Towards exposure of elusive metabolic mixed-culture processes: The application of metaproteomic analyses to activated sludge

Water Science and Technology

Volumn 54, Issue 1, 2006, Pages 217-226

  Wilmes, P ^a   Bond, Phil L ^a  

^a UNIVERSITY OF EAST ANGLIA   (United Kingdom)

Author keywords

2D PAGE; Activated sludge; Enhanced biological phosphorus removal; Metaproteomics; Mixed microbial community; Polyphosphate accumulating organism

Indexed keywords

ENHANCED BIOLOGICAL PHOSPHORUS REMOVAL; FLUORESCENCE IN SITU HYBRIDIZATION; METAPROTEOMICS; MIXED MICROBIAL COMMUNITY; POLYPHOSPHATE ACCUMULATING ORGANISM; SEQUENCING BATCH REACTOR;

BIOREACTORS; BIOTECHNOLOGY; CHEMICALS REMOVAL (WATER TREATMENT); PHOSPHORUS; PROTEINS;

ACTIVATED SLUDGE PROCESS;

BACTERIAL PROTEIN; PHOSPHORUS;

ACTIVATED SLUDGE PROCESS; BIOREACTORS; BIOTECHNOLOGY; CHEMICALS REMOVAL (WATER TREATMENT); PHOSPHORUS; PROTEINS;

ACTIVATED SLUDGE; BACTERIUM; BIOREACTOR; COMMUNITY STRUCTURE; METABOLISM; MICROBIAL COMMUNITY; PHOSPHORUS; POPULATION DYNAMICS; REMOVAL EXPERIMENT;

ACTIVATED SLUDGE; ALPHAPROTEOBACTERIA; ARTICLE; BACTERIAL FLORA; BACTERIAL METABOLISM; BETAPROTEOBACTERIA; COMMUNITY STRUCTURE; CONTROLLED STUDY; FLUORESCENCE IN SITU HYBRIDIZATION; NONHUMAN; PERFORMANCE; PROTEIN EXPRESSION; PROTEOMICS; RHODOCYCLALES; SEQUENCING BATCH REACTOR; STATISTICAL ANALYSIS; WASTE COMPONENT REMOVAL;

BASE SEQUENCE; DNA PRIMERS; ECOSYSTEM; ELECTROPHORESIS, GEL, TWO-DIMENSIONAL; IN SITU HYBRIDIZATION, FLUORESCENCE; PROTEOBACTERIA; PROTEOME; RHODOCYCLACEAE; SEWAGE;

ALPHAPROTEOBACTERIA; BETAPROTEOBACTERIA; RHODOCYCLUS;

EID: 33746599434     PISSN: 02731223     EISSN: None     Source Type: Book Series    
DOI: 10.2166/wst.2006.390     Document Type: Article

References (28)

1. Amann, R., Snaidr, J., Wagner, M., Ludwig, W. and Schleifer, K.H. (1996). Combination of 16S rRNA-targeted oligonucleotide probes with flow cytometry for analyzing mixed microbial populations. Applied and Environmental Microbiology, 56, 1919-1925.
2. Beer, M., Kong, Y.H. and Seviour, R.J. (2004). Are some putative glycogen accumulating organisms (GAO) in anaerobic: aerobic activated sludge systems members of the Alphaproteobacteria? Microbiology, 150, 2267-2275.
3. Bond, P.L., Erhart, R., Wagner, M., Keller, J. and Blackall, L.L. (1999). Identification of some of the major groups of bacteria in efficient and nonefficient biological phosphorus removal activated sludge systems. Applied and Environmental Microbiology, 61, 4077-4084.
4. Bond, P.L., Hugenholtz, P., Keller, J. and Blackall, L.L. (1995). Bacterial community structures of phosphate-removing and non-phosphate-removing activated sludges from sequencing batch reactor. Applied and Environmental Microbiology, 61, 1910-1916.
5. Crocetti, G.R., Hugenholtz, P., Bond, P.L., Schuler, A., Keller, J., Jenkins, D. and Blackall, L.L. (2000). Identification of polyphosphate-accumulating organisms and design of 16S rRNA-directed probes for their detection and quantification. Applied and Environmental Microbiology, 66, 1175-1182.
6. Crocetti, G.R., Banfield, J.F., Keller, J., Bond, P.L. and Blackall, L.L. (2002). Glycogen-accumulating organisms in laboratory-scale and full-scale wastewater treatment processes. Microbiology, 148, 3353-3364.
7. Curtis, T.P., Sloan, W.T. and Scannell, J.W. (2002). Estimating prokaryotic diversity and its limits. PNAS, 99, 10494-10499.
8. Daims, H., Bruhl, A., Amann, R., Schleifer, K.H. and Wagner, M. (1999). The domain-specific probe EUB338 is insufficient for the detection of all bacteria: development and evaluation of a more comprehensive probe set. Systematic and Applied Microbiology, 22, 434-444.
9. Falkentoft, C.M., Müller, E., Arnz, P., Harremoës, P., Mosbaek, H., Wilderer, P.A. and Wuertz, S. (2002). Population changes in a biofilm reactor for phosphorus removal as evidenced by the use of FISH. Water Research, 36, 491-500.
10. Hesketh, A.R., Chandra, G., Shaw, A.D., Rowland, J.J., Kell, D.B., Bibb, M.J. and Chater, K.F. (2002). Primary and secondary metabolism, and post-translational protein modifications, as portrayed by proteomic analysis of Streptomyces coelicolor. Molecular Microbiology, 46, 917-932.
11. Hesselmann, R.P.X., Werlen, C., Hahn, D., van der Meer, J.R. and Zehnder, A.J.B. (1999). Enrichment, phylogenetic analysis and detection of a bacterium that performs enhanced biological phosphate removal in activated sludge. Systematic and Applied Microbiology, 22, 454-465.
12. Lucchini, S., Thompson, A. and Hinton, J.C.D. (2001). Microarrays for microbiologists. Microbiology, 147, 1403-1414.
13. Manz, W., Amman, R., Ludwig, W., Wagner, M. and Schleifer, K.H. (1992). Phylogenetic oligonucleotide probes for the major subclasses of Proteobacteria: problems and solutions. Systematic and Applied Microbiology, 15, 593-600.
14. McMahon, K.D., Dojka, M.A., Pace, N.R., Jenkins, D. and Keasling, J.D. (2002). Polyphosphate kinase from activated sludge performing enhanced biological phosphorus removal. Applied and Environmental Microbiology, 68, 4971-4978.
15. Mino, T., van Loosdrecht, M.C.M. and Heijnen, J.J. (1998). Microbiology and biochemistry of the enhanced biological phosphate removal process. Water Research, 32, 3193-3207.
16. Ram, R.J., VerBerkmoes, N.C., Thelen, M.P., Tyson, G.W., Baker, B.J., Blake, R.C., II, Shah, M., Hettich, R.L. and Banfield, J.F. (2005). Community proteomics of a natural microbial biofilm. Science, 308, 1915-1920.
17. Rhee, S.-K, Liu, X., Wu, L., Chong, S.C., Wan, X. and Zhou, J. (2004). Detection of genes involved in biodegradation and biotransformation in microbial communities by using 50-mer oligonucleotide microarrays. Applied and Environmental Microbiology, 70, 4303-4317.
18. Rodriguez-Valera, F. (2004). Environmental genomics, the big picture? FEMS Microbiology Letters, 231, 153-158.
19. Roller, C., Wagner, M., Amann, R., Ludwig, W. and Schleifer, K.H. (1994). In situ probing of gram-positive bacteria with high DNA G + C content using 23S rRNA-targeted oligonucleotides. Microbiology, 140, 2849-2858.
20. Seviour, R.J., Mino, T. and Onuki, M. (2003). The microbiology of biological phosphorus removal in activated sludge systems. FEMS Microbiology Reviews, 27, 99-127.
21. Tyers, M. and Mann, M. (2003). From genomics to proteomics. Nature Biotechnology, 422, 193-197.
22. Tyson, G.W., Chapman, J., Hugenholtz, P., Allen, E.E., Ram, R.J., Richardson, P.M., Solovyev, V.V., Rubin, E.M., Rokhsar, D.S. and Banfield, J.F. (2004). Community structure and metabolism through reconstruction of microbial genomes from the environment. Nature, 428, 37-43.
23. Venter, J.C., Remington, K., Heidelberg, J.F., Halpern, A.L., Rusch, D., Eisen, J.A., Wu, D., Paulsen, I., Nelson, K.E., Nelson, W., Fouts, D.E., Levy, S., Knap, A.H., Lomas, M.W., Nealson, K., White, O., Peterson, J., Hoffman, J., Parsons, R., Baden-Tillson, H., Pfannkoch, C., Rogers, Y.-H. and Smith, H.O. (2004). Environmental genome shotgun sequencing of the Sargasso Sea. Science, 304, 66-74.
24. Wagner, M. and Loy, A. (2002). Bacterial community composition and function in sewage treatment systems. Current Opinion in Biotechnology, 13, 218-227.
25. Wang, H. and Hanash, S. (2003). Multi-dimensional liquid phase based separations in proteomics. Journal of Chromatography B, 787, 11-18.
26. Washburn, M.P. and Yates, J.R. (2000). Analysis of the microbial proteome. Current Opinion in Microbiology, 3, 292-297.
27. Wilmes, P. and Bond, P.L. (2004). The application of two-dimensional polyacrylamide gel electrophoresis and downstream analyses to a mixed community of prokaryotic microorganisms. Environmental Microbiology, 6, 911-920.
28. Wilmes, P. Lifting the shroud of mystery on the metabolism of enhanced biological phosphorus removal through metaproteomics. (in preparation).