Zhao Xiao, Qiu Qiguan, Li Chang, Fu Dongke, Hu Xuesong, Gao Shengjie, Zhu Yugang, Mu Haofang, Wang Runping, Yang Huanming, Li Bo
BGI Education Center, University of Chinese Academy of Sciences, Shenzhen, China.
Forensic Genomics International (FGI), BGI-Shenzhen, Shenzhen, China.
PeerJ. 2020 May 6;8:e8939. doi: 10.7717/peerj.8939. eCollection 2020.
As one of the most endangered species, tiger () inbreeding has become an urgent issue to address. Using a microsatellite (short tandem repeat, STR) identification system, paternity testing may be helpful to avoid inbreeding in captive breeding programs. In this study, we developed a genome-based identification system named tiger pedigree identification multiplex system (TPI-plex). By analyzing the entire tiger genome, 139,967 STR loci were identified and 12.76% of these displayed three to six alleles among three re-sequenced individual tiger genomes. A total of 204 candidate STRs were identified and screened with a reference population containing 31 unrelated captive tigers. Of these, 15 loci were chosen for inclusion in the multiplex panel. The mean allele number and mean expected heterozygosity (He) were 7.3333 and 0.7789, respectively. The cumulative probability of exclusion (CPE) and total probability of discrimination power (TDP) reached 0.999999472 and 0.999999999999995, respectively. The results showed that the TPI-plex system can be applied in routine pedigree identification for captive tigers. We also added a sex identification marker named TAMEL into the TPI-plex for sex determination.
作为最濒危的物种之一，老虎的近亲繁殖已成为一个亟待解决的问题。利用微卫星（短串联重复序列，STR）鉴定系统，亲子鉴定可能有助于避免圈养繁殖项目中的近亲繁殖。在本研究中，我们开发了一种基于基因组的鉴定系统，名为老虎谱系鉴定多重系统（TPI-plex）。通过分析整个老虎基因组，共鉴定出139,967个STR位点，在三个重新测序的老虎个体基因组中，其中12.76%的位点显示出三到六个等位基因。总共鉴定出204个候选STR，并在包含31只无亲缘关系的圈养老虎的参考群体中进行筛选。其中，15个位点被选入多重检测面板。平均等位基因数和平均期望杂合度（He）分别为7.3333和0.7789。排除累积概率（CPE）和鉴别力总概率（TDP）分别达到0.999999472和0.999999999999995。结果表明，TPI-plex系统可应用于圈养老虎的常规谱系鉴定。我们还在TPI-plex中添加了一个名为TAMEL的性别鉴定标记用于性别确定。
