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RNA Surveillance by the RNA Helicase MTR4 Determines Volume of Mouse Oocytes [day 14 total_RNA-seq-Nu_Cy]

ABSTRACT: RNA Surveillance by the RNA Helicase MTR4 Determines Volume of Mouse Oocytes [day 14 total_RNA-seq-Nu_Cy]

PROVIDER: PRJNA1091706 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR28447710_1.fastq.gz	Fastqsanger.gz
	SRR28447710_2.fastq.gz	Fastqsanger.gz
	SRR28447711_1.fastq.gz	Fastqsanger.gz
	SRR28447711_2.fastq.gz	Fastqsanger.gz
	SRR28447712_1.fastq.gz	Fastqsanger.gz

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RNA Surveillance by the RNA Helicase MTR4 Determines Volume of Mouse Oocytes

Project description:RNA Surveillance by the RNA Helicase MTR4 Determines Volume of Mouse Oocytes

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RNA Surveillance by the RNA Helicase MTR4 Determines Volume of Mouse Oocytes [polyA_RNA-seq]

Project description:Exosome is the main RNA surveillance and degradation pathway during oocyte growth. To figure out specific roles of RNA surveillance in oocyte growth, the pathway was destroied by deleting MTR4, the only known RNA helicase in exosome pathway. Poly(A) RNA-seq was performed to examine the global transcriptional changes.

2024-09-09 | GSE247848 | GEO

RNA Surveillance by the RNA Helicase MTR4 Determines Volume of Mouse Oocytes [CUT&Tag]

Project description:Exosome is the main RNA surveillance and degradation pathway during oocyte growth. To figure out specific roles of RNA surveillance in oocyte growth, the pathway was destroied by deleting MTR4, the only known RNA helicase in exosome pathway. Accumulation of waste RNAs in nucleus seriously effect chromatin status and establishment of histone modifications like H3K4me3. Thus CUT&Tag experiments targeting at H3K4me3 were performed.

2024-09-09 | GSE247847 | GEO

RNA Surveillance by the RNA Helicase MTR4 Determines Volume of Mouse Oocytes [total_RNA-seq-Nu_Cy]

Project description:Exosome is the main RNA surveillance and degradation pathway during oocyte growth. To figure out specific roles of RNA surveillance in oocyte growth, the pathway was destroied by deleting MTR4, the only known RNA helicase in exosome pathway. Total RNA-seq was performed using samples after nucleus-cytoplasm separation to examine the global subcellular transcriptional changes.

2024-09-09 | GSE247850 | GEO

RNA Surveillance by the RNA Helicase MTR4 Determines Volume of Mouse Oocytes [polyA_RNA-seq-Nu_Cy]

2024-09-09 | GSE247849 | GEO

RNA Surveillance by the RNA Helicase MTR4 Determines Volume of Mouse Oocytes [day 14 total_RNA-seq-Nu_Cy]

Project description:Exosome is the main RNA surveillance and degradation pathway during oocyte growth. To figure out specific roles of RNA surveillance in oocyte growth, the pathway was destroied by deleting MTR4, the only known RNA helicase in exosome pathway. Total RNA-seq was performed using samples after nucleus-cytoplasm separation to examine the global subcellular transcriptional changes.

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RNA Surveillance Maintained by the RNA Helicase MTR4 Determines the Large Volume of Mouse Oocytes [ATAC-seq]

Project description:Exosome is the main RNA surveillance and degradation pathway during oocyte growth. To figure out specific roles of RNA surveillance in oocyte growth, the pathway was destroied by deleting MTR4, the only known RNA helicase in exosome pathway. Accumulation of waste RNAs in nucleus seriously effect chromatin status and NSN-SN transition. Thus ATAC-seq experiments were performed to get a better review for chromatin status.

2024-09-09 | GSE247846 | GEO

RNA Surveillance by the RNA Helicase MTR4 Determines Volume of Mouse Oocytes

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

2024-09-09 | GSE247852 | GEO

Hydrogen-deuterium exchange mass spectrometry of wt Mtr4 with various RNA substrates

Project description:Mtr4 is a eukaryotic RNA helicase required for RNA decay by the nuclear exosome. Previous studies have shown how RNA enroute to the exosome threads through the highly conserved helicase core of Mtr4. Mtr4 also contains an arch domain, although details of potential interactions between the arch and RNA have been elusive. To understand the interaction of Saccharomyces cerevisiae Mtr4 with various RNAs, we have characterized RNA binding in solution using hydrogen-deuterium exchange mass spectrometry, and affinity and unwinding assays. We have identified RNA interactions within the helicase core that are consistent with existing structures and do not vary between tRNA, single-stranded RNA, and double-stranded RNA constructs. We have also identified novel RNA interactions with a region of the arch known as the fist or KOW. These interactions are important for RNA unwinding and vary in strength depending on RNA structure and length. They account for Mtr4 discrimination between different RNAs. These interactions further drive Mtr4 to adopt a closed conformation characterized by reduced dynamics of the arch arm and intra-domain contacts between the fist and helicase core.

2022-03-07 | PXD031962 | Pride

Rip-seq of MTR4 in PLC/PRF5

Project description:Metabolic switch from oxidative phosphorylation to glycolysis is required for tumorigenesis by providing cancer cells with energy and substrates of biosynthesis, and also plays a key role in inducing immune suppressive tumor microenvironment that inhibits tumor immunotherapy. Therefore, to develop more effective cancer therapy, it is important to elucidate mechanisms that control cancer metabolic switch. MTR4 is a RNA helicase associated with nuclear exosome that plays key roles in RNA processing and surveillance. We demonstrated that MTR4 is frequently overexpressed in hepatocellular carcinoma (HCC) and this predicts poor prognosis of HCC patients. MTR4 is required for HCC tumorigenesis by maintaining cancer metabolic switch. Mechanistically, MTR4 is required for the expression of critical glycolytic proteins such as GLUT1 and PKM2 by binding to their pre-mRNA and ensuring correct alternative splicing. c-Myc binds to the promoter of MTR4 gene and is required for MTR4 expression, indicating that MTR4 is a key mediator of c-Myc function in promoting cancer metabolism. These findings reveal an important pathway to drive cancer metabolic switch and present MTR4 as a promising therapeutic target for treating HCC.

2019-12-19 | GSE129261 | GEO

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