Origin and phylogenetic status of the local Ashanti Dwarf pig (ADP) of Ghana based on genetic analysis.
Origin and phylogenetic status of the local Ashanti Dwarf pig (ADP) of Ghana based on genetic analysis.
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DOI：
10.1186/s12864-017-3536-6
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发表时间：
2017-02-20
期刊：
影响因子：
4.4
通讯作者：
Sargent CA
中科院分区：
文献类型：
--
作者：
Osei-Amponsah R;Skinner BM;Adjei DO;Bauer J;Larson G;Affara NA;Sargent CA
加纳的阿散蒂矮猪（ADP）是一种具有耐寒和抗病特性的濒危猪品种。动物遗传资源的特征为其保护和可持续利用，促进粮食安全和经济发展提供了相关数据。基于mtDNA、MC1R、y染色体序列多态性和全基因组SNP基因分型，研究了加纳当地ADP及其与现代商品品种杂交的起源和系统发育状况。这项研究涉及164头来自加纳三个农业生态区的本地猪。对线粒体d环区和y染色体序列的分析揭示了欧洲和亚洲的遗传特征，并在地理区域之间存在差异。黑色毛色是该品种中最主要的，黑色MC1R等位基因来自亚洲和欧洲。欧洲斑点等位基因在样本集中出现的频率较低，这可能是一些APD窝中出现斑点仔猪的原因。对SNP数据的主成分分析显示，位置和品种对加纳本地猪的聚类有很强的影响。在全球范围内，加纳本地猪与欧洲猪的商业来源密切相关，但我们通过FST分析确定了可能阐明ADP特定性状位点的间隔。欧洲和亚洲贡献的存在，以及地理区域的差异，可能反映了贸易和殖民的影响。了解混合对非洲ADP和其他地方品种的重要适应性和经济性状的影响，对于制定可持续保护计划以防止这些遗传资源的减少至关重要。本文的在线版本（doi:10.1186/s12864-017-3536-6）包含补充材料，可供授权用户使用。
The 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. The 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. The 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. The online version of this article (doi:10.1186/s12864-017-3536-6) contains supplementary material, which is available to authorized users.