Table 4. Relative abundances of key genera responding to rotavirus (RV) infection and dietary treatment identified by redundancy analysis and univariate statistics (PROC MIXED).

Genus	Non-infected			RV-infected			P-value
	FF	HMO	PRE	FF	HMO	PRE	Diet	Infection	Diet × infection
Anaerotruncus	0.26±0.07	0.26±0.03	0.15±0.03	0.07±0.02	0.09±0.04	0.15±0.05	0.73	0.02	0.04
Bacteroides	26.19±4.12	21.60±3.81	20.65±4.97	47.95±8.76	45.7±8.61	42.15±7.33	0.69	<0.0001	0.85
Blautia	5.47±1.14	11.2±1.95	5.71±1.46	4.6±1.58	4.25±1.72	3.69±0.96	0.56	0.01	0.44
Clostridium IV	0.35±0.1	0.51±0.2	0.14±0.05	0.14±0.05	0.05±0.03	0.07±0.03	0.38	<0.0001	0.53
Clostridium XlVa	3.69±1.22	1.78±0.16	5.06±1.13	1.91±0.75	1.21±0.52	2.38±1.05	0.03	0.0033	0.64
Clostridium XVIII	0.03±0.02	0.12±0.05	0.01±0.01	0.19±0.18	0.64±0.5	0.06±0.03	0.05	0.07	0.55
Faecalibacterium	0.14±0.04	0.32±0.12	0.56±0.31	1.46±0.67	1.62±0.89	8.47±5.41	0.0045	0.0002	0.32
Lactococcus	0.2±0.07	0.16±0.05	0.04±0.03	0.04±0.02	0.01±0.01	0.01±0.01	0.05	0.00	0.25
Parabacteroides	9.33±2.93	11.02±3.86	10.00±3.86	2.84±0.98	3.54±1.55	3.73±1.69	0.88	0.0014	0.66
Streptococcus	2.99±0.93	2.22±0.53	1.06±0.41	0.35±0.07	0.32±0.06	0.5±0.26	0.05	<0.0001	0.03
Turicibacter	0.56±0.22	0.54±0.22	2.68±1.19	0.14±0.08	0.02±0.01	0.13±0.06	0.05	0.0004	0.20
Unclassified Clostridiaceae 1	0.03±0.01	0.19±0.1	0.02±0.01	0.01±0.01	0.04±0.03	0.02±0.01	0.05	0.28	0.19
Unclassified Lachnospiraceae	6.93±0.97	15.69±2.39	7.28±1.18	10.67±2.95	19.89±2.91	9.68±1.21	<0.0001	0.01	1.00
unclassified Peptostreptococcaceae	0.08±0.02	0.11±0.04	0.14±0.03	0.05±0.02	0.02±0.01	0.04±0.02	0.82	0.01	0.66
Unclassified Ruminococcaceae	13.41±2.93	4.66±0.77	7.16±1.53	5.59±1.25	2.92±0.68	3.62±0.86	0.0002	0.003	0.68

Abbreviations: FF, formula fed; HMO, formula supplemented with human milk oligosaccharides (HMO) (4 g l⁻¹); PRE, formula supplemented with short-chain galactooligosaccharides and long-chain fructooligosaccharides (4 g l⁻¹).

Values are means±s.e.m. (n=7–13 per group).