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RNA-seq for siNr1h2 in mouse blastoid samples and T0901317-treatment in mouse ESC and EPSC

ABSTRACT: RNA-seq for siNr1h2 in mouse blastoid samples and T0901317-treatment in mouse ESC and EPSC

PROVIDER: PRJNA867550 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR20983017_1.fastq.gz	Fastqsanger.gz
	SRR20983017_2.fastq.gz	Fastqsanger.gz
	SRR20983018_1.fastq.gz	Fastqsanger.gz
	SRR20983018_2.fastq.gz	Fastqsanger.gz
	SRR20983019_1.fastq.gz	Fastqsanger.gz

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RNA-seq for siNr1h2 in mouse blastoid samples and T0901317-treatment in mouse ESC and EPSC

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Project description:Embryonic stem cells upon extrinsic induction could self-assemble into blastocyst-like structures. However, the intrinsic regulation of such blastoid forming potential remain to be addressed. We discover that the activity of nuclear receptor subfamily 1, group H, member 2 (Nr1h2) in expanded potential stem cell (EPSC) positively correlates with blastoid efficiency and quality. In addition, Nr1h2 agonist, T0901317, improves natural blastocyst development. Surprisingly, Nr1h2-activated ESC (NrESC) is rewired towards a distinct pluripotency state that is capable of self-organizing into blastoids and contribute to embryonic and extraembryonic lineage. We hypothesize that Nr1h2 activation broadly affects the DNA methylation to rewire ESC state. Indeed, from WGBS data, we observe that genome-wide DNA methylation differences in NrESC or EPSC after treated with T09 . In summary, our study demonstrates a novel Nr1h2-centric regulation of expanded pluripotency.

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Analysis of Nr1h2 and H3K27ac genomic binding targets in ESC and EPSC under Nr1h2 activation

Project description:ChIP-seq for Nr1h2 in NrESC, ESC. H3K27ac ChIP-seq in NrESC, ESC, EPSC, EPSCT09 Embryonic stem cells upon extrinsic induction could self-assemble into blastocyst-like structures. However, the intrinsic regulation of such blastoid forming potential remain to be addressed. We discover that the activity of nuclear receptor subfamily 1, group H, member 2 (Nr1h2) in expanded potential stem cell (EPSC) positively correlates with blastoid efficiency and quality. In addition, Nr1h2 agonist, T0901317, improves natural blastocyst development. Surprisingly, Nr1h2-activated ESC (NrESC) is rewired towards a distinct pluripotency state that is capable of self-organizing into blastoids and contribute to embryonic and extraembryonic lineage. We hypothesize that Nr1h2 activation broadly affects the transcriptome landscape by regulating chromatin accessibility and epigenome to rewire ESC state. Indeed, from Nr1h2 and H3K27Ac ChIP-seq, we observe that annotated genes with upregulated Nr1h2 binding as well as H3K27Ac marks in NrESC or EPSC treated with T09 are enriched in processes such as lipid metabolism, pluripotency maintenance and trophectoderm maturation, which are known to be essential to blastocyst development. In summary, our study demonstrates a novel Nr1h2-centric regulation of expanded pluripotency.

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Project description:ATAC-seq in NrESC_1, NrESC_16, ESC, EPSC Embryonic stem cells upon extrinsic induction could self-assemble into blastocyst-like structures. However, the intrinsic regulation of such blastoid forming potential remain to be addressed. We discover that the activity of nuclear receptor subfamily 1, group H, member 2 (Nr1h2) in expanded potential stem cell (EPSC) positively correlates with blastoid efficiency and quality. In addition, Nr1h2 agonist, T0901317, improves natural blastocyst development. Surprisingly, Nr1h2-activated ESC (NrESC) is rewired towards a distinct pluripotency state that is capable of self-organizing into blastoids and contribute to embryonic and extraembryonic lineage. We hypothesize that Nr1h2 activation broadly affects the transcriptome landscape by regulating chromatin accessibility and epigenome to rewire ESC state. Indeed, from ATAC-seq analysis, we observe some genomic regions progressively gained accessibility in NrESC over passages, which lead to a unique chromatin accessibility profile in NrESC compared to conventional ESC and EPSC. Binding motifs of Pou5f1, Sox2 and Tead4, which are known master regulator of blastocyst lineage specification, showed gained accessibility in NrESC. In summary, our study demonstrates a novel Nr1h2-centric regulation of expanded pluripotency in terms of chromatin reorganization.

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