GSE160706
DNA methylation analysis by RRBS of WT and uhrf1-hi272 mutant zebrafish whole larvae at 5 dpf
DNA methylation is a central repressive epigenetic mark. In this dataset we performed RRBS on whole zebrafish larvae from uhrf1-hi272 mutants and phenotypically wild-type siblings to determine which genomic regions have changes in DNA methylation due to uhrf1 loss. Overall design: uhrf1-hi272 hetorozygous zebrafish adults were incross to generate larvae. We sorted uhrf1-hi272 mutants from their phenotypically WT siblings based on phenotype following immobilization using tricaine at 5 days post fertilizaion (dpf). We collected 10 whole larvae from each experimental group and extracted high molecular weight DNA using a DNA extraction buffer as previously described (Chernyavskaya et al., 2017). To compare efficacy of the RRBS protocol, we prepared two libraries using 50 or250 ng to perform RRBS library prep. Libraries were prepared according to Garrett-Bakelman et al., 2015, with the exception that the adaptors used for multiplexing were purchased separately (Next Multiplex Methylated Adaptors–New England Biolabs) and libraries were size selected by dual-step purification with Ampure XP Magnetic Beads (Beckman Coulter, Agencourt).