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Table 9 Percentages of HA and NA genes identified in nasal swab supernatants with M gene Cq-value <35, either in low throughput analyses (routine diagnosis performed by the French NRL, January 2014–August 2016) or in high-throughput analyses (longitudinal survey in three herds), according to the M gene Cq-values

From: Molecular subtyping of European swine influenza viruses and scaling to high-throughput analysis

Low-throughput analysesa High-throughput analysesb
Range of M gene Cq-values Number of samples Proportion of HA identified Proportion of NA identified Range of M gene Cq-values Number of samples Proportion of HA identified Proportion of NA identified
30 ≤ Cq < 35 87 52.88% 20.56% 30 ≤ Cq < 33 189 12.17% 33.86%
25 ≤ Cq < 30 151 93.22% 79.19% 25 ≤ Cq < 30 273 89.38% 96.34%
20 ≤ Cq < 25 198 97.00% 99.14% 20 ≤ Cq < 25 350 98.86% 100%
< 20 106 100% 99.22% < 20 106 100% 100%
  1. aSamples tested for H1av, H1hu, H1pdm, H3, N1, N1pdm and N2. bSamples tested for H1av, H1hu, N1 and N2 only as herds were previously known to be affected solely sby H1avN1 and H1huN2 viruses