Table 2a.
Performance of RT-PCR assay using SOIV_Osel_SEN probe in comparison to the gold standard Sanger sequencing method.
| Sequencing result for pandemic (H1N1) 2009 virus | Samples (N) | RT-PCR assay |
Sensitivity (percentage) | Specificity (percentage) | |
|---|---|---|---|---|---|
| + | − | ||||
| Sensitive (C823) | 25 | 22 | 3a | 88.0 | 100.0 |
| Resistant (823T) | 15b | 0 | 15 | 0.0 | 100.0 |
| Resistant admixtures (C823/C823T) | 9c | 8 | 1d | 88.9 | 100.0 |
| IFVA negative | 20 | 0 | 0 | 0.0 | 100.0 |
a
Three samples were not detected by the SOIV_Osel_SEN probe, one sample had a Ct of 35.48 by the InfA assay indicating low viral load; the other two samples had Ct values of 26.44 and 36.79, and were found to have a base pair mutation in the probe region.
b
Fifteen samples contained 100% T at base pair 823.
c
Nine samples had a mixed population of resistant and sensitive alleles (mixture of C and T at nucleotide position 823).
d
One admixture was not detected by the SOIV_Osel_SEN probe and showed T as the major nucleotide and C as the minor nucleotide present. It had a Ct value of 35.48 by the InfA assay indicating a low viral load.