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    基于全基因组测序构建水稻RIL群体遗传图谱

    Construction of a genetic map of rice RILs based on whole genome sequencing

      摘要
    • 摘要:
      目的  以籼稻品种‘MDS’和‘R315’为亲本，构建一张高密度的遗传图谱，挖掘水稻Oryza sativa L.重要农艺性状相关基因并加快水稻品种选育。
      方法  对两亲本及其192个重组自交系(RILs)群体进行全基因组测序，筛选高质量单核苷酸多态性(SNPs)，划分bin标记，针对每个连锁群使用JoinMap4.0对bin标记进行排序，用perl SVG模块绘制连锁图，并对标记在基因组和遗传图谱上的位置进行共线性分析。
      结果  两亲本间共筛选出221 494个高质量SNPs，构建了一张高密度遗传图谱，包含1 612个bin标记，总图距为1 327.82 cM，相邻标记间平均遗传图距为0.82 cM。共线性分析显示各连锁群上的大部分标记顺序与基因组保持一致，共线性较好，图谱质量高。
      结论  本研究构建的高密度遗传图谱质量较高，为后续功能基因的鉴定提供了基础。

       

      Abstract:
      Objective  The indica cultivar ‘MDS’ and ‘R315’ were used as parents to construct a high-density genetic map, explore the important agronomic traits related genes of rice (Oryza sativa L.) and accelerate the breeding of rice cultivars.
      Method  Whole genome sequencing of parents and their 192 recombinant inbred lines (RILs ) were performed to screen high-quality single nucleotide polymorphisms (SNPs) and construct bin markers. The bin markers were sorted using JoinMap4.0 for each linkage group, and perl SVG was used to draw the linkage map. Collinearity analysis was conducted according to the position of the markers on the genome and genetic map.
      Result  A total of 221 494 high-quality SNPs were screened between the two parents. The constructed high-density genetic map contained 1 612 bin markers. The total map distance was 1 327.82 cM, and the average genetic map distance between adjacent markers was 0.82 cM. The collinearity analysis showed that the order of most markers on each linkage group was consistent with that on the genome. The collinearity was good and the map was of high quality.
      Conclusion  The constructed high-density genetic map is of high quality, providing a preliminary basis for the subsequent identification of functional genes.

       

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