Abstract:
:The extent of linkage disequilibrium (LD) between genetic loci has implications for both association studies and the accuracy of genomic prediction. To characterise the persistence of LD in diverse sheep breeds, two SNP genotyping platforms were used. First, existing SNP genotypes from 63 breeds obtained using the ovine SNP50 BeadChip (49,034 loci) were used to estimate LD decay in populations with contrasting levels of genetic diversity. Given the paucity of marker pairs separated by short physical distances on the SNP50 BeadChip, genotyping was subsequently performed for four breeds using the recently developed ovine HD BeadChip that assays approximately 600,000 SNPs with an average genomic spacing of 5 kb. This facilitated a highly accurate estimate of LD over short genomic distances (<30 kb) and revealed LD varies considerably between sheep breeds. Further, sheep appear to contain generally lower levels of LD than do other domestic species, likely a reflection of aspects of their past population history.
journal_name
Anim Genetjournal_title
Animal geneticsauthors
Kijas JW,Porto-Neto L,Dominik S,Reverter A,Bunch R,McCulloch R,Hayes BJ,Brauning R,McEwan J,International Sheep Genomics Consortium.doi
10.1111/age.12197subject
Has Abstractpub_date
2014-10-01 00:00:00pages
754-7issue
5eissn
0268-9146issn
1365-2052journal_volume
45pub_type
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