Hypomethylated domain-enriched DNA motifs prepattern the accessible nucleosome organization in teleosts.

ABSTRACT:

Background

Gene promoters in vertebrate genomes show distinct chromatin features such as stably positioned nucleosome array and DNA hypomethylation. The nucleosomes are known to have certain sequence preferences, and the prediction of nucleosome positioning from DNA sequence has been successful in some organisms such as yeast. However, at gene promoters where nucleosomes are much more stably positioned than in other regions, the sequence-based model has failed to work well, and sequence-independent mechanisms have been proposed.

Results

Using DNase I-seq in medaka embryos, we demonstrated that hypomethylated domains (HMDs) specifically possess accessible nucleosome organization with longer linkers, and we reassessed the DNA sequence preference for nucleosome positioning in t

SUBMITTER: Nakamura R 

PROVIDER: S-EPMC5607494 | biostudies-literature | 2017 Sep

REPOSITORIES: biostudies-literature