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Effect of pri-1 (DNA primase) RNAi on gene expression in embryos of Caenorhaditis elegans

ABSTRACT: Effect of pri-1 (DNA primase) RNAi on gene expression in embryos of Caenorhaditis elegans

PROVIDER: PRJNA936416 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR23563178_1.fastq.gz	Fastqsanger.gz
	SRR23563178_2.fastq.gz	Fastqsanger.gz
	SRR23563179_1.fastq.gz	Fastqsanger.gz
	SRR23563179_2.fastq.gz	Fastqsanger.gz
	SRR23563180_1.fastq.gz	Fastqsanger.gz

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Effect of pri-1 (DNA primase) RNAi on gene expression in embryos of Caenorhaditis elegans

Project description:All animals must maintain genome and proteome integrity, especially when experiencing endogenous or exogenous stress. To cope, organisms have evolved sophisticated and conserved response systems: unfolded protein responses (UPRs) ensure proteostasis while the DNA damage response (DDR) maintains genome integrity. Emerging evidence suggests that UPRs and DDRs crosstalk, but the extent of crosstalk remains poorly understood. Here, we demonstrate that inactivation of the DNA primases pri-1 and pri-2, which synthesize RNA primers at replication forks and whose inactivation causes DNA damage, activates the UPR of the endoplasmic reticulum (UPR-ER) in Caenorhabditis elegans, with especially strong activation in the germline. We observed activation of both the inositol-requiring-enzyme 1 (ire-1) and the protein kinase RNA-like ER kinase (PEK-1) branches of the UPR-ER. Interestingly, activation of the UPR-ER output gene hsp-4/BiP was partially independent of its canonical activators, ire-1 and xbp-1, and instead required the third branch of the UPR-ER, atf-6, suggesting functional redundancy. We further found that primase depletion specifically induces the UPR-ER, but not the mechanistically distinct cytosolic or mitochondrial UPRs, suggesting that primase inactivation causes compartment-specific rather than global stress. Functionally, loss of ire-1 or pek-1 sensitized animals to replication stress caused by hydroxyurea. Finally, transcriptome analysis of pri-1 embryos revealed several deregulated processes that could cause UPR-ER activation, including protein glycosylation, calcium signaling, and fatty acid desaturation. Together, our data show that the UPR-ER, but not other UPRs, responds to replication fork stress and that the UPR-ER is required to alleviate this stress.

2024-01-17 | GSE225569 | GEO

Comparison of transcriptomes of sig-7 (RNAi) vs WT C. elegans early stage embryos by RNA-seq

Project description:RNAi targeting a conserved C. elegans cyclophilin, sig-7, causes defective development and embryonic arrest consistent with a global defect in transcription. The goal of this study was to compare the transcript levels in sig-7(RNAi) embryos to those of L4440/RNAi control embryos to examine the global transcriptional effect caused by of loss of sig-7 function

2016-08-10 | GSE85442 | GEO

Comparison of RNA Pol II localization in the genomes of sig-7 (RNAi) vs WT C. elegans early stage embryos

Project description:RNAi targeting a conserved C. elegans cyclophilin, sig-7, causes defective development and embryonic arrest consistent with a global defect in transcription. The goal of this study was to compare the location of RNA Pol II in sig-7(RNAi) embryos to the localization in L4440/RNAi control embryos to examine the global effect of loss of sig-7 on RNA Pol II regulation and its distribution within gene bodies

2016-08-10 | GSE85441 | GEO

Identification of genes regulated by pri and ken in late Drosophila embryos

Project description:We aim to identify genes commonly repressed by pri and ken in epidermis of Drosophila embryos. We performed gene expression profiling analysis using data obtained from RNA-seq of control, pri mutant and ken mutant embryos.

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Comparison of transcriptomes of sig-7 (RNAi) vs WT C. elegans early stage embryos by RNA-seq

2016-08-10 | E-GEOD-85442 | biostudies-arrayexpress

Comparison of RNA Pol II localization in the genomes of sig-7 (RNAi) vs WT C. elegans early stage embryos

Project description:RNAi targeting a conserved C. elegans cyclophilin, sig-7, causes defective development and embryonic arrest consistent with a global defect in transcription. The goal of this study was to compare the location of RNA Pol II in sig-7(RNAi) embryos to the localization in L4440/RNAi control embryos to examine the global effect of loss of sig-7 on RNA Pol II regulation and its distribution within gene bodies anti-AMA-1 ChIP in 2 replicates each of sig-7(RNAi) and RNAi control early stage embryos

2016-08-10 | E-GEOD-85441 | biostudies-arrayexpress

Total Proteome Analysis in RNAi treated C. elegans

Project description:A SWATH-based worflow has been developed for C. elegans proteome profiling, including sample preparation, SWATH spectral library generation and downstream data treatment. The influence of mrps-5 RNAi treatment on C. elegans total proteome were studied.

2019-12-11 | PXD009223 | Pride

Hsp90 RNAi in C. elegans

Project description:Hsp90 RNAi in C. elegans

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HTS comparison of sig-7 (RNAi) vs WT C. elegans early stage embryos

Project description:HTS comparison of sig-7 (RNAi) vs WT C. elegans early stage embryos

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2020-04-03 | PXD009256 | Pride

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