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Plastome evolution and phylogeny of subtribe Aeridinae (Vandeae, Orchidaceae).
Molecular Phylogenetics and Evolution ( IF 3.6 ) Pub Date : 2019-12-21 , DOI: 10.1016/j.ympev.2019.106721 Young-Kee Kim 1 , Sangjin Jo 1 , Se-Hwan Cheon 1 , Myounghai Kwak 2 , Young-Dong Kim 3 , Ki-Joong Kim 1
Molecular Phylogenetics and Evolution ( IF 3.6 ) Pub Date : 2019-12-21 , DOI: 10.1016/j.ympev.2019.106721 Young-Kee Kim 1 , Sangjin Jo 1 , Se-Hwan Cheon 1 , Myounghai Kwak 2 , Young-Dong Kim 3 , Ki-Joong Kim 1
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Subtribe Aeridinae (Vandeae, Epidendroideae, Orchidaceae) consists of 83 genera and 2,345 species. The present study completely decoded the plastomes and nuclear ribosomal (nr) RNA gene clusters of seven species of Aeridinae belonging to Gastrochilus, Neofinetia, Pelatantheria, and Thrixspermum and compared them with existing data to investigate their genome evolution and phylogeny. Although no large structural variations were observed among the Aeridinae plastomes, 14 small inversions (SI) were found in Orchidaceae for the first time. Therefore, the evolutionary trends and usefulness of SI as molecular identification markers were evaluated. Since all 11 ndh genes in the Aeridinae plastome were lost or pseudogenized, the evolutionary trends of ndh genes are discussed at the tribe and family levels. In the maximum likelihood tree reconstructed from 83 plastome genes, the five Orchidaceae subfamilies were shown to have diverged in the following order: Apostasioideae, Vanilloideae, Cypripedioideae, Orchioideae, Epidendroideaeae. Divergence times for major lineages were found to be more recent, 5-10 Mya, than previous studies, which only used two or three genes. Vandeae, which includes Aeridinae, formed a sister group with Cymbidieae and Epidendreae. The Vandeae, Cymbidieae, and Epidendreae lineages were inferred to have diverged at 25.31 Mya; thus, numerous speciation events within Aeridineae occurred since then. Furthermore, the present study reconstructed a phylogenetic tree from 422 nrITS sequences belonging to Aerdinae and allied taxa and uses it to discuss the phylogenetic positions and species identities of five endangered species.
中文翻译：
伞形亚科（Vandeae，兰科）的塑料质进化和系统发育。
伞形亚科（范迪亚，上皮科，兰科）由83属2345种组成。本研究完全解码了天麻属，新细亚目，百日草属和Thrixspermum的7种伞形科的质体和核糖体（nr）RNA基因簇，并将它们与现有数据进行了比较，以研究它们的基因组进化和系统发育。尽管在Aeridinae质膜组中未观察到较大的结构变异，但首次在兰花科中发现了14个小倒位（SI）。因此，评价了SI作为分子识别标记的进化趋势和实用性。由于Aeridinae质体组中的所有11个ndh基因都丢失或被假原代化，因此在部落和家族层面讨论了ndh基因的进化趋势。在从83个质体组基因重建的最大似然树中，兰科的五个亚科显示出以下顺序分化：刺科，香草科，Cy科，兰科，上皮科。与以前的仅使用两个或三个基因的研究相比，发现主要谱系的发散时间是最近的5-10 Mya。包括Aeridinae在内的Vandeae与Cymbidieae和Epidendreae组成了姐妹团体。Vandeae，Cymbidieae和Epidendreae谱系被推定为在25.31 Mya处发散。因此，自那时以来，在大风科内部发生了许多物种形成事件。此外，本研究从422个nerITS序列中重建了一个属于Aerdinae和相关类群的系统树，并用它来讨论5个濒危物种的系统发育位置和物种身份。
更新日期：2019-12-21
中文翻译：
伞形亚科（Vandeae，兰科）的塑料质进化和系统发育。
伞形亚科（范迪亚，上皮科，兰科）由83属2345种组成。本研究完全解码了天麻属，新细亚目，百日草属和Thrixspermum的7种伞形科的质体和核糖体（nr）RNA基因簇，并将它们与现有数据进行了比较，以研究它们的基因组进化和系统发育。尽管在Aeridinae质膜组中未观察到较大的结构变异，但首次在兰花科中发现了14个小倒位（SI）。因此，评价了SI作为分子识别标记的进化趋势和实用性。由于Aeridinae质体组中的所有11个ndh基因都丢失或被假原代化，因此在部落和家族层面讨论了ndh基因的进化趋势。在从83个质体组基因重建的最大似然树中，兰科的五个亚科显示出以下顺序分化：刺科，香草科，Cy科，兰科，上皮科。与以前的仅使用两个或三个基因的研究相比，发现主要谱系的发散时间是最近的5-10 Mya。包括Aeridinae在内的Vandeae与Cymbidieae和Epidendreae组成了姐妹团体。Vandeae，Cymbidieae和Epidendreae谱系被推定为在25.31 Mya处发散。因此，自那时以来，在大风科内部发生了许多物种形成事件。此外，本研究从422个nerITS序列中重建了一个属于Aerdinae和相关类群的系统树，并用它来讨论5个濒危物种的系统发育位置和物种身份。
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