Genome‐wide distribution and functions of the AAE complex in epigenetic regulation in Arabidopsis,Journal of Integrative Plant Biology

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Genome‐wide distribution and functions of the AAE complex in epigenetic regulation in Arabidopsis
Journal of Integrative Plant Biology ( IF 9.3 ) Pub Date : 2021-01-12 , DOI: 10.1111/jipb.13068
Yi-Zhe Zhang _{1,

2} , Juncheng Lin ₃ , Zhizhong Ren ₁ , Chun-Xiang Chen _{1,

2} , Daisuke Miki ₁ , Si-Si Xie _{1,

2} , Jian Zhang _{1,

2} , Ya-Nan Chang _{1,

2} , Jing Jiang ₄ , Jun Yan ₅ , Qingshun Q Li _{3,

6} , Jian-Kang Zhu _{1,

7} , Cheng-Guo Duan _{1,

4}

Affiliation

Heterochromatin is widespread in eukaryotic genomes and has diverse impacts depending on its genomic context. Previous studies have shown that a protein complex, the ASI1‐AIPP1‐EDM2 (AAE) complex, participates in polyadenylation regulation of several intronic heterochromatin‐containing genes. However, the genome‐wide functions of AAE are still unknown. Here, we show that the ASI1 and EDM2 mostly target the common genomic regions on a genome‐wide level and preferentially interacts with genetic heterochromatin. Polyadenylation (poly(A) sequencing reveals that AAE complex has a substantial influence on poly(A) site usage of heterochromatin‐containing genes, including not only intronic heterochromatin‐containing genes but also the genes showing overlap with heterochromatin. Intriguingly, AAE is also involved in the alternative splicing regulation of a number of heterochromatin‐overlapping genes, such as the disease resistance gene RPP4. We provided evidence that genic heterochromatin is indispensable for the recruitment of AAE in polyadenylation and splicing regulation. In addition to conferring RNA processing regulation at genic heterochromatin‐containing genes, AAE also targets some transposable elements (TEs) outside of genes (including TEs sandwiched by genes and island TEs) for epigenetic silencing. Our results reveal new functions of AAE in RNA processing and epigenetic silencing, and thus represent important advances in epigenetic regulation.

中文翻译：

AAE复合体在拟南芥表观遗传调控中的全基因组分布和功能

异染色质广泛存在于真核生物基因组中，并根据其基因组背景具有不同的影响。先前的研究表明，蛋白质复合物 ASI1-AIPP1-EDM2 (AAE) 复合物参与了几种内含子异染色质基因的多聚腺苷酸化调控。然而，AAE的全基因组功能仍然未知。在这里，我们表明 ASI1 和 EDM2 在全基因组水平上主要针对常见的基因组区域，并优先与遗传异染色质相互作用。聚腺苷酸化（poly（A）测序表明，AAE 复合物对含异染色质基因的聚（A）位点使用有重大影响，不仅包括含异染色质内含子的基因，还包括与异染色质重叠的基因。有趣的是，RPP4。我们提供的证据表明，基因异染色质对于在聚腺苷酸化和剪接调节中募集 AAE 是必不可少的。除了在含有基因异染色质的基因上赋予 RNA 加工调节外，AAE 还针对基因之外的一些转座因子 (TE)（包括被基因和岛 TE 夹住的 TE）进行表观遗传沉默。我们的结果揭示了 AAE 在 RNA 加工和表观遗传沉默中的新功能，因此代表了表观遗传调控的重要进展。

更新日期：2021-01-12

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