Assessment of Conservation Effects of Lingxian White Goose Based on Whole Genome Resequencing
[Objective]Lingxian White goose is a great indigenous goose breed in Hunan province.To further understand the conservation effect of Lingxian White goose,an evaluation of the conservation work was conducted among various families in the conservation farm.[Method]One male goose was selected from each of the 42 families in the Lingxian White goose conservation farm,and blood was collected from the wing vein to extract DNA for whole genome resequencing.Based on the resequencing data of 42 Lingxian White goose male geese in the conservation farm,the population genetic structure and genetic diversity were analyzed and evaluated.[Result]A total of 14 270 647 SNPs were detected in the sampled population,and 13 696 453 SNPs were selected through data quality control and filtering.The results of principal component analysis(PCA)showed that 42 male geese were significantly clustered into three subgroups.Population admixture study revealed that there was no substantial hybridization taking place among the three subgroups(K=3).The fixation index(Fst)between subgroup 1 and subgroup 3 was 0.0842.A total of 832 runs of homozygosity(ROH)were identified among Lingxian White geese,all of ROH lengths concentrated in the range of 0 to 2 Mb.FROH which resulting inbreeding coefficient based on ROHs was 0.0130.The expected heterozygosity for the group was 0.2918,the observed heterozygosity was 0.2968,inbreeding coefficient(Fis)was 0.036.The polymorphism information content(PIC)was 0.266,and the gene diversity index(Nei)was 0.336.[Conclusion]The conserved population of Lingxian White goose was found to have a low degree of inbreeding and a comparatively high genetic diversity.The observed heterozygosity was slightly higher than the expected heterozygosity,but without a significant difference,suggesting that the Lingxian White goose population was in a balanced state.Although some degree of moderate genetic differentiation had emerged among certain subgroups.In subsequent conservation plan,it was necessary to promote interbreeding among these subgroups to reduce the genetic differentiation of Lingxian White goose.
Lingxian White goosewhole genome resequencinggenetic diversitypopulation structure
万方数据
维普
