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The catalytic activity of TET1 is required for human germ cell fate choice [scRNA-seq]

ABSTRACT: The catalytic activity of TET1 is required for human germ cell fate choice [scRNA-seq]

PROVIDER: PRJNA899508 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR22230545.fastq.gz	Fastqsanger.gz
	SRR22230546.fastq.gz	Fastqsanger.gz
	SRR22230547.fastq.gz	Fastqsanger.gz
	SRR22230548.fastq.gz	Fastqsanger.gz
	SRR22230549.fastq.gz	Fastqsanger.gz

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The catalytic activity of TET1 is required for human germ cell fate choice

Project description:The catalytic activity of TET1 is required for human germ cell fate choice

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The catalytic activity of TET1 is required for human germ cell fate choice [Bisulfite-Seq]

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The catalytic activity of TET1 is required for human germ cell fate choice [bACE-Seq]

Project description:The catalytic activity of TET1 is required for human germ cell fate choice [bACE-Seq]

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The catalytic activity of TET1 is required for human germ cell fate choice [bACE-Seq]

Project description:Primordial germ cell (PGC) is the foundation of the germline which become gametes and transmit genetic and epigenetic information to the next generation. The segregation of germline and soma is critical yet well-characterized in human during embryonic development due to ethical consideration. Here we discover that human TET1 (Ten-eleven translocation 1) acts as a safety check of germline cell fate. Using CRISPR/Cas9 to knock-out TET1 catalytic domain, we demonstrate extremely low hPGCLC (hPGC-like cell) competency of undifferentiated pluripotent stem cell lines. We plot whole-genome 5’hydroxymethylation (5hmC) profiles to elucidate global as well as locus-specific 5hmC enrichment in hPGCLCs, indicating the DNA oxygenase activity of TET1 is active during hPGCLC differentiation.

2023-09-12 | GSE218910 | GEO

The catalytic activity of TET1 is required for human germ cell fate choice [Bisulfite-Seq]

2023-09-12 | GSE217954 | GEO

The catalytic activity of TET1 is required for human germ cell fate choice [scRNA-seq]

2023-09-12 | GSE217542 | GEO

The catalytic activity of TET1 is required for human germ cell fate choice [bulk RNA-seq]

2023-09-12 | GSE217541 | GEO

The catalytic activity of TET1 is required for human germ cell fate choice [bulk RNA-seq]

Project description:The catalytic activity of TET1 is required for human germ cell fate choice [bulk RNA-seq]

| PRJNA899507 | ENA

Coordination of germ-layer lineage choice by TET1 during primed pluripotency

Project description:Coordination of germ-layer lineage choice by TET1 during primed pluripotency

| PRJNA605177 | ENA

Dissection of TET1 catalytic and non-catalytic functions reveals DNA demethylation independent gene and ERV regulation

Project description:Surveillance of DNA methylation in mammals is critical for genome stability and epigenetic regulation. The discovery of the ten-eleven translocation (TET) proteins catalyzing the oxidation from 5-methylcytosine (5mC) to 5-hydroxymethylcytosine (5hmC), 5-formylcytosine (5fC), and 5-carboxylcytosine (5caC) revolutionized the understanding of DNA methylation dynamics. Interestingly, in recent years evidence accumulated that TET1 also harbours non-catalytic functions. However, the role and mechanism of TET1 DNA demethylation independent functions still remain poorly understood. Here, we use genome engineering and quantitative multi-omics approaches to dissect the non-catalytic role of TET1. Strikingly, we find that the majority of transcriptional regulation depends on non-catalytic functions of TET1. To gain insights into possible mechanisms by which TET1 regulates transcription independent of DNA demethylation, we asked if the loss of TET1 is accompanied by changes in the histone modificaiton landscape. To this end, we compared the relative abundances of core histone modifications between Tet1 KO, Tet1 CM and WT mESCs using quantitative LC-MS/MS analysis. Surprisingly, we observed a profound global reduction of pH4Kac and H4K20me3 as well as H3K27me3 in Tet1 KO mESC. Vice versa, the monomethylation states of the latter two residues, H3K27me1 and H4K20me1 were significantly increased in Tet1 KO. Similar to the results from the transcriptome data, most of these changes were specific to Tet1 KO cells.

2022-08-11 | PXD028566 | Pride

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