The Capparis spinosa var. herbacea genome provides the first genomic instrument for a diversity and evolution study of the Capparaceae family

文献类型： 外文期刊

第一作者： Wang, Lei

作者： Wang, Lei;Zhao, Zhenyong;Jiang, Li;Tian, Changyan;Wang, Lei;Zhao, Zhenyong;Jiang, Li;Tian, Changyan;Fan, Liqiang;Zhang, Zhibin;Chai, Mao;Fan, Liqiang;Zhang, Zhibin;Chai, Mao

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关键词： Capparis spinosa var. herbacea; genome assembly; population evolution

期刊名称：GIGASCIENCE （ 影响因子：9.2； 五年影响因子：9.3 ）

ISSN： 2047-217X

年卷期： 2022 年 11 卷

页码：

收录情况： SCI

摘要： Background: The caper bush Capparis spinosa L., one of the most economically important species of Capparaceae, is a xerophytic shrub that is well adapted to drought and harsh environments. However, genetic studies on this species are limited because of the lack of its reference genome. Findings: We sequenced and assembled the Capparis spinosa var. herbacea (Willd.) genome using data obtained from the combination of PacBio circular consensus sequencing and high-throughput chromosome conformation capture. The final genome assembly was approximately 274.53 Mb (contig N50 length of 9.36 Mb, scaffold N50 of 15.15 Mb), 99.23% of which was assigned to 21 chromosomes. In the whole-genome sequence, tandem repeats accounted for 19.28%, and transposable element sequences accounted for 43.98%. The proportion of tandem repeats in the C. spinosa var. herbacea genome was much higher than the average of 8.55% in plant genomes. A total of 21,577 protein-coding genes were predicted, with 98.82% being functionally annotated. The result of species divergence times showed that C. spinosa var. herbacea and Tarenaya hassleriana separated from a common ancestor 43.31 million years ago. Conclusions: This study reported a high-quality reference genome assembly and genome features for the Capparaceae family. The assembled C. spinosa var. herbacea genome might provide a system for studying the diversity, speciation, and evolution of this family and serve as an important resource for understanding the mechanism of drought and high-temperature resistance.

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