Evaluation of the phylogenetic diversity of prokaryotic microorganisms in Sphagnum peat bogs by means of fluorescence in situ hybridization (FISH)

Microbiology

Volumn 74, Issue 6, 2005, Pages 722-728

  Pankratov, T A ^a   Belova, S E ^a   Dedysh, S N ^a  

^a WINOGRADSKY INSTITUTE OF MICROBIOLOGY   (Russian Federation)

Author keywords

Fluorescently labeled rRNA targeted oligonucleotide probes; In situ hybridization; Prokaryotic microorganisms; Sphagnum peat bogs

Indexed keywords

ACIDOBACTERIA; ACTINOBACTERIA; ALPHAPROTEOBACTERIA; ARCHAEA; BACTERIA (MICROORGANISMS); BACTEROIDETES; BETAPROTEOBACTERIA; FIRMICUTES; PLANCTOMYCETES; PROKARYOTA; PROTEOBACTERIA; SPHAGNUM;

EID: 29244471309     PISSN: 00262617     EISSN: None     Source Type: Journal    
DOI: 10.1007/s11021-005-0130-8     Document Type: Article

References (21)

1. Gorham, E., Northern Peatlands: Role in Carbon Cycle and Probable Responses to Climate Warming, Ecol. Applic., 1991, vol. 1, pp. 182-195.
2. Zvyagintsev, D.G., Dobrovol'skaya, T.G., Golovchenko, A.V., Zenova, G.M., and Smagina, M.V., The Structure of the Saprotrophic Microbial Complex in Peatlands, Mikrobiologiya, 1991, vol. 60, no. 6, pp. 155-164.
3. Dobrovol'skaya, T.G., Polyanskaya, L.M., Golovchenko, A.V., Smagina, M.V., and Zvyagintsev, D.G., Microbial Pool in Peat Soils, Pochvovedenie, 1991, no. 7, pp. 69-76.
4. Amann, R.I., Ludwig, W., and Schleifer, K.-H., Phylogenetic Identification and In Situ Detection of Individual Microbial Cells without Cultivation, Microbiol. Rev., 1995, vol. 59, pp. 143-169.
5. Dedysh, S.N., Derakshani, M., and Liesack, W., Detection and Enumeration of Methanotrophs in Acidic Sphagnum Peat by 16S rRNA Fluorescence In Situ Hybridization, Including the Use of Newly Developed Oligonucleotide Probes for Methylocella palustris, Appl. Environ. Microbiol., 2001, vol. 67, pp. 4850-4857.
6. Kotsyurbenko, O.R., Chin, K.-J., Glagolev, M.V., Stubner, S., Simankova, M.V., Nozhevnikova, A.N., and Conrad, R., Acetoclastic and Hydrogenotrophic Methane Production and Methanogenic Populations in an Acidic West-Siberian Peat Bog, Environ. Microbiol., 2004, vol. 6, pp. 1159-1173.
7. Amann, R.I., Binder, B.J., Olson, R.J., Chisholm, S.W., Devereux, R., and Stahl, D.A., Combination of 16S rRNA-Targeted Oligonucleotide Probes with Flow Cytometry for Analyzing Mixed Microbial Populations, Appl. Environ. Microbiol., 1990, vol. 56, pp. 1919-1925.
8. Stahl, D.A. and Amann, R., Development and Application of Nucleic Acid Probes, Nucleic Acid Techniques in Bacterial Systematics, Stackebrandt, E. and Goodfellow, M., Ed's., New York: Wiley, 1991, pp. 205-248.
9. Raskin, L., Stromley, J.M., Rittmann, B.E., and Stahl, D.A., Group-Specific 16S rRNA Hybridization Probes To Describe Natural Communities of Methanogens, Appl. Environ. Microbiol., 1994, vol. 60, pp. 1232-1240.
10. Manz, W., Amann, R., Ludwig, W., Wagner, M., and Schleifer, K.-H., Phylogenetic Oligonucleotide Probes for the Major Subclasses of Proteobacteria: Problems and Solutions, Syst. Appl. Microbiol., 1992, vol. 15, pp. 593-600.
11. Rabus, R., Wilkes, H., Schramm, A., Harms, G., Behrends, A., Amann, R., and Widdel, F., Anaerobic Utilization of Alkylbenzenes and n-Alkanes from Crude Oil in an Enrichment Culture of Denitrifying Bacteria Affiliating with the Beta-Subclass of Proteobacteria, Environ. Microbiol., 1999, vol. 1, pp. 145-157.
12. Manz, W., Amann, R., Ludwig, W., Vancanneyt, M., and Schleifer, K.-H., Application of a Suite of 16S rRNA-Specific Oligonucleotide Probes Designed To Investigate Bacteria of the Phylum Cytophaga-Flavobacterium-Bacteroides in the Natural Environment, Microbiology (UK), 1996, vol. 142, pp. 1097-1106.
13. O'Sullivan, L.A., Weightman, A.J., and Fry, J.C., New Degenerate Cytophaga-Flexibacter-Bacteroides-Specific 16S Ribosomal DNA-Targeted Oligonucleotide Probes Reveal High Bacterial Diversity in River Taff Epilithon, Appl. Environ. Microbiol., 2001, vol. 68, pp. 201-210.
14. Neef, A., Amann, R., Schlesner, H., and Schleifer, K.-H., Monitoring a Widespread Bacterial Group: In Situ Detection of Planctomycetes with 16S rRNA-Targeted Probes, Microbiology (UK), 1998, vol. 144, pp. 3257-3266.
15. Roller, C., Wagner, M., Amann, R., Ludwig, W., and Schleifer, K.-H., In Situ Probing of Gram-Positive Bacteria with High DNA G+C Content Using 23 S rRNA-Targeted Oligonucleotides, Microbiology (UK), 1994, vol. 140, pp. 2849-2858.
16. Meier, H., Amann, R., Ludwig, W., and Schleifer, K.-H., Specific Oligonucleotide Probes for In Situ Detection of a Major Group of Gram-Positive Bacteria with Low DNA G+C Content, Syst. Appl. Microbiol., 1999, vol. 22, pp. 186-196.
17. Juretschko, S., Loy, A., Lehner, A., and Wagner, M., 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., 2002, vol. 25, pp. 84-99.
18. Ludwig, W., Bauer, S.H., Bauer, M., Held, I., Kirchhof, G., Schulze, R., Huber, I., Spring, S., Hartmann, A., and Schleifer, K.-H., Detection and In Situ Identification of Representatives of a Widely Distributed New Bacterial Phylum, FEMS Microbiol. Lett., 1997, vol. 153, pp. 181-190.
19. Bouvier, T. and del Giorgio, P.A., Factors Influencing the Detection of Bacterial Cells Using Fluorescence In Situ Hybridization (FISH): A Quantitative Review of Published Reports, FEMS Microbiol. Ecol., 2003, vol. 44, pp. 3-15.
20. Hugenholtz, P., Goebel, B.M., and Pace, N.R., Impact of Culture-Independent Studies on the Emerging Phylogenetic View of Bacterial Diversity, J. Bacteriol., 1998, vol. 180, pp. 4765-4774.
21. Rappe, M.S. and Giovannoni, S.J., The Uncultured Microbial Majority, Annu. Rev. Microbiol., 2003, vol. 57, pp. 369-394.