当前位置: X-MOL 学术Proc. Natl. Acad. Sci. U.S.A. › 论文详情
Our official English website, www.x-mol.net, welcomes your feedback! (Note: you will need to create a separate account there.)
Genomic diversity generated by a transposable element burst in a rice recombinant inbred population [Genetics]
Proceedings of the National Academy of Sciences of the United States of America ( IF 11.1 ) Pub Date : 2020-10-20 , DOI: 10.1073/pnas.2015736117
Jinfeng Chen 1, 2 , Lu Lu 1 , Sofia M. C. Robb 1, 2 , Matthew Collin 1, 3 , Yutaka Okumoto 4 , Jason E. Stajich 2, 3 , Susan R. Wessler 1, 3
Affiliation  

Genomes of all characterized higher eukaryotes harbor examples of transposable element (TE) bursts—the rapid amplification of TE copies throughout a genome. Despite their prevalence, understanding how bursts diversify genomes requires the characterization of actively transposing TEs before insertion sites and structural rearrangements have been obscured by selection acting over evolutionary time. In this study, rice recombinant inbred lines (RILs), generated by crossing a bursting accession and the reference Nipponbare accession, were exploited to characterize the spread of the very active Ping/mPing family through a small population and the resulting impact on genome diversity. Comparative sequence analysis of 272 individuals led to the identification of over 14,000 new insertions of the mPing miniature inverted-repeat transposable element (MITE), with no evidence for silencing of the transposase-encoding Ping element. In addition to new insertions, Ping-encoded transposase was found to preferentially catalyze the excision of mPing loci tightly linked to a second mPing insertion. Similarly, structural variations, including deletion of rice exons or regulatory regions, were enriched for those with break points at one or both ends of linked mPing elements. Taken together, these results indicate that structural variations are generated during a TE burst as transposase catalyzes both the high copy numbers needed to distribute linked elements throughout the genome and the DNA cuts at the TE ends known to dramatically increase the frequency of recombination.



中文翻译:

水稻重组自交系中转座子爆发产生的基因组多样性[遗传]

所有特征化的高等真核生物的基因组都包含转座因子(TE)爆发的例子-TE拷贝在整个基因组中的快速扩增。尽管它们很盛行,但要了解猝发如何使基因组多样化,还需要表征在插入位点和结构重排因在进化时间内起作用而掩盖住之前,主动转移TEs的特征。在这项研究中,水稻杂交近交系(RILs)是通过杂交一个爆破品系和参考日本晴系(Nipponbare)品系而产生的,用于表征非常活跃的Ping / mPing的传播。家庭通过少数人口及其对基因组多样性的影响。对272个个体进行的比较序列分析导致鉴定出mPing微型反向重复转座因子(MITE)的14,000多个新插入,没有证据表明转座酶编码Ping元件的沉默。除了新的插入,还发现Ping编码的转座酶优先催化与第二个mPing插入紧密相连的mPing基因座的切除。同样,结构变异,包括水稻外显子或调控区域的缺失,对于那些在连接的mPing的一端或两端具有断裂点的突变也得到了丰富。元素。综上所述,这些结果表明,由于转座酶催化在整个基因组中分布连接元件所需的高拷贝数,以及在TE末端的DNA切割(已知会大大增加重组频率),在TE爆发期间会产生结构变异。

更新日期:2020-10-20
down
wechat
bug