Genomics

Dataset Information

0

‘Placeholder’ nucleosomes underlie germline-to-embryo DNA methylation reprogramming [RNA-Seq]


ABSTRACT: The function and retention/reprogramming of epigenetic marks during the germline-to-embryo transition is a key issue in developmental and cellular biology, with relevance to stem cell programming and trans-generational inheritance. In zebrafish, DNAme patterns are programmed in transcriptionally-quiescent early cleavage embryos; paternally-inherited patterns are maintained, whereas maternal patterns are reprogrammed to match the paternal pattern. Here we show that a ‘placeholder’ nucleosome, containing the histone H2A variant H2A.Z(FV) and H3K4me1, occupies virtually all regions lacking DNAme in both sperm and cleavage embryos – residing at promoters encoding housekeeping and early embryonic transcription factors. Upon genome-wide transcriptional onset, genes with the Placeholder become either active H3K4me3-marked or silent H3K4me3/K27me3-marked (bivalent). Importantly, functional perturbation causing Placeholder loss confers DNAme acquisition, whereas acquisition/expansion of Placeholder confers DNA hypomethylation and improper gene activation. Thus, during transcriptionally quiescent stages (gamete-zygote-cleavage), an H2A.Z(FV)/H3K4me1-containing Placeholder nucleosome deters DNAme, poising parental genes for either gene-specific activation or facultative repression.

ORGANISM(S): Danio rerio

PROVIDER: GSE95031 | GEO | 2017/12/12

SECONDARY ACCESSION(S): PRJNA375788

REPOSITORIES: GEO

Similar Datasets

2017-12-12 | GSE95032 | GEO
2017-12-12 | GSE95030 | GEO
| EGAS00001004682 | EGA
2022-01-04 | GSE168359 | GEO
2022-01-04 | GSE168360 | GEO
2022-01-04 | GSE168361 | GEO
2020-07-10 | GSE148150 | GEO
2020-08-19 | GSE141877 | GEO
| PRJEB11478 | ENA
| PRJEB46788 | ENA