Details

Autor(en) / Beteiligte

• 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

Titel

KARR-seq reveals cellular higher-order RNA structures and RNA-RNA interactions

Ist Teil von

• Nature biotechnology, 2024-01

Ort / Verlag

United States

Erscheinungsjahr

2024

Link zum Volltext

Beschreibungen/Notizen

• 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 N -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.