ArticleMolecular biology and evolution2017
Natural Variation in the Distribution and Abundance of Transposable Elements Across the Caenorhabditis elegans Species.
Article in Molecular biology and evolution, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 50 papers.
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Who cites it
50 citing papers in PubMed, 85 citations in OpenAlex.
- High Rate of Mutation and Efficient Removal by Selection of Structural Variants From Natural Populations of Caenorhabditis Elegans.Genome biology and evolution · 2026Article
- Allelic Variation at tRNA Genes in Three Nematode Species Indicates Mutation Load Despite Strong Purifying Selection.Genome biology and evolution · 2026Article
- Article
- The impact of insertion bias into piRNA clusters on the invasion of transposable elements.BMC biology · 2025Article
- Transposable elements and heterochromatic regions are enriched for structural variation and sequence divergence in the genome of wild-type Caenorhabditis elegans.G3 (Bethesda, Md.) · 2025Article
- Dynamic Birth and Death of Argonaute Gene Family Functional Repertoire Across Caenorhabditis Nematodes.Genome biology and evolution · 2025Article
- Article
- Diversity and evolution of transposable elements in the plant-parasitic nematodes.BMC genomics · 2024Article
- AdvancingPhilosophical transactions of the Royal Society of London. Series B, Biological sciences · 2024Review
- CaeNDR, the Caenorhabditis Natural Diversity Resource.Nucleic acids research · 2024Article
- Bioinformatic Annotation of Transposon DNA Processing Genes on the Long-Read Genome Assembly ofBioinformatics and biology insights · 2024Article
- Inheritance of Stress Responses via Small Non-Coding RNAs in Invertebrates and Mammals.Epigenomes · 2023Review
- DNA Polymerase Diversity Reveals Multiple Incursions of Polintons During Nematode Evolution.Molecular biology and evolution · 2023Article
- Comprehensive detection of structural variation and transposable element differences between wild type laboratory lineages ofbioRxiv : the preprint server for biology · 2023Article
- The CERV protein of Cer1, a C. elegans LTR retrotransposon, is required for nuclear export of viral genomic RNA and can form giant nuclear rods.PLoS genetics · 2023Article
- A New Hope: A Hermaphroditic Nematode Enables Analysis of a Recent Whole Genome Duplication Event.Genome biology and evolution · 2022Article
- Bergerac strains of Caenorhabditis elegans revisited: expansion of Tc1 elements imposes a significant genomic and fitness cost.G3 (Bethesda, Md.) · 2022Article
- Analysis of repeat elements in the Pristionchus pacificus genome reveals an ancient invasion by horizontally transferred transposons.BMC genomics · 2022Article
- Evaluating the power and limitations of genome-wide association studies in Caenorhabditis elegans.G3 (Bethesda, Md.) · 2022Article
- TransposonUltimate: software for transposon classification, annotation and detection.Nucleic acids research · 2022Article
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Authors and funding
4 authors at 1 institution in 1 country.
Funding
Abstract
Transposons are mobile DNA elements that generate both adaptive and deleterious phenotypic variation thereby driving genome evolution. For these reasons, genomes have mechanisms to regulate transposable element (TE) activity. Approximately 12-16% of the Caenorhabditis elegans genome is composed of TEs, of which the majority are likely inactive. However, most studies of TE activity have been conducted in the laboratory strain N2, which limits our knowledge of the effects of these mobile elements across natural populations. We analyzed the distribution and abundance of TEs in 208 wild C. elegans strains to better understand how transposons contribute to variation in natural populations. We identified 3,397 TEs as compared with the reference strain, of which 2,771 are novel insertions and 241 are TEs that have been excised in at least one wild strain. Likely because of their hypothesized deleterious effects, we find that TEs are found at low allele frequencies throughout the population, and we predict functional effects of TE insertions. The abundances of TEs reflect their activities, and these data allowed us to perform both genome-wide association mappings and rare variant correlations to reveal several candidate genes that impact TE regulation, including small regulatory piwi-interacting RNAs and chromatin factors. Because TE variation in natural populations could underlie phenotypic variation for organismal and behavioral traits, the transposons that we identified and their regulatory mechanisms can be used in future studies to explore the genomics of complex traits and evolutionary changes.
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