Ontology highlight
ABSTRACT:
PROVIDER: PRJNA691031 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR13397500_1.fastq.gz | Fastqsanger.gz | |||
| SRR13397500_2.fastq.gz | Fastqsanger.gz | |||
| SRR13397501_1.fastq.gz | Fastqsanger.gz | |||
| SRR13397501_2.fastq.gz | Fastqsanger.gz | |||
| SRR13397502_1.fastq.gz | Fastqsanger.gz |
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Project description:Plant pollination by the western honey bee Apis mellifera is an irreplaceable agroecological and economic cornerstone currently under threat. Recent colony loss has been consistently linked to the increased prevalence of deformed wing virus (DWV), an Iflavirus transmitted from the ecoparasitic mite Varros destructor. While DWV has been detected in the honey bee brain and causally linked to behavioral impairment, the molecular impact of infection on brain gene expression is largely unknown. Recently, we discovered that two published and two new brain transcriptomic studies conducted in our lab contained DWV contamination in over 99% of sequenced honey bee samples. This unanticipated finding sharply contrasted with the experimental paradigms of these four studies, as no physical or behavioral signs of DWV were detected in any of the 335 individual honey bees sampled. We took this opportunity to perform a meta-analysis and test the hypothesis that DWV influences brain gene expression, a relationship which could be linked to the massive depopulation events observed around the world. Results from our study support commonalities in the molecular consequences of DWV in the honey bee brain and implicate specific genes and biological processes associated with infection. Next, we used single-cell RNA-Sequencing to implicate glia as active responders to viral infection. Finally, we performed viral gene expression analysis on a subset of samples and found DWV type A as well as a previously unreported A-B recombinant in the brain. We present this meta-analysis as a first step toward addressing a potential missing link between viral infection and behavior in honey bees.
2020-02-04 | GSE130785 | GEO
Project description:Varroa destructor is one of the most prevalent and economically damaging honey bee pests worldwide, weakening colonies by simultaneously parasitizing and transmitting damaging viruses. Despite these impacts on honey bee health, surprisingly little is known about its fundamental molecular biology. Here we present a high-resolution V. destructor protein atlas crossing all major developmental stages (egg, protonymph, deutonymph and adult) for both male and female mites as a web-based interactive tool. In a proteogenomic effort, we identified 1,464 unique peptides corresponding to 419 proteins which were previously unannotated and we included these in all subsequent analyses. In order to use mass spectrometry-based peptide sequencing to augment the genome annotation of non-model species, we analyzed their amino acid and nucleotide composition as well as orthology to other species to suggest reasons why they may have been missed initially. Using label-free quantitative proteomics, we found that 1,433 proteins were differentially regulated across developmental stages, including proteins belonging to deformed wing virus and V. destructor virus. One other virus – the bee macula-like virus – was also detected, along with the protein generated by its short 3’ overlapping reading frame. In addition, we found that 101 proteins are sexually regulated and functional enrichment analysis suggests how they may contribute to sex-specific phenotypes and behaviour. Overall, this work provides a first of its kind interrogation of the patterns of gene expression that govern the Varroa life cycle and the tools we have developed will support further research on this threatening honey bee pest.
2017-09-06 | PXD006072 | Pride
Project description:Meta-analysis of honey bee neurogenomic response to deformed wing virus
| PRJNA541333 | ENA
Project description:In this study we addressed whether the transcriptome profile in the honey bee brain is similar for two major parasites of honey bee, Varroa destructor and Nosema ceranae. Honey bees parasitized by these two parasites show accelerated behavioral maturation and deficiences in orientation and learning/memory that we hoped to characterized at the transcriptomic level.
2013-09-24 | GSE41109 | GEO
Project description:Here, we examined the transcriptional and epigenetic (DNA methylation) responses to viral infection in honey bee workers. One-day old worker honey bees were fed solutions containing Israeli Acute Paralysis Virus (IAPV), a virus which causes muscle paralysis and death and has previously been associated with colony loss. Uninfected control and infected, symptomatic bees were collected within 20-24 hours after infection. Worker fat bodies, the primary tissue involved in metabolism, detoxification and immune responses, were collected for analysis. We performed transcriptome- and bisulfite-sequencing of the worker fat bodies to identify genome-wide gene expression and DNA methylation patterns associated with viral infection. There were 753 differentially expressed genes (FDR<0.05) in infected versus control bees, including several genes involved in epigenetic and antiviral pathways. DNA methylation status of 156 genes (FDR<0.1) changed significantly as a result of the infection, including those involved in antiviral responses in humans. There was no significant overlap between the significantly differentially expressed and significantly differentially methylated genes, and indeed, the genomic characteristics of these sets of genes were quite distinct. Our results indicate that honey bees have two distinct molecular pathways, mediated by transcription and methylation, that modulate protein levels and/or function in response to viral infections. Examination of epigenomic and transcriptomic antiviral responses to Israeli Acute Paralysis Virus in honey bees
2015-02-06 | E-GEOD-65659 | biostudies-arrayexpress
Project description:Meta-analysis of honey bee neurogenomic response to deformed wing virus (drone)
| PRJNA541004 | ENA
Project description:Meta-analysis of honey bee neurogenomic response to deformed wing virus (worker)
| PRJNA541003 | ENA
Project description:In this study we addressed whether the transcriptome profile in the honey bee brain is similar for two major parasites of honey bee, Varroa destructor and Nosema ceranae. Honey bees parasitized by these two parasites show accelerated behavioral maturation and deficiences in orientation and learning/memory that we hoped to characterized at the transcriptomic level. honey bee adults infested by Varroa destructor or Nosema ceranae compared to control bees, in duplicate
2013-09-24 | E-GEOD-41109 | biostudies-arrayexpress
Project description:Evolutionarily diverse origins of honey bee deformed wing viruses
| PRJDB14940 | ENA