Table 1.
Sequence variation between 8H2-7-LP and 1D4-5-SP.
| Genotype | Segment | E | NS2A | NS2B | NS3 | NS4A | NS4B | NS5 | |||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Domain | aDI | DII | / | / | Pro | Hel | / | TM | MTase | RdRp | |||||
| / | bLocation(nt) | 1399 | 1434 | 1540 | 4080 | 4125 | 4429 | 4876 | 5065 | 5817 | 6390 | 7144 | 8182 | 9112 | 9207 |
| cLocation(aa) | 155 | 166 | 202 | 191 | 206 | 97 | 119 | 182 | 332 | 5 | 107 | 151 | 461 | 492 | |
| Cosmopolitan | 1D4-5-SP | d(A)Thr | (A)P | (A)Lys | (C)L | (G)K | (C)R | (A)Asn | (A)Ile | (G)V | (T)N | (C)Leu | (T)L | (C)Leu | (C)Asp |
| 8H2-7-LP | (G)Ala | (G)P | (G)Glu | (T)L | (A)K | (A)R | (G)Asp | (G)Val | (C)V | (C)N | (T)Phe | (C)L | (A) Ile | (A)Glu | |
| eAY037116 | – | (C)P | (G)Glu | – | – | (A)R | – | – | (C)V | – | – | – | – | – | |
| Asian I | DQ181801 | – | – | (G)Glu | – | – | (A)R | – | – | (T)V | (C)N | – | – | – | – |
| Asian II | MK506263 | – | – | (G)Glu | – | – | (A)R | – | – | (C)V | (C)N | – | – | – | – |
| Asian/American | M29095 | – | – | (G)Glu | – | – | (A)R | – | – | (T)V | (C)N | – | – | – | – |
| American | AY702040 | – | – | (G)Glu | – | – | (A)R | – | – | (T)V | (C)N | – | – | – | (T)Asp |
| Sylvatic | EF105378 | – | (C)P | (G)Glu | – | (A)K | (A)R | – | – | (T)V | – | – | (C)L | – | (T)Asp |
aDI, DII domain I, II of E protein ectodomain, Pro Protease, Hel Helicase, TM Transmembrane, MTase, methyltransferase; RdRp, RNA-dependent RNA polymerase;
bLocation of nucleotide variation in the whole viral genomes;
cLocation of both synonymous and nonsynonymous variation sites on amino acid sequences of each viral protein;
dNonsynonymous variations were presented with three-letter amino acid codes;
eRepresentative strains from each genotype were selected from sequences analyzed in Fig. 2, and listed in table with their access number for comparison. “–” means the nucleotide and residue are identical to the first strain 1D4-5-SP.