Time-course swRNA-seq uncovers a hierarchical gene regulatory network in controlling the response-repair-remodeling after wounding

• DOI: 10.1038/s42003-024-06352-w
• Publication Date: 2024-06-06T11:04:06Z
• Authors: Xinghai Yu; Jinghua Zhou; Wenkai Ye; Jingxiu Xu; Rui Li; Li Huang; Yi Chai; Miaomiao Wen; Suhong Xu; Yu Zhou
• Keywords: Gene regulatory network

Abstract Wounding initiates intricate responses crucial for tissue repair and regeneration. Yet, the gene regulatory networks governing wound healing remain poorly understood. Here, employing single-worm RNA sequencing (swRNA-seq) across 12 time-points, we delineated a three-stage process in C. elegans : response, repair, remodeling. Integrating diverse datasets, constructed dynamic network comprising 241 transcription regulators their inferred targets. We identified potentially seven autoregulatory TFs five cross-autoregulatory loops involving pqm-1 jun-1 . revealed that might interact with chromatin factors form TF-TF combinatory modules via intrinsically disordered regions to enhance response robustness. experimentally validated six functioning transcriptional translocation-dependent manners. Notably, nhr-76 , daf-16 nhr-84 oef-1 are required efficient while elt-2 may act as an inhibitor. These findings elucidate hierarchical during shedding light on mechanisms underlying