The key quote here being: "[...] Lactobacillus-secreted soluble factors contributed to [...]compromised gut mucosal recovery, highlighting a need of developing aFMT or personalized probiotic approaches achieving mucosal protection without compromising microbiome recolonization in the antibiotics-perturbed host."

They tested only multi-strain probiotics vs "aFMT" (fecal transplant). That is a far cry from saying "probiotics don't work".