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Volumn 74, Issue 9, 2008, Pages 2882-2893

Relative abundance of Bacteroides spp. in stools and wastewaters as determined by hierarchical oligonucleotide primer extension

Author keywords

[No Author keywords available]

Indexed keywords

FLUORESCENCE; OLIGONUCLEOTIDES; REACTION KINETICS; RNA; WASTEWATER;

EID: 43049105731     PISSN: 00992240     EISSN: None     Source Type: Journal    
DOI: 10.1128/AEM.02568-07     Document Type: Article
Times cited : (46)

References (43)
  • 2
    • 0035370087 scopus 로고    scopus 로고
    • The identification of microorganisms by fluorescence in situ hybridisation
    • Amann, R., B. M. Fuchs, and S. Behrens. 2001. The identification of microorganisms by fluorescence in situ hybridisation. Curr. Opin. Biotechnol. 12:231-236.
    • (2001) Curr. Opin. Biotechnol , vol.12 , pp. 231-236
    • Amann, R.1    Fuchs, B.M.2    Behrens, S.3
  • 4
    • 2942592005 scopus 로고    scopus 로고
    • Characterization of bacterial communities in feces from healthy elderly volunteers and hospitalized elderly patients by using real-time PCR and effects of antibiotic treatment on the fecal microbiota
    • Bartosch, S., A. Fite, G. T. Macfarlane, and M. E. McMurdo. 2004. Characterization of bacterial communities in feces from healthy elderly volunteers and hospitalized elderly patients by using real-time PCR and effects of antibiotic treatment on the fecal microbiota. Appl. Environ. Microbiol. 70:3575-3581.
    • (2004) Appl. Environ. Microbiol , vol.70 , pp. 3575-3581
    • Bartosch, S.1    Fite, A.2    Macfarlane, G.T.3    McMurdo, M.E.4
  • 5
    • 0034126848 scopus 로고    scopus 로고
    • Identification of nonpoint sources of fecal pollution in coastal waters by using host-specific 16S ribosomal DNA genetic markers from fecal anaerobes
    • Bernhard, A. E., and K. G. Field. 2000. Identification of nonpoint sources of fecal pollution in coastal waters by using host-specific 16S ribosomal DNA genetic markers from fecal anaerobes. Appl. Environ. Microbiol. 66:1587-1594.
    • (2000) Appl. Environ. Microbiol , vol.66 , pp. 1587-1594
    • Bernhard, A.E.1    Field, K.G.2
  • 6
    • 0033774937 scopus 로고    scopus 로고
    • A PCR assay to discriminate human and ruminant feces on the basis of host differences in Bacteroides-Prevotella genes encoding 16S rRNA
    • Bernhard, A. E., and K. G. Field. 2000. A PCR assay to discriminate human and ruminant feces on the basis of host differences in Bacteroides-Prevotella genes encoding 16S rRNA. Appl. Environ. Microbiol. 66:4571-4574.
    • (2000) Appl. Environ. Microbiol , vol.66 , pp. 4571-4574
    • Bernhard, A.E.1    Field, K.G.2
  • 7
    • 0037388225 scopus 로고    scopus 로고
    • Understanding bias in microbial community analysis techniques due to rm operon copy number heterogeneity
    • Crosby, L. D., and C. S. Criddle. 2003. Understanding bias in microbial community analysis techniques due to rm operon copy number heterogeneity. BioTechniques 34:790-803.
    • (2003) BioTechniques , vol.34 , pp. 790-803
    • Crosby, L.D.1    Criddle, C.S.2
  • 8
    • 0020681426 scopus 로고
    • Bacterial populations associated with different regions of the human colon wall
    • Croucher, S. C., A. P. Houston, C. E. Bayliss, and R. J. Turner. 1983. Bacterial populations associated with different regions of the human colon wall. Appl. Environ. Microbiol. 45:1025-1033.
    • (1983) Appl. Environ. Microbiol , vol.45 , pp. 1025-1033
    • Croucher, S.C.1    Houston, A.P.2    Bayliss, C.E.3    Turner, R.J.4
  • 10
    • 4644301880 scopus 로고    scopus 로고
    • Rapid estimation of numbers of fecal Bacteroidetes by use of a quantitative PCR assay for 16S rRNA genes
    • Dick, L. K., and K. G. Field. 2004. Rapid estimation of numbers of fecal Bacteroidetes by use of a quantitative PCR assay for 16S rRNA genes. Appl. Environ. Microbiol. 70:5695-5697.
    • (2004) Appl. Environ. Microbiol , vol.70 , pp. 5695-5697
    • Dick, L.K.1    Field, K.G.2
  • 12
    • 19544378728 scopus 로고    scopus 로고
    • Bacteroides massiliensis sp. nov., isolated from blood culture of a newborn
    • Fenner, L., V. Roux, M.-N. Mallet, and D. Raoult. 2005. Bacteroides massiliensis sp. nov., isolated from blood culture of a newborn. Int. J. Syst. Evol. Microbiol. 55:1335-1337.
    • (2005) Int. J. Syst. Evol. Microbiol , vol.55 , pp. 1335-1337
    • Fenner, L.1    Roux, V.2    Mallet, M.-N.3    Raoult, D.4
  • 13
    • 0030820505 scopus 로고    scopus 로고
    • Recently described clinically important anaerobic bacteria: Medical aspects
    • Finegold, S. M., and H. Jousimies-Somer. 1997. Recently described clinically important anaerobic bacteria: medical aspects. Clin. Infect. Dis. 25(Suppl. 2):S88-S93.
    • (1997) Clin. Infect. Dis , vol.25 , Issue.SUPPL. 2
    • Finegold, S.M.1    Jousimies-Somer, H.2
  • 14
    • 26844510666 scopus 로고    scopus 로고
    • Comparison of Bacteroides-Prevotella 16S rRNA genetic markers for fecal samples from different animal species
    • Fogarty, L. R., and M. A. Voytek. 2005. Comparison of Bacteroides-Prevotella 16S rRNA genetic markers for fecal samples from different animal species. Appl. Environ. Microbiol. 71:5999-6007.
    • (2005) Appl. Environ. Microbiol , vol.71 , pp. 5999-6007
    • Fogarty, L.R.1    Voytek, M.A.2
  • 15
    • 2942525588 scopus 로고    scopus 로고
    • Molecular microbial ecology: Land of the one-eyed king
    • Forney, L. J., X. Zhou, and C. J. Brown. 2004. Molecular microbial ecology: land of the one-eyed king. Curr. Opin. Microbiol. 7:210-220.
    • (2004) Curr. Opin. Microbiol , vol.7 , pp. 210-220
    • Forney, L.J.1    Zhou, X.2    Brown, C.J.3
  • 16
    • 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., H. J. Harmsen, G. C. Raangs, G. J. Jansen, F. Schut, and G. W. Welling. 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
  • 17
    • 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., G. Wallner, W. Beisker, I. Schwippl, W. Ludwig, and R. Amann. 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
  • 18
    • 0037425743 scopus 로고    scopus 로고
    • Gut flora in health and disease
    • Guarner, F., and J. R. Malagelada. 2003. Gut flora in health and disease. Lancet 361:512-519.
    • (2003) Lancet , vol.361 , pp. 512-519
    • Guarner, F.1    Malagelada, J.R.2
  • 19
    • 0036275614 scopus 로고    scopus 로고
    • Extensive set of 16S rRNA-based probes for detection of bacteria in human feces
    • Harmsen, H. J., G. C. Raangs, T. He, J. E. Degener, and G. W. Welling. 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
  • 20
    • 0036917143 scopus 로고    scopus 로고
    • Fecal microbial diversity in a strict vegetarian as determined by molecular analysis and cultivation
    • Hayashi, H., M. Sakamoto, and Y. Benno. 2002. Fecal microbial diversity in a strict vegetarian as determined by molecular analysis and cultivation. Microbiol. Immunol. 46:819-831.
    • (2002) Microbiol. Immunol , vol.46 , pp. 819-831
    • Hayashi, H.1    Sakamoto, M.2    Benno, Y.3
  • 21
    • 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., M. Sakamoto, and Y. Benno. 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
  • 22
    • 0036241355 scopus 로고    scopus 로고
    • Changes in predominant bacterial populations in human faeces with age and with Clostridium difficile infection
    • Hopkins, M. J., and G. T. Macfarlane. 2002. Changes in predominant bacterial populations in human faeces with age and with Clostridium difficile infection. J. Med. Microbiol. 51:448-454.
    • (2002) J. Med. Microbiol , vol.51 , pp. 448-454
    • Hopkins, M.J.1    Macfarlane, G.T.2
  • 23
    • 0022977307 scopus 로고
    • Bacteroides caccae sp. nov., Bacteroides merdae sp. nov., and Bacteroides stercoris sp. nov. isolated from human feces
    • Johnson, J. L., W. E. C. Moore, and L. V. H. Moore. 1986. Bacteroides caccae sp. nov., Bacteroides merdae sp. nov., and Bacteroides stercoris sp. nov. isolated from human feces. Int. J. Syst. Bacteriol. 36:499-501.
    • (1986) Int. J. Syst. Bacteriol , vol.36 , pp. 499-501
    • Johnson, J.L.1    Moore, W.E.C.2    Moore, L.V.H.3
  • 25
    • 0027460327 scopus 로고
    • Monitoring the enrichment and isolation of sulfate-reducing bacteria by using oligonucleotide hybridization probes designed from environmentally derived 16S rRNA sequences
    • Kane, M. D., L. K. Poulsen, and D. A. Stahl. 1993. Monitoring the enrichment and isolation of sulfate-reducing bacteria by using oligonucleotide hybridization probes designed from environmentally derived 16S rRNA sequences. Appl. Environ. Microbiol. 59:682-686.
    • (1993) Appl. Environ. Microbiol , vol.59 , pp. 682-686
    • Kane, M.D.1    Poulsen, L.K.2    Stahl, D.A.3
  • 26
    • 26244435986 scopus 로고    scopus 로고
    • Bacteroides plebeius sp. nov. and Bacteroides coprocola sp. nov., isolated from human faeces
    • Kitahara, M., M. Sakamoto, M. Ike, S. Sakata, and Y. Benno. 2005. Bacteroides plebeius sp. nov. and Bacteroides coprocola sp. nov., isolated from human faeces. Int. J. Syst. Evol. Microbiol. 55:2143-2147.
    • (2005) Int. J. Syst. Evol. Microbiol , vol.55 , pp. 2143-2147
    • Kitahara, M.1    Sakamoto, M.2    Ike, M.3    Sakata, S.4    Benno, Y.5
  • 27
    • 0028906052 scopus 로고
    • Design and evaluation of Bacteroides DNA probes for the specific detection of human fecal pollution
    • Kreader, C. A. 1995. Design and evaluation of Bacteroides DNA probes for the specific detection of human fecal pollution. Appl. Environ. Microbiol. 61:1171-1179.
    • (1995) Appl. Environ. Microbiol , vol.61 , pp. 1171-1179
    • Kreader, C.A.1
  • 28
    • 0001857117 scopus 로고
    • 16S/23S rRNA sequencing
    • E. Stackebrandt and M. Goodfellow ed, John Wiley & Sons, Inc, New York, NY
    • Lane, D. J. 1991. 16S/23S rRNA sequencing, p. 115-175. In E. Stackebrandt and M. Goodfellow (ed.), Nucleic acids techniques in bacterial systematics. John Wiley & Sons, Inc., New York, NY.
    • (1991) Nucleic acids techniques in bacterial systematics , pp. 115-175
    • Lane, D.J.1
  • 29
    • 33745153077 scopus 로고    scopus 로고
    • Development of Bacteroides 16S rRNA gene TaqMan-based real-time PCR assays for estimation of total, human, and bovine fecal pollution in water
    • Layton, A., L. McKay, D. Williams, V. Garrett, R. Gentry, and G. Sayler. 2006. Development of Bacteroides 16S rRNA gene TaqMan-based real-time PCR assays for estimation of total, human, and bovine fecal pollution in water. Appl. Environ. Microbiol. 72:4214-4224.
    • (2006) Appl. Environ. Microbiol , vol.72 , pp. 4214-4224
    • Layton, A.1    McKay, L.2    Williams, D.3    Garrett, V.4    Gentry, R.5    Sayler, G.6
  • 31
    • 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., R. Amann, W. Ludwig, M. Vancanneyt, and K. H. Schleifer. 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
  • 32
    • 0036242883 scopus 로고    scopus 로고
    • A comparison of five methods for extraction of bacterial DNA from human faecal samples
    • McOrist, A. L., M. Jackson, and A. R. Bird. 2002. A comparison of five methods for extraction of bacterial DNA from human faecal samples. J. Microbiol. Methods 50:131-139.
    • (2002) J. Microbiol. Methods , vol.50 , pp. 131-139
    • McOrist, A.L.1    Jackson, M.2    Bird, A.R.3
  • 33
    • 33747329331 scopus 로고    scopus 로고
    • Quantitative PCR method for sensitive detection of ruminant fecal pollution in freshwater and evaluation of this method in alpine karstic regions
    • Reischer, G. H., D. C. Kasper, R. Steinborn, R. L. Mach, and A. H. Farnleitner. 2006. Quantitative PCR method for sensitive detection of ruminant fecal pollution in freshwater and evaluation of this method in alpine karstic regions. Appl. Environ. Microbiol. 72:5610-5614.
    • (2006) Appl. Environ. Microbiol , vol.72 , pp. 5610-5614
    • Reischer, G.H.1    Kasper, D.C.2    Steinborn, R.3    Mach, R.L.4    Farnleitner, A.H.5
  • 34
    • 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., V. Rochet, N. Garrec, A. Suau, and J. Dore. 2003. 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
  • 35
    • 0017750010 scopus 로고
    • Fermentation of mucins and plant polysaccharides by anaerobic bacteria from the human colon
    • Salyers, A. A., S. E. West, J. R. Vercellotti, and T. D. Wilkins. 1977. Fermentation of mucins and plant polysaccharides by anaerobic bacteria from the human colon. Appl. Environ. Microbiol. 34:529-533.
    • (1977) Appl. Environ. Microbiol , vol.34 , pp. 529-533
    • Salyers, A.A.1    West, S.E.2    Vercellotti, J.R.3    Wilkins, T.D.4
  • 36
    • 0025860931 scopus 로고
    • Analysis of a marine picoplankton community by 16S rRNA gene cloning and sequencing
    • Schmidt, T. M., E. F. DeLong, and N. R. Pace. 1991. Analysis of a marine picoplankton community by 16S rRNA gene cloning and sequencing. J. Bacteriol. 173:4371-4378.
    • (1991) J. Bacteriol , vol.173 , pp. 4371-4378
    • Schmidt, T.M.1    DeLong, E.F.2    Pace, N.R.3
  • 37
    • 34247098019 scopus 로고    scopus 로고
    • Effect of primer mismatch, annealing temperature and PCR cycle number on 16S rRNA gene-targetting bacterial community analysis
    • Sipos, R., A. J. Szekely, M. Palatinszky, S. Revesz, K. Marialigeti, and M. Nikolausz. 2007. Effect of primer mismatch, annealing temperature and PCR cycle number on 16S rRNA gene-targetting bacterial community analysis. FEMS Microbiol. Ecol. 60:341-350.
    • (2007) FEMS Microbiol. Ecol , vol.60 , pp. 341-350
    • Sipos, R.1    Szekely, A.J.2    Palatinszky, M.3    Revesz, S.4    Marialigeti, K.5    Nikolausz, M.6
  • 38
    • 10844247842 scopus 로고    scopus 로고
    • Bacteroides nordii" sp. nov. and "Bacteroides salyersae" sp. nov. isolated from clinical specimens of human intestinal origin
    • Song, Y. L., C. X. Liu, M. McTeague, and S. M. Finegold. 2004. "Bacteroides nordii" sp. nov. and "Bacteroides salyersae" sp. nov. isolated from clinical specimens of human intestinal origin. J. Clin. Microbiol. 42:5565-5570.
    • (2004) J. Clin. Microbiol , vol.42 , pp. 5565-5570
    • Song, Y.L.1    Liu, C.X.2    McTeague, M.3    Finegold, S.M.4
  • 39
    • 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., R. Bonnet, M. Sutren, J. J. Godon, G. R. Gibson, M. D. Collins, and J. Dore. 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    Dore, J.7
  • 40
    • 0027299353 scopus 로고
    • Probing activated sludge with oligonucleotides specific for proteobacteria: Inadequacy of culture-dependent methods for describing microbial community structure
    • Wagner, M., R. Amann, H. Lemmer, and K. H. Schleifer. 1993. Probing activated sludge with oligonucleotides specific for proteobacteria: inadequacy of culture-dependent methods for describing microbial community structure. Appl. Environ. Microbiol. 59:1520-1525.
    • (1993) Appl. Environ. Microbiol , vol.59 , pp. 1520-1525
    • Wagner, M.1    Amann, R.2    Lemmer, H.3    Schleifer, K.H.4
  • 41
    • 34547105830 scopus 로고    scopus 로고
    • Quantitative multiplexing analysis of PCR-amplified ribosomal RNA genes by hierarchical oligonucleotide primer extension reaction
    • Wu, J. H., and W. T. Liu. 2007. Quantitative multiplexing analysis of PCR-amplified ribosomal RNA genes by hierarchical oligonucleotide primer extension reaction. Nucleic Acids Res. 35:e82.
    • (2007) Nucleic Acids Res , vol.35
    • Wu, J.H.1    Liu, W.T.2
  • 43
    • 0029859948 scopus 로고    scopus 로고
    • Characterization of universal small-subunit rRNA hybridization probes for quantitative molecular microbial ecology studies
    • Zheng, D., E. W. Alm, D. A. Stahl, and L. Raskin. 1996. Characterization of universal small-subunit rRNA hybridization probes for quantitative molecular microbial ecology studies. Appl. Environ. Microbiol. 62:4504-4513.
    • (1996) Appl. Environ. Microbiol , vol.62 , pp. 4504-4513
    • Zheng, D.1    Alm, E.W.2    Stahl, D.A.3    Raskin, L.4


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