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Neuronal activity modifies the chromatin accessibility landscape in the adult brain

ABSTRACT: This SuperSeries is composed of the SubSeries listed below.

ORGANISM(S): Mus musculus

PROVIDER: GSE86367 | GEO | 2017/01/08

SECONDARY ACCESSION(S): PRJNA341508

REPOSITORIES: GEO

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Neuronal activity modifies the chromatin accessibility landscape in the adult brain.

Project description:Neuronal activity-induced gene expression modulates the function and plasticity of the nervous system. It is unknown whether and to what extent neuronal activity may trigger changes in chromatin accessibility, a major mode of epigenetic regulation of gene expression. Here we compared chromatin accessibility landscapes of adult mouse dentate granule neurons in vivo before and after synchronous neuronal activation using an assay for transposase-accessible chromatin using sequencing (ATAC-seq). We found genome-wide changes 1 h after activation, with enrichment of gained-open sites at active enhancer regions and at binding sites for AP1-complex components, including c-Fos. Some changes remained stable for at least 24 h. Functional analysis further implicates a critical role of c-Fos in initiating, but not maintaining, neuronal activity-induced chromatin opening. Our results reveal dynamic changes of chromatin accessibility in adult mammalian brains and suggest an epigenetic mechanism by which transient neuronal activation leads to dynamic changes in gene expression via modifying chromatin accessibility.

| S-EPMC5325677 | biostudies-literature

Neuronal activity modifies the chromatin accessibility landscape in the adult brain

Project description:This SuperSeries is composed of the SubSeries listed below.

2017-01-08 | GSE82015 | GEO

Neuronal activity modifies the chromatin accessibility landscape in the adult brain (RNA-Seq)

Project description:We generated RNA profiling datasets from adult mouse dentate gyrus upon neuronal activation at three different time point

2017-01-08 | GSE86366 | GEO

Neuronal activity modifies the chromatin accessibility landscape in the adult brain (ATAC-Seq)

Project description:We generated the chromatin accessibility profiling datasets from adult mouse dentate gyrus upon neuronal activation at 3 different time points

2017-01-08 | GSE86365 | GEO

Neuronal activity modifies the chromatin accessibility landscape in the adult brain (RNA-Seq OE)

Project description:We generated RNA profiling datasets from adult mouse dentate gyrus with cFos knockdown and/or overexpression upon neuronal activation

2017-01-08 | GSE82014 | GEO

Neuronal activity modifies the chromatin accessibility landscape in the adult brain (RNA-Seq WT)

Project description:We generated RNA profiling datasets from adult mouse dentate gyrus upon neuronal activation at three different time point

2017-01-08 | GSE82013 | GEO

Neuronal activity modifies the chromatin accessibility landscape in the adult brain (ATAC-Seq KD)

Project description:We generated the chromatin accessibility profiling datasets from adult mouse dentate gyrus with cFos knockdown upon neuronal activation (E0 and E1)

2017-01-08 | GSE82012 | GEO

Neuronal activity modifies the chromatin accessibility landscape in the adult brain (ATAC-Seq OE)

Project description:We generated the chromatin accessibility profiling datasets from adult mouse dentate gyrus with cFos knockdown and overexpression upon neuronal activation (E0 and E1)

2017-01-08 | GSE82011 | GEO

Neuronal activity modifies the chromatin accessibility landscape in the adult brain (ATAC-Seq WT)

Project description:We generated the chromatin accessibility profiling datasets from adult mouse dentate gyrus upon neuronal activation at 3 different time points

2017-01-08 | GSE82010 | GEO

Neuronal activity modifies the DNA methylation landscape in the adult brain.

Project description:DNA methylation has been traditionally viewed as a highly stable epigenetic mark in postmitotic cells. However, postnatal brains appear to show stimulus-induced methylation changes, at least in a few identified CpG dinucleotides. How extensively the neuronal DNA methylome is regulated by neuronal activity is unknown. Using a next-generation sequencing-based method for genome-wide analysis at single-nucleotide resolution, we quantitatively compared the CpG methylation landscape of adult mouse dentate granule neurons in vivo before and after synchronous neuronal activation. About 1.4% of 219,991 CpGs measured showed rapid active demethylation or de novo methylation. Some modifications remained stable for at least 24 h. These activity-modified CpGs showed a broad genomic distribution with significant enrichment in low-CpG density regions, and were associated with brain-specific genes related to neuronal plasticity. Our study implicates modification of the neuronal DNA methylome as a previously underappreciated mechanism for activity-dependent epigenetic regulation in the adult nervous system.

| S-EPMC3183401 | biostudies-literature

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