Table 2.

Results from Wilcoxon rank-based tests after adjustment for covariates indicating the pairwise comparisons for the genera with a statistically significant difference across the groups

Taxa	Overall P value	Comparison	F value	P valuea	FDR P value
Bacteroidetes otherb	0.006	NO vs. Ab+ vs. Ab−	2.42	0.094	0.154
		Ab+ vs. Ab− vs. Co	4.82	0.010	0.029
		Ab+ vs. Co	9.48	0.003	0.019
		Ab− vs. Co	1.69	0.197	0.276
		NO vs. Ab−	2.86	0.094	0.154
		NO vs. Ab+	0.26	0.614	0.682
		Ab+ vs. Ab−	4.13	0.045	0.090
		Co vs. NO	8.65	0.004	0.019
Alistipes	0.013	NO vs. Ab+ vs. Ab−	4.52	0.013	0.034
		Ab+ vs. Ab− vs. Co	1.10	0.338	0.422
		Ab+ vs. Co	1.30	0.256	0.336
		Ab− vs. Co	0.04	0.848	0.893
		NO vs. Ab−	9.04	0.003	0.019
		NO vs. Ab+	1.73	0.191	0.273
		Ab+ vs. Ab−	2.01	0.159	0.231
		Co vs. NO	7.02	0.009	0.028
RC9 gut group	0.024	NO vs. Ab+ vs. Ab−	3.93	0.023	0.053
		Ab+ vs. Ab− vs. Co	4.91	0.009	0.028
		Ab+ vs. Co	7.52	0.007	0.025
		Ab− vs. Co	0.03	0.864	0.893
		NO vs. Ab−	0.89	0.348	0.422
		NO vs. Ab+	3.77	0.055	0.107
		Ab+ vs. Ab−	7.72	0.006	0.024
		Co vs. NO	1.15	0.287	0.369
Prevotellaceae	0.006	NO vs. Ab+ vs. Ab−	5.06	0.008	0.026
		Ab+ vs. Ab− vs. Co	5.53	0.005	0.022
		Ab+ vs. Co	7.59	0.007	0.025
		Ab− vs. Co	0.01	0.912	0.912
		NO vs. Ab−	4.61	0.034	0.070
		NO vs. Ab+	1.30	0.257	0.336
		Ab+ vs. Ab−	9.44	0.003	0.019
		Co vs. NO	3.69	0.058	0.108
Catenibacterium	0.015	NO vs. Ab+ vs. Ab−	5.37	0.006	0.024
		Ab+ vs. Ab− vs. Co	5.13	0.007	0.025
		Ab+ vs. Co	2.59	0.111	0.172
		Ab− vs. Co	2.22	0.139	0.209
		NO vs. Ab−	0.71	0.402	0.469
		NO vs. Ab+	6.03	0.016	0.039
		Ab+ vs. Ab−	10.23	0.002	0.017
		Co vs. NO	0.55	0.462	0.533
Lactobacillus	<0.001	NO vs. Ab+ vs. Ab−	2.32	0.104	0.164
		Ab+ vs. Ab− vs. CO	8.82	<0.001	0.008
		Ab+ vs. Co	8.42	0.005	0.020
		Ab− vs. Co	16.94	<0.001	0.004
		NO vs. Ab−	4.63	0.034	0.070
		NO vs. Ab+	1.04	0.310	0.393
		Ab+ vs. Ab−	0.87	0.352	0.422
		Co vs. NO	4.87	0.030	0.066
Staphylococcus	0.001	NO vs. Ab+ vs. Ab−	1.88	0.158	0.231
		Ab+ vs. Ab− vs. Co	8.52	<0.001	0.008
		Ab+ vs. Co	6.79	0.011	0.029
		Ab− vs. Co	16.79	<0.001	0.004
		NO vs. Ab−	3.59	0.061	0.109
		NO vs. Ab+	0.23	0.630	0.691
		Ab+ vs. Ab−	1.53	0.219	0.294
		Co vs. NO	5.91	0.017	0.041
Succiniclasticum	0.001	NO vs. Ab+ vs. Ab−	6.58	0.002	0.017
		Ab+ vs. Ab− vs. Co	0.20	0.818	0.877
		Ab+ vs. Co	0.35	0.556	0.634
		Ab− vs. Co	0.01	0.907	0.912
		NO vs. Ab−	11.73	<0.001	0.011
		NO vs. Ab+	6.77	0.011	0.029
		Ab+ vs. Ab−	0.27	0.605	0.681
		Co vs. NO	11.33	0.001	0.012
Thalassospira	0.008	NO vs. Ab+ vs. Ab−	1.61	0.204	0.283
		Ab+ vs. Ab− vs. Co	4.73	0.011	0.029
		Ab+ vs. Co	1.54	0.217	0.294
		Ab− vs. Co	9.26	0.003	0.019
		NO vs. Ab−	0.03	0.873	0.893
		NO vs. Ab+	2.34	0.129	0.197
		Ab+ vs. Ab−	2.76	0.100	0.160
		Co vs. NO	8.92	0.004	0.019

Ab−, seronegative; Ab+, seropositive; CO, unrelated control; FDR, false discovery rate; NO, new onset.

^aSignificant differences are in bold font.

^bA group of bacteria that belong to the Bacteroidetes phylum and could not be classified to lower taxa levels.