Arnoud H. M. van Vliet

This paper develops and validates genome-based MLST typing for Histoplasma capsulatum using 406 genome assemblies, achieving lineage separation with >8,000 markers.

The paper presents a bioinformatic pipeline for assembling Ascaris mtDNA from low-coverage whole-genome data, revealing a novel clade (Clade D) in human samples from Ethiopia.

The paper constructs genome-scale metabolic models for APEC phylogroups B2, C, and G, identifying a lineage-specific metabolic pathway in phylogroup C that distinguishes it from other groups.

The paper uses chain graphs to identify risk factors for fluoroquinolone- and macrolide-resistance in Campylobacter coli from swine farms, finding genotype and host exposures explain significant variance in MICs.

This study analyzes global S. pseudintermedius genomes to identify genomic and prophage diversity in multidrug-resistant lineages, showing prophage integration and antiviral systems correlate with disease success.

This study uses reverse vaccinology to identify four potential vaccine targets against Ascaris in humans and pigs by analyzing proteomes and predicting antigenic properties.

The paper identifies key amino acid interactions in Ascaris β-tubulins that influence benzimidazole resistance through molecular docking and simulations.