Table 6.

Metagenomic Kp strain-level detection performed using StrainGST in 21 adult fecal samples with Kp relative abundance ≥ 0.1%.

T7 Sample	SCAI culture resulta		Kp Abundance		StrainGST result
Number	Kp detected?	Strain	WMS (%)b	qPCR (copies/ng DNA)	Strain(s) detected	est. abundance (%)	Confidence Score
89	yes	ST14	39.55	45900	ST14	30.639	0.94
101	yes	ST2042	26.04	39390	ST2039	27.521	0.94
75	yes	ST485	22.09	18240	ST485, ST35c	6.146, 3.875	0.86, 0.66
92	yes	ST35	20.55	18660	ST35	12.651	0.96
74	yes	ST27	17.81	9120	ST27	4.061	0.98
18	yes	ST4039	15.29	9940	ST4039	5.27	0.85
91	yes	ST1496	14.73	21240	ST1496	14.655	0.98
45	yes	ST25	8.39	7400	ST25, ST2549, ST4039c	0.37, 2.75, 1.16	0.76, 0.1, 0.02
97	yes	ST704	6.02	9410	ST704	7.38	0.74
12	yes	ST70	4.37	5290	ST70	6.922	0.65
44	yes	ST23	2.64	1716	ST23	1.524	0.67
100	yes	ST375	1.73	2785	ST2042, ST1660	2.07, 0.6	0.63, 0.03
46	yes	ST25	1.56	920	ST25, ST461	0.29, 0.09	0.58, 0.16
2	yes	ST3043	1.12	604	ST3043	0.32	0.84
90	yes	ST1106	0.98	1612	ST1106	1.84	0.28
84	yes	ST200	0.95	926	ST200	0.98	0.67
80	no	NA	0.30	0	ND	NA	NA
72	yes	ST20	0.22	298	ST20	0.59	0.18
21	yes	ST151	0.13	492	ST151	1.85	0.22
35	yes	ST25	0.13	217	ST10	0.13	0.33
62	no	NA	0.10	7	ND	NA	NA

Samples in bold represent ST matches between culture detection and strainGST detection

^aSCAI culture detection result as per our previous culture-based Kp gut carriage study²⁰

^bWMS relative abundance measured by Centrifuge

^cSTs detected in these samples were double (sample 45) and triple (sample 75) locus variants of each other which may have resulted from assignment a single strain to multiple closely related reference genomes in the database rather than true intra-sample strain diversity.

NA = not applicable