Fig. 2: Elf1-CTD is required for UV survival and efficient TC-NER in yeast.

a Alignment of yeast Elf1 and human ELOF1 protein sequences. NTD, N-terminal ___domain; arrows, key cysteine residues in C4 zinc finger ___domain; and CTD, C-terminal ___domain. b Indicated mutant yeast strains were 10-fold serially diluted, spotted on the YPD plates, and exposed to the indicated doses of UVC light. Plates were photographed after 3 days of incubation in the dark. c Representative alkaline gel of bulk repair analysis of CPD lesions in WT cells at different time points following UVC irradiation. The genomic DNA was isolated at the indicated time points and treated with or without (+/−) T4 endonuclease V digestion and resolved on denaturing alkaline gels. First lane is the lambda DNA-HindIII digest molecular weight markers (Invitrogen). d Same as (c), except analysis of data from elf1-CTD∆ cells. e Quantification of the repair of CPDs in WT and elf1-CTD∆ yeast strains based on alkaline gel analysis. The plot represents mean ± SEM of three independent experiments. *P ≤ 0.05 analyzed by unpaired two-sided t-test with Holm–Sidak correction. f Analysis of CPD-seq data from WT cells¹⁹ for ~5200 genes at single nucleotide resolution on both the transcribed strand (TS) and non-transcribed strand (NTS). The plot depicts regions, 200 bp upstream of and +640 bp downstream from the transcription start site (TSS). The number of unrepaired CPDs after 2 h of repair is divided by the initial damage counts (0 h) to depict the fraction of CPDs remaining. The fraction of CPDs remaining was normalized to the bulk fraction of CPDs remaining determined by alkaline gel analysis. g Same as (f), except analysis of data from elf1-CTD∆ cells. h, i Gene cluster plot analysis of CPD-seq repair data from h WT and i elf1-CTD∆ cells for ~4500 genes, ordered based on transcription frequency⁶⁹. Plots depict the fraction of unrepaired CPDs after 2 h of repair relative to the initial damage counts (0 h) for both TS and NTS. Data was normalized using alkaline gel analysis data, as described above. Source data are provided as a Source Data file.