美国芝加哥大学何川和欧阳正清研究组合作利用酮醇辅助RNA-RNA相互作用测序 (KARR-seq)，揭示细了胞高阶RNA结构和RNA-RNA相互作用。2024年1月18日出版的《自然—生物技术》杂志发表了这项成果。

他们提出了KARR-seq，它使用N3 -酮醛标记和多功能化学交联剂来共价捕获和确定细胞内，RNA-RNA相互作用和高阶RNA结构，独立于局部蛋白质与RNA的结合。KARR-seq描述高阶RNA结构，并以高灵敏度和准确性检测广泛的分子间RNA-RNA相互作用。

使用KARR-seq，他们发现翻译在自然和胁迫条件下抑制mRNA的压缩。他们确定了呼吸道合胞病毒(RSV)和水疱性口炎病毒(VSV)的高阶RNA结构，并鉴定了病毒与宿主RNA之间的RNA-RNA相互作用，这种相互作用可能调节病毒的复制。

研究人员表示，RNA的命运和功能受其结构和相互作用组的影响。然而，RNA和RNA结合蛋白(RBPs)如何组装成高阶结构，以及RNA分子如何相互作用以促进功能在很大程度上仍然未知。

附：英文原文

Title: KARR-seq reveals cellular higher-order RNA structures and RNA–RNA interactions

Author: Wu, Tong, Cheng, Anthony Youzhi, Zhang, Yuexiu, Xu, Jiayu, Wu, Jinjun, Wen, Li, Li, Xiao, Liu, Bei, Dou, Xiaoyang, Wang, Pingluan, Zhang, Linda, Fei, Jingyi, Li, Jianrong, Ouyang, Zhengqing, He, Chuan

Issue&Volume: 2024-01-18

Abstract: RNA fate and function are affected by their structures and interactomes. However, how RNA and RNA-binding proteins (RBPs) assemble into higher-order structures and how RNA molecules may interact with each other to facilitate functions remain largely unknown. Here we present KARR-seq, which uses N3-kethoxal labeling and multifunctional chemical crosslinkers to covalently trap and determine RNA–RNA interactions and higher-order RNA structures inside cells, independent of local protein binding to RNA. KARR-seq depicts higher-order RNA structure and detects widespread intermolecular RNA–RNA interactions with high sensitivity and accuracy. Using KARR-seq, we show that translation represses mRNA compaction under native and stress conditions. We determined the higher-order RNA structures of respiratory syncytial virus (RSV) and vesicular stomatitis virus (VSV) and identified RNA–RNA interactions between the viruses and the host RNAs that potentially regulate viral replication.

DOI: 10.1038/s41587-023-02109-8

Source: https://www.nature.com/articles/s41587-023-02109-8