ArticleBMC genomics2021
Dense time-course gene expression profiling of the Drosophila melanogaster innate immune response.
Article in BMC genomics, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 28 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
28 citing papers in PubMed, 79 citations in OpenAlex.
- Knockouts of Sulfur Metabolism Genes Induce Chronic Inflammation and Immune Dysregulation inAntioxidants (Basel, Switzerland) · 2026Article
- A genome-wide survey reveals that a diverse array of enhancers coordinates theGenome research · 2026Article
- Heterogeneous NF-κB activation and enhancer features shape transcription in Drosophila immunity.Biophysical journal · 2026Article
- Time-Series RNA Sequencing Reveals Temperature-Specific and Temperature-Compensated Circadian Genes inbioRxiv : the preprint server for biology · 2025Article
- Gene and transposable element expression in response to stress in temperate and tropical populations of Drosophila.Mobile DNA · 2025Article
- A genome-wide survey reveals a diverse array of enhancers coordinate thebioRxiv : the preprint server for biology · 2025Article
- Pathogen-induced damage in Drosophila: Uncoupling disease tolerance from resistance.PLoS pathogens · 2025Article
- Decoding the Functional Interactome of Non-Model Organisms with PHILHARMONIC.bioRxiv : the preprint server for biology · 2025Article
- Sex-dependent geroprotective effects of malvidin in Drosophila melanogaster.Biogerontology · 2025Article
- Heterogeneous NF-κB activation and enhancer features shape transcription inbioRxiv : the preprint server for biology · 2025Article
- Dynamic changes in gene expression through aging in Drosophila melanogaster heads.G3 (Bethesda, Md.) · 2025Article
- Article
- Transcriptional induction of the IMD signaling pathway and associated antibacterial activity in the digestive tract of cat fleas (Ctenocephalides felis).Parasites & vectors · 2024Article
- Dynamic Changes in Gene Expression Through Aging inbioRxiv : the preprint server for biology · 2024Article
- The transcriptional response in mosquitoes distinguishes between fungi and bacteria but not Gram types.BMC genomics · 2024Article
- Odorant binding protein 18 increases the pathogen resistance of the imported willow leaf beetle,Frontiers in cellular and infection microbiology · 2024Article
- Delayed host mortality and immune response upon infection withInfection and immunity · 2023Article
- Article
- Trade-offs between immunity and competitive ability in fighting ant males.BMC ecology and evolution · 2023Article
- Drosophila immune priming to Enterococcus faecalis relies on immune tolerance rather than resistance.PLoS pathogens · 2023Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
6 authors at 1 institution in 1 country.
Funding
Abstract
backgroundImmune responses need to be initiated rapidly, and maintained as needed, to prevent establishment and growth of infections. At the same time, resources need to be balanced with other physiological processes. On the level of transcription, studies have shown that this balancing act is reflected in tight control of the initiation kinetics and shutdown dynamics of specific immune genes.
resultsTo investigate genome-wide expression dynamics and trade-offs after infection at a high temporal resolution, we performed an RNA-seq time course on D. melanogaster with 20 time points post Imd stimulation. A combination of methods, including spline fitting, cluster analysis, and Granger causality inference, allowed detailed dissection of expression profiles, lead-lag interactions, and functional annotation of genes through guilt-by-association. We identified Imd-responsive genes and co-expressed, less well characterized genes, with an immediate-early response and sustained up-regulation up to 5 days after stimulation. In contrast, stress response and Toll-responsive genes, among which were Bomanins, demonstrated early and transient responses. We further observed a strong trade-off with metabolic genes, which strikingly recovered to pre-infection levels before the immune response was fully resolved.
conclusionsThis high-dimensional dataset enabled the comprehensive study of immune response dynamics through the parallel application of multiple temporal data analysis methods. The well annotated data set should also serve as a useful resource for further investigation of the D. melanogaster innate immune response, and for the development of methods for analysis of a post-stress transcriptional response time-series at whole-genome scale.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.