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H3K4 methylation-promoted transcriptional memory supports faithful zygotic genome activation and development [DamID-seq]

ABSTRACT: H3K4 methylation-promoted transcriptional memory supports faithful zygotic genome activation and development [DamID-seq]

PROVIDER: PRJNA1209858 | ENA |

REPOSITORIES: ENA

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H3K4 methylation-promoted transcriptional memory supports faithful zygotic genome activation and development [DamID-seq]

Project description:Accurately established transcriptional programs are paramount for successful embryonic development. At zygotic genome activation, gene expression is initiated for the first time in the life of an embryo. Pioneer transcription factors present in the embryo are essential for this process, however, the role of active chromatin modifications is less clear. It is unknown if active chromatin modifications established in the gamete are propagated in the embryo as epigenetic memory to support zygotic genome activation and development. Here, we provide evidence that in Xenopus laevis, H3K4 methylation contributes to epigenetic memory of active chromatin states, which is required for faithful zygotic genome activation and successful embryonic development. We find that chromatin configurations of promoters displaying high H3K4me3 intensity and breadth, alongside DNA hypomethylation and increased GC content, are maintained from the gametes to the embryo across multiple cell divisions and a transcriptionally quiescent phase in early development. We show that this maintenance of H3K4 methylation is essential for precise zygotic genome activation. Finally, we demonstrate that Kmt2b and Cxxc1 facilitate transcription-independent maintenance of H3K4me3 and proper zygotic gene expression. In summary, our study establishes a role for H3K4 methylation for memory of active chromatin states in embryos and reveals its importance for successful embryonic development.

2025-01-20 | GSE286524 | GEO

H3K4 methylation-promoted transcriptional memory supports faithful zygotic genome activation and development [MBD-seq]

Project description:H3K4 methylation-promoted transcriptional memory supports faithful zygotic genome activation and development [MBD-seq]

| PRJNA1209857 | ENA

H3K4 methylation-promoted transcriptional memory supports faithful zygotic genome activation and development [MBD-seq]

2025-01-20 | GSE286525 | GEO

H3K4 methylation-promoted transcriptional memory supports faithful zygotic genome activation and development [RNA-seq-Auxin]

Project description:H3K4 methylation-promoted transcriptional memory supports faithful zygotic genome activation and development [RNA-seq-Auxin]

| PRJNA1210490 | ENA

H3K4 methylation-promoted transcriptional memory supports faithful zygotic genome activation and development [RNA-seq-Morpholino]

Project description:H3K4 methylation-promoted transcriptional memory supports faithful zygotic genome activation and development [RNA-seq-Morpholino]

| PRJNA1210491 | ENA

H3K4 methylation-promoted transcriptional memory supports faithful zygotic genome activation and development [RNA-seq-Morpholino]

2025-01-20 | GSE286886 | GEO

H3K4 methylation-promoted transcriptional memory supports faithful zygotic genome activation and development [RNA-seq-Auxin]

2025-01-20 | GSE286887 | GEO

Set1 H3K4 methyltransferase and Jhd2 H3K4 demethylase

Project description:Set1 H3K4 methyltransferase and Jhd2 H3K4 demethylase

| PRJNA296896 | ENA

LPC-promoted Th1 differentiation

Project description:LPC-promoted Th1 differentiation

| PRJNA702059 | ENA

damidseq_pipeline: an automated pipeline for processing DamID sequencing datasets

Project description:DamID is a powerful technique for identifying regions of the genome bound by a DNA-binding (or DNA-associated) protein. Currently no method exists for automatically processing next-generation sequencing DamID (DamID-seq) data, and the use of DamID-seq datasets with normalisation based on read-counts alone can lead to high background and the loss of bound signal. DamID-seq thus presents novel challenges in terms of normalisation and background minimisation. We describe here damidseq_pipeline, a software pipeline that performs automatic normalisation and background reduction on multiple DamID-seq FASTQ or BAM datasets.

2015-06-26 | GSE69184 | GEO

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