In situ analysis of nitrifying biofilms as determined by in situ hybridization and the use of microelectrodes

Applied and Environmental Microbiology

Volumn 65, Issue 7, 1999, Pages 3182-3191

  Okabe, Satoshi ^a   Satoh, Hisashi ^a   Watanabe, Yoshimasa ^a  

^a HOKKAIDO UNIVERSITY   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

AMMONIA; NITRITE; RNA 16S;

ARTICLE; BIOFILM; FLUORESCENCE IN SITU HYBRIDIZATION; MICROELECTRODE; NITRIFICATION; NITROBACTER; NITROSOMONAS; NONHUMAN; OLIGONUCLEOTIDE PROBE; WASTE WATER;

BACTERIA (MICROORGANISMS); NEGIBACTERIA; NITROBACTER; NITROSOMONADALES; NITROSOMONAS; NITROSPIRA;

EID: 0032976059     PISSN: 00992240     EISSN: None     Source Type: Journal    
DOI: 10.1128/aem.65.7.3182-3191.1999     Document Type: Article

References (30)

1. Amann, R. I. 1995. In situ identification of micro-organisms by whole cell hybridization with rRNA-targeted nucleic acid probes, p. 1-15. In A. D. L. Akkerman, J. D. van Elsas, and F. J. de Bruijn (ed.), Molecular microbial ecology manual. Kluwer Academic Publishers, Dordrecht, The Netherlands.
2. 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.
3. Andrussow, L. 1969. Diffusion, p. 513-727. In Landolt-Bornstein Zahlenw, Funkt, vol. II/5a. Springer, Berlin, Germany.
4. Belser, L. W. 1979. Population ecology of nitrifying bacteria. Annu. Rev. Microbiol. 33:309-333.
5. Burrell, P. C., J. Keller, and L. L. Blackall. 1998. Microbiology of a nitrite-oxidizing bioreactor. Appl. Environ. Microbiol. 64:1878-1883.
6. de Beer, D., and J. C. van den Heuvel. 1988. Gradients in immobilized biological systems. Anal. Chim. Acta 213:259-265.
7. de Beer, D., and J. C. van den Heuvel. 1989. Response of ammonium-selective microelectrodes based on the neutral carrier nonactin. Talanta 35: 728-730.
8. de Beer, D., J. C. van den Heuvel, and S. P. P. Ottengraf. 1993. Microelectrode measurements of the activity distribution in nitrifying bacterial aggregates. Appl. Environ. Microbiol. 59:573-579.
9. de Beer, D., A. Schramm, C. M. Santegoeds, and M. Kühl. 1997. A nitrite microsensor for profiling environmental biofilms. Appl. Environ. Microbiol. 63:973-977.
10. Hovanec, T. A., L. T. Taylar, A. Blakis, and E. F. Delong. 1998. Nitrospira-like bacteria associated with nitrite oxidation in freshwater aquaria. Appl. Environ. Microbiol. 64:258-264.
11. Jensen, K., N. P. Revsbech, and L. P. Nielsen. 1993. Microscale distribution of nitrification activity in sediment determined with a shielded microsensor for nitrate. Appl. Environ. Microbiol. 59:3287-3296.
12. Jensen, K., N. P. Sloth, N. Risgaard-Petersen, S. Rysgaard, and N. P. Revsbech. 1994. Estimation of nitrification and denitrification from micro-profiles of oxygen and nitrate in model sediment systems. Appl. Environ. Microbiol. 60:2094-2100.
13. Juretschko, S., G. Timmermann, M. Schmid, K.-H. Schleifer, A. Pommerening-Roser, H.-P. Koops, and M. Wagner. 1998. Combined molecular and conventional analyses of nitrifying bacterium diversity in activated sludge: Nitrosococcus mobilis and Nitrospira-like bacteria as dominant populations. Appl. Environ. Microbiol. 64:3042-3051.
14. Kühl, M., and B. B. Jorgensen. 1992. Microsensor measurements of sulfate reduction and sulfide oxidation in compact microbial communities in aerobic biofilms. Appl. Environ. Microbiol. 58:1164-1174.
15. Lens, P. L., D. de Beer, C. C. H. Cronenberg, F. P. Houwen, S. P. P. Ottengraf; and W. H. Verstraete. 1993. Heterogeneous distribution of microbial activity in methanogenic aggregates: pH and glucose microprofiles. Appl. Environ. Microbiol. 59:3803-3815.
16. Lorenzen, J., L.l H. Larsen, T. Kjar, and N. P. Revsbech. 1998. Biosensor detection of the microscale distribution of nitrate, nitrate assimilation, nitrification, and denitrification in a diatom-inhabited freshwater sediment. Appl. Environ. Microbiol. 64:3264-3269.
17. Manz, W., R. I. 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.
18. Mobarry, B. K., M. Wagner, V. Urbain, B. E. Rittmann, and D. A. Stahl. 1996. Phylogenetic probes for analyzing abundance and spatial organization of nitrifying bacteria. Appl. Environ. Microbiol. 62:2156-2162.
19. Okabe, S., T. Mastuda, H. Satoh, T. Itoh, and Y. Watanabe. 1998. Sulfate reduction and sulfide oxidation in aerobic mixed population biofilms. Water Sci. Technol. 37(4/5):131-138.
20. Pommerening-Roser, A., G. Rath, and H.-P. Koop. 1996. Phylogenetic diversity within the genus Nitrosomonas. Syst. Appl. Microbiol. 19:344-351.
21. 2S in photosynthetic biofilms determined by oligonucleotide probes and microelectrodes. Appl. Environ. Microbiol. 59: 3840-3849.
22. Revsbech, N. P., and B. B. Jorgensen. 1986. Microelectrodes: their use in microbial ecology. Adv. Microb. Ecol. 9:293-352.
23. Schleifer, K.-H., R. Amann, W. Ludwig, C. Rothemund, N. Springer, and S. Dorn. 1992. Nucleic acid probes for the identification and in situ detection of pseudomonas, p. 127-134. In E. Galli, S. Silver, and B. Witholt (ed.), Pseudomonas: molecular biology and biotechnology. American Society for Microbiology, Washington, D.C.
24. Schramm, A., L. H. Larsen, N. P. Revsbech, R. I. Amann, and K.-H. Schleifer. 1996. Structure and function of a nitrifying biofilm as determined by in situ hybridization and the use of microelectrodes. Appl. Environ. Microbiol. 62:4641-4647.
25. Schramm, A., D. de Beer, M. Wagner, and R. Amann. 1998. Identification and activities in situ of Nitrosospira and Nitrospira spp. as dominant populations in a nitrifying fluidized bed reactor. Appl. Environ. Microbiol. 64: 3480-3485.
26. Wagner, M., G. Rath, H.-P. Koops, J. Flood, and R. I. Amann. 1996. In situ analysis of nitrifying bacteria in sewage treatment plants. Water Sci. Technol. 34(1/2):237-244.
27. Wagner, M., R. I. Amann, P. Kampfer, 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.
28. Wagner, M., G. Rath, R. I. Amann, H.-P. Koops, and K.-H. Schleifer. 1995. In situ identification of ammonia-oxidizing bacteria. Syst. Appl. Microbiol. 18:251-264.
29. Watson, S. W., E. Bock, H. Harms, H.-P. Koops, and A. B. Hooper. 1989. Nitrifying bacteria, p. 1808-1834. In J. T. Staley, M. P. Bryant, N. Pfennig, and J. G. Holt (ed.), Bergey's manual of systematic bacteriology, vol. 3. Williams and Wilkins, Baltimore, Md.
30. Zhang, T. C., and P. L. Bishop. 1996. Evaluation of substrate and pH effects in a nitrifying biofilm. Water Environ. Res. 68:1107-1115.