Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

Jarid1b targets genes regulating development and is involved in neural differentiation

ABSTRACT: This SuperSeries is composed of the following subset Series: GSE31966: Jarid1b targets genes regulating development and is involved in neural differentiation [ChIP-seq] GSE31967: Jarid1b targets genes regulating development and is involved in neural differentiation [expression array] Refer to individual Series

ORGANISM(S): Mus musculus

SUBMITTER: Sandra Schmitz

PROVIDER: E-GEOD-31968 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

Jarid1b targets genes regulating development and is involved in neural differentiation.

Schmitz Sandra U SU Albert Mareike M Malatesta Martina M Morey Lluis L Johansen Jens V JV Bak Mads M Tommerup Niels N Abarrategui Iratxe I Helin Kristian K

The EMBO journal 20111101 22

H3K4 methylation is associated with active transcription and in combination with H3K27me3 thought to keep genes regulating development in a poised state. The contribution of enzymes regulating trimethylation of lysine 4 at histone 3 (H3K4me3) levels to embryonic stem cell (ESC) self-renewal and differentiation is just starting to emerge. Here, we show that the H3K4me2/3 histone demethylase Jarid1b (Kdm5b/Plu1) is dispensable for ESC self-renewal, but essential for ESC differentiation along the n ...[more]

PMID: 22020125

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Project description:Epigenetic modification of the mammalian genome by DNA methylation (5-methylcytosine) has a profound impact on chromatin structure, gene expression and maintenance of cellular identity. Recent demonstration that members of the Ten-eleven translocation (Tet) family proteins can convert 5-methylcytosine (5mC) to 5-hydroxymethylcytosine (5hmC) raised the possibility that Tet proteins are capable of establishing a distinct epigenetic state. We have recently demonstrated that Tet1 is specifically expressed in murine embryonic stem (ES) cells and is required for ES cell self-renewal and maintenance. Using chromatin immunoprecipitation coupled with high-throughput DNA sequencing (ChIP-seq), here we show that Tet1 is preferentially bound to CpG-rich sequences at promoters of both transcriptionally active and Polycomb-repressed genes. Despite a general increase in levels of DNA methylation at Tet1 binding-sites, Tet1 depletion does not lead to down-regulation of all the Tet1 targets. Interestingly, while Tet1-mediated promoter hypomethylation is required for maintaining the expression of a group of transcriptionally active genes, it is also required for repression of Polycomb-targeted developmental regulators. Tet1 contributes to silencing of this group of genes by facilitating recruitment of PRC2 to CpG-rich gene promoters. Thus, our study not only establishes a role for Tet1 in modulating DNA methylation levels at CpG-rich promoters, but also reveals a dual function of Tet1 in promoting transcription of pluripotency factors as well as participating in the repression of Polycomb-targeted developmental regulators. Mouse ES cells infected with control knockdown (KD) or Tet1 KD lentiviruses were FACS-sorted for RNA extraction and hybridization on Affymetrix microarrays. We also investigated the effect of Nanog overexpression (OE) in Tet1 KD mouse ES cells on dys-regulated Tet1 targets. We have collected four biologically independent replicates for each treatment.

Dataset Information

Jarid1b targets genes regulating development and is involved in neural differentiation

Publications

Jarid1b targets genes regulating development and is involved in neural differentiation.

Similar Datasets

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