Table 1.
WNV Amino Acid Substitutions Compared to the Prototype Strain NY99
| Strain (Source, Year, State) | Pairwise % Identity |
Nt Differences | WNV Genome Nt Position |
||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 268 | 1442 | 4025 | 4208 | 4294 | 4599 | 4749 | 5717 | 6350 | 7635 | 8621 | |||
| NY99 (flamingo, 1999, NY) | G | T | G | A | A | A | C | G | T | A | A | ||
| 04-214CO (human, 2004, CO) | 99.8 | 25 | ● | C | ● | ● | ● | ● | ● | ● | ● | ● | ● |
| CO5-07 (human, 2007, CO) | 99.6 | 41 | ● | C | ● | ● | ● | ● | ● | ● | ● | ● | G |
| BSL6-11 (human, 2011, MS) | 99.4 | 61 | ● | C | ● | ● | G | ● | T | ● | ● | G | ● |
| AVA1202600 (Culex, 2012, TX) | 99.4 | 64 | ● | C | ● | ● | ● | ● | ● | ● | ● | ● | ● |
| FtC-3699 (Culex, 2012, CO) | 99.4 | 64 | ● | C | ● | ● | ● | ● | ● | ● | ● | ● | ● |
| BSL2-10 (human, 2010, AZ) | 99.3 | 68 | ● | C | ● | ● | ● | ● | ● | ● | ● | G | G |
| Spinal cord/ant horn | 99.2 | 85 | A | C | A | ● | G | ●/T | A | ● | ● | G | T |
| Midbraina | A | C | A | ● | G | ●/T | – | T | ● | G | T | ||
| Thalamus | 99.2 | 85 | A | C | A | ● | G | ●/T | A | ● | ● | G | T |
| Caudatea | A | – | A | T | – | ●/T | A | ● | C | G | T | ||
| Putamena | A | – | A | ● | – | – | – | – | ●/C | – | – | ||
| Frontal cortex | 99.2 | 86 | A | C | A | ● | G | T/● | A | ● | ● | G | T |
| Polyprotein aa # | A58T | V449A | R1310K | N1371I | I1400V | Q1501H | F1551L | G1874C | H2985Q | I2513M | K2842M | ||
| Protein aa # | A58T | V159A | R167K | N228I | I26V | Q94H | F46L | G369C | H580Q | I240M | K314M | ||
| Protein | C | E | NS2A | NS2A | NS2B | NS2B | NS3 | NS3 | NS3 | NS4B | NS5 | ||
Abbreviations: aa, amino acid; AZ, Arizona; C, capsid; CO, Colorado; E, envelope; MS, Mississippi; NS, nonstructural; Nt, nucleotide; NY, New York; TX, Texas; WNV, West Nile virus; ●, ancestral nucleotide; -, missing data.
a Could not determine pairwise identity or the number of Nt differences due to incomplete coverage of the coding sequence.