Sharon J. Peacock

BaGPipe automates bacterial GWAS workflows, improving efficiency and reproducibility by integrating preprocessing, analysis, and visualization in a scalable pipeline.

The paper analyzes the mutational landscape of Staphylococcus aureus during colonization, identifying adaptive mutations in metabolic pathways and antibiotic targets.

This study profiles resistance determinants, virulence factors, and mobile genetic elements in 1273 Enterococcus faecium genomes from UK and Canada, showing habitat-associated gene and MGE patterns and a workflow for AMR surveillance.

MAJORA enables decentralized sequencing and integration of SARS-CoV-2 genomic data and metadata across the COG-UK network, supporting rapid genomic surveillance.

The paper analyzes global E. coli ST131 genomes to trace the evolution and spread of antibiotic-resistant subclones, identifying a C2 lineage that displaced a C1 strain in an Irish LTCF.

The paper evaluates GWAS methods for detecting antibiotic resistance in Staphylococcus aureus genomes, finding they identify novel resistance mutations but are less accurate than literature-based approaches.

The paper compares E. coli isolates from humans and livestock to assess transmission and resistance gene sharing, finding genetic distinctions and limited shared antimicrobial resistance genes.

This study identifies negative frequency-dependent selection in Escherichia coli ST131 as a key driver of its evolutionary success and adaptation to different ecological niches.

This study traces the origin and global spread of a multidrug-resistant MRSA lineage from the Indian subcontinent, showing its emergence through plasmid acquisition and intercontinental transmission.