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Evolutionary Dynamics of Transferred Sequences Between Organellar Genomes in Cucurbita.
Journal of Molecular Evolution ( IF 3.9 ) Pub Date : 2019-11-07 , DOI: 10.1007/s00239-019-09916-1
Xitlali Aguirre-Dugua 1 , Gabriela Castellanos-Morales 2 , Leslie M Paredes-Torres 3 , Helena S Hernández-Rosales 3 , Josué Barrera-Redondo 3 , Guillermo Sánchez-de la Vega 3 , Fernando Tapia-Aguirre 3 , Karen Y Ruiz-Mondragón 3 , Enrique Scheinvar 3 , Paulina Hernández 3 , Erika Aguirre-Planter 3 , Salvador Montes-Hernández 4 , Rafael Lira-Saade 1 , Luis E Eguiarte 3
Affiliation  

Twenty-nine DNA regions of plastid origin have been previously identified in the mitochondrial genome of Cucurbita pepo (pumpkin; Cucurbitaceae). Four of these regions harbor homolog sequences of rbcL, matK, rpl20-rps12 and trnL-trnF, which are widely used as molecular markers for phylogenetic and phylogeographic studies. We extracted the mitochondrial copies of these regions based on the mitochondrial genome of C. pepo and, along with published sequences for these plastome markers from 13 Cucurbita taxa, we performed phylogenetic molecular analyses to identify inter-organellar transfer events in the Cucurbita phylogeny and changes in their nucleotide substitution rates. Phylogenetic reconstruction and tree selection tests suggest that rpl20 and rbcL mitochondrial paralogs arose before Cucurbita diversification whereas the mitochondrial matK and trnL-trnF paralogs emerged most probably later, in the mesophytic Cucurbita clade. Nucleotide substitution rates increased one order of magnitude in all the mitochondrial paralogs compared to their original plastid sequences. Additionally, mitochondrial trnL-trnF sequences obtained by PCR from nine Cucurbita taxa revealed higher nucleotide diversity in the mitochondrial than in the plastid copies, likely related to the higher nucleotide substitution rates in the mitochondrial region and loss of functional constraints in its tRNA genes.

中文翻译:

南瓜中的细胞器基因组之间转移序列的进化动力学。

先前已在南瓜属(南瓜)(南瓜属;葫芦科)的线粒体基因组中鉴定出了质体来源的29个DNA区域。这些区域中的四个具有rbcL,matK,rpl20-rps12和trnL-trnF的同源序列,它们被广泛用作系统发育和系统地理学研究的分子标记。我们基于C. pepo的线粒体基因组提取了这些区域的线粒体拷贝,并与来自13个南瓜类群的这些质体标记的公开序列一起,进行了系统发育分子分析,以鉴定南瓜形系统发育中的器官间转移事件和变化。他们的核苷酸取代率。系统发育重建和树选择测试表明,rpl20和rbcL线粒体旁系同源物出现在南瓜属多样化之前,而线粒体matK和trnL-trnF旁系同源物最有可能出现在中后期葫芦属进化枝中。与原始质体序列相比,在所有线粒体旁系同源物中,核苷酸取代率提高了一个数量级。另外,通过PCR从九个南瓜类群中获得的线粒体trnL-trnF序列显示,线粒体中的核苷酸多样性高于质体拷贝中的核苷酸多样性,这可能与线粒体区域中较高的核苷酸取代率以及其tRNA基因的功能限制丧失有关。与原始质体序列相比,在所有线粒体旁系同源物中,核苷酸取代率提高了一个数量级。另外,通过PCR从九个南瓜类群中获得的线粒体trnL-trnF序列显示,线粒体中的核苷酸多样性高于质体拷贝中的核苷酸多样性,这可能与线粒体区域中较高的核苷酸取代率以及其tRNA基因的功能限制丧失有关。与原始质体序列相比,在所有线粒体旁系同源物中,核苷酸取代率提高了一个数量级。另外,通过PCR从九个南瓜类群中获得的线粒体trnL-trnF序列显示,线粒体中的核苷酸多样性高于质体拷贝中的核苷酸多样性,这可能与线粒体区域中较高的核苷酸取代率以及其tRNA基因的功能限制丧失有关。
更新日期:2019-11-01
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