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Each breed sample consisted of 24 animals including two trios of sire, dam and offspring.
These loci all had much larger FST values in the three breed sub-sample than in the full breed sample.
Our data point out that the use of SNP markers to analyze a wider breed sample could help in understanding the recent evolutionary history of domestic goats.
Breed sample sizes ranged from 24 (in Gloucestershire Old Spots and Pietrain) to 73 (in Berkshire), with an average of 32 individuals genotyped per breed (Table 1).
Our data point out that the use of SNP markers to analyze a wider breed sample, until now scarcely employed for genetic population studies in livestock, could help in understanding the recent evolutionary history of domestic goats.
The numbers of individuals (sires/animals in the current generation) in each breed sample were 1582 (383/1199) for Angus, 782 (368/414) for Limousin, and 400 (108/302) for Brahman.
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To explore each breed for substructure, we considered the hypothesis that a breed sampled from two geographical areas will correspond to two subsets.
Since exposure rates are likely to be highly variable and cow breeds may differ genetically, the optimal design is thought to be based on a single breed sampled from relatively few farms, allowing good matching between cases and controls [12].
The heritage chicken breed samples came as pooled blood from eight to 26 animals, each.
Secondly, the clustering identifies the most divergent breed samples in a convenient graphical output.
More distant breed samples included Arabian (Bask and Polish), Shetland Pony, Miniature Horse, Thoroughbred, and Sandohit Oldenburg.
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