Journal Article

Meta-analysis of human genome-microbiome association studies: the MiBioGen consortium initiative

Hughes, David, Wijmenga, Cisca, Kurilshikov, Alexander, Franke, Lude, Turpin, Williams, Kim, Han-na, Kacprowski, Tim, Bonder, Marc Jan, Meyer, Katie, Jackson, Matthew A., Homuth, Georg, Paterson, Andrew D., Franke, Andre, Frost, Fabian, Rühlemann, Malte, Bell, Jordana T., Wang, Jun, Spector, Tim D., Timpson, Nicolas, Kraaij, Robert, Croitoru, Kenneth, Medina-Gomez, Carolina, Steves, Claire J., Radjabzadeh, Djawad, Zhernakova, Alexandra, Raes, Jeroen

2018

Overview

Background In recent years, human microbiota, especially gut microbiota, have emerged as an important yet complex trait influencing human metabolism, immunology, and diseases. Many studies are investigating the forces underlying the observed variation, including the human genetic variants that shape human microbiota. Several preliminary genome-wide association studies (GWAS) have been completed, but more are necessary to achieve a fuller picture. Results Here, we announce the MiBioGen consortium initiative, which has assembled 18 population-level cohorts and some 19,000 participants. Its aim is to generate new knowledge for the rapidly developing field of microbiota research. Each cohort has surveyed the gut microbiome via 16S rRNA sequencing and genotyped their participants with full-genome SNP arrays. We have standardized the analytical pipelines for both the microbiota phenotypes and genotypes, and all the data have been processed using identical approaches. Our analysis of microbiome composition shows that we can reduce the potential artifacts introduced by technical differences in generating microbiota data. We are now in the process of benchmarking the association tests and performing meta-analyses of genome-wide associations. All pipeline and summary statistics results will be shared using public data repositories. Conclusion We present the largest consortium to date devoted to microbiota-GWAS. We have adapted our analytical pipelines to suit multi-cohort analyses and expect to gain insight into host-microbiota cross-talk at the genome-wide level. And, as an open consortium, we invite more cohorts to join us (by contacting one of the corresponding authors) and to follow the analytical pipeline we have developed.

• Publisher: BioMed Central,BioMed Central Ltd,Springer Nature B.V,BMC
• Subject: Analysis / Bacteria - classification / Bacteria - genetics / Bacteria - isolation & purification / Bioinformatics / Biology / Biomedical and Life Sciences / Biomedicine / Cohort Studies / Consortia / Diabetes / Digestive system / Disease / Epidemiology / Gastrointestinal Microbiome - genetics / Genes / Genetic diversity / Genetic Variation - genetics / Genetics / Genome, Human - genetics / Genome-wide association studies / Genome-wide association studies (GWAS) / Genome-Wide Association Study / Genomes / Genomics / Genotypes / Gut microbiome / Health care / Humans / Intestinal microflora / Medical Microbiology / Medical research / Medicine, Experimental / Meta-analysis / Microbial Ecology / Microbial Genetics and Genomics / Microbiology / Microbiome Announcement / Microbiomes / Microbiota / Microbiota (Symbiotic organisms) / Multiculturalism & pluralism / Nutrition research / Phenotypes / Physiological aspects / Population / Public health / RNA / RNA, Ribosomal, 16S - genetics / rRNA 16S / Single-nucleotide polymorphism / Statistical analysis / Studies / Surveys / Virology / White people