Using structural variants to understand the ecological and evolutionary dynamics of fungal plant pathogens

Mutation load at a mimicry supergene sheds new light on the evolution of inversion polymorphisms

(2021) Paul Jay et al.   NATURE GENETICS

Genomic rearrangements generate hypervariable mini-chromosomes in host-specific isolates of the blast fungus

(2021) Thorsten Langner et al.   PLoS Genetics

Deleterious mutation accumulation and the long-term fate of chromosomal inversions

(2021) Emma L. Berdan et al.   PLoS Genetics

Emergence and diversification of a highly invasive chestnut pathogen lineage across southeastern Europe

(2021) Lea Stauber et al.   eLife

Historical genomics reveals the evolutionary mechanisms behind multiple outbreaks of the host-specific coffee wilt pathogen Fusarium xylarioides

(2021) Lily D. Peck et al.   BMC GENOMICS

Genome-wide mapping of histone modifications during axenic growth in two species of Leptosphaeria maculans showing contrasting genomic organization

(2021) Jessica L. Soyer et al.   CHROMOSOME RESEARCH

Transposable Elements Contribute to Genome Dynamics and Gene Expression Variation in the Fungal Plant Pathogen Verticillium dahliae

(2021) David E Torres et al.   Genome Biology and Evolution

Machine-learning predicts genomic determinants of meiosis-driven structural variation in a eukaryotic pathogen

(2021) Thomas Badet et al.   Nature Communications

A population-level invasion by transposable elements triggers genome expansion in a fungal pathogen

(2021) Ursula Oggenfuss et al.   eLife

A 19-isolate reference-quality global pangenome for the fungal wheat pathogen Zymoseptoria tritici

(2020) Thomas Badet et al.   BMC BIOLOGY

Balancing selection via life-history trade-offs maintains an inversion polymorphism in a seaweed fly

(2020) Claire Mérot et al.   Nature Communications

Emergence of a hybrid PKS-NRPS secondary metabolite cluster in a clonal population of the rice blast fungus Magnaporthe oryzae

(2020) Zhenhui Zhong et al.   ENVIRONMENTAL MICROBIOLOGY

Mapping and characterization of structural variation in 17,795 human genomes

(2020) Haley J. Abel et al.   NATURE

A Roadmap for Understanding the Evolutionary Significance of Structural Genomic Variation

(2020) Claire Mérot et al.   TRENDS IN ECOLOGY & EVOLUTION

Threats Posed by the Fungal Kingdom to Humans, Wildlife, and Agriculture

(2020) Matthew C. Fisher et al.   mBio

On Variant Discovery in Genomes of Fungal Plant Pathogens

(2020) Lizel Potgieter et al.   Frontiers in Microbiology

The rise and fall of genes: origins and functions of plant pathogen pangenomes

(2020) Thomas Badet et al.   CURRENT OPINION IN PLANT BIOLOGY

Massive haplotypes underlie ecotypic differentiation in sunflowers

(2020) Marco Todesco et al.   NATURE

Repetitive Elements Contribute to the Diversity and Evolution of Centromeres in the Fungal Genus Verticillium

(2020) Michael F. Seidl et al.   mBio

A unique chromatin profile defines adaptive genomic regions in a fungal plant pathogen

(2020) David E Cook et al.   eLife

Evolving Inversions

(2019) Rui Faria et al.   TRENDS IN ECOLOGY & EVOLUTION

Going beyond SNPs: the role of structural genomic variants in adaptive evolution and species diversification

(2019) Maren Wellenreuther et al.   MOLECULAR ECOLOGY

The Genome of the Fungal Pathogen Verticillium dahliae Reveals Extensive Bacterial to Fungal Gene Transfer

(2019) Xiaoqian Shi-Kunne et al.   Genome Biology and Evolution

Convergent recombination cessation between mating-type genes and centromeres in selfing anther-smut fungi

(2019) Fantin Carpentier et al.   GENOME RESEARCH

Whole-genome sequencing reveals recent and frequent genetic recombination between clonal lineages of Cryphonectria parasitica in western Europe

(2019) Arthur Demené et al.   FUNGAL GENETICS AND BIOLOGY

Transposon-Mediated Horizontal Transfer of the Host-Specific Virulence Protein ToxA between Three Fungal Wheat Pathogens

(2019) Megan C. McDonald et al.   mBio

Reshuffling yeast chromosomes with CRISPR/Cas9

(2019) Aubin Fleiss et al.   PLoS Genetics

Higher gene flow in sex-related chromosomes than in autosomes during fungal divergence

(2019) Fanny E Hartmann et al.   MOLECULAR BIOLOGY AND EVOLUTION

Cause and Effectors: Whole-Genome Comparisons Reveal Shared but Rapidly Evolving Effector Sets among Host-Specific Plant-Castrating Fungi

(2019) William C. Beckerson et al.   mBio

A dispensable paralog of succinate dehydrogenase subunit C mediates standing resistance towards a subclass of SDHI fungicides in Zymoseptoria tritici

(2019) Diana Steinhauer et al.   PLoS Pathogens

Transposable element insertions shape gene regulation and melanin production in a fungal pathogen of wheat

(2018) Parvathy Krishnan et al.   BMC BIOLOGY

Supergene Evolution Triggered by the Introgression of a Chromosomal Inversion

(2018) Paul Jay et al.   CURRENT BIOLOGY

Gene Presence–Absence Polymorphism in Castrating Anther-Smut Fungi: Recent Gene Gains and Phylogeographic Structure

(2018) Fanny E Hartmann et al.   Genome Biology and Evolution

Meiosis Leads to Pervasive Copy-Number Variation and Distorted Inheritance of Accessory Chromosomes of the Wheat Pathogen Zymoseptoria tritici

(2018) Simone Fouché et al.   Genome Biology and Evolution

Multiple convergent supergene evolution events in mating-type chromosomes

(2018) Sara Branco et al.   Nature Communications

Extraordinary Genome Instability and Widespread Chromosome Rearrangements During Vegetative Growth

(2018) Mareike Möller et al.   GENETICS

Distinct Trajectories of Massive Recent Gene Gains and Losses in Populations of a Microbial Eukaryotic Pathogen

(2017) Fanny E. Hartmann et al.   MOLECULAR BIOLOGY AND EVOLUTION

Evolution and genome architecture in fungal plant pathogens

(2017) Mareike Möller et al.   NATURE REVIEWS MICROBIOLOGY

Transposons passively and actively contribute to evolution of the two-speed genome of a fungal pathogen

(2016) Luigi Faino et al.   GENOME RESEARCH