Construction of a mini-Tn5-luxCDABE mutant library in Pseudomonas aeruginosa PAO1: A tool for identifying differentially regulated genes

Genome Research

Volumn 15, Issue 4, 2005, Pages 583-589

  Lewenza, Shawn ^a   Falsafi, Reza K ^a   Winsor, Geoff ^b   Gooderham, W James ^a   McPhee, Joseph B ^a   Brinkman, Fiona S L ^b   Hancock, Robert E W ^a  

^a UNIVERSITY OF BRITISH COLUMBIA   (Canada)

^b SIMON FRASER UNIVERSITY   (Canada)

Author keywords

[No Author keywords available]

Indexed keywords

MAGNESIUM; PHOSPHATE; ANTIMICROBIAL CATIONIC PEPTIDE; BACTERIAL DNA; BACTERIAL PROTEIN; HYBRID PROTEIN;

ANTIBIOTIC RESISTANCE; ARTICLE; BACTERIAL GENE; BACTERIAL GENOME; DNA FLANKING REGION; GENE EXPRESSION; GENE FUSION; GENE IDENTIFICATION; GENE INACTIVATION; GENE INSERTION; GENE LIBRARY; GENE MAPPING; GENE MUTATION; GENE SEQUENCE; INVERSE POLYMERASE CHAIN REACTION; KNOCKOUT GENE; MINI TN5 LUXCDABE MUTANT LIBRARY; OPEN READING FRAME; PRIORITY JOURNAL; PSEUDOMONAS AERUGINOSA; REPORTER GENE; TRANSPOSON; BACTERIAL CHROMOSOME; CHROMOSOME MAP; DRUG EFFECT; GENE EXPRESSION REGULATION; GENETICS; GRAM NEGATIVE INFECTION; METABOLISM; PATHOGENICITY; POLYMERASE CHAIN REACTION; RESTRICTION MAPPING;

PSEUDOMONAS AERUGINOSA;

ANTIMICROBIAL CATIONIC PEPTIDES; BACTERIAL PROTEINS; CHROMOSOME MAPPING; CHROMOSOMES, BACTERIAL; DNA, BACTERIAL; DRUG RESISTANCE, MICROBIAL; GENE EXPRESSION REGULATION, BACTERIAL; GENE LIBRARY; GENES, REPORTER; GENOME, BACTERIAL; MAGNESIUM; MUTAGENESIS, INSERTIONAL; OPEN READING FRAMES; POLYMERASE CHAIN REACTION; PSEUDOMONAS AERUGINOSA; PSEUDOMONAS INFECTIONS; RECOMBINANT FUSION PROTEINS; RESTRICTION MAPPING;

EID: 17844382115     PISSN: 10889051     EISSN: None     Source Type: Journal    
DOI: 10.1101/gr.3513905     Document Type: Article

References (40)

1. Amsterdam, G. 1991. Susceptibility testing of antimicrobials in liquid media, 3rd edition. Williams and Wilkins, Baltimore, MD.
2. Ernst, R.K., Yi, E.C., Guo, L., Lim, K.B., Burns, J.L., Hackett, M., and Miller, S.I. 1999. Specific lipopolysaccharide found in cystic fibrosis airway Pseudomonas aeruginosa. Science 286: 1561-1565.
3. Filloux, A., Bally, M., Soscia, C., Murgier, M., and Lazdunsk, A. 1988. Phosphate regulation in Pseudomonas aeruginosa: Cloning of the alkaline phosphatase gene and identification of phoB- and phoR-like genes. Mol. Gen. Genet. 212: 510-513.
4. Friedrich, C.L., Moyles, D., Beveridge, T.J., and Hancock, R.E.W. 2000. Antibacterial action of structurally diverse cationic peptides on gram-positive bacteria. Antimicrob. Agents Chemother. 44: 2086-2092.
5. Frisk, A., Schurr, J.R., Wang, G., Bertucci, D.C., Marrero, L., Hwang, S.H., Hassett, D.J., and Schurr, M.J. 2004. Transcriptome analysis of Pseudomonas aeruginosa after interaction with human airway epithelial cells. Infect. Immun. 72: 5433-5438.
6. Geoffroy, M.C., Floquet, S., Metais, A., Nassif, X., and Pelicic, V. 2003. Large-scale analysis of the meningococcus genome by gene disruption: Resistance to complement-mediated lysis. Genome Res. 13: 391-398.
7. Govan, J.R. and Deretic, V. 1996. Microbial pathogenesis in cystic fibrosis: Mucoid Pseudomonas aeruginosa and Burkholderia cepacia. Microbiol. Rev. 60: 539-574.
8. Gunn, J.S., Lim, K.B., Krueger, J., Kim, K., Guo, L., Hackett, M., and Miller, S.I. 1998. PmrA-PmrB-regulated genes necessary for 4-aminoarabinose lipid A modification and polymyxin resistance. Mol. Microbiol. 27: 1171-1182.
9. Hallin, P.F. and Ussery, D.W. 2004. CBS Genome Atlas Database: A dynamic storage for bioinformatics results and sequence database. Bioinformatics 20: 3682-3686.
10. Hancock, R.E.W. and Speert, D.P. 2000. Antibiotic resistance in Pseudomonas aeruginosa: Mechanisms and impact on treatment. Drug Resist. Updat. 3: 247-255.
11. Hancock, R.E.W., Poole, K., and Benz, R. 1982. Outer membrane protein P of Pseudomonas aeruginosa: Regulation by phosphate deficiency and formation of small anion-specific channels in lipid bilayer membranes. J. Bacteriol. 150: 730-738.
12. Hendrickson, E.L., Plotnikova, J., Mahajan-Miklos, S., Rahme, L.G., and Ausubel, F.M. 2001. Differential roles of the Pseudomonas aeruginosa PA14 rpoN gene in pathogenicity in plants, nematodes, insects and mice. J. Bacteriol. 183: 7126-7134.
13. Hutchison, C.A., Peterson, S.N., Gill, S.R., Cline, R.T., White, O., Fraser, C.M., Smith, H.O., and Venter, J.C. 1999. Global transposon mutagenesis and a minimal Mycoplasma genome. Science 286: 2165-2169.
14. Jacobs, M.A., Alwood, A., Thaipisuttikul, I., Spencer, D., Haugen, E., Ernst, S., Will, O., Kaul, R., Raymond, C., Levy, R., et al. 2003. Comprehensive transposon mutant library of Pseudomonas aeruginosa. Proc. Natl. Acad. Sci. 100: 14339-14344.
15. Judson, N. and Mekalanos, J.J. 2000. TnAraOut, a transposon-based approach to identify and characterize essential bacterial genes. Nat. Biotechnol. 18: 740-745.
16. Kang, Y., Durfee, T., Glasner, J.D., Qiu, Y., Frisch, D., Winterberg, K.M., and Blattner, F.R. 2004. Systematic mutagenesis of the Escherichia coli genome. J. Bacteriol. 186: 4921-4930.
17. Karlyshev, A.V., Pallen, M.J., and Wren, B.W. 2000. Single-primer PCR procedure for rapid identification of transposon insertion sites. Biotechniques 28: 1078-1082.
18. Kawai, Y., Yano, I., Kaneda, K., and Yabuuchi, E. 1988. Ornithine-containing lipids of some Pseudomonas species. Eur. J. Biochem. 175: 633-641.
19. Kobayashi, K., Ehrlich, S.D., Albertini, A., Amati, G., Andersen, K.K., Arnaud, M., Asai, K., Ashikaga, S., Aymerich, S., Bessieres, P., et al. 2003. Essential Bacillus subtilis genes. Proc. Natl. Acad. Sci. 100: 4678-4683.
20. Macfarlane, E.L., Kwasnicka, A., Ochs, M.M., and Hancock, R.E.W. 1999. PhoP-PhoQ homologues in Pseudomonas aeruginosa regulate expression of the outer-membrane protein OprH and polymyxin B resistance. Mol. Microbiol. 34: 305-316.
21. Macfarlane, E.L., Kwasnicka, A., and Hancock, R.E.W. 2000. Role of Pseudomonas aeruginosa PhoP-PhoQ in resistance to antimicrobial cationic peptides and aminoglycosides. Microbiology 146: 2543-2554.
22. McPhee, J.B., Lewenza, S., and Hancock, R.E.W. 2003. Cationic antimicrobial peptides activate a two-component regulatory system, PmrA-PmrB, that regulates resistance to polymyxin B and cationic antimicrobial peptides in Pseudomonas aeruginosa. Mol. Microbiol. 50: 205-217.
23. Moskowitz, S.M., Ernst, R.K., and Miller, S.I. 2004. PmrAB, a two-component regulatory system of Pseudomonas aeruginosa that modulates resistance to cationic antimicrobial peptides and addition of aminoarabinose to lipid A. J. Bacteriol. 186: 575-579.
24. Potvin, E., Lehoux, D.E., Kukavica-Ibrulj, I., Richard, K.L., Sanschagrin, F., Lau, G.W., and Levesque, R.C. 2003. In vivo functional genomics of Pseudomonas aeruginosa for high-throughput screening of new virulence factors and antibacterial targets. Environ. Microbiol. 5: 1294-1308.
25. Quinn, J.P. 1998. Clinical problems posed by multiresistant nonfermenting gram-negative pathogens. Clin. Infect. Dis. 27: S117-S124.
26. Rivera, M., Bryan, L.E., Hancock, R.E.W., and McGroarty, E.J. 1988. Heterogeneity of lipopolysaccharides from Pseudomonas aeruginosa: Analysis of lipopolysaccharide chain length. J. Bacteriol. 170: 512-521.
27. Ross-Macdonald, P., Coelho, P.S., Roemer, T., Agarwal, S., Kumar, A., Jansen, R., Cheung, K.H., Sheehan, A., Symoniatis, D., Umansky, L., et al. 1999. Large-scale analysis of the yeast genome by transposon tagging and gene disruption. Nature 402: 413-418.
28. Rozek, A., Powers, J.P., Friedrich, C.L., and Hancock, R.E.W. 2003. Structure-based design of an indolicidin peptide analogue with increased protease stability. Biochemistry 48: 14130-14138.
29. Salama, N.R., Sheperd, B., and Falkow, S. 2004. Global transposon mutagenesis and essential gene analysis of Helicobacter pylori. J. Bacteriol. 186: 7926-7935.
30. Scherens, B. and Goffeau, A. 2004. The uses of genome-wide yeast mutant collections. Genome Biol. 5: 229.
31. Siehnel, R.J., Worobec, E.A., and Hancock, R.E.W. 1988. Cloning of the Pseudomonas aeruginosa outer membrane porin protein P gene: Evidence for a linked region of DNA homology. J. Bacteriol. 170: 2312-2318.
32. Slesarev, A.I., Mezhevaya, K.V., Makarova, K.S., Polushin, N.N., Shcherbinina, O.V., Shakhova, V.V., Belova, G.I., Aravind, L., Natale, D.A., Rogozin, I.B., et al. 2002. The complete genome of hyperthermophile Methanopyrus kandleri AV19 and monophyly of archaeal methanogens. Proc. Natl. Acad. Sci. 99: 4644-4649.
33. Song, J., Ware, A., and Liu, S.L. 2003. Wavelet to predict bacterial ori and ter: A tendency towards a physical balance. BMC Genomics 4: 17.
34. Stover, C.K., Pham, X.Q., Erwin, A.L., Mizoguchi, S.D., Warrener, P., Hickey, M.J., Brinkman, F.S., Hufnagle, W.O., Kowalik, D.J., Lagrou, M., et al. 2000. Complete genome sequence of Pseudomonas aeruginosa PA01, an opportunistic pathogen. Nature 406: 959-964.
35. Weinel, C., Ermolaeva, M.D., and Ouzounis, C. 2003. PseuRECA: Genome annotation and gene context analysis for Pseudomonas aeruginosa PAO1. Bioinformatics 19: 1457-1460.
36. Weissenmayer, B., Gao, J.L., Lopez-Lara, I.M., and Geiger, O. 2002. Identification of a gene required for the biosynthesis of ornithine-derived lipids. Mol. Microbiol. 45: 721-733.
37. Winson, M.K., Swift, S., Hill, P.J., Sims, C.M., Griesmayr, G., Bycroft, B.W., Williams, P., and Stewart, G.S. 1998. Engineering the luxCDABE genes from Photorhabdus luminescens to provide a bioluminescent reporter for constitutive and promoter probe plasmids and mini-Tn5 constructs. FEMS Microbiol. Lett. 163: 193-202.
38. Wu, M. and Hancock, R.E.W. 1999. Interaction of the cyclic antimicrobial cationic peptide bactenecin with the outer and cytoplasmic membrane. J. Biol. Chem. 274: 29-35.
39. Web site references http://www.pseudomonas.com; Pseudomonas Genome Database.
40. http://pseudomutant.pseudomonas.com; Pseudomutant Database.