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FBL catalyzes internal 2′-O-Methylation in mRNA to promote RNA stability

ABSTRACT: FBL catalyzes internal 2′-O-Methylation in mRNA to promote RNA stability

PROVIDER: PRJNA861010 | ENA |

REPOSITORIES: ENA

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			Action	DRS
		Other
	SRR20374460.fastq.gz	Fastqsanger.gz
	SRR20374461.fastq.gz	Fastqsanger.gz
	SRR20374462.fastq.gz	Fastqsanger.gz
	SRR20374463.fastq.gz	Fastqsanger.gz

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FBL catalyzes internal 2′-O-Methylation in mRNA to promote RNA stability

Project description:2′-O-Methylation is prominent in ribosome RNA catalyzed by Fibrillarin (FBL). However, the stoichiometry of 2′-O-methylation at base resolution in the internal mRNA and its functions remain to be explored. Here, we firstly investigate the effect of the 2′-O-methylation on the mRNA stability and expression at a genome-wide scale. Combined with Nanopore sequencing and a machine learning strategy, we identified thousands of RNA methylation sites in mRNA and rRNA at base resolution. The mRNA half-life profiling of FBL deficient cells established a direct effect of RNA methylation and FBL binding on the mRNA stability. We further determined the RNA methylation on the expression levels and tested the post-transcriptional effect of elevated FBL mediated 2′-O-Methylation in mRNA within the prostate cancer model. Besides the role of the translational regulation of FBL in rRNA, elevated FBL promotes cancer progress by stabilizing the mRNA through RNA binding and 2′-O-Methylation. Our results reveal a novel mechanism that FBL regulates the 2′-O-methylation and turnover of mRNA at whole transcriptome levels.

2024-06-20 | GSE208837 | GEO

Transcription profile of FBL-knock down ES cells

Project description:Pluripotent stem cells have been shown to have unique nuclear properties, e.g., hyperdynamic chromatin and large, condensed nucleoli. However, the contribution of the latter unique nucleolar character to pluripotency has not been well understood. Here, we show fibrillarin (FBL), a critical methyltransferase for ribosomal RNA (rRNA) processing in nucleoli, as one of the proteins highly expressed in pluripotent embryonic stem (ES) cells. Stable expression of FBL in ES cells prolonged the pluripotent state of mouse ES cells cultured in the absence of leukemia inhibitory factor (LIF). Analyses using deletion mutants and a point mutant revealed that the methyltransferase activity of FBL regulates stem cell pluripotency. Knock down of this gene led to significant delays in rRNA processing, growth inhibition, and apoptosis in mouse ES cells. Interestingly, both partial knock down of FBL and treatment with actinomycin D, an inhibitor for rRNA synthesis, induced the expression of differentiation markers in the presence of LIF and promoted stem cell differentiation into neuronal lineages. Moreover, we identified p53 signaling as the regulatory pathway for pluripotency and differentiation of ES cells. These results suggest that proper activity of rRNA production in nucleoli is a novel factor for the regulation of pluripotency and differentiation ability of ES cells. Tc-inducible FBL-knock down ES cells were cultured for 2 days with or without Tc in the presence of LIF. These 2 conditions were analysed transcription profile.

2014-08-01 | E-GEOD-51139 | biostudies-arrayexpress

CLASH for 15.5K and FBL proteins in HEK293T cells

Project description:We performed CLASH for 15.5K and FBL in HEK293T cells which overexpressed 15.5K and FBL, respectively.

2023-04-10 | GSE160636 | GEO

FBL promotes cancer cell resistance to DNA damage by transcriptionally regulating BRCA1 via YBX1

Project description:In order to study the molecular mechanism of FBL in cells, this project constructed the full length of FBL into the SFB (S-Flag-SBP tag) vector, and constructed a stable cell line overexpressing FBL. Affinity chromatography combined with LC-MS/MS technology to screen FBL interacting proteins.

2023-07-26 | PXD034434 | Pride

Transcription profile of FBL-knock down ES cells

2014-08-01 | GSE51139 | GEO

Next Generation Sequencing Facilitates Quantitative Analysis of Wild Type and Fbl+/- Raw264.7 Transcriptomes

Project description:The goal of this study is to compare NGS-derived wild-type Raw264.7 transcriptome profiling (RNA-seq) to NGS-derived Fibrillarin knockdown (Fbl+/-) Raw264.7 RNA-seq. The mRNA profiles of wild-type Raw264.7 and Fbl+/− Raw264.7 were generated by deep sequencing, in duplicate, using illumina NovaSeq 6000.

2022-04-05 | GSE185660 | GEO

Pseudouridylation is coupled with polyadenylation ot promote mRNA stability

Project description:Pseudouridylation is coupled with polyadenylation ot promote mRNA stability

| PRJNA764200 | ENA

FBL promotes cancer cell proliferation and DNA damage repair via YBX1

Project description:To further investigate the underlying function and molecular mechanism of FBL in DNA damage response, we conducted RNA sequencing analysis (RNA-seq) and detected the genome-wide transcriptomic changes in HCT116 cells and shFBL-HCT116 cells following MMC treatment. Together, these data indicate that the activation of the FBL/YBX1 signaling axis upon DNA damage regulates the transcriptional activation of genes directly involved in the repair of DNA DSBs, such as BRCA1 and contributes to promoting the resistance of cells to DNA-damaging agents.

2023-07-13 | GSE205366 | GEO

Trem2 Agonist Reprograms Foamy Macrophages to Promote Atherosclerotic Plaque Stability

Project description:Trem2 Agonist Reprograms Foamy Macrophages to Promote Atherosclerotic Plaque Stability

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dRNA sequencing of Drosophila FBL KD

Project description:dRNA sequencing of Drosophila FBL KD

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