TABLE 1.
Summary of nucleotide and amino acid differences between WNV strains NY99 and ETH76a
| Gene/region | No. of nucleotide differencesa | No. of amino acid differencesa | Specific amino acid differences (NY99 → ETH76a) | Amino acid changes shared withc: |
|---|---|---|---|---|
| 5′ NCR | 0/96 (0%) | n/a | n/a | |
| C | 3/369 (0.8%) | 0/123 (0.0%) | n/a | n/a |
| prM/M | 23/501 (4.6%) | 1/167 (0.6%) | prM-19 Val → Ile | |
| E | 91/1,503 (6.1%) | 5/501 (1.0%) | E-93 Arg → Lys | Eg101 |
| E-126 Ile → Thrb | Fra00; Ita98; VLG4; Rom96; Eg101 | |||
| E-154 Asn → Serd | Manyd | |||
| E-159 Val → Ile | Tun97; Fra00; Ita98; Rom96; Ken98; Eg101 | |||
| E-474 Ile → Val | ||||
| NS1 | 62/1,056 (5.9%) | 2/352 (0.6%) | NS1-109 Glu → Asp | |
| NS1-167 Met → Ile | ||||
| NS2A | 31/693 (4.5%) | 2/231 (0.9%) | NS2A-19 Ala → Val | |
| NS2A-119 His → Tyrb | VLG4 | |||
| NS2B | 27/393 (11.3%) | 2/131 (1.5%) | NS2B-103 Val → Ala | Tun97; Fra00; Ita98; Ken98; Eg101 |
| NS2B-125 Thr → Ser | ||||
| NS3 | 110/1,857 (5.9%) | 2/619 (0.3%) | NS3-249 Pro → Thrb | Tun97; Fra00; Ita98; Ken98 |
| NS3-356 Thr → Ileb | Tun97; Fra00; Ita98; VLG4; Rom96; Ken98; Eg101 | |||
| NS4A | 20/447 (4.5%) | 2/149 (1.3%) | NS4A-85 Ala → Val | Fra00; Ita98; VLG4; Rom96; Ken98; Eg101 |
| NS4A-141 Met → Leu | Eg101 | |||
| NS4B | 44/765 (10.2%) | 2/255 (0.8%) | NS4B-11 Ser → Asn | Eg101 |
| NS4B-23 Val → Ala | Eg101 | |||
| NS5 | 127/2,715 (4.7%) | 4/905 (0.4%) | NS5-177 Arg → Lys | Eg101 |
| NS5-258 Val → Ala | ||||
| NS5-450 His → Tyrb | ||||
| NS5-731 Val → Ala | ||||
| 3′ NCR | 29/634 (4.6%) | n/a | No insertions/deletions |
The number of changes/total residues (% difference) is shown.
Nonconservative amino acid substitution.
Based on whole genome sequence data from Lanciotti et al. (19) and Charrel et al. (9). Eg101, Egypt101 (AF260968); Fra00, France 2000 PaAn001 (AY268132); Ita98, Italy 1998 (AF404757); VLG4, Volgograd 1999 (AF317203); Rom97, Romania 1996 RO9750 (AF260969); Tun97, Tunisia 1997 PaH001 (AY268133); Ken98, Kenya 1998 KN3829 (AY262283); n/a, not applicable.
The indicated mutation results in loss of the E glycosylation motif. Similar mutations at E154 have been reported for fragmentary sequences of several lineage 1 WNV strains (5a, 18). Some other lineage 1 strains, including Eg101, have mutations at E156 that also result in loss of the glycosylation motif.