Transcriptomic responses to diet quality and viral infection in Apis mellifera
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA498919 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR8121080.fastq.gz | Fastqsanger.gz | |||
| SRR8121090.fastq.gz | Fastqsanger.gz | |||
| SRR8121100.fastq.gz | Fastqsanger.gz | |||
| SRR8121110.fastq.gz | Fastqsanger.gz | |||
| SRR8121120.fastq.gz | Fastqsanger.gz |
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Project description:Expression profiling of honey bees brains as a function of genotype ( Apis mellifera mellifera/Apis mellifera ligustica) and age
2010-12-31 | E-TABM-952 | biostudies-arrayexpress
Project description:Purpose: Parts of Europe and the United States have witnessed dramatic losses in commercially managed honey bees over the past decade to what is considered an unsustainable extent. The large-scale loss of honey bees has considerable implications for the agricultural economy because honey bees are one of the leading pollinators of numerous crops. Honey bee declines have been associated with several interactive factors. Poor nutrition and viral infection are two environmental stressors that pose heightened dangers to honey bee health. Methods: We used RNA-sequencing to examine how monofloral diets (Rockrose and Chestnut) and Israeli acute paralysis virus inoculation influence gene expression patterns in honey bees. Results: We found a considerable nutritional response, with almost 2,000 transcripts changing with diet quality. The majority of these genes were over-represented for nutrient signaling (insulin resistance) and immune response (Notch signaling and JaK-STAT pathways). Somewhat unexpectedly, the transcriptomic response to viral infection was fairly limited. We only found 43 transcripts to be differentially expressed, some with known immune functions (argonaute-2), transcriptional regulation, and muscle contraction. We created contrasts to determine if any protective mechanisms of good diet were due to direct effects on immune function (resistance) or indirect effects on energy availability (tolerance). A similar number of resistance and tolerance candidate differentially expressed genes were found, suggesting both processes may play significant roles in dietary buffering from pathogen infection. We also compared the virus main effect in our study (polyandrous colonies) to that obtained in a previous study (single-drone colonies) and verified significant overlap in differential expression despite visualization methods showing differences in the noisiness levels between these two datasets. Conclusions: Through transcriptional contrasts and functional enrichment analysis, we add to evidence of feedbacks between diet and disease in honey bees. We also show that comparing results derived from polyandrous colonies (which are typically more natural) and single-drone colonies (which usually yield more signal) may allow researchers to identify transcriptomic patterns in honey bees that are concurrently less artificial and less noisy. Altogether, we hope this work underlines possible merits of using data visualization techniques and multiple datasets when interpreting RNA-sequencing studies.
2018-10-30 | GSE121885 | GEO
Project description:We analyzed the changes in the brain tissue of Apis mellifera ligustica at the molecular level by sequencing after using fluvalinate. We found that the differentially expressed miRNAs (DEM) may be involved in hippocampal cell apoptosis and damage to memory functions. This result may be related to behaviors observed after the administration of this medication, such as a lack of homing at night and behavioral disturbances. Overall, our results provide new information about the molecular mechanisms and pathways of fluvalinate action in the brain tissue of Apis mellifera ligustica.
2020-12-02 | GSE162423 | GEO
Project description:Apis mellifera syriaca is the native honeybee subspecies of Jordan and much of the Middle East. It expresses behavioral adaptations to a regional climate with very high temperatures, nectar dearth in summer, attacks of the Oriental wasp Vespa orientalis and in most cases it is resistant to varroa mites. The Thorax control sample of A. m. syriaca in this experiment was originally collected and stored since 2001 from Wadi Ben Hammad a remote valley in the southern region of Jordan. Using morphometric and Mitochondrial DNA markers it was proved that bees from this area had show higher similarity than other samples collected from the Middle East as represented by reference samples collected in 1952 by Brother Adam. The samples L1-L5 are collected from the National Center for Agricultural Research and Extension breading apiary which was originally established for the conservation of Apis mellifera syriaca. Goal was to use the genetic information in the breeding for varroa resistant bees and to determine the successfulness of this conservation program. Project funded by USAID-MERC grant number: TA-MOU-09-M29-075.
2016-02-01 | GSE43554 | GEO
Project description:Apis mellifera mellifera Metagenomic assembly
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Project description:BackgroundParts of Europe and the United States have witnessed dramatic losses in commercially managed honey bees over the past decade to what is considered an unsustainable extent. The large-scale loss of bees has considerable implications for the agricultural economy because bees are one of the leading pollinators of numerous crops. Bee declines have been associated with several interactive factors. Recent studies suggest nutritional and pathogen stress can interactively contribute to bee physiological declines, but the molecular mechanisms underlying interactive effects remain unknown. In this study, we provide insight into this question by using RNA-sequencing to examine how monofloral diets and Israeli acute paralysis virus inoculation influence gene expression patterns in bees.ResultsWe found a considerable nutritional response, with almost 2000 transcripts changing with diet quality. The majority of these genes were over-represented for nutrient signaling (insulin resistance) and immune response (Notch signaling and JaK-STAT pathways). In our experimental conditions, the transcriptomic response to viral infection was fairly limited. We only found 43 transcripts to be differentially expressed, some with known immune functions (argonaute-2), transcriptional regulation, and muscle contraction. We created contrasts to explore whether protective mechanisms of good diet were due to direct effects on immune function (resistance) or indirect effects on energy availability (tolerance). A similar number of resistance and tolerance candidate differentially expressed genes were found, suggesting both processes may play significant roles in dietary buffering from pathogen infection.ConclusionsThrough transcriptional contrasts and functional enrichment analysis, we contribute to our understanding of the mechanisms underlying feedbacks between nutrition and disease in bees. We also show that comparing results derived from combined analyses across multiple RNA-seq studies may allow researchers to identify transcriptomic patterns in bees that are concurrently less artificial and less noisy. This work underlines the merits of using data visualization techniques and multiple datasets to interpret RNA-sequencing studies.
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Project description:Apis mellifera mellifera Raw sequence reads
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Project description:Apis mellifera mellifera Raw sequence reads
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