TABLE 3.
Additional missense nucleotide variations identified in viral RNAs from sewage samples
| Sample | nt change | aa change | SNP (%)a | Clinical sequencesb |
||
|---|---|---|---|---|---|---|
| Total UK (no.) | Last 28 days England (no.) | Date of first detection | ||||
| 13-Oct-20 | A22994G | T478A | 7.8, 7.6 | |||
| A23201G | T547A | 7.8 | 1 | 0 | 23-10-20 | |
| G23282T | D574Y | 99.4, 44.4 | 400 | 5 | 30-03-20 | |
| 10-Nov-20 | T21710C | S50P | 8.4 | |||
| T21765C | I68T | 12.1 | 19 | 0 | 10-04-20 | |
| C21846T | T95I | 7.8 | 456 | 141 | 22-03-20 | |
| C21855T | S98F | 70.1, 14.5 | 1,672 | 281 | 22-03-20 | |
| C21867A | R102K | 6.5 | ||||
| C22995G | T478R | 18.3 | 22 | 0 | 19-10-20 | |
| T23105C | F515L | 6.5 | 1 | 0 | 01-01-21 | |
| G23282T | D574Y | 33.1, 14.2 | 400 | 5 | 30-03-20 | |
| 8-Dec-20 | C21727T | S56F | 10.0 | |||
| A21894G | D111G | 11.8 | ||||
| T21990C | V143A | 5.1 | ||||
| T23031C | F490S | 7.3 | 100 | 50 | 05-04-20 | |
| T23075C | Y505H | 8.2 | 9 | 4 | 02-11-20 | |
| 12-Jan-21 | A21683G | K41E | 18.2 | 2 | 0 | 27-11-21 |
| T21723C | L54S | 5.1 | 1 | 0 | 29-01-21 | |
| G21761T | A67S | 99.6 | 149 | 28 | 19-04-20 | |
| A21779G | T73A | 16.3 | 4 | 2 | 16-10-20 | |
| C21855T | S98F | 6.0, 48.0 | 1,672 | 281 | 22-03-20 | |
| T21861C | I100T | 31.9 | 15 | 0 | 27-03-20 | |
| 26-Jan-21 | T21831C | V90A | 13.2 | |||
| C21855T | S98F | 6.3, 5.9, 16.4 | 1,672 | 281 | 22-03-20 | |
| A21975G | D138G | 13.2 | 25 | 18 | 13-10-20 | |
| T23031C | F490S | 7.0 | 100 | 50 | 05-04-20 | |
| T23042C | S494P | 5.1, 5.7, 6.8 | 740 | 162 | 20-03-20 | |
| C23202A | T547I | 7.8 | 87 | 20 | 07-04-20 | |
a
The percentages of mutations found in 12 individual replicate amplicon sequences per sewage sample are presented. Results are shown for each replicate in which the mutation was detected.
b
Numbers and dates for clinical isolates showing the mutation are presnted. The results were obtained using the COVID-19 Genomics (COG-UK) Consortium/Mutation Explorer from sequencing data generated on 28 February 2021 (http://sars2.cvr.gla.ac.uk/cog-uk/). Variations found in more than one replicate from the same or different collection dates are underlined.