Rapid and multiple in situ identification and analyses of physiological status of specific bacteria based on fluorescent in situ hybridization

Journal of Bioscience and Bioengineering

Volumn 110, Issue 6, 2010, Pages 716-719

  Zhang, Xian ^a   Tani, Akio ^a   Kawai, Fusako ^b   Kimbara, Kazuhide ^a  

^a OKAYAMA UNIVERSITY   (Japan)

^b KYOTO INSTITUTE OF TECHNOLOGY   (Japan)

Author keywords

Anaerobic benzene degradation; Fluorescent in situ hybridization; Fluorospheres; Live dead staining; Physiological status

Indexed keywords

BENZENE DEGRADATION; FLUORESCENT IN SITU HYBRIDIZATION; FLUOROSPHERES; LIVE/DEAD STAINING; PHYSIOLOGICAL STATUS;

BACTERIOLOGY; BENZENE; BIODEGRADATION; DEGRADATION; FLUORESCENCE; PHYSIOLOGY;

BACTERIA;

ARTICLE; BACTERIUM IDENTIFICATION; CELL VIABILITY; ESCHERICHIA COLI; FLUORESCENCE IN SITU HYBRIDIZATION; IMMOBILIZED CELL; INCUBATION TIME; NONHUMAN; PSEUDOMONAS PUTIDA;

BACTERIAL PHYSIOLOGICAL PHENOMENA; CELLS, IMMOBILIZED; ESCHERICHIA COLI; IN SITU HYBRIDIZATION, FLUORESCENCE; MICROBIAL VIABILITY; MICROSCOPY, FLUORESCENCE; PSEUDOMONAS PUTIDA;

BACTERIA (MICROORGANISMS);

EID: 78449241261     PISSN: 13891723     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.jbiosc.2010.07.004     Document Type: Article

References (20)

1. Baudart J., Olaizola A., Coallier J., Gauthier V., Laurent P. Assessment of a new technique combining a viability test, whole-cell hybridization and laser-scanning cytometry for the direct counting of viable Enterobacteriaceae cells in drinking water. FEMS Microbiol. Lett. 2005, 243:405-409.
2. Hofmann T., Hanlon A.R.M., Taylor J.D., Ball A.S., Osborn A.M., Underwood G.J.C. Dynamics and compositional changes in extracellular carbohydrates in estuarine sediments during degradation. Mar. Ecol. Prog. Ser. 2009, 379:45-58.
3. Tresse O., Lescob S., Rho D. Dynamics of living and dead bacterial cells within a mixed-species biofilm during toluene degradation in a biotrickling filter. J. Appl. Microbiol. 2003, 94:849-855.
4. Laflamme C., Lavigne S., Ho J., Duchaine C. Assessment of bacterial endospore viability with fluorescent dyes. J. Appl. Microbiol. 2004, 96:684-692.
5. Pascaud A., Amellal S., Soulas M.L., Soulas G. A fluorescence-based assay for measuring the viable cell concentration of mixed microbial communities in soil. J. Microbiol. Meth. 2009, 76:81-87.
6. Shimomura Y., Ohno R., Kawai F., Kimbara K. Method for assessment of viability and morphological changes of bacteria in the early stage of colony formation on a simulated natural environment. Appl. Environ. Microbiol. 2006, 72:5037-5042.
7. Daims H., Bruhl A., Amann R., Schleifer K.-H., Wagner M. The domain-specific probe EUB338 is insufficient for the detection of all bacteria: development and evaluation of a more comprehensive probe set. Syst. Appl. Microbiol. 1999, 22:434-444.
8. Fuchs B.M., Syutsubo K., Ludwig W., Amann R. In situ accessibility of Escherichia coli 23S rRNA to fluorescently labeled oligonucleotide probes. Appl. Environ. Microbiol. 2001, 67:961-968.
9. Wagner M., Erhart R., Manz W., Amann R., Lemmer H., Wedi D., Schleifer K.-H. Development of an rRNA-targeted oligonucleotide probe specific for the genus Acinetobacter and its application for in situ monitoring in activated sludge. Appl. Environ. Microbiol. 1994, 60:792-800.
10. Shimizu S., Ootsubo M., Kubosawa Y., Fuchizawa I., Kawai Y., Yamazaki K. Fluorescent in situ hybridization in combination with filter cultivation (FISHFC) method for specific detection and enumeration of viable Clostridium perfringens. Food Microbiol. 2009, 26:425-431.
11. Carr E.L., Eales K., Soddell J., Seviour R.J. Improved permeabilization protocols for fluorescence in situ hybridization (FISH) of mycolic-acid-containing bacteria found in foams. J. Microbiol. Meth. 2005, 61:47-54.
12. Macnaughton S.J., Odonnell A.G., Embley T.M. Permeabilization of mycolic-acid-containing actinomycetes for in-situ hybridization with fluorescently labeled oligonucleotide probes. Microbiology 1994, 140:2859-2865.
13. Simon N., Lebot N., Marie D., Partensky F., Vaulot D. Fluorescent in-situ hybridization with ribosomal-RNA-targeted oligonucleotide probes to identify small phytoplankton by flow-cytometry. Appl. Environ. Microbiol. 1995, 61:2506-2513.
14. Smith J.J., Gunasekera T.S., Barardi C.R.M., Veal D., Vesey G. Determination of Cryptosporidium parvum oocyst viability by fluorescence in situ hybridization using a ribosomal RNA-directed probe. J. Appl. Microbiol. 2004, 96:409-417.
15. Sunde P.T., Olsen I., Gobel U.B., Theegarten D., Winter S., Debelian G.J., Tronstad L., Moter A. Fluorescence in situ hybridization (FISH) for direct visualization of bacteria in periapical lesions of asymptomatic root-filled teeth. Microbiology 2003, 149:1095-1102.
16. Savichtcheva O., Okayama N., Ito T., Okabe S. Application of a direct fluorescence-based live/dead staining combined with fluorescence in situ hybridization for assessment of survival rate of Bacteroides spp. in drinking water. Biotechnol. Bioeng. 2005, 92:356-363.
17. Shintani M., Fukushima N., Tezuka M., Yamane H., Nojiri H. Conjugative transfer of the IncP-7 carbazole degradative plasmid, pCAR1, in river water samples. Biotechnol. Lett. 2008, 30:117-122.
18. Amann R., Krumholz L., Stahl D.A. Fluorescent-oligonucleotide probing of whole cells for determinative, phylogenetic, and environmental studies in microbiology. J. Bacteriol. 1990, 172:762-770.
19. Cho J.C., Kim S.J. Green fluorescent protein-based direct viable count to verify a viable but non-culturable state of Salmonella typhi in environmental samples. J. Microbiol. Meth. 1999, 36:227-235.
20. Kasai Y., Kodama Y., Takahata Y., Hoaki T., Watanabe K. Degradative capacities and bioaugmentation potential of an anaerobic benzene-degrading bacterium strain DN11. Environ. Sci. Technol. 2007, 41:6222-6227.