The effect of host genetics on the gut microbiome

Marc Jan Bonder, Aleksandr Kurilshchikov, Ettje Tigchelaar-Feenstra, Zlatan Mujagic, Floris Imhann, Arnau Vich Vila, Patrick Deelen, Tommi Vatanen, Melanie Schirmer, Sanne P Smeekens, Daria V Zhernakova, Soesma A Jankipersadsing, Martin Jaeger, Marije Oosting, Maria Carmen Cenit, Ad A M Masclee, Morris A Swertz, Yang Li, Vinod Kumar, Leo JoostenHermie Harmsen, Rinse K Weersma, Lude Franke, Marten H Hofker, Ramnik J Xavier, Daisy Jonkers, Mihai G Netea, Cisca Wijmenga, Jingyuan Fu, Alexandra Zhernakova

OnderzoeksoutputAcademicpeer review

527 Citaten (Scopus)


The gut microbiome is affected by multiple factors, including genetics. In this study, we assessed the influence of host genetics on microbial species, pathways and gene ontology categories, on the basis of metagenomic sequencing in 1,514 subjects. In a genome-wide analysis, we identified associations of 9 loci with microbial taxonomies and 33 loci with microbial pathways and gene ontology terms at P < 5 × 10(-8). Additionally, in a targeted analysis of regions involved in complex diseases, innate and adaptive immunity, or food preferences, 32 loci were identified at the suggestive level of P < 5 × 10(-6). Most of our reported associations are new, including genome-wide significance for the C-type lectin molecules CLEC4F-CD207 at 2p13.3 and CLEC4A-FAM90A1 at 12p13. We also identified association of a functional LCT SNP with the Bifidobacterium genus (P = 3.45 × 10(-8)) and provide evidence of a gene-diet interaction in the regulation of Bifidobacterium abundance. Our results demonstrate the importance of understanding host-microbe interactions to gain better insight into human health.

Originele taal-2English
Pagina's (van-tot)1407-1412
Aantal pagina's6
TijdschriftNature Genetics
Nummer van het tijdschrift11
StatusPublished - 3-okt.-2016

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