TABLE 1.
Summary of Shigella WGS development set used in this studya
| Strain designation | No. of strains | No. (%) with concordant species designation | No. of serotypes included | No. of strains with serotype designation | No. (%) with concordant serotype designation |
|---|---|---|---|---|---|
| S. boydii | 97 | 79 (81.4) | 21 | 87 | 68 (78.2) |
| S. dysenteriae | 55 | 48 (87.3) | 15 | 37 | 31 (83.8) |
| S. flexneri | 49 | 47 (95.9) | 13 | 42 | 33 (78.6)b |
| S. sonnei | 19 | 17 (89.5) | 1 | 19 | 17 (89.5) |
| Shigella sp. | 1 | ||||
| EIEC | 13 | 13 (100) | |||
| Non-Shigella/EIEC | 25 | 25 (100) | |||
| Shigella only | 221 | 191 (86.4) | 50 | 185 | 149 (80.5) |
| Total | 259 | 229 (88.4) |
a
Strains were sequenced from an in-house collection (n = 58) or their WGSs were downloaded from the NCBI (n = 201).
b
Partial agreement between designation and in silico serotyping for S. flexneri was considered concordance (e.g., serotype 5 versus 5a).