Comparative Mitogenome Analysis of the Genus Trifolium Reveals Independent Gene Fission of ccmFn and Intracellular Gene Transfers in Fabaceae
Comparative Mitogenome Analysis of the Genus Trifolium Reveals Independent Gene Fission of ccmFn and Intracellular Gene Transfers in Fabaceae
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DOI：
10.3390/ijms21061959
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发表时间：
2020-03-01
影响因子：
5.6
通讯作者：
Jansen, Robert K.
中科院分区：
文献类型：
--
作者：
Choi, In-Su;Ruhlman, Tracey A.;Jansen, Robert K.
三叶草属是蝶形花亚科（豆科）三叶草族中最大的一个。线粒体基因组（线粒体基因组）序列的缺乏阻碍了植物细胞三个基因组区室（细胞核、线粒体和质体）之间的比较分析。我们从该属的两个亚属（Chronosemium 和 Trifolium）组装了四个有丝分裂基因组。四个三叶草有丝分裂基因组结构紧凑（长度为 294,911-348,724 bp）并包含有限的重复（6.6-8.6%）DNA。细胞器重复内容的比较突出了三叶属物种子集中质体基因组的独特进化轨迹。对三个基因组室之间的细胞内基因转移 (IGT) 进行分析，揭示线粒体 rps1 到核基因组的功能转移以及其他 IGT 事件。基于线粒体和核 rps1 序列的系统发育分析表明，三叶草科的功能转移独立于包括莲花属在内的知更鸟进化枝中发生的事件。鉴定出车轴草中 ccmFn 的一个新的、独立的裂变事件，该裂变事件是由 59 bp 缺失引起的。重新评估了先前在陆地植物中报道的该基因的裂变，并与三叶草进行了比较。
The genus Trifolium is the largest of the tribe Trifolieae in the subfamily Papilionoideae (Fabaceae). The paucity of mitochondrial genome (mitogenome) sequences has hindered comparative analyses among the three genomic compartments of the plant cell (nucleus, mitochondrion and plastid). We assembled four mitogenomes from the two subgenera (Chronosemium and Trifolium) of the genus. The four Trifolium mitogenomes were compact (294,911-348,724 bp in length) and contained limited repetitive (6.6-8.6%) DNA. Comparison of organelle repeat content highlighted the distinct evolutionary trajectory of plastid genomes in a subset of Trifolium species. Intracellular gene transfer (IGT) was analyzed among the three genomic compartments revealing functional transfer of mitochondrial rps1 to nuclear genome along with other IGT events. Phylogenetic analysis based on mitochondrial and nuclear rps1 sequences revealed that the functional transfer in Trifolieae was independent from the event that occurred in robinioid clade that includes genus Lotus. A novel, independent fission event of ccmFn in Trifolium was identified, caused by a 59 bp deletion. Fissions of this gene reported previously in land plants were reassessed and compared with Trifolium.