The convergence of carbohydrate active gene repertoires in human gut microbes

Catherine A. Lozupone, Micah Hamady, Brandi L. Cantarel, Pedro M. Coutinho, Bernard Henrissat, Jeffrey I. Gordon, Rob Knight

Research output: Contribution to journalArticle

81 Citations (Scopus)

Abstract

The extreme variation in gene content among phylogenetically related microorganisms suggests that gene acquisition, expansion, and loss are important evolutionary forces for adaptation to new environments. Accordingly, phylogenetically disparate organisms that share a habitat may converge in gene content as they adapt to confront shared challenges. This response should be especially pronounced for functional genes that are important for survival in a particular habitat. We illustrate this principle by showing that the repertoires of two different types of carbohydrate-active enzymes, glycoside hydrolases and glycosyltransferases, have converged in bacteria and archaea that live in the human gut and that this convergence is largely due to horizontal gene transfer rather than gene family expansion. We also identify gut microbes that may have more similar dietary niches in the human gut than would be expected based on phylogeny. The techniques used to obtain these results should be broadly applicable to understanding the functional genes and evolutionary processes important for adaptation in many environments and useful for interpreting the large number of reference microbial genome sequences being generated for the International Human Microbiome Project.

Original languageEnglish (US)
Pages (from-to)15076-15081
Number of pages6
JournalProceedings of the National Academy of Sciences of the United States of America
Volume105
Issue number39
DOIs
StatePublished - Sep 30 2008

Fingerprint

Carbohydrates
Genes
Ecosystem
Microbial Genome
Horizontal Gene Transfer
Glycosyltransferases
Glycoside Hydrolases
Microbiota
Archaea
Phylogeny
Bacteria
Survival
Enzymes

Keywords

  • Comparative genomics
  • Glycoside hydrolases
  • Glycosyltransferases
  • Gut ecosystem
  • Microbial genome evolution

ASJC Scopus subject areas

  • General

Cite this

The convergence of carbohydrate active gene repertoires in human gut microbes. / Lozupone, Catherine A.; Hamady, Micah; Cantarel, Brandi L.; Coutinho, Pedro M.; Henrissat, Bernard; Gordon, Jeffrey I.; Knight, Rob.

In: Proceedings of the National Academy of Sciences of the United States of America, Vol. 105, No. 39, 30.09.2008, p. 15076-15081.

Research output: Contribution to journalArticle

Lozupone, Catherine A. ; Hamady, Micah ; Cantarel, Brandi L. ; Coutinho, Pedro M. ; Henrissat, Bernard ; Gordon, Jeffrey I. ; Knight, Rob. / The convergence of carbohydrate active gene repertoires in human gut microbes. In: Proceedings of the National Academy of Sciences of the United States of America. 2008 ; Vol. 105, No. 39. pp. 15076-15081.
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