Author:
Nieuwenhuijse David F.,Oude Munnink Bas B.,Phan My V. T.,Hendriksen Rene S.,Bego Artan,Rees Catherine,Neilson Elizabeth Heather,Coventry Kris,Collignon Peter,Allerberger Franz,Rahube Teddie O.,Oliveira Guilherme,Ivanov Ivan,Sopheak Thet,Vuthy Yith,Yost Christopher K.,Tabo Djim-adjim,Cuadros-Orellana Sara,Ke Changwen,Zheng Huanying,Baisheng Li,Jiao Xiaoyang,Donado-Godoy Pilar,Coulibaly Kalpy Julien,Hrenovic Jasna,Jergović Matijana,Karpíšková Renáta,Elsborg Bodil,Legesse Mengistu,Eguale Tadesse,Heikinheimo Annamari,Villacis Jose Eduardo,Sanneh Bakary,Malania Lile,Nitsche Andreas,Brinkmann Annika,Saba Courage Kosi Setsoafia,Kocsis Bela,Solymosi Norbert,Thorsteinsdottir Thorunn R.,Hatha Abdulla Mohamed,Alebouyeh Masoud,Morris Dearbhaile,O’Connor Louise,Cormican Martin,Moran-Gilad Jacob,Battisti Antonio,Alba Patricia,Shakenova Zeinegul,Kiiyukia Ciira,Ng’eno Eric,Raka Lul,Bērziņš Aivars,Avsejenko Jeļena,Bartkevics Vadims,Penny Christian,Rajandas Heraa,Parimannan Sivachandran,Haber Malcolm Vella,Pal Pushkar,Schmitt Heike,van Passel Mark,van de Schans Milou G.M.,Zuidema Tina,Jeunen Gert-Jan,Gemmell Neil,Fashae Kayode,Wester Astrid Louise,Holmstad Rune,Hasan Rumina,Shakoor Sadia,Rojas Maria Luz Zamudio,Wasyl Dariusz,Bosevska Golubinka,Kochubovski Mihail,Radu Cojocaru,Gassama† Amy,Radosavljevic Vladimir,Tay Moon Y.F.,Zuniga-Montanez Rogelio,Wuertz Stefan,Gavačová Dagmar,Trkov Marija,Keddy Karen,Esterhuyse Kerneels,Cerdà-Cuéllar Marta,Pathirage Sujatha,Larsson D.G.Joakim,Norrgren Leif,Örn Stefan,Van der Heijden Tanja,Kumburu Happiness Houka,de RodaHusman Ana Maria,Njanpop-Lafourcade Berthe-Marie,Bidjada Pawou,Nikiema-Pessinaba Somtinda Christelle,Levent Belkis,Meschke John Scott,Beck Nicola Koren,Van Dang Chinh,Tran Doan Minh Nguyen,Do Phuc Nguyen,Kwenda Geoffrey,Munk Patrick,Venkatakrishnan Shweta,Aarestrup Frank M.,Cotten Matthew,Koopmans Marion P. G.,
Abstract
AbstractThe rapid development of megacities, and their growing connectedness across the world is becoming a distinct driver for emerging disease outbreaks. Early detection of unusual disease emergence and spread should therefore include such cities as part of risk-based surveillance. A catch-all metagenomic sequencing approach of urban sewage could potentially provide an unbiased insight into the dynamics of viral pathogens circulating in a community irrespective of access to care, a potential which already has been proven for the surveillance of poliovirus. Here, we present a detailed characterization of sewage viromes from a snapshot of 81 high density urban areas across the globe, including in-depth assessment of potential biases, as a proof of concept for catch-all viral pathogen surveillance. We show the ability to detect a wide range of viruses and geographical and seasonal differences for specific viral groups. Our findings offer a cross-sectional baseline for further research in viral surveillance from urban sewage samples and place previous studies in a global perspective.
Funder
Horizon 2020 Framework Programme
Novo Nordisk Fonden
World Health Organization
Publisher
Springer Science and Business Media LLC