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ARGONAUTE proteins regulate a specific network of genes through KLF4 in mESCs [ATAC-seq]

ABSTRACT: ARGONAUTE proteins regulate a specific network of genes through KLF4 in mESCs [ATAC-seq]

PROVIDER: PRJNA769212 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR16216068_1.fastq.gz	Fastqsanger.gz
	SRR16216068_2.fastq.gz	Fastqsanger.gz
	SRR16216069_1.fastq.gz	Fastqsanger.gz
	SRR16216069_2.fastq.gz	Fastqsanger.gz
	SRR16216070_1.fastq.gz	Fastqsanger.gz

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ARGONAUTE proteins regulate a specific network of genes through KLF4 in mESCs.

Project description:ARGONAUTE proteins regulate a specific network of genes through KLF4 in mESCs.

| PRJNA769055 | ENA

ARGONAUTE proteins regulate a specific network of genes through KLF4 in mESCs [ChIP-seq]

Project description:ARGONAUTE proteins regulate a specific network of genes through KLF4 in mESCs [ChIP-seq]

| PRJNA769213 | ENA

ARGONAUTE proteins regulate a specific network of genes through KLF4 in mESCs [ATAC-seq]

Project description:Purpose: Study of chromatin accessibility for mouse embryonic stem cells (mESC) depleted for Argonaute proteins

2022-03-24 | GSE185408 | GEO

ARGONAUTE proteins regulate a specific network of genes through KLF4 in mESCs [ChIP-seq]

Project description:Purpose: Study of H3K27me3 histone methylation for mouse embryonic stem cells (mESC) depleted for Argonaute proteins

2022-03-24 | GSE185409 | GEO

ARGONAUTE proteins regulate a specific network of genes through KLF4 in mESCs.

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

2022-03-24 | GSE185410 | GEO

Argonaute proteins regulate a specific network of genes through KLF4 in mouse embryonic stem cells.

Project description:The Argonaute proteins (AGOs) are well known for their role in post-transcriptional gene silencing in the microRNA (miRNA) pathway. Here we show that in mouse embryonic stem cells, AGO1&2 serve additional functions that go beyond the miRNA pathway. Through the combined deletion of both Agos, we identified a specific set of genes that are uniquely regulated by AGOs but not by the other miRNA biogenesis factors. Deletion of Ago2&1 caused a global reduction of the repressive histone mark H3K27me3 due to downregulation at protein levels of Polycomb repressive complex 2 components. By integrating chromatin accessibility, prediction of transcription factor binding sites, and chromatin immunoprecipitation sequencing data, we identified the pluripotency factor KLF4 as a key modulator of AGO1&2-regulated genes. Our findings revealed a novel axis of gene regulation that is mediated by noncanonical functions of AGO proteins that affect chromatin states and gene expression using mechanisms outside the miRNA pathway.

| S-EPMC9133645 | biostudies-literature

Casein kinase 1 and 2 phosphorylate Argonaute proteins to regulate miRNA-mediated gene silencing

Project description:MicroRNAs (miRNAs) together with Argonaute (AGO) proteins form the core of the RNA-induced silencing complex (RISC) to regulate gene expression of their target RNAs post-transcriptionally. Argonaute proteins are subjected to intensive regulation via various post-translational modifications that can affect their stability, silencing efficacy and specificity for targeted gene regulation. We report here that in Caenorhabditis elegans, two conserved serine/threonine kinases - casein kinase 1 alpha 1 (CK1A1) and casein kinase 2 (CK2) - regulate a highly conserved phosphorylation cluster of 4 Serine residues (S988:S998) on the miRNA-specific AGO protein ALG-1. We show that CK1A1 phosphorylates ALG-1 at sites S992 and S995, while CK2 phosphorylates ALG-1 at sites S988 and S998. Furthermore, we demonstrate that phospho-mimicking mutants of the entire S988:S998 cluster rescue the various developmental defects observed upon depleting CK1A1 and CK2. In humans, we show that CK1A1 also acts as a priming kinase of this cluster on AGO2. Altogether, our data suggest that phosphorylation of AGO within the cluster by CK1A1 and CK2 is required for efficient miRISC-target RNA binding and silencing.

2023-09-12 | GSE239453 | GEO

KLF family members KLF4 and KLF7 regulate corneal epithelium

Project description:KLF family members KLF4 and KLF7 regulate corneal epithelium

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Translation and codon usage regulate Argonaute slicer activity to trigger small RNA biogenesis

Project description:In the Caenorhabditis elegans germline, thousands of mRNAs are concomitantly expressed with antisense 22G-RNAs, which are loaded into the Argonaute CSR-1. Despite their essential functions for animal fertility and embryonic development, how CSR-1 22G-RNAs are produced remains unknown. Here, we show that CSR-1 slicer activity is primarily involved in triggering the synthesis of small RNAs on the coding sequences of germline mRNAs and post-transcriptionally regulates a fraction of targets. CSR-1-cleaved mRNAs prime the RNA-dependent RNA polymerase, EGO-1, to synthesize 22G-RNAs in phase with ribosome translation in the cytoplasm, in contrast to other 22G-RNAs mostly synthesized in germ granules. Moreover, codon optimality and efficient translation antagonize CSR-1 slicing and 22G-RNAs biogenesis. We propose that codon usage differences encoded into mRNA sequences might be a conserved strategy in eukaryotes to regulate small RNA biogenesis and Argonaute targeting

2021-04-23 | PXD020293 | Pride

Casein kinase 1 and 2 phosphorylate Argonaute proteins to regulate miRNA-mediated gene silencing

Project description:Casein kinase 1 and 2 phosphorylate Argonaute proteins to regulate miRNA-mediated gene silencing

| PRJNA999321 | ENA