In situ visualization of high genetic diversity in a natural microbial community

Journal of Bacteriology

Volumn 178, Issue 12, 1996, Pages 3496-3500

  Amann, Rudolf ^a   Snaidr, Jiri ^a   Wagner, Michael ^a   Ludwig, Wolfgang ^a   Schleifer, Karl Heinz ^a  

^a TECHNICAL UNIVERSITY OF MUNICH   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

OLIGONUCLEOTIDE;

ACTIVATED SLUDGE; ARTICLE; BACTERIAL GENETICS; BIODIVERSITY; CONFOCAL LASER MICROSCOPY; GENOTYPE; IN SITU HYBRIDIZATION; NONHUMAN; PHYLOGENY; PRIORITY JOURNAL; RNA SEQUENCE; SEQUENCE ANALYSIS;

BACTERIA (MICROORGANISMS); PROTEOBACTERIA;

EID: 0029890507     PISSN: 00219193     EISSN: None     Source Type: Journal    
DOI: 10.1128/jb.178.12.3496-3500.1996     Document Type: Article

References (28)

1. Amann, R., N. Springer, W. Ludwig, H.-D. Görtz, and K.-H. Schleifer. 1991. Identification and phylogeny of uncultured bacterial endosymbionts. Nature (London) 351:161-164.
2. Amann, R. I. 1995. Fluorescently labelled, rRNA-targeted oligonucleotide probes in the study of microbial ecology. Mol. Ecol, 4:543-554.
3. Amann, R. I., L. Krumholz, and D. A. Stahl. 1990. Fluorescent-oligonucleotide probing of whole cells for determinative, phylogenetic, and environmental studies in microbiology. J. Bacteriol. 172:762-770.
4. 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.
5. Arnhelm, N., and H. A. Ehrlich. 1992. Polymerase chain reaction strategy. Annu. Rev. Biochem. 61:131-156.
6. Barns, S. M., R. E. Fundyga, M. W. Jeffrles, and N. R. Pace. 1994. Remarkable archaeal diversity detected in a Yellowstone National Park hot spring environment. Proc. Natl. Acad. Sci. USA 91:1609-1613.
7. Bond, P. L., P. Hugenholtz, J. Keller, and L. L. Blackall. 1995. Bacterial community structures of phosphate-removing and non-phosphate-removing activated sludges from sequencing batch reactors. Appl. Environ. Microbiol. 61:1910-1916.
8. Brosius, J., T. J. Dull, D. D. Sleeter, and H. F. Noller. 1981. Gene organization and primary structure of a ribosomal RNA operon from Escherichia coli. J. Mol. Biol. 148:107-127.
9. Bull, A. T., M. Goodfellow, and J. H. Slater. 1992. Biodiversity as a source of innovation in biotechnology. Annu. Rev. Microbiol. 46:219-252.
10. Chen, E. Y., and P. H. Seeburg. 1985. Supercoil sequencing: a fast and simple method for sequencing plasmid DNA. DNA 4:165-170.
11. DeLong, E. F., G. S. Wickham, and N. R. Pace. 1989. Phylogenetic stains: ribosomal RNA-based probes for the identification of single microbial cells. Science 243:1360-1363.
12. DeLong, E. F., K. Y. Wu, B. B. Prezelin, and R. V. M. Jovine. 1994. High abundance of Archaea in Antarctic marine picoplankton. Nature (London) 371:695-697.
13. Dryden, S. C., and S. Kaplan. 1990. Localization and structural analysis of the ribosomal RNA operons of Rhodobacter sphaeroides. Nucleic Acids Res. 18:7267-7277.
14. Fleischmann, R. D., et al. 1995. Whole-genome random sequencing and assembly of Haemophilus influenzae Rd. Science 269:496-512.
15. Giovannoni, S. J., T. B. Britschgi, C. L. Moyer, and K. G. Field. 1990. Genetic diversity in Sargasso Sea bacterioplankton. Nature (London) 345: 60-63.
16. Kopczlnsky, E. D., M. M. Bateson, and D. M. Ward. 1994. Recognition of chimeric small-subunit ribosomal DNAs composed of genes from uncultivated microorganisms. Appl. Environ. Microbiol. 60:746-748.
17. Liesack, W., H. Weyland, and E. Stackebrandt. 1991. Potential risks of gene amplification by PCR as determined by 16S rDNA analysis of a mixed-culture of strict barophilic bacteria. Microb. Ecol. 21:191-198.
18. Maidak, B. L., N. Larsen, M. J. McCaughey, R. Overbeek, G. J. Olsen, K. Fogel, J. Blandy, and C. R. Woese. 1994. The ribosomal database project. Nucleic Acids Res. 22:3485-3487.
19. Mylvaganam, S., and P. P. Dennis. 1992. Sequence heterogeneity between the two genes encoding 16S rRNA from the halophilic archaebacterium Haloarcula marismortui. Genetics 130:399-410.
20. Olsen, G. J., D. J. Lane, S. J. Glovannoni, N. R. Pice, and D. A. Stahl. 1986. Microbial ecology and evolution: a ribosomal RNA approach. Annu. Rev. Microbiol. 40:337-365.
21. Saiki, R. K., D. H. Gelfand, S. Stoffel, S. J. Scharf, R. Higuchi, G. T. Horn, K. B. Mullis, and H. A. Ehrlich. 1988. Primer-directed enzymatic amplification of DNA with a thermostable DNA polymerase. Science 239:487-491.
22. VandePeer, Y., I. Vandenbroeck, P. DeRijk, and R DeWachter. 1994. Database on the structure of small ribosomal subunit RNA structures. Nucleic Acids Res. 22:3488-3494.
23. Wagner, M., R. Amann, P. Kämpfer, B. Assmus, A. Hartmann, P. Hutzler, N. Springer, and K. H. Schleifer. 1994. Identification and in situ detection of gram-negative filamentous bacteria in activated sludge. Syst. Appl. Microbiol. 17:405-417.
24. Wagner, M., R. Amann, H. Lemmer, and K. H. Schleifer. 1993. Probing activated sludge with proteobacteria-specific oligonucleotides: inadequacy of culture-dependent methods for describing microbial community structure. Appl. Environ. Microbiol. 59:1520-1525.
25. Wagner, M., B. Assmus, A. Hartmann, P. Hutzler, and R. Amann. 1994. In situ analysis of microbial consortia in activated sludge using fluorescently labeled, rRNA-targeted oligonucleotide probes and scanning confocal laser microscopy. J. Microsc. 176:181-187.
26. Ward, D. M., M. M. Bateson, R. Weller, and A. L. Ruff-Roberts. 1992. Ribosomal RNA analysis of microorganisms as they occur in nature. Adv. Microb. Ecol. 12:219-286.
27. Ward, D. M., R. Weller, and M. M. Bateson. 1990. 16S rRNA sequences reveal numerous uncultured microorganisms in a natural community. Nature (London) 345:63-65.
28. Woese, C. R. 1987. Bacterial evolution. Microbiol. Rev. 51:221-271.