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Volumn 7, Issue 7, 2005, Pages 933-946

Design and validation of 16S rRNA probes to enumerate members of the Clostridium leptum subgroup in human faecal microbiota

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL DNA; RIBOSOME DNA; RNA 16S;

EID: 20444393973     PISSN: 14622912     EISSN: None     Source Type: Journal    
DOI: 10.1111/j.1462-2920.2005.00763.x     Document Type: Article
Times cited : (144)

References (40)
  • 3
    • 0025099312 scopus 로고
    • Fluorescent-oligonucleotide probing of whole cells for determinative, phylogenetic, and environmental studies in microbiology
    • Amann, R.I., Krumholz, L., and Stahl, D.A. (1990) Fluorescent- oligonucleotide probing of whole cells for determinative, phylogenetic, and environmental studies in microbiology. J Bacteriol 172: 762-770.
    • (1990) J Bacteriol , vol.172 , pp. 762-770
    • Amann, R.I.1    Krumholz, L.2    Stahl, D.A.3
  • 4
    • 0028946084 scopus 로고
    • Phylogenetic identification and in situ detection of individual microbial cells without cultivation
    • Amann, R.I., Ludwig, W., and Schleifer, K.H. (1995) Phylogenetic identification and in situ detection of individual microbial cells without cultivation. Microbiol Rev 59: 143-169.
    • (1995) Microbiol Rev , vol.59 , pp. 143-169
    • Amann, R.I.1    Ludwig, W.2    Schleifer, K.H.3
  • 6
    • 0028593461 scopus 로고
    • Clostridium viride sp. nov, a strictly anaerobic bacterium using 5-aminovalerate as growth substrate, previously assigned to Clostridium aminovalericum
    • Buckel, W., Janssen, P.H., Schuhmann, A., Eikmanns, U., Messner, P., Sleytr, U., and Liesack, W. (1994) Clostridium viride sp. nov, a strictly anaerobic bacterium using 5-aminovalerate as growth substrate, previously assigned to Clostridium aminovalericum. Arch Microbiol 162: 387-394.
    • (1994) Arch Microbiol , vol.162 , pp. 387-394
    • Buckel, W.1    Janssen, P.H.2    Schuhmann, A.3    Eikmanns, U.4    Messner, P.5    Sleytr, U.6    Liesack, W.7
  • 8
    • 0036866628 scopus 로고    scopus 로고
    • Growth requirements and fermentation products of Fusobacterium prausnitzii, and a proposal to reclassify it as Faecalibacterium prausnitzii gen. nov., comb. nov.
    • Duncan, S.H., Hold, G.L., Harmsen, H., Stewart, C.S., and Flint, H.J. (2002) Growth requirements and fermentation products of Fusobacterium prausnitzii, and a proposal to reclassify it as Faecalibacterium prausnitzii gen. nov., comb. nov. Int J Syst Evol Microbiol 52: 2141-2146.
    • (2002) Int J Syst Evol Microbiol , vol.52 , pp. 2141-2146
    • Duncan, S.H.1    Hold, G.L.2    Harmsen, H.3    Stewart, C.S.4    Flint, H.J.5
  • 10
    • 0031692488 scopus 로고    scopus 로고
    • Variations of bacterial populations in human feces measured by fluorescent in situ hybridization with group-specific 16S rRNA-targeted oligonucleotide probes
    • Franks, A.H., Harmsen, H.J., Raangs, G.C., Jansen, G.J., Schut, F., and Welling, G.W. (1998) 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: 3336-3345.
    • (1998) Appl Environ Microbiol , vol.64 , pp. 3336-3345
    • Franks, A.H.1    Harmsen, H.J.2    Raangs, G.C.3    Jansen, G.J.4    Schut, F.5    Welling, G.W.6
  • 11
    • 0031789907 scopus 로고    scopus 로고
    • Flow cytometric analysis of the in situ accessibility of Escherichia coli 16S rRNA for fluorescently labeled oligonucleotide probes
    • Fuchs, B.M., Wallner, G., Beisker, W., Schwippl, I., Ludwig, W., and Amann, R. (1998) Flow cytometric analysis of the in situ accessibility of Escherichia coli 16S rRNA for fluorescently labeled oligonucleotide probes. Appl Environ Microbiol 64: 4973-4982.
    • (1998) Appl Environ Microbiol , vol.64 , pp. 4973-4982
    • Fuchs, B.M.1    Wallner, G.2    Beisker, W.3    Schwippl, I.4    Ludwig, W.5    Amann, R.6
  • 12
    • 0033966699 scopus 로고    scopus 로고
    • Comparison of viable cell counts and fluorescence in situ hybridization using specific rRNA-based probes for the quantification of human fecal bacteria
    • Harmsen, H.J., Gibson, G.R., Elfferich, P., Raangs, G.C., Wildeboer-Veloo, A.C., Argaiz, A., et al. (2000a) Comparison of viable cell counts and fluorescence in situ hybridization using specific rRNA-based probes for the quantification of human fecal bacteria. FEMS Microbiol Lett 183: 125-129.
    • (2000) FEMS Microbiol Lett , vol.183 , pp. 125-129
    • Harmsen, H.J.1    Gibson, G.R.2    Elfferich, P.3    Raangs, G.C.4    Wildeboer-Veloo, A.C.5    Argaiz, A.6
  • 13
    • 0033781871 scopus 로고    scopus 로고
    • Development of 16S rRNA-based probes for the Coriobacterium group and the Atopobium cluster and their application for enumeration of Coriobacteriaceae in human feces from volunteers of different age groups
    • Harmsen, H.J.M., Wildeboer-Veloo, A.C.M., Grijpstra, J., Knol, J., Degener, J.E., and Welling, G.W. (2000b) Development of 16S rRNA-based probes for the Coriobacterium group and the Atopobium cluster and their application for enumeration of Coriobacteriaceae in human feces from volunteers of different age groups. Appl Environ Microbiol 66: 4523-4527.
    • (2000) Appl Environ Microbiol , vol.66 , pp. 4523-4527
    • Harmsen, H.J.M.1    Wildeboer-Veloo, A.C.M.2    Grijpstra, J.3    Knol, J.4    Degener, J.E.5    Welling, G.W.6
  • 14
    • 0036275614 scopus 로고    scopus 로고
    • Extensive set of 16S rRNA-based probes for detection of bacteria in human feces
    • Harmsen, H.J., Raangs, G.C., He, T., Degener, J.E., and Welling, G.W. (2002) Extensive set of 16S rRNA-based probes for detection of bacteria in human feces. Appl Environ Microbiol 68: 2982-2990.
    • (2002) Appl Environ Microbiol , vol.68 , pp. 2982-2990
    • Harmsen, H.J.1    Raangs, G.C.2    He, T.3    Degener, J.E.4    Welling, G.W.5
  • 15
    • 0036024611 scopus 로고    scopus 로고
    • Phylogenetic analysis of the human gut microbiota using 16S rDNA clone libraries and strictly anaerobic culture-based methods
    • Hayashi, H., Sakamoto, M., and Benno, Y. (2002) Phylogenetic analysis of the human gut microbiota using 16S rDNA clone libraries and strictly anaerobic culture-based methods. Microbiol Immunol 46: 535-548.
    • (2002) Microbiol Immunol , vol.46 , pp. 535-548
    • Hayashi, H.1    Sakamoto, M.2    Benno, Y.3
  • 17
    • 0036399823 scopus 로고    scopus 로고
    • How host-microbial interactions shape the nutrient environment of the mammalian intestine
    • Hooper, L.V., Midtvedt, T., and Gordon, J.I. (2002) How host-microbial interactions shape the nutrient environment of the mammalian intestine. Annu Rev Nutr 22: 283-307.
    • (2002) Annu Rev Nutr , vol.22 , pp. 283-307
    • Hooper, L.V.1    Midtvedt, T.2    Gordon, J.I.3
  • 18
    • 0029162158 scopus 로고
    • Quantitative fluorescence in situ hybridization of Bifidobacterium spp. with genus-specific 16S rRNA-targeted probes and its application in fecal samples
    • Langendijk, P.S., Schut, F., Jansen, G.J., Raangs, G.C., Kamphuis, G.R., Wilkinson, M.H., and 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.
    • (1995) Appl Environ Microbiol , vol.61 , pp. 3069-3075
    • Langendijk, P.S.1    Schut, F.2    Jansen, G.J.3    Raangs, G.C.4    Kamphuis, G.R.5    Wilkinson, M.H.6    Welling, G.W.7
  • 19
    • 0018957077 scopus 로고
    • Differential carbohydrate media and anaerobic replica plating techniques in delineating carbohydrate-utilizing subgroups in rumen bacterial populations
    • Leedle, J.A., and Hespell, R.B. (1980) Differential carbohydrate media and anaerobic replica plating techniques in delineating carbohydrate-utilizing subgroups in rumen bacterial populations. Appl Environ Microbiol 39: 709-719.
    • (1980) Appl Environ Microbiol , vol.39 , pp. 709-719
    • Leedle, J.A.1    Hespell, R.B.2
  • 21
    • 0027068041 scopus 로고
    • Phylogenetic oligodeoxynucleotide probes for the major subclasses of Proteobacteria - Problems and solutions
    • Manz, W., Amann, R., Ludwig, W., Wagner, M., and Schleifer, K.H. (1992) Phylogenetic oligodeoxynucleotide probes for the major subclasses of Proteobacteria - problems and solutions. Syst Appl Microbiol 15: 593-600.
    • (1992) Syst Appl Microbiol , vol.15 , pp. 593-600
    • Manz, W.1    Amann, R.2    Ludwig, W.3    Wagner, M.4    Schleifer, K.H.5
  • 22
    • 9344247522 scopus 로고    scopus 로고
    • Application of a suite of 16S rRNA-specific oligonucleotide probes designed to investigate bacteria of the phylum cytophaga-flavobacter-bacteroides in the natural environment
    • Manz, W., Amann, R., Ludwig, W., Vancanneyt, M., and Schleifer, K.H. (1996) 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) Microbiology , vol.142 , pp. 1097-1106
    • Manz, W.1    Amann, R.2    Ludwig, W.3    Vancanneyt, M.4    Schleifer, K.H.5
  • 23
    • 0016167941 scopus 로고
    • Human fecal flora: The normal flora of 20 Japanese-Hawaiians
    • Moore, W.E., and Holdeman, L.V. (1974) Human fecal flora: the normal flora of 20 Japanese-Hawaiians. Appl Microbiol 27: 961-979.
    • (1974) Appl Microbiol , vol.27 , pp. 961-979
    • Moore, W.E.1    Holdeman, L.V.2
  • 25
    • 0037366989 scopus 로고    scopus 로고
    • Enumeration of Bacteroides species in human faeces by fluorescent in situ hybridisation combined with flow cytometry using 16S rRNA probes
    • Rigottier-Gois, L., Rochet, V., Garrec, N., Suau, A., and Dore, J. (2003a) Enumeration of Bacteroides species in human faeces by fluorescent in situ hybridisation combined with flow cytometry using 16S rRNA probes. Syst Appl Microbiol 26: 110-118.
    • (2003) Syst Appl Microbiol , vol.26 , pp. 110-118
    • Rigottier-Gois, L.1    Rochet, V.2    Garrec, N.3    Suau, A.4    Dore, J.5
  • 26
    • 0037445321 scopus 로고    scopus 로고
    • 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
    • Rigottier-Gois, L., Le Bourhis, A.-G., Gramet, G., Rochet, V., and Dore, J. (2003b) 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: 237-245.
    • (2003) FEMS Microbiol Ecol , vol.43 , pp. 237-245
    • Rigottier-Gois, L.1    Le Bourhis, A.-G.2    Gramet, G.3    Rochet, V.4    Dore, J.5
  • 27
    • 0142123359 scopus 로고    scopus 로고
    • The cellulolytic microflora of the human colon: Evidence of microcrystalline cellulose-degrading bacteria in methane-excreting subjects
    • Robert, C., and Bernalier-Donadille, A. (2003) The cellulolytic microflora of the human colon: evidence of microcrystalline cellulose-degrading bacteria in methane-excreting subjects. FEMS Microbiol Ecol 46: 81-89.
    • (2003) FEMS Microbiol Ecol , vol.46 , pp. 81-89
    • Robert, C.1    Bernalier-Donadille, A.2
  • 28
    • 0035652810 scopus 로고    scopus 로고
    • Composition of human intestinal flora analysed by fluorescent in situ hybridisation using group-specific 16S rRNA-targeted oligonucleotide probes
    • Rochet, V., Rigottier-Gois, L., Béguet, F., and Doré, J. (2001) 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): S339-S352.
    • (2001) Genet Sel Evol , vol.33 , Issue.1 SUPPL.
    • Rochet, V.1    Rigottier-Gois, L.2    Béguet, F.3    Doré, J.4
  • 29
    • 0017596234 scopus 로고
    • Isolation and identification of fecal bacteria from adult swine
    • Salanitro, J.P., Blake, I.G., and Muirhead, P.A. (1977) Isolation and identification of fecal bacteria from adult swine. Appl Environ Microbiol 33: 79-84.
    • (1977) Appl Environ Microbiol , vol.33 , pp. 79-84
    • Salanitro, J.P.1    Blake, I.G.2    Muirhead, P.A.3
  • 31
    • 0033986423 scopus 로고    scopus 로고
    • Quantification of different Eubacterium spp. in human fecal samples with species-specific 16S rRNA-targeted oligonucleotide probes
    • Schwiertz, A., Le Blay, G., and Blaut, M. (2000) Quantification of different Eubacterium spp. in human fecal samples with species-specific 16S rRNA-targeted oligonucleotide probes. Appl Environ Microbiol 66: 375-382.
    • (2000) Appl Environ Microbiol , vol.66 , pp. 375-382
    • Schwiertz, A.1    Le Blay, G.2    Blaut, M.3
  • 32
    • 0034017583 scopus 로고    scopus 로고
    • Quantification of bacterial groups within human fecal flora by oligonucleotide probe hybridization
    • Sghir, A., Gramet, G., Suau, A., Rochet, V., Pochart, P., and Dore, J. (2000) Quantification of bacterial groups within human fecal flora by oligonucleotide probe hybridization. Appl Environ Microbiol 66: 2263-2266.
    • (2000) Appl Environ Microbiol , vol.66 , pp. 2263-2266
    • Sghir, A.1    Gramet, G.2    Suau, A.3    Rochet, V.4    Pochart, P.5    Dore, J.6
  • 33
    • 0032755259 scopus 로고    scopus 로고
    • Direct analysis of genes encoding 16S rRNA from complex communities reveals many novel molecular species within the human gut
    • Suau, A., Bonnet, R., Sutren, M., Godon, J.J., Gibson, G.R., Collins, M.D., and Doré, J. (1999) Direct analysis of genes encoding 16S rRNA from complex communities reveals many novel molecular species within the human gut. Appl Environ Microbiol 65: 4799-4807.
    • (1999) Appl Environ Microbiol , vol.65 , pp. 4799-4807
    • Suau, A.1    Bonnet, R.2    Sutren, M.3    Godon, J.J.4    Gibson, G.R.5    Collins, M.D.6    Doré, J.7
  • 34
    • 0035031148 scopus 로고    scopus 로고
    • Fusobacterium prausnitzii and related species represent a dominant group within the human fecal flora
    • Suau, A., Rochet, V., Sghir, A., Gramet, G., Brewaeys, S., Sutren, M., et al. (2001) Fusobacterium prausnitzii and related species represent a dominant group within the human fecal flora. Syst Appl Microbiol 24: 139-145.
    • (2001) Syst Appl Microbiol , vol.24 , pp. 139-145
    • Suau, A.1    Rochet, V.2    Sghir, A.3    Gramet, G.4    Brewaeys, S.5    Sutren, M.6
  • 35
    • 0035210375 scopus 로고    scopus 로고
    • Development of specific oligonucleotide probes for the identification and in situ detection of hydrocarbon-degrading Alcanivorax strains
    • Syutsubo, K., Kishira, H., and Harayama, S. (2001) Development of specific oligonucleotide probes for the identification and in situ detection of hydrocarbon-degrading Alcanivorax strains. Environ Microbiol 3: 371-379.
    • (2001) Environ Microbiol , vol.3 , pp. 371-379
    • Syutsubo, K.1    Kishira, H.2    Harayama, S.3
  • 36
    • 0034129592 scopus 로고    scopus 로고
    • Analysis of the fecal microflora of human subjects consuming a probiotic product containing Lactobacillus rhamnosus DR20
    • Tannock, G.W., Munro, K., Harmsen, H.J., Welling, G.W., Smart, J., and Gopal, P.K. (2000) Analysis of the fecal microflora of human subjects consuming a probiotic product containing Lactobacillus rhamnosus DR20. Appl Environ Microbiol 66: 2578-2588.
    • (2000) Appl Environ Microbiol , vol.66 , pp. 2578-2588
    • Tannock, G.W.1    Munro, K.2    Harmsen, H.J.3    Welling, G.W.4    Smart, J.5    Gopal, P.K.6
  • 37
    • 0027339723 scopus 로고
    • Optimizing fluorescent in situ hybridization with rRNA-targeted oligonucleotide probes for flow cytometric identification of microorganisms
    • Wallner, G., Amann, R., and Beisker, W. (1993) Optimizing fluorescent in situ hybridization with rRNA-targeted oligonucleotide probes for flow cytometric identification of microorganisms. Cytometry 14: 136-143.
    • (1993) Cytometry , vol.14 , pp. 136-143
    • Wallner, G.1    Amann, R.2    Beisker, W.3
  • 38
    • 0030800930 scopus 로고    scopus 로고
    • PCR detection of Ruminococcus spp. in human and animal faecal samples
    • Wang, R.F., Cao, W.W., and Cerniglia, C.E. (1997) PCR detection of Ruminococcus spp. in human and animal faecal samples. Mol Cell Probes 11: 259-265.
    • (1997) Mol Cell Probes , vol.11 , pp. 259-265
    • Wang, R.F.1    Cao, W.W.2    Cerniglia, C.E.3
  • 39
    • 0029900986 scopus 로고    scopus 로고
    • Human colonic biota studied by ribosomal DNA sequence analysis
    • Wilson, K.H., and Blitchington, R.B. (1996) Human colonic biota studied by ribosomal DNA sequence analysis. Appl Environ Microbiol 62: 2273-2278.
    • (1996) Appl Environ Microbiol , vol.62 , pp. 2273-2278
    • Wilson, K.H.1    Blitchington, R.B.2
  • 40
    • 0036729237 scopus 로고    scopus 로고
    • Quantification of uncultured Ruminococcus obeum-like bacteria in human fecal samples by fluorescent in situ hybridization and flow cytometry using 16S rRNA-targeted probes
    • Zoetendal, E.G., Ben-Amor, K., Harmsen, H.J., Schut, F., Akkermans, A.D., and de Vos, W.M. (2002) Quantification of uncultured Ruminococcus obeum-like bacteria in human fecal samples by fluorescent in situ hybridization and flow cytometry using 16S rRNA-targeted probes. Appl Environ Microbiol 68: 4225-4232.
    • (2002) Appl Environ Microbiol , vol.68 , pp. 4225-4232
    • Zoetendal, E.G.1    Ben-Amor, K.2    Harmsen, H.J.3    Schut, F.4    Akkermans, A.D.5    De Vos, W.M.6


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