Genomic variation landscape of the human gut microbiome

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Author
Schloissnig, Siegfried
Arumugam, Manimozhiyan
Sunagawa, Shinichi
Mitreva, Makedonka
Tap, Julien
Zhu, Ana
Waller, Alison
Mende, Daniel R.
Kultima, Jens Roat
Martin, John
Kota, Karthik
Weinstock, George M.
Bork, Peer
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https://doi.org/10.1038/nature11711Metadata
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Schloissnig, S., M. Arumugam, S. Sunagawa, M. Mitreva, J. Tap, A. Zhu, A. Waller, et al. 2012. “Genomic variation landscape of the human gut microbiome.” Nature 493 (7430): 45-50. doi:10.1038/nature11711. http://dx.doi.org/10.1038/nature11711.Abstract
While large-scale efforts have rapidly advanced the understanding and practical impact of human genomic variation, the latter is largely unexplored in the human microbiome. We therefore developed a framework for metagenomic variation analysis and applied it to 252 fecal metagenomes of 207 individuals from Europe and North America. Using 7.4 billion reads aligned to 101 reference species, we detected 10.3 million single nucleotide polymorphisms (SNPs), 107,991 short indels, and 1,051 structural variants. The average ratio of non-synonymous to synonymous polymorphism rates of 0.11 was more variable between gut microbial species than across human hosts. Subjects sampled at varying time intervals exhibited individuality and temporal stability of SNP variation patterns, despite considerable composition changes of their gut microbiota. This implies that individual-specific strains are not easily replaced and that an individual might have a unique metagenomic genotype, which may be exploitable for personalized diet or drug intake.Other Sources
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3536929/pdf/Terms of Use
This article is made available under the terms and conditions applicable to Other Posted Material, as set forth at http://nrs.harvard.edu/urn-3:HUL.InstRepos:dash.current.terms-of-use#LAACitable link to this page
http://nrs.harvard.edu/urn-3:HUL.InstRepos:11717672
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