Q. Lamy-Besnier

The paper studies viral community dynamics on the surface of a French smear-ripened cheese during maturation and across production years, finding persistent dominant phages and shifts in phage-host associations.

The paper uses Hi-C to study chromosome folding and prophage activation in gut bacteria, identifying functional prophages and their environmental dynamics.

The paper analyzes viromes and microbiomes from pig fecal samples to determine if phages or prophages carry antibiotic resistance genes, finding that ARGs are absent from active phages but present in prophages not detected in viromes.

The paper shows that spatial heterogeneity in the gut allows bacteria to coexist with their phages by providing refuge sites, challenging previous assumptions about phage-bacteria dynamics.