(6-4)PP and CPD Damage-seq data for L1 stage wildtype, csb-1 and xpc-1 C.elegans
Caenorhabditis elegans is widely used to study DNA repair and related processes such as aging, yet genome-wide nucleotide excision repair remains largely unexplored. Here, we present a comprehensive whole-organism map of UV-induced DNA damage and repair in L1 larvae. Of the two repair pathways - global repair and transcription-coupled repair - global repair predominates, accounting for over 80% of lesion removal; and notably, (6-4) photoproducts are removed by transcription-coupled repair at an extent comparable to CPD, a feature not previously observed in animals. Integration of damage and repair profiles with chromatin features reveals that despite non-uniform damage formation, repair efficiency is the stronger determinant of residual damage. Finally, repair around accessible regions exhibit periodicity, reflecting underlying nucleosome architecture. Together, these findings establish Caenorhabditis elegans as a valuable model organism for interrogating excision repair within a chromatin context and reveal species-specific features that broaden our understanding of DNA repair mechanisms across metazoans. Overall design: Damage-seq was performed on naked DNA and 0 hour, 8 hours, 24 hours and 48 hours after UVB 4 kj/m2, no UV treatment or in L1 stage wild-type. Either anti (6-4)PP or anti CPD antibodies used to purified  sonicated genomic fragments.