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Mol Ecol Resour. 2012 Nov;12(6):1145-50. doi: 10.1111/1755-0998.12017. Epub 2012 Sep 21.

Consistent divergence times and allele sharing measured from cross-species application of SNP chips developed for three domestic species.

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1
Department of Biological Sciences, University of Alberta, Edmonton, AB, Canada. jmm1@ualberta.ca

Abstract

Recent advances in technology facilitated development of large sets of genetic markers for many taxa, though most often model or domestic organisms. Cross-species application of genomic technologies may allow for rapid marker discovery in wild relatives of taxa with well-developed resources. We investigated returns from cross-species application of three commercially available SNP chips (the OvineSNP50, BovineSNP50 and EquineSNP50 BeadChips) as a function of divergence time between the domestic source species and wild target species. Across all three chips, we observed a consistent linear decrease in call rate (~1.5% per million years), while retention of polymorphisms showed an exponential decay. These results will allow researchers to predict the expected amplification rate and polymorphism of cross-species application for their taxa of interest, as well as provide a resource for estimating divergence times.

PMID:
22994965
DOI:
10.1111/1755-0998.12017
[Indexed for MEDLINE]
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