Table 2.

Prevalence and mean proportional abundance of genera in cross-sectional analysis.

Phylum or genus	Random foresta	Prevalenceb, column percent				p value		Proportional abundancec, mean (SD)				p value
		A. non-ST131	B. any ST131	C. ST131, non-H30R	D. ST131, H30R	A vs B	A v D	A. non-ST131	B. any ST131	C. ST131, non-H30R	D. ST131, H30R	A vs B	A v D
		N = 441	N = 78	N = 29	N = 49			N = 441	N = 78	N = 29	N = 49
Actinobacteria		94	96	100	94	0.51	0.90	3.1 (4.6)	4.7 (3.9)	4.3 (3.6)	4.9 (4.1)	<0.001	0.001
Asaccharobacterd	X	25	46	48	45	<0.001	0.004	0.1 (0.1)	0.1 (0.2)	0.1 (0.2)	0.1 (0.2)	<0.001	0.008
Bifidobacterium		62	71	72	69	0.15	0.30	0.9 (2.4)	0.8 (1.2)	0.8 (1.2)	0.7 (1.3)	0.32	0.78
Collinsella	X	67	82	90	78	0.007	0.12	1.1 (2.5)	2.1 (2.5)	1.9 (2.3)	2.3 (2.7)	<0.001	0.001
Eggerthella	X	47	62	72	55	0.02	0.31	0.2 (0.4)	0.6 (1.1)	0.7 (1.0)	0.6 (1.2)	0.001	0.18
Gardnerella	X	7	26	38	18	<0.001	0.006	0.0 (0.3)	0.2 (1.0)	0.1 (0.3)	0.3 (1.3)	<0.001	0.004
Gordonibacter		32	54	55	53	<0.001	0.003	0.3 (1.0)	0.5 (1.2)	0.5 (1.2)	0.5 (1.2)	<0.001	0.01
Bacteroidetes		100	100	100	100	1.00	1.00	30.5 (15.7)	27.6 (13.0)	24.5 (13.0)	29.4 (12.8)	0.20	0.78
Alistipes	X	88	82	90	78	0.15	0.04	2.6 (3.8)	1.8 (2.9)	1.2 (1.4)	2.1 (3.5)	0.01	0.08
Bacteroides		100	100	100	100	0.55	0.64	23.9 (14.7)	22.2 (11.8)	20.4 (11.3)	23.3 (12.1)	0.52	0.78
Firmicutes		100	100	100	100	0.55	0.64	39.7 (18.3)	40.9 (14.3)	39.2 (16.5)	41.9 (12.9)	0.35	0.22
Enterococcus	X	43	53	55	51	0.10	0.26	0.8 (3.1)	2.8 (8.0)	4.5 (10.5)	1.9 (6.0)	0.03	0.17
Lactobacillus	X	33	65	62	67	<0.001	<0.001	0.3 (1.2)	1.3 (3.3)	1.0 (3.0)	1.5 (3.5)	<0.001	<0.001
Streptococcus	X	68	88	97	84	<0.001	0.02	1.2 (3.9)	2.0 (4.5)	1.5 (2.0)	2.3 (5.4)	<0.001	0.001
Weissella	X	2	9	14	6	0.002	0.11	0.0 (0.3)	0.0 (0.2)	0.0 (0.1)	0.0 (0.2)	0.003	0.10
Fusobacteria		13	14	14	14	0.78	0.79	0.2 (1.2)	0.1 (0.8)	0.1 (0.2)	0.2 (1.0)	0.87	0.85
Lentisphaerae		10	5	0	8	0.16	0.65	0.0 (0.1)	0.0 (0.0)	–	0.0 (0.0)	0.14	0.61
Proteobacteria		98	100	100	100	0.20	0.31	24.8 (20.4)	25.5 (17.5)	31.3 (18.6)	22.0 (16.0)	0.35	0.74
Escherichia		88	99	100	98	0.003	0.03	18.7 (19.6)	19.5 (16.0)	22.8 (16.8)	17.6 (15.4)	0.07	0.37
Oxalobacterd	X	4	12	3	16	0.004	<0.001	0.0 (0.0)	0.0 (0.0)	0.0 (0.0)	0.0 (0.0)	0.004	<0.001
Synergistetes		13	13	0	20	0.98	0.15	0.1 (0.3)	0.4 (3.0)	–	0.6 (3.7)	0.95	0.16
Verrucomicrobia		52	38	34	41	0.048	0.22	1.3 (3.4)	0.3 (0.9)	0.2 (0.8)	0.3 (1.0)	0.003	0.04
Akkermansia		52	38	34	41	0.03	0.14	1.3 (3.4)	0.3 (0.9)	0.2 (0.8)	0.3 (1.0)	0.005	0.02

Bold denotes p < 0.05.

^aX indicates the taxon was selected as one of the top-10 most informative genera for predicting ST131 carriage using the random forest model.

^bPercent of participants in a group with a given taxon.

^cMean proportional contribution of each taxon to each participant's gut microbiome (proportional abundance for a given sample was calculated as the number of reads of the given taxon divided by the total number of reads in that sample).

^dA genetic near neighbor of the taxon.