Validation of fluorescent in situ hybridization combined with flow cytometry for assessing interindividual variation in the composition of human fecal microflora during long-term storage of samples

Journal of Microbiological Methods

Volumn 59, Issue 2, 2004, Pages 263-270

  Rochet, Violaine ^a   Rigottier Gois, Lionel ^a   Rabot, Sylvie ^a   Doré, Joël ^a  

^a U d'Ecologie Physiol Syst D   (France)

Author keywords

Fecal microflora; Flow cytometry; Fluorescent in situ hybridization; Long term storage

Indexed keywords

PARAFORMALDEHYDE; RIBOSOME RNA;

ACCURACY; ADULT; ANALYTIC METHOD; ARTICLE; BACTERIUM; BACTEROIDES; BIFIDOBACTERIUM; CLOSTRIDIUM; CLOSTRIDIUM COCCOIDES; CONTROLLED STUDY; EUBACTERIUM; EUBACTERIUM RECTALE; FAECALIBACTERIUM PRAUSNITZII; FECES ANALYSIS; FECES MICROFLORA; FEMALE; FLOW CYTOMETRY; FLUORESCENCE IN SITU HYBRIDIZATION; FREEZING; GENE TARGETING; HUMAN; IN SITU HYBRIDIZATION; INTESTINE FLORA; MALE; MONITORING; NORMAL HUMAN; PHYLOGENY; PRIORITY JOURNAL; QUANTITATIVE ANALYSIS; RNA PROBE; SAMPLE; STORAGE; STORAGE TEMPERATURE; VALIDATION PROCESS;

ADULT; BACTEROIDES; BIFIDOBACTERIUM; CLOSTRIDIUM; DNA, BACTERIAL; FECES; FEMALE; FLOW CYTOMETRY; FUSOBACTERIUM; HUMANS; IN SITU HYBRIDIZATION, FLUORESCENCE; MALE; MIDDLE AGED; RNA, RIBOSOMAL, 16S; SPECIMEN HANDLING;

BACTEROIDES; BIFIDOBACTERIUM; CLOSTRIDIUM; CLOSTRIDIUM COCCOIDES; EUBACTERIUM RECTALE; FAECALIBACTERIUM PRAUSNITZII;

EID: 5344276606     PISSN: 01677012     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.mimet.2004.07.012     Document Type: Article

References (20)

1. R.I. Amann, B.J. Binder, R.J. Olson, S.W. Chisholm, R. Devereux, and D.A. Stahl Combination of 16S rRNA-targeted oligonucleotide probes with flow cytometry for analysing mixed microbial populations Appl. Environ. Microbiol. 56 1990 1919 1925
2. R.I. Amann, L. Krumholz, and D.A. Stahl Fluorescent-oligonucleotide probing of whole cells for determinative, phylogenetic, and environmental studies in microbiology J. Bacteriol. 172 1990 762 770
3. R.I. Amann, W. Ludwig, and K.H. Schleifer Phylogenetic identification and in situ detection of individual microbial cells without cultivation Microbiol. Rev. 59 1995 143 169
4. E.F. DeLong, L.T. Taylor, T.L. Marsh, and C.M. Preston Visualization and enumeration of marine planktonic archaea and bacteria by using polyribonucleotide probes and fluorescent in situ hybridization Appl. Environ. Microbiol. 65 1999 5554 5563
5. S.M. Finegold, V.L. Sutter, and G.E. Mathisen Normal indigenous intestinal flora D.J. Hentges Human Intestinal Microflora in Health and Disease 1983 Academic Press New York 3 31
6. A.H. Franks, H.J. Harmsen, G.C. Raangs, G.J. Jansen, F. Schut, and G.W. Welling Variations of bacterial populations in human feces measured by fluorescent in situ hybridization with group-specific 16S rRNA-targeted oligonucleotide probes Appl. Environ. Microbiol. 64 1998 3336 3345
7. H.J. Harmsen, G.C. Raangs, T. He, J.E. Degener, and G.W. Welling Extensive set of 16S rRNA-based probes for detection of bacteria in human feces Appl. Environ. Microbiol. 68 2002 2982 2990
8. H. Hayashi, M. Sakamoto, and Y. Benno Phylogenetic analysis of the human gut microbiota using 16S rDNA clone libraries and strictly anaerobic culture-based methods Microbiol. Immunol. 46 2002 535 548
9. G.J. Jansen, A.C. Wildeboer-Veloo, R.H. Tonk, A.H. Franks, and G.W. Welling Development and validation of an automated, microscopy-based method for enumeration of groups of intestinal bacteria J. Microbiol. Methods 37 1999 215 221
10. P.S. Langendijk, F. Schut, G.J. Jansen, G.C. Raangs, G.R. Kamphuis, M.H. Wilkinson, and G.W. Welling 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 1995 3069 3075
11. W. Manz, R. Amann, W. Ludwig, M. Vancanneyt, and K.H. Schleifer Application of a suite of 16S rRNA-specific oligonucleotide probes designed to investigate bacteria of the phylum cytophaga-flavobacter-bacteroides in the natural environment Microbiology 142 1996 1097 1106
12. A. Maruyama, and M. Sunamura Simultaneous direct counting of total and specific microbial cells in seawater, using a deep-sea microbe as target Appl. Environ. Microbiol. 66 2000 2211 2215
13. W.E. Moore, and L.V. Holdeman Human fecal flora: the normal flora of 20 Japaneseâ€"Hawaiians Appl. Microbiol. 27 1974 961 979
14. A. Moter, and U.B. Gobel Fluorescence in situ hybridization (FISH) for direct visualization of microorganisms J. Microbiol. Methods 41 2000 85 112
15. L. Rigottier-Gois, A.-G. Le Bourhis, G. Gramet, V. Rochet, and J. Dore Fluorescent hybridisation combined with flow cytometry and hybridisation of total RNA to analyse the composition of microbial communities in human faeces using 16S rRNA probes FEMS Microbiol. Ecol. 43 2003 237 245
16. V. Rochet, L. Rigottier-Gois, F. BÃguet, and J. Dorà Composition of human intestinal flora analysed by fluorescent in situ hybridisation using group-specific 16S rRNA-targeted oligonucleotide probes Genet. Sel. Evol. 33 Suppl. 1 2001 S339 S352
17. A. Suau, R. Bonnet, M. Sutren, J.J. Godon, G.R. Gibson, M.D. Collins, and J. Dorà Direct analysis of genes encoding 16S rRNA from complex communities reveals many novel molecular species within the human gut Appl. Environ. Microbiol. 65 1999 4799 4807
18. A. Suau, V. Rochet, A. Sghir, G. Gramet, S. Brewaeys, M. Sutren, L. RigottierGois, and J. Dore Fusobacterium prausnitzii and related species represent a dominant group within the human fecal flora Syst. Appl. Microbiol. 24 2001 139 145
19. G.W. Tannock, K. Munro, H.J. Harmsen, G.W. Welling, J. Smart, and P.K. Gopal Analysis of the fecal microflora of human subjects consuming a probiotic product containing Lactobacillus rhamnosus DR20 Appl. Environ. Microbiol. 66 2000 2578 2588
20. G. Wallner, R. Amann, and W. Beisker Optimizing fluorescent in situ hybridization with rRNA-targeted oligonucleotide probes for flow cytometric identification of microorganisms Cytometry 14 1993 136 143