Rhys T. White

This paper develops a method to link plasmid-encoded AMR genes to their bacterial hosts using nanopore sequencing methylation data, achieving high accuracy in clinical samples.

NEXCISION is a Python tool for exact removal of genomic regions from NEXUS matrices, validated for correctness, safety, and scalability in microbial phylogenomics.

This study uses long-read nanopore sequencing to analyze carbapenem resistance dynamics in a hospital setting, revealing plasmid spread and environmental reservoirs.

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 paper identifies convergent evolution of D-ribulose utilisation pathways in attaching and effacing pathogens, showing how EHEC and Citrobacter rodentium exploit this nutrient for gut colonization.

This paper applies HERRO error correction to Oxford Nanopore sequencing data to resolve a neonatal ICU MRSA outbreak at the SNV level, achieving results comparable to Illumina sequencing.

This study characterizes the genomic context of blaNDM-1 in E. coli ST101 isolates using long-read sequencing, revealing two clades with distinct resistance profiles and plasmid-mediated blaNDM-1 carriage mechanisms.