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2020, Number 1

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AbanicoVet 2020; 10 (1)

Genetic diversity and population structure of Yucatan black hairless pig using SNP50K chip

Lemus-Flores C, Alonso-Morales R, Toledo-Alvarado H, Sansor-Nah R, Burgos-Paz W, Dzib-Cauich D

Language: Spanish
References: 27
Page: 1-12
PDF size: 827.00 Kb.


ABSTRACT

In the present study, the Population structure and genetic diversity of 104 Yucatan black hairless pigs (YBH) and eight Duroc breeds were characterized BY using an SNP50K chip. The population structure was obtained, as well as the calculation of Principal Component Analysis (PCA), Minor Allele Frequency (MAF), heterozygosity observed (oH), Relationship (F), Fixation index of individuals within subpopulations (Fis), the t (outcrossing rate or alogamia index) was made, also the association analysis to identify SNP with population differences. The genetic component of Duroc in YBH subpopulations is low, from 0.00363 to 0.03532, THUS, IT WAS OBSERVED (appreciating) a subpopulation with greater genetic diversity and lower values of F and Fis, as well as higher oH and t. SNPs were identified (p‹1.213E-50 to p‹ 6.4E-20), associated with genes and biological processes. Genes EHF, DST, PDE8A, FOXA1 y VCL are related to epithelial cell differentiation, morphogenesis, and development of epithelium. 30 SNPs are related to nutrient metabolism, 23 SNPs to nutrient transport, 11 SNPs to Immunity, 10 SNPs to muscle, skeletal and embryonic, and 7 SNPs to synapses and receptors. YBH is distant from Duroc with different population structure and genetic diversity, also with different genes that involve important biological processes.


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