Table 1. Phyla Relative Abundances.

	SDR		HCC		SDR		HCC
	L.r.	Veh	L.r.	Veh	L.r.	Veh	L.r.	Veh
	Day 1				Day 6
Firmicutes*,†	85.70 ± 2.86	88.10 ± 2.12	89.96 ± 1.34	78.18 ± 6.27	73.53 ± 6.00	72.21±	80.52 ± 2.46	75.00 ± 5.87
Bacteroidetes*,†	9.66 ± 2.02	6.66 ± 1.40	6.56 ± 1.18	8.24 ± 1.98	20.85 ± 6.70	14.14 ± 2.99	10.88 ± 2.25	13.18 ± 3.83
Proteobacteria	3.78 ± 0.96	4.62 ± 1.44	2.51 ± 0.54	11.50 ± 4.62	4.75 ± 1.18	10.81 ± 5.77	7.18 ± 2.84	9.98 ± 5.43
Deferribacteres	0.56 ± 0.10	0.48 ± 0.22	0.48 ± 0.19	1.79 ± 1.23	0.36 ± 0.10	2.54 ± 1.42	0.96 ± 0.76	1.46 ± 1.18
Actinobacteria	0.15 ± 0.04	0.08 ± 0.02	0.30 ± 0.21	0.15 ± 0.09	0.30 ± 0.09	0.20 ± 0.07	0.15 ± 0.03	0.13 ± 0.03
Verrucomicrobia	0.06 ± 0.02	0.03 ± 0.02	0.08 ± 0.03	0.03 ± 0.02	0.02 ± 0.02	0.01 ± 0.01	0.21 ± 0.09	0.16 ± 0.12
	Day 12				Day 24
Firmicutes	66.73 ± 6.74	64.54 ± 7.21	76.49 ± 5.24	82.57 ± 2.46	62.27 ± 5.60	72.60 ± 5.99	74.62 ± 6.58	77.37 ± 3.31
Bacteroidetes	19.94 ± 3.90	15.94 ± 3.22	8.62 ± 2.65	11.36 ± 2.06	31.20 ± 5.00	18.62 ± 4.91	16.13 ± 6.09	13.22 ± 2.67
Proteobacteria	8.04 ± 3.02	17.34 ± 5.38	13.54 ± 4.71	4.43 ± 0.55	4.34 ± 1.12	7.83 ± 2.22	7.17 ± 2.73	7.07 ± 1.45
Deferribacteres	0.27 ± 0.10	0.35 ± 0.21	0.85 ± 0.41	0.36 ± 0.09	0.11 ± 0.04	0.17 ± 0.09	0.95 ± 0.45	1.14 ± 0.65
Actinobacteria	4.25 ± 2.65	1.41 ± 1.07	0.18 ± 0.07	1.00 ± 0.49	1.28 ± 0.59	0.27 ± 0.14	0.72 ± 0.58	0.70 ± 0.36
Verrucomicrobia	0.27 ± 0.11	0.08 ± 0.06	0.25 ± 0.09	0.19 ± 0.10	0.36 ± 0.19	0.02 ± 0.01	0.11 ± 0.05	0.16 ± 0.06

*Indicates a main effect of DPI in the 3 factor ANOVA.

^†Indicates a main effect of stress in the 3 factor ANOVA.

L. reuteri treatment did not affect relative abundances.