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De Novo SNP Discovery in the Scandinavian Brown Bear (Ursus arctos)
Sveriges lantbruksuniversitet.
Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Institutionen för fysiologisk botanik. Umeå universitet, Teknisk-naturvetenskapliga fakulteten, Umeå Plant Science Centre (UPSC).ORCID-id: 0000-0001-6031-005X
Sveriges lantbruksuniversitet.
2013 (engelsk)Inngår i: PLoS ONE, ISSN 1932-6203, E-ISSN 1932-6203, Vol. 8, nr 11, s. e81012-Artikkel i tidsskrift (Fagfellevurdert) Published
Abstract [en]

Information about relatedness between individuals in wild populations is advantageous when studying evolutionary, behavioural and ecological processes. Genomic data can be used to determine relatedness between individuals either when no prior knowledge exists or to confirm suspected relatedness. Here we present a set of 96 SNPs suitable for inferring relatedness for brown bears (Ursus arctos) within Scandinavia. We sequenced reduced representation libraries from nine individuals throughout the geographic range. With consensus reads containing putative SNPs, we applied strict filtering criteria with the aim of finding only high-quality, highly-informative SNPs. We tested 150 putative SNPs of which 96% were validated on a panel of 68 individuals. Ninety-six of the validated SNPs with the highest minor allele frequency were selected. The final SNP panel includes four mitochondrial markers, two monomorphic Y-chromosome sex-determination markers, three X-chromosome SNPs and 87 autosomal SNPs. From our validation sample panel, we identified two previously known parent-offspring dyads with reasonable accuracy. This panel of SNPs is a promising tool for inferring relatedness in the brown bear population in Scandinavia.

sted, utgiver, år, opplag, sider
Public Library of Science , 2013. Vol. 8, nr 11, s. e81012-
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URN: urn:nbn:se:umu:diva-85304DOI: 10.1371/journal.pone.0081012ISI: 000327308500190OAI: oai:DiVA.org:umu-85304DiVA, id: diva2:693951
Tilgjengelig fra: 2014-02-05 Laget: 2014-01-31 Sist oppdatert: 2018-06-08bibliografisk kontrollert

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