Analysis of microbial communities using culture-dependent and culture-independent approaches in an anaerobic/aerobic SBR reactor

Journal of Microbiology

Volumn 44, Issue 2, 2006, Pages 155-161

  Lu, Shipeng ^a   Park, Minjeong ^a   Ro, Hyeon Su ^a   Lee, Dae Sung ^b   Park, Woojun ^a,c   Jeon, Che Ok ^a  

^a Gyeongsang National University   (South Korea)

^b Pohang University of Science and Technology (POSTECH)   (South Korea)

^c Korea University   (South Korea)

Author keywords

Culturability; Microbial community; PCR

Indexed keywords

ACTINOBACTERIA; BACTERIA (MICROORGANISMS); BACTEROIDETES; GAMMAPROTEOBACTERIA;

PHOSPHORUS; RNA 16S;

ACTINOBACTERIA; AEROBIC METABOLISM; ANAEROBIC GROWTH; ARTICLE; BACTERIAL GENE; BACTEROIDETES; BIODIVERSITY; BIOREACTOR; BIOREMEDIATION; CHEMISTRY; CLASSIFICATION; COMPARATIVE STUDY; CULTURE TECHNIQUE; DNA SEQUENCE; GENE LIBRARY; GENETICS; ISOLATION AND PURIFICATION; METABOLISM; METHODOLOGY; MICROBIOLOGY; PHYLOGENY; POLYMERASE CHAIN REACTION; PROTEOBACTERIA; RESTRICTION FRAGMENT LENGTH POLYMORPHISM; SEWAGE;

ACTINOBACTERIA; AEROBIOSIS; ANAEROBIOSIS; BACTEROIDETES; BIODEGRADATION, ENVIRONMENTAL; BIODIVERSITY; BIOREACTORS; CELL CULTURE TECHNIQUES; GENE LIBRARY; GENES, BACTERIAL; PHOSPHORUS; PHYLOGENY; POLYMERASE CHAIN REACTION; POLYMORPHISM, RESTRICTION FRAGMENT LENGTH; PROTEOBACTERIA; RNA, RIBOSOMAL, 16S; SEQUENCE ANALYSIS, DNA; SEWAGE;

EID: 33745782349     PISSN: 12258873     EISSN: 12258873     Source Type: Journal    
DOI: None     Document Type: Article

References (27)

1. Acinas, S.G., V. Klepac-Ceraj, D.E. Hunt, C. Pharino, I. Ceraj, D.L. Distel, and M.F. Polz. 2004. Fine-scale phylogenetic architecture of a complex bacterial community. Nature 430, 551-554.
2. Amann, R.I., W. Ludwig, and K.H. Schleifer. 1995. Phylogenetic identification and in situ detection of individual microbial cells without cultivation. Microbiol. Rev. 59, 143-169.
3. American public health association. Standard methods for the examination of water and wastewater, 19th ed. Washington, DC: American Public Health Association, 1995.
4. Briones, A. and L. Raskin. 2003. Diversity and dynamics of microbial communities in engineered environments and their implications for process stability. Curr. Opin. Biotechnol. 14, 270-276.
5. Davis, K.E., S.J. Joseph, and P.H. Janssen. 2005. Effects of growth medium, inoculum size, and incubation time on culturability and isolation of soil bacteria. Appl. Environ. Microbiol. 71, 826-834.
6. Ellis, R.J., P. Morgan, A.J. Weightman, and J.C. Fry. 2003. Cultivation-dependent and -independent approaches for determining bacterial diversity in heavy-metal-contaminated soil. Appl. Environ. Microbiol. 69, 1662-1669.
7. Eschenhagen, M., M. Schuppler, and I. Roske. 2003. Molecular characterization of the microbial community structure in two activated sludge systems for the advanced treatment of domestic effluents. Water Res. 37, 3224-3232.
8. Felsenstein, J. 2002. PHYLIP (phylogeny inference package), version 3.6a, Seattle: Department of Genetics, University of Washington, Seattle, WA, USA.
9. Janssen, P.H., P.S. Yates, B.E. Grinton, P.M. Taylor, and M. Sait. 2002. Improved culturability of soil bacteria and isolation in pure culture of novel members of the divisions Acidobacteria, Actinobacteria, Proteobacteria, and Verrucomicrobia. Appl. Environ. Microbiol. 68, 2391-2396.
10. Jeon, C.O. and J.M. Park. 2000. Enhanced biological phosphorus removal in a sequencing batch reactor supplied with glucose as a sole carbon source. Water Res. 34, 3470-3480.
11. Jeon, C.O., D.S. Lee, and J.M. Park. 2001. Enhanced biological phosphorus removal in an anaerobic/aerobic sequencing batch reactor: Characteristics of carbon metabolism. Water Environ. Res. 73, 301-306.
12. Jeon, C.O., W. Park, P. Padmanabhan, C. DeRito, J.R. Snape, and E.L. Madsen. 2003a. Discovery of a bacterium, with distinctive dioxygenase, that is responsible for in situ biodegradation in contaminated sediment. Proc. Natl. Acad. Sci. USA 100, 13591-13596.
13. Jeon, C.O., D.S. Lee, and J.M. Park. 2003b. Microbial communities in activated sludge performing enhanced biological phosphorus removal in a sequencing batch reactor. Water Res. 37, 2195-2205.
14. Kämpfer, P., R. Erhart, C. Beimfohr, J. Böhringer, M. Wagner, and R. Amann. 1996. Characterization of bacterial communities from activated sludge: culture-dependent numerical identification verse in situ identification using group- and genus-specific rRNA-targeted oligonucleotide probes. Microb. Ecol. 32, 101-121.
15. Kim, J.B., M.S. Moon, D.H. Lee, S.T. Lee, M. Bazzicalupo, and C.K. Kim. 2004. Comparative analysis of cyanobacterial communities from polluted reservoirs in Korea. J. Microbiol. 14, 181-187.
16. Kong, Y., J.L. Nielsen, and P.H. Nielsen. 2004. Microautoradiographic study of Rhodocyclus-related polyphosphate-accumulating bacteria in full-scale enhanced biological phosphorus removal plants. Appl. Environ. Microbiol. 70, 5383-5390.
17. Klepac-Ceraj, V., M. Bahr, B.C. Crump, A.P. Teske, J.E. Hobbie, and M.F. Polz. 2004. High overall diversity and dominance of microdiverse relationships in salt marsh sulphate-reducing bacteria. Environ. Microbiol. 6, 686-698.
18. Lane, D.J. 1991. 16S/23S rRNA Sequencing. In E. Stackebrandt and M. Goodfellow (ed.), Nucleic Acid Techniques in Bacterial Systematics. p. 115-147. John Wiley & Sons, New York.
19. Lim, Y.W., S.A. Lee, S.B. Kim, H.Y. Yong, S.H. Yeon, Y.K. Park, D.W. Jeong, J.S. Park. 2005. Diversity of denitrifying bacteria isolated from Daejeon sewage treatment plant. J. Microbiol. 15, 383-390.
20. Mino, T., V. Arun, Y.T. Suzuki, and T. Matsuo. 1987. Effect of phosphorus accumulation on acetate metabolism in the biological phosphorus removal process, p. 27-38. In R. Ramadori (ed.). Biological Phosphate Removal from Wastewaters. Pergamon Press, Oxford, United Kingdom.
21. Qiu, X., L. Wu, H. Huang, P.E. McDonel, A.V. Palumbo, J.M. Tiedje, and J. Zhou. 2001. Evaluation of PCR-generated chimeras, mutations, and heteroduplexes with 16S rRNA gene-based cloning. Appl. Environ. Microbiol. 67, 880-887.
22. Seviour, R.J., T. Mino, and M. Onuki. 2003. The microbiology of biological phosphorus removal in activated sludge systems. FEMS Microbiol. Rev. 27, 99-127.
23. Smolders, G.J.F., J. van der Meij, M.C.M. van Loosdrecht, and J.J. Heijnen. 1994. Model of the anaerobic metabolism of the biological phosphorus removal process: stoichiometry and pH influences. Biotechnol. Bioeng. 43, 461-470.
24. Thompson, J.D., D.G. Higgins, and T.J. Gibson. 1994. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res. 22, 4673-4680.
25. Thompson, J.R., L.A. Marcelino, and M.F. Polz. 2002. Heteroduplexes in mixed-template amplifications: formation, consequence and elimination by 'reconditioning PCR'. Nucleic Acids Res. 30, 2083-2088.
26. Wang, G.C. and Y. Wang. 1997. Frequency of formation of chimeric molecules as a consequence of PCR coamplification of 16S rRNA genes from mixed bacterial genomes. Appl. Environ. Microbiol. 63, 4645-4650.
27. Zhou, J., M.A. Bruns, and J.M. Tiedje. 1996. DNA recovery from soils of diverse composition. Appl. Environ. Microbiol. 62, 316-322.