pqq+ recombinant plasmids. The growth of a pqqF mutant on ethanol and normal Plt production were restored by the addition of 16 nM PQQ. However, the Phl- phenotype of strain CHA625 was due not to the pqq defect but presumably to a secondary mutation. In conclusion, a lack of PQQ markedly stimulates the production of Plt in P. fluorescens.

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Selected References

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  1. Affholter J. A., Fried V. A., Roth R. A. Human insulin-degrading enzyme shares structural and functional homologies with E. coli protease III. Science. 1988 Dec 9;242(4884):1415–1418. doi: 10.1126/science.3059494. [DOI] [PubMed] [Google Scholar]
  2. Becker A. B., Roth R. A. An unusual active site identified in a family of zinc metalloendopeptidases. Proc Natl Acad Sci U S A. 1992 May 1;89(9):3835–3839. doi: 10.1073/pnas.89.9.3835. [DOI] [PMC free article] [PubMed] [Google Scholar]
  3. Bibb M. J., Findlay P. R., Johnson M. W. 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. 1984 Oct;30(1-3):157–166. doi: 10.1016/0378-1119(84)90116-1. [DOI] [PubMed] [Google Scholar]
  4. Biville F., Turlin E., Gasser F. Mutants of Escherichia coli producing pyrroloquinoline quinone. J Gen Microbiol. 1991 Aug;137(8):1775–1782. doi: 10.1099/00221287-137-8-1775. [DOI] [PubMed] [Google Scholar]
  5. Del Sal G., Manfioletti G., Schneider C. A one-tube plasmid DNA mini-preparation suitable for sequencing. Nucleic Acids Res. 1988 Oct 25;16(20):9878–9878. doi: 10.1093/nar/16.20.9878. [DOI] [PMC free article] [PubMed] [Google Scholar]
  6. Fellay R., Frey J., Krisch H. Interposon mutagenesis of soil and water bacteria: a family of DNA fragments designed for in vitro insertional mutagenesis of gram-negative bacteria. Gene. 1987;52(2-3):147–154. doi: 10.1016/0378-1119(87)90041-2. [DOI] [PubMed] [Google Scholar]
  7. Finch P. W., Wilson R. E., Brown K., Hickson I. D., Emmerson P. T. Complete nucleotide sequence of the Escherichia coli ptr gene encoding protease III. Nucleic Acids Res. 1986 Oct 10;14(19):7695–7703. doi: 10.1093/nar/14.19.7695. [DOI] [PMC free article] [PubMed] [Google Scholar]
  8. Fürste J. P., Pansegrau W., Frank R., Blöcker H., Scholz P., Bagdasarian M., Lanka E. Molecular cloning of the plasmid RP4 primase region in a multi-host-range tacP expression vector. Gene. 1986;48(1):119–131. doi: 10.1016/0378-1119(86)90358-6. [DOI] [PubMed] [Google Scholar]
  9. Gamper M., Ganter B., Polito M. R., Haas D. RNA processing modulates the expression of the arcDABC operon in Pseudomonas aeruginosa. J Mol Biol. 1992 Aug 20;226(4):943–957. doi: 10.1016/0022-2836(92)91044-p. [DOI] [PubMed] [Google Scholar]
  10. Goosen N., Horsman H. P., Huinen R. G., van de Putte P. Acinetobacter calcoaceticus genes involved in biosynthesis of the coenzyme pyrrolo-quinoline-quinone: nucleotide sequence and expression in Escherichia coli K-12. J Bacteriol. 1989 Jan;171(1):447–455. doi: 10.1128/jb.171.1.447-455.1989. [DOI] [PMC free article] [PubMed] [Google Scholar]
  11. Goosen N., Huinen R. G., van de Putte P. A 24-amino-acid polypeptide is essential for the biosynthesis of the coenzyme pyrrolo-quinoline-quinone. J Bacteriol. 1992 Feb;174(4):1426–1427. doi: 10.1128/jb.174.4.1426-1427.1992. [DOI] [PMC free article] [PubMed] [Google Scholar]
  12. James D. W., Jr, Gutterson N. I. Multiple antibiotics produced by Pseudomonas fluorescens HV37a and their differential regulation by glucose. Appl Environ Microbiol. 1986 Nov;52(5):1183–1189. doi: 10.1128/aem.52.5.1183-1189.1986. [DOI] [PMC free article] [PubMed] [Google Scholar]
  13. KING E. O., WARD M. K., RANEY D. E. Two simple media for the demonstration of pyocyanin and fluorescin. J Lab Clin Med. 1954 Aug;44(2):301–307. [PubMed] [Google Scholar]
  14. Klinman J. P., Mu D. Quinoenzymes in biology. Annu Rev Biochem. 1994;63:299–344. doi: 10.1146/annurev.bi.63.070194.001503. [DOI] [PubMed] [Google Scholar]
  15. Knauf V. C., Nester E. W. Wide host range cloning vectors: a cosmid clone bank of an Agrobacterium Ti plasmid. Plasmid. 1982 Jul;8(1):45–54. doi: 10.1016/0147-619x(82)90040-3. [DOI] [PubMed] [Google Scholar]
  16. Kraus J., Loper J. E. Characterization of a Genomic Region Required for Production of the Antibiotic Pyoluteorin by the Biological Control Agent Pseudomonas fluorescens Pf-5. Appl Environ Microbiol. 1995 Mar;61(3):849–854. doi: 10.1128/aem.61.3.849-854.1995. [DOI] [PMC free article] [PubMed] [Google Scholar]
  17. Laville J., Voisard C., Keel C., Maurhofer M., Défago G., Haas D. Global control in Pseudomonas fluorescens mediating antibiotic synthesis and suppression of black root rot of tobacco. Proc Natl Acad Sci U S A. 1992 Mar 1;89(5):1562–1566. doi: 10.1073/pnas.89.5.1562. [DOI] [PMC free article] [PubMed] [Google Scholar]
  18. Lessie T. G., Phibbs P. V., Jr Alternative pathways of carbohydrate utilization in pseudomonads. Annu Rev Microbiol. 1984;38:359–388. doi: 10.1146/annurev.mi.38.100184.002043. [DOI] [PubMed] [Google Scholar]
  19. Matsushita K., Ameyama M. D-Glucose dehydrogenase from Pseudomonas fluorescens, membrane-bound. Methods Enzymol. 1982;89(Pt 500):149–154. doi: 10.1016/s0076-6879(82)89026-5. [DOI] [PubMed] [Google Scholar]
  20. Meulenberg J. J., Sellink E., Riegman N. H., Postma P. W. Nucleotide sequence and structure of the Klebsiella pneumoniae pqq operon. Mol Gen Genet. 1992 Mar;232(2):284–294. doi: 10.1007/BF00280008. [DOI] [PubMed] [Google Scholar]
  21. Meynell E., Datta N. Mutant drug resistant factors of high transmissibility. Nature. 1967 May 27;214(5091):885–887. doi: 10.1038/214885a0. [DOI] [PubMed] [Google Scholar]
  22. Morris C. J., Biville F., Turlin E., Lee E., Ellermann K., Fan W. H., Ramamoorthi R., Springer A. L., Lidstrom M. E. Isolation, phenotypic characterization, and complementation analysis of mutants of Methylobacterium extorquens AM1 unable to synthesize pyrroloquinoline quinone and sequences of pqqD, pqqG, and pqqC. J Bacteriol. 1994 Mar;176(6):1746–1755. doi: 10.1128/jb.176.6.1746-1755.1994. [DOI] [PMC free article] [PubMed] [Google Scholar]
  23. Murray N. E., Brammar W. J., Murray K. Lambdoid phages that simplify the recovery of in vitro recombinants. Mol Gen Genet. 1977 Jan 7;150(1):53–61. doi: 10.1007/BF02425325. [DOI] [PubMed] [Google Scholar]
  24. Norrander J., Kempe T., Messing J. Construction of improved M13 vectors using oligodeoxynucleotide-directed mutagenesis. Gene. 1983 Dec;26(1):101–106. doi: 10.1016/0378-1119(83)90040-9. [DOI] [PubMed] [Google Scholar]
  25. Pierson L. S., 3rd, Thomashow L. S. Cloning and heterologous expression of the phenazine biosynthetic locus from Pseudomonas aureofaciens 30-84. Mol Plant Microbe Interact. 1992 Jul-Aug;5(4):330–339. doi: 10.1094/mpmi-5-330. [DOI] [PubMed] [Google Scholar]
  26. Rawlings N. D., Barrett A. J. Homologues of insulinase, a new superfamily of metalloendopeptidases. Biochem J. 1991 Apr 15;275(Pt 2):389–391. doi: 10.1042/bj2750389. [DOI] [PMC free article] [PubMed] [Google Scholar]
  27. Reimmann C., Rella M., Haas D. Integration of replication-defective R68.45-like plasmids into the Pseudomonas aeruginosa chromosome. J Gen Microbiol. 1988 Jun;134(6):1515–1523. doi: 10.1099/00221287-134-6-1515. [DOI] [PubMed] [Google Scholar]
  28. Rich J. J., Willis D. K. A single oligonucleotide can be used to rapidly isolate DNA sequences flanking a transposon Tn5 insertion by the polymerase chain reaction. Nucleic Acids Res. 1990 Nov 25;18(22):6673–6676. doi: 10.1093/nar/18.22.6673. [DOI] [PMC free article] [PubMed] [Google Scholar]
  29. Sacherer P., Défago G., Haas D. Extracellular protease and phospholipase C are controlled by the global regulatory gene gacA in the biocontrol strain Pseudomonas fluorescens CHA0. FEMS Microbiol Lett. 1994 Feb 15;116(2):155–160. doi: 10.1111/j.1574-6968.1994.tb06694.x. [DOI] [PubMed] [Google Scholar]
  30. Schnider U., Keel C., Blumer C., Troxler J., Défago G., Haas D. Amplification of the housekeeping sigma factor in Pseudomonas fluorescens CHA0 enhances antibiotic production and improves biocontrol abilities. J Bacteriol. 1995 Sep;177(18):5387–5392. doi: 10.1128/jb.177.18.5387-5392.1995. [DOI] [PMC free article] [PubMed] [Google Scholar]
  31. Shanahan P., O'sullivan D. J., Simpson P., Glennon J. D., O'gara F. Isolation of 2,4-diacetylphloroglucinol from a fluorescent pseudomonad and investigation of physiological parameters influencing its production. Appl Environ Microbiol. 1992 Jan;58(1):353–358. doi: 10.1128/aem.58.1.353-358.1992. [DOI] [PMC free article] [PubMed] [Google Scholar]
  32. Short J. M., Fernandez J. M., Sorge J. A., Huse W. D. Lambda ZAP: a bacteriophage lambda expression vector with in vivo excision properties. Nucleic Acids Res. 1988 Aug 11;16(15):7583–7600. doi: 10.1093/nar/16.15.7583. [DOI] [PMC free article] [PubMed] [Google Scholar]
  33. Stanisich V. A., Holloway B. W. A mutant sex factor of Pseudomonas aeruginosa. Genet Res. 1972 Feb;19(1):91–108. doi: 10.1017/s0016672300014294. [DOI] [PubMed] [Google Scholar]
  34. Thomashow L. S., Weller D. M. Role of a phenazine antibiotic from Pseudomonas fluorescens in biological control of Gaeumannomyces graminis var. tritici. J Bacteriol. 1988 Aug;170(8):3499–3508. doi: 10.1128/jb.170.8.3499-3508.1988. [DOI] [PMC free article] [PubMed] [Google Scholar]
  35. Toyama H., Fujii A., Matsushita K., Shinagawa E., Ameyama M., Adachi O. Three distinct quinoprotein alcohol dehydrogenases are expressed when Pseudomonas putida is grown on different alcohols. J Bacteriol. 1995 May;177(9):2442–2450. doi: 10.1128/jb.177.9.2442-2450.1995. [DOI] [PMC free article] [PubMed] [Google Scholar]
  36. Vincent M. N., Harrison L. A., Brackin J. M., Kovacevich P. A., Mukerji P., Weller D. M., Pierson E. A. Genetic analysis of the antifungal activity of a soilborne Pseudomonas aureofaciens strain. Appl Environ Microbiol. 1991 Oct;57(10):2928–2934. doi: 10.1128/aem.57.10.2928-2934.1991. [DOI] [PMC free article] [PubMed] [Google Scholar]
  37. Voisard C., Keel C., Haas D., Dèfago G. Cyanide production by Pseudomonas fluorescens helps suppress black root rot of tobacco under gnotobiotic conditions. EMBO J. 1989 Feb;8(2):351–358. doi: 10.1002/j.1460-2075.1989.tb03384.x. [DOI] [PMC free article] [PubMed] [Google Scholar]
  38. Yanisch-Perron C., Vieira J., Messing J. Improved M13 phage cloning vectors and host strains: nucleotide sequences of the M13mp18 and pUC19 vectors. Gene. 1985;33(1):103–119. doi: 10.1016/0378-1119(85)90120-9. [DOI] [PubMed] [Google Scholar]
  39. van Schie B. J., Hellingwerf K. J., van Dijken J. P., Elferink M. G., van Dijl J. M., Kuenen J. G., Konings W. N. Energy transduction by electron transfer via a pyrrolo-quinoline quinone-dependent glucose dehydrogenase in Escherichia coli, Pseudomonas aeruginosa, and Acinetobacter calcoaceticus (var. lwoffi). J Bacteriol. 1985 Aug;163(2):493–499. doi: 10.1128/jb.163.2.493-499.1985. [DOI] [PMC free article] [PubMed] [Google Scholar]

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