Generic sample from Danio rerio
Danio rerio
DNA was extracted from nuclei using phenol-chloroform and sheared on COVARIS to a median 400 bp fragment. For all samples unmethylated lambda DNA was added to 1% final concentration (Promega Madison, WI 53711). Methylated paired-end adapters were ligated to sheared DNA according to the Illumina library preparation protocol. Sodium bisulfite conversion was performed using the EpiTect Bisulfite Kit (Qiagen, Valencia, CA 91355) with an additional incubation step at 60C for 120 min to increase conversion rate. Bisulfite treated DNA was then PCR amplified with 16 cycles and sequenced. Detailed experimental procedures and bioinformatics analysis can be found in the supplemental method section of the paper.
strain
Tubingen
label
PE: paired end, SE: single end
development stage
64 cell stage