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Germline inheritance of H3K9me3 and its function in constitutive heterochromatin establishment. [GRO-seq]

ABSTRACT: Germline inheritance of H3K9me3 and its function in constitutive heterochromatin establishment. [GRO-seq]

PROVIDER: PRJNA1003942 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR25591584.fastq.gz	Fastqsanger.gz
	SRR25591585.fastq.gz	Fastqsanger.gz
	SRR25591586.fastq.gz	Fastqsanger.gz
	SRR25591587.fastq.gz	Fastqsanger.gz
	SRR25591588.fastq.gz	Fastqsanger.gz

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Germline inheritance of H3K9me3 and its function in constitutive heterochromatin establishment. [GRO-seq]

Project description:To investigate the function of H3K9me3 in constitutive heterochromatin formation in early embryo we have created embryos that are devoid of H3K9me3

2024-08-01 | GSE240508 | GEO

Germline inheritance of H3K9me3 and its function in constitutive heterochromatin establishment.[CUT&Tag]

Project description:Germline inheritance of H3K9me3 and its function in constitutive heterochromatin establishment.[CUT&Tag]

| PRJNA1003940 | ENA

Germline inheritance of H3K9me3 and its function in constitutive heterochromatin establishment.[CUT&Tag]

Project description:To investigate the function of H3K9me3 in constitutive heterochromatin formation in early embryo we have created embryos that are devoid of H3K9me3

2024-08-01 | GSE240507 | GEO

Epigenetic inheritance uncoupled from sequence-specific recruitment

Project description:We used ChIP-seq to examine the requirements for inheritance of H3K9me at endogenous and ectopic loci. H3K9me2 and H3K9me3 ChIP-seq in multiple S. pombe strains

2014-11-26 | E-GEOD-63304 | biostudies-arrayexpress

The chromatin modifiers SET-25 and SET-32 are required for initiation but not long-term maintenance of transgenerational epigenetic inheritance

Project description:Some epigenetic modifications are inherited from one generation to the next, providing a potential mechanism for the inheritance of environmentally acquired traits. Transgenerational inheritance of RNA interference phenotypes in C. elegans provides an excellent model to study this phenomenon, and whilst studies have implicated both chromatin modifications and small RNA pathways in heritable silencing their relative contributions remain unclear. Here we demonstrate that the histone methyltransferases SET-25 and SET-32 are required for the establishment of a transgenerational silencing signal, but not for long-term maintenance of this signal between subsequent generations suggesting that transgenerational epigenetic inheritance is a multi-step process, with distinct genetic requirements for establishment and maintenance of heritable silencing. Furthermore, small RNA sequencing reveals that the abundance of secondary siRNA (thought to be the effector molecules of heritable silencing) does not correlate with silencing phenotypes. Together, our results suggest that the current mechanistic models of epigenetic inheritance are incomplete.

2018-10-30 | PXD008754 | Pride

A quantitative model of MET1-catalyzed establishment and epigenetic inheritance of DNA methylation

Project description:A quantitative model of MET1-catalyzed establishment and epigenetic inheritance of DNA methylation

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Uncoupled H3K9me3 nucleation and reinforcement during early zebrafish embryogenesis

Project description:The structural organization of eukaryotic genomes is contingent upon fractionation of DNA into transcriptionally active euchromatin and repressive heterochromatin. However, we still have a limited understanding of how these distinct states are first established during animal embryogenesis. Histone lysine 9 trimethylation (H3K9me3) is critical to heterochromatin formation and bulk establishment of this mark is thought to help drive large-scale remodeling of the initially naive chromatin state during animal embryogenesis. However, a detailed understanding of this process is lacking. Here, we leverage CUT&RUN to define the emerging H3K9me3 landscape of the zebrafish embryo with high sensitivity and temporal resolution. We find that despite the prevalence of DNA transposons in the zebrafish genome, LTR transposons are preferentially targeted for H3K9me3 deposition in the embryo, with different families showing distinct establishment kinetics. High signal-to-noise ratios afforded by CUT&RUN revealed emerging sites of low-amplitude H3K9me3 nucleation prior embryonic genome activation (EGA), with early nucleation primarily at a subset of transposon sequences, loci enriched for maternal piRNAs, and pericentromeres. Unexpectedly, the number of nucleated H3K9me3 sites increases linearly across blastula development while quantitative comparison revealed a >10-fold genome-wide increase in H3K9me3 signal at established sites over just 30 minutes precisely at the onset of major EGA. Later stage analysis revealed continued maturation of the H3K9me3 landscape beyond the initial wave of bulk establishment. Our findings uncover distinct mechanisms of pre- and post-EGA H3K9me3 targeting and reveal decoupling of H3K9me3 establishment from reinforcement during de novo heterochromatin formation.

2024-07-22 | GSE256288 | GEO

Establishment of constitutive heterochromatin in Drosophila early embryos involves H3K14ac-mediated recruitment of Eggless/SetDB1

Project description:Establishment of constitutive heterochromatin in Drosophila early embryos involves H3K14ac-mediated recruitment of Eggless/SetDB1

| PRJNA1012473 | ENA

H3K9me3 abcam.Kc

Project description:modENCODE_submission_3013 This submission comes from a modENCODE project of Gary Karpen. For full list of modENCODE projects, see http://www.genome.gov/26524648 Project Goal: We aim to determine the locations of the major histone modifications across the Drosophila melanogaster genome. The modifications under study are involved in basic chromosomal functions such as DNA replication, gene expression, gene silencing, and inheritance. We will perform Chromatin ImmunoPrecipitation (ChIP) using genomic tiling arrays. We will initially assay localizations using chromatin from three cell lines and two embryonic stages, and will then extend the analysis of a subset of proteins to four additional animal tissues/stages. For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODEDataReleasePolicyFinal2008.pdf Keywords: CHIP-chip EXPERIMENT TYPE: CHIP-chip. BIOLOGICAL SOURCE: Cell Line: Kc167; Tissue: embryo-derived cell-line; Developmental Stage: late embryonic stage; Genotype: se/e; Sex: Female; NUMBER OF REPLICATES: 4; EXPERIMENTAL FACTORS: Cell Line Kc167; Antibody H3K9me3 abcam (target is H3K9me3)

2011-03-09 | E-GEOD-27796 | biostudies-arrayexpress

Reprogramming of H3K9me3-dependent heterochromatin during mammalian early embryo development [WGBS]

Project description:H3K9me3-dependent heterochromatin is considered as one of the major barriers for cell fate changes, and must be reprogrammed during fertilization to reactivate highly specialized paternal and maternal genome to establish totipotency. However, the molecular details are lacked for early embryos due to the limited materials. Here we map the genome-wide distribution of H3K9me3 modification in the early embryo as well as in the cell fate determined embryonic tissues after implantation. We find that H3K9me3 exhibits distinct dynamic features in promoters and retro-transposons. Both maternal and paternal genome undergo large scale of H3K9me3 reestablishment after fertilization, and the imbalance of maternal H3K9me3 signal over paternal last until the blastocyst stage. The rebuilding of H3K9me3 on LTR retro-transposons maintains its repression state after the global DNA demethylation, and we further discover that Chaf1a is essential for the establishment of H3K9me3 on LTRs and the loss function of Chaf1a leads to embryo development failure. Finally, we find that lineage specific H3K9me3 is established after lineage commitment in post-implantation embryos. Thus, our data demonstrate that H3K9me3-dependent heterochromatin undergoes dramatic reprogramming during early embryo development and the establishment of H3K9me3 on LTRs is essential for proper embryo development.

2018-04-13 | GSE98151 | GEO

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