Quantitative imaging and statistical analysis of fluorescence in situ hybridization (FISH) of Aureobasidium pullulans

Journal of Microbiological Methods

Volumn 35, Issue 2, 1999, Pages 101-110

  Spear, Russell N ^a   Shuxian, Li ^a   Nordheim, Erik V ^a,b   Andrews, John H ^a  

^a UNIVERSITY OF WISCONSIN MADISON   (United States)

^b University of Wisconsin Madison   (United States)

Author keywords

Epifluorescence; FISH; Image analysis; Probe; rDNA; Yeast

Indexed keywords

ARTICLE; AUREOBASIDIUM PULLULANS; BACTERIUM IDENTIFICATION; FLUORESCENCE IN SITU HYBRIDIZATION; IMAGING; MICROSCOPY; PRIORITY JOURNAL; RHODOTORULA; STATISTICAL ANALYSIS; TECHNIQUE;

AUREOBASIDIUM PULLULANS; RHODOSPORIDIUM TORULOIDES;

EID: 0033104160     PISSN: 01677012     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0167-7012(98)00100-6     Document Type: Article

References (30)

1. Alfa, C.E., Gallagher, I.M., Hyams, J.S., 1993. Antigen localization in fission yeast. In: Asai, D.J. (Ed.), Antibodies in Cell Biology, vol. 37, Methods in Cell Biology. Academic Press, New York, pp. 201-222.
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., Ludwig, W., Schleifer, K.-H., 1995. Phylogenetic identification and in situ detection of individual microbial cells without cultivation. Microbiol. Rev. 59, 143-169.
4. Assmus, B., Hutzler, P., Kirchhof, G., Amann, R., Lawrence, J.R., Hartmann, A., 1995. In situ location of Azospirillium brasilense in the rhizosphere of wheat with fluorescently labeled, rRNA-targeted oligonucleotide probes and scanning confocal laser microscopy. Appl. Environ. Microbiol. 61, 1013-1019.
5. Atlas, R.M., Sayler, G., Burlage, R.S., Bej, A.K., 1992. Molecular approaches for environmental monitoring of microorganisms. BioTechniques 12, 706-717.
6. Bertin, B., Brounx, O., Van Hoegaerden, M., 1990. Flow cytometric detection of yeast by in situ hybridization with a fluorescent ribosomal RNA probe. J. Microbiol. Methods 12, 1-12.
7. Brown, R.G., Hanic, L.A., Hsiao, M., 1973. Structure and chemical composition of yeast chlamydospores of Aureobasidium pullidans. Can. J. Microbiol. 19, 163-168.
8. Burggraf, S., Mayer, T., Amann, R., Schadhauser, S., Woese, C.R., Steuer, K.O., 1994. Identifying members of the domain Archaea with rRNA-targeted oligonucleotide probes. Appl. EnViron. Microbiol. 60, 3112-3119.
9. DeLong, E.F., Wickham, G.S., Pace, N.R., 1989. Phylogenetic stains: Ribosomal RNA-based probes for the identification of single cells. Science 243, 1360-1363.
10. Fischer, K., Hahn, D., Hönerlage, W., Schönholzer, F., Zeyer, J., 1995. In situ detection of spores and vegetative cells of Bacillus megaterium in soil by whole cell hybridization. System. Appl. Microbiol. 18, 265-273.
11. Giovannoni, S.J., DeLong, E.F., Olsen, G.J., Pace, N.R., 1988. Phylogenetic group-specific oligodeoxynucleotide probes for identification of single microbial cells. J. Bacteriol. 170, 720-726.
12. Holben, W.E., Tiedje, J.M., 1988. Applications of nucleic acid hybridization in microbial ecology. Ecology 69, 561-568.
13. Langendijk, P.S., Schut, F., Jansen, G.J., Raangs, G.C., Kamphuis, G.R., Wilkinson, M.H.F., Welling, G.W., 1995. Quantitative fluorescence in situ hybridization of Bifidobacterium spp. With genus-specific 16S rRNA-targeted probes and its application in fecal samples. Appl. Environ. Microbiol. 61, 3069-3075.
14. Leitch, A.R., Schwarzacher, T., Jackson. D., Leitch, I.J., 1994. In Situ Hybridization: A Practical Guide. Bios Scientific Publishers, Oxford, UK.
15. Li, S., Harris, C.P., Leong, S.A., 1993. Comparison of fluorescence in situ hybridization and primed in situ labeling methods for detection of single-copy genes in the fungus Ustilago maydis. Exp. Mycol. 17, 301-308.
16. Li, S., Spear, R.N., Andrews, J.H., 1997. Quantitative fluorescence in situ hybridization of Aureobasidium pullulans on microscope slides and leaf surfaces. Appl. Environ. Microbiol. 63, 3261-3267.
17. Li, S., Cullen, D., Hjort, M., Spear, R., Andrews, J.H., 1996. Development of an oligonucleotide probe for Aureobasidium pullulans based on the small-subunit rRNA gene. Appl. EnViron. Microbiol. 62, 1514-1518.
18. Lim, E.L., Caron, D.A., DeLong, E.F., 1996. Development and field application of a quantitative method for examining natural assemblages of protists with oligonucleotide probes. Appl. Environ. Microbiol. 62, 1416-1423.
19. Minitab, Inc., 1996. Minitab Reference Manual. Release 11. Minitab, Inc., State College, Penn.
20. Moench, T.R., Gendelman, H.E., Clements, J.E., Narayan, O., Griffin, D.E., 1985. Efficiency of in situ hybridization as a function of probe size and fixation technique. J. Virol. Methods 11, 119-130.
21. Olsen, G.J., Lane, D.J., Giovannoni, S.J., Pace, N.R., 1986. Microbial ecology and evolution: A ribosomal RNA approach. Annu. Rev. Microbiol. 40, 337-365.
22. Poulsen, L.K., Ballard, G., Stahl, D.A., 1993. Use of rRNA fluorescence in situ hybridization for measuring the activity of single cells in young and established biofilms. Appl. Environ. Microbiol. 59, 1354-1360.
23. TM T4 Kinase Green OligoNucleotide Labeling System. Promega Corp. Madison, WI.
24. Ruiters, M.H.J., Wessels, J.G.H., 1989. In situ localization of specific RNAs in developing fruiting bodies of the basidiomycete Schizophyllum commune. Exp. Mycol. 13, 212- 222.
25. Stahl, D.A., Amann, R., 1991. Development and application of nucleic acid probes. In: Stackebrandt, E., Goodfellow, M. (Eds.), Nucleic Acid Techniques in Bacterial Systematics. John Wiley, New York, pp. 205-248.
26. Tkachuk, D.C., Pinkel, D., Kuo, W.-L., Weier, H.-U., Gray, J.W., 1991. Clinical applications of fluorescence in situ hybridization. Genet. Anal. Tech. Appl. 8, 67-74.
27. Trask, B., 1991. Fluorescence in situ hybridization: Application in cytogenetics and gene mapping. Trends Genet. 7, 149-154.
28. Trebesius, K., Amann, R., Ludwig, W., Mühlegger, L., Schleifer, K.-H., 1994. Identification of whole fixed bacterial cells with nonradioactive 23S rRNA-targeted polynucleotide probes. Appl. Environ. Microbiol. 60, 3228-3235.
29. Uzawa, S., Yanagida, M., 1992. Visualization of centometric and nucleolar DNA in fission yeast by fluorescence in situ hybridization. J. Cell Sci. 101, 267-275.
30. Zarda, B., Amann, R., Wallner, G., Schleifer, K.-H., 1991. Identification of single bacterial cells using digoxigenin-labelled rRNA-targeted oligonucleotides. J. Gen. Microbiol. 137, 2823-2830.