Biogeography revealed by Mariner-like transposable element sequences via a Bayesian coalescent approach
Biogeography revealed by Mariner-like transposable element sequences via a Bayesian coalescent approach
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通过贝叶斯合并方法通过类水手转座元件序列揭示生物地理学
DOI：
10.1007/s00239-013-9581-0
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发表时间：
2013
影响因子：
3.9
通讯作者：
Shigeki Nakagome
中科院分区：
文献类型：
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作者：
T. Asano;M. Taoka;T. Shinkawa;Y. Yamauchi;T. Isobe T. and D. Satoh;Tsunaki Asano;朝野 維起;Shigeki Nakagome
自然居群的遗传多样性在地理学研究中是有用的。在这里，我们应用贝叶斯方法的结合模型的基础上，通过使用已发表的DNA序列的野蚕，家蚕，和驯化的模式生物。中国、朝鲜和日本的桑属昆虫均为鳞翅目昆虫。序列由BmTNML位点和侧翼基因间区组成。BmTNML基因座由末端反向重复的盲肠型马利纳样元件（MLE）组成，MLE中插入了L1 BM、BMC 1和BmamaT 1三个不同的转座元件（TE）。基于由TE插入/缺失（indels）定义的系谱，我们分别使用侧翼序列、MLE序列和indels序列估计到最近的共同祖先和这些indels事件的时间。这些估计通过使用MLE序列强烈相关的那些通过使用侧翼序列，这意味着盲肠型MLE可以被用作一个分子时钟。MLE被认为在不同物种之间水平传播。通过使用一对已发表的鳞翅目昆虫，帝蛾，和珊瑚在琉球群岛的cecropia型MLE序列，我们证明了约会的水平传输之间的物种是远亲，但居住在地理上接近的区域。
Genetic diversity of natural populations is useful in biogeographical studies. Here, we apply a Bayesian method based on the coalescent model to dating biogeographical events by using published DNA sequences of wild silkworms,Bombyx mandarina, and the domesticated model organismsB. mori, both of which categorized into the order ofLepidoptera, sampled from China, Korea, and Japan. The sequences consist of theBmTNMLlocus and the flanking intergenic regions. TheBmTNMLlocus is composed of cecropia-typemariner-like element (MLE) with inverted terminal repeats, and three different transposable elements (TE), includingL1BM,BMC1retrotransposons, andBmamaT1, are inserted into the MLE. Based on the genealogy defined by TE insertions/deletions (indels), we estimated times to the most recent common ancestor and these indels events using the flanking, MLE, and indels sequences, respectively. These estimates by using MLE sequences strongly correlated with those by using flanking sequences, implying that cecropia-type MLEs can be used as a molecular clock. MLEs are thought to have transmitted horizontally among different species. By using a pair of published cecropia-type MLE sequences from lepidopteran insect, an emperor moth, and a coral in Ryukyu Islands, we demonstrated dating of horizontal transmission between species which are distantly related but inhabiting geographically close region.