Temporal detection and phylogenetic assessment of SARS-CoV-2 in municipal wastewater
Author:
Nemudryi Artem,Nemudraia Anna,Wiegand Tanner,Surya Kevin,Buyukyoruk Murat,Vanderwood Karl K,Wilkinson Royce,Wiedenheft Blake
Abstract
ABSTRACTSARS-CoV-2 has recently been detected in feces, which indicates that wastewater may be used to monitor viral prevalence in the community. Here we use RT-qPCR to monitor wastewater for SARS-CoV-2 RNA over a 52-day time course. We show that changes in SARS-CoV-2 RNA concentrations correlate with local COVID-19 epidemiological data (R2=0.9), though detection in wastewater trails symptom onset dates by 5-8 days. We determine a near complete (98.5%) SARS-CoV-2 genome sequence from the wastewater and use phylogenic analysis to infer viral ancestry. Collectively, this work demonstrates how wastewater can be used as a proxy to monitor viral prevalence in the community and how genome sequencing can be used for high-resolution genotyping of the predominant strains circulating in a community.
Publisher
Cold Spring Harbor Laboratory
Reference41 articles.
1. First confirmed detection of SARS-CoV-2 in untreated wastewater in Australia: A proof of concept for the wastewater surveillance of COVID-19 in the community 2. Bedford, T. , Greninger, A.L. , Roychoudhury, P. , Starita, L.M. , Famulare, M. , Huang, M.-L. , Nalla, A. , Pepper, G. , Reinhardt, A. , Xie, H. , et al. (2020). Cryptic transmission of SARS-CoV-2 in Washington State. medRxiv. 3. trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses 4. Castillo, A.E. , Parra, B. , Tapia, P. , Acevedo, A. , Lagos, J. , Andrade, W. , Arata, L. , Leal, G. , Barra, G. , Tambley, C. , et al. (2020). Phylogenetic analysis of the first four SARS-CoV-2 cases in Chile. J Med Virol. 5. Cheung, K.S. , Hung, I.F. , Chan, P.P. , Lung, K.C. , Tso, E. , Liu, R. , Ng, Y.Y. , Chu, M.Y. , Chung, T.W. , Tam, A.R. , et al. (2020). Gastrointestinal Manifestations of SARS-CoV-2 Infection and Virus Load in Fecal Samples from the Hong Kong Cohort and Systematic Review and Meta-analysis. Gastroenterology.
Cited by
46 articles.
订阅此论文施引文献
订阅此论文施引文献，注册后可以免费订阅5篇论文的施引文献，订阅后可以查看论文全部施引文献
|
|