Publication
Estimating genetic diversity and population structure of 22 chicken breeds in Asia using microsatellite markers
Publisher:
Asian Australasian Association of Animal Production Societies
Date:
12-2020
DOI:
10.5713/AJAS.19.0958
Abstract: Objective: Estimating the genetic ersity and structures, both within and among chicken breeds, is critical for the identification and conservation of valuable genetic resources. In chickens, microsatellite (MS) marker polymorphisms have previously been widely used to evaluate these distinctions. Our objective was to analyze the genetic ersity and relationships among 22 chicken breeds in Asia based on allelic frequencies.Methods: We used 469 genomic DNA s les from 22 chicken breeds from eight Asian countries (South Korea, KNG, KNB, KNR, KNW, KNY, KNO Laos, LYO, LCH, LBB, LOU Indonesia, INK, INS, ING Vietnam, VTN, VNH Mongolia, MGN Kyrgyzstan, KGPS Nepal, NPS Sri Lanka, SBC) and three imported breeds (RIR, Rhode Island Red WLG, White Leghorn CON, Cornish). Their genetic ersity and phylogenetic relationships were analyzed using 20 MS markers.Results: In total, 193 alleles were observed across all 20 MS markers, and the number of alleles ranged from 3 (MCW0103) to 20 (LEI0192) with a mean of 9.7 overall. The NPS breed had the highest expected heterozygosity (H sub exp /sub , 0.718±0.027) and polymorphism information content (PIC, 0.663±0.030). Additionally, the observed heterozygosity (H sub obs /sub ) was highest in LCH (0.690±0.039), whereas WLG showed the lowest H sub exp /sub (0.372±0.055), H sub obs /sub (0.384±0.019), and PIC (0.325±0.049). Nei’s DA genetic distance was the closest between VTN and VNH (0.086), and farthest between KNG and MGN (0.503). Principal coordinate analysis showed similar results to the phylogenetic analysis, and three axes explained 56.2% of the variance (axis 1, 19.17% 2, 18.92% 3, 18.11%). STRUCTURE analysis revealed that the 22 chicken breeds should be ided into 20 clusters, based on the highest ΔK value (46.92).Conclusion: This study provides a basis for future genetic variation studies and the development of conservation strategies for 22 chicken breeds in Asia.