ArticleMolecular ecology2017
Copy number increases of transposable elements and protein-coding genes in an invasive fish of hybrid origin.
Article in Molecular ecology, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers, 1 of them a synthesis that pooled it.
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Who cites it
21 citing papers in PubMed, 1 synthesis or guideline pooled it, 43 citations in OpenAlex.
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- HapKled: a haplotype-aware structural variant calling approach for Oxford nanopore sequencing data.Frontiers in genetics · 2024Article
- Haplotype-resolved Genome of Sika Deer Reveals Allele-specific Gene Expression and Chromosome Evolution.Genomics, proteomics & bioinformatics · 2023Article
- SVcnn: an accurate deep learning-based method for detecting structural variation based on long-read data.BMC bioinformatics · 2023Article
- Horizontal Transposon Transfer and Their Ecological Drivers: The Case of Flower-breeding Drosophila.Genome biology and evolution · 2023Article
- Evolutionary and genomic comparisons of hybrid uninucleate and nonhybrid Rhizoctonia fungi.Communications biology · 2021Article
- Mobile Elements in Ray-Finned Fish Genomes.Life (Basel, Switzerland) · 2020Review
- Long-read-based human genomic structural variation detection with cuteSV.Genome biology · 2020Article
- Using asexual vertebrates to study genome evolution and animal physiology: Banded (Evolutionary applications · 2020Article
- Expansion of LINEs and species-specific DNA repeats drives genome expansion in Asian Gypsy Moths.Scientific reports · 2019Article
- Eukaryote hybrid genomes.PLoS genetics · 2019Article
- The comparative genomics and complex population history ofScience advances · 2019Article
- Accurate detection of complex structural variations using single-molecule sequencing.Nature methods · 2018Article
- CNVs are associated with genomic architecture in a songbird.BMC genomics · 2018Article
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6 authors at 5 institutions in 3 countries.
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Abstract
Evolutionary dynamics of structural genetic variation in lineages of hybrid origin is not well explored, although structural mutations may increase in controlled hybrid crosses. We therefore tested whether structural variants accumulate in a fish of recent hybrid origin, invasive Cottus, relative to both parental species Cottus rhenanus and Cottus perifretum. Copy-number variation in exons of 10,979 genes was assessed using comparative genome hybridization arrays. Twelve genes showed significantly higher copy numbers in invasive Cottus compared to both parents. This coincided with increased expression for three genes related to vision, detoxification and muscle development, suggesting possible gene dosage effects. Copy number increases of putative transposons were assessed by comparative mapping of genomic DNA reads against a de novo assembly of 1,005 repetitive elements. In contrast to exons, copy number increases of repetitive elements were common (20.7%) in invasive Cottus, whereas decrease was very rare (0.01%). Among the increased repetitive elements, 53.8% occurred at higher numbers in C. perifretum compared to C. rhenanus, while only 1.4% were more abundant in C. rhenanus. This implies a biased mutational process that amplifies genetic material from one ancestor. To assess the frequency of de novo mutations through hybridization, we screened 64 laboratory-bred F
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