Use of fluorescence in situ hybridization and the daime image analysis program for the cultivation-independent quantification of microorganisms in environmental and medical samples

Cold Spring Harbor Protocols

Volumn 4, Issue 7, 2009, Pages

  Daims, Holger ^a  

^a UNIVERSITY OF VIENNA   (Austria)

Author keywords

[No Author keywords available]

Indexed keywords

EID: 73349136275     PISSN: None     EISSN: 15596095     Source Type: Journal    
DOI: 10.1101/pdb.prot5253     Document Type: Article

References (10)

1. Amann RI 1995. In situ identification of micro-organisms by whole cell hybridization with rRNA-targeted nucleic acid probes. In Molecular microbial ecology manual (eds. ADL Akkermans et al.), pp. 1-15. Dordrecht, The Netherlands, Kluwer Academic.
2. Amann RI, Binder BJ, Olson RJ, Chisholm SW, Devereux R, Stahl DA. 1990. Combination of 16S rRNA-targeted oligonucleotide probes with flow cytometry for analyzing mixed microbial populations. Appl Environ Microbiol 56: 1919-1925.
3. Daims H, Wagner M. 2007. Quantification of uncultured microorganisms by fluorescence microscopy and digital image analysis. Appl Microbiol Biotechnol 75: 237-248.
4. Daims H, Brühl A, Amann R, Schleifer KH, Wagner M. 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 Midrobiol 22: 434-444.
5. Daims H, Ramsing NB, Schleifer KH, Wagner M. 2001. Cultivation-independent, semiautomatic determination of absolute bacterial cell numbers in environmental samples by fluorescence in situ hybridization. Appl Environ Microbiol 67: 5810-5818.
6. Daims H, Stoecker K, Wagner M. 2005. Fluorescence in situ hybridization for the detection of prokaryotes. Molecular microbial ecology 213-239.
7. Daims H, Lücker S, Wagner M. 2006. daime, a novel image analysis program for microbial ecology and biofilm research. Environ Microbiol 8: 2000-213.
8. Glöckner FO, Amann R, Alfreider A, Pernthaler J, Psenner R, Trebesius K, Schleifer KH. 1996. An in situ hybridization protocol for detection and identification of planktonic bacteria. Syst Appl Microbiol 19: 403-406.
9. Pernthaler A, Pernthaler J, Amann R. 2002. Fluorescence in situ hybridization and catalyzed reporter deposition for the identification of marine bacteria. Appl Environ Microbiol 68: 3094-3101.
10. Wagner M, Horn M, Daims H. 2003. Fluorescence in situ hybridisation for the identification and characterisation of prokaryotes. Curr Opin Microbiol 6: 302-309.