ArticleGenome research2023
Analyses of 600+ insect genomes reveal repetitive element dynamics and highlight biodiversity-scale repeat annotation challenges.
Article in Genome research, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 43 papers.
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Who cites it
43 citing papers in PubMed.
- Transposable elements as evolutionary catalysts of ant macrodiversity.Science advances · 2026Article
- Chromosome-Level Genome of Simulium vittatum Links Black Fly Cytogenetics to Genome Organization and Evolution.bioRxiv : the preprint server for biology · 2026Article
- Satellite DNA evolution in Tytonidae (Aves: Strigiformes): dynamic repeat landscapes despite conserved karyotypes.Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology · 2026Article
- Dual-line Genome-scale CRISPR Screening Enables Robust Target Gene Discovery.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- Comparative genomics reveal signatures of ecological specialization in the striped ambrosia beetle Trypodendron lineatum.BMC genomics · 2026Article
- Species-rich and genomically diverse: comparative genomics reveals how fusions, fissions, and sex chromosomes have shaped beetle evolution.bioRxiv : the preprint server for biology · 2026Article
- Telomere-to-telomere genome assembly of the wood tiger moth Arctia plantaginis.Scientific data · 2026Article
- Genomics of Caddisfly (Insecta: Trichoptera) Species Associated With Terrestrial Habitats.Ecology and evolution · 2026Article
- The genome of Istocheta aldrichi (Diptera: Tachinidae), a parasitoid of the Japanese beetle, Popillia japonica (Coleoptera: Scarabaeidae).G3 (Bethesda, Md.) · 2026Article
- Whole-genome assembly and annotation of the acorn weevil, Curculio nanulus (Coleoptera: Curculionidae).G3 (Bethesda, Md.) · 2026Article
- Transposable element dynamics in Arthropoda genomes and their impacts on the evolution of functional genes.BMC biology · 2026Article
- Improved chromosome-level genome assembly of the American cockroach, Periplaneta americana.G3 (Bethesda, Md.) · 2026Article
- From sequencing to understanding: a grand challenge in genome-scale molecular and genetic analysis.Frontiers in plant science · 2026Article
- De novo genome assembly of the endemic Italian springtail Orchesella dallaii (Collembola: Orchesellidae).G3 (Bethesda, Md.) · 2025Article
- Telomere-to-telomere genome assembly of the Dipteran Bactrocera dorsalis from a single individual.Nature communications · 2025Article
- Satellite DNA Genomics: The Ongoing Story.International journal of molecular sciences · 2025Review
- A comparative analysis of transposable element diversity and evolution across 75 bee genomes.BMC genomics · 2025Article
- De Novo Whole Genome Assemblies of Unusual Case-Making Caddisflies (Trichoptera) Highlight Genomic Convergence in the Composition of the Major Silk Gene (h-fibroin).Journal of experimental zoology. Part B, Molecular and developmental evolution · 2025Article
- ParaMask: a new method to identify multicopy genomic regions, corrects major biases in whole-genome sequencing data.Genome biology · 2025Article
- How Did Evolution Halve Genome Size During an Oceanic Island Colonization?Molecular biology and evolution · 2025Article
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9 authors.
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Abstract
Repetitive elements (REs) are integral to the composition, structure, and function of eukaryotic genomes, yet remain understudied in most taxonomic groups. We investigated REs across 601 insect species and report wide variation in RE dynamics across groups. Analysis of associations between REs and protein-coding genes revealed dynamic evolution at the interface between REs and coding regions across insects, including notably elevated RE-gene associations in lineages with abundant long interspersed nuclear elements (LINEs). We leveraged this large, empirical data set to quantify impacts of long-read technology on RE detection and investigate fundamental challenges to RE annotation in diverse groups. In long-read assemblies, we detected ∼36% more REs than short-read assemblies, with long terminal repeats (LTRs) showing 162% increased detection, whereas DNA transposons and LINEs showed less respective technology-related bias. In most insect lineages, 25%-85% of repetitive sequences were "unclassified" following automated annotation, compared with only ∼13% in
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