Proteomic tracking and analysis of a bacterial mixed culture

Proteomics

Volumn 12, Issue 12, 2012, Pages 1893-1901

  Kluge, Sabine ^a   Hoffmann, Marcus ^b   Benndorf, Dirk ^a   Rapp, Erdmann ^b   Reichl, Udo ^a,b  

^a OTTO VON GUERICKE UNIVERSITY   (Germany)

^b MAX PLANCK INSTITUTE FOR DYNAMICS OF COMPLEX TECHNICAL SYSTEMS   (Germany)

Author keywords

Bacterial mixed culture; Ceftazidime; Cystic fibrosis; Population dynamics; Technology

Indexed keywords

CEFTAZIDIME;

ANTIBIOTIC THERAPY; ARTICLE; BACTERIAL GROWTH; BACTERIUM CULTURE; BIOSYNTHESIS; BURKHOLDERIA CEPACIA; CYSTIC FIBROSIS; MIXED CELL CULTURE; NONHUMAN; OXIDATIVE STRESS; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEOMICS; PSEUDOMONAS AERUGINOSA; STAPHYLOCOCCUS AUREUS;

ANTI-BACTERIAL AGENTS; BACTERIAL PROTEINS; BACTERIOLOGICAL TECHNIQUES; BIOMASS; BURKHOLDERIA CEPACIA; CEFTAZIDIME; COCULTURE TECHNIQUES; DRUG RESISTANCE, BACTERIAL; ELECTROPHORESIS, GEL, TWO-DIMENSIONAL; MICROBIAL INTERACTIONS; PROTEOME; PROTEOMICS; PSEUDOMONAS AERUGINOSA; STAPHYLOCOCCUS AUREUS;

BACTERIA (MICROORGANISMS); BURKHOLDERIA CEPACIA; PSEUDOMONAS AERUGINOSA; STAPHYLOCOCCUS AUREUS;

EID: 84863006212     PISSN: 16159853     EISSN: 16159861     Source Type: Journal    
DOI: 10.1002/pmic.201100362     Document Type: Article

References (49)

1. Schneider, T., Riedel, K., Environmental proteomics: analysis of structure and function of microbial communities. Proteomics 2010, 10, 785-798.
2. Tijhuis, L., Rekswinkel, E., van Loosdrecht, M. C. M., Heijnen, J. J., Dynamics of population and biofilm structure in the biofilm airlift suspension reactor for carbon and nitrogen removal. Water Sci. 1994, 29, 377-384.
3. Klocke, M., Mahnert, P., Mundt, K., Souidi, K. et al., Microbial community analysis of a biogas-producing completely stirred tank reactor fed continuously with fodder beet silage as mono-substrate. Syst. Appl. Microbiol. 2007, 30, 139-151.
4. Davis, C. P., in: Baron, S. (Ed.), Medical Microbiology, The University of Texas Medical Branch at Galveston, TX 1996, Chapter 6.
5. Gilligan, P. H., Microbiology of airway disease in patients with cystic fibrosis. Clin. Microbiol. Rev. 1991, 4, 35-51.
6. Renders, N., Verbrugh, H., Van Belkum, A., Dynamics of bacterial colonisation in the respiratory tract of patients with cystic fibrosis. Infect. Genet. Evol. 2001, 1, 29-39.
7. Costerton, J. W., Stewart, P. S., Greenberg, E. P., Bacterial biofilms: a common cause of persistent infections. Science 1999, 284, 1318-1322.
8. Schmidt, J. K., Quantitative Experimental Characterization and Mathematical Modeling of Mixed Culture Dynamics - Analysis of a Medically Relevant Three-Species Mixed Culture in a Chemostat, Dissertation, Otto-von-Guericke Universität, Magdeburg 2008.
9. Riedele, C., Reichl, U., Interspecies effects in a ceftazidime-treated mixed culture of Pseudomonas aeruginosa, Burkholderia cepacia and Staphylococcus aureus: analysis at the single-species level. J. Antimicrob. Chemother. 2011, 66, 138-145.
10. Riedel, K., Carranza, P., Gehrig, P., Potthast, F. et al., Towards the proteome of Burkholderia cenocepacia H111: setting up a 2-DE reference map. Proteomics 2006, 6, 207-216.
11. Hecker, M., Engelmann, S., Cordwell, S. J., Proteomics of Staphylococcus aureus-current state and future challenges. J. Chromatogr. B. Analyt. Technol. Biomed. Life Sci. 2003, 787, 179-195.
12. Nouwens, A. S., Walsh, B. J., Cordwell, S. J., Application of proteomics to Pseudomonas aeruginosa. Adv. Biochem. Eng. Biotechnol. 2003, 83, 117-140.
13. Ghani, M., Soothill, J. S., Ceftazidime, gentamicin, and rifampicin, in combination, kill biofilms of mucoid Pseudomonas aeruginosa. Can. J. Microbiol. 1997, 43, 999-1004.
14. McKenney, D., Brown, K. E., Allison, D. G., Influence of Pseudomonas aeruginosa exoproducts on virulence factor production in Burkholderia cepacia: evidence of interspecies communication. J. Bacteriol. 1995, 177, 6989-6992.
15. Talbot, G., Topp, E., Palin, M. F., Masse, D. I., Evaluation of molecular methods used for establishing the interactions and functions of microorganisms in anaerobic bioreactors. Water Res. 2008, 42, 513-537.
16. Rogers, J. B., DuTeau, N. M., Reardon, K. F., Use of 16S-rRNA to investigate microbial population dynamics during biodegradation of toluene and phenol by a binary culture. Biotechnol. Bioeng. 2000, 70, 436-445.
17. Higuchi, R., Fockler, C., Dollinger, G., Watson, R., Kinetic PCR analysis: real-time monitoring of DNA amplification reactions. Biotechnology (N Y) 1993, 11, 1026-1030.
18. Müller, S., Lösche, A., Bley, T., Scheper, T., A flow cytometric approach for characterization and differentiation of bacteria during microbial processes. Appl. Microbial. Biotechnol. 1995, 43, 93-101.
19. Schmidt, J. K., König, B., Reichl, U., Characterization of a three bacteria mixed culture in a chemostat: evaluation and application of a quantitative terminal-restriction fragment length polymorphism (T-RFLP) analysis for absolute and species specific cell enumeration. Biotechnol. Bioeng. 2007, 96, 738-756.
20. Favre-Bonte, S., Pache, J. C., Robert, J., Blanc, D. et al., Detection of Pseudomonas aeruginosa cell-to-cell signals in lung tissue of cystic fibrosis patients. Microb. Pathog. 2002, 32, 143-147.
21. Riedel, K., Hentzer, M., Geisenberger, O., Huber, B. et al., N-acylhomoserine-lactone-mediated communication between Pseudomonas aeruginosa and Burkholderia cepacia in mixed biofilms. Microbiology 2001, 147, 3249-3262.
22. Benndorf, D., Balcke, G. U., Harms, H., von Bergen, M., Functional metaproteome analysis of protein extracts from contaminated soil and groundwater. ISME J. 2007, 1, 224-234.
23. Sambrook, J., Russel, D. W., Molecular Cloning: A Laboratory Manual, Cold Spring Harbor, New York 1989.
24. Lowry, O. H., Rosenbrough, N. J., Farr, A. L., Randall, R. J., Protein measurement with the Folin phenol reagent. J. Biol. Chem. 1951, 193, 265-275.
25. Holtzhauer, M., Hahn, Biochemische Labormethoden: Arbeitsvorschriften und Tabellen, Springer, Berlin 1988.
26. Klose, J., Protein mapping by combined isoelectric focusing and electrophoresis of mouse tissues. A novel approach to testing for induced point mutations in mammals. Humangenetik 1975, 26, 231-243.
27. O'Farrell, P. H., High resolution two-dimensional electrophoresis of proteins. J. Biol. Chem. 1975, 250, 4007-4021.
28. Görg, A., Postel, W., Domscheit, A., Günther, S., Two-dimensional electrophoresis with immobilized pH gradients of leaf proteins from barley (Hordeum vulgare): method, reproducibility and genetic aspects. Electrophoresis 1988, 9, 681-692.
29. Görg, A., Weiss, W., Dunn, M. J., Current two-dimensional electrophoresis technology for proteomics. Proteomics 2004, 4, 3665-3685.
30. Laemmli, U. K., Cleavage of structural proteins during the assembly of the head of bacteriophage T4. Nature 1970, 227, 680-685.
31. Neuhoff, V., Stamm, R., Eibl, H., Clear background and highly sensitive protein staining with Coomassie Blue dyes in polyacrylamide gels: a systematic analysis. Electrophoresis 1985, 6, 427-448.
32. Vester, D., Rapp, E., Gade, D., Genzel, Y. et al., Quantitative analysis of cellular proteome alterations in human influenza A virus-infected mammalian cell lines. Proteomics 2009, 9, 3316-3327.
33. Perkins, D. N., Pappin, D. J., Creasy, D. M., Cottrell, J. S., Probability-based protein identification by searching sequence databases using mass spectrometry data. Electrophoresis 1999, 20, 3551-3567.
34. Hayes, M. V., Orr, D. C., Mode of action of ceftazidime: affinity for the penicillin-binding proteins of Escherichia coli K12, Pseudomonas aeruginosa and Staphylococcus aureus. J. Antimicrob. Chemother. 1983, 12, 119-126.
35. Vizcaino, J. A., Cote, R., Reisinger, F., Barsnes, H. et al., The proteomics identifications database: 2010 update. Nucleic Acids. Res. 2010, 38, D736-D742.
36. Winstanley, C., Fothergill, J. L., The role of quorum sensing in chronic cystic fibrosis Pseudomonas aeruginosa infections. FEMS Microbiol. Lett. 2009, 290, 1-9.
37. Lau, G. W., Hassett, D. J., Ran, H., Kong, F., The role of pyocyanin in Pseudomonas aeruginosa infection. Trends Mol. Med. 2004, 10, 599-606.
38. Whitehead, N. A., Barnard, A. M., Slater, H., Simpson, N. J. et al., Quorum-sensing in Gram-negative bacteria. FEMS Microbiol. Rev. 2001, 25, 365-404.
39. Voggu, L., Schlag, S., Biswas, R., Rosenstein, R. et al., Microevolution of cytochrome bd oxidase in Staphylococci and its implication in resistance to respiratory toxins released by Pseudomonas. J. Bacteriol. 2006, 188, 8079-8086.
40. Cosgrove, K., Coutts, G., Jonsson, I.-M., Tarkowski, A. et al., Catalase (KatA) and alkyl hydroperoxide reductase (AhpC) have compensatory roles in peroxide stress resistance and are required for survival, persistence, and nasal colonization in Staphylococcus aureus. J. Bacteriol. 2007, 189, 1025-1035.
41. Lefebre, M., Valvano, M., In vitro resistance of Burkholderia cepacia complex isolates to reactive oxygen species in relation to catalase and superoxide dismutase production. Microbiology 2001, 147, 97-109.
42. Fito-Boncompte, L., Chapalain, A., Bouffartigues, E., Chaker, H. et al., Full virulence of Pseudomonas aeruginosa requires OprF. Infect. Immun. 2011, 79, 1176-1186.
43. Gallagher, L. A., McKnight, S. L., Kuznetsova, M. S., Pesci, E. C. et al., Functions required for extracellular quinolone signaling by Pseudomonas aeruginosa. J. Bacteriol. 2002, 184, 6472-6480.
44. Mashburn, L. M., Whiteley, M., Membrane vesicles traffic signals and facilitate group activities in a prokaryote. Nature 2005, 437, 422-425.
45. Bauman, S. J., Kuehn, M. J., Purification of outer membrane vesicles from Pseudomonas aeruginosa and their activation of an IL-8 response. Microbes. Infect. 2006, 8, 2400-2408.
46. MacDonald, K. L., Beveridge, T. J., Bactericidal effect of gentamicin-induced membrane vesicles derived from Pseudomonas aeruginosa PAO1 on gram-positive bacteria. Can. J. Microbiol. 2002, 48, 810-820.
47. Jacoby, G. A., Beta-lactamase nomenclature. Antimicrob. Agents Chemother. 2006, 50, 1123-1129.
48. Kadry, A. A., Lack of efflux mechanism in a clinical isolate of Pseudomonas aeruginosa highly resistant to beta-lactams and imipenem. Folia. Microbiol. (Praha) 2003, 48, 529-533.
49. Krummenacker, M., Paley, S., Mueller, L., Yan, T. et al., Querying and computing with BioCyc databases. Bioinformatics 2005, 21, 3454-3455.