Nucleotide heterogeneity at the terminal ends of the genomes of two California Citrus tristeza virus strains and their complete genome sequence analysis

Table 3 T36-CA nucleotide (nt) and deduced amino acid (aa) identities compared with other CTV strains

	T36-CA^a		T36 -FL		T30-CA		SY568 (CA)		RB-AT25 (CA)		VT-AT39 (CA)
Regions^b	Number of nts	Number of aa	nt identity (%)	aa identity (%)	nt identity (%)	aa identity (%)	nt identity (%)	aa identity (%)	nt identity (%)	aa identity (%)	nt identity (%)	aa identity (%)
Full genome	19,292		99.1		81.7		81.5		90.8		80.8
5′ UTR	106		99.1		55.3		58.1		99.1		60.6
p349	9369	3123	99.1	98.9	72.9	74.5	73.2	74.9	90.6	74.5	73.2	75.1
RdRp	1503	501	99.6	99.8	80.0	92.0	77.1	89.5	90.5	96.0	81.1	90.9
p33	912	304	98.1	97.7	84.5	86.8	84.8	87.1	85.5	86.8	85.2	85.5
p6	156	52	98.7	98.0	89.7	96.1	89.7	96.1	88.5	96.1	91.0	96.1
p65 (HSP70h)	1785	595	99.3	99.2	94.1	96.5	94.1	96.6	88.4	94.3	89.2	95.0
p61	1608	536	99.0	98.1	95.4	96.6	96.7	96.8	94.2	95.9	88.6	91.8
p27 (CPm)	723	241	98.9	100.0	93.9	95.4	88.8	94.6	93.8	95.0	89.4	95.8
p25 (CP)	672	224	99.7	99.6	93.2	96.4	93.6	95.5	93.8	95.5	93.3	96.0
p18	504	168	99.4	99.4	95.2	95.8	92.7	94.0	96.2	95.2	58.4	95.2
p13	360	120	98.9	99.2	91.7	92.4	90.8	89.1	94.4	93.3	91.4	92.4
p20	549	183	99.1	97.8	88.5	92.3	91.4	96.2	90.5	93.4	90.7	94.5
p23	630	210	98.6	99.0	90.5	89.5	90.8	90.4	88.3	88.0	91.3	90.9
3′ UTR	273		99.6		97.4		97.8		97.1		97.1

^aA pairwise comparison was made between the genome sequence of T36-CA and that of the T36 genotype from Florida (T36-FL) or each of the sequences representing other CTV strains from California (CA), including T30-CA (obtained in this study), as indicated
^bRegions in the CTV genome listed in the order of appearance from the 5′ to 3′ untranslated regions (UTR) s (as seen in Fig. 1)

ISSN: 1743-422X