Pyoverdine receptor: A case of positive Darwinian selection in Pseudomonas aeruginosa

Journal of Bacteriology

Volumn 187, Issue 10, 2005, Pages 3289-3292

  Tümmler, Burkhard ^a   Cornelis, Pierre ^b  

^a HANNOVER MEDICAL SCHOOL   (Germany)

^b DEPARTMENT OF PLANT SYSTEMS BIOLOGY   (Belgium)

Author keywords

[No Author keywords available]

Indexed keywords

PYOVERDINE; PYOVERDINE RECEPTOR; RECEPTOR; UNCLASSIFIED DRUG;

ALGORITHM; DNA SEQUENCE; GENETIC VARIABILITY; MOLECULAR EVOLUTION; NONHUMAN; NOTE; PRIORITY JOURNAL; PSEUDOMONAS AERUGINOSA; SEQUENCE ANALYSIS;

BACTERIAL OUTER MEMBRANE PROTEINS; EVOLUTION, MOLECULAR; OLIGOPEPTIDES; PSEUDOMONAS AERUGINOSA;

DARWINIA; PSEUDOMONAS; PSEUDOMONAS AERUGINOSA;

EID: 18244389684     PISSN: 00219193     EISSN: None     Source Type: Journal    
DOI: 10.1128/JB.187.10.3289-3292.2005     Document Type: Note

References (44)

1. Andrews, T. D., and T. Gojobori. 2004. Strong positive selection and recombination drive the antigenic variation of the PilE protein of the human pathogen Neisseria meningitidis. Genetics 166:25-32.
2. Arora, S., S. Bangera, S. Lory, and R. Ramphal. 2001. A genomic island in Pseudomonas aeruginosa carries the determinants of flagellin glycosylation. Proc. Natl. Acad. Sci. USA 98:9342-9347.
3. Baysse, C., J.-M. Meyer, P. Plesiat, V. Geoffroy, Y. Michel-Briand, and P. Cornelis. 1999. Uptake of pyocin S3 occurs through the outer membrane ferripyoverdine type II receptor of Pseudomonas aeruginosa. J. Bacteriol. 181:3849-3851.
4. Bragonzi, A., D. Worlitzsch, B. Tümmler, P. Salerno, G. P. Pier, and G. Döring. Impact of mutational changes in genetic regulatory loci on the expression of Pseudomonas aeruginosa alginate in clinical isolates from patients with cystic fibrosis. Submitted for publication.
5. Cao, H., R. L. Baldini, and L. G. Rahme. 2001. Common mechanisms for pathogens of plants and animals. Annu. Rev. Phytopathol. 39:259-284.
6. Cornelis, P., D. Hohnadel, and J.-M. Meyer. 1989. Evidence for different pyoverdine-mediated iron uptake systems among Pseudomonas aeruginosa strains. Infect. Immun. 57:3491-3497.
7. Curran, B., D. Jonas, H. Grundmann, T. Pitt, and C. G. Dowson. 2004. Development of a multilocus sequence typing scheme for the opportunistic pathogen Pseudomonas aeruginosa. J. Clin. Microbiol. 42:5644-5649.
8. de Chial, M., B. Ghysels, S. A. Beatson, V. Geoffroy, J. M. Meyer, T. Pattery, C. Baysse, P. Chablain, Y. N. Parsons, C. Winstanley, S. J. Cordwell, and P. Cornelis. 2003. Identification of type II and type III pyoverdine receptors from Pseudomonas aeruginosa. Microbiology 149:821-831.
9. De Vos, D., M. De Chial, C. Cochez, S. Jansen, B. Tümmler, J. M. Meyer, and P. Cornelis. 2001. Study of pyoverdine type and production by Pseudomonas aeruginosa isolated from cystic fibrosis patients: prevalence of type II pyoverdine isolates and accumulation of pyoverdine-negative mutations. Arch. Microbiol. 175:384-388.
10. Ernst, R. K., D. A. D'Argenio, J. K. Ichikawa, M. G. Bangera, S. Belgrade, J. L. Burns, P. Hiatt, K. McCoy, M. Brittnacher, A. Kas, D. H. Spencer, M. V. Olson, B. W. Ramsey, S. Lory, and S. I. Miller. 2003. Genome mosaicism is conserved but not unique in Pseudomonas aeruginosa isolates from the airways of young children with cystic fibrosis. Environ. Microbiol. 5:1341-1349.
11. Friedman, R., J. W. Drake, and A. L. Hughes. 2004. Genome-wide patterns of nucleotide substitution reveal stringent functional constraints on the protein sequences of thermophiles. Genetics 167:1507-1512.
12. Ghysels, B., B. T. Dieu, S. A. Beatson, J. P. Pirnay, U. A. Ochsner, M. L. Vasil, and P. Cornelis. 2004. FpvB, an alternative type 1 ferripyoverdine receptor of Pseudomonas aeruginosa. Microbiology 150:1671-1680.
13. Griffin, A. S., S. A. West, and A. Buckling. 2004. Cooperation and competition in pathogenic bacteria. Nature 430:1024-1027.
14. Heuer, T., C. Bürger, G. Maaß, and B. Tümmler. 1998. Cloning of prokaryotic genomes in yeast artificial chromosomes: application to the population genetics of Pseudomonas aeruginosa. Electrophoresis 19:486-494.
15. Hohnadel, D., and J. M. Meyer. 1988. Specificity of pyoverdine-mediated iron uptake among fluorescent Pseudomonas strains. J. Bacteriol. 170:4865-4873.
16. Hughes, A. 2005. Evidence for abundant slightly deleterious polymorphisms in bacterial populations. Genetics 169:533-538.
17. Jordan, I. K., I. B. Rogozin, Y. I. Wolf, and E. V. Koonin. 2002. Microevolutionary genomics of bacteria. Theor. Popul. Biol. 61:435-447.
18. Jorgensen, F. G., A. Hobolth, H. Hornshoj, C. Bendixen, M. Fredholm, and M. H. Schierup. 28 January 2005, posting date. Comparative analysis of protein coding sequences from human, mouse and the domesticated pig. BMC Biol. 3:2. [Online.] http://www.biomedeentral.com.
19. Kiewitz, C., and B. Tümmler. 2000. Sequence diversity of Pseudomonas aeruginosa: impact on population structure and genome evolution. J. Bacteriol. 182:3125-3135.
20. Kimura, M. 1983. The neutral theory of molecular evolution. Cambridge University Press, Cambridge, United Kingdom.
21. Lamont, I. L., P. A. Beare, U. Ochsner, A. I. Vasil, and M. L. Vasil. 2002. Siderophore-mediated signaling regulates virulence factor production in Pseudomonas aeruginosa. Proc. Natl. Acad. Sci. USA 99:7072-7077.
22. Lynch, M., and J. S. Conery. 2003. The origins of genome complexity. Science 302:1401-1404.
23. Massingham, T., and N. Goldman. 2005. Detecting amino acid sites under positive selection and purifying selection. Genetics 169:1753-1762.
24. Mayr, E. 2004. 80 years of watching the evolutionary scenery. Science 305:46-47.
25. Meyer, J. M., A. Stintzi, D. De Vos, P. Cornelis, R. Tappe, K. Taraz, and H. Budzikiewicz. 1997. Use of siderophores to type pseudomonads: the three Pseudomonas aeruginosa pyoverdine systems. Microbiology 143:35-43.
26. Michel-Briand, Y., and C. Baysse. 2002. The pyocins of Pseudomonas aeruginosa. Biochimie 84:499-510.
27. Ohta, T. 2002. Near-neutrality in evolution of genes and gene regulation. Proc. Natl. Acad. Sci. USA 99:16134-16137.
28. Pirnay, J. P., D. De Vos, D. Mossialos, A. Vanderkelen, P. Cornelis, and M. Zizi. 2002. Analysis of the Pseudomonas aeruginosa oprD gene from clinical and environmental isolates. Environ. Microbiol. 4:872-882.
29. Pirnay, J. P., D. De Vos, C. Cochez, F. Bilocq, A. Vanderkelen, M. Zizi, B. Ghysels, and P. Cornelis. 2002. Pseudomonas aeruginosa displays an epidemic population structure. Environ. Microbiol. 4:898-911.
30. Ravel, J., and P. Cornelis. 2003. Genomics of pyoverdine-mediated iron uptake in pseudomonads. Trends Microbiol. 11:195-200.
31. Reid, S. D., R. K. Selander, and T. S. Whittam. 1999. Sequence diversity of flagellin (fliC) alleles in pathogenic Escherichia coli. J. Bacteriol. 181:153-160.
32. Smith, E. E., E. H. Sims, D. H. Spencer, R. Kaul, and M. V. Olson. 2005. Evidence for diversifying selection at the pyoverdine locus of Pseudomonas aeruginosa. J. Bacteriol. 187:2138-2147.
33. Smith, N. H., J. Maynard Smith, and B. G. Spratt. 1995. Sequence evolution of the porB gene of Neisseria gonorrhoeae and Neisseria meningitidis: evidence of positive Darwinian selection. Mol. Biol. Evol. 12:363-370.
34. Spangenberg, C., R. Fislage, U. Römling, and B. Tümmler. 1997. Disrespectful type IV pilins. Mol. Microbiol. 25:203-204.
35. Spangenberg, C., T. C. Montie, and B. Tümmler. 1998. Structural and functional implications of sequence diversity of Pseudomonas aeruginosa genes oriC, ampC and fliC. Electrophoresis 19:545-550.
36. Spencer, D. H., A. Kas, E. E. Smith, C. K. Raymond, E. H. Sims, M. Hastings, J. L. Burns, R. Kaul, and M. V. Olson. 2003. Whole-genome sequence variation among multiple isolates of Pseudomonas aeruginosa. J. Bacteriol. 185:1316-1325.
37. Suzuki, Y. 2004. New methods for detecting positive selection at single amino acid sites. J. Mol. Evol. 59:11-19.
38. Suzuki, Y., and T. Gojobori. 1999. A method for detecting positive selection at single amino acid sites. Mol. Biol. Evol. 16:1315-1328.
39. Tarr, C. L., and T. S. Whittam. 2002. Molecular evolution of the intimin gene in O111 clones of pathogenic Escherichia coli. J. Bacteriol. 184:479-487.
40. Theisen, M., M. Borre, M. J. Mathiesen, B. Mikkelsen, A.-M. Lebech, and K. Hansen. 1995. Evolution of the Borrelia burgdorferi outer surface protein OspC. J. Bacteriol. 177:3036-3044.
41. Urwin, R., E. C. Holmes, A. J. Fox, J. P. Derrick, and M. C. Maiden. 2002. Phylogenetic evidence for frequent positive selection and recombination in the meningococcal surface antigen PorB. Mol. Biol. Evol. 19:1686-1694.
42. Weinel, C, K. E. Nelson, and B. Tümmler. 2002. Global features of the Pseudomonas putida KT2440 genome sequence. Environ. Microbiol. 4:809-818.
43. Wong, W. S., Z. Yang, N. Goldman, and R. Nielsen. 2004. Accuracy and power of statistical methods for detecting adaptive evolution in protein coding sequences and for identifying positively selected sites. Genetics 168:1041-1051.
44. Yang, Z., and J. P. Bielawski. 2000. Statistical methods for detecting molecular adaptation. Trends Ecol. Evol. 15:496-503.