Michael F. Seidl

Consolidating species boundaries in the Fusarium oxysporum species complex based on genomic evidence

This study consolidates species boundaries in the Fusarium oxysporum species complex using genomic data, revealing redundant species and two novel lineages.

An expanded urine culturing workflow to cultivate and characterize diverse urobiome isolates

This paper introduces an expanded urine culturing workflow to recover diverse urobiome isolates from postmenopausal women, enabling better characterization of previously underrepresented taxa.

Cross-study metagenomics analysis reveals distinct microbial signatures of urinary tract infections

The paper analyzes cross-study metagenomics data to identify microbial signatures associated with urinary tract infections and their genomic variation.

A structurally unique effector shared between Verticillium dahliae and Fusarium oxysporum is involved in cotton defoliation and virulence on other hosts

From omics to enhanced fungal virulence: Overexpression of a putative secreted protein improves Beauveria bassiana biocontrol potential against the insect pests Piezodorus guildinii and Tenebrio molitor

The paper identifies a secreted protein that enhances the virulence of Beauveria bassiana against insect pests when overexpressed.

Extensive horizontal transfer of transposable elements shape fungal mobilomes

The paper identifies extensive horizontal transfer of transposable elements in fungi, revealing ecological and genomic factors influencing their spread.

Extensive intrachromosomal duplications in a virulence-associated fungal accessory chromosome

The paper identifies extensive intrachromosomal duplications in the accessory chromosome of TR4, showing its role in virulence and chromosome dynamics in F. oxysporum.

Starship giant transposons dominate plastic genomic regions in a fungal plant pathogen and drive virulence evolution

This study identifies Starship transposons as abundant and virulence-associated elements in Verticillium dahliae, showing their role in horizontal gene transfer and virulence evolution.

Evolution of resistance breaking in spinach downy mildew revealed through pangenome graph analysis

The paper uses pangenome graph analysis of 19 spinach downy mildew isolates to study the evolution of resistance-breaking traits and identifies effector candidates associated with resistance breakdown.

Mating Type Gene Divergence is Associated with Life Cycle Differentiation in Scots Pine Blister Rust

This study compares mating-type gene structures in two reproductive forms of Cronartium pini, finding differences in genetic diversity and reproductive modes.

Reference-free identification and pangenome analysis of accessory chromosomes in a major fungal plant pathogen

The paper constructs a pangenome variation graph for Fusarium oxysporum to study accessory chromosomes, identifying their variability and evolutionary dynamics.

Exploiting Pseudomonas syringae Type 3 secretion to study effector contribution to disease in spinach

This study uses a modified Pseudomonas syringae strain to identify key effectors contributing to disease in spinach, enabling high-throughput analysis of effector function.

Frequent genetic exchanges revealed by a pan-mitogenome graph of a fungal plant pathogen

This paper constructs a pan-mitogenome graph of nearly 500 Fusarium oxysporum mitogenomes to reveal frequent recombination and genetic variation, challenging the assumption of clonal reproduction.

Pangenome graph analysis reveals extensive effector copy-number variation in spinach downy mildew

The paper constructs a pangenome graph for Peronospora effusa, revealing extensive copy-number variation in pathogenicity genes and transposable elements contributing to genomic diversity.

Genomic localization bias of secondary metabolite gene clusters and association with histone modifications in Aspergillus

The paper investigates the genomic localization of secondary metabolite gene clusters in Aspergillus and their association with histone modifications, finding a bias for low-synteny regions and differential histone PTM regulation.

Novel genomic features in entomopathogenic fungus Beauveria bassiana: supernumerary chromosomes and putative virulence genes involved in the infection process of soybean pest Piezodorus guildinii.

This study identifies supernumerary chromosomes and virulence genes in the hypervirulent B. bassiana strain ILB308, which may enhance its ability to infect soybean pests.

A thousand-genome panel retraces the global spread and climatic adaptation of a major crop pathogen

The paper analyzes a thousand-genome panel of Zymoseptoria tritici to trace its global spread and identify genetic changes associated with climatic adaptation.

Detection and quantification of the histone code in the fungal genus Aspergillus

The paper detects and quantifies histone post-translational modifications (PTMs) in three Aspergillus species, revealing strain-specific variations in PTM abundance and novel PTMs.

Enemy or ally: a genomic approach to elucidate the lifestyle of Phyllosticta citrichinaensis

This study compares the genomes of pathogenic and endophytic Phyllosticta species colonizing citrus to determine the lifestyle of Phyllosticta citrichinaensis, finding it to be intermediate between the two.

Transposable elements contribute to genome dynamics and gene expression variation in the fungal plant pathogen Verticillium dahliae

The paper analyzes TE polymorphisms in V. dahliae to show they contribute to genomic variation and gene expression, particularly in pathogenicity-related genes.

Chromatin features define adaptive genomic regions in a fungal plant pathogen

The paper identifies adaptive genomic regions in the fungus Verticillium dahliae by analyzing chromatin features, showing these regions have unique epigenetic marks and are associated with adaptive traits.

Centromere evolution in the fungal genus Verticillium

This study identifies and characterizes centromeres in ten Verticillium species, revealing conserved and variable features linked to repetitive elements and genome evolution.

The genome of Peronospora belbahrii reveals high heterozygosity, a low number of canonical effectors and CT-rich promoters

This paper presents the genome of Peronospora belbahrii, revealing high heterozygosity, a small secretome, and CT-rich promoters, and suggests additional virulence factors.

Dynamic virulence-related regions of the fungal plant pathogen Verticillium dahliae display remarkably enhanced sequence conservation

The paper shows that lineage-specific regions in V. dahliae are more conserved than core regions, suggesting host adaptation through presence/absence polymorphisms rather than sequence divergence.

Nuclear and mitochondrial genomes of the hybrid fungal plant pathogen Verticillium longisporum display a mosaic structure

This study examines the mosaic genome structure of the hybrid fungal plant pathogen Verticillium longisporum and its evolutionary implications.

Genome-wide characterization of Phytophthora infestansmetabolism: a systems biology approach

The paper develops a genome-scale metabolic model for Phytophthora infestans to characterize its metabolism and predict essential enzymes for in vitro growth.

Tomato immune receptor Ve1 recognizes surface-exposed co-localized N- and C-termini of Verticillium dahliae effector Ave1

How transposons drive evolution of virulence in a fungal pathogen

This study shows transposons drive adaptive genome evolution in Verticillium dahliae by enabling segmental duplications and contributing to genomic plasticity, which impacts pathogen aggressiveness.