College of Horticulture, Shenyang Agricultural University, Shenyang, 110866, People's Republic of China.
Ministry of Education Key Laboratory of Protected Horticulture, Shenyang, 110866, People's Republic of China.
BMC Plant Biol. 2018 Dec 12;18(1):347. doi: 10.1186/s12870-018-1575-z.
High-saturate molecular linkage maps are an important tool in studies on plant molecular biology and assisted breeding. Development of a large set of single nucleotide polymorphisms (SNPs) via next-generation sequencing (NGS)-based methods, restriction-site associated DNA sequencing (RAD-seq), and the generation of a highly saturated genetic map help improve fine mapping of quantitative trait loci (QTL).
We generated a highly saturated genetic map to identify significant traits in two elite grape cultivars and 176 F plants. In total, 1,426,967 high-quality restriction site-associated DNA tags were detected; 51,365, 23,683, and 70,061 markers were assessed in 19 linkage groups (LGs) for the maternal, paternal, and integrated maps, respectively. Our map was highly saturated in terms of marker density and average "Gap ≤ 5 cM" percentage.
In this study, RAD-seq of 176 F plants and their parents yielded 8,481,484 SNPs and 1,646,131 InDel markers, of which 65,229 and 4832, respectively, were used to construct a highly saturated genetic map for grapevine. This map is expected to facilitate genetic studies on grapevine, including an evaluation of grapevine and deciphering the genetic basis of economically and agronomically important traits. Our findings provide basic essential genetic data the grapevine genetic research community, which will lead to improvements in grapevine breeding.
高饱和度分子连锁图谱是植物分子生物学和辅助育种研究的重要工具。通过基于下一代测序（NGS）的方法、限制性位点相关 DNA 测序（RAD-seq）以及高度饱和遗传图谱的生成，开发大量单核苷酸多态性（SNP）有助于提高数量性状位点（QTL）的精细定位。
我们生成了一个高度饱和的遗传图谱，以鉴定两个优良葡萄品种和 176 个 F1 代植株的显著性状。总共检测到 1426967 个高质量的限制位点相关 DNA 标签；在 19 个连锁群（LG）中，分别评估了 51365、23683 和 70061 个标记用于母本、父本和综合图谱。我们的图谱在标记密度和平均“Gap≤5cM”百分比方面高度饱和。
本研究通过对 176 个 F1 代及其亲本进行 RAD-seq，得到了 8481484 个 SNPs 和 1646131 个 InDel 标记，其中分别有 65229 和 4832 个用于构建葡萄的高度饱和遗传图谱。该图谱有望促进葡萄的遗传研究，包括对葡萄的评估和解析经济和农艺重要性状的遗传基础。我们的研究结果为葡萄遗传研究社区提供了基本的遗传数据，这将有助于葡萄的改良育种。
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