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Dimorphic H3K27 methylation guides germline or vegetative cell fate dichotomy in male gametophytes [CUT&Tag]

ABSTRACT: During angiosperm male gametogenesis, microspores divide to produce a vegetative cell (VC) and a male germline (MG), each with a distinct cell fate. How the MG cell/VC fate is determined remains largely unknown. Here, we report that the VC-targeted H3K27me3 erasure resulted in VC fate transition towards a gamete destination. Multi-omics and cytologic analysis reveal that H3K27me3 is essential for VC fate commitment and contributes to suppress the MG cell fate initiation in VC, whereas MG cells require H3K27me3 reprograming for the gamete cell fate. This work suggests that the MG cell/VC fate is epigenetically regulated. The dimorphic H3K27 methylation acts as a core switch to determine their distinct cell fates and ensure the functional specification of both VC and MG for pollen fertility. This work also provides direct evidences for the proposal that VC maintains the default developmental program of microspore, whereas MG requires reprogramming.

ORGANISM(S): Arabidopsis thaliana

PROVIDER: GSE162637 | GEO | 2022/08/03

REPOSITORIES: GEO

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Dimorphic H3K27 methylation guides germline or vegetative cell fate dichotomy in male gametophytes [RNA-seq]

Project description:During angiosperm male gametogenesis, microspores divide to produce a vegetative cell (VC) and a male germline (MG), each with a distinct cell fate. How the MG cell/VC fate is determined remains largely unknown. Here, we report that the VC-targeted H3K27me3 erasure resulted in VC fate transition towards a gamete destination. Multi-omics and cytologic analysis reveal that H3K27me3 is essential for VC fate commitment and contributes to suppress the MG cell fate initiation in VC, whereas MG cells require H3K27me3 reprograming for the gamete cell fate. This work suggests that the MG cell/VC fate is epigenetically regulated. The dimorphic H3K27 methylation acts as a core switch to determine their distinct cell fates and ensure the functional specification of both VC and MG for pollen fertility. This work also provides direct evidences for the proposal that VC maintains the default developmental program of microspore, whereas MG requires reprogramming.

2022-08-03 | GSE162639 | GEO

Dimorphic H3K27 methylation guides germline or vegetative cell fate dichotomy in male gametophytes [ATAC-seq]

2022-08-03 | GSE162638 | GEO

Vitamin C-dependent lysine demethylase 6 (KDM6)-mediated demethylation promotes a chromatin state that supports the endothelial-to-hematopoietic transition

Project description:Hematopoietic stem cells (HSCs)/progenitor cells (HPCs) are generated from hemogenic endothelial cells (HECs) during the endothelial-to-hematopoietic transition (EHT); however, the underlying mechanism remains poorly understood. Here, using an array of approaches, including CRSPR/Cas9 gene knockouts, RNA-Seq, ChIP-Seq, ATAC-Seq etc., we report that vitamin C (Vc) is essential in HPC generation during human pluripotent stem cell (hPSC) differentiation in defined culture conditions. Mechanistically, we found that the endothelial cells generated in the absence of Vc fail to undergo the EHT because of an apparent failure in opening up genomic loci essential for hematopoiesis. Under Vc deficiency, these loci exhibited abnormal accumulation of histone H3 trimethylation at Lys-27 (H3K27me3), a repressive histone modification that arose because of lower activities of demethylases that target H3K27me3. Consistently, deletion of the two H3K27me3 demethylases, Jumonji domain-containing 3 (JMJD3 or KDM6B) and histone demethylase UTX (UTX or KDM6A), impaired HPC generation even in the presence of Vc. Furthermore, we noted that Vc and jmjd3 are also important for HSC generation during zebrafish development. Together, our findings reveal an essential role for Vc in the EHT for hematopoiesis, and identify KDM6-mediated chromatin demethylation as an important regulatory mechanism in hematopoietic cell differentiation.

2019-07-22 | GSE132833 | GEO

Vitamin C dependent KDM6 demethylation specifies a functional chromatin state for endothelial-to-hematopoietic transition [RNA-Seq]

Project description:Hematopoietic stem/progenitor cells (HSPCs) are generated from hemogenic endothelial cells (HECs) through endothelial-to-hematopoietic transition (EHT); however, the underlying mechanism remains poorly understood. Here, we report that HPC generation is significantly reduced in hPSC differentiatiation in a defined condition without vitamin C (Vc). Mechanistically, the endothelial cells generated in the absence of Vc fail to undergo EHT due to apparent failure in opening genomic loci essential for hematopoiesis. These loci exhibit abnormal accumulation of H3K27me3, a repressive histone modification due to lower activity of its demethylases. Consistently, deletion of H3K27me3 demethylases, JMJD3 and UTX, impaires HPC generation in the presence of Vc. Furthermore, Vc and jmjd3 are also important for HSC generation during zebrafish development. Together, we reveal an obligatory role of Vc underlying EHT process in hematopoisis and further support the important function of Vc during development.

2019-07-22 | GSE132969 | GEO

Vitamin C dependent KDM6 demethylation specifies a functional chromatin state for endothelial-to-hematopoietic transition [ChIP-Seq]

2019-07-22 | GSE132834 | GEO

Dimorphic H3K27 methylation guides germline or vegetative cell fate dichotomy in male gametophytes

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

2022-08-03 | GSE162640 | GEO

LncRNA and mRNA Sequencing Analysis of Left Testis in Experimental Varicocele Rats Treated with Morinda officinalis Polysaccharide

Project description:Purpose: Next-generation sequencing (NGS) was performed to illustrate the genetic molecular mechanism underlying varicocele (VC) pathogenesis and Morinda officinalis polysaccharide (MOP) repair effect. Methods: The male Sprague–Dawley (SD) rats (about 6-7 weeks old and 200±10g weight) were divided into three groups: 1) control group (Control); 2) experimental varicocele group (VC); 3) 300 mg kg-1 MOP administration group (VC+MOP). The next-generation RNA sequencing were performed to identify the differentially-expressed mRNA and lncRNA in left testicular tissue between each two compared group. Results: The result show that a total of 144 mRNAs and 63 LncRNAs, 63 mRNAs and 148 LncRNAs , 173 mRNAs and 54 LncRNAs were found differentially expressed between compared group VC vs. Control, VC+MOP vs. VC, and VC+MOP vs. Control respectively. Conclusions: Our study try to offer a indication for novel diagnose marker and therapeutic method, as well as provide feasible research orientations for further study.

2021-09-08 | GSE139447 | GEO

Identification of BAHCC1 protein interactors

Project description:Trimethylation of histone H3 lysine 27 (H3K27me3) regulates gene repression, cell-fate determination and differentiation. We report that a conserved Bromo-Adjacent Homology (BAH) module of BAHCC1 (BAHCC1BAH) ‘recognizes’ H3K27me3 specifically and enforces silencing of H3K27me3-demarcated genes in mammalian cells. Biochemical, structural and ChIP-seq-based analyses demonstrate that direct readout of H3K27me3 by BAHCC1 is achieved through a hydrophobic trimethyl-lysine-binding ‘cage’ formed by BAHCC1BAH, mediating co-localization of BAHCC1 and H3K27me3-marked genes. BAHCC1 is overexpressed in human acute leukemias and interacts with transcriptional co-repressors. In leukemia, depletion of BAHCC1, or disruption of the BAHCC1BAH:H3K27me3 interaction, causes de-repression of H3K27me3-targeted genes that are involved in tumor suppression and cell differentiation, leading to suppression of oncogenesis. In mice, introduction of a germ-line mutation at Bahcc1 to disrupt its H3K27me3 engagement causes partial postnatal lethality, supporting a role in development. This study unveils a novel H3K27me3-directed transduction pathway in mammals that relies on a conserved BAH ‘reader’.

2020-11-05 | PXD021679 | Pride

Natural variation of H3K27me3 determines genes important for cell fate in the unicellular eukaryotic model Phaeodactylum tricornutum

Project description:In multicellular organisms, tri-methylation of lysine 27 of histone H3 (H3K27me3) was shown to be deposited by Polycomb Repressive Complex 2 (PRC2) to establish and maintain silencing, critical for cell fate and developmentally regulated processes. PRC2 complex is absent in both yeast Saccharomyces cerevisiae and S. pombe which initially suggested that PRC2 arose with the emergence of multicellularity. However, its discovery in several microalgae questions its role in this important class of organisms. Here, we show using mutants of the homologue of catalytic unit of PRC2, enhancer of zeste E(z) in the model diatom P. tricornutum (Pt), which presents different morphotypes (fusiform, triradiate, oval and cruciform) that Pt E(z) is responsible of di and tri-methylation of lysine 27. Indeed, H3K27me3 depletion causes the distortion of the morphology providing evidence for a role of H3K27me3 in cell differentiation in unicellular species. H3K27me3 genome wide profiling in fusiform and triradiate further revealed genes important for cell identity. These results suggest a role of PRC2 and its associated mark in cell fate in unicellular species and their ancestral function in a broad evolutionary context.

2020-12-07 | PXD012347 | Pride

Transcriptomic analysis of gene expression in diosgenin producing yeast strains

Project description:To detect the true expression patterns of diosgenin (DSG) synthetic genes after pathway engineering as well as investigate the impact of the DSG accumulation on the physiological state of yeast cells, a global analysis of the transcriptomes of DSG producing strains was performed using mRNA sequencing (RNA-Seq). DSG producing strains include LP085-Vc (DSG titer of 8.0 mg/L), LP104-17 (24.6 mg/L), and LP118 (31.4mg/L) were grown in SD media (2% w/v glucose) and cell samples of the 6h and 24h fermentation time points were collected for transcriptome analyses.

2022-08-11 | GSE182131 | GEO

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