Table 1.
Spike mutations detected in the sequenced cases
| Patient | Sex | Age range | Days from P1 first positive specimen | GenBank Accession number | Source | Lineage | Mutations in Spike relative to earliest sample (BA.1: A67V, T95I, Y145D, L212I, G339D, S371L, S373P, S375F, K417N, N440K, G446S, S477N, T478K, E484 A, Q493R, G496S, Q498R, N501Y, Y505H, T547K, D614G, H655Y, N679K, P681H, N764K, D796Y, N856K, Q954H, N969K, L981F) | |||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| E96 | L176 | S254 | R346 | S371 | V445 | N448 | L455 | F456 | K458 | S477 | E484 | T547 | S680 | P681 | A688 | L981 | S982 | |||||||
| P1 | M | 61–65 | 0 | N/A | This study | |||||||||||||||||||
| 23 | ON220548 | This study | BA.1 | A | H | V | F | |||||||||||||||||
| 40 | ON220539 | This study | BA.1 | T | M | V | H | V | F | |||||||||||||||
| 48 | ON196014 | This study | BA.1.23 | T | M | V | H | V | F | |||||||||||||||
| 64 | ON193425 | This study | BA.1.23 | F | T | M | V | Y | V | F | ||||||||||||||
| 72 | ON220529 | This study | BA.1.23 | D | T | W | M | V | H | V | F | |||||||||||||
| 81 | ON220571 | This study | BA.1.23+ | F | T | W | M | D | V | Y | V | F | ||||||||||||
| P2 | F | 66–70 | 76 | ON220533 | This study | BA.1.23 | D | T | W | M | V | A | H | V | F | |||||||||
| P3 | M | 36–40 | 101 | ON934538 | This study | BA.1.23 | D | T | W | M | V | R | V | F | ||||||||||
| 111 | ON934577 | This study | BA.1.23 | D | T | W | M | V | R | V | F | |||||||||||||
| 114 | ON934030 | This study | BA.1.23 | D | T | W | M | V | R | V | F | |||||||||||||
| 130 | ON934607 | This study | BA.1.23+ | D | T | F | W | M | V | R | V | F | ||||||||||||
| 147 | n.s.* | This study | BA.1.23 | D | T | W | M | V | R | V | F | |||||||||||||
| 192 | n.s.* | This study | BA.1.23+ | D | T | F | W | M | V | R | V | F | ||||||||||||
| 209 | n.s.* | This study | BA.1.23+ | D | T | F | W | M | V | R | V | F | ||||||||||||
| 213 | n.s.* | This study | BA.1.23 | D | T | W | M | V | R | V | F | |||||||||||||
| 218 | n.s.* | This study | BA.1.23+ | D | T | F | W | M | V | R | V | F | ||||||||||||
| 232 | n.s.* | This study | BA.1.23+ | D | F | T | F | S | W | L | V | R | V | L | ||||||||||
| 245 | n.s.* | This study | BA.1.23+ | D | T | F | D | W | L | N | V | R | V | L | ||||||||||
| 255 | n.s.* | This study | BA.1.23+ | D | T | F | S | W | L | N | V | R | V | L | ||||||||||
| 266 | n.s.* | This study | BA.1.23+ | D | T | F | W | L | N | V | R | V | F | |||||||||||
| P4 | F | 61–65 | 104 | n.s.* | This study | BA.1.23+ | D | T | F | W | M | V | K | R | V | F | ||||||||
| 111 | ON854465 | This study | BA.1.23 | D | T | W | M | V | R | V | F | |||||||||||||
| 125 | ON619382 | This study | BA.1.23+ | D | T | A | W | M | V | R | V | F | ||||||||||||
| 132 | n.s.* | This study | BA.1.23+ | D | T | W | L | M | V | R | V | F | ||||||||||||
| S1 | F | 81–85 | 78 | ON118042 | Howard et al. 2022. GenBank | BA.1.23 | D | T | W | M | V | R | V | |||||||||||
| S2 | F | 26–30 | 79 | ON139241 | Howard et al. 2022. GenBank | BA.1.23 | D | T | W | M | V | R | V | |||||||||||
*n.s. Consensus not submitted due to presence of >10 intrahost single nucleotide variants. N/A: not sequenced.
#Mutations in bold correspond to changes at positions already mutated in BA.1.