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Genome-wide measurement of RNA levels following depletion of RNAPII from the nucleus, in wildtype and SPP1 deletion strains.

ABSTRACT: Genome-wide measurement of RNA levels following depletion of RNAPII from the nucleus, in wildtype and SPP1 deletion strains.

PROVIDER: PRJNA552548 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR9641290.fastq.gz	Fastqsanger.gz
	SRR9641300.fastq.gz	Fastqsanger.gz
	SRR9641291.fastq.gz	Fastqsanger.gz
	SRR9641301.fastq.gz	Fastqsanger.gz
	SRR9641292.fastq.gz	Fastqsanger.gz

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Genome-wide measurement of RNA levels following depletion of RNAPII from the nucleus, in wildtype and SPP1 deletion strains.

Project description:Ablation of H3K4me3 by deletion of SPP1 has no strong or consistent effect on the rate of mRNA degradation following depeletion of RNAPII from the nucleus.

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Genome-wide measurement of H3K4me3 and H3K36me3 levels following depletion of RNAPII from the nucleus via an anchor-away system.

Project description:Despite the well-reported association between H3K4me3 and transcription, depletion of RNAPII from the nucleus has little effect on H3K4me3, while having a much larger effect on H3K36me3

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Genome-wide measurement of H3K4me3 and H3K36me3 levels following depletion of RNAPII from the nucleus via an anchor-away system.

Project description:Genome-wide measurement of H3K4me3 and H3K36me3 levels following depletion of RNAPII from the nucleus via an anchor-away system.

| PRJNA552549 | ENA

Genome-wide levels of H3K4me3 following deletion of COMPASS subunit SPP1

Project description:We report a drastic genome-wide reduction of H3K4me3 levels following deletion of SPP1.

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Characterization of Spp1-TAP and Mer2-TAP interactomes

Project description:Histone H3K4 methylation is a feature of meiotic recombination hotspots shared by many organisms including plants and mammals. Meiotic recombination is initiated by programmed double strand break (DSB) formation that in budding yeast is directed in gene promoters by histone H3K4 di/trimethylation. This histone modification is indeed recognized by Spp1, a PHD-finger containing protein that belongs to the conserved histone H3K4 methyltransferase Set1 complex. During meiosis, Spp1 binds H3K4me and recruits a DSB protein, Mer2, to promote DSB formation close to gene promoters. How Set1C and Mer2 related functions of Spp1 are connected is not clear.

2018-01-30 | PXD007590 | Pride

Phase separation of CTD of RNAPII

Project description:The carboxy-terminal domain (CTD) of the largest subunit of RNA Polymerase II (RNAPII) consists of multiple tandem repeats of the heptapeptide consensus Y1-S2-P3-T4-S5-P6-S7. RNAPII CTD is intrinsically disordered and has been shown to promote liquid-liquid phase-separation (LLPS) of RNAPII in vivo. However, understanding the precise role of the conserved heptad residues in LLPS has been hampered by the lack of direct characterization of the biochemical properties of the CTD. Here, we generated a systematic array of RNAPII CTD variants to unravel the sequence-encoded molecular grammar underlying LLPS of the human CTD.

2024-09-19 | PXD049700 | Pride

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Project description:Marginal zone (IgM[hi] CD23[lo]MZ) and Follicular B (IgM[lo] CD23[hi]FB) cells in SCID Spp1-/- mice have different profile from naïve and Spp1-/- B cells. In addition, OPN mutation on the SCID background induced upregulation of genes involved in DNA replication and class switching of B cells

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Genome-wide levels of H3K4me3 following deletion of COMPASS subunit SPP1

Project description:Genome-wide levels of H3K4me3 following deletion of COMPASS subunit SPP1

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pSer2-RNAPII interaction partners in MEF cells (label free)

Project description:Deregulation of RNA Polymerase II (RNAPII) by oncogenic signaling leads to collisions of RNAPII with DNA synthesis machinery (transcription-replication conflicts, TRCs). TRCs can result in DNA damage and underlie genomic instability in tumor cells. Here we provide evidence that elongating RNAPII promotes activation of the ATM kinase at TRCs to drive DNA repair. We show the ATPase Wrnip1 that binds and protects stalled replication forks, associates with RNAPII and limits ATM activation. Wrnip1 binding to elongating RNAPII requires catalytic activity of the ubiquitin ligase Huwe1. Mutation of Huwe1 promotes the transfer of Wrnip1 onto replisome and induces TRCs stimulating ATM activation on RNAPII. This mechanism is evoked early upon replicative stress to induce Wrnip1 translocation and ATM signaling at TRCs. Thus, although primarily considered as genotoxic events, TRCs can provide a mechanism to maintain genome stability under replicative stress.

2023-07-31 | PXD037680 | Pride

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