Methanogenic population structure in a variety of anaerobic bioreactors

FEMS Microbiology Letters

Volumn 219, Issue 2, 2003, Pages 297-304

  McHugh, Sharon ^a   Carton, Micheal ^a   Mahony, Thérèse ^a   O'Flaherty, Vincent ^a  

^a NATIONAL UNIVERSITY OF IRELAND   (Ireland)

Author keywords

16S rRNA; Amplified rDNA restriction analysis; Anaerobic digestion; Granular sludge; Methanogenic; Methanosaeta; Psychrophilic

Indexed keywords

RIBOSOME DNA; RNA 16S;

ANAEROBIC DIGESTION; ARTICLE; BIOMASS; BIOREACTOR; CYTOLYSIS; DNA EXTRACTION; GENE AMPLIFICATION; GENE SEQUENCE; METHANOBACTERIUM; NUCLEOTIDE SEQUENCE; PHYLOGENY; PRIORITY JOURNAL; RESTRICTION MAPPING; RNA SEQUENCE; SEWAGE; SLUDGE; TAXONOMY; TEMPERATURE; WASTE WATER;

METHANOSAETA;

EID: 0037469604     PISSN: 03781097     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0378-1097(03)00055-7     Document Type: Article

References (48)

1. Lettinga G. Anaerobic digestion and wastewater treatment systems. Antonie van Leeuwenhoek. 67:1995;3-28.
2. O'Flaherty V., Colleran E. Effect of sulphate addition on volatile fatty acid and ethanol degradation in an anaerobic hybrid reactor I: process disturbance and remediation. Bioresource Technol. 68:1999;101-107.
3. Grotenhuis J.T.C., Smit M., Plugge C.M., Yuansheng X., van Lammeran A.A.M., Stams A.J.M., Zehnder A.J.B. Bacteriological composition and structure of granular sludge adapted to different substrate. Appl. Environ. Microbiol. 57:1991;1942-1949.
4. O' Flaherty V., Lens P.N.L., de Beer D., Colleran E. Effect of feed composition on aggregate characteristics in anaerobic upflow reactors. Appl. Microbiol. Biotechnol. 47:1997;102-107.
5. Young, J.C. and McCarty, P.L. (1969) The anaerobic filter for wastewater treatment. J. Water Pollut. Control Fed. 41, 160 pp.
6. Harmsen H.J.M., Kengen H.M.P., Akkermans A.D.L., Stams A.J.M., de Vos W.M. Detection and localisation of syntrophic propionate-oxidising bacteria in granular sludge by in situ hybridisation using 16S rRNA-based oligonucleotide probes. Appl. Environ. Microbiol. 62:1996;1656-1663.
7. Sekiguchi Y., Kamagata Y., Syutsubo K., Ohashi A., Harada H., Nakamura K. Phylogenetic diversity of mesophilic and thermophilic granular sludges determined by 16S rRNA gene analysis. Microbiology. 144:1998;2655-2665.
8. Zumstein E., Moletta R., Godon J.J. Examination of two years of community dynamics in an anaerobic bioreactor using fluorescence polymerase chain reaction (PCR) single-strand conformation polymorphism analysis. Environ. Microbiol. 2:2000;69-70.
9. Chin K.J., Lukow T., Stubner S., Conrad R. Structure and function of the methanogenic archaeal community in stable cellulose-degrading enrichment cultures at two different temperatures (15°C and 30°C). FEMS Microbiol. Ecol. 30:1999;313-326.
10. Marchesi J.R., Weightman A.J., Cragg B.A., Parkes R.J., Fry J.C. Methanogenic and bacterial diversity and distribution in deep gas hydrate sediments from the Cascadia Margin as revealed by 16S rRNA molecular analysis. FEMS Microbiol. Ecol. 34:2001;221-228.
11. Lettinga G., Rebac S., Zeeman G. Challenge of psychrophilic anaerobic wastewater treatment. Trends Biotechnol. 19:2001;363-370.
12. McHugh, S., Carton, M., Mahony, T. and O'Flaherty, V. (2001) Methanogenic population structure of anaerobic granular sludges from pscyhrophilic, mesophilic and thermophilic bioreactors. In: Proceedings of the 9th World Congress, Anaerobic Digestion 2001, Vol. 2 (Van Velsen, A.F.M. and Verstraete, W.H., Eds.), pp. 93-99. IWA Press.
13. Rebac S., van Lier J.B., Lens P., Stams A.J.M., Dekkers F., Swinkels K.T.M., Lettinga G. Psychrophilic anaerobic treatment of low strength wastewaters. Water Sci. Technol. 39:1999;203-210.
14. Uemura S., Harada H. Inorganic composition and microbial characteristics of methanogenic granular sludge grown in a thermophilic upflow anaerobic sludge blanket reactor. Appl. Microbiol. Biotechnol. 43:1995;358-364.
15. Colleran E., Pender S., Philpott U., O'Flaherty V., Leahy B. Full-scale and lab-scale anaerobic treatment of citric acid production wastewater. Biodegradation. 9:1998;233-245.
16. Philpott, U. (2001) Mesophilic and Thermophilic Anaerobic Treatment of Sulphate Containing Wastewater. PhD Thesis, National University of Ireland, Galway.
17. Pender, S. (2000) Mesophilic and Thermophilic Anaerobic Treatment of Molasses-based Wastewater. PhD Thesis, National University of Ireland, Galway.
18. Choi Y.S., Shin E.B., Lee Y.D. Biological phosphorus removal from wastewater in a single reactor combining anaerobic and aerobic conditions. Water Sci. Technol. 34:1996;179-186.
19. McGinley, S. (2002) Anaerobic/aerobic Treatment of Low-strength Wastewaters. PhD Thesis, National University of Ireland, Galway.
20. Zhou J., Bruns M.A., Teidje J.M. DNA recovery from soils of diverse composition. Appl. Environ. Microbiol. 62:1996;316-332.
21. Bitton G., Koopman B., Jung K.H., Voiland G., Kotob M. Modification of the standard epifluorescence microscopic method for total bacterial counts in environmental samples. Water Res. 27:1993;1109-1112.
22. de Long E.F. Archaea in coastal marine sediments. Proc. Natl. Acad. Sci. USA. 89:1992;5685-5689.
23. Burgraff S., Mayer T., Amann R., Schadhauser S., Woese C.R., Stetter K.O. Identifying members of the domain Archaea with rRNA-targeted oligonucleotide probes. Appl. Environ. Microbiol. 60:1994;3112-3119.
24. Moyer C.L., Dobbs F.C., Karl D.M. Estimation of diversity and community structure through restriction fragment length polymorphism distribution analysis of bacterial 16S rRNA genes from a microbial mat at an active, hydrothermal vent system, Loihi Seamount, Hawaii. Appl. Environ. Microbiol. 60:1994;871-879.
25. Altschul S., Madden T.L., Schaffer A.A., Zhang J., Zhang Z., Miller W., Lipman D.J. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. 25:1997;3389-3402.
26. Maidak B.L., Cole J.R., Lilburn T.G., Parker C.T. Jr., Saxman P.R., Stredwick J.M., Garrity G.M., Li B., Olsen G.J., Pramanik S., Schmidt T.M., Tiedje J.M. The RDP (Ribosomal Database Project) continues. Nucleic Acids Res. 28:2000;173-174.
27. Swofford, D.L. (2001) PAUP*. Phylogenetic Analysis Using Parsimony (and Other Methods), Version 4. Sinauer Associates, Sunderland, MA.
28. Godon J.-J., Zumstein E., Dabart P., Habouzit F., Moletta R. Molecular microbial diversity of an anaerobic digester as determined by small-subunit rDNA sequence analysis. Appl. Environ. Microbiol. 63:1997;2802-2813.
29. Macario A.J.L., De Macario E.C. Quantitative immunological analysis of the methanogenic flora of digesters reveals a considerable diversity. Appl. Environ. Microbiol. 54:1988;79-86.
30. Fernandez A., Huang S., Seston S., Xing J., Hickey R., Criddle C., Tiedje J. How stable is stable? Function versus community composition. Appl. Environ. Microbiol. 65:1999;3697-3704.
31. Saitou N., Nei M. The neighbour-joining method: a new method of reconstructing phylogenetic trees. Mol. Biol. Evol. 4:1987;406-425.
32. Griffen M.E., McMahon D.D., Mackie R.I., Raskin L. Methanogenic population dynamics during start-up of anaerobic digesters treating municipal solid waste and biosolids. Biotechnol. Bioeng. 57:1998;342-355.
33. Merkel W., Manz W., Szewzyk U., Krauth K. Population dynamics in anaerobic wastewater reactors: modelling and in situ characterisation. Water Res. 33:1999;2392-2402.
34. Schmidt J.E., Ahring B.K. Immobilisation patterns and dynamics of acetate-utilising methanogens immobilised in sterile granular sludge in upflow anaerobic sludge blanket reactors. Appl. Environ. Microbiol. 65:1999;1050-1054.
35. Lokshina L.Y., Vavilin V.A. Kinetic analysis of the key stages of low temperature methanogenesis. Ecol. Modell. 117:1999;285-303.
36. Lay J.J., Miyahara T., Noike T. Methane release rate and methanogenic bacterial populations in lake sediments. Water Res. 30:1996;901-908.
37. Alves M., Cavaleiro A.J., Ferreira E.C., Amaral A.L., Mota M., da Motta M., Vivier H., Pons M.-N. Characterisation by image analysis of anaerobic sludge under shock conditions. Water Sci. Technol. 41:1999;207.
38. Wu J.H., Liu W.T., Tseng I.C., Cheng S.S. Characterization of microbial consortia in a terephthalate-degrading anaerobic granular sludge system. Microbiology. 147:2001;373-382.
39. Dojka M.A., Hugenholtz P., Haack S.K., Pace N.R. Microbial diversity in a hydrocarbon- and chlorinated-solvent- contaminated aquifer undergoing intrinsic bioremediation. Appl. Environ. Microbiol. 64:1998;3869-3877.
40. Visser F.A., Van Lier J.B., Macario A.J.L., Conway de Macario E. Diversity and population dynamics of methanogenic bacteria in a granular consortium. Appl. Environ. Microbiol. 57:1991;1728-1734.
41. O'Flaherty V., Mahony T., O'Kennedy R., Colleran E. Effect of pH on growth kinetics and sulphide toxicity thresholds of a range of methanogenic, syntrophic and sulphate-reducing bacteria. Process Biochem. 33:1998;1-14.
42. O'Flaherty V., Lens P., Leahy B., Colleran E. Long-term competition between sulphate-reducing and methane-producing bacteria during full-scale anaerobic treatment of citric acid production wastewater. Water Res. 32:1998;815-825.
43. Liesack W., Weyland H., Stackebrandt E. Potential risks of gene amplification by PCR as determined by 16S rDNA analysis of a mixed-culture of strict barophilic bacteria. Microb. Ecol. 21:1991;191-198.
44. Reysenbach A.L., Giver L.J., Wickham G.S., Pace N.R. Differential amplification of rRNA genes by polymerase chain reaction. Appl. Environ. Microbiol. 58:1992;3417-3418.
45. Suzuki M.T., Giovannoni S.J. Bias caused by template annealing in the amplification of mixtures of 16S rRNA genes by PCR. Appl. Environ. Microbiol. 62:1996;625-630.
46. Leclerc M., Delbes C., Moletta R., Godon J.J. Single strand conformation polymorphism monitoring of 16S rDNA Archaea during start-up of an anaerobic digester. FEMS Microbiol. Ecol. 34:2001;213-220.
47. Liu W.T., Chan O.C., Fang H.P. Characterization of microbial community in granular sludge treating brewery wastewater. Water Res. 36:2002;1767-1775.
48. Sekiguchi Y., Kamagata Y., Nakamura K., Ohashi A., Harada H. Flourescence in situ hybridisation using 16S rRNA-targeted oligonucleotide reveals localisation of methanogens and selected uncultured bacteria in mesophilic and thermophilic sludge granules. Appl. Environ. Microbiol. 65:1999;1280-1288.