Volume 28, Number 6—June 2022
Research Letter
Detecting SARS-CoV-2 Omicron B.1.1.529 Variant in Wastewater Samples by Using Nanopore Sequencing
Lasse D. Rasmussen
, Stine R. Richter, Sofie E. Midgley, and Kristina T. Franck
, Stine R. Richter, Sofie E. Midgley, and Kristina T. Franck
Table
Results of read mapping and consensus sequence analysis for detection of SARS-CoV-2 Omicron B.1.1.529 variant in 2 wastewater treatment plants, Denmark*
| Sequencing Time, hours |
Wastewater treatment plant 1 |
Wastewater treatment plant 2 |
|||||
|---|---|---|---|---|---|---|---|
| Mapped reads |
Omicron mapping consensus mutations |
Mapped reads |
Omicron mapping consensus mutations |
||||
| Delta |
Omicron |
Delta |
Omicron |
||||
| 1 | 17122 | 783 | T23104A, C23202A, C23525T, C23604A | 21743 | 1292 | C23202A, C23525T, C23604A | |
| 2 | 30980 | 1446 | T23075C, C23202A, C23525T, C23604A | 40040 | 2326 | C22971T, T23075C, C23202A, C23525T, C23604A | |
| 3 | 41320 | 1967 | T23075C, C23202A, C23525T, C23604A | 58254 | 3453 | G22992C, C22995A, T23075C, C23202A, C23525T, C23604A | |
*Boldface indicates Omicron-specific mutations. Mutation A23403G was omitted because it is present in Delta and Omicron, but it was present in all consensus sequences.
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Page updated: May 22, 2022
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