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Analysis of gene expression changes upon infection of C.elegans with Orsay virus

ABSTRACT: Analysis of the transcriptional response to viral infection in C.elegans.

ORGANISM(S): Caenorhabditis elegans

PROVIDER: GSE41056 | GEO | 2013/06/01

SECONDARY ACCESSION(S): PRJNA175638

REPOSITORIES: GEO

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Analysis of gene expression changes upon infection of C.elegans with Orsay virus

Project description:Analysis of the transcriptional response to viral infection in C.elegans. Comparison of infected and uninfected animals for three strains: N2 (resistant), JU1580 (sensitive), RDE-1 (sensitive)

2013-06-01 | E-GEOD-41056 | biostudies-arrayexpress

Changes in small RNAs upon Viral infection of C.elegans

Project description:Attempt to identify small non-coding RNAs that change in levels as a result of viral infection of C.elegans

2013-06-01 | GSE41057 | GEO

Changes in small RNAs upon Viral infection of C.elegans

Project description:Attempt to identify small non-coding RNAs that change in levels as a result of viral infection of C.elegans Small non-coding RNA (18-30nt) was extracted from animals either infected with Orsay virus or uninfected as indicated.

2013-06-01 | E-GEOD-41057 | biostudies-arrayexpress

Role of STA-1 and SID-3 upon Orsay virus infection in C. elegans (RNA-Seq)

Project description:Across metazoans, innate immunity is vital in defending organisms against viral infection. In mammals, antiviral innate immunity is orchestrated by interferon signaling, activating the STAT transcription factors downstream of the JAK kinases to induce expression of antiviral effector genes. In the nematode C. elegans, which lacks the interferon system, the major antiviral response so far described is RNA interference but whether additional gene expression responses are employed is not known. Here we show that, despite the absence of both interferon and JAK, the C. elegans STAT homologue STA-1 orchestrates antiviral immunity. Intriguingly, mutants lacking STA-1 show increased resistance to antiviral infection. Using gene expression analysis and chromatin immunoprecipitation we show that, in contrast to the mammalian pathway, STA-1 acts as a transcriptional repressor. Thus STA-1 might act to suppress a constitutive antiviral response in the absence of infection. Using a reverse genetic screen we identify the SID-3 as a kinase upstream of STA-1 in the response to infection. Together, our work identifies a novel STAT regulatory cascade controlling its activity in antiviral resistance, illustrating the complex evolutionary trajectory displayed by innate immune signaling pathways across metazoan organisms.

2017-08-11 | GSE95229 | GEO

Role of STA-1 and SID-3 upon Orsay virus infection in C. elegans (ChIP-Seq)

2017-08-11 | GSE95228 | GEO

Microarray on Caenorhabditis elegans N2 and CB4856 infected with Orsay virus

Project description:This experiment investigates the gene expression differences upon Orsay virus infection in the Caenorhabdits elegans strains N2 and CB4856. Assays measuring viral load found that the N2 strain displays higher viral loads upon infection than the CB4856 strain. The goal of the experiment was to identify gene-expression differences that could explain the differences in viral load. We (mock-)infected 26h-old C. elegans populations with Orsay virus and took samples after 30h of infection. For each treatment-strain combination 8 samples were collected. Thereafter RNA was isolated, labelled, and hybridized on microarray.

2020-07-08 | E-MTAB-7574 | biostudies-arrayexpress

Transcriptome wide change upon mitochondial stress in C.elegans

Project description:We discovered 5446 genes expression change (4218 genes from P0 to F2) in wild-type C.elegans transcriptome compared to DAMT-1 mutant upon mitochondrial stress by RNA-seq, which indicated those genes response to mitochondrial stress and may function in mitochondrial stress response.

2018-09-27 | GSE118175 | GEO

Genome wide 6mA modification change upon mitochondial stress in C.elegans

Project description:We discovered 364 peaks enrichment change in wild-type C.elegans genome by 6mA MeDIP-seq, which indicated those genes response to mitochondrial stress and may function in mitochondrial stress response.

2018-09-27 | GSE118268 | GEO

shk-1 KO C.elegans with and without infection of vibrio cholerae

Project description:shk-1 KO C.elegans with and without infection of vibrio cholerae

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Proteomics-based identification of ISG15 modification sites in vivo upon Coxsackie virus infection

Project description:ISG15 is an interferon-stimulated, ubiquitin-like protein, with anti-viral activity against several clinically relevant viruses. However, its precise mechanism of action during viral infection remains elusive. Upon infection, ISG15 conjugates to protein substrates in covalent manner. We previously found that ISG15 restricts Coxsackie virus (CV) infection both in vitro and in vivo. Here, we endeavored to map the in vivo ISGylome following CV infection to mechanistically elucidate the function of ISG15 in host defense. To do so we combined a genetic approach employing a murine model of deregulated ISGylation with quantitative proteomics of immune-enriched endogenous ISG15 modification sites. In addition, we also quantified protein level changes in the host proteome following infection.

2024-05-23 | PXD032078 | Pride

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