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Genome sequence, population history, and pelage genetics of the endangered African wild dog (Lycaon pictus)

Campana, MG; Parker, LD; Hawkins, MTR; Young, HS; Helgen, KM; Szykman Gunther, M; Woodroffe, R; ... Fleischer, RC; + view all (2017) Genome sequence, population history, and pelage genetics of the endangered African wild dog (Lycaon pictus). BMC Genomics , 17 , Article 1013. 10.1186/s12864-016-3368-9. Green open access

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Abstract

BACKGROUND: The African wild dog (Lycaon pictus) is an endangered sub-Saharan canid threatened by severe habitat fragmentation, human-wildlife conflict, and infectious disease. A highly specialized carnivore, it is distinguished by its social structure, dental morphology, absence of dewclaws, and colorful pelage. RESULTS: We sequenced the genomes of two individuals from populations representing two distinct ecological histories (Laikipia County, Kenya and KwaZulu-Natal Province, South Africa). We reconstructed population demographic histories for the two individuals and scanned the genomes for evidence of selection. CONCLUSIONS: We show that the African wild dog has undergone at least two effective population size reductions in the last one million years. We found evidence of Lycaon individual-specific regions of low diversity, suggestive of inbreeding or population-specific selection. Further research is needed to clarify whether these population reductions and low diversity regions are characteristic of the species as a whole. We documented positive selection on the Lycaon mitochondrial genome. Finally, we identified several candidate genes (ASIP, MITF, MLPH, PMEL) that may play a role in the characteristic Lycaon pelage.

Type: Article
Title: Genome sequence, population history, and pelage genetics of the endangered African wild dog (Lycaon pictus)
Open access status: An open access version is available from UCL Discovery
DOI: 10.1186/s12864-016-3368-9
Publisher version: http://dx.doi.org/10.1186/s12864-016-3368-9
Language: English
Additional information: © The Author(s). 2016 Open Access This article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.
Keywords: Lycaon pictus; genome; population history; selection; pelage
UCL classification: UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Life Sciences
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Life Sciences > Div of Biosciences > Genetics, Evolution and Environment
URI: http://discovery.ucl.ac.uk/id/eprint/1529405
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