Background: Environmental surveillance (ES) is a sensitive method for detecting human enterovirus (HEV) circulation, and it is used worldwide to support global polio eradication. We describe a novel ES approach using next-generation sequencing (NGS) to identify HEVs in sewage samples collected in London, United Kingdom, from June 2016 to May 2017. Methods: Two different methods were used to process raw sewage specimens: a 2-phase aqueous separation system and size exclusion by filtration and centrifugation. HEVs were isolated using cell cultures and analyzed using NGS. Results: Type 1 and 3 vaccine-like poliovirus (PV) strains were detected in samples collected from September 2016 through January 2017. NGS analysis allowed us to rapidly obtain whole-genome sequences of PV and non-PV HEV strains. As many as 6 virus strains from different HEV serotypes were identified in a single cell culture flask. PV isolates contained only a small number of mutations from vaccine strains commonly seen in early isolates from vaccinees. Conclusions: Our ES setup has high sensitivity for polio and non-PV HEV detection, generating nearly whole-genome sequence information. Such ES systems provide critical information to assist the polio eradication endgame and contribute to the improvement of our understanding of HEV circulation patterns in humans.
Background: Environmental surveillance (ES) is a sensitive method for detecting human enterovirus (HEV) circulation, and it is used worldwide to support global polio eradication. We describe a novel ES approach using next-generation sequencing (NGS) to identify HEVs in sewage samples collected in London, United Kingdom, from June 2016 to May 2017. Methods: Two different methods were used to process raw sewage specimens: a 2-phase aqueous separation system and size exclusion by filtration and centrifugation. HEVs were isolated using cell cultures and analyzed using NGS. Results: Type 1 and 3 vaccine-like poliovirus (PV) strains were detected in samples collected from September 2016 through January 2017. NGS analysis allowed us to rapidly obtain whole-genome sequences of PV and non-PVHEV strains. As many as 6 virus strains from different HEV serotypes were identified in a single cell culture flask. PV isolates contained only a small number of mutations from vaccine strains commonly seen in early isolates from vaccinees. Conclusions: Our ES setup has high sensitivity for polio and non-PVHEV detection, generating nearly whole-genome sequence information. Such ES systems provide critical information to assist the polio eradication endgame and contribute to the improvement of our understanding of HEV circulation patterns in humans.
Authors: K M O'Reilly; N C Grassly; D J Allen; M Bannister-Tyrrell; A Cameron; A I Carrion Martin; M Ramsay; R Pebody; M Zambon Journal: Epidemiol Infect Date: 2020-05-13 Impact factor: 2.451
Authors: Javier Martin; Dimitra Klapsa; Thomas Wilton; Maria Zambon; Emma Bentley; Erika Bujaki; Martin Fritzsche; Ryan Mate; Manasi Majumdar Journal: Viruses Date: 2020-10-09 Impact factor: 5.048
Authors: Manasi Majumdar; Salmaan Sharif; Dimitra Klapsa; Thomas Wilton; Muhammad Masroor Alam; Maria Dolores Fernandez-Garcia; Lubna Rehman; Ghulam Mujtaba; Gina McAllister; Heli Harvala; Kate Templeton; Edward T Mee; Humayun Asghar; Kader Ndiaye; Philip D Minor; Javier Martin Journal: Open Forum Infect Dis Date: 2018-10-01 Impact factor: 3.835