Table 3.
Frequency of subpopulations in wild-type viruses encoding alternative sequence. The table provides information about the position of the codon (gene) and the amino acid excluding the signal peptide (protein) using the numbering for Yamagata virus B/Phuket/3073/2013 (PK-WT). The Victoria lineage B/Colorado/06/2017 (CO_WT) sequence has one less codon (codon position 177 and amino acid position 162). The consensus amino acids for PK_WT and CO_WT at the indicated positions are shown. The frequency of nucleotide variants that encode an alternative amino acid are shown in the adjacent columns. Unless otherwise indicated the most frequent alternative amino acid is that of the other virus lineage (shown in bold font). * two nucleotide changes required; # two nucleotides in codon changed at same frequency in escape mutants.
| Gene | Protein | PK_WT | Yam-Vic | CO_WT | Vic-Yam |
|---|---|---|---|---|---|
| 14 | N/A | Asn | <0.05 # | Ser | <0.05 # |
| 55 | 40 | Tyr | 0.39 | His | <0.05 |
| 63 | 48 | Arg | 0.39 *,# | Glu | <0.05 *,# |
| 71 | 56 | Asp | 0.39 *,# | Lys | <0.05 *,# |
| 86 | 71 | Met | 0.36 * | Lys | <0.05 * |
| 88 | 73 | Val | 0.37 *,# | Thr | <0.05 *,# |
| 90 | 75 | Thr | 0.38 *,# | Lys | <0.05 *,# |
| 91 | 76 | Thr | 0.38 | Ile | <0.05 |
| 95 | 80 | Lys | 0.38 # | Arg | <0.05 # |
| 96 | 81 | Ala | 0.35 | Val | <0.05 |
| 131 | 116 | Lys | 0.46 *,# | His | <0.05 *,# |
| 132 | 117 | Ile | 0.47 | Val | <0.05 |
| 137 | 122 | His | 0.48 (Gln) | His | <0.05 |
| 141 | 126 | Asn | 0.47 (Asp) | Asn | <0.05 |
| 144 | 129 | Asp | 0.48 (Asn) # | Gly | <0.05 # |
| 151 | 136 | Lys | 0.46 (Arg) | Lys | <0.05 |
| 152 | 137 | Ile | 0.47 (Leu) | Ile | <0.05 |
| 156 | 141 | Gly | <0.05 | Gly | <0.05 |
| 161 | 147 | Thr | 0.46 (Ala) | Ile | <0.05 |
| 164 | 149 | Lys | 0.49 *,# | Gly | <0.05 *,# |
| 165 | 150 | Asn | 0.48 (Ile) | Asn | <0.05 |
| 179 | 164 | Asn | 0.45 | Lys | <0.05 |
| 180 | 165 | Tyr | 0.45 | Asn | <0.05 |
| 182 | 167 | Asn | 0.44 *,# | Thr | <0.05 * |
| 189 | 174 | Val | 0.47 *,# | Ile | <0.05 *,# |
| 194 | 179 | Ile | <0.05 | Val | <0.05 |
| 211 | 196 | Asn | <0.05 | Ile | 0.23 |
| 212 | 197 | Lys | 0.36 # | Glu | <0.05 *,# |
| 213 | 198 | Ala | 0.47 * | Thr | 0.07 * |
| 216 | 201 | Lys | 0.36 * | Ala | <0.05 *,# |
| 217 | 202 | Ser | <0.05 *,# | Lys | <0.05 *,# |
| 223 | 208 | Asn | 0.36 | Lys | <0.05 |
| 245 | 230 | Asp | 0.35 | Gly | <0.05 |
| 248 | 233 | Asp | 0.37 | Asn | <0.05 |
| 267 | 252 | Met | 0.33 | Val | <0.05 |
| 270 | 255 | Pro | 0.34 | Ser | <0.05 |
| 277 | 262 | Val | 0.33 *,# | Thr | <0.05 *,# |
| 282 | 267 | Val | 0.33 | Ile | <0.05 |
| 314 | 299 | Glu | 0.34 | Lys | <0.05 |
| 327 | 312 | Lys | 0.34 | Glu | <0.05 |
| 493 | 478 | Asp | 0.42 | Glu | <0.05 |
| 512 | 497 | Arg | 0.42 # | Lys | <0.05 # |
| 519 | 504 | Asn | 0.40 | Asp | <0.05 |
| 565 | 550 | Leu | 0.34 | Ile | <0.05 |
| 569 | 554 | Ile | 0.34 | Val | <0.05 |