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LSm4 biomolecular condensates drive XRN2-mediated RNA decay at DNA double-strand breaks to facilitate repair

Malak M. Darawshe, Laila A. BisharaiD, Enas R. Abu‐Zhayia, Alma Sophia Barisaac, Feras E. MachouriD, Christeen Elmor, Nabieh AyoubiD

Abstract

Maintenance of genome integrity requires accurate repair of DNA double-strand breaks (DSBs), particularly within transcriptionally active regions. Persistent R-loops at DSBs can impede homologous recombination (HR) repair. While factors that resolve R-loops at DSB sites are known, the mechanisms ensuring timely degradation of nascent RNA to prevent pathological R-loop accumulation remain elusive. Here, we identified a critical role for the RNA-binding protein LSm4 in orchestrating localized RNA decay at DSBs to facilitate repair. We demonstrated that among LSm1-8 subunits, only LSm4 undergoes liquid-liquid phase separation (LLPS) and forms biomolecular condensates (BCs) specifically at DSBs in transcriptionally active chromatin. These damage-induced LSm4 BCs function as hubs that promote nuclear RNA decapping and recruit the 5'[->]3' exonuclease XRN2 to degrade nascent transcripts proximal to DSBs. Accordingly, LSm4-XRN2 axis suppresses R-loop hyperaccumulation, thereby enabling efficient RAD51 filament assembly and intact HR repair. Consequently, loss of LSm4 increases translocations and leads to genomic instability. Collectively, our findings define a new regulatory layer in which LSm4 BCs spatially license RNA degradation, preventing R-loop accumulation at DSB microenvironment to facilitate error-free repair.

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