Table 6. Diagnostic validation of RITA results from IAV-positive avian and porcine swab samples.
| Sample origin | total no. tested | Subtyping by RITA | Discrepancy RITA subtyping and pan-HA/NA sequencing+ | ||||||
|---|---|---|---|---|---|---|---|---|---|
| specific results | presumed non-specific reactivity# | mixed infection | Subtyping by pan-HA/NA sequencing | ||||||
| HA | NA | HA | NA | HA | NA | ||||
| wild bird swabs* | 45 | 45 | 44 | 16 (11†/5‡) | 1 (0/1) | 4 | 32 | 40 | 0 |
| swine nasal swabs | 17 | 17 | 17 | 1 (1†/0‡) | 0 | 1 | 17 | 16 | 0 |
| total | 62 | 62 | 61 | 17 (12/5) | 1 (0/1) | 5 | 49 | 56 | 0 |
*oropharyngeal, cloacal or combined swab samples.
#RITA-nonspecific results are characterized by Δ Cq values according to details mentioned in table 4.
†Nonspecific reactivity also detected with viruses of the validation panel.
‡Nonspecific reactivity not previously seen in the validation panel.
+In 13 and 6 samples, respectively, RITA could identify additional HA and NA subtypes (one or several) in comparison to the sequencing results. In one sample only the pan-NA sequencing procedure delivered a subtyping result. For more details see table S2.