Table 2.

Amino acid residue changes resulting from non-synonymous nucleotide polymorphisms, including insertions/deletions, compared to the reference isolate (F2 strain) of FHV-1

Gene	AA changea	Variant isolates b
Unique long region
UL1	F4L	135/68
UL3.5	V15I	2004/2005
UL5	T7I	124/68, 3235/06, 3236/06, 3238/06
UL13	S25P	85/68, 117/68, 124/68, 135/68, 221/71, 356/75, 385/75, 448/77, 571/79, 729/83,3235/06, 3236/06, 3238/06
UL16	F344V	2004/2005
UL17	R519Q	2004/2005
UL21	A48D	3234/05
UL25	T60A	2004/2005
UL27	P872L	3235/06, 3236/06, 3238/06
UL28	Q427P	All
UL29	S1089P	Field
UL30	M943I	3228/05, 3230/05
	I153T	729/83
UL35	R3S	NC_013590
UL36	G2503E	3230/05
	V1310M	124/68
	T2565M	221/71
	N2936-	135/68
	V2937-	135/68
	Q2980K	117/68
	P2838S	85/68, 117/68, 124/68, 135/68, 221/71, 356/75, 385/75, 448/77, 571/79, 729/83, 3235/06, 3236/06, 3238/06
UL37	L866F	2004/2005
UL38	I277M	Field
UL40	V66I	Field
UL44	E133K	All
UL45	R102H	729/83
UL49	T104I	3236/06
UL52	Y484C	Field
	S579I	3225/05
UL54	I206V	2004/2005
	S60P	135/68
UL55	I78M	Field
V1	D59G	124/68
ICP0	S412F	356/75, 571/79
Unique short region
US7	M165T	Field
	P186S	124/68, 3235/06, 3236/06, 3238/06
Repeat region
ICP4	T156N	124/68, 3235/06, 3236/06, 3238/06
	A419V	85/68, 117/68, 124/68, 135/68, 221/71, 3235/06, 3236/06, 3238/06
	H875Q	385/75
	V983A	356/75, 571/79, 3224/04, 3225/05, 3226/05, 3227/05, 3228/05, 3229/05, 3230/05, 3231/05, 3232/05, 3233/05, 3234/05
	E1034K	3235/06, 3236/06, 3238/06
	E1054G	2004/2005
US1	L261-	85/68

^a AA amino acid change

^bRelative to the vaccine isolates (F2 FHV-1 strains from the Feligen/Companion vaccines). All = Variant found in all non-vaccine isolates, Field = Variant found only in all Australian isolates sequenced in this study, 2004/2005 = Variant unique to 2004/2005 field isolates