Origin and phylogenetic status of the local Ashanti Dwarf pig (ADP) of Ghana based on genetic analysis

BMC Genomics

Research Article

Dennis O. Adjei¹  Richard Osei-Amponsah²  Benjamin M. Skinner³  Nabeel A. Affara³  Julien Bauer³  Carole A. Sargent³  Greger Larson⁴ 

[1] Animal Breeding and Genetics Research Group, Department of Animal Science, University of Ghana, P. O. Box LG 226, Legon-ACCRA, Ghana;Animal Breeding and Genetics Research Group, Department of Animal Science, University of Ghana, P. O. Box LG 226, Legon-ACCRA, Ghana;Mammalian Genetics Research Group, Department of Pathology, University of Cambridge, Tennis Court Rd, CB2 1QP, Cambridge, UK;Mammalian Genetics Research Group, Department of Pathology, University of Cambridge, Tennis Court Rd, CB2 1QP, Cambridge, UK;Palaeogenomics and Bio-Archaeology Research Network, Research Laboratory for Archaeology, Dyson Perrins Building, South Parks Road, OX1 3QY, Oxford, UK;

关键词: Local pigs;    D-Loop;    Gene sequencing;    SNP genotyping;   

DOI  :  10.1186/s12864-017-3536-6

 received in 2016-08-03, accepted in 2017-02-02,  发布年份 2017

来源: Springer

【 摘 要 】

BackgroundThe Ashanti Dwarf Pig (ADP) of Ghana is an endangered pig breed with hardy and disease resistant traits. Characterisation of animal genetic resources provides relevant data for their conservation and sustainable use for food security and economic development. We investigated the origin and phylogenetic status of the local ADP of Ghana and their crosses with modern commercial breeds based on mtDNA, MC1R, Y-chromosome sequence polymorphisms, and genome-wide SNP genotyping.ResultsThe study involved 164 local pigs sampled from the three agro-ecological zones of Ghana. Analyses of the mitochondrial D-loop region and Y-chromosome sequences revealed both European and Asian genetic signatures, with differences between the geographical zones. Black coat colour is the most predominant within the breed, with black MC1R alleles of both Asian and European origin. European alleles for spotting are present at a low frequency in the sample set, and may account for the occurrence of spotted piglets in some APD litters. PCA analysis of SNP data revealed a strong location and breed effect on clustering of local Ghanaian pigs. On a global level, Ghanaian local pigs cluster closely with European pigs of commercial origin, but we identified intervals via FST analyses that may elucidate loci for ADP specific traits.ConclusionsThe presence of both European and Asian contributions, with differences between geographical zones probably reflects trading and colonial influences. Understanding the effects of admixture on important adaptive and economic traits of the ADP and other local breeds in Africa is critical for developing sustainable conservation programmes to prevent the decline of these genetic resources.

【 授权许可】

CC BY   
© The Author(s). 2017