Differentially abundant amplicon sequence variants (ASVs) in the intestinal microbiota. The ASV corresponding to the subspecies B. animalis subsp. lactis, including Bl-04, was increased overall in the jejunum, ileum, and caecum (all weeks combined for each intestinal section; FDR < 0.05) and at Week 4 for each intestinal section (* FDR < 0.05) compared to placebo (A). An ASV corresponding to Adlercreutzia sp. was increased at Week 1 in the ileum and caecum of placebo mice compared to Bl-04 (* FDR < 0.05) (B) and three ASVs corresponding to Clostridiales sp. (novel species) were differentially abundant in the caecum at Week 4 (* FDR < 0.05) (C). Baseline (day −21; n = 8 per day), Week 1 (days −20, −18, −14; n = 8 per day), Week 3 (days −7, 0; n = 8 per day) pre-infection, and Week 4 post-infection (days 3, 5, and 7; n = 16 per day).