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

Rapid assessment of phytoplankton assemblages using Next Generation Sequencing - Barcode of Life database: a widely applicable toolkit to monitor biodiversity and harmful algal blooms (HABs)

Natalia V. Ivanova, L. Cynthia Watson, Jérôme Comte, Kyrylo Bessonov, Arusyak Abrahamyan, Timothy W. Davis, George S. Bullerjahn, Susan B. Watson

The paper develops a molecular toolset using DNA barcoding and NGS to rapidly assess phytoplankton communities, focusing on harmful algal blooms and toxin-producing cyanobacteria.

bioRxiv · Dec 11, 2019 · PreprintMolecular Biology

Using eDNA to biomonitor the fish community in a tropical oligotrophic lake

Martha Valdéz-Moreno, Natalia V. Ivanova, Manuel Elías‐Gutiérrez, Stephanie L. Pedersen, Kyrylo Bessonov, Paul D. N. Hebert

This study uses eDNA to survey fish and vertebrate communities in a tropical lake, finding new species records and confirming methods for detecting invasive species.

PLoS ONE · Apr 22, 2019Peer-reviewedMolecular Biology