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Application of EST-SSR markers developed from the transcriptome of Torreya grandis (Taxaceae) a threatened nut-yielding conifer tree

机译：EST-SSR标记的应用是从Torreya grandis（Taxaceae）的转录组中开发的该树是一种威胁坚果产量的针叶树

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摘要

Torreya grandis (Taxaceae) is an ancient conifer species endemic to southeast China. Because of its nutrient-rich and delicious seeds, this species has been utilized for centuries by the Chinese. However, transcriptome data and transcriptome-derived microsatellite markers for population genetics studies are still insufficient for understanding of this species’ genetic basis. In this study, a transcriptome from T. grandis leaves was generated using Illumina sequencing. A total of 69,920 unigenes were generated after de novo assembly, and annotated by searching against seven protein databases. In addition, 2,065 expressed sequence tag–simple sequence repeats (EST-SSRs) were detected, with the distribution frequency of 2.75% of total unigenes and average number of 0.03 SSRs per unigene. Among these EST-SSRs, 1,339 primer pairs were successfully designed, and 106 primer pairs were randomly selected for the development of potential molecular markers. Among them, 11 EST-SSR markers revealed a moderate level of genetic diversity, and were used to investigate the population structure of T. grandis. Two different genetic groups within this species were revealed using these EST-SSR markers, indicating that these markers developed in this study can be effectively applied to the population genetic analysis of T. grandis.
机译：香Torre（Taxaceae）是中国东南部特有的古老针叶树种。由于其营养丰富且美味的种子，该物种已被中国人利用了多个世纪。但是，用于种群遗传学研究的转录组数据和转录组衍生的微卫星标记仍然不足以了解该物种的遗传基础。在这项研究中，使用Illumina测序从大叶黄杨叶片产生了一个转录组。从头组装后，总共产生了69,920个单基因，并通过搜索七个蛋白质数据库进行注释。另外，检测到2065个表达的序列标签-简单序列重复（EST-SSR），分布频率为总单基因的2.75％，每个单基因的平均数量为0.03个SSR。在这些EST-SSR中，成功设计了1,339对引物，并随机选择了106对引物来开发潜在的分子标记。其中，有11个EST-SSR标记揭示了中等水平的遗传多样性，并被用于调查巨圆T的种群结构。使用这些EST-SSR标记揭示了该物种内的两个不同的遗传群体，这表明在这项研究中开发的这些标记可以有效地应用于巨T的种群遗传分析。

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