Genome-wide maps of deaminated CPDs (dCPDs) in yeast, biological replicates 2 and 3.

Here, we describe a genome-wide map of uracil lesions arising form deaminated UV-induced cyclobutane pyrimidine dimers (CPDs) in yeast (Saccharomyces cerevisiae). Deaminated CPDs (dCPDs) were mapped at single nucleotide resolution across the yeast genome using the new dCPD-seq method in repair-deficient (rad14?), G2/M-arrested (cdc13-1) yeast cells immediately after UV irradiation (0 hour) and following 6 hour (6hr), 24hr, or 48hr of deamination in arrested, repair-deficient yeast cells. We also generated a full deamination control, in which genomic DNA from a 48h cellular deamination sample was incubated in vitro for an additional 16h at 67C. We used these data to analyze CPD deamination in different trinucleotide sequence contexts, yeast genes, transcription factor binding sites, and nucleosomes. Overall design: We used the new dCPD-seq method to map cytosine-containing UV-induced cyclobutane pyrimidine dimers (CPDs) that had undergone deamination to uracil. Deaminated CPDs were mapped at single nucleotide resolution across the yeast genome, both immediately after UV-irradiation of yeast cells (0 hour) and following 6 hour (6hr), 24hr or 48hr of deamination in arrested, repair-deficient yeast cells. We also mapped deamination in unirradiated cells (No UV control) and in genomic DNA from a 48h cellular deamination sample was incubated in vitro for an additional 16h at 67C, as a full deamination control.