State Key Laboratory of Experimental Hematology, The Province and Ministry Co-Sponsored Collaborative Innovation Center for Medical Epigenetics, Key Laboratory of Immune Microenvironment and Disease (Ministry of Education), Tianjin Key Laboratory of Medical Epigenetics, Department of Cell Biology, Tianjin Medical University, Tianjin, China.
Department of Biochemistry and Molecular Biology, Tianjin Medical University, Tianjin, China.
J Biol Chem. 2023 Aug;299(8):105071. doi: 10.1016/j.jbc.2023.105071. Epub 2023 Jul 18.
Paraspeckles (PS) are nuclear structures scaffolded by the long noncoding RNA NEAT1 and protein components such as NONO and SFPQ. We previously found that the upregulation of RNA N6-methyl-adenosine (mA) demethylase ALKBH5 facilitates hypoxia-induced paraspeckle assembly through erasing mA marks on NEAT1, thus stabilizing it. However, it remains unclear how these processes are spatiotemporally coordinated. Here we discover that ALKBH5 specifically binds to proteins in PS and forms phase-separated droplets that are incorporated into PS through its C-terminal intrinsically disordered region (cIDR). Upon exposure to hypoxia, rapid ALKBH5 condensation in PS induces mA demethylation of NEAT1, which further facilitates PS formation before the upregulation of ALKBH5 expression. In cells expressing ALKBH5 lacking cIDR, PS fail to be formed in response to hypoxia, accompanied with insufficient mA demethylation of NEAT1 and its destabilization. We also demonstrate that ALKBH5-cIDR is indispensable for hypoxia-induced effects such as cancer cell invasion. Therefore, our study has identified the role of ALKBH5 in phase separation as the molecular basis of the positive feedback loop for PS formation between ALKBH5 incorporation into PS and NEAT1 stabilization.
核内结构 paraspeckles (PS) 由长链非编码 RNA NEAT1 和 NONO 和 SFPQ 等蛋白成分构成。我们之前发现 RNA N6-甲基腺苷 (mA) 去甲基酶 ALKBH5 的上调通过消除 NEAT1 上的 mA 标记,从而稳定其,促进缺氧诱导的 paraspeckle 组装。然而,这些过程如何在时空上协调仍不清楚。在这里,我们发现 ALKBH5 特异性结合 PS 中的蛋白质,并形成相分离液滴,通过其 C 端固有无序区域 (cIDR) 整合到 PS 中。暴露于缺氧环境下,PS 中 ALKBH5 的快速浓缩诱导 NEAT1 的 mA 去甲基化,从而在 ALKBH5 表达上调之前促进 PS 的形成。在表达缺乏 cIDR 的 ALKBH5 的细胞中,PS 无法响应缺氧而形成,伴随着 NEAT1 的 mA 去甲基化不足及其不稳定性。我们还证明了 ALKBH5-cIDR 对于缺氧诱导的效应(如癌细胞侵袭)是不可或缺的。因此,我们的研究确定了 ALKBH5 在相分离中的作用是 ALKBH5 掺入 PS 和 NEAT1 稳定之间形成 paraspeckles 的正反馈回路的分子基础。