ArticleGenome biology and evolution2019
Genomic Plasticity Mediated by Transposable Elements in the Plant Pathogenic Fungus Colletotrichum higginsianum.
Article in Genome biology and evolution, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 29 papers.
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29 citing papers in PubMed, 72 citations in OpenAlex.
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- Patterns and mechanisms of fungal genome plasticity.Current biology : CB · 2025Review
- Phylogenomics and adaptive evolution of the Colletotrichum gloeosporioides species complex.Communications biology · 2025Article
- Transposable elements in genomic architecture of Monilinia fungal phytopathogens and TE-driven DMI-resistance adaptation.Mobile DNA · 2025Article
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- Nanopore Data-Driven T2T Genome Assemblies ofJournal of fungi (Basel, Switzerland) · 2024Article
- Comparative Genomics Reveals Sources of Genetic Variability in the Asexual Fungal Plant Pathogen Colletotrichum lupini.Molecular plant pathology · 2024Article
- Comparative Genomic Analyses ofJournal of fungi (Basel, Switzerland) · 2024Article
- Complete genome of the Medicago anthracnose fungus,Microbial genomics · 2024Article
- Article
- Histological and transcriptomic insights into the interaction between grapevine andFrontiers in plant science · 2024Article
- Efficient multiple gene knockout in Colletotrichum higginsianum via CRISPR/Cas9 ribonucleoprotein and URA3-based marker recycling.Molecular plant pathology · 2023Article
- Article
- Chromosome-level analysis of theFrontiers in microbiology · 2023Article
- A chromosome-scale genome assembly of the tomato pathogenMicrobial genomics · 2022Article
- Comparative Genomics of ThreeFrontiers in microbiology · 2022Article
- Proteinaceous Effector Discovery and Characterization in Plant PathogenicFrontiers in microbiology · 2022Review
Corrections and comments
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Authors and funding
7 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Phytopathogen genomes are under constant pressure to change, as pathogens are locked in an evolutionary arms race with their hosts, where pathogens evolve effector genes to manipulate their hosts, whereas the hosts evolve immune components to recognize the products of these genes. Colletotrichum higginsianum (Ch), a fungal pathogen with no known sexual morph, infects Brassicaceae plants including Arabidopsis thaliana. Previous studies revealed that Ch differs in its virulence toward various Arabidopsis thaliana ecotypes, indicating the existence of coevolutionary selective pressures. However, between-strain genomic variations in Ch have not been studied. Here, we sequenced and assembled the genome of a Ch strain, resulting in a highly contiguous genome assembly, which was compared with the chromosome-level genome assembly of another strain to identify genomic variations between strains. We found that the two closely related strains vary in terms of large-scale rearrangements, the existence of strain-specific regions, and effector candidate gene sets and that these variations are frequently associated with transposable elements (TEs). Ch has a compartmentalized genome consisting of gene-sparse, TE-dense regions with more effector candidate genes and gene-dense, TE-sparse regions harboring conserved genes. Additionally, analysis of the conservation patterns and syntenic regions of effector candidate genes indicated that the two strains vary in their effector candidate gene sets because of de novo evolution, horizontal gene transfer, or gene loss after divergence. Our results reveal mechanisms for generating genomic diversity in this asexual pathogen, which are important for understanding its adaption to hosts.
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