TY  - JOUR
AU  - Nieuwenhuijse, D.F.
AU  - Oude Munnink, B.B.
AU  - Phan, M.V.T.
AU  - Hendriksen, R.S.
AU  - Bego, A.
AU  - Rees, C.
AU  - Neilson, E.H.
AU  - Coventry, K.
AU  - Collignon, P.
AU  - Allerberger, F.
AU  - Rahube, T.O.
AU  - Oliveira, G.
AU  - Ivanov, I.
AU  - Sopheak, T.
AU  - Vuthy, Y.
AU  - Yost, C.K.
AU  - Tabo, D.-A.
AU  - Cuadros-Orellana, S.
AU  - Ke, C.
AU  - Zheng, H.
AU  - Baisheng, L.
AU  - Jiao, X.
AU  - Donado-Godoy, P.
AU  - Coulibaly, K.J.
AU  - Hrenovic, J.
AU  - Jergović, M.
AU  - Karpíšková, R.
AU  - Elsborg, B.
AU  - Legesse, M.
AU  - Eguale, T.
AU  - Heikinheimo, A.
AU  - Villacis, J.E.
AU  - Sanneh, B.
AU  - Malania, L.
AU  - Nitsche, A.
AU  - Brinkmann, A.
AU  - Saba, C.K.S.
AU  - Kocsis, B.
AU  - Solymosi, N.
AU  - Thorsteinsdottir, T.R.
AU  - Hatha, A.M.
AU  - Alebouyeh, M.
AU  - Morris, D.
AU  - O’Connor, L.
AU  - Cormican, M.
AU  - Moran-Gilad, J.
AU  - Battisti, A.
AU  - Alba, P.
AU  - Shakenova, Z.
AU  - Kiiyukia, C.
AU  - Ng’eno, E.
AU  - Raka, L.
AU  - Bērziņš, A.
AU  - Avsejenko, J.
AU  - Bartkevics, V.
AU  - Penny, C.
AU  - Rajandas, H.
AU  - Parimannan, S.
AU  - Haber, M.V.
AU  - Pal, P.
AU  - Schmitt, H.
AU  - van Passel, M.
AU  - van de Schans, M.G.M.
AU  - Zuidema, T.
AU  - Jeunen, G.-J.
AU  - Gemmell, N.
AU  - Fashae, K.
AU  - Wester, A.L.
AU  - Holmstad, R.
AU  - Hasan, R.
AU  - Shakoor, S.
AU  - Rojas, M.L.Z.
AU  - Wasyl, D.
AU  - Bosevska, G.
AU  - Kochubovski, M.
AU  - Radu, C.
AU  - Gassama†, A.
AU  - Radosavljević, Vladimir
AU  - Tay, M.Y.F.
AU  - Zuniga-Montanez, R.
AU  - Wuertz, S.
AU  - Gavačová, D.
AU  - Trkov, M.
AU  - Keddy, K.
AU  - Esterhuyse, K.
AU  - Cerdà-Cuéllar, M.
AU  - Pathirage, S.
AU  - Larsson, D.G.J.
AU  - Norrgren, L.
AU  - Örn, S.
AU  - Van der Heijden, T.
AU  - Kumburu, H.H.
AU  - de RodaHusman, A.M.
AU  - Njanpop-Lafourcade, B.-M.
AU  - Bidjada, P.
AU  - Nikiema-Pessinaba, S.C.
AU  - Levent, B.
AU  - Meschke, J.S.
AU  - Beck, N.K.
AU  - Van Dang, C.
AU  - Tran, D.M.N.
AU  - Do Phuc, N.
AU  - Kwenda, G.
AU  - Munk, P.
AU  - Venkatakrishnan, S.
AU  - Aarestrup, F.M.
AU  - Cotten, M.
AU  - Koopmans, M.P.G.
PY  - 2020
UR  - https://vet-erinar.vet.bg.ac.rs/handle/123456789/1984
AB  - The 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.
PB  - Springer Nature
T2  - Scientific Reports
T1  - Setting a baseline for global urban virome surveillance in sewage
VL  - 10
IS  - 1
DO  - 10.1038/s41598-020-69869-0
ER  - 

@article{
author = "Nieuwenhuijse, D.F. and Oude Munnink, B.B. and Phan, M.V.T. and Hendriksen, R.S. and Bego, A. and Rees, C. and Neilson, E.H. and Coventry, K. and Collignon, P. and Allerberger, F. and Rahube, T.O. and Oliveira, G. and Ivanov, I. and Sopheak, T. and Vuthy, Y. and Yost, C.K. and Tabo, D.-A. and Cuadros-Orellana, S. and Ke, C. and Zheng, H. and Baisheng, L. and Jiao, X. and Donado-Godoy, P. and Coulibaly, K.J. and Hrenovic, J. and Jergović, M. and Karpíšková, R. and Elsborg, B. and Legesse, M. and Eguale, T. and Heikinheimo, A. and Villacis, J.E. and Sanneh, B. and Malania, L. and Nitsche, A. and Brinkmann, A. and Saba, C.K.S. and Kocsis, B. and Solymosi, N. and Thorsteinsdottir, T.R. and Hatha, A.M. and Alebouyeh, M. and Morris, D. and O’Connor, L. and Cormican, M. and Moran-Gilad, J. and Battisti, A. and Alba, P. and Shakenova, Z. and Kiiyukia, C. and Ng’eno, E. and Raka, L. and Bērziņš, A. and Avsejenko, J. and Bartkevics, V. and Penny, C. and Rajandas, H. and Parimannan, S. and Haber, M.V. and Pal, P. and Schmitt, H. and van Passel, M. and van de Schans, M.G.M. and Zuidema, T. and Jeunen, G.-J. and Gemmell, N. and Fashae, K. and Wester, A.L. and Holmstad, R. and Hasan, R. and Shakoor, S. and Rojas, M.L.Z. and Wasyl, D. and Bosevska, G. and Kochubovski, M. and Radu, C. and Gassama†, A. and Radosavljević, Vladimir and Tay, M.Y.F. and Zuniga-Montanez, R. and Wuertz, S. and Gavačová, D. and Trkov, M. and Keddy, K. and Esterhuyse, K. and Cerdà-Cuéllar, M. and Pathirage, S. and Larsson, D.G.J. and Norrgren, L. and Örn, S. and Van der Heijden, T. and Kumburu, H.H. and de RodaHusman, A.M. and Njanpop-Lafourcade, B.-M. and Bidjada, P. and Nikiema-Pessinaba, S.C. and Levent, B. and Meschke, J.S. and Beck, N.K. and Van Dang, C. and Tran, D.M.N. and Do Phuc, N. and Kwenda, G. and Munk, P. and Venkatakrishnan, S. and Aarestrup, F.M. and Cotten, M. and Koopmans, M.P.G.",
year = "2020",
abstract = "The 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.",
publisher = "Springer Nature",
journal = "Scientific Reports",
title = "Setting a baseline for global urban virome surveillance in sewage",
volume = "10",
number = "1",
doi = "10.1038/s41598-020-69869-0"
}

Nieuwenhuijse, D.F., Oude Munnink, B.B., Phan, M.V.T., Hendriksen, R.S., Bego, A., Rees, C., Neilson, E.H., Coventry, K., Collignon, P., Allerberger, F., Rahube, T.O., Oliveira, G., Ivanov, I., Sopheak, T., Vuthy, Y., Yost, C.K., Tabo, D.-A., Cuadros-Orellana, S., Ke, C., Zheng, H., Baisheng, L., Jiao, X., Donado-Godoy, P., Coulibaly, K.J., Hrenovic, J., Jergović, M., Karpíšková, R., Elsborg, B., Legesse, M., Eguale, T., Heikinheimo, A., Villacis, J.E., Sanneh, B., Malania, L., Nitsche, A., Brinkmann, A., Saba, C.K.S., Kocsis, B., Solymosi, N., Thorsteinsdottir, T.R., Hatha, A.M., Alebouyeh, M., Morris, D., O’Connor, L., Cormican, M., Moran-Gilad, J., Battisti, A., Alba, P., Shakenova, Z., Kiiyukia, C., Ng’eno, E., Raka, L., Bērziņš, A., Avsejenko, J., Bartkevics, V., Penny, C., Rajandas, H., Parimannan, S., Haber, M.V., Pal, P., Schmitt, H., van Passel, M., van de Schans, M.G.M., Zuidema, T., Jeunen, G.-J., Gemmell, N., Fashae, K., Wester, A.L., Holmstad, R., Hasan, R., Shakoor, S., Rojas, M.L.Z., Wasyl, D., Bosevska, G., Kochubovski, M., Radu, C., Gassama†, A., Radosavljević, V., Tay, M.Y.F., Zuniga-Montanez, R., Wuertz, S., Gavačová, D., Trkov, M., Keddy, K., Esterhuyse, K., Cerdà-Cuéllar, M., Pathirage, S., Larsson, D.G.J., Norrgren, L., Örn, S., Van der Heijden, T., Kumburu, H.H., de RodaHusman, A.M., Njanpop-Lafourcade, B.-M., Bidjada, P., Nikiema-Pessinaba, S.C., Levent, B., Meschke, J.S., Beck, N.K., Van Dang, C., Tran, D.M.N., Do Phuc, N., Kwenda, G., Munk, P., Venkatakrishnan, S., Aarestrup, F.M., Cotten, M.,& Koopmans, M.P.G.. (2020). Setting a baseline for global urban virome surveillance in sewage. in Scientific Reports
Springer Nature., 10(1).
https://doi.org/10.1038/s41598-020-69869-0

Nieuwenhuijse D, Oude Munnink B, Phan M, Hendriksen R, Bego A, Rees C, Neilson E, Coventry K, Collignon P, Allerberger F, Rahube T, Oliveira G, Ivanov I, Sopheak T, Vuthy Y, Yost C, Tabo D, Cuadros-Orellana S, Ke C, Zheng H, Baisheng L, Jiao X, Donado-Godoy P, Coulibaly K, Hrenovic J, Jergović M, Karpíšková R, Elsborg B, Legesse M, Eguale T, Heikinheimo A, Villacis J, Sanneh B, Malania L, Nitsche A, Brinkmann A, Saba C, Kocsis B, Solymosi N, Thorsteinsdottir T, Hatha A, Alebouyeh M, Morris D, O’Connor L, Cormican M, Moran-Gilad J, Battisti A, Alba P, Shakenova Z, Kiiyukia C, Ng’eno E, Raka L, Bērziņš A, Avsejenko J, Bartkevics V, Penny C, Rajandas H, Parimannan S, Haber M, Pal P, Schmitt H, van Passel M, van de Schans M, Zuidema T, Jeunen G, Gemmell N, Fashae K, Wester A, Holmstad R, Hasan R, Shakoor S, Rojas M, Wasyl D, Bosevska G, Kochubovski M, Radu C, Gassama† A, Radosavljević V, Tay M, Zuniga-Montanez R, Wuertz S, Gavačová D, Trkov M, Keddy K, Esterhuyse K, Cerdà-Cuéllar M, Pathirage S, Larsson D, Norrgren L, Örn S, Van der Heijden T, Kumburu H, de RodaHusman A, Njanpop-Lafourcade B, Bidjada P, Nikiema-Pessinaba S, Levent B, Meschke J, Beck N, Van Dang C, Tran D, Do Phuc N, Kwenda G, Munk P, Venkatakrishnan S, Aarestrup F, Cotten M, Koopmans M. Setting a baseline for global urban virome surveillance in sewage. in Scientific Reports. 2020;10(1).
doi:10.1038/s41598-020-69869-0 .

Nieuwenhuijse, D.F., Oude Munnink, B.B., Phan, M.V.T., Hendriksen, R.S., Bego, A., Rees, C., Neilson, E.H., Coventry, K., Collignon, P., Allerberger, F., Rahube, T.O., Oliveira, G., Ivanov, I., Sopheak, T., Vuthy, Y., Yost, C.K., Tabo, D.-A., Cuadros-Orellana, S., Ke, C., Zheng, H., Baisheng, L., Jiao, X., Donado-Godoy, P., Coulibaly, K.J., Hrenovic, J., Jergović, M., Karpíšková, R., Elsborg, B., Legesse, M., Eguale, T., Heikinheimo, A., Villacis, J.E., Sanneh, B., Malania, L., Nitsche, A., Brinkmann, A., Saba, C.K.S., Kocsis, B., Solymosi, N., Thorsteinsdottir, T.R., Hatha, A.M., Alebouyeh, M., Morris, D., O’Connor, L., Cormican, M., Moran-Gilad, J., Battisti, A., Alba, P., Shakenova, Z., Kiiyukia, C., Ng’eno, E., Raka, L., Bērziņš, A., Avsejenko, J., Bartkevics, V., Penny, C., Rajandas, H., Parimannan, S., Haber, M.V., Pal, P., Schmitt, H., van Passel, M., van de Schans, M.G.M., Zuidema, T., Jeunen, G.-J., Gemmell, N., Fashae, K., Wester, A.L., Holmstad, R., Hasan, R., Shakoor, S., Rojas, M.L.Z., Wasyl, D., Bosevska, G., Kochubovski, M., Radu, C., Gassama†, A., Radosavljević, Vladimir, Tay, M.Y.F., Zuniga-Montanez, R., Wuertz, S., Gavačová, D., Trkov, M., Keddy, K., Esterhuyse, K., Cerdà-Cuéllar, M., Pathirage, S., Larsson, D.G.J., Norrgren, L., Örn, S., Van der Heijden, T., Kumburu, H.H., de RodaHusman, A.M., Njanpop-Lafourcade, B.-M., Bidjada, P., Nikiema-Pessinaba, S.C., Levent, B., Meschke, J.S., Beck, N.K., Van Dang, C., Tran, D.M.N., Do Phuc, N., Kwenda, G., Munk, P., Venkatakrishnan, S., Aarestrup, F.M., Cotten, M., Koopmans, M.P.G., "Setting a baseline for global urban virome surveillance in sewage" in Scientific Reports, 10, no. 1 (2020),
https://doi.org/10.1038/s41598-020-69869-0 . .