Thomas Badet

This study analyzes a large European diversity panel of Zymoseptoria tritici to uncover genetic mechanisms underlying azole fungicide resistance across space and time.

This study investigates RIP-like mutation signatures across fungi, finding a 30-fold genome size increase in leotiomycetes linked to loss of RIP-related genes and identifying a zinc-finger protein as a novel genome defense mechanism.

The paper identifies exodermis lignification as a mechanism limiting lateral root emergence in Brachypodium distachyon, showing it is regulated by stress-induced gene expression.

This study develops a high-throughput pipeline to discover antifungal resistance in crop pathogens, identifying 2192 resistance-associated genes across a thousand-genome panel of Zymoseptoria tritici.

The paper identifies a non-recombining genomic region in the invasive fungus Cryphonectria parasitica linked to the mating-type locus, showing balanced haplotype segregation and potential adaptation through mobile elements.

The paper traces the origin and reactivation of a transposable element in a fungal wheat pathogen, showing its role in chromosomal rearrangements and loss of genomic control.

The paper tracks transposable element (TE) expansion in Zymoseptoria tritici populations, showing that demographic factors and relaxed selection drive genome size increases.

The paper uses machine-learning to identify genomic features that predict structural variation in fungal and plant genomes, showing base composition and retrotransposons drive rearrangements.

The paper identifies a virulence locus in Zymoseptoria tritici with rapid sequence evolution driven by transposable elements and genomic defenses.

The paper constructs a high-quality pangenome for Zymoseptoria tritici using 19 genomes, revealing extensive gene presence-absence variation and its functional implications.

The paper investigates how different stress conditions affect transposable element (TE) expression in the fungal pathogen Zymoseptoria tritici, revealing distinct TE de-repression patterns and the influence of genetic background and genomic context.