Author

A. Kazakov

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Open access Sep 2026

Phylogeny-agnostic strain-level prediction of phage-host interactions from genomes using machine learning.

Bacteriophages offer promising alternatives to antibiotics for treating drug-resistant infections and engineering microbiomes, but applications are limited by challenges related to selection of phages infecting specific bacterial strains. Here we present a phylogeny-agnostic machine-learning framework predicting strain...

A. Noonan, Lucas Morinière, E. O. Rivera-Lopez et al. · Nature Microbiology · 0 citations

Open access Sep 2026

Genome-wide characterization of host factors involved in single-stranded RNA and DNA phage infection pathways

Single stranded RNA (ssRNA) and single stranded DNA (ssDNA) bacteriophages represent a key component of the global virome, yet the host genetic networks supporting their infection cycles remain poorly understood. Here, we present a comprehensive, genome-wide mapping of the genetic landscape regulating infection cycles...

Isabella Murray, Roniya Thapa Magar, Denish Piya et al. · bioRxiv · 0 citations

Open access Jul 2026

Surface architecture of the bacterial envelope determines phage adsorption route in pathogenic Escherichia coli O157:H7

This study provides the first genome-scale, functional genetic map of phage susceptibility determinants in O157:H7 and demonstrates that the state of the outer surface layers, specifically the O-antigen and the gfc-etk capsule, determines whether phages can reach conserved terminal receptors.

E. O. Rivera-Lopez, Lucas Morinière, A. Kazakov et al. · bioRxiv · 0 citations