Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) has rapidly become a major global health problem, and public health surveillance is crucial to monitor and prevent virus spread. Wastewater-based epidemiology has been proposed as an addition to disease-based surveillance because virus is shed in the feces of ≈40% of infected persons. We used next-generation sequencing of sewage samples to evaluate the diversity of SARS-CoV-2 at the community level in the Netherlands and Belgium. Phylogenetic analysis revealed the presence of the most prevalent clades (19A, 20A, and 20B) and clustering of sewage samples with clinical samples from the same region. We distinguished multiple clades within a single sewage sample by using low-frequency variant analysis. In addition, several novel mutations in the SARS-CoV-2 genome were detected. Our results illustrate how wastewater can be used to investigate the diversity of SARS-CoV-2 viruses circulating in a community and identify new outbreaks.
Severe acute respiratory syndrome coronavirus 2 (n class="Species">SARS-CoV-2) has rapidly become a major global health problem, and public health surveillance is crucial to monitor and prevent virus spread. Wastewater-based epidemiology has been proposed as an addition to disease-based surveillance because virus is shed in the feces of ≈40% of infectedpersons. We used next-generation sequencing of sewage samples to evaluate the diversity of SARS-CoV-2 at the community level in the Netherlands and Belgium. Phylogenetic analysis revealed the presence of the most prevalent clades (19A, 20A, and 20B) and clustering of sewage samples with clinical samples from the same region. We distinguished multiple clades within a single sewage sample by using low-frequency variant analysis. In addition, several novel mutations in the SARS-CoV-2 genome were detected. Our results illustrate how wastewater can be used to investigate the diversity of SARS-CoV-2 viruses circulating in a community and identify new outbreaks.
Entities:
Keywords:
Belgium; COVID-19; CoV; Illumina; Nanopore; SARS-CoV-2; coronavirus disease; epidemiology; public health; respiratory infections; severe acute respiratory syndrome coronavirus 2; sewage; the Netherlands; viruses; wastewater; zoonoses
Authors: Fabian Amman; Rudolf Markt; Lukas Endler; Sebastian Hupfauf; Benedikt Agerer; Anna Schedl; Lukas Richter; Melanie Zechmeister; Martin Bicher; Georg Heiler; Petr Triska; Matthew Thornton; Thomas Penz; Martin Senekowitsch; Jan Laine; Zsofia Keszei; Peter Klimek; Fabiana Nägele; Markus Mayr; Beatrice Daleiden; Martin Steinlechner; Harald Niederstätter; Petra Heidinger; Wolfgang Rauch; Christoph Scheffknecht; Gunther Vogl; Günther Weichlinger; Andreas Otto Wagner; Katarzyna Slipko; Amandine Masseron; Elena Radu; Franz Allerberger; Niki Popper; Christoph Bock; Daniela Schmid; Herbert Oberacher; Norbert Kreuzinger; Heribert Insam; Andreas Bergthaler Journal: Nat Biotechnol Date: 2022-07-18 Impact factor: 68.164
Authors: Devon A Gregory; Monica Trujillo; Clayton Rushford; Anna Flury; Sherin Kannoly; Kaung Myat San; Dustin Lyfoung; Roger W Wiseman; Karen Bromert; Ming-Yi Zhou; Ellen Kesler; Nathan Bivens; Jay Hoskins; Chung-Ho Lin; David H O'Connor; Chris Wieberg; Jeff Wenzel; Rose S Kantor; John J Dennehy; Marc C Johnson Journal: medRxiv Date: 2022-06-03
Authors: Xiaoqing Xu; Yu Deng; Jiahui Ding; Xiawan Zheng; Shuxian Li; Lei Liu; Ho-Kwong Chui; Leo L M Poon; Tong Zhang Journal: Water Res Date: 2022-05-29 Impact factor: 13.400
Authors: Blythe A Layton; Devrim Kaya; Christine Kelly; Kenneth J Williamson; Dana Alegre; Silke M Bachhuber; Peter G Banwarth; Jeffrey W Bethel; Katherine Carter; Benjamin D Dalziel; Mark Dasenko; Matthew Geniza; Andrea George; Anne-Marie Girard; Roy Haggerty; Kathryn A Higley; Denise M Hynes; Jane Lubchenco; Katherine R McLaughlin; F Javier Nieto; Aslan Noakes; Matthew Peterson; Adriana D Piemonti; Justin L Sanders; Brett M Tyler; Tyler S Radniecki Journal: Environ Health Perspect Date: 2022-06-29 Impact factor: 11.035
Authors: Subhanjan Mondal; Nathan Feirer; Michael Brockman; Melanie A Preston; Sarah J Teter; Dongping Ma; Said A Goueli; Sameer Moorji; Brigitta Saul; James J Cali Journal: Sci Total Environ Date: 2021-07-07 Impact factor: 7.963
Authors: David A Coil; Timothy Albertson; Shefali Banerjee; Greg Brennan; A J Campbell; Stuart H Cohen; Satya Dandekar; Samuel L Díaz-Muñoz; Jonathan A Eisen; Tracey Goldstein; Ivy R Jose; Maya Juarez; Brandt A Robinson; Stefan Rothenburg; Christian Sandrock; Ana M M Stoian; Daniel G Tompkins; Alexandre Tremeau-Bravard; Angela Haczku Journal: PLoS One Date: 2021-06-24 Impact factor: 3.240