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FUS modulates the level of ribosomal RNA modifications by regulating a subset of snoRNA expression [RiboMeth-Seq]

ABSTRACT: FUS modulates the level of ribosomal RNA modifications by regulating a subset of snoRNA expression [RiboMeth-Seq]

PROVIDER: PRJNA833878 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR19023588.fastq.gz	Fastqsanger.gz
	SRR19023589.fastq.gz	Fastqsanger.gz
	SRR19023590.fastq.gz	Fastqsanger.gz
	SRR19023591.fastq.gz	Fastqsanger.gz

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FUS modulates the level of ribosomal RNA modifications by regulating a subset of snoRNA expression [RiboMeth-Seq]

Project description:FUS is a nucleocytoplasmic protein involved in many processes such as RNA transport, translation, and metabolism as well as genomic maintenance. FUS mutations are found in several neurodegenerative diseases. We find that FUS knockout (KO) and FUS mutation affects the expression of many C/D box snoRNAs, H/ACA box snoRNAs and scaRNAs. snoRNAs notably serve as adaptors for the 2'-O-methylation (2'-O-me) and pseudouridylation of ribosomal RNA (rRNA).

2023-03-15 | GSE201972 | GEO

FUS modulates the level of ribosomal RNA modifications by regulating a subset of snoRNA expression

Project description:FUS modulates the level of ribosomal RNA modifications by regulating a subset of snoRNA expression

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FUS modulates the level of ribosomal RNA modifications by regulating a subset of snoRNA expression [HydraPsiSeq]

Project description:FUS modulates the level of ribosomal RNA modifications by regulating a subset of snoRNA expression [HydraPsiSeq]

| PRJNA836439 | ENA

FUS modulates the level of ribosomal RNA modifications by regulating a subset of snoRNA expression [HydraPsiSeq]

Project description:FUS is a nucleocytoplasmic protein involved in many processes such as RNA transport, translation, and metabolism as well as genomic maintenance. FUS mutations are found in several neurodegenerative diseases. We find that FUS knockout (KO) affects the expression of many C/D box snoRNAs, H/ACA box snoRNAs and scaRNAs. snoRNAs notably serve as adaptors for the 2'-O-methylation (2'-O-me) and pseudouridylation of ribosomal RNA (rRNA). We show that knockout and FUS mutation alter the levels of 2'-O-Me and pseudouridylation at several rRNA sites.

2023-02-21 | GSE202524 | GEO

FUS modulates the level of ribosomal RNA modifications by regulating a subset of snoRNA expression [Small RNA seq]

2023-02-21 | GSE202529 | GEO

FUS modulates the level of ribosomal RNA modifications by regulating a subset of snoRNA expression [Small RNA seq]

Project description:FUS modulates the level of ribosomal RNA modifications by regulating a subset of snoRNA expression [Small RNA seq]

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Regulated snoRNA expression during differentiation corresponds with a change in ribosomal RNA pseudouridylation and altered pre-ribosomal RNA processing [Nano77]

Project description:H/ACA small nucleolar RNAs (snoRNAs) guide pseudouridylation as part of a small nucleolar ribonucleoprotein complex (snoRNP). Disruption of H/ACA snoRNA expression in stem cells impairs pluripotency, yet it remains unclear how H/ACA snoRNAs contribute to differentiation. To determine if H/ACA snoRNA expression is dynamic during differentiation, we comprehensively profiled H/ACA snoRNA expression in multiple murine cell types and during differentiation in three cellular models, including mouse embryonic stem cells and mouse myoblasts. We determined that H/ACA snoRNA expression is cell-type specific, and we identified a subset of snoRNAs that are specifically regulated during differentiation. Additionally, we demonstrated that a decrease in Snora27 expression upon differentiation corresponds to a decrease in pseudouridylation of its target site within the E-site transfer RNA (tRNA) binding region of the 28S ribosomal RNA (rRNA) in the large ribosomal subunit. Many of the snoRNAs regulated during differentiation have target nucleotides in the 28S rRNA, and we found that pre-rRNA processing of large subunit precursors is altered during differentiation. Together, these data suggest a model in which H/ACA snoRNAs are specifically regulated during differentiation to potentially alter pseudouridylation and fine tune ribosome function.

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Regulated snoRNA expression during differentiation corresponds with a change in ribosomal RNA pseudouridylation and altered pre-ribosomal RNA processing [Nano104]

2020-07-09 | GSE140618 | GEO

RiboMeth-seq profiling of ribose methylations in ribosomal RNA of proliferating, quiescent and senescent primary human dermal fibroblasts.

Project description:The 2’-O-methylation (2’-O-Me) of ribosomal RNA (rRNA) shows plasticity potentially associated with specific cell phenotypes. We used RiboMeth-seq profiling to reveal senescence- and proliferation-specific 2’-O-Me patterns in stress induced premature senescent (SIPS) human dermal fibroblasts.

2023-01-01 | GSE171050 | GEO

Atypical U3 snoRNA Suppresses the Process of Pterygia through Modulating 18S Ribosomal RNA Synthesis

Project description:Ribosome biosynthesis plays a crucial role in regulating protein translation and is essential for cell growth and development in physiological progress. The progression and recurrence of Pterygia mainly occur due to the abnormal proliferation and migration of stromal Pterygia fibroblasts. Small nucleolar RNA U3 (U3 snoRNA), harboring the atypical C/D boxes, is involved in 18S ribosomal RNA (18S rRNA) synthesis; however, the mechanism of U3 snoRNA in Pterygia remains unclear. Methods: Primary HCFs and HPFs were separated and cultured from fresh conjunctival grafts and Pterygia tissues. The PLKO.1 lentiviral system and CRISPR/Cas9 recombinant construct were, respectively, used to overexpress and silence U3 snoRNA in HPF and HCF cells for further specific phenotypes analysis. RNA-seq and TMT-labeled quantitative protein mass spectrometry were utilized to evaluate the effect of U3 snoRNA on mRNA transcripts and protein synthesis. Results: Reduced U3 snoRNA in Pterygia promotes HCF or HPF cells' proliferation, migration, and cell cycle but has no significant effect on apoptosis. U3 snoRNA modulates 18S rRNA synthesis through shearing precursor ribosomal RNA 47S rRNA at the 5′ external transcribed spacer (5′ ETS). Moreover, the altered U3 snoRNA causes mRNA and protein differential expression in HCF or HPF cells. Conclusion: The atypical U3 snoRNA regulates the translation of specific proteins to exert a suppressive function in Pterygia through modulating the 18S RNA synthesis. Here, we uncover a novel insight into U3 snoRNA biology in the development of Pterygia.

2022-05-20 | PXD030801 | Pride

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