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.

Microbial Genomics · Sep 21, 2022Peer-reviewedGenomics

Rapid and accurate SNP genotyping of clonal bacterial pathogens with BioHansel

Geneviève Labbé, Peter Kruczkiewicz, James A. Robertson, Philip Mabon, Justin Schonfeld, Daniel Kein, Marisa A. Rankin, Matthew Gopez, Darian Hole, David Son, Natalie Knox, Chad Laing, Kyrylo Bessonov, Eduardo Napoleon Taboada, Catherine E. Yoshida, , John H. E. Nash

BioHansel rapidly and accurately genotypes bacterial pathogens from WGS data using canonical SNPs, enabling efficient surveillance and outbreak response.

Microbial Genomics · Sep 9, 2021Peer-reviewedBioinformatics

Development of a multi-locus typing scheme for an Enterobacteriaceae linear plasmid that mediates inter-species transfer of flagella

James A. Robertson, Janet T. Lin, Amie Wren-Hedgus, Gitanjali Arya, Catherine D. Carrillo, John J. Nash

The paper develops a multi-locus typing scheme for a plasmid mediating flagella transfer in Salmonella, identifies its homologs in 154 genomes, and demonstrates its utility in tracking plasmid lineages.

PLoS ONE · Nov 18, 2019Peer-reviewedGenomics