Novel major bacterial candidate division within a municipal anaerobic sludge digester

Applied and Environmental Microbiology

Volumn 71, Issue 4, 2005, Pages 2145-2153

  Chouari, Rakia ^a   Le Paslier, Denis ^a   Dauga, Catherine ^b   Daegelen, Patrick ^a   Weissenbach, Jean ^a   Sghir, Abdelghani ^a,c  

^a UNIVERSITÉ D EVRY VAL D ESSONNE   (France)

^b INSTITUT PASTEUR   (France)

^c CENTRE NATIONAL DE SÉQUENÇAGE   (France)

Author keywords

[No Author keywords available]

Indexed keywords

FLUORESENT IN SITU HYBRIDIZATION (FISH); PHYLOGENETIC ANALYSIS; SLUDGE DIGESTERS; WASTEWATER PLANTS;

CLONING; GENES; MICROBIOLOGY; MOLECULAR BIOLOGY; RNA; SEWAGE SLUDGE; WASTEWATER;

BACTERIA;

RNA 16S;

WASTEWATER;

ANAEROBIC SLUDGE DIGESTER; ARTICLE; BACTERIUM; CLONE; DOT HYBRIDIZATION; FLUORESCENCE IN SITU HYBRIDIZATION; GENE AMPLIFICATION; GENE CLUSTER; GENE SEQUENCE; GENETIC VARIABILITY; INTESTINE; ISOPTERA; MICROBIOLOGICAL EXAMINATION; MONOPHYLY; NONHUMAN; NUCLEOTIDE SEQUENCE; PHYLOGENY; PHYLUM; PLANCTOMYCETALES; POLYMERASE CHAIN REACTION; RNA PROBE; VERRUCOMICROBIA; WASTE WATER;

BACTERIA, ANAEROBIC; DNA, BACTERIAL; DNA, RIBOSOMAL; GENES, RRNA; IMMUNOBLOTTING; IN SITU HYBRIDIZATION, FLUORESCENCE; MOLECULAR SEQUENCE DATA; PHYLOGENY; RNA, RIBOSOMAL, 16S; SEQUENCE ANALYSIS, DNA; SEWAGE; WASTE DISPOSAL, FLUID;

EID: 17444419417     PISSN: 00992240     EISSN: None     Source Type: Journal    
DOI: 10.1128/AEM.71.4.2145-2153.2005     Document Type: Article

References (26)

1. Archer, D. B., and B. H. Kirsop. 1990. The microbiology and control of anaerobic digestion, p. 43-89. In A. Wheatley (ed.), Anaerobic digestion: a waste treatment technology. Elsevier Science Publishing Ltd., London, England.
2. Cho, J. C., K. L. Vergin, R. M. Morris, and S. J. Giovannoni. 2004. Lentisphaera araneosa gen. nov., sp. nov, a transparent exopolymer producing marine bacterium, and the description of a novel bacterial phylum, Lentisphaerae. Environ. Microbiol. 6:611-621.
3. Chouari, R., D. Le Paslier, P. Daegelen, P. Ginestet, J. Weissenbach, and A. Sghir. 2003. Molecular evidence for novel planctomycete diversity in a municipal wastewater treatment plant. Appl. Environ. Microbiol. 69:7354-7363.
4. Daims, H., A. Bruhl, R. Amann, K. H. Schleifer, and M. Wagner. 1999. The domain-specific probe EUB338 is insufficient for the detection of all Bacteria: development and evaluation of a more comprehensive probe set. Syst. Appl. Microbiol. 22:434-444.
5. Derakshani, M., T. Lukow, and W. Liesack. 2001. Novel bacterial lineages at the (sub)division level as detected by signature nucleotide-targeted recovery of 16S rRNA genes from bulk soil and rice roots of flooded rice microcosms. Appl. Environ. Microbiol. 67:623-631.
6. Dojka, M. A., J. K. Harris, and N. R. Pace. 2000. Expanding the known diversity and environmental distribution of an uncultured phylogenetic division of bacteria. Appl. Environ. Microbiol. 66:1617-1621.
7. Dollhopf, S. L., S. A. Hashsham, and J. M. Tiedje. 2001. Interpreting 16S rDNA T-RFLP data: application of self-organizing maps and principal component analysis to describe community dynamics and convergence. Microb. Ecol. 42:495-505.
8. Ewing, B., and P. Green. 1998. Base-calling of automated sequencer traces using phred. II. Error probabilities. Genome Res. 8:186-194.
9. Goebel, B. M., and E. Stackebrandt. 1994. Cultural and phylogenetic analysis of mixed microbial populations found in natural and commercial bioleaching environments. Appl. Environ. Microbiol. 60:1614-1621.
10. Gu, A. Z., B. P. Hedlund, J. T. Staley, S. E. Strand, and H. D. Stensel. 2004. Analysis and comparison of the microbial community structures of two enrichment cultures capable of reductively dechlorinating TCE and cis-DCE. Environ. Microbiol. 6:45-54.
11. Harris, J. K., S. T. Kelley, and N. R. Pace. 2004. New perspective on uncultured bacterial phylogenetic division OP11. Appl. Environ. Microbiol. 70:845-849.
12. Hugenholtz, P., B. M. Goebel, and N. R. Pace. 1998. Impact of culture-independent studies on the emerging phylogenetic view of bacterial diversity. J. Bacteriol. 180:4765-4774. (Erratum, 180:6793.)
13. Hugenholtz, P., C. Pitulle, K. L. Hershberger, and N. R. Pace. 1998. Novel division level bacterial diversity in a Yellowstone hot spring. J. Bacteriol. 180:366-376.
14. Juretschko, S., A. Loy, A. Lehner, and M. Wagner. 2002. The microbial community composition of a nitrifying-denitrifying activated sludge from an industrial sewage treatment plant analyzed by the full-cycle rRNA approach. Syst. Appl. Microbiol. 25:84-99.
15. Marchesi, J. R., T. Sato, A. J. Weightman, T. A. Martin, J. C. Fry, S. J. Hiom, D. Dymock, and W. G. Wade. 1998. Design and evaluation of useful bacterium-specific PCR primers that amplify genes coding for bacterial 16S rRNA. Appl. Environ. Microbiol. 64:795-799.
16. Neef, A., R. Amann, H. Schlesner, and K. H. Schleifer. 1998. Monitoring a widespread bacterial group: in situ detection of planctomycetes with 16S rRNA-targeted probes. Microbiology 144:3257-3266.
17. Posada, D., and K. A. Crandall. 2001. Selecting models of nucleotide substitution: an application to human immunodeficiency virus 1 (HIV-1). Mol. Biol. Evol. 18:897-906.
18. Rappe, M. S., and S. J. Giovannoni. 2003. The uncultured microbial majority. Annu. Rev. Microbiol. 57:369-394.
19. Rossetti, S., L. L. Blackall, M. Majone, P. Hugenholtz, J. J. Plumb, and V. Tandoi. 2003. Kinetic and phylogenetic characterization of an anaerobic dechlorinating microbial community. Microbiology 149:459-469.
20. Saitou, N., and M. Nei. 1987. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 4:406-425.
21. Sghir, A., D. Antonopoulos, and R. I. Mackie. 1998. Design and evaluation of a Lactobacillus group-specific ribosomal RNA-targeted hybridization probe and its application to the study of intestinal microecology in pigs. Syst. Appl. Microbiol. 21:291-296.
22. Sghir, A., G. Gramet, A. Suau, V. Rochet, P. Pochart, and J. Dore. 2000. Quantification of bacterial groups within human fecal flora by oligonucleotide probe hybridization. Appl. Environ. Microbiol. 66:2263-2266.
23. Stahl, D. A., B. Flesher, H. R. Mansfield, and L. Montgomery. 1988. Use of phylogenetically based hybridization probes for studies of ruminai microbial ecology. Appl. Environ. Microbiol. 54:1079-1084.
24. Weisburg, W. G., S. M. Barns, D. A. Pelletier, and D. J. Lane. 1991. 16S ribosomal DNA amplification for phylogenetic study. J. Bacteriol. 173:697-703.
25. Woese, C. R. 1987. Bacterial evolution. Microbiol. Rev. 51:221-271.
26. Zoetendal, E. G., C. M. Plugge, A. D. Akkermans, and W. M. de Vos. 2003. Victivallis vadensis gen. nov., sp. nov., a sugar-fermenting anaerobe from human faeces. Int. J. Syst. Evol. Microbiol. 53:211-215.