Genome-wide association of multiple complex traits in outbred mice by ultra-low-coverage sequencing.

Details

Serval ID
serval:BIB_471CA7703BA3
Type
Article: article from journal or magazin.
Collection
Publications
Title
Genome-wide association of multiple complex traits in outbred mice by ultra-low-coverage sequencing.
Journal
Nature Genetics
Author(s)
Nicod J., Davies R.W., Cai N., Hassett C., Goodstadt L., Cosgrove C., Yee B.K., Lionikaite V., McIntyre R.E., Remme C.A., Lodder E.M., Gregory J.S., Hough T., Joynson R., Phelps H., Nell B., Rowe C., Wood J., Walling A., Bopp N., Bhomra A., Hernandez-Pliego P., Callebert J., Aspden R.M., Talbot N.P., Robbins P.A., Harrison M., Fray M., Launay J.M., Pinto Y.M., Blizard D.A., Bezzina C.R., Adams D.J., Franken P., Weaver T., Wells S., Brown S.D., Potter P.K., Klenerman P., Lionikas A., Mott R., Flint J.
ISSN
1546-1718 (Electronic)
ISSN-L
1061-4036
Publication state
Published
Issued date
2016
Peer-reviewed
Oui
Volume
48
Number
8
Pages
912-918
Language
english
Abstract
Two bottlenecks impeding the genetic analysis of complex traits in rodents are access to mapping populations able to deliver gene-level mapping resolution and the need for population-specific genotyping arrays and haplotype reference panels. Here we combine low-coverage (0.15×) sequencing with a new method to impute the ancestral haplotype space in 1,887 commercially available outbred mice. We mapped 156 unique quantitative trait loci for 92 phenotypes at a 5% false discovery rate. Gene-level mapping resolution was achieved at about one-fifth of the loci, implicating Unc13c and Pgc1a at loci for the quality of sleep, Adarb2 for home cage activity, Rtkn2 for intensity of reaction to startle, Bmp2 for wound healing, Il15 and Id2 for several T cell measures and Prkca for bone mineral content. These findings have implications for diverse areas of mammalian biology and demonstrate how genome-wide association studies can be extended via low-coverage sequencing to species with highly recombinant outbred populations.
Pubmed
Web of science
Create date
07/07/2016 13:54
Last modification date
20/08/2019 14:53
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