TABLE 2.

Effect of sampling techniques (rumen cannula, RC, vs stomach tube, ST) on bacterial composition (%)¹ in lactating dairy cows.

Bacterial taxa	Sampling method		SEM2	P-value
	RC	ST		TR	T	TR × T
Actinobacteria (phylum)
Coriobacteriaceae (family)	2.41	1.31	0.239	0.002	0.03	0.01
Corynebacterium (genus)	0.18	0.11	0.031	0.10	0.07	0.16
Unclassified bacteria (phylum)	0.44	0.37	0.064	0.42	0.63	0.65
Bacteroidetes (phylum)
Bacteroidales (order)	2.41	2.25	0.309	0.71	0.18	0.23
CF231 (genus)	0.39	0.41	0.106	0.85	0.07	0.22
Paraprevotellaceae (family)	0.63	0.92	0.074	0.01	0.22	0.07
Prevotella (genus)	17.6	34.6	4.39	0.01	0.02	<0.001
Prevotellaceae (family)	0.44	0.78	0.095	0.01	0.06	0.04
S247 (family)	2.75	2.08	0.200	0.03	0.14	0.60
YRC22 (genus)	0.33	0.52	0.075	0.06	0.13	0.53
Cyanobacteria (phylum)
YS2 (genus)	0.03	0.14	0.035	0.004	0.06	0.01
Fibrobacteres (phylum)
Fibrobacter (genus)	0.04	0.13	0.032	0.01	0.09	0.01
Firmicutes (phylum)
Bulleidia (genus)	1.93	1.06	0.736	0.30	<0.001	<0.001
Butyrivibrio (genus)	9.59	4.86	0.983	0.001	0.05	<0.001
Christensenellaceae (family)	0.29	0.16	0.101	0.28	0.02	<0.001
Clostridiales (order)	18.1	11.9	1.14	0.001	0.02	<0.001
Clostridium (genus)	0.13	0.17	0.062	0.64	0.003	0.001
Coprococcus (genus)	1.47	1.42	0.212	0.87	0.98	0.02
Dialister (genus)	0.21	0.32	0.247	0.71	<0.001	0.001
Eubacterium (genus)	0.34	0.19	0.102	0.18	0.06	0.002
L7A-E11 (genus)	0.10	0.07	0.022	0.18	0.94	0.82
Lachnospiraceae (family)	8.92	5.76	0.300	<0.001	0.17	0.001
Lactobacillus (genus)	0.07	0.12	0.036	0.24	0.001	0.25
Mogibacteriaceae (family)	1.54	1.15	0.113	0.02	0.41	0.004
Moryella (genus)	0.43	0.28	0.038	0.01	0.02	0.20
Oscillospira (genus)	0.11	0.13	0.050	0.77	0.98	0.87
P75a5 (genus)	0.14	0.09	0.027	0.13	0.97	0.30
Pseudobutyrivibrio (genus)	0.06	0.11	0.033	0.21	0.54	0.03
RFN20 (genus)	0.22	0.26	0.029	0.30	0.25	0.06
Ruminococcaceae (family)	6.36	3.83	0.528	0.002	0.24	< 0.001
Ruminococcus (genus)	3.85	5.23	2.334	0.64	0.05	0.88
Selenomonas (genus)	0.09	0.20	0.067	0.15	<0.001	0.09
Sharpea (genus)	3.28	4.37	0.611	0.18	0.01	0.47
Shuttleworthia (genus)	1.03	1.21	0.274	0.63	0.12	0.01
Streptococcus (genus)	0.08	0.10	0.014	0.21	0.05	0.30
Succiniclasticum (genus)	1.55	1.39	0.385	0.75	<0.001	0.04
Veillonellaceae (family)	0.36	0.36	0.092	0.98	<0.001	0.001
Weissella (genus)	0.11	0.22	0.052	0.06	0.002	0.74
Proteobacteria (phylum)
Succinivibrionaceae (family)	0.14	0.34	0.048	0.001	0.18	0.11
Spirochetes (phylum)
Treponema (genus)	0.12	0.21	0.059	0.15	<0.001	0.03
SR1 (phylum)	0.06	0.11	0.048	0.31	0.42	0.07
Tenericutes (phylum)
RF39 (family)	0.67	0.74	0.168	0.76	0.05	0.03
TM7 (phylum)
F16 (family)	0.56	0.57	0.102	0.97	0.18	0.06

¹The percentage represents the percentage of the total sequences analyzed within the sample. ²Largest SEM published in table; n = 68 for all variables (n represents the number of observations used in the statistical analysis).