Table 2.

Differences in overall bacterial community composition between controls (HC) and patients at T0, and between patients during EEN.

	p
HC versus T0	< 0.001*
HC versus T1	< 0.001*
HC versus T2	< 0.001*
HC versus T3	< 0.001*
T0 versus T1	0.001*
T0 versus T2	0.001*
T0 versus T3	0.9999
T1 versus T2	1.000
T1 versus T3	0.025*
T2 versus T3	0.093

Controls were different from patients at all time points. EEN induces significant changes in microbial composition, T0 versus T1 and T2. At follow up T3, microbial composition of patients was not different from that at the start, T0.

Differences in community composition were analyzed using the AMOVA test in mothur, using Bray Curtis dissimilarity measures.