Whole Genome Sequencing Reveals Multiple Linked Genetic Variants on Canine Chromosome 12 Associated with Risk for Symmetrical Lupoid Onychodystrophy (SLO) in the Bearded Collie

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Gershony , L C , Belanger , J M , Hytönen , M K , Lohi , H & Oberbauer , A M 2021 , ' Whole Genome Sequencing Reveals Multiple Linked Genetic Variants on Canine Chromosome 12 Associated with Risk for Symmetrical Lupoid Onychodystrophy (SLO) in the Bearded Collie ' , Genes , vol. 12 , no. 8 , 1265 . https://doi.org/10.3390/genes12081265

Title: Whole Genome Sequencing Reveals Multiple Linked Genetic Variants on Canine Chromosome 12 Associated with Risk for Symmetrical Lupoid Onychodystrophy (SLO) in the Bearded Collie
Author: Gershony, Liza C.; Belanger, Janelle M.; Hytönen, Marjo K.; Lohi, Hannes; Oberbauer, Anita M.
Contributor: University of Helsinki, Medicum
University of Helsinki, Biosciences
Date: 2021-08
Language: eng
Number of pages: 15
Belongs to series: Genes
ISSN: 2073-4425
URI: http://hdl.handle.net/10138/334188
Abstract: In dogs, symmetrical lupoid onychodystrophy (SLO) results in nail loss and an abnormal regrowth of the claws. In Bearded Collies, an autoimmune nature has been suggested because certain dog leukocyte antigen (DLA) class II haplotypes are associated with the condition. A genome-wide association study of the Bearded Collie revealed two regions of association that conferred risk for disease: one on canine chromosome (CFA) 12 that encompasses the DLA genes, and one on CFA17. Case-control association was employed on whole genome sequencing data to uncover putative causative variants in SLO within the CFA12 and CFA17 associated regions. Genotype imputation was then employed to refine variants of interest. Although no SLO-associated protein-coding variants were identified on CFA17, multiple variants, many with predicted damaging effects, were identified within potential candidate genes on CFA12. Furthermore, many potentially damaging alleles were fully correlated with the presence of DLA class II risk haplotypes for SLO, suggesting that the variants may reflect DLA class II haplotype association with disease or vice versa. Strong linkage disequilibrium in the region precluded the ability to isolate and assess the individual or combined effect of variants on disease development. Nonetheless, all were predictive of risk for SLO and, with judicious assessment, their application in selective breeding may prove useful to reduce the incidence of SLO in the breed.
Subject: SLO
onychodystrophy
onychomadesis
dogs
autoimmune
DLA
MHC
WGS
genomics
imputation
SINGLE NUCLEOTIDE POLYMORPHISM
LYMPHOTOXIN
ONYCHOMADESIS
PROGRAM
FORMAT
BETA
TNXB
TOOL
413 Veterinary science
1184 Genetics, developmental biology, physiology
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