Border Collie array data for 58 dogs from Illumina 170k CanineHD BeadChip

  • Kim Summers (Creator)
  • Carys Pugh (Creator)
  • Ailsa Carlisle (Creator)

Dataset

Description

The data comprise genotype data for 58 Border Collies, genotyped using the Illumina 170k CanineHD BeadChip. More details are given in the associated readme.txt file

Abstract

Goniodysgenesis is a developmental abnormality of the anterior chamber of the eye. It is generally considered to be congenital in dogs (Canis lupus familiaris), and has been associated with glaucoma and blindness. Goniodysgenesis and early-onset glaucoma initially emerged in Border Collies in Australia in the late 1990s and has subsequently been found in Europe and the USA. The objective of the present study was to determine the genetic basis of goniodysgenesis in Border Collies. Clinical diagnosis was based on results of examinations by veterinary ophthalmologists of affected and unaffected dogs from eleven different countries. Genotyping using the Illumina high density canine SNP chip and whole genome sequencing were used to identify candidate genetic regions. Expression profiles and evolutionary conservation of candidate genes were assessed using public databases. Analysis of pedigree information was consistent with an autosomal recessive mode of inheritance for severe goniodysgenesis (potentially leading to glaucoma) in this breed. There was a highly significant peak of association over chromosome 17, with a p-value of 2 x 10-13. Whole genome sequences of three dogs with glaucoma, three severely affected and three unaffected dogs identified a missense variant in the olfactomedin like 3 (OLFML3) gene in all six affected animals. This was homozygous in all nine cases with glaucoma and 12 of 14 other severely affected animals. Of 67 reportedly unaffected animals, only one (offspring of two homozygous affected parents) was homozygous for this variant. The identification of a candidate genetic region and putative causative mutation will aid breeders to reduce the frequency of goniodysgenesis and the risk of glaucoma in the Border Collie population.

Data Citation

Summers, Kim; Pugh, Carys; Carlisle, Ailsa. (2018). Border Collie array data for 58 dogs from Illumina 170k CanineHD BeadChip, [dataset]. The Roslin Institute. University of Edinburgh. School of Veterinary Studies. http://dx.doi.org/10.7488/ds/2426.
Date made available28 Aug 2018
PublisherEdinburgh DataShare

Cite this