Predicting bacterial antagonism from biofilm morphology
Can you tell whether a beneficial Bacillus strain will out-compete a pathogen from the morphology of single-species biofilms alone, without exhaustive co-culture screening? Working with the applied-maths team at AgroParisTech and Paris-Saclay (Antoine Cornuéjols, Vincent Guigue) and the biofilm team at INRAE's Micalis Institute (Romain Briandet, Virgile Guéneau), we built a first framework for it. My part was a homology-controlled cross-validation scheme so the model couldn't cheat on closely related strains; together we used SHAP and permutation importance to see which morphological features actually drive exclusion.