Validation of genome-wide intervertebral disc calcification associations in Dachshund and further investigation of the chromosome 12 susceptibility locus
| Autor: | Karsten Scheibye-Alsing, Mette Mogensen, Helle Friis Proschowsky, Vibeke Jensen, Mads Bak, Niels Tommerup, Peter Karlskov-Mortensen, Merete Fredholm, Haja N. Kadarmideen |
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| Jazyk: | angličtina |
| Rok vydání: | 2012 |
| Předmět: |
Linkage disequilibrium
lcsh:QH426-470 040301 veterinary sciences Haploview LD pattern canine Locus (genetics) Biology 0403 veterinary science 03 medical and health sciences intervertebral disc calcification medicine Genetics Chromosome 12 Genetics (clinical) 030304 developmental biology Original Research 0303 health sciences intervertebral disk calcification Haplotype Intervertebral disk calcification Intervertebral disc haplotype effects 04 agricultural and veterinary sciences medicine.disease lcsh:Genetics medicine.anatomical_structure Molecular Medicine Calcification Resequencing |
| Zdroj: | Frontiers in Genetics, Vol 3 (2012) Frontiers in Genetics; Vol 3 Frontiers in Genetics |
| ISSN: | 1664-8021 |
| DOI: | 10.3389/fgene.2012.00225/full |
| Popis: | Herniation of the intervertebral disk is a common cause of neurological dysfunction in the dog, particularly in the Dachshund. Using the Illumina CanineHD BeadChip, we have previously identified a major locus on canine chromosome 12 nucleotide positions 36,750,205–38,524,449 that strongly associates with intervertebral disk calcification in Danish wire-haired Dachshunds. In this study, targeted resequencing identified two synonymous variants in MB21D1 and one in the 5′-untranslated region of KCNQ5 that associates with intervertebral disk calcification in an independent sample of wire-haired Dachshunds. Haploview identified seven linkage disequilibrium blocks across the disease-associated region. The effect of haplotype windows on disk calcification shows that all haplotype windows are significantly associated with disk calcification. However, our predictions imply that the causal variant(s) are most likely to be found between nucleotide 36,750,205–37,494,845 as this region explains the highest proportion of variance in the dataset. Finally, we develop a risk prediction model for wire-haired Dachshunds. We validated the association of the chromosome 12 locus with disk calcification in an independent sample of wire-haired Dachshunds and identify potential risk variants. Additionally, we estimated haplotype effects and set up a model for prediction of disk calcifications in wire-haired Dachshunds based on genotype data. This genetic prediction model may prove useful in selection of breeding animals in future breeding programs. |
| Databáze: | OpenAIRE |
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