Genomic variation landscape of the human gut microbiome
Research output: Contribution to journal › Journal article › Research › peer-review
Standard
Genomic variation landscape of the human gut microbiome. / Schloissnig, Siegfried; Arumugam, Manimozhiyan; Sunagawa, Shinichi; Mitreva, Makedonka; Tap, Julien; Zhu, Ana; Waller, Alison; Mende, Daniel R; Kultima, Jens Roat; Martin, John; Kota, Karthik; Sunyaev, Shamil R; Weinstock, George M; Bork, Peer.
In: Nature, Vol. 493, No. 7430, 2013, p. 45-50.Research output: Contribution to journal › Journal article › Research › peer-review
Harvard
APA
Vancouver
Author
Bibtex
}
RIS
TY - JOUR
T1 - Genomic variation landscape of the human gut microbiome
AU - Schloissnig, Siegfried
AU - Arumugam, Manimozhiyan
AU - Sunagawa, Shinichi
AU - Mitreva, Makedonka
AU - Tap, Julien
AU - Zhu, Ana
AU - Waller, Alison
AU - Mende, Daniel R
AU - Kultima, Jens Roat
AU - Martin, John
AU - Kota, Karthik
AU - Sunyaev, Shamil R
AU - Weinstock, George M
AU - Bork, Peer
PY - 2013
Y1 - 2013
N2 - Whereas large-scale efforts have rapidly advanced the understanding and practical impact of human genomic variation, the practical impact of variation is largely unexplored in the human microbiome. We therefore developed a framework for metagenomic variation analysis and applied it to 252 faecal 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 insertions/deletions, 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 indicates 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.
AB - Whereas large-scale efforts have rapidly advanced the understanding and practical impact of human genomic variation, the practical impact of variation is largely unexplored in the human microbiome. We therefore developed a framework for metagenomic variation analysis and applied it to 252 faecal 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 insertions/deletions, 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 indicates 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.
U2 - 10.1038/nature11711
DO - 10.1038/nature11711
M3 - Journal article
C2 - 23222524
VL - 493
SP - 45
EP - 50
JO - Nature
JF - Nature
SN - 0028-0836
IS - 7430
ER -
ID: 43975496