In situ identification of cyanobacteria with horseradish peroxidase- labeled, rRNA-targeted oligonucleotide probes

Applied and Environmental Microbiology

Volumn 65, Issue 3, 1999, Pages 1259-1267

  Schönhuber, Wilhelm ^a,b   Zarda, Boris ^b   Eix, Stella ^a   Rippka, Rosmarie ^c   Herdman, Michael ^c   Ludwig, Wolfgang ^b   Amann, Rudolf ^a,b  

^a MAX PLANCK INSTITUTE FOR MARINE MICROBIOLOGY   (Germany)

^b TECHNICAL UNIVERSITY OF MUNICH   (Germany)

^c INSTITUT PASTEUR   (France)

Author keywords

[No Author keywords available]

Indexed keywords

HORSERADISH PEROXIDASE; ISOPROPAMIDE IODIDE; OLIGONUCLEOTIDE; RNA 16S;

ARTICLE; AUTOFLUORESCENCE; BACTERIUM IDENTIFICATION; CELL HYBRIDIZATION; CELL MEMBRANE PERMEABILITY; CELL SELECTION; CELL SPECIFICITY; CELL STRUCTURE; CYANOBACTERIUM; DENATURING GRADIENT GEL ELECTROPHORESIS; DOT HYBRIDIZATION; ECOSYSTEM; MICROPHOTOGRAPHY; NONHUMAN; OLIGONUCLEOTIDE PROBE; PHOTOTROPHIC BACTERIUM; PHYLOGENY; PIGMENTATION; RESTRICTION FRAGMENT LENGTH POLYMORPHISM; TARGET CELL;

EID: 0040737625     PISSN: 00992240     EISSN: None     Source Type: Journal    
DOI: 10.1128/aem.65.3.1259-1267.1999     Document Type: Article

References (44)

1. Amann, R. I., B. J. Binder, R. J. Olson, S. W. Chisholm, R. Devereux, and D. A. Stahl. 1990. Combination of 16S rRNA-targeted oligonucleotide probes with flow cytometry for analyzing mixed microbial populations. Appl. Environ. Microbiol. 56:1919-1925.
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. Amann, R. I., B. Zarda, D. A. Stahl, and K.-H. Schleifer. 1992. Identification of individual prokaryotic cells with enzyme-labeled, rRNA-targeted oligonucleotide probes. Appl. Environ. Microbiol. 58:3007-3011.
4. Anagnostidis, K., and J. Komárek. 1985. Modern approach to the classification system of cyanophytes. 1. Introduction. Arch. Hydrobiol. Suppl. 71: 291-302.
5. Binder, B. J., and Y. C. Liu. 1998. Growth rate regulation of rRNA content of a marine Synechococcus (cyanobacterium) strain. Appl. Environ. Microbiol. 64:3346-3351.
6. Bobrow, M. N., T. D. Harris, K. J. Shaughnessy, and G. J. Litt. 1989. Catalyzed reporter deposition, a novel method of signal amplification. Application to immunoassays. J. Immunol. Methods 125:279-285.
7. Britschgi, T. B., and S. J. Giovannoni. 1991. Phylogenetic analysis of a natural marine bacterioplankton population by rRNA gene cloning and sequencing. Appl. Environ. Microbiol. 57:1707-1713.
8. Brosius, J., T. 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. Castenholz, R. W. 1989. Subsection III, order Oscillatoriales, p. 1771-1780. In J. T. Staley, M. P. Bryant, N. Pfennig, and J. G. Holt (ed.), Bergey's manual of systematic bacteriology. The Williams & Wilkins Co., Baltimore, Md.
10. Castenholz, R. W. 1989. Subsection IV. order Nostocales, p. 1780-1793. In S. T. Staley, M. P. Bryant, N. Pfennig, and J. G. Holt (ed.), Bergey's manual of systematic bacteriology. The Williams & Wilkins Co., Baltimore, Md.
11. Castenholz, R. W. 1989. Subsection V, order Stigonematales, p. 1794-1799. In J. T. Staley, M. P. Bryant, N. Pfennig, and J. G. Holt (ed.), Bergey's manual of systematic bacteriology. The Williams & Wilkins Co., Baltimore, Md.
12. Castenholz, R. W., and J. B. Waterbury. 1989. Oxygenic photosynthetic bacteria, group I. Cyanobacteria, p. 1710-1728. In J. T. Staley, M. P. Bryant, N. Pfennig, and J. G. Holt (ed.). Bergey's manual of systematic bacteriology. The Williams & Wilkins Co., Baltimore, Md.
13. Coursin, T. Personal communication.
14. El-Gammal, S. M. A., and M. A. Sadek. 1988. Enzymatic saccharification of some pretreated agricultural wastes. Zentralbl. Mikrobiol. 143:55-62.
15. Ferris, M. J., G. Muyzer, and D. M. Ward. 1996. Denaturing gradient gel electrophoresis profiles of 16S rRNA-defined populations inhabiting a hot spring microbial mat community. Appl. Environ. Microbiol. 62:340-346.
16. Gebhardt, J. S., and S. A. Nierzwicki-Bauer. 1991. Identification of a common cyanobacterial symbiont associated with Azolla spp. through molecular and morphological characterization of free-living and symbiotic cyanobacteria. Appl. Environ. Microbiol. 57:2141-2146.
17. Giovannoni, S. J., T. B. Britschgi, C. L. Moyer, and K. G. Field. 1990. Genetic diversity in Sargasso Sea bacterioplankton. Nature 345:60-63.
18. Giovannoni, S. J., S. Turner, G. J. Olsen, S. Barns, D. J. Lane, and N. R. Pace. 1988. Evolutionary relationships among cyanobacteria and green chloroplasts. J. Bacteriol. 170:3584-3592.
19. Haes, F. Personal communication.
20. Ludwig, W., O. Strunk, S. Klugbauer, N. Klugbauer, M. Weizenegger, J. Neumaier, M. Bachleitner, and K. H. Schleifer. 1998. Bacterial phylogeny based on comparative sequence analysis. Electrophoresis 19:554-568.
21. Lyra, C., J. Hantula, E. Vainio, J. Rapala, L. Rouhianinen, and K. Sivonen. 1997. Characterization of cyanobacteria by SDS-PAGE of whole-cell proteins and PCR/RFLP of the 16S rRNA gene. Arch. Microbiol. 168:176-184.
22. Mann, N., and N. G. Carr. 1974. Control of macromolecular composition and cell division in the blue-green alga Anacystis nidulans. J. Gen. Microbiol. 83:399-405.
23. Manz, W., R. Amann, W. Ludwig, M. Wagner, and K.-H. Schleifer. 1992. Phylogenetic oligodeoxynucleotide probes for the major subclasses of proteobacteria: problems and solutions, Syst. Appl. Microbiol. 15:593-600.
24. Minz, D. Personal communication.
25. Moore, L. R., G. Rocap, and S. W. Chisholm. 1998. Physiology and molecular phylogeny of coexisting Prochlorococcus ecotypes. Nature 393:464-467.
26. Muyzer, M., A. Teske, C. O. Wirsen, and H. W. Jannasch. 1995. Phylogenetic relationships of Thiomicrospira species and their identification in deep-sea hydrothermal vent samples by denaturing gradient gel electrophoresis of 16S rDNA fragments. Arch. Microbiol. 164:165-172.
27. Neilan, B. A. 1995. Identification and phylogenetic analysis of toxigenic cyanobacteria by multiplex randomly amplified polymorphic DNA PCR. Appl. Environ. Microbiol. 61:2286-2291.
28. Neilan, B. A., D. Jacobs, T. del Dot, L. L. Blackall, P. R. Hawkins, P. T. Cox, and A. E. Goodman. 1997. rRNA sequences and evolutionary relationships among toxic and nontoxic cyanobacteria of the genus Microcystis. Int. J. Syst. Bacteriol. 47:693-697.
29. Nelissen, B., R. De Baere, A. Wilmotte, and R. De Wachter. 1996. Phylogenetic relationships of nonaxenic filamentous cyanobacterial strains based on 16s rRNA sequence analysis. J. Mol. Evol. 42:194-200.
30. Nicholson, W. L., and P. Setlow. 1990. Sporulation, germination and outgrowth, p. 391-450. In C. W. Harwood and S. M. Cutting (ed.), Molecular biological methods for Bacillus. Wiley, Chichester, England.
31. Nübel, D., F. Garcia-Piehel, and G. Muyzer. 1997. PCR primers to amplify 16S rRNA genes from cyanobacteria. Appl. Environ. Microbiol. 63:3327-3332.
32. Palinska, K. A., W. Liesack, E. Riehl, and W. E. Krumbein. 1996. Phenotypic variability of identical genotypes: the need for a combined approach in cyanobacterial taxonomy demonstrated on Merismopedia-like isolates. Arch. Microbiol. 166:224-233.
33. Rippka, R., J. Deruelles, J. B. Waterbury, M. Herdman, and R. Y. Stanier. 1979. Generic assignments, strain histories, and properties of pure cultures of cyanobacteria. J. Gen. Microbiol. 111:1-61.
34. Rippka, R., and M. Herdman. 1992. Pasteur Culture Collection of Cyanobacteria. Catalogue and taxonomic Handbook. Institut Pasteur, Paris, France.
35. Rudi, K., O. M. Skulberg, F. Larsen, and K. S. Jakobsen. 1997. Strain characterization and classification of oxyphotobacteria in clone cultures on the basis of 16S rRNA sequences from the variable regions V6, V7, and V8. Appl. Environ. Microbiol. 63:2593-2599.
36. Scanlan, D. J., N. J. Silman, K. M. Donald, W. H. Wilson, N. G. Carr, I. Joint, and N. H. Mann. 1997. An immunological approach to detect phosphate stress in populations and single cells of photosynthetic picoplankton. Appl. Environ. Microbiol. 63:2411-2420.
37. Schönhuber, W., B. Fuchs, S. Juretschko, and R. Amann. 1997. Improved sensitivity of whole-cell hybridization by the combination of horseradish peroxidase-labeled oligonucleotides and tyramide signal amplification. Appl. Environ. Microbiol. 63:3268-3273.
38. Stanier, R. Y., and G. Cohen-Bazire. 1977. Phototrophic prokaryotes: the Cyanobacteria. Annu. Rev. Microbiol. 31:225-274.
39. Stockner, J. G. 1991. Autotrophic picoplankton in freshwater ecosystems: the view from the summit. Int. Rev. Gesamten Hydrobiol. 76:483-493.
40. Strunk, O., O. Gross, B. Reichel, M. May, S. Hermann, N. Stuckmann, B. Nonhoff, M. Lenke, A. Ginhart, A. Vilbig, T. Ludwig, A. Bode, K. H. Schleifer, and W. Ludwig. 2 October 1998, posting date. [Online.] ARB: a software environment for sequence data. http://www.mikro.biologie.tu-muenchen.de. Department of Microbiology, Technische Universität München, Munich, Germany. [2 October 1998, last date accessed.]
41. Urdea, M. S., B. D. Warner, J. A. Running, M. Slempien, S. Clyne, and T. Horn. 1988. A comparison of non-radioisotopic hybridization assay methods using fluorescent, chemiluminescent, and enzyme labeled synthetic oligodeoxyribonucleotide probes. Nucleic Acids Res. 16:4937-4956.
42. Van Gijlswijk, R. P. M., J. Wiegant, A. K. Raap, and H. J. Tanke. 1996. Improved localization of fluorescent tyramides for fluorescence in situ hybridization using dextran sulfate and polyvinyl alcohol. J. Histochem. Cytochem. 44:389-392.
43. Weisse, T. 1993. Dynamics of autotrophic picoplankton in marine and freshwater ecosystems. Adv. Microb. Ecol. 13:327-370.
44. Wilmotte, A. Personal communication.