This Article
Right arrow Full Text
Right arrow Full Text (PDF)
Right arrow Alert me when this article is cited
Right arrow Alert me if a correction is posted
Services
Right arrow Similar articles in this journal
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Download to citation manager
Right arrowReprints and Permissions
Right arrow Copyright Information
Right arrow Books from ASM Press
Right arrow MicrobeWorld
Citing Articles
Right arrow Citing Articles via HighWire
Right arrow Citing Articles via Google Scholar
Google Scholar
Right arrow Articles by Satokari, R. M.
Right arrow Articles by de Vos, W. M.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Satokari, R. M.
Right arrow Articles by de Vos, W. M.
Agricola
Right arrow Articles by Satokari, R. M.
Right arrow Articles by de Vos, W. M.

 Previous Article  |  Next Article 

Applied and Environmental Microbiology, February 2001, p. 504-513, Vol. 67, No. 2
0099-2240/01/$04.00+0   DOI: 10.1128/AEM.67.2.504-513.2001
Copyright © 2001, American Society for Microbiology. All rights reserved.

Bifidobacterial Diversity in Human Feces Detected by Genus-Specific PCR and Denaturing Gradient Gel Electrophoresis

Reetta M. Satokari,1,* Elaine E. Vaughan,1 Antoon D. L. Akkermans,1 Maria Saarela,2 and Willem M. de Vos1

Laboratory of Microbiology, Department of Biomolecular Sciences, Wageningen University, 6703 CT Wageningen, The Netherlands,1 and VTT Biotechnology, FIN-02044 VTT, Finland2

Received 26 June 2000/Accepted 26 October 2000

We describe the development and validation of a method for the qualitative analysis of complex bifidobacterial communities based on PCR and denaturing gradient gel electrophoresis (DGGE). Bifidobacterium genus-specific primers were used to amplify an approximately 520-bp fragment from the 16S ribosomal DNA (rDNA), and the fragments were separated in a sequence-specific manner in DGGE. PCR products of the same length from different bifidobacterial species showed good separation upon DGGE. DGGE of fecal 16S rDNA amplicons from five adult individuals showed host-specific populations of bifidobacteria that were stable over a period of 4 weeks. Sequencing of fecal amplicons resulted in Bifidobacterium-like sequences, confirming that the profiles indeed represent the bifidobacterial population of feces. Bifidobacterium adolescentis was found to be the most common species in feces of the human adult subjects in this study. The methodological approach revealed intragenomic 16S rDNA heterogeneity in the type strain of B. adolescentis, E-981074. The strain was found to harbor five copies of 16S rDNA, two of which were sequenced. The two 16S rDNA sequences of B. adolescentis E-981074T exhibited microheterogeneity differing in eight positions over almost the total length of the gene.

* Corresponding author. Mailing address: Laboratory of Microbiology, Wageningen University, Hesselink van Suchtelenweg 4, 6703 CT Wageningen, The Netherlands. Phone: 31 317 483742. Fax: 31 317 483829. E-mail: reetta.satokari{at}algemeen.micr.wau.nl.

Applied and Environmental Microbiology, February 2001, p. 504-513, Vol. 67, No. 2
0099-2240/01/$04.00+0   DOI: 10.1128/AEM.67.2.504-513.2001
Copyright © 2001, American Society for Microbiology. All rights reserved.


This article has been cited by other articles:

  • Gueimonde, M., Garrigues, C., van Sinderen, D., de los Reyes-Gavilan, C. G., Margolles, A. (2009). Bile-Inducible Efflux Transporter from Bifidobacterium longum NCC2705, Conferring Bile Resistance. Appl. Environ. Microbiol. 75: 3153-3160 [Abstract] [Full Text]  
  • Klaassens, E. S., Boesten, R. J., Haarman, M., Knol, J., Schuren, F. H., Vaughan, E. E., de Vos, W. M. (2009). Mixed-Species Genomic Microarray Analysis of Fecal Samples Reveals Differential Transcriptional Responses of Bifidobacteria in Breast- and Formula-Fed Infants. Appl. Environ. Microbiol. 75: 2668-2676 [Abstract] [Full Text]  
  • Engelbrektson, A., Korzenik, J. R., Pittler, A., Sanders, M. E., Klaenhammer, T. R., Leyer, G., Kitts, C. L. (2009). Probiotics to minimize the disruption of faecal microbiota in healthy subjects undergoing antibiotic therapy. J Med Microbiol 58: 663-670 [Abstract] [Full Text]  
  • Turroni, F., Foroni, E., Pizzetti, P., Giubellini, V., Ribbera, A., Merusi, P., Cagnasso, P., Bizzarri, B., de'Angelis, G. L., Shanahan, F., van Sinderen, D., Ventura, M. (2009). Exploring the Diversity of the Bifidobacterial Population in the Human Intestinal Tract. Appl. Environ. Microbiol. 75: 1534-1545 [Abstract] [Full Text]  
  • Martin, R., Jimenez, E., Heilig, H., Fernandez, L., Marin, M. L., Zoetendal, E. G., Rodriguez, J. M. (2009). Isolation of Bifidobacteria from Breast Milk and Assessment of the Bifidobacterial Population by PCR-Denaturing Gradient Gel Electrophoresis and Quantitative Real-Time PCR. Appl. Environ. Microbiol. 75: 965-969 [Abstract] [Full Text]  
  • Vasquez, N., Suau, A., Magne, F., Pochart, P., Pelissier, M.-A. (2009). Differential Effects of Bifidobacterium pseudolongum Strain Patronus and Metronidazole in the Rat Gut. Appl. Environ. Microbiol. 75: 381-386 [Abstract] [Full Text]  
  • Maukonen, J., Matto, J., Suihko, M.-L., Saarela, M. (2008). Intra-individual diversity and similarity of salivary and faecal microbiota. J Med Microbiol 57: 1560-1568 [Abstract] [Full Text]  
  • Zoetendal, E G, Rajilic-Stojanovic, M, de Vos, W M (2008). High-throughput diversity and functionality analysis of the gastrointestinal tract microbiota. Gut 57: 1605-1615 [Abstract] [Full Text]  
  • Biasucci, G., Benenati, B., Morelli, L., Bessi, E., Boehm, G. (2008). Cesarean Delivery May Affect the Early Biodiversity of Intestinal Bacteria. J. Nutr. 138: 1796S-1800S [Abstract] [Full Text]  
  • Depeint, F., Tzortzis, G., Vulevic, J., I'Anson, K., Gibson, G. R (2008). Prebiotic evaluation of a novel galactooligosaccharide mixture produced by the enzymatic activity of Bifidobacterium bifidum NCIMB 41171, in healthy humans: a randomized, double-blind, crossover, placebo-controlled intervention study. Am. J. Clin. Nutr. 87: 785-791 [Abstract] [Full Text]  
  • Shadid, R., Haarman, M., Knol, J., Theis, W., Beermann, C., Rjosk-Dendorfer, D., Schendel, D. J, Koletzko, B. V, Krauss-Etschmann, S. (2007). Effects of galactooligosaccharide and long-chain fructooligosaccharide supplementation during pregnancy on maternal and neonatal microbiota and immunity a randomized, double-blind, placebo-controlled study. Am. J. Clin. Nutr. 86: 1426-1437 [Abstract] [Full Text]  
  • Barrett, E., Ross, R. P., Fitzgerald, G. F., Stanton, C. (2007). Rapid Screening Method for Analyzing the Conjugated Linoleic Acid Production Capabilities of Bacterial Cultures. Appl. Environ. Microbiol. 73: 2333-2337 [Abstract] [Full Text]  
  • Nakatsu, C. H. (2007). Soil Microbial Community Analysis Using Denaturing Gradient Gel Electrophoresis. Soil Sci. 71: 562-571 [Abstract] [Full Text]  
  • Ben Amor, K., Vaughan, E. E., de Vos, W. M. (2007). Advanced Molecular Tools for the Identification of Lactic Acid Bacteria. J. Nutr. 137: 741S-747S [Abstract] [Full Text]  
  • Klaassens, E. S., de Vos, W. M., Vaughan, E. E. (2007). Metaproteomics Approach To Study the Functionality of the Microbiota in the Human Infant Gastrointestinal Tract. Appl. Environ. Microbiol. 73: 1388-1392 [Abstract] [Full Text]  
  • Ledder, R. G., Gilbert, P., Huws, S. A., Aarons, L., Ashley, M. P., Hull, P. S., McBain, A. J. (2007). Molecular Analysis of the Subgingival Microbiota in Health and Disease. Appl. Environ. Microbiol. 73: 516-523 [Abstract] [Full Text]  
  • Vanhoutte, T., De Preter, V., De Brandt, E., Verbeke, K., Swings, J., Huys, G. (2006). Molecular Monitoring of the Fecal Microbiota of Healthy Human Subjects during Administration of Lactulose and Saccharomyces boulardii. Appl. Environ. Microbiol. 72: 5990-5997 [Abstract] [Full Text]  
  • Shen, J., Zhang, B., Wei, G., Pang, X., Wei, H., Li, M., Zhang, Y., Jia, W., Zhao, L. (2006). Molecular Profiling of the Clostridium leptum Subgroup in Human Fecal Microflora by PCR-Denaturing Gradient Gel Electrophoresis and Clone Library Analysis. Appl. Environ. Microbiol. 72: 5232-5238 [Abstract] [Full Text]  
  • Settanni, L., Valmorri, S., van Sinderen, D., Suzzi, G., Paparella, A., Corsetti, A. (2006). Combination of Multiplex PCR and PCR-Denaturing Gradient Gel Electrophoresis for Monitoring Common Sourdough-Associated Lactobacillus Species.. Appl. Environ. Microbiol. 72: 3793-3796 [Abstract] [Full Text]  
  • Clavel, T., Fallani, M., Lepage, P., Levenez, F., Mathey, J., Rochet, V., Serezat, M., Sutren, M., Henderson, G., Bennetau-Pelissero, C., Tondu, F., Blaut, M., Dore, J., Coxam, V. (2005). Isoflavones and Functional Foods Alter the Dominant Intestinal Microbiota in Postmenopausal Women. J. Nutr. 135: 2786-2792 [Abstract] [Full Text]  
  • Ben-Amor, K., Heilig, H., Smidt, H., Vaughan, E. E., Abee, T., de Vos, W. M. (2005). Genetic Diversity of Viable, Injured, and Dead Fecal Bacteria Assessed by Fluorescence-Activated Cell Sorting and 16S rRNA Gene Analysis. Appl. Environ. Microbiol. 71: 4679-4689 [Abstract] [Full Text]  
  • de Bok, F. A. M., Harmsen, H. J. M., Plugge, C. M., de Vries, M. C., Akkermans, A. D. L., de Vos, W. M., Stams, A. J. M. (2005). The first true obligately syntrophic propionate-oxidizing bacterium, Pelotomaculum schinkii sp. nov., co-cultured with Methanospirillum hungatei, and emended description of the genus Pelotomaculum. Int. J. Syst. Evol. Microbiol. 55: 1697-1703 [Abstract] [Full Text]  
  • Salminen, S. J., Gueimonde, M., Isolauri, E. (2005). Probiotics That Modify Disease Risk. J. Nutr. 135: 1294-1298 [Abstract] [Full Text]  
  • Song, Y., Liu, C., Finegold, S. M. (2004). Real-Time PCR Quantitation of Clostridia in Feces of Autistic Children. Appl. Environ. Microbiol. 70: 6459-6465 [Abstract] [Full Text]  
  • Ventura, M., Canchaya, C., Zink, R., Fitzgerald, G. F., van Sinderen, D. (2004). Characterization of the groEL and groES Loci in Bifidobacterium breve UCC 2003: Genetic, Transcriptional, and Phylogenetic Analyses. Appl. Environ. Microbiol. 70: 6197-6209 [Abstract] [Full Text]  
  • Tannock, G. W. (2004). A Special Fondness for Lactobacilli. Appl. Environ. Microbiol. 70: 3189-3194 [Full Text]  
  • Bonjoch, X., Balleste, E., Blanch, A. R. (2004). Multiplex PCR with 16S rRNA Gene-Targeted Primers of Bifidobacterium spp. To Identify Sources of Fecal Pollution. Appl. Environ. Microbiol. 70: 3171-3175 [Abstract] [Full Text]  
  • Leys, N. M. E. J., Ryngaert, A., Bastiaens, L., Verstraete, W., Top, E. M., Springael, D. (2004). Occurrence and Phylogenetic Diversity of Sphingomonas Strains in Soils Contaminated with Polycyclic Aromatic Hydrocarbons. Appl. Environ. Microbiol. 70: 1944-1955 [Abstract] [Full Text]  
  • Tannock, G. W., Munro, K., Bibiloni, R., Simon, M. A., Hargreaves, P., Gopal, P., Harmsen, H., Welling, G. (2004). Impact of Consumption of Oligosaccharide-Containing Biscuits on the Fecal Microbiota of Humans. Appl. Environ. Microbiol. 70: 2129-2136 [Abstract] [Full Text]  
  • Matsuki, T., Watanabe, K., Fujimoto, J., Kado, Y., Takada, T., Matsumoto, K., Tanaka, R. (2004). Quantitative PCR with 16S rRNA-Gene-Targeted Species-Specific Primers for Analysis of Human Intestinal Bifidobacteria. Appl. Environ. Microbiol. 70: 167-173 [Abstract] [Full Text]  
  • Nielsen, D. S., Moller, P. L., Rosenfeldt, V., Paerregaard, A., Michaelsen, K. F., Jakobsen, M. (2003). Case Study of the Distribution of Mucosa-Associated Bifidobacterium Species, Lactobacillus Species, and Other Lactic Acid Bacteria in the Human Colon. Appl. Environ. Microbiol. 69: 7545-7548 [Abstract] [Full Text]  
  • McBain, A. J., Bartolo, R. G., Catrenich, C. E., Charbonneau, D., Ledder, R. G., Gilbert, P. (2003). Effects of Triclosan-Containing Rinse on the Dynamics and Antimicrobial Susceptibility of In Vitro Plaque Ecosystems. Antimicrob. Agents Chemother. 47: 3531-3538 [Abstract] [Full Text]  
  • Temmerman, R., Masco, L., Vanhoutte, T., Huys, G., Swings, J. (2003). Development and Validation of a Nested-PCR-Denaturing Gradient Gel Electrophoresis Method for Taxonomic Characterization of Bifidobacterial Communities. Appl. Environ. Microbiol. 69: 6380-6385 [Abstract] [Full Text]  
  • Apajalahti, J. H. A., Kettunen, A., Nurminen, P. H., Jatila, H., Holben, W. E. (2003). Selective Plating Underestimates Abundance and Shows Differential Recovery of Bifidobacterial Species from Human Feces. Appl. Environ. Microbiol. 69: 5731-5735 [Abstract] [Full Text]  
  • Zabarovsky, E. R., Petrenko, L., Protopopov, A., Vorontsova, O., Kutsenko, A. S., Zhao, Y., Kilosanidze, G., Zabarovska, V., Rakhmanaliev, E., Pettersson, B., Kashuba, V. I., Ljungqvist, O., Norin, E., Midtvedt, T., Mollby, R., Winberg, G., Ernberg, I. (2003). Restriction site tagged (RST) microarrays: a novel technique to study the species composition of complex microbial systems. Nucleic Acids Res 31: e95-e95 [Abstract] [Full Text]  
  • McBain, A. J., Bartolo, R. G., Catrenich, C. E., Charbonneau, D., Ledder, R. G., Gilbert, P. (2003). Effects of a Chlorhexidine Gluconate-Containing Mouthwash on the Vitality and Antimicrobial Susceptibility of In Vitro Oral Bacterial Ecosystems. Appl. Environ. Microbiol. 69: 4770-4776 [Abstract] [Full Text]  
  • McCarthy, J, O'Mahony, L, O'Callaghan, L, Sheil, B, Vaughan, E E, Fitzsimons, N, Fitzgibbon, J, O'Sullivan, G C, Kiely, B, Collins, J K, Shanahan, F (2003). Double blind, placebo controlled trial of two probiotic strains in interleukin 10 knockout mice and mechanistic link with cytokine balance. Gut 52: 975-980 [Abstract] [Full Text]  
  • Nebra, Y., Bonjoch, X., Blanch, A. R. (2003). Use of Bifidobacterium dentium as an Indicator of the Origin of Fecal Water Pollution. Appl. Environ. Microbiol. 69: 2651-2656 [Abstract] [Full Text]  
  • Zabarovska, V., Kutsenko, A. S., Petrenko, L., Kilosanidze, G., Ljungqvist, O., Norin, E., Midtvedt, T., Winberg, G., Mollby, R., Kashuba, V. I., Ernberg, I., Zabarovsky, E. R. (2003). NotI passporting to identify species composition of complex microbial systems. Nucleic Acids Res 31: e5-e5 [Abstract] [Full Text]  
  • McBain, A. J., Bartolo, R. G., Catrenich, C. E., Charbonneau, D., Ledder, R. G., Rickard, A. H., Symmons, S. A., Gilbert, P. (2003). Microbial Characterization of Biofilms in Domestic Drains and the Establishment of Stable Biofilm Microcosms. Appl. Environ. Microbiol. 69: 177-185 [Abstract] [Full Text]  
  • Malinen, E., Kassinen, A., Rinttila, T., Palva, A. (2003). Comparison of real-time PCR with SYBR Green I or 5'-nuclease assays and dot-blot hybridization with rDNA-targeted oligonucleotide probes in quantification of selected faecal bacteria. Microbiology 149: 269-277 [Abstract] [Full Text]  
  • Knarreborg, A., Simon, M. A., Engberg, R. M., Jensen, B. B., Tannock, G. W. (2002). Effects of Dietary Fat Source and Subtherapeutic Levels of Antibiotic on the Bacterial Community in the Ileum of Broiler Chickens at Various Ages. Appl. Environ. Microbiol. 68: 5918-5924 [Abstract] [Full Text]  
  • Matsuki, T., Watanabe, K., Fujimoto, J., Miyamoto, Y., Takada, T., Matsumoto, K., Oyaizu, H., Tanaka, R. (2002). Development of 16S rRNA-Gene-Targeted Group-Specific Primers for the Detection and Identification of Predominant Bacteria in Human Feces. Appl. Environ. Microbiol. 68: 5445-5451 [Abstract] [Full Text]  
  • Grehan, M., Tamotia, G., Robertson, B., Mitchell, H. (2002). Detection of Helicobacter Colonization of the Murine Lower Bowel by Genus-Specific PCR-Denaturing Gradient Gel Electrophoresis. Appl. Environ. Microbiol. 68: 5164-5166 [Abstract] [Full Text]  
  • Requena, T., Burton, J., Matsuki, T., Munro, K., Simon, M. A., Tanaka, R., Watanabe, K., Tannock, G. W. (2002). Identification, Detection, and Enumeration of Human Bifidobacterium Species by PCR Targeting the Transaldolase Gene. Appl. Environ. Microbiol. 68: 2420-2427 [Abstract] [Full Text]  
  • Randazzo, C. L., Torriani, S., Akkermans, A. D. L., de Vos, W. M., Vaughan, E. E. (2002). Diversity, Dynamics, and Activity of Bacterial Communities during Production of an Artisanal Sicilian Cheese as Evaluated by 16S rRNA Analysis. Appl. Environ. Microbiol. 68: 1882-1892 [Abstract] [Full Text]  
  • Heilig, H. G.H.J., Zoetendal, E. G., Vaughan, E. E., Marteau, P., Akkermans, A. D.L., de Vos, W. M. (2002). Molecular Diversity of Lactobacillus spp. and Other Lactic Acid Bacteria in the Human Intestine as Determined by Specific Amplification of 16S Ribosomal DNA. Appl. Environ. Microbiol. 68: 114-123 [Abstract] [Full Text]  
  • Favier, C. F., Vaughan, E. E., De Vos, W. M., Akkermans, A. D. L. (2002). Molecular Monitoring of Succession of Bacterial Communities in Human Neonates. Appl. Environ. Microbiol. 68: 219-226 [Abstract] [Full Text]  
  • Ventura, M., Reniero, R., Zink, R. (2001). Specific Identification and Targeted Characterization of Bifidobacterium lactis from Different Environmental Isolates by a Combined Multiplex-PCR Approach. Appl. Environ. Microbiol. 67: 2760-2765 [Abstract] [Full Text]  


Copyright © 2009 by the American Society for Microbiology.   For an alternate route to Journals.ASM.org, visit: http://intl-journals.asm.org | More Info»