Comparative Analysis of Chloroplast Genome in Saccharum spp. and Related Members of 'Saccharum Complex'

文献类型： 外文期刊

第一作者： Li, Sicheng

作者： Li, Sicheng;Zhao, Jihan;Feng, Mengfan;Kuang, Bowen;Wei, Ni;Chen, Baoshan;Yang, Xiping;Li, Sicheng;Zhao, Jihan;Feng, Mengfan;Kuang, Bowen;Wei, Ni;Chen, Baoshan;Yang, Xiping;Duan, Weixing;Jing, Yanfen

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关键词： sugarcane; phylogenomics; InDel marker; dCAPS marker

期刊名称：INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES （ 影响因子：6.208； 五年影响因子：6.628 ）

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年卷期： 2022 年 23 卷 14 期

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收录情况： SCI

摘要： High ploids of the sugarcane nuclear genome limit its genomic studies, whereas its chloroplast genome is small and conserved, which is suitable for phylogenetic studies and molecular marker development. Here, we applied whole genome sequencing technology to sequence and assemble chloroplast genomes of eight species of the 'Saccharum Complex', and elucidated their sequence variations. In total, 19 accessions were sequenced, and 23 chloroplast genomes were assembled, including 6 species of Saccharum (among them, S. robustum, S. sinense, and S. barberi firstly reported in this study) and 2 sugarcane relative species, Tripidium arundinaceum and Narenga porphyrocoma. The plastid phylogenetic signal demonstrated that S. officinarum and S. robustum shared a common ancestor, and that the cytoplasmic origins of S. sinense and S. barberi were much more ancient than the S. offcinarum/S. robustum linage. Overall, 14 markers were developed, including 9 InDel markers for distinguishing Saccharum from its relative species, 4 dCAPS markers for distinguishing S. officinarum from S. robustum, and 1 dCAPS marker for distinguishing S. sinense and S. barberi from other species. The results obtained from our studies will contribute to the understanding of the classification and plastome evolution of Saccharinae, and the molecular markers developed have demonstrated their highly discriminatory power in Saccharum and relative species.

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