Table 3.

Relative abundance of phyla and major genera (each representing >1.0% of total sequences on average) in ceca.

Phyla/Genera	Vaccination1	Treatments2					SEM	Effects3
		Control	BAC	CIN	CIT	CIT + CIN		Vac	Trt	Vac × Trt
p_Actinobacteria	PV	0.02	0.01	0.01	0.03	0.04	0.019	ns	ns	ns
	PNV	0.02	0.03	0.03	0.03	0.02
p_Firmicutes	PV	97.44	94.16	96.71	96.76	94.98	0.485	ns	ns	ns
	PNV	96.88	96.26	92.62	93.71	95.13
p_Proteobacteria	PV	1.44	2.89	2.23	2.28	4.53	4.460	ns	ns	ns
	PNV	2.14	2.84	6.51	5.94	3.82
p_Tenericutes	PV	0.83	2.86	0.81	0.80	0.39	1.415	ns	ns	ns
	PNV	0.91	0.73	0.79	0.46	0.91
p_unassigned	PV	0.26	0.08	0.24	0.13	0.12	0.120	ns	ns	ns
	PNV	0.06	0.14	0.05	0.06	1.63
g_Lactobacillus	PV	10.70	8.90	3.76	17.79	3.09	0.637	*	**	ns
	PNV	5.82	5.80	3.57	11.11	1.74
g_Ruminococcus	PV	13.05	11.60	11.10	7.42	12.33	2.230	ns	*	*
	PNV	11.39	12.25	11.33	10.33	7.53
g_Oscillospira	PV	8.87	11.53	11.02	9.62	12.80	3.114	ns	ns	ns
	PNV	10.18	10.71	9.08	9.96	8.06
g_Faecalibacterium	PV	2.78	7.55	4.61	6.09	6.46	2.940	ns	ns	*
	PNV	8.62	5.36	8.11	5.25	3.18
g_Dorea	PV	1.26	1.27	1.14	0.69	1.40	0.498	ns	ns	ns
	PNV	1.35	1.42	1.29	1.56	0.87
g_Enterococcus	PV	1.21	0.04	0.05	0.13	0.08	0.107	ns	*	ns
	PNV	1.04	0.08	0.07	0.05	0.02
g_Clostridium	PV	1.00	0.17	0.20	0.15	0.19	0.214	*	**	ns
	PNV	1.29	0.37	0.23	0.34	0.16

¹PV, birds vaccinated with a live coccidiosis vaccine; PNV, birds not vaccinated with vaccine.

²BAC, 55 ppm bacitracin; CIN, 100 ppm encapsulated cinnamaldehyde; CIT, 100 ppm encapsulated citral; CIN + CIT, a combination of 100 ppm encapsulated cinnamaldehyde and citral.

³Vac, main effect of vaccination; Trt, main effects of treatments; Vac × Trt, interaction between vaccination and treatments. Asterisks indicate significant statistically differences (1 asterisk means a significance level of 0.05 and 2 asterisks 0.01).