David J. Winter

The paper develops and evaluates a cgMLST scheme for the Enterobacter cloacae complex using whole genome sequencing data to improve surveillance of ECC species.

This study demonstrates that a cloud-based bioinformatics platform can rapidly analyze genomic data to detect hospital outbreaks with results comparable to manual analysis, without requiring bioinformatic expertise.

The study sampled wild birds in New Zealand and its territories, finding no HPAI H5N1 but detecting H1N9 in red knots during 2023-2024 migration.

This paper uses whole-genome sequencing of kakapo to analyze genetic diversity and breeding values, showing how conservation management has maintained genetic diversity and providing tools for future recovery efforts.

This paper identifies histone methyltransferases SetB and ClrD as essential for the infection capability of the grass-symbiotic fungus Epichloë festucae, showing their catalytic activity is required for successful colonization.

This study shows that phosphatidic acid, produced by phospholipase D, is essential for hyphal cell fusion and fungal-plant symbiosis in filamentous fungi.

The paper presents the tuatara genome, highlighting its evolutionary significance and unique features compared to other vertebrates.

The paper presents a chromosome-level genome assembly of Venturia effusa, identifying a frameshift mutation in ALM1 associated with the albino phenotype.

The paper investigates how repeat elements shape 3D genome structure and transcription in the fungus Epichloë festucae, revealing a unique patchwork genome with repeat-rich blocks that regulate gene expression in symbiosis.

accuMUlate is a mutation caller designed for mutation accumulation experiments, providing probabilistic modeling and filtering tools to identify and quantify mutations.