Bacterial biogeography of the human digestive tract

We present bacterial biogeography as sampled from the human gastrointestinal tract of four healthy subjects. This study generated >32 million paired-end sequences of bacterial 16S rRNA genes (V3 region) representing >95,000 unique operational taxonomic units (OTUs; 97% similarity clusters), wi...

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Published inScientific reports Vol. 1; no. 1; p. 170
Main Authors Stearns, Jennifer C., Lynch, Michael D. J., Senadheera, Dilani B., Tenenbaum, Howard C., Goldberg, Michael B., Cvitkovitch, Dennis G., Croitoru, Kenneth, Moreno-Hagelsieb, Gabriel, Neufeld, Josh D.
Format Journal Article
LanguageEnglish
Published London Nature Publishing Group UK 25.11.2011
Nature Publishing Group
Subjects
631/114
631/158/670
631/326/171
Adult
Bacteria - classification
Bacteria - genetics
Bacteria - isolation & purification
Biodiversity
Biogeography
Biopsy
Colon
Duodenum
Female
Gastrointestinal tract
Gastrointestinal Tract - microbiology
Humanities and Social Sciences
Humans
Male
Metagenome - genetics
Microbial activity
Microflora
multidisciplinary
Organ Specificity
Phylogeny
RNA, Bacterial - genetics
RNA, Ribosomal, 16S - genetics
rRNA 16S
Science
Stomach
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Summary:We present bacterial biogeography as sampled from the human gastrointestinal tract of four healthy subjects. This study generated >32 million paired-end sequences of bacterial 16S rRNA genes (V3 region) representing >95,000 unique operational taxonomic units (OTUs; 97% similarity clusters), with >99% Good's coverage for all samples. The highest OTU richness and phylogenetic diversity was found in the mouth samples. The microbial communities of multiple biopsy sites within the colon were highly similar within individuals and largely distinct from those in stool. Within an individual, OTU overlap among broad site definitions (mouth, stomach/duodenum, colon and stool) ranged from 32–110 OTUs, 25 of which were common to all individuals and included OTUs affiliated with Faecalibacterium prasnitzii and the TM7 phylum. This first comprehensive characterization of the abundant and rare microflora found along the healthy human digestive tract represents essential groundwork to investigate further how the human microbiome relates to health and disease.
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ISSN:2045-2322
2045-2322
DOI:10.1038/srep00170