Comparative metagenomics revealed commonly enriched gene sets in human gut microbiomes

Ken Kurokawa, Takehiko Itoh, Tomomi Kuwahara, Kenshiro Oshima, Hidehiro Toh, Atsushi Toyoda, Hideto Takami, Hidetoshi Morita, Vineet K. Sharma, Tulika P. Srivastava, Todd D. Taylor, Hideki Noguchi, Hiroshi Mori, Yoshitoshi Ogura, Dusko S. Ehrlich, Kikuji Itoh, Toshihisa Takagi, Yoshiyuki Sakaki, Tetsuya Hayashi, Masahira Hattori

研究成果: Contribution to journalArticle査読

623 被引用数 (Scopus)

抄録

Numerous microbes inhabit the human intestine, many of which are uncharacterized or uncultivable. They form a complex microbial community that deeply affects human physiology. To identify the genomic features common to all human gut microbiomes as well as those variable among them, we performed a large-scale comparative metagenomic analysis of fecal samples from 13 healthy individuals of various ages, including unweaned infants. We found that, while the gut microbiota from unweaned infants were simple and showed a high inter-individual variation in taxonomic and gene composition, those from adults and weaned children were more complex but showed a high functional uniformity regardless of age or sex. In searching for the genes over-represented in gut microbiomes, we identified 237 gene families commonly enriched in adult-type and 136 families in infant-type microbiomes, with a small overlap. An analysis of their predicted functions revealed various strategies employed by each type of microbiota to adapt to its intestinal environment, suggesting that these gene sets encode the core functions of adult and infant-type gut microbiota. By analysing the orphan genes, 647 new gene families were identified to be exclusively present in human intestinal microbiomes. In addition, we discovered a conjugative transposon family explosively amplified in human gut microbiomes, which strongly suggests that the intestine is a 'hot spot' for horizontal gene transfer between microbes.

本文言語英語
ページ(範囲)169-181
ページ数13
ジャーナルDNA Research
14
4
DOI
出版ステータス出版済み - 9 2007
外部発表はい

All Science Journal Classification (ASJC) codes

  • 分子生物学
  • 遺伝学

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