Table 1. SARS-CoV-2 sequence summary.
SARS-CoV-2 RNA isolated from apical washes collected from donor 1 infected tissues incubated at 37 or 40°C at 72 h were subjected to amplicon sequencing. Reference (ref) sequences (Wuhan, MN908947.3; England 2, EPI_ISL_407073) were used for consensus alignment and SNP identification. Unique SNPs (not detected in input and >5% base count frequency) and frequency (%base counts) shown. Full SNP analysis presented in S2 Data.
| Nucleotide position (Wuhan) | Base ref (Wuhan) | Base ref (England 2) | Base input (England 2) | SNP mutation vs. input (Sample ID) | SNP frequency (%) | Amino acid change (relative to Wuhan) |
|---|---|---|---|---|---|---|
| 11379 | C | C | C | C>T (37–2) | T (91.81) | nsp6 (A136V) |
| 15682 | T | T | T | T>C (37–2) | C (91.69) | nsp12 (Y748H) |
| 17725 | A | A | A | A>C (37–2) | C (91.85) | synonymous |
| 18488 | T | C | C | no change | C (>99.9) | nsp14 (I150T) |
| 23605 | T | G | G | no change | G (>99.9) | synonymous |
| 26558 | G | G | G | G>A (37–2) | A (90.74) | synonymous |
| 27631 | A | A | A | A>C (37–1) | C (73.49) | synonymous |
| 27892 | A | A | A | A>G (37–1) | G (73.99) | synonymous |
| 28114 | T | C | T | no change | T (>99.9) | no change |
| 29596 | A | G | G | no change | G (>99.9) | ORF10 (I13M) |
| 6945 | T | T | T | T>C (37–3) | C (71.77) | Nsp3 (I1409T) |
| 8782 | C | T | T | no change | T (>99.9) | synonymous |
SARS-CoV-2, Severe Acute Respiratory Syndrome Coronavirus 2; SNP, single-nucleotide polymorphism.