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The H2Bub1-deposition complex is required for human and mouse cardiogenesis (ChIP-Seq)

ABSTRACT: The H2Bub1-deposition complex is required for human and mouse cardiogenesis (ChIP-Seq)

PROVIDER: PRJNA1032889 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR26552031_1.fastq.gz	Fastqsanger.gz
	SRR26552031_2.fastq.gz	Fastqsanger.gz
	SRR26552032_1.fastq.gz	Fastqsanger.gz
	SRR26552032_2.fastq.gz	Fastqsanger.gz
	SRR26552033_1.fastq.gz	Fastqsanger.gz

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The H2Bub1-deposition complex is required for human and mouse cardiogenesis (RNA-Seq)

Project description:De novo variants affecting monoubiquitination of histone H2B (H2Bub1) are enriched in human congenital heart disease. H2Bub1 is required in stem cell differentiation, cilia function, post-natal cardiomyocyte maturation, and transcriptional elongation. However, how H2Bub1 affects cardiogenesis is unknown. We show that the H2Bub1-deposition complex (RNF20-RNF40-UBE2B) is required for mouse cardiogenesis and for differentiation of human iPSCs into cardiomyocytes. Mice with cardiac-specific Rnf20 deletion are embryonic lethal and have abnormal myocardium. We then analyzed H2Bub1 marks during differentiation of human iPSCs into cardiomyocytes. H2Bub1 is erased from most genes at transition from cardiac mesoderm to cardiac progenitor cells, but is preserved on a subset of long cardiac-specific genes. When H2Bub1 is reduced in iPSC-cardiomyocytes, long cardiac-specific genes have fewer full-length transcripts. This correlates with H2Bub1 accumulation near the center of these genes. H2Bub1 accumulation near the center of tissue-specific genes was also observed in embryonic fibroblasts and fetal osteoblasts. In summary, we show that normal H2Bub1 distribution is required for cardiogenesis and cardiomyocyte differentiation, and point to H2Bub1 regulating tissue-specific gene expression by increasing the amount of full-length transcripts.

2023-10-31 | GSE246411 | GEO

The H2Bub1-deposition complex is required for human and mouse cardiogenesis (ChIP-Seq)

2023-10-31 | GSE246410 | GEO

The H2Bub1-deposition complex is required for human and mouse cardiogenesis

Project description:The H2Bub1-deposition complex is required for human and mouse cardiogenesis

| PRJNA1032891 | ENA

The H2Bub1-deposition complex is required for human and mouse cardiogenesis (RNA-Seq)

Project description:The H2Bub1-deposition complex is required for human and mouse cardiogenesis (RNA-Seq)

| PRJNA1032897 | ENA

The H2Bub1-deposition complex is required for human and mouse cardiogenesis.

Project description:De novo variants affecting monoubiquitylation of histone H2B (H2Bub1) are enriched in human congenital heart disease. H2Bub1 is required in stem cell differentiation, cilia function, post-natal cardiomyocyte maturation and transcriptional elongation. However, how H2Bub1 affects cardiogenesis is unknown. We show that the H2Bub1-deposition complex (RNF20-RNF40-UBE2B) is required for mouse cardiogenesis and for differentiation of human iPSCs into cardiomyocytes. Mice with cardiac-specific Rnf20 deletion are embryonic lethal and have abnormal myocardium. We then analyzed H2Bub1 marks during differentiation of human iPSCs into cardiomyocytes. H2Bub1 is erased from most genes at the transition from cardiac mesoderm to cardiac progenitor cells but is preserved on a subset of long cardiac-specific genes. When H2Bub1 is reduced in iPSC-derived cardiomyocytes, long cardiac-specific genes have fewer full-length transcripts. This correlates with H2Bub1 accumulation near the center of these genes. H2Bub1 accumulation near the center of tissue-specific genes was also observed in embryonic fibroblasts and fetal osteoblasts. In summary, we show that normal H2Bub1 distribution is required for cardiogenesis and cardiomyocyte differentiation, and suggest that H2Bub1 regulates tissue-specific gene expression by increasing the amount of full-length transcripts.

| S-EPMC10730087 | biostudies-literature

The H2Bub1-deposition complex is required for human and mouse cardiogenesis

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

2023-10-31 | GSE246413 | GEO

BMAL1-TTK-H2Bub1 loop deficiency contributes to impaired BM-MSC-mediated bone formation in senile osteoporosis

Project description:We performed multiomic high-throughput sequencing to recapitulated the BMAL1-H2Bub1 loop in mesenchymal stem cells osteogenesis. We used lentiviruses to diminish RNF40 and WAC, which are parts of the obligate complex and monoubiquitinated histone H2B, in MSCs, and analysed the H2Bub1 and PolII CUT&Tag-seq.

2022-08-06 | GSE210425 | GEO

A Linc1405/Eomes Complex Promotes Cardiac Mesoderm Specification and Cardiogenesis

Project description:Large intergenic non-coding RNAs (lincRNAs) play widespread roles in epigenetic regulation during multiple differentiation processes, but little is known about their mode of action in cardiac differentiation. Here, we identified the key roles of a lincRNA, termed linc1405, in modulating the core network of cardiac differentiation by functionally interacting with Eomes. Chromatin- and RNA- immunoprecipitation assays showed that exon2 of linc1405 physically mediates a complex consisting of Eomes, Trithorax group (TrxG) subunit WDR5, and histone acetyltransferase GCN5 binding at the enhancer region of Mesp1 gene and activates its expression during cardiac mesoderm specification of embryonic stem cells. Importantly, linc1405 co-localizes with Eomes, WDR5, and GCN5 at the primitive streak and linc1405 depletion impairs heart development and function in vivo. In summary, linc1405 mediates a Eomes/WDR5/GCN5 complex that contributes to cardiogenesis, highlighting the critical roles of lincRNA-based complexes in the epigenetic regulation of cardiogenesis in vitro and in vivo.

2018-02-27 | GSE111132 | GEO

A Linc1405/Eomes Complex Promotes Cardiac Mesoderm Specification and Cardiogenesis

Project description:A Linc1405/Eomes Complex Promotes Cardiac Mesoderm Specification and Cardiogenesis

| PRJNA435989 | ENA

Histone H2Bub1 deubiquitylation is essential for mouse development, but does not regulate global RNA [ChIP-Seq]

Project description:The deubiquitinating module (DUBm) of mammalian SAGA complex is composed of the ubiquitin-specific protease 22 (USP22) and ATXN7, ATXN7L3 and ENY2 adaptor proteins, which are all needed for the full activity of USP22 enzyme. In addition, ATXN7L3 is critical for directing the DUB module substrate specificity towards H2Bub1. We reported that USP22 and ATXN7L3 are essential for normal embryonic development of mice, however their requirements are not identical during this process. Global histone H2Bub1 levels were only slightly affected in Usp22 null embryos, while in contrast H2Bub1 levels were strongly increased in Atxn7l3 null mutants and derived cellular systems. Interestingly, the strong H2Bub1 increases observed in the Atxn7l3-/- mouse embryonic stem cells, or Atxn7l3-/- mouse embryonic fibroblasts, do not correlate with the modest genome-wide Pol II occupancy changes observed in the two knock-out cellular systems. Thus, histone H2Bub1 deubiquitylation does not directly regulate global RNA polymerase II transcription.

2021-02-16 | GSE153584 | GEO

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