Data from: Molecular resources from transcriptomes in the Brassicaceae family

The rapidly falling costs and the increasing availability of large DNA sequence data sets facilitate the fast and affordable mining of large molecular markers data sets for comprehensive evolutionary studies. The Brassicaceae (mustards) are an important species-rich family in the plant kingdom with taxa distributed worldwide and a complex evolutionary history. We performed Simple Sequence Repeats (SSRs) mining using de novo assembled transcriptomes from 19 species across the Brassicaceae in order to study SSR evolution and provide comprehensive sets of molecular markers for genetic studies within the family. Moreover, we selected the genus Cochlearia to test the transferability and polymorphism of these markers among species. Additionally, we annotated Cochlearia pyrenaica transcriptome in order to identify the position of each of the mined SSRs. While we introduce a new set of tools that will further enable evolutionary studies across the Brassicaceae, we also discuss some broader aspects of SSR evolution. Overall, we developed 2012 ready-to-use SSR markers with their respective primers in 19 Brassicaceae species and a high quality annotated transcriptome for C. pyrenaica. As indicated by our transferability test with the genus Cochlearia these SSRs are transferable to species within the genus increasing exponentially the number of targeted species. Also, our polymorphism results showed substantial levels of variability for these markers. Finally, despite its complex evolutionary history, SSR evolution across the Brassicaceae family is highly conserved and we found no deviation from patterns reported in other Angiosperms.

随着DNA测序成本的持续下降与大型DNA序列数据集的日益丰富，为快速且经济高效地挖掘大型分子标记数据集以开展全面进化研究提供了有力支撑。十字花科（Brassicaceae）是植物界中物种丰富的重要类群，其分类群遍布全球，进化历史复杂。本研究以十字花科19个物种的从头组装转录组为材料，开展简单序列重复（Simple Sequence Repeats，SSRs）挖掘工作，旨在探究SSRs的进化规律，并为该科内的遗传研究提供全面的分子标记集。此外，本研究选取岩荠属（Cochlearia），用以检验这些标记在物种间的可转移性与多态性。同时，我们对比利牛斯岩荠（C. pyrenaica）的转录组进行功能注释，以确定所有挖掘得到的SSRs的具体位置。本研究不仅开发了一套可进一步推动十字花科进化研究的全新工具集，还探讨了SSRs进化的若干更宏观的研究议题。综上，本研究在19个十字花科物种中开发了2012个可直接使用的SSR标记及其配套引物，并为比利牛斯岩荠构建了高质量的注释转录组。通过岩荠属内的可转移性验证实验结果可知，这些SSRs可在该属物种间实现跨物种转移，可使目标研究物种的数量呈指数级增长。同时，多态性分析结果表明，这些标记具有显著的变异水平。最后，尽管十字花科拥有复杂的进化历史，但其内的SSRs进化模式高度保守，未发现与其他被子植物（Angiosperms）已有报道的进化模式存在偏差的情况。