Development of a novel biofilm continuous culture method for simultaneous assessment of architecture and gaseous metabolite production

Applied and Environmental Microbiology

Volumn 74, Issue 17, 2008, Pages 5429-5435

  Yawata, Yutaka ^a   Nomura, Nobuhiko ^a   Uchiyama, Hiroo ^a  

^a UNIVERSITY OF TSUKUBA   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

ARCHITECTURE; BIOMOLECULES; COMPUTER NETWORKS; DENITRIFICATION; METABOLITES; NITRIFICATION;

BIO FILMS; BIOFILM ARCHITECTURE; METABOLITE PRODUCTION;

BIOFILTERS;

ASSESSMENT METHOD; BIOFILM; DENITRIFICATION; GAS PRODUCTION; METABOLISM; METABOLITE;

ANALYTIC METHOD; ARTICLE; BACTERIAL GROWTH; BIOFILM; BIOREACTOR; CONTINUOUS CULTURE; DENITRIFICATION; GAS; METABOLITE; PSEUDOMONAS AERUGINOSA;

BACTERIOLOGICAL TECHNIQUES; BIOFILMS; BIOREACTORS; CHROMATOGRAPHY, GAS; DNA, BACTERIAL; IMAGE INTERPRETATION, COMPUTER-ASSISTED; MICROSCOPY, CONFOCAL; NITROGEN; NITROUS OXIDE; PLASMIDS; PSEUDOMONAS AERUGINOSA; TIME FACTORS;

PSEUDOMONAS AERUGINOSA;

EID: 50949109590     PISSN: 00992240     EISSN: None     Source Type: Journal    
DOI: 10.1128/AEM.00801-08     Document Type: Article

References (31)

1. Alvarez-Ortega, C., and C. Harwood. 2007. Responses of Pseudomonas aeruginosa to low oxygen indicate that growth in the cystic fibrosis lung is by aerobic respiration. Mol. Microbiol. 65:153-165.
2. Andrade do Canto, C., J. Rodrigues, S. Ratusznei, M. Zaiat, and E. Foresti. 2008. Feasibility of nitrification/denitrification in a sequencing batch biofilm reactor with liquid circulation applied to post-treatment. Bioresource Technol. 99:644-654.
3. Chen, F., Q. Xia, and L. Ju. 2006. Competition between oxygen and nitrate respirations in continuous culture of Pseudomonas aeruginosa performing aerobic denitrification. Biotechnol. Bioeng. 93:1069-1078.
4. DeBeer, D., P. Stoodley, F. Roe, and Z. Lewandowski. 1994. Effects of biofilm structure on oxygen distribution and mass transport. Biotechnol. Bioeng. 43:1131-1138.
5. De Kievit, T., M. Parkins, R. Gillis, R. Srikumar, H. Ceri, K. Poole, B. Iglewski, and D. Storey. 2001. Multidrug efflux pumps: expression patterns and contribution to antibiotic resistance in Pseudomonas aeruginosa biofilms. Antimicrob. Agents Chemother. 45:1761-1770.
6. Drepper, T., T. Eggert, F. Circolone, A. Heck, U. Krauss, J. Guterl, M. Wendorff, A. Losi, W. Gärtner, and K. Jaeger. 2007. Reporter proteins for in vivo fluorescence without oxygen. Nat. Biotechnol. 25:443-445.
7. Geesey, G., W. Richardson, H. Yeomans, R. Irvin, and J. Costerton. 1977. Microscopic examination of natural sessile bacterial populations from an alpine stream. Can. J. Microbiol. 23:1733-1736.
8. Hansen, M., R. J. Palmer, C. Udsen, D. White, and S. Molin. 2001. Assessment of GFP fluorescence in cells of Streptococcus gordonii under conditions of low pH and low oxygen concentration. Microbiology 147:1383-1391.
9. Hernandez, D., and J. Rowe. 1985. Gas chromatographic assay for in vitro complementation of Pseudomonas aeruginosa mutants deficient in nitrate reduction. Appl. Environ. Microbiol. 49:24-27.
10. Heydorn, A., A. Nielsen, M. Hentzer, C. Sternberg, M. Givskov, B. Ersbøll, and S. Molin. 2000. Quantification of biofilm structures by the novel computer program COMSTAT. Microbiology 146:2395-2407.
11. James, G., D. Korber, D. Caldwell, and J. Costerton. 1995. Digital image analysis of growth and starvation responses of a surface-colonizing Acinetobacter sp. J. Bacteriol. 177:907-915.
12. Lawrence, J., G. Swerhone, G. Leppard, T. Araki, X. Zhang, M. West, and A. Hitchcock. 2003. Scanning transmission X-ray, laser scanning, and transmission electron microscopy mapping of the exopolymeric matrix of microbial biofilms. Appl. Environ. Microbiol. 69:5543-5554.
13. Maseda, H., K. Saito, A. Nakajima, and T. Nakae. 2000. Variation of the mexT gene, a regulator of the MexEF-oprN efflux pump expression in wildtype strains of Pseudomonas aeruginosa. FEMS Microbiol. Lett. 192:107-112.
14. Maseda, H., I. Sawada, K. Saito, H. Uchiyama, T. Nakae, and N. Nomura. 2004. Enhancement of the mexAB-oprM efflux pump expression by a quorum-sensing autoinducer and its cancellation by a regulator, MexT, of the mexEF-oprN efflux pump operon in Pseudomonas aeruginosa. Antimicrob. Agents. Chemother. 48:1320-1328.
15. McLean, R., C. Bates, M. Barnes, C. McGowin, and G. Aron. 2004. Methods of studying biofilms, p. 379-413. In M. Ghannoum and G. A. O'Toole (ed.), Microbial biofilms. ASM Press, Washington, DC.
16. Nicholas, D. J. D., and A. Nason. 1957. Determination of nitrate and nitrite. Methods Enzymol. 3:981-984.
17. Paddock, S. 2002. Confocal reflection microscopy. BioTechniques 32:274-278.
18. Palmer, R. J. 1999. Microscopy flow cells: perfusion chambers for real-time study of biofilms. Methods Enzymol. 310:160-166.
19. Remington, S. 2006. Fluorescent proteins: maturation, photochemistry and photophysics. Curr. Opin. Struct. Biol. 16:714-721.
20. Riedel, K., M. Hentzer, O. Geisenberger, B. Huber, A. Steidle, H. Wu, N. Høiby, M. Givskov, S. Molin, and L. Eberl. 2001. N-Acylhomoserine-lactone-mediated communication between Pseudomonas aeruginosa and Burkholderia cepacia in mixed biofilms. Microbiology 147:3249-3262.
21. Rittman, B. 2004. Biofilms in water industry, p. 359-378. In M. Ghannoum and G. A. O'Toole (ed.), Microbial biofilms. ASM Press, Washington, DC.
22. Sambrook, J., and D. W. Russell. 2001. Molecular cloning: a laboratory manual, 3rd ed. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
23. Simon, R., M. O'Connell, M. Labes, and A. Pühler. 1986. Plasmid vectors for the genetic analysis and manipulation of rhizobia and other gram-negative bacteria. Methods Enzymol. 118:640-659.
24. Song, B., and L. Leff. 2006. Influence of magnesium ions on biofilm formation by Pseudomonas fluorescens. Microbiol. Res. 161:355-361.
25. Sternberg, C., B. Christensen, T. Johansen, A. Toftgaard Nielsen, J. Andersen, M. Givskov, and S. Molin. 1999. Distribution of bacterial growth activity in flow-chamber biofilms. Appl. Environ. Microbiol. 65:4108-4117.
26. Toyofuku, M., N. Nomura, T. Fujii, N. Takaya, H. Maseda, I. Sawada, T. Nakajima, and H. Uchiyama. 2007. Quorum sensing regulates denitrification in Pseudomonas aeruginosa PAO1. J. Bacteriol. 189:4969-4972.
27. Werner, E., F. Roe, A. Bugnicourt, M. Franklin, A. Heydorn, S. Molin, B. Pitts, and P. Stewart. 2004. Stratified growth in Pseudomonas aeruginosa biofilms. Appl. Environ. Microbiol. 70:6188-6196.
28. Yamamoto, M., H. Murai, A. Takeda, S. Okunishi, and H. Morisaki. 2005. Bacterial flora of the biofilm formed on the submerged surface of the reed Phragmites australis. Microbes Environ. 20:14-24.
29. Yoon, S., R. Hennigan, G. Hilliard, U. Ochsner, K. Parvatiyar, M. Kamani, H. Allen, T. DeKievit, P. Gardner, U. Schwab, J. Rowe, B. Iglewski, T. McDermott, R. Mason, D. Wozniak, R. Hancock, M. Parsek, T. Noah, R. Boucher, and D. Hassett. 2002. Pseudomonas aeruginosa anaerobic respiration in biofilms: relationships to cystic fibrosis pathogenesis. Dev. Cell 3:593-603.
30. Zhu, G., Y. Peng, B. Li, J. Guo, Q. Yang, and S. Wang. 2008. Biological removal of nitrogen from wastewater. Rev. Environ. Contam. Toxicol. 192:159-195.
31. Zumft, W. 1997. Cell biology and molecular basis of denitrification. Microbiol. Mol. Biol. Rev. 61:533-561.