Use of Capsid Integrity-qPCR for Detecting Viral Capsid Integrity in Wastewater

Abstract

Quantifying viruses in wastewater via RT-qPCR provides total genomic data but does not indicate the virus capsid integrity or the potential risk for human infection. Assessing virus capsid integrity in sewage is important for wastewater-based surveillance, since discharged effluent may pose a public health hazard. While integrity assays using cell cultures can provide this information, they require specialised laboratories and expertise. One solution to overcome this limitation is the use of photo-reactive monoazide dyes (e.g., propidium monoazide [PMAxx]) in a capsid integrity-RT-qPCR assay (ci-RT-qPCR). In this study, we tested the efficiency of PMAxx dye at 50 μM and 100 μM concentrations on live and heat-inactivated model viruses commonly detected in wastewater, including adenovirus (AdV), hepatitis A (HAV), influenza A virus (IAV), and norovirus GI (NoV GI). The 100 μM PMAxx dye concentration effectively differentiated live from heat-inactivated viruses for all targets in buffer solution. This method was then applied to wastewater samples (n = 19) for the detection of encapsulated AdV, enterovirus (EV), HAV, IAV, influenza B virus (IBV), NoV GI, NoV GII, and SARS-CoV-2. Samples were negative for AdV, HAV, IAV, and IBV but positive for EV, NoV GI, NoV GII, and SARS-CoV-2. In the PMAxx-treated samples, EV, NoV GI, and NoV GII showed −0.52–1.15, 0.9–1.51, and 0.31–1.69 log reductions in capsid integrity, indicating a high degree of potentially infectious virus in wastewater. In contrast, SARS-CoV-2 was only detected using RT-qPCR but not after PMAxx treatment, indicating the absence of encapsulated and potentially infectious virus. In conclusion, this study demonstrates the utility of PMAxx dyes to evaluate capsid integrity across a diverse range of viruses commonly monitored in wastewater.

Capsid Integrity Detection of Enteric Viruses in Reclaimed Waters

“…The reduction in influent wastewater and reclaimed water samples mean levels using PMAxx-RT-qPCR results of HuNoV GI was 1.39 ± 0.51 Log 10 gc/L, while HuNoV GII was detected in only one effluent sample with reduction of 3.06 ± 0.45 Log 10 gc/L, being the enteric virus with greatest removal. Kevill et al [ 60 ] reported values showing a similar trend to our results for HuNoV before conducting a PMAxx-RT-qPCR; however, in their case, the reductions observed for HuNoV GII were lower than those observed in our study. RV mean level reduction after the reclamation treatment was 1.29 ± 0.29 Log 10 ( Supplementary Table S6 ).…”