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Zfp217 orchestrates m6A mRNA methylation and gene expression to promote adipogenic differentiation

ABSTRACT: Zfp217 orchestrates m6A mRNA methylation and gene expression to promote adipogenic differentiation

PROVIDER: PRJNA489596 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR7792160_1.fastq.gz	Fastqsanger.gz
	SRR7792160_2.fastq.gz	Fastqsanger.gz
	SRR7792170_1.fastq.gz	Fastqsanger.gz
	SRR7792170_2.fastq.gz	Fastqsanger.gz
	SRR7792180_1.fastq.gz	Fastqsanger.gz

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Zfp217 orchestrates m6A mRNA methylation and gene expression to promote adipogenic differentiation

Project description:We performed RNA sequencing (RNA-seq) and m6A methylated RNA immunoprecipitation sequencing (MeRIP-seq) in control and Zfp217 knockout 3T3L1 cells with MDI treatment for 0d and 2d Loss-of-function study demonstrates that Zfp217 deficiency impaired adipogenesis together with a global increase of m6A modification in 3T3L1cells. To gain an overview of the global role of Zfp217 in adipogenesis, we performed RNA sequencing (RNA-seq) in control and Zfp217 knockout 3T3L1 cells with MDI treatment for 0d and 2d and identified 12,188 and 11,566 different expressed genes (DEG) for 0d and 2d, respectively. Next, to elucidate the mechanism by which Zfp217 regulates m6A restriction, m6A methylated RNA immunoprecipitation sequencing (MeRIP-seq) was used to analyze the m6A mRNA methylation in control and Zfp217 knockout 3T3L1 cells with MDI treatment for 0d and 2d, and identified 3149 and 294 of m6A peaks experienced an increase in m6A RNA modification after Zfp217 depletion, respectively.

2019-04-17 | GSE119564 | GEO

Comprehensive role of Zfp217 in m6A methylation [MeRIP-seq]

Project description:Many transcriptional and epigenetic networks must be integrated to maintain self-renewal and pluripotency in embryonic stem cells (ESCs) and to enable induced pluripotent stem cell (iPSC) reprogramming. Here, we explore the role of Zfp217 as a key transcriptional factor in maintaining ES cell self-renewal by performing meRIP analysis in control and Zfp217-depleted mouse stem cells. Examination of m6A levels from total RNA in control and Zfp217 shRNA infected mouse stem cells

2015-10-30 | E-GEOD-65734 | biostudies-arrayexpress

m6A in 5â untranslated regions promotes cap-independent translation of mRNA

Project description:N6-methyladenosine (m6A) is a widespread internal RNA modification whose function is poorly understood. Here we report that m6A residues within the 5'UTR promote a novel form of cap-independent translation which is mediated through an interaction between m6A residues and the translation initiation factor, eIF3. We present eIF3a PAR-iCLIP data which demonstrate that eIF3 predominantly binds mRNAs within the 5'UTR. eIF3 binding sites are also in proximity to m6A residues within the 5'UTR of cellular mRNAs. Two replicates of eIF3a PAR-iCLIP in HEK293T cells.

2015-10-26 | E-GEOD-73405 | biostudies-arrayexpress

Widespread Occurrence of m6A in bacterial mRNA

Project description:N6-methyladenosine (m6A) is one of the most abundant modifications in eukaryotic RNA. Recent mapping of m6A methylomes in mammals, yeast, and plants as well as characterization of m6A methyltransferases, demethylases, and binding proteins have revealed regulatory functions of this dynamic RNA modification. In bacteria, although m6A is present in ribosomal RNA (rRNA), its occurrence in messenger RNA (mRNA) still remains elusive. Here, we used liquid chromatography-mass spectrometry (LC-MS) to calculate the m6A/A ratio in mRNA from a wide range of bacterial species, which demonstrates that m6A is an abundant mRNA modification in tested bacteria. Subsequent transcriptome-wide m6A profiling in Escherichia coli and Pseudomonas aeruginosa revealed a conserved distinct m6A pattern that is significantly different from that in eukaryotes. Most m6A peaks are located inside open reading frames (ORF), and carry a unique consensus motif (GCCAU). Functional enrichment analysis of bacterial m6A peaks indicates that the majority of m6A-modified transcripts are associated with respiration, amino acids metabolism, stress response, and small RNAs genes, suggesting potential regulatory roles of m6A in these pathways. m6A profiling in E.coli and P.aeruginosa mRNA

2015-07-08 | E-GEOD-65347 | biostudies-arrayexpress

Zfp217 mediates m6A mRNA methylation to orchestrate transcriptional and post-transcriptional regulation to promote adipogenic differentiation.

Project description:A complex and highly orchestrated gene expression program chiefly establishes the properties that define the adipocyte phenotype, in which the vast majority of factors are involved in transcriptional regulation. However, the mechanisms by post-transcriptional modulation are poorly understood. Here, we showed that zinc finger protein (Zfp217) couples gene transcription to m6A mRNA modification to facilitate adipogenesis. Zfp217 modulates m6A mRNA methylation by activating the transcription of m6A demethylase FTO. Consistently, depletion of Zfp217 compromises adipogenic differentiation of 3T3L1 cells and results in a global increase of m6A modification. Moreover, the interaction of Zfp217 with YTHDF2 is critical for allowing FTO to maintain its interaction with m6A sites on various mRNAs, as loss of Zfp217 leads to FTO decrease and augmented m6A levels. These findings highlight a role for Zfp217-dependent m6A modification to coordinate transcriptional and post-transcriptional regulation and thus promote adipogenic differentiation.

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m6A RNA methylation orchestrates transcriptional dormancy during paused pluripotency

Project description:m6A RNA methylation orchestrates transcriptional dormancy during paused pluripotency

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Comprehensive role of Zfp217 in m6A methylation [RNA-seq]

Project description:Comprehensive RNA-seq experiments in control and zfp217 shRNA infected cells delineate a Zfp217-driven network required for ES cell self-renewal. RNA-seq was used to measure gene expression levels in luciferase control and Zfp217 short hairpin RNA (shRNA) infected mouse stem cells

2015-10-30 | E-GEOD-65731 | biostudies-arrayexpress

Profiling of mRNA N6-Adenosine Methylation (m6A) in Arabidopsis

Project description:m6A profiling in two accessions of Arabidopsis thaliana (Can-0 and Hen-16) using the m6A-targeted antibody coupled with high-throughput sequencing m6A-seq in two accessions of Arabidopsis, two replicates for each sample

2014-11-06 | E-GEOD-59154 | biostudies-arrayexpress

Comprehensive role of Zfp217 in m6A methylation [RNA-seq]

Project description:Comprehensive RNA-seq experiments in control and zfp217 shRNA infected cells delineate a Zfp217-driven network required for ES cell self-renewal.

2015-10-30 | GSE65731 | GEO

N6-methyl adenosine (m6A) recruits and repels proteins to regulate mRNA homeostasis

Project description:RNA modifications are integral to regulation of RNA metabolism. One such abundant mRNA modification is m6A, which impacts various aspects of RNA metabolism including splicing, transport and degradation. Current knowledge about proteins recruited to m6A to carry out these molecular processes is still limited. Here we describe a comprehensive and systematic mass spectrometry-based screening of m6A interactors in various cell types and species. Amongst the main findings, we identified G3BP1 as a protein, which is repelled by m6A and which positively regulates mRNA stability in an m6A regulated manner. Furthermore, we identified FMR1 as a novel, RNA sequence context dependent m6A reader, thus revealing a connection between an mRNA modification and an autism spectrum disorder. Collectively, our data represents a rich resource for the community and sheds further light on the complex interplay between m6A, m6A interactors and mRNA homeostasis.

2017-08-22 | PXD006498 | Pride

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