Design and evaluation of a 16S rRNA-Targeted oligonucleotide probe for specific detection and quantitation of human faecal Bacteroides populations

Systematic and Applied Microbiology

Volumn 21, Issue 1, 1998, Pages 65-71

  Doré, Joël ^a,c   Schir, Abdhughani ^a   Hannequart Gramet, Genevieve ^a   Corthier, Gerard ^a   Pochart, Philippe ^b  

^a CEMAGREF   (France)

^b Hopital Saint Lazare   (France)

^c NONE   (France)

Author keywords

16S rRNA targeted oligonucleotide probe; Bacteroides; Bifidobacterium; Colony blot; Human faecal flora; Quantitative dot blot hybridization

Indexed keywords

RIBOSOME DNA; RNA 16S;

ADULT; ARTICLE; BACTEROIDES; FECES MICROFLORA; HUMAN; IMMUNOBLOTTING; INFANT; NONHUMAN; OLIGONUCLEOTIDE PROBE; PORPHYROMONAS; PREVOTELLA; PRIORITY JOURNAL; QUANTITATIVE ASSAY;

ANIMALIA; BACTEROIDES; BACTEROIDES VULGATUS; BIFIDOBACTERIUM; MICROBIOTA; NEGIBACTERIA; PORPHYROMONAS; PREVOTELLA; PROKARYOTA;

EID: 0031892290     PISSN: 07232020     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0723-2020(98)80009-X     Document Type: Article

References (30)

1. ALM, E., OERTHER, D. B., LARSEN, N., STAHL, D. A., RASKIN, L.: The Oligonucleotide Probe Database. Appl. Environ. Microbiol. 62, 3557-3559 (1996).
2. AMANN, R. I., LUDWIG, W., SCHLEIFER, K.-H.: Phylogenetic identification and in situ detection of individual microbial cells without cultivation. Microbiol. Rev. 59, 143-169 (1995).
3. CORTHIER, G., MULLER, M. C., LHARIDON, R.: Selective enumeration of Bacteroides vulgatus and B. distasonis organisms in the predominant human fecal flora using monoclonal antibodies. Appl. Environ. Microbiol. 62, 735-738 (1996).
4. DORÉ, J., GODINOT, A. C., GODEREL, I., POCHART, P.: Détection et quantification des méthanogènes dans les selles humaines à l'aide d'une sonde d'hybridation archaea-spécifique, pp. 239-246. In: Nouvelles Tendances en Microbiologie Anaérobie (Société Française de Microbiologie, ed.) Paris, Société Française de Microbiologie 1994.
5. 2-utilizing acetogenic bacteria from the digestive tract of animals and man. FEMS Microbiol. Lett. 130, 7-12 (1995).
6. FINEGOLD, S. M., SUTTER, V. L., MATHISEN, G. E.: Normal indigenous intestinal microflora, pp. 3-31. In: Human Intestinal Microflora in Health and Disease. (D. J. HENTGES, ed.) New York, Academic Press 1983.
7. FROTHINGHAM, R., DUNCUN, A. J., WILSON, K. H.: Ribosomal DNA sequences of bifidobacteria: implications for sequence based identification of the human colonic microflora. Microb. Ecol. Health Dis. 6, 23-27 (1993).
8. GHERNA, R., WOESE, C. R.: A partial phylogenetic analysis of the "Flavobacter-Bacteroides" phylum: basis for taxonomic restructuring. System. Appl. Microbiol. 15, 513-521 (1992).
9. KOK, R. G., DE WAAL, A., SCHUT, F., WELLING, G. W., WEENK G., HELLINGWERF, K. J.: Specific detection and analysis of a probiotic Bifobacterium strain in infant feces. Appl. Environ. Microbiol. 62, 3668-3672 (1996).
10. KREADER, C. A.: Design and evaluation of Bacteroides DNA probes for the specific detection of human fecal pollution. Appl. Environ. Microbiol. 61, 1171-1179 (1995).
11. KURITZA, A. P., SALYERS, A. A.: Use of a species-specific DNA hybridization probe for enumerating Bacteroides vulgatus in human feces. Appl. Environ. Microbiol. 50, 958-964 (1985).
12. KURITZA, A. P., SHAUGHNESSY, P., SALYERS, A. A.: Enumeration of polysaccharide-degrading Bacteroides species in human feces by using species-specific DNA probes. Appl. Environ. Microbiol. 50, 958-964 (1986).
13. LANGENDIJK, P. S., SCHUT, F., JANSEN, G. J., RAANGS, G. C., KAMPHUIS, G. R., WILKINSON, M. H. F., 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, 3069-3075 (1995).
14. MACDONALD, I. A., BOKKENHEUSER, V. D., WINTER, J., MCLERNON, A. M., MOSBACH, E. H.: Degradation of steroids in the human gut. J. Lipid Res. 24, 675-700 (1983).
15. MANZ, W., AMANN, R., LUDWIG, W., VANCANNEYT, M., SCHLEIFER, K.-H.: 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, 1097-1106 (1996).
16. MOORE, W. E. C., HOLDEMAN, L. V.: Human fecal flora: the normal flora of 20 japanese-hawaiians. Appl. Microbiol 27, 961-979 (1974).
17. ODENYO, A. A., MACKIE, R. I., STAHL, D. A., WHITE, B. A.: The use of 16S rRNA-targeted oligonucleotide probes to study competition between ruminal fibrolytic bacteria: pure-culture studies with cellulose and alkaline peroxide-treated wheat straw. Appl. Environ Microbiol. 60, 3697-3703 (1994).
18. OLSEN, G. J., OVERBEEK, R., LARSEN, N., MARSH, T. L., MCCAUGHEY, M. J., MACIUKENAS, M. A., KUAN, W.-M., MACKE, J., XING, Y., WOESE, C. R.: The ribosomal database project. Nucleic Acids Res. 20 Suppl. 2199-2200 (1992).
19. PASTER, B. J., DEWHIRST, F. E., OLSEN, I., FRASER, G. J.: Phylogeny of Bacteroides, Prevotella, and Porphyromonas spp. and related bacteria. J. Bacteriol. 176, 725-732 (1994).
20. POCHART, P., DORÉ, J., LÉMANN, F., GODEREL, I., RAMBAUD, J. C.: Interrelation between populations of methanogenic archaea and sulfate-reducing bacteria in the human colon. FEMS Microbiol. Lett. 98, 225-228 (1992).
21. POULSEN, L. K., BALLARD, G., STAHL, D. A.: 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 (1993).
22. RASKIN, L., POULSEN, L. K., NOGUERA, D. R., RITTMANN, B. E., STAHL, D. A.: Qualification of methanogenic groups in anaerobic biological reactors by oligonucleotide probe hybridization. Appl. Environ. Microbiol. 60, 1241-1248 (1994).
23. RUIMY, R., BREITTMAYER, V., BOIVIN, V., CHRISTEN, R.: Assessment of state of activity of individual bacterial cells by hybridization with a ribosomal RNA targeted fluorescently labeled oligonucleotidic probe. FEMS Microbiol. Ecol. 15, 207-214 (1994).
24. SALVERS, A. A.: Bacteroides of the human lower digestive tract. Ann. Rev. Microbiol. 38, 293-313 (1984).
25. SALYERS, A. A., KURIZA, A. P., MCCARTHY, R. E.: Influence of dietary fibre on the intestinal environment. Proc. Soc. Exp. Biol. Med. 180, 415-421 (1985).
26. SAVAGE, D. C.: Microbial ecology of the gastrointestinal tract. Ann. Rev. Microbiol. 31, 107-133 (1977).
27. SHAH, H. N., COLLINS, M. D.: Proposal to restrict the genus Bacteroides (CASTELLANI and CHALMERS) to Bacteroides fragilis and closely related species. Int. J. Syst. Bacteriol. 39, 85-87 (1989).
28. STAHL, D. A.: Application of phylogenetically based hybridization probes to molecular microbial ecology. Molecular Ecology 4, 535-542 (1995).
29. STAHL, D. A., FLESHER, B., MANSFIELD, H. R., MONTGOMERY, L.: Use of phylogenetically based hybridization probes for studies of ruminal microbial ecology. Appl. Environ. Microbiol. 54, 1079-1084 (1988).
30. WEISBURG, W. G., BARNS, S. M., PELLETIER, D. A., LANE, D. J.: 16S ribosomal DNA amplification for phylogenetic study. J. Bacteriol. 173, 697-703 (1991).