Genotypic diversity, circulation patterns, and co-detections among rhinoviruses in Queensland, 2001

Katherine E. Arden; Ristan M. Greer; Claire Y.T. Wang; Ian M. Mackay

Other viruses were involved in a similar or greater proportion of co-detections compared to the RVs (Figure 3 . IFAV had one of the lowest proportion of codetections (9.6%) as did the EVs (8.3%) while HCoV-NL63 was not involved in any co-detections. RVs were significantly less likely than expected to be co-detected with IFAV (p<0.0001; Supplementary Table 4 ). PIVs were less likely to be detected with RSV (p=0.05) or IFAV (p=0.03), and RSV was less likely to be found with IFAV (p=0.002) than expected. Most picornavirus positive extracts were genotyped, a fact that agreed with some studies, but not others. 23, 29 28, 30-32 Lower rates of genotyping success in community studies may be due to lower viral loads among less severely ill subjects. We propose that our combination of real-time RT-PCR screening and conventional nested-PCR genotyping methods are an effective starting point for genotyping ~90% of RVs among ill populations, even from extracts stored for over a decade.