Dataset features

Specifications


Application: BS-seq analysis
Number of samples: 10
Release date: Jan 23 2014
Last update date: May 6 2015
Access: Public
Dataset link Gonadal DNA methylomes of half-smooth tongue sole Cynoglossus semilaevis

Experimental Protocol


To assess the gonadal DNA methylome patterns across different sexual types of tongue sole, we carried out BS-seq on bisulfite converted DNA extracted from adult gonads of parental females, parental pseudo-males, and F1 pseudo-males and females from a cross between a parental pseudo-male and a normal female. We also sampled normal male individuals as a control for the normal male DNA methylation pattern. For each of the five samples, two biological replicates were utilized, with each replicate being pooled by five fish. The phenotype and genotype of each selected fish was identified by the histological analysis and PCR validation using the W chromosome specific marker. DNA were isolated from five pooled gonads of the same replicate, then 5 μg DNA was used to do the bisulfite conversion and BS-seq. The bisulfite conversion of sample DNA was carried out using a modified NH4HSO3-based protocol (Hayatsu et al. 2006). The paired-end library construction and sequencing were carried out using Illumina HiSeq 2000, according to the manufacturer’s instructions (Illumina). We also mixed 25 ng cl857 Sam7 Lambda DNA in each sample to use as conversion quality control for each library.

Repositories


GEO

GSE41129

ArrayExpress

E-GEOD-41129

ENA

SRP015880

BioProject

PRJNA175873

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Contact


Hong Cao
Hong zhi Cao