Genome-wide association study suggests genetic candidate loci of insulin dysregulation in Finnhorses

Abstract

Equine metabolic syndrome (EMS) is a common welfare problem in horses worldwide. It is characterized by insulin dysregulation (ID), predisposition to laminitis and often obesity. EMS is multifactorial by nature, with both the environment and genetics contributing to the phenotype. Environmental factors, such as feeding and exercise, can be controlled, thus forming the basis for treatment and prevention. Genetic factors, by contrast, are less well-known and not easily controllable. The aim of this study was to identify potential genetic loci influencing ID/EMS in Finnhorses. A single-breed (Finnhorse) case-control genome-wide association study (GWAS) of ID was conducted with controls that included age-appropriate non-ID horses. ID status was determined with an oral sugar test (OST) for fasted horses. Seventy-one Finnhorses participated (n = 34 ID, n = 37 control). DNA samples (hair roots) were genotyped for 65 157 single-nucleotide polymorphisms (SNPs) with the Illumina Equine SNP70 BeadChip, and these data were analysed for association and F_ST outliers with genomic tools. P-values that exceeded the suggestive threshold (P = 1.00 ×10^-5) were found in SNP BIEC2_383954 (P = 3.45 ×10^-6) in chromosome 17 and SNP BIEC2_312374 (P = 1.89 ×10^-5) in chromosome 15. Hierarchical and Bayesian F_ST outlier tests also detected these SNPs. Potential candidate genes associated with the ID close to SNP BIEC2_383954, with functions in carbohydrate metabolism, were Arginine and Glutamate Rich 1 (ARGLU1) and Ephrin-B2 (EFNB2).

Keywords: Equine genome; Genome-wide association study; Insulin dysregulation; Single-nucleotide polymorphism.