Key Laboratory of Resource Biology and Biotechnology in Western China (Ministry of Education), College of Life Sciences, Northwest University, Xi'an 710069, China.
Xi'an Botanical Garden of Shaanxi Province, Xi'an 710061, China.
Molecules. 2016 Feb 23;21(3):166. doi: 10.3390/molecules21030166.
Dipteronia Oliver (Aceraceae) is an endangered Chinese endemic genus consisting of two living species, Dipteronia sinensis and Dipteronia dyeriana. However, studies on the population genetics and evolutionary analyses of Dipteronia have been hindered by limited genomic resources and genetic markers. Here, the generation, de novo assembly and annotation of transcriptome datasets, and a large set of microsatellite or simple sequence repeat (SSR) markers derived from Dipteronia have been described. After Illumina pair-end sequencing, approximately 93.2 million reads were generated and assembled to yield a total of 99,358 unigenes. A majority of these unigenes (53%, 52,789) had at least one blast hit against the public protein databases. Further, 12,377 SSR loci were detected and 4179 primer pairs were designed for experimental validation. Of these 4179 primer pairs, 435 primer pairs were randomly selected to test polymorphism. Our results show that products from 132 primer pairs were polymorphic, in which 97 polymorphic SSR markers were further selected to analyze the genetic diversity of 10 natural populations of Dipteronia. The identification of SSR markers during our research will provide the much valuable data for population genetic analyses and evolutionary studies in Dipteronia.
双花木（槭树科）是一个濒危的中国特有属，由两个现存物种组成，即中华双花木和伯乐树。然而，由于基因组资源和遗传标记有限，对双花木的种群遗传学和进化分析研究受到了阻碍。本研究描述了双花木转录组数据集的生成、从头组装和注释，以及大量衍生自双花木的微卫星或简单重复序列（SSR）标记。通过 Illumina 双端测序，共产生了约 9320 万个reads，组装得到了总共 99358 条unigenes。这些 unigenes中的大多数（53%，52789 个）至少有一个与公共蛋白质数据库的比对命中。此外，还检测到了 12377 个 SSR 位点，并设计了 4179 对引物用于实验验证。在这 4179 对引物中，随机选择了 435 对引物进行多态性测试。结果表明，132 对引物的产物具有多态性，其中进一步选择了 97 个多态性 SSR 标记，用于分析 10 个双花木自然种群的遗传多样性。本研究中 SSR 标记的鉴定将为双花木的种群遗传分析和进化研究提供有价值的数据。
