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Transcriptome and Small RNA analysis of C.elegans from Parental P0 to F3 generations under hypoxic stress in both WT and hrde-1 mutant

ABSTRACT: This SuperSeries is composed of the SubSeries listed below.

ORGANISM(S): Caenorhabditis elegans

PROVIDER: GSE188271 | GEO | 2022/12/13

REPOSITORIES: GEO

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Transcriptome analysis in C.elegans from Parental P0 to F3 generations under hypoxic stress in both WT and hrde-1 mutant [RNA-seq]

Project description:The goal of RNA-seq is to identify the differentially expressed genes in the wild-type (WT) and hrde-1 mutant of C.elegans at the normoxia reared and hypoxia treatment conditions at P0 generation, and those maintained dysregulated genes in F1, F2 and F3 generation. Two biological replicates were assigned for each group and in total 32 groups were prepared for RNA-seq libraries with 500 ng mRNA as starting materials using NEXTflex Illumina qRNA-Seq Library Prep Kit (Bioo Scientific). We mapped about 20 - 30 million reads per sample to C.elegans (WS235) with RSEM pipline. Differential analysis were conducted using EdgeR. The significant genes were conducted by computing NB exact genewise tests with corrected p < 0.05.

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Small RNAseq analysis of C.elegans from Parental P0 to F3 generations under hypoxic stress in both WT and hrde-1 mutant [small RNA-seq]

Project description:The goal of small RNA-seq is to identify the differentially expressed small RNAs (microRNA, 22G RNA, piRNA, snoRNA) in the wild-type (WT) and hrde-1 mutant of C.elegans at the normoxia reared and hypoxia treatment conditions at P0 generation, and those small RNAs maintained dysregulation in F1, F2 and F3 generation.

2022-12-13 | GSE188270 | GEO

Transcriptome analysis in C.elegans from Parental P0 to F3 generations under hypoxic stress in both WT and hrde-1 mutant [RNA-seq]

Project description:Transcriptome analysis in C.elegans from Parental P0 to F3 generations under hypoxic stress in both WT and hrde-1 mutant [RNA-seq]

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Transcriptome and Small RNA analysis of C.elegans from Parental P0 to F3 generations under hypoxic stress in both WT and hrde-1 mutant

Project description:Transcriptome and Small RNA analysis of C.elegans from Parental P0 to F3 generations under hypoxic stress in both WT and hrde-1 mutant

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Small RNAseq analysis of C.elegans from Parental P0 to F3 generations under hypoxic stress in both WT and hrde-1 mutant [small RNA-seq]

Project description:Small RNAseq analysis of C.elegans from Parental P0 to F3 generations under hypoxic stress in both WT and hrde-1 mutant [small RNA-seq]

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HRDE-2 drives small RNA specificity for the nuclear Argonaute protein HRDE-1.

Project description:RNA interference (RNAi) is a conserved gene silencing process that exists in diverse organisms to protect genome integrity and regulate gene expression. In C. elegans, the majority of RNAi pathway proteins localize to perinuclear, phase-separated germ granules, which are comprised of sub-domains referred to as P granules, Mutator foci, Z granules, and SIMR foci. However, the protein components and function of the newly discovered SIMR foci are unknown. Here we demonstrate that HRDE-2 localizes to SIMR foci and interacts with the germline nuclear Argonaute HRDE-1 in its small RNA unbound state. In the absence of HRDE-2, HRDE-1 exclusively loads CSR-class 22G-RNAs rather than WAGO-class 22G-RNAs, resulting in inappropriate H3K9me3 deposition on CSR-target genes. Thus, our study demonstrates that the recruitment of unloaded HRDE-1 to germ granules, mediated by HRDE-2, is critical to ensure that the correct small RNAs are used to guide nuclear RNA silencing in the C. elegans germline.

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T Helper Cell Activation and Expansion Is Sensitive to Glutaminase Inhibition under Both Hypoxic and Normoxic Conditions.

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