Lentil is nutritionally important crop for human diet and enriched with quality protein, complex carbohydrates, fibers, essential minerals, and vitamins. However, genetic improvement of lentil is hampered largely due to unattributed and unexploited genetic and genomic resources. To administer genomic resources in lentil, we have identified 9949 EST-SSR loci from lentil RNA Seq data and validated 50 of them using 234 genotypes representing various Lens species and 34 accessions of 12 different legumes. Out of 50 EST-SSRs, 46 were polymorphic with polymorphic information content (PIC) ranging from 0.16–0.74. The transferability of these markers exhibited varied levels from 45.1 to 71.3% across the cultivated/wild species of lentil and from 10.8 to 54.3% across the twelve legume genera. On the basis of total identified EST-SSRs, mononucleotide (51%) repeat proportion was high followed by trinucleotide (30%) and dinucleotide (14%) repeat. Population structure and cluster analysis classified all the studied genotypes into 4 groups. However, principal coordinate analysis (PCA) was able to group genotypes based on their area of collection. Annotation of all the 46 polymorphic marker sequences revealed that most of the markers linked to genes involved in metabolism of plants. Further, polymorphic markers were also used for linkage mapping in F 3 population where 4 markers were found to be linked with a map distance of 72.5 cM. The newly developed markers represent an impressive tool for characterization of germplasm, genetic linkage mapping, phylogenetic studies, as well as to determine disparity in taxonomic status of subspecies of the genus Lens .

中文翻译：

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扁豆中新型 EST-SSR 标记的开发、表征和跨物种/属可转移性及其分子应用

扁豆是人类饮食中营养重要的作物，富含优质蛋白质、复合碳水化合物、纤维、必需矿物质和维生素。然而，小扁豆的遗传改良主要是由于未归属和未开发的遗传和基因组资源而受到阻碍。为了管理扁豆的基因组资源，我们从扁豆 RNA Seq 数据中鉴定了 9949 个 EST-SSR 基因座，并使用代表各种 Lens 物种的 234 种基因型和 12 种不同豆科植物的 34 种材料验证了其中的 50 个。在 50 个 EST-SSR 中，46 个是多态的，多态信息含量 (PIC) 的范围为 0.16-0.74。这些标记的可转移性在小扁豆的栽培/野生物种中表现出从 45.1% 到 71.3% 的不同水平，在十二个豆科植物中表现出从 10.8% 到 54.3% 不等。根据已识别的 EST-SSR 总数，单核苷酸（51%）重复比例高，其次是三核苷酸（30%）和二核苷酸（14%）重复。种群结构和聚类分析将所有研究的基因型分为 4 组。然而，主坐标分析 (PCA) 能够根据其收集区域对基因型进行分组。对所有 46 个多态性标记序列的注释表明，大多数标记与参与植物代谢的基因相关。此外，多态性标记也被用于F 3 群体中的连锁作图，其中发现4个标记以72.5 cM的图谱距离连锁。新开发的标记代表了一种令人印象深刻的工具，用于表征种质、遗传连锁作图、系统发育研究，以及确定 Lens 属亚种的分类地位差异。