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 Franks, A. H.
Right arrow Articles by Welling, G. W.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Franks, A. H.
Right arrow Articles by Welling, G. W.
Agricola
Right arrow Articles by Franks, A. H.
Right arrow Articles by Welling, G. W.

 Previous Article  |  Next Article 

Applied and Environmental Microbiology, September 1998, p. 3336-3345, Vol. 64, No. 9
0099-2240/98/$04.00+0
Copyright © 1998, American Society for Microbiology. All rights reserved.

Variations of Bacterial Populations in Human Feces Measured by Fluorescent In Situ Hybridization with Group-Specific 16S rRNA-Targeted Oligonucleotide Probes

Alison H. Franks, Hermie J. M. Harmsen,* Gerwin C. Raangs, Gijsbert J. Jansen, Frits Schut,dagger and Gjalt W. Welling

Department of Medical Microbiology, University of Groningen, 9700 RB Groningen, The Netherlands

Received 7 May 1998/Accepted 23 June 1998

Six 16S rRNA-targeted oligonucleotide probes were designed, validated, and used to quantify predominant groups of anaerobic bacteria in human fecal samples. A set of two probes was specific for species of the Bacteroides fragilis group and the species Bacteroides distasonis. Two others were designed to detect species of the Clostridium histolyticum and the Clostridium lituseburense groups. Another probe was designed for the genera Streptococcus and Lactococcus, and the final probe was designed for the species of the Clostridium coccoides-Eubacterium rectale group. The temperature of dissociation of each of the probes was determined. The specificities of the probes for a collection of target and reference organisms were tested by dot blot hybridization and fluorescent in situ hybridization (FISH). The new probes were used in initial FISH experiments to enumerate human fecal bacteria. The combination of the two Bacteroides-specific probes detected a mean of 5.4 × 1010 cells per g (dry weight) of feces; the Clostridium coccoides-Eubacterium rectale group-specific probe detected a mean of 7.2 × 1010 cells per g (dry weight) of feces. The Clostridium histolyticum, Clostridium lituseburense, and Streptococcus-Lactococcus group-specific probes detected only numbers of cells ranging from 1 × 107 to 7 × 108 per g (dry weight) of feces. Three of the newly designed probes and three additional probes were used in further FISH experiments to study the fecal flora composition of nine volunteers over a period of 8 months. The combination of probes was able to detect at least two-thirds of the fecal flora. The normal biological variations within the fecal populations of the volunteers were determined and indicated that these variations should be considered when evaluating the effects of agents modulating the flora.

* Corresponding author. Mailing address: Department of Medical Microbiology, University of Groningen, P.O. Box 30001, 9700 RB Groningen, The Netherlands. Phone: 31 50 3633510. Fax: 31 50 3633528. E-mail: H.J.M.Harmsen{at}med.rug.nl.

dagger Present address: Microscreen BV, Centre for Microbial Detection and Identification Technology, 9747 AN Groningen, The Netherlands.

Applied and Environmental Microbiology, September 1998, p. 3336-3345, Vol. 64, No. 9
0099-2240/98/$04.00+0
Copyright © 1998, American Society for Microbiology. All rights reserved.


This article has been cited by other articles:

  • Vandeplas, S., Dauphin, R. D., Thiry, C., Beckers, Y., Welling, G. W., Thonart, P., Thewis, A. (2009). Efficiency of a Lactobacillus plantarum-xylanase combination on growth performances, microflora populations, and nutrient digestibilities of broilers infected with Salmonella Typhimurium. Poult. Sci. 88: 1643-1654 [Abstract] [Full Text]  
  • Croswell, A., Amir, E., Teggatz, P., Barman, M., Salzman, N. H. (2009). Prolonged Impact of Antibiotics on Intestinal Microbial Ecology and Susceptibility to Enteric Salmonella Infection. Infect. Immun. 77: 2741-2753 [Abstract] [Full Text]  
  • Kovatcheva-Datchary, P., Zoetendal, E. G., Venema, K., de Vos, W. M., Smidt, H. (2009). Review: Tools for the tract: understanding the functionality of the gastrointestinal tract. Therapeutic Advances in Gastroenterology 2: s9-s22 [Abstract]  
  • Matsuda, K., Tsuji, H., Asahara, T., Matsumoto, K., Takada, T., Nomoto, K. (2009). Establishment of an Analytical System for the Human Fecal Microbiota, Based on Reverse Transcription-Quantitative PCR Targeting of Multicopy rRNA Molecules. Appl. Environ. Microbiol. 75: 1961-1969 [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]  
  • Whelan, K., Judd, P. A, Tuohy, K. M, Gibson, G. R, Preedy, V. R, Taylor, M. A (2009). Fecal microbiota in patients receiving enteral feeding are highly variable and may be altered in those who develop diarrhea. Am. J. Clin. Nutr. 89: 240-247 [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]  
  • Vulevic, J., Drakoularakou, A., Yaqoob, P., Tzortzis, G., Gibson, G. R (2008). Modulation of the fecal microflora profile and immune function by a novel trans-galactooligosaccharide mixture (B-GOS) in healthy elderly volunteers. Am. J. Clin. Nutr. 88: 1438-1446 [Abstract] [Full Text]  
  • Mandalari, G., Nueno-Palop, C., Bisignano, G., Wickham, M. S. J., Narbad, A. (2008). Potential Prebiotic Properties of Almond (Amygdalus communis L.) Seeds. Appl. Environ. Microbiol. 74: 4264-4270 [Abstract] [Full Text]  
  • Scott, K. P., Martin, J. C., Mrazek, J., Flint, H. J. (2008). Transfer of Conjugative Elements from Rumen and Human Firmicutes Bacteria to Roseburia inulinivorans. Appl. Environ. Microbiol. 74: 3915-3917 [Abstract] [Full Text]  
  • Domingo, M.-C., Huletsky, A., Boissinot, M., Bernard, K. A., Picard, F. J., Bergeron, M. G. (2008). Ruminococcus gauvreauii sp. nov., a glycopeptide-resistant species isolated from a human faecal specimen. Int. J. Syst. Evol. Microbiol. 58: 1393-1397 [Abstract] [Full Text]  
  • Hong, P.-Y., Wu, J.-H., Liu, W.-T. (2008). Relative Abundance of Bacteroides spp. in Stools and Wastewaters as Determined by Hierarchical Oligonucleotide Primer Extension. Appl. Environ. Microbiol. 74: 2882-2893 [Abstract] [Full Text]  
  • Lumpkins, B. S., Batal, A. B., Lee, M. (2008). The Effect of Gender on the Bacterial Community in the Gastrointestinal Tract of Broilers. Poult. Sci. 87: 964-967 [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]  
  • Barman, M., Unold, D., Shifley, K., Amir, E., Hung, K., Bos, N., Salzman, N. (2008). Enteric Salmonellosis Disrupts the Microbial Ecology of the Murine Gastrointestinal Tract. Infect. Immun. 76: 907-915 [Abstract] [Full Text]  
  • Nadal, I., Donant, E., Ribes-Koninckx, C., Calabuig, M., Sanz, Y. (2007). Imbalance in the composition of the duodenal microbiota of children with coeliac disease. J Med Microbiol 56: 1669-1674 [Abstract] [Full Text]  
  • Ahmed, S., Macfarlane, G. T., Fite, A., McBain, A. J., Gilbert, P., Macfarlane, S. (2007). Mucosa-Associated Bacterial Diversity in Relation to Human Terminal Ileum and Colonic Biopsy Samples. Appl. Environ. Microbiol. 73: 7435-7442 [Abstract] [Full Text]  
  • Zhu, L.-X., Zhang, Z.-W., Wang, C., Yang, H.-W., Jiang, D., Zhang, Q., Mitchelson, K., Cheng, J. (2007). Use of a DNA Microarray for Simultaneous Detection of Antibiotic Resistance Genes among Staphylococcal Clinical Isolates. J. Clin. Microbiol. 45: 3514-3521 [Abstract] [Full Text]  
  • Belenguer, A., Duncan, S. H., Holtrop, G., Anderson, S. E., Lobley, G. E., Flint, H. J. (2007). Impact of pH on Lactate Formation and Utilization by Human Fecal Microbial Communities. Appl. Environ. Microbiol. 73: 6526-6533 [Abstract] [Full Text]  
  • Dicksved, J., Floistrup, H., Bergstrom, A., Rosenquist, M., Pershagen, G., Scheynius, A., Roos, S., Alm, J. S., Engstrand, L., Braun-Fahrlander, C., von Mutius, E., Jansson, J. K. (2007). Molecular Fingerprinting of the Fecal Microbiota of Children Raised According to Different Lifestyles. Appl. Environ. Microbiol. 73: 2284-2289 [Abstract] [Full Text]  
  • Schoniger-Hekele, M., Petermann, D., Weber, B., Muller, C. (2007). Tropheryma whipplei in the Environment: Survey of Sewage Plant Influxes and Sewage Plant Workers. Appl. Environ. Microbiol. 73: 2033-2035 [Abstract] [Full Text]  
  • Swidsinski, A., Loening-Baucke, V., Theissig, F., Engelhardt, H., Bengmark, S., Koch, S., Lochs, H., Dorffel, Y. (2007). Comparative study of the intestinal mucus barrier in normal and inflamed colon. Gut 56: 343-350 [Abstract] [Full Text]  
  • Lunn, J.C., Kuhnle, G., Mai, V., Frankenfeld, C., Shuker, D.E.G., Glen, R. C., Goodman, J.M., Pollock, J.R.A., Bingham, S.A. (2007). The effect of haem in red and processed meat on the endogenous formation of N-nitroso compounds in the upper gastrointestinal tract. Carcinogenesis 28: 685-690 [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]  
  • Roberfroid, M. (2007). Prebiotics: The Concept Revisited. J. Nutr. 137: 830S-837S [Abstract] [Full Text]  
  • Swidsinski, A, Goktas, O, Bessler, C, Loening-Baucke, V, Hale, L P, Andree, H, Weizenegger, M, Holzl, M, Scherer, H, Lochs, H (2007). Spatial organisation of microbiota in quiescent adenoiditis and tonsillitis. J. Clin. Pathol. 60: 253-260 [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]  
  • Duncan, S. H., Belenguer, A., Holtrop, G., Johnstone, A. M., Flint, H. J., Lobley, G. E. (2007). Reduced Dietary Intake of Carbohydrates by Obese Subjects Results in Decreased Concentrations of Butyrate and Butyrate-Producing Bacteria in Feces. Appl. Environ. Microbiol. 73: 1073-1078 [Abstract] [Full Text]  
  • Zhang, M., Liu, B., Zhang, Y., Wei, H., Lei, Y., Zhao, L. (2007). Structural Shifts of Mucosa-Associated Lactobacilli and Clostridium leptum Subgroup in Patients with Ulcerative Colitis. J. Clin. Microbiol. 45: 496-500 [Abstract] [Full Text]  
  • Lofmark, S., Jernberg, C., Jansson, J. K., Edlund, C. (2006). Clindamycin-induced enrichment and long-term persistence of resistant Bacteroides spp. and resistance genes. J Antimicrob Chemother 58: 1160-1167 [Abstract] [Full Text]  
  • Dinoto, A., Marques, T. M., Sakamoto, K., Fukiya, S., Watanabe, J., Ito, S., Yokota, A. (2006). Population Dynamics of Bifidobacterium Species in Human Feces during Raffinose Administration Monitored by Fluorescence In Situ Hybridization-Flow Cytometry. Appl. Environ. Microbiol. 72: 7739-7747 [Abstract] [Full Text]  
  • Ramsay, A. G., Scott, K. P., Martin, J. C., Rincon, M. T., Flint, H. J. (2006). Cell-associated {alpha}-amylases of butyrate-producing Firmicute bacteria from the human colon.. Microbiology 152: 3281-3290 [Abstract] [Full Text]  
  • Mohan, R., Koebnick, C., Schildt, J., Schmidt, S., Mueller, M., Possner, M., Radke, M., Blaut, M. (2006). Effects of Bifidobacterium lactis Bb12 Supplementation on Intestinal Microbiota of Preterm Infants: a Double-Blind, Placebo-Controlled, Randomized Study. J. Clin. Microbiol. 44: 4025-4031 [Abstract] [Full Text]  
  • Scanlan, P. D., Shanahan, F., O'Mahony, C., Marchesi, J. R. (2006). Culture-Independent Analyses of Temporal Variation of the Dominant Fecal Microbiota and Targeted Bacterial Subgroups in Crohn's Disease. J. Clin. Microbiol. 44: 3980-3988 [Abstract] [Full Text]  
  • Macfarlane, S., Macfarlane, G. T. (2006). Composition and Metabolic Activities of Bacterial Biofilms Colonizing Food Residues in the Human Gut. Appl. Environ. Microbiol. 72: 6204-6211 [Abstract] [Full Text]  
  • Aminov, R. I., Walker, A. W., Duncan, S. H., Harmsen, H. J. M., Welling, G. W., Flint, H. J. (2006). Molecular Diversity, Cultivation, and Improved Detection by Fluorescent In Situ Hybridization of a Dominant Group of Human Gut Bacteria Related to Roseburia spp. or Eubacterium rectale. Appl. Environ. Microbiol. 72: 6371-6376 [Abstract] [Full Text]  
  • Van der Meulen, R., Adriany, T., Verbrugghe, K., De Vuyst, L. (2006). Kinetic Analysis of Bifidobacterial Metabolism Reveals a Minor Role for Succinic Acid in the Regeneration of NAD+ through Its Growth-Associated Production. Appl. Environ. Microbiol. 72: 5204-5210 [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]  
  • Scott, K. P., Martin, J. C., Campbell, G., Mayer, C.-D., Flint, H. J. (2006). Whole-Genome Transcription Profiling Reveals Genes Up-Regulated by Growth on Fucose in the Human Gut Bacterium "Roseburia inulinivorans".. J. Bacteriol. 188: 4340-4349 [Abstract] [Full Text]  
  • Kuhbacher, T, Ott, S J, Helwig, U, Mimura, T, Rizzello, F, Kleessen, B, Gionchetti, P, Blaut, M, Campieri, M, Folsch, U R, Kamm, M A, Schreiber, S (2006). Bacterial and fungal microbiota in relation to probiotic therapy (VSL#3) in pouchitis. Gut 55: 833-841 [Abstract] [Full Text]  
  • Oosterhof, J. J. H., Buijssen, K. J. D. A., Busscher, H. J., van der Laan, B. F. A. M., van der Mei, H. C. (2006). Effects of quaternary ammonium silane coatings on mixed fungal and bacterial biofilms on tracheoesophageal shunt prostheses.. Appl. Environ. Microbiol. 72: 3673-3677 [Abstract] [Full Text]  
  • Maukonen, J., Satokari, R., Matto, J., Soderlund, H., Mattila-Sandholm, T., Saarela, M. (2006). Prevalence and temporal stability of selected clostridial groups in irritable bowel syndrome in relation to predominant faecal bacteria.. J Med Microbiol 55: 625-633 [Abstract] [Full Text]  
  • Loh, G., Eberhard, M., Brunner, R. M., Hennig, U., Kuhla, S., Kleessen, B., Metges, C. C. (2006). Inulin Alters the Intestinal Microbiota and Short-Chain Fatty Acid Concentrations in Growing Pigs Regardless of Their Basal Diet. J. Nutr. 136: 1198-1202 [Abstract] [Full Text]  
  • Haarman, M., Knol, J. (2006). Quantitative Real-Time PCR Analysis of Fecal Lactobacillus Species in Infants Receiving a Prebiotic Infant Formula. Appl. Environ. Microbiol. 72: 2359-2365 [Abstract] [Full Text]  
  • Lindsay, J O, Whelan, K, Stagg, A J, Gobin, P, Al-Hassi, H O, Rayment, N, Kamm, M A, Knight, S C, Forbes, A (2006). Clinical, microbiological, and immunological effects of fructo-oligosaccharide in patients with Crohn's disease. Gut 55: 348-355 [Abstract] [Full Text]  
  • Weng, L., Rubin, E. M., Bristow, J. (2006). Application of sequence-based methods in human microbial ecology. Genome Res 16: 316-322 [Abstract] [Full Text]  
  • Van der Meulen, R., Makras, L., Verbrugghe, K., Adriany, T., De Vuyst, L. (2006). In Vitro Kinetic Analysis of Oligofructose Consumption by Bacteroides and Bifidobacterium spp. Indicates Different Degradation Mechanisms. Appl. Environ. Microbiol. 72: 1006-1012 [Abstract] [Full Text]  
  • Mueller, S., Saunier, K., Hanisch, C., Norin, E., Alm, L., Midtvedt, T., Cresci, A., Silvi, S., Orpianesi, C., Verdenelli, M. C., Clavel, T., Koebnick, C., Zunft, H.-J. F., Dore, J., Blaut, M. (2006). Differences in Fecal Microbiota in Different European Study Populations in Relation to Age, Gender, and Country: a Cross-Sectional Study. Appl. Environ. Microbiol. 72: 1027-1033 [Abstract] [Full Text]  
  • Dinoto, A., Suksomcheep, A., Ishizuka, S., Kimura, H., Hanada, S., Kamagata, Y., Asano, K., Tomita, F., Yokota, A. (2006). Modulation of Rat Cecal Microbiota by Administration of Raffinose and Encapsulated Bifidobacterium breve. Appl. Environ. Microbiol. 72: 784-792 [Abstract] [Full Text]  
  • He, T., Priebe, M. G., Harmsen, H. J.M., Stellaard, F., Sun, X., Welling, G. W., Vonk, R. J. (2006). Colonic Fermentation May Play a Role in Lactose Intolerance in Humans. J. Nutr. 136: 58-63 [Abstract] [Full Text]  
  • Manderson, K., Pinart, M., Tuohy, K. M., Grace, W. E., Hotchkiss, A. T., Widmer, W., Yadhav, M. P., Gibson, G. R., Rastall, R. A. (2005). In Vitro Determination of Prebiotic Properties of Oligosaccharides Derived from an Orange Juice Manufacturing By-Product Stream. Appl. Environ. Microbiol. 71: 8383-8389 [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]  
  • Clavel, T., Henderson, G., Alpert, C.-A., Philippe, C., Rigottier-Gois, L., Dore, J., Blaut, M. (2005). Intestinal Bacterial Communities That Produce Active Estrogen-Like Compounds Enterodiol and Enterolactone in Humans. Appl. Environ. Microbiol. 71: 6077-6085 [Abstract] [Full Text]  
  • van Tongeren, S. P., Slaets, J. P. J., Harmsen, H. J. M., Welling, G. W. (2005). Fecal Microbiota Composition and Frailty. Appl. Environ. Microbiol. 71: 6438-6442 [Abstract] [Full Text]  
  • Waar, K., Degener, J. E, van Luyn, M. J, Harmsen, H. J. (2005). Fluorescent in situ hybridization with specific DNA probes offers adequate detection of Enterococcus faecalis and Enterococcus faecium in clinical samples. J Med Microbiol 54: 937-944 [Abstract] [Full Text]  
  • Parracho, H. M., Bingham, M. O, Gibson, G. R, McCartney, A. L (2005). Differences between the gut microflora of children with autistic spectrum disorders and that of healthy children. J Med Microbiol 54: 987-991 [Abstract] [Full Text]  
  • Mentula, S., Harmoinen, J., Heikkila, M., Westermarck, E., Rautio, M., Huovinen, P., Kononen, E. (2005). Comparison between Cultured Small-Intestinal and Fecal Microbiotas in Beagle Dogs. Appl. Environ. Microbiol. 71: 4169-4175 [Abstract] [Full Text]  
  • Collado, M. C., Moreno, Y., Hernandez, E., Cobo, J. M., Hernandez, M. (2005). Note. In Vitro Viability of Bifidobacterium Strains Isolated from Commercial Dairy Products Exposed to Human Gastrointestinal Conditions. Food Science and Technology International 11: 307-314 [Abstract]  
  • Whelan, K., Judd, P. A., Preedy, V. R., Simmering, R., Jann, A., Taylor, M. A. (2005). Fructooligosaccharides and Fiber Partially Prevent the Alterations in Fecal Microbiota and Short-Chain Fatty Acid Concentrations Caused by Standard Enteral Formula in Healthy Humans. J. Nutr. 135: 1896-1902 [Abstract] [Full Text]  
  • Walker, A. W., Duncan, S. H., McWilliam Leitch, E. C., Child, M. W., Flint, H. J. (2005). pH and Peptide Supply Can Radically Alter Bacterial Populations and Short-Chain Fatty Acid Ratios within Microbial Communities from the Human Colon. Appl. Environ. Microbiol. 71: 3692-3700 [Abstract] [Full Text]  
  • Lay, C., Rigottier-Gois, L., Holmstrom, K., Rajilic, M., Vaughan, E. E., de Vos, W. M., Collins, M. D., Thiel, R., Namsolleck, P., Blaut, M., Dore, J. (2005). Colonic Microbiota Signatures across Five Northern European Countries. Appl. Environ. Microbiol. 71: 4153-4155 [Abstract] [Full Text]  
  • Swidsinski, A., Weber, J., Loening-Baucke, V., Hale, L. P., Lochs, H. (2005). Spatial Organization and Composition of the Mucosal Flora in Patients with Inflammatory Bowel Disease. J. Clin. Microbiol. 43: 3380-3389 [Abstract] [Full Text]  
  • Tzortzis, G., Goulas, A. K., Gee, J. M., Gibson, G. R. (2005). A Novel Galactooligosaccharide Mixture Increases the Bifidobacterial Population Numbers in a Continuous In Vitro Fermentation System and in the Proximal Colonic Contents of Pigs In Vivo. J. Nutr. 135: 1726-1731 [Abstract] [Full Text]  
  • Dick, L. K., Bernhard, A. E., Brodeur, T. J., Santo Domingo, J. W., Simpson, J. M., Walters, S. P., Field, K. G. (2005). Host Distributions of Uncultivated Fecal Bacteroidales Bacteria Reveal Genetic Markers for Fecal Source Identification. Appl. Environ. Microbiol. 71: 3184-3191 [Abstract] [Full Text]  
  • Haarman, M., Knol, J. (2005). Quantitative Real-Time PCR Assays To Identify and Quantify Fecal Bifidobacterium Species in Infants Receiving a Prebiotic Infant Formula. Appl. Environ. Microbiol. 71: 2318-2324 [Abstract] [Full Text]  
  • Domingo, M.-C., Huletsky, A., Bernal, A., Giroux, R., Boudreau, D. K., Picard, F. J., Bergeron, M. G. (2005). Characterization of a Tn5382-like transposon containing the vanB2 gene cluster in a Clostridium strain isolated from human faeces. J Antimicrob Chemother 55: 466-474 [Abstract] [Full Text]  
  • Swidsinski, A, Schlien, P, Pernthaler, A, Gottschalk, U, Barlehner, E, Decker, G, Swidsinski, S, Strassburg, J, Loening-Baucke, V, Hoffmann, U, Seehofer, D, Hale, L P, Lochs, H (2005). Bacterial biofilm within diseased pancreatic and biliary tracts. Gut 54: 388-395 [Abstract] [Full Text]  
  • Le Bourhis, A.-G., Saunier, K., Dore, J., Carlier, J.-P., Chamba, J.-F., Popoff, M.-R., Tholozan, J.-L. (2005). Development and Validation of PCR Primers To Assess the Diversity of Clostridium spp. in Cheese by Temporal Temperature Gradient Gel Electrophoresis. Appl. Environ. Microbiol. 71: 29-38 [Abstract] [Full Text]  
  • Matsuki, T., Watanabe, K., Fujimoto, J., Takada, T., Tanaka, R. (2004). Use of 16S rRNA Gene-Targeted Group-Specific Primers for Real-Time PCR Analysis of Predominant Bacteria in Human Feces. Appl. Environ. Microbiol. 70: 7220-7228 [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]  
  • Miyamoto, T., Kawahara, M., Minamisawa, K. (2004). Novel Endophytic Nitrogen-Fixing Clostridia from the Grass Miscanthus sinensis as Revealed by Terminal Restriction Fragment Length Polymorphism Analysis. Appl. Environ. Microbiol. 70: 6580-6586 [Abstract] [Full Text]  
  • Duncan, S. H., Louis, P., Flint, H. J. (2004). Lactate-Utilizing Bacteria, Isolated from Human Feces, That Produce Butyrate as a Major Fermentation Product. Appl. Environ. Microbiol. 70: 5810-5817 [Abstract] [Full Text]  
  • Vallance, B. A., Dijkstra, G., Qiu, B., van der Waaij, L. A., van Goor, H., Jansen, P. L. M., Mashimo, H., Collins, S. M. (2004). Relative contributions of NOS isoforms during experimental colitis: endothelial-derived NOS maintains mucosal integrity. Am. J. Physiol. Gastrointest. Liver Physiol. 287: G865-G874 [Abstract] [Full Text]  
  • Kim, G.-B., Miyamoto, C. M., Meighen, E. A., Lee, B. H. (2004). Cloning and Characterization of the Bile Salt Hydrolase Genes (bsh) from Bifidobacterium bifidum Strains. Appl. Environ. Microbiol. 70: 5603-5612 [Abstract] [Full Text]  
  • Vulevic, J., McCartney, A. L., Gee, J. M., Johnson, I. T., Gibson, G. R. (2004). Microbial Species Involved in Production of 1,2-sn-Diacylglycerol and Effects of Phosphatidylcholine on Human Fecal Microbiota. Appl. Environ. Microbiol. 70: 5659-5666 [Abstract] [Full Text]  
  • Probert, H. M., Apajalahti, J. H. A., Rautonen, N., Stowell, J., Gibson, G. R. (2004). Polydextrose, Lactitol, and Fructo-Oligosaccharide Fermentation by Colonic Bacteria in a Three-Stage Continuous Culture System. Appl. Environ. Microbiol. 70: 4505-4511 [Abstract] [Full Text]  
  • Konstantinov, S. R., Awati, A., Smidt, H., Williams, B. A., Akkermans, A. D. L., de Vos, W. M. (2004). Specific Response of a Novel and Abundant Lactobacillus amylovorus-Like Phylotype to Dietary Prebiotics in the Guts of Weaning Piglets. Appl. Environ. Microbiol. 70: 3821-3830 [Abstract] [Full Text]  
  • Gueimonde, M., Tolkko, S., Korpimaki, T., Salminen, S. (2004). New Real-Time Quantitative PCR Procedure for Quantification of Bifidobacteria in Human Fecal Samples. Appl. Environ. Microbiol. 70: 4165-4169 [Abstract] [Full Text]  
  • McGarvey, J. A., Miller, W. G., Sanchez, S., Stanker, L. (2004). Identification of Bacterial Populations in Dairy Wastewaters by Use of 16S rRNA Gene Sequences and Other Genetic Markers. Appl. Environ. Microbiol. 70: 4267-4275 [Abstract] [Full Text]  
  • Barc, M. C., Bourlioux, F., Rigottier-Gois, L., Charrin-Sarnel, C., Janoir, C., Boureau, H., Dore, J., Collignon, A. (2004). Effect of Amoxicillin-Clavulanic Acid on Human Fecal Flora in a Gnotobiotic Mouse Model Assessed with Fluorescence Hybridization Using Group-Specific 16S rRNA Probes in Combination with Flow Cytometry. Antimicrob. Agents Chemother. 48: 1365-1368 [Abstract] [Full Text]  
  • Schuppler, M., Lotzsch, K., Waidmann, M., Autenrieth, I. B. (2004). An Abundance of Escherichia coli Is Harbored by the Mucosa- Associated Bacterial Flora of Interleukin-2-Deficient Mice. Infect. Immun. 72: 1983-1990 [Abstract] [Full Text]  
  • Louis, P., Duncan, S. H., McCrae, S. I., Millar, J., Jackson, M. S., Flint, H. J. (2004). Restricted Distribution of the Butyrate Kinase Pathway among Butyrate-Producing Bacteria from the Human Colon. J. Bacteriol. 186: 2099-2106 [Abstract] [Full Text]  
  • Young, V. B., Schmidt, T. M. (2004). Antibiotic-Associated Diarrhea Accompanied by Large-Scale Alterations in the Composition of the Fecal Microbiota. J. Clin. Microbiol. 42: 1203-1206 [Abstract] [Full Text]  
  • Smith, A. H., Mackie, R. I. (2004). Effect of Condensed Tannins on Bacterial Diversity and Metabolic Activity in the Rat Gastrointestinal Tract. Appl. Environ. Microbiol. 70: 1104-1115 [Abstract] [Full Text]  
  • Mai, V., Morris, J. G. Jr. (2004). Colonic Bacterial Flora: Changing Understandings in the Molecular Age. J. Nutr. 134: 459-464 [Abstract] [Full Text]  
  • Zoetendal, E. G., Collier, C. T., Koike, S., Mackie, R. I., Gaskins, H. R. (2004). Molecular Ecological Analysis of the Gastrointestinal Microbiota: A Review. J. Nutr. 134: 465-472 [Abstract] [Full Text]  
  • Mai, V., Katki, H. A., Harmsen, H., Gallaher, D., Schatzkin, A., Baer, D. J., Clevidence, B. (2004). Effects of a Controlled Diet and Black Tea Drinking on the Fecal Microflora Composition and the Fecal Bile Acid Profile of Human Volunteers in a Double-Blinded Randomized Feeding Study. J. Nutr. 134: 473-478 [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]  
  • Hoentjen, F, Harmsen, H J M, Braat, H, Torrice, C D, Mann, B A, Sartor, R B, Dieleman, L A (2003). Antibiotics with a selective aerobic or anaerobic spectrum have different therapeutic activities in various regions of the colon in interleukin 10 gene deficient mice. Gut 52: 1721-1727 [Abstract] [Full Text]  
  • Schmitt-Wagner, D., Friedrich, M. W., Wagner, B., Brune, A. (2003). Phylogenetic Diversity, Abundance, and Axial Distribution of Bacteria in the Intestinal Tract of Two Soil-Feeding Termites (Cubitermes spp.). Appl. Environ. Microbiol. 69: 6007-6017 [Abstract] [Full Text]  
  • Hold, G. L., Schwiertz, A., Aminov, R. I., Blaut, M., Flint, H. J. (2003). Oligonucleotide Probes That Detect Quantitatively Significant Groups of Butyrate-Producing Bacteria in Human Feces. Appl. Environ. Microbiol. 69: 4320-4324 [Abstract] [Full Text]  
  • Duncan, S. H., Scott, K. P., Ramsay, A. G., Harmsen, H. J. M., Welling, G. W., Stewart, C. S., Flint, H. J. (2003). Effects of Alternative Dietary Substrates on Competition between Human Colonic Bacteria in an Anaerobic Fermentor System. Appl. Environ. Microbiol. 69: 1136-1142 [Abstract] [Full Text]  
  • Nagashima, K., Hisada, T., Sato, M., Mochizuki, J. (2003). Application of New Primer-Enzyme Combinations to Terminal Restriction Fragment Length Polymorphism Profiling of Bacterial Populations in Human Feces. Appl. Environ. Microbiol. 69: 1251-1262 [Abstract] [Full Text]  
  • Seksik, P, Rigottier-Gois, L, Gramet, G, Sutren, M, Pochart, P, Marteau, P, Jian, R, Dore, J (2003). Alterations of the dominant faecal bacterial groups in patients with Crohn's disease of the colon. Gut 52: 237-242 [Abstract] [Full Text]  
  • Huijsdens, X. W., Linskens, R. K., Mak, M., Meuwissen, S. G. M., Vandenbroucke-Grauls, C. M. J. E., Savelkoul, P. H. M. (2002). Quantification of Bacteria Adherent to Gastrointestinal Mucosa by Real-Time PCR. J. Clin. Microbiol. 40: 4423-4427 [Abstract] [Full Text]  
  • Stebbings, S., Munro, K., Simon, M. A., Tannock, G., Highton, J., Harmsen, H., Welling, G., Seksik, P., Dore, J., Grame, G., Tilsala-Timisjarvi, A. (2002). Comparison of the faecal microflora of patients with ankylosing spondylitis and controls using molecular methods of analysis. Rheumatology (Oxford) 41: 1395-1401 [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]  
  • Salzman, N. H., de Jong, H., Paterson, Y., Harmsen, H. J. M., Welling, G. W., Bos, N. A. (2002). Analysis of 16S libraries of mouse gastrointestinal microflora reveals a large new group of mouse intestinal bacteria. Microbiology 148: 3651-3660 [Abstract] [Full Text]  
  • Duncan, S. H., Barcenilla, A., Stewart, C. S., Pryde, S. E., Flint, H. J. (2002). Acetate Utilization and Butyryl Coenzyme A (CoA):Acetate-CoA Transferase in Butyrate-Producing Bacteria from the Human Large Intestine. Appl. Environ. Microbiol. 68: 5186-5190 [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»