全基因组重测序解析德清朱鹮群体遗传多样性及群体遗传结构OA

The genomic single nucleotide polymorphisms(SNPs)in a population of 194 Nipponia nippon in-dividuals were investigated using whole-genome resequencing.The genetic diversity of the population in Deqing was assessed with genetic parameters including minor allele frequency,observed heterozygosity,ex-pected heterozygosity,and polymorphic information content,and the genetic correlation within the population was analyzed by constructing identity by state(IBS)genetic distance matrix and G matrix.A phylogenetic tree based on the IBS genetic distance matrix was also built to analyze and classify the family structure of the Deqing N.nippon population.The results showed that,after quality control,a total of 144 219 SNPs were obtained from the 194 individuals,with the average call rate 0.962,minor allele frequency 0.169±0.050,polymorphic information content 0.276±0.068,and observed heterozygosity and expected heterozygosity 0.338±0.099 and 0.276±0.069,respectively.The inbreeding coefficient was-0.206±0.071,indicating a low level of inbreeding.The IBS genetic distance within this population was 0.218±0.033,and the results of the G matrix analysis were consistent with those of IBS genetic distance matrix,indicating the presence of closely related individuals within the Deqing N.nippon population.Based on phylogenetic tree analysis,the 194 in-dividuals could be classified into 16 lineages.In summary,the genetic diversity of the Deqing N.nippon population is moderate,and there is no significant evidence of extensive inbreeding.However,due to close kinship between certain individuals,there is a risk of inbreeding.Therefore,in future pairing selection,indi-viduals for mating should be chosen based on the classified families to avoid inbreeding.