藏羚Pantholops hodgsonii是藏羚属Pantholops现存的唯一物种，由于Y染色体基因较保守，基于近缘物种的Y染色体多态性遗传位点筛选受到了很大的限制。本研究对15份藏羚新鲜组织样品进行基因组重测序，生物信息分析筛选出Y染色体雄性特异区(MSY)对应的scaffolds，对部分SNP及SSR位点进行多态性验证。共比对出44个scaffolds，以其中序列最长、候选变异位点最多且最完整的KE113803。1为参考，对其中190个SNP变异位点设计引物进行验证，共获得45条MSY DNA序列，其中15对引物扩增到的11 898 bp DNA序列中检测到27个SNP位点;同时对KE113803。1中除单核苷酸重复以外的134个SSR位点设计引物并验证多态性，筛选出56个Y-SSR位点，其中5个具有多态性。本研究结果为后续分析藏羚Y染色体遗传多样性及父系遗传奠定了良好基础。
Genome-Sequencing-Based Screening of Polymorphic Genetic Loci in the Y Chromosome of Pantholops hodgsonii
The screening of polymorphic genetic loci in Y chromosome is fundamental to study the genetic diversity of Y chromosome and paternal inheritance in animals.Tibetan antelope(Pantholops hodgsonii)is the sole extant species of the genus Pantholops with relatively conservative Y-chromosome genes,and screening for the polymorphisms of Y chromo-some based on the closely related species is greatly limited.In this study,15 fresh tissue samples of P.hodgsonii were sub-jected to genome resequencing,followed by bioinformatic analyses to screen the polymorphic SNP and SSR loci in the male specific region of Y chromosome.The results showed that 44 scaffolds belonging to the male-specific region of Y chromo-some were identified.The scaffold KE113803.1,which has the longest sequence and the most complete candidate vari-ants,were selected to validate the 190 SNP variants by using PCR.Finally,45 DNA sequences of the male specific region of Y chromosome were obtained,and of which 27 SNP sites were detected in the 11 898 bp DNA sequences amplified by us-ing 15 pairs of primers.Primers were also designed to amplify the 134 candidate SSR loci other than single nucleotide re-peats in KE113803.1 and to verify the polymorphism.A total of 56 male specific SSR loci of P.hodgsonii were screened and 5 SSR loci were found to be polymorphic.The 27 polymorphic Y-SNP loci and 5 polymorphic Y-SSR loci obtained in this study provide a good basis for further exploring the genetic diversity of Y chromosome and paternal inheritance of P.hodgsonii population.
NETL
NSTL
万方数据
维普
