TABLE 1.

High- and moderate-impact SNPs and indels found in passaged isolates

Gene identifier	Gene function	Isolates	Chromosome	Position	Reference	Alternate	Effect of mutation
CNAG_03013	Oligopeptide transporter	H1, H2, H14	3	211613	T	G	M484R
		A1	3	211137	GC	G	Frameshift at P358
		A2, A3	3	213165	G	A	Nonsense mutation W932b
		F1a	3	213566	G	T	Splice site mutation
CNAG_00570	cAMP-dependent protein kinase regulator	F5, F6a	1	1469244	C	A	Nonsense mutation G407b
		F3, F4b	1	1469985	GT	G	Frameshift at N194
CNAG_02531	Calcium-dependent protein kinase	H1, H2, H14	6	68953	C	A	Intron variant
CNAG_01101	Hypothetical protein	A1	5	1208219	T	C	R478G
CNAG_02858	Adenylsuccinate synthetase	A2, A3	3	594765	A	G	I346V
Intergenic region		A2	13	592173	C	T
CNAG_03622	Cell polarity	A4, A5, A6	2	363200	CA	C	Frameshift at N150
CNAG_01506	Hypothetical protein	FC2a	11	136455	T	G	Splice site mutation

^aOnly high-impact mutations of passaged Ftc555-1 isolates are shown.

^bOnly selected high-impact indels of passaged Ftc555-1 isolates are shown here. Others are shown in Table S2 in the supplemental material.