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Global monitoring of antimicrobial resistance based on metagenomics analyses of urban sewage. / Hendriksen, Rene S.; Munk, Patrick; Njage, Patrick; van Bunnik, Bram; McNally, Luke; Lukjancenko, Oksana; Röder, Timo; Nieuwenhuijse, David; Pedersen, Susanne Karlsmose; Kjeldgaard, Jette; Kaas, Rolf S.; Clausen, Philip Thomas Lanken Conradsen; Vogt, Josef Korbinian; Leekitcharoenphon, Pimlapas; van de Schans, Milou G.M.; Zuidema, Tina; de Roda Husman, Ana Maria; Rasmussen, Simon; Petersen, Bent; Bego, Artan; Rees, Catherine; Cassar, Susan; Coventry, Kris; Collignon, Peter; Allerberger, Franz; Rahube, Teddie O.; Oliveira, Guilherme; Ivanov, Ivan; Vuthy, Yith; Sopheak, Thet; Yost, Christopher K.; Ke, Changwen; Zheng, Huanying; Baisheng, Li; Jiao, Xiaoyang; Donado-Godoy, Pilar; Coulibaly, Kalpy Julien; Jergović, Matijana; Hrenovic, Jasna; Karpíšková, Renáta; Villacis, Jose Eduardo; Legesse, Mengistu; Eguale, Tadesse; Heikinheimo, Annamari; Malania, Lile; Nitsche, Andreas; Brinkmann, Annika; Saba, Courage Kosi Setsoafia; Kocsis, Bela; Solymosi, Norbert; Thorsteinsdottir, Thorunn R.; Hatha, Abdulla Mohamed; Alebouyeh, Masoud; Morris, Dearbhaile; Cormican, Martin; O’Connor, Louise; Moran-Gilad, Jacob; Alba, Patricia; Battisti, Antonio; Shakenova, Zeinegul; Kiiyukia, Ciira; Ng’eno, Eric; Raka, Lul; Avsejenko, Jeļena; Bērziņš, Aivars; Bartkevics, Vadims; Penny, Christian; Rajandas, Heraa; Parimannan, Sivachandran; Haber, Malcolm Vella; Pal, Pushkar; Jeunen, Gert Jan; Gemmell, Neil; Fashae, Kayode; Holmstad, Rune; Hasan, Rumina; Shakoor, Sadia; Rojas, Maria Luz Zamudio; Wasyl, Dariusz; Bosevska, Golubinka; Kochubovski, Mihail; Radu, Cojocaru; Gassama, Amy; Radosavljevic, Vladimir; Wuertz, Stefan; Zuniga-Montanez, Rogelio; Tay, Moon Y.F.; Gavačová, Dagmar; Pastuchova, Katarina; Truska, Peter; Trkov, Marija; Esterhuyse, Kerneels; Keddy, Karen; Cerdà-Cuéllar, Marta; Pathirage, Sujatha; Norrgren, Leif; Örn, Stefan; Larsson, D. G.Joakim; Heijden, Tanja Van der; Kumburu, Happiness Houka; Sanneh, Bakary; Bidjada, Pawou; Njanpop-Lafourcade, Berthe Marie; Nikiema-Pessinaba, Somtinda Christelle; Levent, Belkis; Meschke, John Scott; Beck, Nicola Koren; Van, Chinh Dang; Phuc, Nguyen Do; Tran, Doan Minh Nguyen; Kwenda, Geoffrey; Tabo, Djim adjim; Wester, Astrid Louise; Cuadros-Orellana, Sara; Amid, Clara; Cochrane, Guy; Sicheritz-Ponten, Thomas; Schmitt, Heike; Alvarez, Jorge Raul Matheu; Aidara-Kane, Awa; Pamp, Sünje J.; Lund, Ole; Hald, Tine; Woolhouse, Mark; Koopmans, Marion P.; Vigre, Håkan; Petersen, Thomas Nordahl; Aarestrup, Frank M.
In:
Nature Communications, Vol. 10, No. 1, 1124, 2019.
Research output: Contribution to journal › Journal article › Research › peer-review
Harvard
Hendriksen, RS, Munk, P, Njage, P, van Bunnik, B, McNally, L, Lukjancenko, O, Röder, T, Nieuwenhuijse, D, Pedersen, SK, Kjeldgaard, J, Kaas, RS, Clausen, PTLC, Vogt, JK, Leekitcharoenphon, P, van de Schans, MGM, Zuidema, T, de Roda Husman, AM
, Rasmussen, S, Petersen, B, Bego, A, Rees, C, Cassar, S, Coventry, K, Collignon, P, Allerberger, F, Rahube, TO, Oliveira, G, Ivanov, I, Vuthy, Y, Sopheak, T, Yost, CK, Ke, C, Zheng, H, Baisheng, L, Jiao, X, Donado-Godoy, P, Coulibaly, KJ, Jergović, M, Hrenovic, J, Karpíšková, R, Villacis, JE, Legesse, M, Eguale, T, Heikinheimo, A, Malania, L, Nitsche, A, Brinkmann, A, Saba, CKS, Kocsis, B, Solymosi, N, Thorsteinsdottir, TR, Hatha, AM, Alebouyeh, M, Morris, D, Cormican, M, O’Connor, L, Moran-Gilad, J, Alba, P, Battisti, A, Shakenova, Z, Kiiyukia, C, Ng’eno, E, Raka, L, Avsejenko, J, Bērziņš, A, Bartkevics, V, Penny, C, Rajandas, H, Parimannan, S, Haber, MV, Pal, P, Jeunen, GJ, Gemmell, N, Fashae, K, Holmstad, R, Hasan, R, Shakoor, S, Rojas, MLZ, Wasyl, D, Bosevska, G, Kochubovski, M, Radu, C, Gassama, A, Radosavljevic, V, Wuertz, S, Zuniga-Montanez, R, Tay, MYF, Gavačová, D, Pastuchova, K, Truska, P, Trkov, M, Esterhuyse, K, Keddy, K, Cerdà-Cuéllar, M, Pathirage, S, Norrgren, L, Örn, S, Larsson, DGJ, Heijden, TVD, Kumburu, HH, Sanneh, B, Bidjada, P, Njanpop-Lafourcade, BM, Nikiema-Pessinaba, SC, Levent, B, Meschke, JS, Beck, NK, Van, CD, Phuc, ND, Tran, DMN, Kwenda, G, Tabo, DA, Wester, AL, Cuadros-Orellana, S, Amid, C, Cochrane, G
, Sicheritz-Ponten, T, Schmitt, H, Alvarez, JRM, Aidara-Kane, A, Pamp, SJ, Lund, O, Hald, T, Woolhouse, M, Koopmans, MP, Vigre, H, Petersen, TN & Aarestrup, FM 2019, '
Global monitoring of antimicrobial resistance based on metagenomics analyses of urban sewage',
Nature Communications, vol. 10, no. 1, 1124.
https://doi.org/10.1038/s41467-019-08853-3APA
Hendriksen, R. S., Munk, P., Njage, P., van Bunnik, B., McNally, L., Lukjancenko, O., Röder, T., Nieuwenhuijse, D., Pedersen, S. K., Kjeldgaard, J., Kaas, R. S., Clausen, P. T. L. C., Vogt, J. K., Leekitcharoenphon, P., van de Schans, M. G. M., Zuidema, T., de Roda Husman, A. M.
, Rasmussen, S., Petersen, B., ... Aarestrup, F. M. (2019).
Global monitoring of antimicrobial resistance based on metagenomics analyses of urban sewage.
Nature Communications,
10(1), [1124].
https://doi.org/10.1038/s41467-019-08853-3Vancouver
Hendriksen RS, Munk P, Njage P, van Bunnik B, McNally L, Lukjancenko O et al.
Global monitoring of antimicrobial resistance based on metagenomics analyses of urban sewage.
Nature Communications. 2019;10(1). 1124.
https://doi.org/10.1038/s41467-019-08853-3Author
Hendriksen, Rene S. ; Munk, Patrick ; Njage, Patrick ; van Bunnik, Bram ; McNally, Luke ; Lukjancenko, Oksana ; Röder, Timo ; Nieuwenhuijse, David ; Pedersen, Susanne Karlsmose ; Kjeldgaard, Jette ; Kaas, Rolf S. ; Clausen, Philip Thomas Lanken Conradsen ; Vogt, Josef Korbinian ; Leekitcharoenphon, Pimlapas ; van de Schans, Milou G.M. ; Zuidema, Tina ; de Roda Husman, Ana Maria ; Rasmussen, Simon ; Petersen, Bent ; Bego, Artan ; Rees, Catherine ; Cassar, Susan ; Coventry, Kris ; Collignon, Peter ; Allerberger, Franz ; Rahube, Teddie O. ; Oliveira, Guilherme ; Ivanov, Ivan ; Vuthy, Yith ; Sopheak, Thet ; Yost, Christopher K. ; Ke, Changwen ; Zheng, Huanying ; Baisheng, Li ; Jiao, Xiaoyang ; Donado-Godoy, Pilar ; Coulibaly, Kalpy Julien ; Jergović, Matijana ; Hrenovic, Jasna ; Karpíšková, Renáta ; Villacis, Jose Eduardo ; Legesse, Mengistu ; Eguale, Tadesse ; Heikinheimo, Annamari ; Malania, Lile ; Nitsche, Andreas ; Brinkmann, Annika ; Saba, Courage Kosi Setsoafia ; Kocsis, Bela ; Solymosi, Norbert ; Thorsteinsdottir, Thorunn R. ; Hatha, Abdulla Mohamed ; Alebouyeh, Masoud ; Morris, Dearbhaile ; Cormican, Martin ; O’Connor, Louise ; Moran-Gilad, Jacob ; Alba, Patricia ; Battisti, Antonio ; Shakenova, Zeinegul ; Kiiyukia, Ciira ; Ng’eno, Eric ; Raka, Lul ; Avsejenko, Jeļena ; Bērziņš, Aivars ; Bartkevics, Vadims ; Penny, Christian ; Rajandas, Heraa ; Parimannan, Sivachandran ; Haber, Malcolm Vella ; Pal, Pushkar ; Jeunen, Gert Jan ; Gemmell, Neil ; Fashae, Kayode ; Holmstad, Rune ; Hasan, Rumina ; Shakoor, Sadia ; Rojas, Maria Luz Zamudio ; Wasyl, Dariusz ; Bosevska, Golubinka ; Kochubovski, Mihail ; Radu, Cojocaru ; Gassama, Amy ; Radosavljevic, Vladimir ; Wuertz, Stefan ; Zuniga-Montanez, Rogelio ; Tay, Moon Y.F. ; Gavačová, Dagmar ; Pastuchova, Katarina ; Truska, Peter ; Trkov, Marija ; Esterhuyse, Kerneels ; Keddy, Karen ; Cerdà-Cuéllar, Marta ; Pathirage, Sujatha ; Norrgren, Leif ; Örn, Stefan ; Larsson, D. G.Joakim ; Heijden, Tanja Van der ; Kumburu, Happiness Houka ; Sanneh, Bakary ; Bidjada, Pawou ; Njanpop-Lafourcade, Berthe Marie ; Nikiema-Pessinaba, Somtinda Christelle ; Levent, Belkis ; Meschke, John Scott ; Beck, Nicola Koren ; Van, Chinh Dang ; Phuc, Nguyen Do ; Tran, Doan Minh Nguyen ; Kwenda, Geoffrey ; Tabo, Djim adjim ; Wester, Astrid Louise ; Cuadros-Orellana, Sara ; Amid, Clara ; Cochrane, Guy ; Sicheritz-Ponten, Thomas ; Schmitt, Heike ; Alvarez, Jorge Raul Matheu ; Aidara-Kane, Awa ; Pamp, Sünje J. ; Lund, Ole ; Hald, Tine ; Woolhouse, Mark ; Koopmans, Marion P. ; Vigre, Håkan ; Petersen, Thomas Nordahl ; Aarestrup, Frank M. / Global monitoring of antimicrobial resistance based on metagenomics analyses of urban sewage. In: Nature Communications. 2019 ; Vol. 10, No. 1.
Bibtex
@article{b573393b9e50415fbbcea2dc94bedcbb,
title = "Global monitoring of antimicrobial resistance based on metagenomics analyses of urban sewage",
abstract = "Antimicrobial resistance (AMR) is a serious threat to global public health, but obtaining representative data on AMR for healthy human populations is difficult. Here, we use metagenomic analysis of untreated sewage to characterize the bacterial resistome from 79 sites in 60 countries. We find systematic differences in abundance and diversity of AMR genes between Europe/North-America/Oceania and Africa/Asia/South-America. Antimicrobial use data and bacterial taxonomy only explains a minor part of the AMR variation that we observe. We find no evidence for cross-selection between antimicrobial classes, or for effect of air travel between sites. However, AMR gene abundance strongly correlates with socio-economic, health and environmental factors, which we use to predict AMR gene abundances in all countries in the world. Our findings suggest that global AMR gene diversity and abundance vary by region, and that improving sanitation and health could potentially limit the global burden of AMR. We propose metagenomic analysis of sewage as an ethically acceptable and economically feasible approach for continuous global surveillance and prediction of AMR.",
author = "Hendriksen, {Rene S.} and Patrick Munk and Patrick Njage and {van Bunnik}, Bram and Luke McNally and Oksana Lukjancenko and Timo R{\"o}der and David Nieuwenhuijse and Pedersen, {Susanne Karlsmose} and Jette Kjeldgaard and Kaas, {Rolf S.} and Clausen, {Philip Thomas Lanken Conradsen} and Vogt, {Josef Korbinian} and Pimlapas Leekitcharoenphon and {van de Schans}, {Milou G.M.} and Tina Zuidema and {de Roda Husman}, {Ana Maria} and Simon Rasmussen and Bent Petersen and Artan Bego and Catherine Rees and Susan Cassar and Kris Coventry and Peter Collignon and Franz Allerberger and Rahube, {Teddie O.} and Guilherme Oliveira and Ivan Ivanov and Yith Vuthy and Thet Sopheak and Yost, {Christopher K.} and Changwen Ke and Huanying Zheng and Li Baisheng and Xiaoyang Jiao and Pilar Donado-Godoy and Coulibaly, {Kalpy Julien} and Matijana Jergovi{\'c} and Jasna Hrenovic and Ren{\'a}ta Karp{\'i}{\v s}kov{\'a} and Villacis, {Jose Eduardo} and Mengistu Legesse and Tadesse Eguale and Annamari Heikinheimo and Lile Malania and Andreas Nitsche and Annika Brinkmann and Saba, {Courage Kosi Setsoafia} and Bela Kocsis and Norbert Solymosi and Thorsteinsdottir, {Thorunn R.} and Hatha, {Abdulla Mohamed} and Masoud Alebouyeh and Dearbhaile Morris and Martin Cormican and Louise O{\textquoteright}Connor and Jacob Moran-Gilad and Patricia Alba and Antonio Battisti and Zeinegul Shakenova and Ciira Kiiyukia and Eric Ng{\textquoteright}eno and Lul Raka and Jeļena Avsejenko and Aivars Bērziņ{\v s} and Vadims Bartkevics and Christian Penny and Heraa Rajandas and Sivachandran Parimannan and Haber, {Malcolm Vella} and Pushkar Pal and Jeunen, {Gert Jan} and Neil Gemmell and Kayode Fashae and Rune Holmstad and Rumina Hasan and Sadia Shakoor and Rojas, {Maria Luz Zamudio} and Dariusz Wasyl and Golubinka Bosevska and Mihail Kochubovski and Cojocaru Radu and Amy Gassama and Vladimir Radosavljevic and Stefan Wuertz and Rogelio Zuniga-Montanez and Tay, {Moon Y.F.} and Dagmar Gava{\v c}ov{\'a} and Katarina Pastuchova and Peter Truska and Marija Trkov and Kerneels Esterhuyse and Karen Keddy and Marta Cerd{\`a}-Cu{\'e}llar and Sujatha Pathirage and Leif Norrgren and Stefan {\"O}rn and Larsson, {D. G.Joakim} and Heijden, {Tanja Van der} and Kumburu, {Happiness Houka} and Bakary Sanneh and Pawou Bidjada and Njanpop-Lafourcade, {Berthe Marie} and Nikiema-Pessinaba, {Somtinda Christelle} and Belkis Levent and Meschke, {John Scott} and Beck, {Nicola Koren} and Van, {Chinh Dang} and Phuc, {Nguyen Do} and Tran, {Doan Minh Nguyen} and Geoffrey Kwenda and Tabo, {Djim adjim} and Wester, {Astrid Louise} and Sara Cuadros-Orellana and Clara Amid and Guy Cochrane and Thomas Sicheritz-Ponten and Heike Schmitt and Alvarez, {Jorge Raul Matheu} and Awa Aidara-Kane and Pamp, {S{\"u}nje J.} and Ole Lund and Tine Hald and Mark Woolhouse and Koopmans, {Marion P.} and H{\aa}kan Vigre and Petersen, {Thomas Nordahl} and Aarestrup, {Frank M.}",
year = "2019",
doi = "10.1038/s41467-019-08853-3",
language = "English",
volume = "10",
journal = "Nature Communications",
issn = "2041-1723",
publisher = "nature publishing group",
number = "1",
}
RIS
TY - JOUR
T1 - Global monitoring of antimicrobial resistance based on metagenomics analyses of urban sewage
AU - Hendriksen, Rene S.
AU - Munk, Patrick
AU - Njage, Patrick
AU - van Bunnik, Bram
AU - McNally, Luke
AU - Lukjancenko, Oksana
AU - Röder, Timo
AU - Nieuwenhuijse, David
AU - Pedersen, Susanne Karlsmose
AU - Kjeldgaard, Jette
AU - Kaas, Rolf S.
AU - Clausen, Philip Thomas Lanken Conradsen
AU - Vogt, Josef Korbinian
AU - Leekitcharoenphon, Pimlapas
AU - van de Schans, Milou G.M.
AU - Zuidema, Tina
AU - de Roda Husman, Ana Maria
AU - Rasmussen, Simon
AU - Petersen, Bent
AU - Bego, Artan
AU - Rees, Catherine
AU - Cassar, Susan
AU - Coventry, Kris
AU - Collignon, Peter
AU - Allerberger, Franz
AU - Rahube, Teddie O.
AU - Oliveira, Guilherme
AU - Ivanov, Ivan
AU - Vuthy, Yith
AU - Sopheak, Thet
AU - Yost, Christopher K.
AU - Ke, Changwen
AU - Zheng, Huanying
AU - Baisheng, Li
AU - Jiao, Xiaoyang
AU - Donado-Godoy, Pilar
AU - Coulibaly, Kalpy Julien
AU - Jergović, Matijana
AU - Hrenovic, Jasna
AU - Karpíšková, Renáta
AU - Villacis, Jose Eduardo
AU - Legesse, Mengistu
AU - Eguale, Tadesse
AU - Heikinheimo, Annamari
AU - Malania, Lile
AU - Nitsche, Andreas
AU - Brinkmann, Annika
AU - Saba, Courage Kosi Setsoafia
AU - Kocsis, Bela
AU - Solymosi, Norbert
AU - Thorsteinsdottir, Thorunn R.
AU - Hatha, Abdulla Mohamed
AU - Alebouyeh, Masoud
AU - Morris, Dearbhaile
AU - Cormican, Martin
AU - O’Connor, Louise
AU - Moran-Gilad, Jacob
AU - Alba, Patricia
AU - Battisti, Antonio
AU - Shakenova, Zeinegul
AU - Kiiyukia, Ciira
AU - Ng’eno, Eric
AU - Raka, Lul
AU - Avsejenko, Jeļena
AU - Bērziņš, Aivars
AU - Bartkevics, Vadims
AU - Penny, Christian
AU - Rajandas, Heraa
AU - Parimannan, Sivachandran
AU - Haber, Malcolm Vella
AU - Pal, Pushkar
AU - Jeunen, Gert Jan
AU - Gemmell, Neil
AU - Fashae, Kayode
AU - Holmstad, Rune
AU - Hasan, Rumina
AU - Shakoor, Sadia
AU - Rojas, Maria Luz Zamudio
AU - Wasyl, Dariusz
AU - Bosevska, Golubinka
AU - Kochubovski, Mihail
AU - Radu, Cojocaru
AU - Gassama, Amy
AU - Radosavljevic, Vladimir
AU - Wuertz, Stefan
AU - Zuniga-Montanez, Rogelio
AU - Tay, Moon Y.F.
AU - Gavačová, Dagmar
AU - Pastuchova, Katarina
AU - Truska, Peter
AU - Trkov, Marija
AU - Esterhuyse, Kerneels
AU - Keddy, Karen
AU - Cerdà-Cuéllar, Marta
AU - Pathirage, Sujatha
AU - Norrgren, Leif
AU - Örn, Stefan
AU - Larsson, D. G.Joakim
AU - Heijden, Tanja Van der
AU - Kumburu, Happiness Houka
AU - Sanneh, Bakary
AU - Bidjada, Pawou
AU - Njanpop-Lafourcade, Berthe Marie
AU - Nikiema-Pessinaba, Somtinda Christelle
AU - Levent, Belkis
AU - Meschke, John Scott
AU - Beck, Nicola Koren
AU - Van, Chinh Dang
AU - Phuc, Nguyen Do
AU - Tran, Doan Minh Nguyen
AU - Kwenda, Geoffrey
AU - Tabo, Djim adjim
AU - Wester, Astrid Louise
AU - Cuadros-Orellana, Sara
AU - Amid, Clara
AU - Cochrane, Guy
AU - Sicheritz-Ponten, Thomas
AU - Schmitt, Heike
AU - Alvarez, Jorge Raul Matheu
AU - Aidara-Kane, Awa
AU - Pamp, Sünje J.
AU - Lund, Ole
AU - Hald, Tine
AU - Woolhouse, Mark
AU - Koopmans, Marion P.
AU - Vigre, Håkan
AU - Petersen, Thomas Nordahl
AU - Aarestrup, Frank M.
PY - 2019
Y1 - 2019
N2 - Antimicrobial resistance (AMR) is a serious threat to global public health, but obtaining representative data on AMR for healthy human populations is difficult. Here, we use metagenomic analysis of untreated sewage to characterize the bacterial resistome from 79 sites in 60 countries. We find systematic differences in abundance and diversity of AMR genes between Europe/North-America/Oceania and Africa/Asia/South-America. Antimicrobial use data and bacterial taxonomy only explains a minor part of the AMR variation that we observe. We find no evidence for cross-selection between antimicrobial classes, or for effect of air travel between sites. However, AMR gene abundance strongly correlates with socio-economic, health and environmental factors, which we use to predict AMR gene abundances in all countries in the world. Our findings suggest that global AMR gene diversity and abundance vary by region, and that improving sanitation and health could potentially limit the global burden of AMR. We propose metagenomic analysis of sewage as an ethically acceptable and economically feasible approach for continuous global surveillance and prediction of AMR.
AB - Antimicrobial resistance (AMR) is a serious threat to global public health, but obtaining representative data on AMR for healthy human populations is difficult. Here, we use metagenomic analysis of untreated sewage to characterize the bacterial resistome from 79 sites in 60 countries. We find systematic differences in abundance and diversity of AMR genes between Europe/North-America/Oceania and Africa/Asia/South-America. Antimicrobial use data and bacterial taxonomy only explains a minor part of the AMR variation that we observe. We find no evidence for cross-selection between antimicrobial classes, or for effect of air travel between sites. However, AMR gene abundance strongly correlates with socio-economic, health and environmental factors, which we use to predict AMR gene abundances in all countries in the world. Our findings suggest that global AMR gene diversity and abundance vary by region, and that improving sanitation and health could potentially limit the global burden of AMR. We propose metagenomic analysis of sewage as an ethically acceptable and economically feasible approach for continuous global surveillance and prediction of AMR.
U2 - 10.1038/s41467-019-08853-3
DO - 10.1038/s41467-019-08853-3
M3 - Journal article
C2 - 30850636
VL - 10
JO - Nature Communications
JF - Nature Communications
SN - 2041-1723
IS - 1
M1 - 1124
ER -
