ArticleNucleic acids research2024
Systematic identification of cargo-mobilizing genetic elements reveals new dimensions of eukaryotic diversity.
Article in Nucleic acids research, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 28 papers.
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Who cites it
28 citing papers in PubMed.
- Giant transposable elements drive genetic diversification iniScience · 2026Article
- Helitrons are enriched in lichenized fungi with long generation lengths and small distribution sizes.G3 (Bethesda, Md.) · 2026Article
- Article
- Accessory regions and horizontal gene transfer shape the evolution of clonal Colletotrichum nymphaeae infecting strawberry.The New phytologist · 2026Article
- Horizontal gene transfer in Saccharomyces cerevisiae and other Saccharomycotina yeasts: a review.World journal of microbiology & biotechnology · 2026Review
- A structurally unique effector shared between vascular wilt fungi drives cotton and olive defoliation.Nature communications · 2026Article
- Article
- Regions of low gene expression promote maintenance and adaptation of horizontally acquired genes in yeasts.Communications biology · 2026Article
- Polymorphism and evolutionary origins of accessory chromosomes in the basidiomycete Tremella fuciformis.Nature communications · 2026Article
- Transposable elements hitchhike on Starships across fungal genomes.Nature communications · 2026Article
- The role of toxin/antidote genes in the maintenance and evolution of accessory chromosomes in Fusarium.Genetics · 2025Article
- Genomic Insights into Historical Adaptation of Three Key Fungal Plant Pathogens.Genome biology and evolution · 2025Article
- A genomic perspective on fungal diversity and evolution.Nature reviews. Microbiology · 2025Review
- Article
- Starship giant transposons dominate plastic genomic regions in a fungal plant pathogen and drive virulence evolution.Nature communications · 2025Article
- Harboring Starships: The Accumulation of Large Horizontal Gene Transfers in Domesticated and Pathogenic Fungi.Genome biology and evolution · 2025Article
- Are Fungal Disease Outbreaks Instigated by Starship Transposons?Molecular plant pathology · 2025Review
- Article
- Starship giant transposable elements cluster by host taxonomy using k-mer-based phylogenetics.G3 (Bethesda, Md.) · 2025Article
- Giant transposons promote strain heterogeneity in a major fungal pathogen.bioRxiv : the preprint server for biology · 2025Article
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2 authors.
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Abstract
Cargo-mobilizing mobile elements (CMEs) are genetic entities that faithfully transpose diverse protein coding sequences. Although common in bacteria, we know little about eukaryotic CMEs because no appropriate tools exist for their annotation. For example, Starships are giant fungal CMEs whose functions are largely unknown because they require time-intensive manual curation. To address this knowledge gap, we developed starfish, a computational workflow for high-throughput eukaryotic CME annotation. We applied starfish to 2 899 genomes of 1 649 fungal species and found that starfish recovers known Starships with 95% combined precision and recall while expanding the number of annotated elements ten-fold. Extant Starship diversity is partitioned into 11 families that differ in their enrichment patterns across fungal classes. Starship cargo changes rapidly such that elements from the same family differ substantially in their functional repertoires, which are predicted to contribute to diverse biological processes such as metabolism. Many elements have convergently evolved to insert into 5S rDNA and AT-rich sequence while others integrate into random locations, revealing both specialist and generalist strategies for persistence. Our work establishes a framework for advancing mobile element biology and provides the means to investigate an emerging dimension of eukaryotic genetic diversity, that of genomes within genomes.
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