Tracking the origin of two genetic components associated with transposable element bursts in domesticated rice
Tracking the origin of two genetic components associated with transposable element bursts in domesticated rice
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DOI：
10.1038/s41467-019-08451-3
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发表时间：
2019-02-07
影响因子：
16.6
通讯作者：
Wessler, Susan R.
中科院分区：
文献类型：
--
作者：
Chen, Jinfeng;Lu, Lu;Wessler, Susan R.
转座因子（TE）通过周期性的爆发式扩增来塑造基因组进化。在这项研究中，利用mPing/Ping/Pong TE家族的先验知识来跟踪它们在3,000份驯化水稻（水稻）和野生祖先普通野生稻（Oryza rufipogon）的基因组序列中的拷贝数和分布。我们发现，mPing爆发仅限于最近的驯化，可能是由于积累的两个TE组件，Ping 16 A和Ping16A_Stow，这似乎是至关重要的mPing活动过度。Ping 16 A是自主元件的变体，其活性降低，如酵母转座测定中所示。转座Ping 16 A到偷渡者元件产生Ping16A_Stow，唯一的平基因座共享的所有爆裂加入，并在这里显示与高mPing拷贝。最后，我们表明，持续活动的mPing/Ping家庭在驯化水稻产生必要的组件mPing突发，而不是损失的表观遗传调控。
Transposable elements (TEs) shape genome evolution through periodic bursts of amplification. In this study prior knowledge of the mPing/Ping/Pong TE family is exploited to track their copy numbers and distribution in genome sequences from 3,000 accessions of domesticated Oryza sativa (rice) and the wild progenitor Oryza rufipogon. We find that mPing bursts are restricted to recent domestication and is likely due to the accumulation of two TE components, Ping16A and Ping16A_Stow, that appear to be critical for mPing hyperactivity. Ping16A is a variant of the autonomous element with reduced activity as shown in a yeast transposition assay. Transposition of Ping16A into a Stowaway element generated Ping16A_Stow, the only Ping locus shared by all bursting accessions, and shown here to correlate with high mPing copies. Finally, we show that sustained activity of the mPing/Ping family in domesticated rice produced the components necessary for mPing bursts, not the loss of epigenetic regulation.