Complete chloroplast and ribosomal sequences for 30 accessions elucidate evolution of Oryza AA genome species.
Complete chloroplast and ribosomal sequences for 30 accessions elucidate evolution of Oryza AA genome species.
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DOI：
10.1038/srep15655
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发表时间：
2015-10-28
影响因子：
4.6
通讯作者：
Yang TJ
中科院分区：
文献类型：
--
作者：
Kim K;Lee SC;Lee J;Yu Y;Yang K;Choi BS;Koh HJ;Waminal NE;Choi HI;Kim NH;Jang W;Park HS;Lee J;Lee HO;Joh HJ;Lee HJ;Park JY;Perumal S;Jayakodi M;Lee YS;Kim B;Copetti D;Kim S;Kim S;Lim KB;Kim YD;Lee J;Cho KS;Park BS;Wing RA;Yang TJ
细胞质叶绿体（cp）基因组和核核糖体DNA（nR）是用于了解植物多样性和进化的主要序列。我们介绍了一种高通量的方法，使用Illumina平台全基因组序列同时获得完整的cp和nR序列。我们应用该方法，30个水稻标本属于9个稻属种。利用CP和nR对同一个稻属AA基因组物种的几个标本进行同步PCR基因组分析，可以深入了解栽培稻的进化和驯化，澄清野生稻物种进化中三个模糊但重要的问题。首先，基于cp的树清楚地分类每个谱系，但可能会受到物种形成过程中亚种间交叉杂交事件的影响。其次，O. glumaepatula是一种南美野生稻，包括两种细胞质类型，其中一种是最近与O. longistminata第三，澳大利亚的O. rufipogan型水稻是O.菜
Cytoplasmic chloroplast (cp) genomes and nuclear ribosomal DNA (nR) are the primary sequences used to understand plant diversity and evolution. We introduce a high-throughput method to simultaneously obtain complete cp and nR sequences using Illumina platform whole-genome sequence. We applied the method to 30 rice specimens belonging to nine Oryza species. Concurrent phylogenomic analysis using cp and nR of several of specimens of the same Oryza AA genome species provides insight into the evolution and domestication of cultivated rice, clarifying three ambiguous but important issues in the evolution of wild Oryza species. First, cp-based trees clearly classify each lineage but can be biased by inter-subspecies cross-hybridization events during speciation. Second, O. glumaepatula, a South American wild rice, includes two cytoplasm types, one of which is derived from a recent interspecies hybridization with O. longistminata. Third, the Australian O. rufipogan-type rice is a perennial form of O. meridionalis.