ACINUS介导的可变剪接机制的下一代图谱及其在……中由O-糖基化介导的调控

Next-Generation Mapping of the ACINUS-Mediated Alternative Splicing Machinery and Its Regulation by O-glycosylation in .

作者信息

Shrestha Ruben, Reyes Andres V, Carey Shane, Karunadasa Sumudu S, Zhai Wenxuan, Byun Danbi, Lin Wen-Dar, Li Jie, Alerte Kathrine, Cui Hongchang, Wang Zhi-Yong, Xu Shou-Ling

机构信息

Department of Plant Biology, Carnegie Institution for Science, Stanford, CA, USA.

Institute of Plant and Microbial Biology, Academia Sinica, 115 Taipei, Taiwan.

出版信息

bioRxiv. 2025 Mar 26:2025.01.04.631329. doi: 10.1101/2025.01.04.631329.

Abstract

Alternative splicing (AS) is a key mechanism of gene regulation, but the full repertoire of proteins involved and the regulatory mechanisms governing this process remain poorly understood. Using TurboID-based proximity labeling coupled with mass spectrometry (PL-MS), we comprehensively mapped the Arabidopsis AS machinery, focusing on the evolutionarily conserved splicing factor ACINUS, its paralog PININ, and the stable interactor SR45. We identified 298 high-confidence components, including both established and novel interactors, providing strong evidence that alternative splicing is coupled to transcription and that multiple RNA processing steps occur simultaneously in plants. Bioinformatic analysis reveals high redundancy, conserved mechanisms, and unique plant-specific features. Selected known and novel interactors were validated by AS readouts and phenotypic analysis, which also revealed a coordinated influence on splicing. Furthermore, a systematic evaluation of O-glycosylation double mutants revealed that SECRET AGENT (O-GlcNAc transferase) and SPINDLY (O-fucose transferase) modulate AS through both ACINUS-dependent and -independent pathways. Our results reveal the conserved as well as plant-specific AS regulatory network and highlight the global role of sugar modification in RNA processing.

摘要

可变剪接(Alternative splicing,AS)是基因调控的关键机制,但参与其中的蛋白质全谱以及控制这一过程的调控机制仍知之甚少。我们运用基于TurboID的邻近标记技术结合质谱分析(PL-MS),全面绘制了拟南芥的可变剪接机制图谱,重点关注进化上保守的剪接因子ACINUS、其旁系同源物PININ以及稳定相互作用蛋白SR45。我们鉴定出298个高可信度的组分,包括已确定的和新发现的相互作用蛋白,有力证明了可变剪接与转录相偶联,且多个RNA加工步骤在植物中同时发生。生物信息学分析揭示了高度冗余、保守机制以及独特的植物特异性特征。通过可变剪接读数和表型分析验证了选定的已知和新发现的相互作用蛋白,这也揭示了它们对剪接的协同影响。此外,对O-糖基化双突变体的系统评估表明,SECRET AGENT(O-GlcNAc转移酶)和SPINDLY(O-岩藻糖转移酶)通过依赖ACINUS和不依赖ACINUS的途径调节可变剪接。我们的结果揭示了保守的以及植物特异性的可变剪接调控网络,并突出了糖基化修饰在RNA加工中的全局作用。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/f5e9/11974692/289c022ee1d6/nihpp-2025.01.04.631329v2-f0001.jpg

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