作物学报 ›› 2018, Vol. 44 ›› Issue (11): 1631-1639.doi: 10.3724/SP.J.1006.2018.01631
Guo-Zhong ZHU,Fang ZHANG,Jie FU,Le-Chen LI,Er-Li NIU,Wang-Zhen GUO()
摘要:
利用全基因组SNP信息, 筛选陆地棉品种特异的核心SNP位点组合, 可为陆地棉品种身份鉴定提供准确高效的检测手段。本研究利用棉花CottonSNP80K芯片对326份不同来源的陆地棉种质进行SNP分型。以南京农业大学陆地棉TM-1基因组Gossypium hirsutum (AD1) genome NBI v1.1版本为参考序列, 对SNP位点进行注释。结果表明, 93.85% (72 990/77 774)的位点检出率超过99%, 61 595 (79.20%)个SNP位点具有多态性, 其中76.32% (47 009)的位点最小等位基因频率(MAF)大于0.1。基于位点检出率大于0.99、位点具多态性、MAF大于0.2、杂合率小于0.05、每条染色体的SNP密度为400 kb/SNP左右等要求, 最终获得4857个覆盖全基因组的高质量核心SNP位点组合。这些核心SNP位点组合平均检出率接近100%; 平均MAF值为0.34; 平均杂合率为0.02; 99%以上的陆地棉材料均能够被准确鉴定。统计分析表明利用核心SNP位点组合与CottonSNP80K的鉴定结果呈极显著相关。本研究提供了包含4857个SNP位点, 适于陆地棉品种指纹图谱绘制的核心SNP位点组合, 可实现陆地棉品种身份鉴定和品种确权。
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