Fig. 4

The commonly acquired bacteria after faecal microbiota transplantation (FMT). a Flowchart showing how the commonly acquired bacteria were identified. b Heatmap showing the bacterial taxa, abundance and the stability of the therapeutic core. The bacterial groups shown with bold text were increased in all patients and the others were increased in patients from two out of three donors. *The bacteria belonging to C. difficile group include eight commensal species and uncultured representatives (see Additional file 1), which produced the detected signal. C. difficile per se was absent from all donors and patients post-FMT