Genome-wide DNA methylation of zebrafish livers at 120 hpf with hUHRF1-EGFP overexpression in hepatocytes

Genome-wide DNA methylation profiling was performed using low-input reduced representation bisulfite sequencing (RRBS) on pooled livers dissected from wild-type sibling larvae and Tg(fabp10a:hUHRF1-EGFP^high) zebrafish at 5 days post fertilization. Across all samples, approximately 10× coverage was achieved at more than 1.5 million CpG sites.

These were compared to profiling carried out in parallel on wild-type samples present in GSE173792. Hepatocyte-specific hUHRF1 overexpression altered methylation levels at nearly one-third of all CpGs analyzed, with ~15% of CpGs exhibiting loss of methylation; hypomethylation occurred predominantly at CpGs that were fully methylated in controls, whereas CpGs that gained methylation were enriched among sites that were partially methylated in control livers.