Free Access
Issue
Lait
Volume 81, Number 1-2, January-April 2001
10th Meeting of the " Club des Bactéries Lactiques ".
Page(s) 263 - 280
DOI https://doi.org/10.1051/lait:2001130

References

1
Amann R.I., Ludwig W., Schleifer K.H., Phylogenetic identification and in situ detection of individual microbial cells without cultivation, Microbiol. Rev. 59 (1995) 143-169.
2
Barsotti O., Morrier J.J., Freney J., Renaud F., Benay G., Decoret D., Dumont J., Achromopeptidase for rapid lysis of oral anaerobic Gram-positive rods, Oral Microbiol. Immunol. 13 (1988) 86-88.
3
Brosius J., Palmer M.L., Kennedy P.J., Noller H.F, Complete nucleotide sequence of 16S ribosomal RNA gene from Escherichia coli, Proc. Natl. Acad. Sci. USA 75 (1978) 4801-4805.
4
Brunk C.F., Avaniss-Aghajani E., Brunk C.A., Computer analysis of primer and probe hybridization potential with bacterial small-subunit rRNA sequences, Appl. Environ. Microbiol. 62 (1996) 872-879.
5
Buchanan P.E., Gibbons N.E., Bergey's Manual of Determinative Bacteriology, The Williams and Wilkins Company, Baltimore, USA, 1974.
6
de Long F.E., Archaea in costal marine environments, Proc. Natl. Acad. Sci. USA 89 (1992) 5685-5689.
7
Deveaux E., Delplanque P., Neut C., Romond C., Survival of Prevotella intermedia (Bacteroides intermedius) in transport media, J. Biol. Buccale 19 (1991) 241-246.
8
Farrelly V., Rainey F.A., Stackebrandt E., Effect of genome size and rrn gene copy number on PCR amplification of 16S rRNA genes from a mixture of bacterial species, Appl. Environ. Microbiol. 61 (1995) 2798-2801.
9
Felske A., Wolterink A., van Lis R., Akkermans A.D.L., Phylogeny of main bacterial 16S rRNA sequences in Drentse A Grassland soils, Appl. Environ. Microbiol. 64 (1998) 871-879.
10
Finegold S.M., Sutter V.L., Mathisen G.E., Normal indigenous intestinal flora, in: Hentges D.J. (Ed.), Human intestinal microflora in health and disease, Academic Press, New York, 1983, pp. 3-31.
11
Giovannoni S.J., de Long E.F., Olsen G.J., Pace N.R., Phylogenetic group-specific oligodeoxynucleotide probes for identification of single microbial cells, J. Bacteriol. 170 (1988) 720-726.
12
Holdeman L.V., Cato E.P., Moore W.E.C., Human fecal flora: variation in bacterial composition within individuals and a possible effect of emotional stress, Appl. Environ. Microbiol. 31 (1976) 359-375.
13
Hudson M.J., Hill M.J., Elliott P.R., Berghouse L.M., Burnham W.R., Lennard-Jones J.E., The microbial flora of the rectal mucosa and faeces of patients with Crohn's disease before and during antimicrobial chemotherapy, J. Med. Microbiol. 18 (1984) 335-345.
14
Kakar S.N., Magee P.T., Genetic analysis of Candida albicans: identification of different isoleucine-valine, methionine, and arginine alleles by complementation, J. Bacteriol. 151 (1982) 1247-1252.
15
Langendijk P.S., Schut F., Jansen G.J., Raangs G.C., Kamphuis G.R., Wilkinson M.H., Welling G.W., 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.
16
McCartney A.L., Wenzhi W., Tannock G.W., Molecular analysis of the composition of the bifidobacterial and lactobacillus microflora of humans, Appl. Environ. Microbiol. 62 (1996) 4608-4613.
17
McFarlene G.T., Gibson G.R., Metabolic activities of the normal colonic microflora, in: Gibson S.A.W. (Ed.), Human health: contribution of microorganisms, Springer, Frankfurt, Germany, 1994, pp. 17-38.
18
Muyzer G., de Waal E.C., Uitterlinden A.G., Profiling of complex microbial populations by denaturing gradient gel electrophoresis analysis of polymerase chain reaction-amplified genes coding for 16S rRNA, Appl. Environ. Microbiol. 59 (1993) 695-700.
19
Nei M., Li W.-H., Mathematical model for studying genetic variation in terms of restriction endonucleases, Proc. Natl. Acad. Sci. USA 76 (1979) 5269-5273.
20
Olsen G.J., Lane D.J., Giovannoni S.J., Pace N.R., Stahl D.A., Microbial ecology and evolution: a ribosomal RNA approach, Annu. Rev. Microbiol. 40 (1986) 337-365.
21
Peach S.L., Tabaqchali S., Mucosa-associated flora of the human gastrointestinal tract in heath and disease, Eur. J. Chemother. Antibiot. 2 (1982) 41-50.
22
Poulter R., Jeffery K., Hubbard M.J., Shepherd M.G., Sullivan P.A., Parasexual genetic analysis of Candida albicans by spheroplast fusion, J. Bacteriol. 146 (1981) 833-840.
23
Poxton I.R., Brown R., Sawyerr A., Ferguson A., Mucosa-associated bacterial flora of the human colon, J. Med. Microbiol. 46 (1997) 85-91.
24
Savage D.C., Microbial ecology of gastrointestinal tract, Annu. Rev. Microbiol. 31. (1977) 107-133.
25
Sambrook J., Fritsch E.F., Maniatis T., Molecular Cloning: a Laboratory Manual, 2nd ed., Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY, 1989.
26
Suau A., Bonnet R., Sutren M., Godon J.J., Gibson G.R., Collins M.D., Doré J., 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.
27
Suzuki M.T., Giovannoni S.J., Bias caused by template annealing in the amplification of mixtures of 16S rRNA genes by PCR, Appl. Environ. Microbiol. 62 (1996) 625-630.
28
Syed S.A., Loesche W.J., Survival of dental plaque flora in various transport media, Appl. Microbiol. 24 (1972) 638-644.
29
van Steenbergen T.J., Petit M.D., Tijhof C.J., van Winkelhoff A.J., van der Velden U., de Graaff J., Survival in transport media of Actinobacillus actinomycetemcomitans, Porphyromonas gingivalis and Prevotella intermedia in human subgingival samples, Oral Microbiol. Immunol. 8 (1993) 370-374.
30
Vaneechoutte M., Rossau R., de Vos P., Gillis M., Janssens D., Paepe N., de Rouck A., Fiers T., Claeys G., Kersters K., Rapid identification of bacteria of the Comamonadaceae with amplified ribosomal DNA-restriction analysis (ARDRA), FEMS Microbiol. Lett. 93 (1992) 227-234.
31
Wang R.F., Cao W.W., Cerniglia C.E., PCR detection and quantitation of predominant anaerobic bacteria in human and animal fecal samples, Appl. Environ. Microbiol. 62 (1996) 1242-1247.
32
Weidner S., Arnold W., Pühler A., Diversity of uncultured microorganisms associated with the seagrass Halophila stipulacea estimated by restriction fragment length polymorphism analysis of PCR-amplified 16S rRNA genes, Appl. Environ. Microbiol. 62 (1996) 766-771.
33
Weisburg W.G., Barns S.M., Pelletier D.A., Lane D.J., 16S ribosomal DNA amplification for phylogenetic study, J. Bacteriol. 173 (1991) 697-703.
34
Wilson K.H., Blitchington R.B., Human colonic biota studied by ribosomal DNA sequence analysis, Appl. Environ. Microbiol. 62 (1996) 2273-2278.
35
Wintzingerode V.F., Göbel U.B., Stackebrandt E., Determination of microbial diversity in environmental samples: pitfalls of PCR-based rRNA analysis, FEMS Microbiol. Rev. 21 (1997) 213-229.
36
Woese C.R., Bacterial evolution, Microbiol. Rev. 51 (1987) 221-271.
37
Zheng D., Alm E.W., Stahl D.A., Raskin L., Characterization of universal small-subunit rRNA hybridization probes for quantitative molecular microbial ecology studies, Appl. Environ. Microbiol. 62 (1996) 4504-4513.
38
Zoetendal E.G., Akkermans A.D.L., de Vos W.M., Temperature gradient gel electrophoresis analysis of 16S rRNA from human fecal samples reveals stable and host-specific communities of active bacteria, Appl. Environ. Microbiol. 64 (1998) 3854-3859.

Abstract

Copyright INRA, EDP Sciences