Optimized reduced representation bisulfite sequencing reveals tissue-specific mCHH islands in maize.

ABSTRACT:

Background

DNA methylation plays important roles in many regulatory processes in plants. It is economically infeasible to profile genome-wide DNA methylation at a single-base resolution in maize, given its genome size of ~2.5 Gb. As an alternative, we adapted region of interest (ROI)-directed reduced representation bisulfite sequencing (RRBS) to survey genome-wide methylation in maize.

Results

We developed a pipeline for selecting restriction enzymes in silico and experimentally showed that, in the maize genome, MseI- and CviQI-digested fragments are precisely enriched in promoters and gene bodies, respectively. We proceeded with comparisons of epigenomes and transcriptomes between shoots and tassels and found that the occurrences of highly methylated, tissue-specific, mCHH

SUBMITTER: Hsu FM 

PROVIDER: S-EPMC5577757 | biostudies-literature | 2017 Aug

REPOSITORIES: biostudies-literature