基于序列推导基因型的全基因组关联研究揭示了与弗拉芒-蒙塔涅马品种的体型和性能特征相关的新数量性状位点。

Genome-wide association studies based on sequence-derived genotypes reveal new QTL associated with conformation and performance traits in the Franches-Montagnes horse breed.

作者信息

Frischknecht M, Signer-Hasler H, Leeb T, Rieder S, Neuditschko M

机构信息

Agroscope, Swiss National Stud Farm, Les Longs-Prés, 1580, Avenches, Switzerland.

Institute of Genetics, Vetsuisse Faculty, University of Bern, Bremgartenstrasse 109a, 3012, Bern, Switzerland.

出版信息

Anim Genet. 2016 Apr;47(2):227-9. doi: 10.1111/age.12406. Epub 2016 Jan 14.

DOI:10.1111/age.12406

PMID:26767322

Abstract

To identify novel quantitative trait loci (QTL) within horses, we performed genome-wide association studies (GWAS) based on sequence-level genotypes for conformation and performance traits in the Franches-Montagnes (FM) horse breed. Sequence-level genotypes of FM horses were derived by re-sequencing 30 key founders and imputing 50K data of genotyped horses. In total, we included 1077 FM horses genotyped for ~4 million SNPs and their respective de-regressed breeding values of the traits in the analysis. Based on this dataset, we identified a total of 14 QTL associated with 18 conformation traits and one performance trait. Therefore, our results suggest that the application of sequence-derived genotypes increases the power to identify novel QTL which were not identified previously based on 50K SNP chip data.

摘要

为了在马中鉴定新的数量性状基因座（QTL），我们基于汝拉山区（FM）马品种的体型和性能性状的序列水平基因型进行了全基因组关联研究（GWAS）。FM马的序列水平基因型通过对30个关键奠基马进行重测序并推算已基因分型马的50K数据得出。分析中总共纳入了1077匹FM马，这些马针对约400万个单核苷酸多态性（SNP）进行了基因分型，并具有各自性状的去回归育种值。基于该数据集，我们总共鉴定出了14个与18个体型性状和1个性能性状相关的QTL。因此，我们的结果表明，基于序列推导的基因型的应用提高了鉴定新QTL的能力，这些新QTL是之前基于50K SNP芯片数据未鉴定出来的。