ArticleGenetics2015
Gene expression variation in Drosophila melanogaster due to rare transposable element insertion alleles of large effect.
Article in Genetics, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 33 papers.
What it found
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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.
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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.
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Who cites it
33 citing papers in PubMed, 53 citations in OpenAlex.
- A haplotype-resolved chromatin landscape connects cis-regulatory variants to trait variation in Citrus.BMC genomics · 2025Article
- Genome Structural Variants Shape Adaptive Success of an Invasive Urban Malaria Vector Anopheles stephensi.Molecular biology and evolution · 2025Article
- Regulatory changes in the fatty acid elongase eloF underlie the evolution of sex-specific pheromone profiles in Drosophila prolongata.BMC biology · 2025Article
- Regulatory Changes in the Fatty Acid ElongasebioRxiv : the preprint server for biology · 2024Article
- A pan-TE map highlights transposable elements underlying domestication and agronomic traits in Asian rice.National science review · 2024Article
- Paralog transcriptional differentiation in the D. melanogaster-specific gene family Sdic across populations and spermatogenesis stages.Communications biology · 2023Article
- Rates and spectra of de novo structural mutations inGenome research · 2023Article
- Article
- Population-scale long-read sequencing uncovers transposable elements associated with gene expression variation and adaptive signatures in Drosophila.Nature communications · 2022Article
- Meiotic, genomic and evolutionary properties of crossover distribution in Drosophila yakuba.PLoS genetics · 2022Article
- Regulatory regions in natural transposable element insertions drive interindividual differences in response to immune challenges in Drosophila.Genome biology · 2021Article
- Article
- The impact of transposable elements on tomato diversity.Nature communications · 2020Article
- Taming the Turmoil Within: New Insights on the Containment of Transposable Elements.Trends in genetics : TIG · 2020Review
- The evolutionary arms race between transposable elements and piRNAs in Drosophila melanogaster.BMC evolutionary biology · 2020Article
- Nanopore sequencing and Hi-C scaffolding provide insight into the evolutionary dynamics of transposable elements and piRNA production in wild strains of Drosophila melanogaster.Nucleic acids research · 2020Article
- Conversion of DNA Sequences: From a Transposable Element to a Tandem Repeat or to a Gene.Genes · 2019Review
- Patterns of transposable element variation and clinality in Drosophila.Molecular ecology · 2019Article
- Stress response, behavior, and development are shaped by transposable element-induced mutations in Drosophila.PLoS genetics · 2019Article
- Conserved Noncoding Elements Influence the Transposable Element Landscape in Drosophila.Genome biology and evolution · 2018Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors at 2 institutions in 1 country.
Funding
Abstract
Transposable elements are a common source of genetic variation that may play a substantial role in contributing to gene expression variation. However, the contribution of transposable elements to expression variation thus far consists of a handful of examples. We used previously published gene expression data from 37 inbred Drosophila melanogaster lines from the Drosophila Genetic Reference Panel to perform a genome-wide assessment of the effects of transposable elements on gene expression. We found thousands of transcripts with transposable element insertions in or near the transcript and that the presence of a transposable element in or near a transcript is significantly associated with reductions in expression. We estimate that within this example population, ∼2.2% of transcripts have a transposable element insertion, which significantly reduces expression in the line containing the transposable element. We also find that transcripts with insertions within 500 bp of the transcript show on average a 0.67 standard deviation decrease in expression level. These large decreases in expression level are most pronounced for transposable element insertions close to transcripts and the effect diminishes for more distant insertions. This work represents the first genome-wide analysis of gene expression variation due to transposable elements and suggests that transposable elements are an important class of mutation underlying expression variation in Drosophila and likely in other systems, given the ubiquity of these mobile elements in eukaryotic genomes.
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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.