Table 2.

Variants in patient strain (PU) and mouse-evolved isolates (CPB and CPL)

VNII gene	CNAG	Variant type	CNAG function	Desjardins collection (13)
				Sample	Lineage*	Variant type	Source
LQVO5_000317	00342	Frameshift (270delC)	KOG: SWI–SNF chromatin-remodeling complex protein	3	VNI (1), VNII (1), and VNB (1)	Frameshift	Clinical
LQVO5_004463	05940	Premature stop codon lost (639A > T)	Pfam: ZFC3, zinc finger, C2H2 type	24	VNI (5) and VNB (19)	Frameshift	Clinical (50%) and environmental (50%)

^*Strain frequency for each lineage is listed in parentheses.