ArticleProceedings of the National Academy of Sciences of the United States of America2007
Recent LTR retrotransposon insertion contrasts with waves of non-LTR insertion since speciation in Drosophila melanogaster.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 69 papers.
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69 citing papers in PubMed, 107 citations in OpenAlex.
- Polymorphic 3D genome architecture mediated by transposable elements.bioRxiv : the preprint server for biology · 2026Article
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- Causes and Consequences of Varying Transposable Element Activity: An Evolutionary Perspective.Annual review of genomics and human genetics · 2024Review
- Low-input PacBio sequencing generates high-quality individual fly genomes and characterizes mutational processes.Nature communications · 2024Article
- Genomes of historical specimens reveal multiple invasions of LTR retrotransposons inProceedings of the National Academy of Sciences of the United States of America · 2024Article
- Forces driving transposable element load variation during Arabidopsis range expansion.The Plant cell · 2024Article
- Spoink, a LTR retrotransposon, invaded D. melanogaster populations in the 1990s.PLoS genetics · 2024Article
- Structural genomic variation and migratory behavior in a wild songbird.Evolution letters · 2023Article
- The composition of piRNA clusters in Drosophila melanogaster deviates from expectations under the trap model.BMC biology · 2023Article
- Genetic variation in P-element dysgenic sterility is associated with double-strand break repair and alternative splicing of TE transcripts.PLoS genetics · 2022Article
- Article
- Controlling for Variable Transposition Rate with an Age-Adjusted Site Frequency Spectrum.Genome biology and evolution · 2022Article
- A novel transposable element-based authentication protocol for Drosophila cell lines.G3 (Bethesda, Md.) · 2022Article
- Patterns of piRNA Regulation in Drosophila Revealed through Transposable Element Clade Inference.Molecular biology and evolution · 2022Article
- Population genetics of transposable element load: A mechanistic account of observed overdispersion.PloS one · 2022Article
- The genomic ecosystem of transposable elements in maize.PLoS genetics · 2021Article
- The Transposable Elements of the Drosophila serrata Reference Panel.Genome biology and evolution · 2021Article
- Tirant Stealthily Invaded Natural Drosophila melanogaster Populations during the Last Century.Molecular biology and evolution · 2021Article
- RepeatProfiler: A pipeline for visualization and comparative analysis of repetitive DNA profiles.Molecular ecology resources · 2021Article
- Evolution of genome structure in theGenome research · 2021Article
9 more citing papers are in PubMed but not listed here.
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2 authors at 1 institution in 1 country.
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Abstract
LTR and non-LTR retrotransposons exhibit distinct patterns of abundance within the Drosophila melanogaster genome, yet the causes of these differences remain unknown. Here we investigate whether genomic differences between LTR and non-LTR retrotransposons reflect systematic differences in their insertion history. We find that for 17 LTR and 10 non-LTR retrotransposon families that evolve under a pseudogene-like mode of evolution, most elements from LTR families have integrated in the very recent past since colonization of non-African habitats ( approximately 16,000 years ago), whereas elements from non-LTR families have been accumulating in overlapping waves since the divergence of D. melanogaster from its sister species, Drosophila simulans ( approximately 5.4 Mya). LTR elements are significantly younger than non-LTR elements, individually and by family, in regions of high and low recombination, and in genic and intergenic regions. We show that analysis of transposable element (TE) nesting provides a method to calculate transposition rates from genome sequences, which we estimate to be one to two orders of magnitude lower than those that are based on mutation accumulation studies. Recent LTR integration provides a nonequilibrium alternative for the low population frequency of LTR elements in this species, a pattern that is classically interpreted as evidence for selection against the transpositional increase of TEs. Our results call for a new class of population genetic models that incorporate TE copy number, allele frequency, and the age of insertions to provide more powerful and robust inferences about the forces that control the evolution of TEs in natural populations.
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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.