Genetic Diversity and Population Genetic Structure Analysis of Shandong Local Chicken (Gallus gallus) Breeds Based on SSR Markers
ZHOU Yan1,2, LEI Qiu-Xia1,2, HAN Hai-Xia1,2, LIU Jie1,2, LI Fu-Wei1,2, LIU Wei1,2, WANG Jie1,2, LI Da-Peng1,2, CAO Ding-Guo1,2,*
1 Institute of Poultry Science, Academy of Agricultural Sciences of Shandong Province, Jinan 250023, China; 2 Poultry Breeding Engineering Technology Center of Shandong Province, Jinan 250023, China
Abstract：To assess the genetic diversity of local chicken (Gallus gallus) germplasm resources in Shandong province, and provide theoretical support and data reference for the management and innovative utilization, a total of 480 individuals from 6 Shandong local chicken breeds, 1 cultivated strain and 1 chicken breed outside the province were genotyped by 20 pairs of SSR primers in this study. Genetic diversity parameters, principal coordinate analysis (PCoA), and analysis of molecular variance (AMOVA) were generated using software. The results showed that a total of 226 alleles of 20 markers were detected with an average number of 11.3, PIC was 0.711. The mean allele of population was 6.625, the mean observed heterozygosity and expected heterozygosity were 0.579 and 0.666, respectively. AMOVA analysis showed that 18% of genetic variation was among the populations and 82% of genetic variation was within the populations, genetic variation mainly comes from different individuals within the population. PCoA and cluster analysis showed that 8 populations were divided into 3 genetic clusters, Jining Bairi chicken (JB), Laiwu Black chicken (LH), Luqin chicken (LQ), Langya chicken (LY), Luxi Mini chicken (LL) and Shouguang chicken (SG) were first clustered into one group, while Shiqi chicken (SQ) and Wenshang Barred chicken (WL) were clustered into one group separately. The study showed that there were very rich genetic diversity in 8 populations, the clustering results were consistent with the geographical distribution and relationship between each other. This study provides an important theoretical basis for the preservation, evaluation and utilization of local chickens in Shandong Province.
周艳, 雷秋霞, 韩海霞, 刘杰, 李福伟, 刘玮, 王杰, 李大鹏, 曹顶国. 基于SSR标记的山东地方鸡种遗传多样性和群体遗传结构分析[J]. 农业生物技术学报, 2023, 31(1): 115-123.
ZHOU Yan, LEI Qiu-Xia, HAN Hai-Xia, LIU Jie, LI Fu-Wei, LIU Wei, WANG Jie, LI Da-Peng, CAO Ding-Guo. Genetic Diversity and Population Genetic Structure Analysis of Shandong Local Chicken (Gallus gallus) Breeds Based on SSR Markers. 农业生物技术学报, 2023, 31(1): 115-123.
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