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What do we mean when we refer to Bacteroidetes populations in the human gastrointestinal microbiota?

Hoyles, L. and McCartney, A. L. (2009) What do we mean when we refer to Bacteroidetes populations in the human gastrointestinal microbiota? FEMS Microbiology Letters, 299 (2). pp. 175-183. ISSN 0378-1097

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To link to this item DOI: 10.1111/j.1574-6968.2009.01741.x

Abstract/Summary

Recent large-scale cloning studies have shown that the ratio of Bacteroidetes to Firmicutes may be important in the obesity-associated gut microbiota, but the species these phyla represent in this ecosystem has not been examined. The Bacteroidetes data from the recent Turnbaugh study were examined to determine those members of the phylum detected in human faecal samples. In addition, FISH analysis was performed on faecal samples from 17 healthy, nonobese donors using probe Bac303, routinely used by gut microbiologists to enumerate BacteroidesPrevotella populations in faecal samples, and another probe (CFB286) whose target range has some overlap with that of Bac303. Sequence analysis of the Turnbaugh data showed that 23/519 clones were chimeras or erroneous sequences; all good sequences were related to species of the order Bacteroidales, but no one species was present in all donors. FISH analysis demonstrated that approximately one-quarter of the healthy, nonobese donors harboured high numbers of Bacteroidales not detected by probe Bac303. It is clear that Bacteroidales populations in human faecal samples have been underestimated in FISH-based studies. New probes and complementary primer sets should be designed to examine numerical and compositional changes in the Bacteroidales during dietary interventions and in studies of the obesity-associated microbiota in humans and animal model systems.

Item Type:Article
Refereed:Yes
Divisions:Faculty of Life Sciences > School of Chemistry, Food and Pharmacy > Department of Food and Nutritional Sciences > Food Microbial Sciences Research Group
ID Code:13310
Uncontrolled Keywords:Bacteroidetes, Porphyromonadaceae, Prevotellaceae, Bacteroidaceae, FISH, Rikenellaceae, RIBOSOMAL-RNA, OLIGONUCLEOTIDE PROBES, GUT MICROBIOME, WEIGHT-LOSS, BACTERIA, OBESITY, METABOLISM, FECES, SEQUENCES, ECOLOGY

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