Comparative Analysis of Chloroplast Genome in Saccharum spp. and Related Members of 'Saccharum Complex'.
Comparative Analysis of Chloroplast Genome in Saccharum spp. and Related Members of 'Saccharum Complex'.
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几种植物叶绿体基因组的比较分析。和“复合体”的相关成员。
DOI：
10.3390/ijms23147661
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发表时间：
2022-07-11
影响因子：
5.6
通讯作者：
中科院分区：
文献类型：
--
作者：
甘蔗核基因组的高倍性限制了其基因组研究，而其叶绿体基因组较小且保守，适合系统发育研究和分子标记开发。本研究应用全基因组测序技术对八种“紫菀复合体”叶绿体基因组进行了测序和组装，并阐明了它们的序列变异。对19份材料进行了序列测定，共组装了23个叶绿体基因组，包括6种植物（其中，S. robustum，S. sinense和S. barberi）和近缘种斑茅Tripidium arundinaceum和紫果楠Narenga porphyrocoma。质体系统发育信号表明S. officinarum和S. robustum具有共同的祖先，S. sinense和S. barberi比S. Offcinarum/S.粗壮藤。共开发了14个分子标记，其中9个用于区分黄毛菊及其近缘种的InDel标记，4个用于区分黄毛菊的dCAPS标记。officinarum，S. robustum和1个区分S. sinense和S.其他物种的巴伯里。本研究的结果将有助于对该亚科的分类和质体组进化的理解，所开发的分子标记在该属及其近缘种中表现出高度的区分能力。
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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影响因子：
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通讯作者：
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通讯作者：
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