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10. Towards monitoring of antimicrobial resistance in the environment: For what reasons, how to implement it, and what are the data needs?

Author

Bengtsson-Palme, Johan, Abramova, Anna, Berendonk, Thomas U., Coelho, Luis Pedro, Forslund, Sofia K., Gschwind, Rémi, Heikinheimo, Annamari, Jarquín-Díaz, Víctor Hugo, Khan, Ayaz Ali, Klümper, Uli, Löber, Ulrike, Nekoro, Marmar, Osińska, Adriana D., Ugarcina Perovic, Svetlana, Pitkänen, Tarja, Rødland, Ernst Kristian, Ruppé, Etienne, Wasteson, Yngvild, Wester, Astrid Louise, and Zahra, Rabaab

Published
2023
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18. The potential of using E. coli as an indicator for the surveillance of antimicrobial resistance (AMR) in the environment

Author

Donner, Erica, Stehling, Eliana Guedes, Boerlin, Patrick, Topp, Edward, Jardine, Claire, Li, Xuewen, Li, Bing, Dolejska, Monika, Madec, Jean-Yves, Dagot, Christophe, Guenther, Sebastian, Walsh, Fiona, Villa, Laura, Veldman, Kees, Sunde, Marianne, Krzeminski, Pawel, Wasyl, Dariusz, Popowska, Magdalena, Järhult, Josef, Örn, Stefan, Mahjoub, Olfa, Mansour, Wejdene, Thái, Đinh Nho, Elving, Josefine, Pedersen, Karl, Anjum, Muna F, Schmitt, Heike, Börjesson, Stefan, and Berendonk, Thomas U

Published
2021
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21. Investigating prevalence and transmission of antibiotic resistance in the environment at multiple scales

Author

Berendonk, Thomas U., Guan, Kaomei, Technische Universität Dresden, Fang, Peiju, Berendonk, Thomas U., Guan, Kaomei, Technische Universität Dresden, and Fang, Peiju

Abstract

The discovery of antibiotics has been considered as one of the most remarkable scientific accomplishments of the last century. However, the extensive usage of antibiotics has led to the rapid emergence of antibiotic resistance genes (ARGs) and antibiotic resistant bacteria (ARB), which have been recognized as one of the biggest threats to human and environmental health. While ARGs and ARB are ubiquitous in diverse environments, aquatic environments play a particularly crucial role in their prevalence and dissemination. Furthermore, the microbial complexity and various pollutants persisting in aquatic environments significantly contribute to the evolution and spread of ARGs and ARB. However, the knowledge regarding the distribution pattern of ARGs on a large scale, as well as the interaction between microbial community, specific pollutants, and ARGs and ARB, is currently limited. In this study, I conducted systematic work at multiple scales, to fill crucial knowledge gaps that could support the future management of the spread of antimicrobial resistance. In particular, on the ecosystems level I depict the biogeographical patterns of ARGs in freshwater reservoirs, on the community level I explored the selection patterns of combinations of antibiotics on multidrug resistant strains in complex community context, and finally, on the population level I investigated the impact of cigarette smoke, and waste products on the dissemination of ARGs. In my first study, samples were collected from 24 freshwater reservoirs across southeast China and the biogeographical patterns of bacterial communities and ARG profile were characterized using 16S rRNA gene high-throughput sequencing and high-throughput-quantitative PCR. A distance-decay pattern for both, microbial communities and ARG profiles, were observed. However, larger differences between reservoir ARG profiles than microbial community compositions were detected. Further, I found that the biogeographical patterns of bacterial

Published
2024

22. A global multinational survey of cefotaxime-resistant coliforms in urban wastewater treatment plants

Author

Marano, Roberto B.M., Fernandes, Telma, Manaia, Célia M., Nunes, Olga, Morrison, Donald, Berendonk, Thomas U., Kreuzinger, Norbert, Tenson, Tanel, Corno, Gianluca, Fatta-Kassinos, Despo, Merlin, Christophe, Topp, Edward, Jurkevitch, Edouard, Henn, Leonie, Scott, Andrew, Heß, Stefanie, Slipko, Katarzyna, Laht, Mailis, Kisand, Veljo, Di Cesare, Andrea, Karaolia, Popi, Michael, Stella G., Petre, Alice L., Rosal, Roberto, Pruden, Amy, Riquelme, Virginia, Agüera, Ana, Esteban, Belen, Luczkiewicz, Aneta, Kalinowska, Agnieszka, Leonard, Anne, Gaze, William H., Adegoke, Anthony A., Stenstrom, Thor A., Pollice, Alfieri, Salerno, Carlo, Schwermer, Carsten U., Krzeminski, Pawel, Guilloteau, Hélène, Donner, Erica, Drigo, Barbara, Libralato, Giovanni, Guida, Marco, Bürgmann, Helmut, Beck, Karin, Garelick, Hemda, Tacão, Marta, Henriques, Isabel, Martínez-Alcalá, Isabel, Guillén-Navarro, Jose M., Popowska, Magdalena, Piotrowska, Marta, Quintela-Baluja, Marcos, Bunce, Joshua T., Polo-López, Maria I., Nahim–Granados, Samira, Pons, Marie-Noëlle, Milakovic, Milena, Udikovic-Kolic, Nikolina, Ory, Jérôme, Ousmane, Traore, Caballero, Pilar, Oliver, Antoni, Rodriguez-Mozaz, Sara, Balcazar, Jose L., Jäger, Thomas, Schwartz, Thomas, Yang, Ying, Zou, Shichun, Lee, Yunho, Yoon, Younggun, Herzog, Bastian, Mayrhofer, Heidrun, Prakash, Om, Nimonkar, Yogesh, Heath, Ester, Baraniak, Anna, Abreu-Silva, Joana, Choudhury, Manika, Munoz, Leonardo P., Krizanovic, Stela, Brunetti, Gianluca, Maile-Moskowitz, Ayella, Brown, Connor, and Cytryn, Eddie

Published
2020
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23. WP-C: A Step Towards Secured Drinking Water: Development of an Early Warning System for Lakes

Author

Rybicki, Marcus, Moldaenke, Christian, Rinke, Karsten, Dahlhaus, Hanno, Klingbeil, Knut, Holtermann, Peter L., Hu, Weiping, Wang, Hong-Zhu, Wang, Haijun, Liu, Miao, Zhu, Jinge, Ye, Zeng, Peng, Zhaoliang, Boehrer, Bertram, Jungmann, Dirk, Berendonk, Thomas U., Kolditz, Olaf, Frassl, Marieke A., Kolditz, Olaf, Series Editor, Shao, Hua, Series Editor, Wang, Wenqing, Series Editor, Görke, Uwe-Jens, Series Editor, Bauer, Sebastian, Series Editor, Sachse, Agnes, editor, Liao, Zhenliang, editor, Hu, Weiping, editor, and Dai, Xiaohu, editor

Published
2019
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24. Managing Water Resources for Urban Catchments

Author

Kolditz, Olaf, Berendonk, Thomas U., Chen, Cui, Fuchs, Lothar, Haase, Matthias, Jungmann, Dirk, Kalbacher, Thomas, Krebs, Peter, Moldaenke, Christian, Müller, Roland, Neubert, Frank, Rink, Karsten, Rinke, Karsten, Sachse, Agnes, Walther, Marc, Kolditz, Olaf, Series Editor, Shao, Hua, Series Editor, Wang, Wenqing, Series Editor, Görke, Uwe-Jens, Series Editor, Bauer, Sebastian, Series Editor, Sachse, Agnes, editor, Liao, Zhenliang, editor, Hu, Weiping, editor, and Dai, Xiaohu, editor

Published
2019
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27. Antibiotic resistance genes in treated wastewater and in the receiving water bodies: A pan-European survey of urban settings

Author

Cacace, Damiano, Fatta-Kassinos, Despo, Manaia, Celia M., Cytryn, Eddie, Kreuzinger, Norbert, Rizzo, Luigi, Karaolia, Popi, Schwartz, Thomas, Alexander, Johannes, Merlin, Christophe, Garelick, Hemda, Schmitt, Heike, de Vries, Daisy, Schwermer, Carsten U., Meric, Sureyya, Ozkal, Can Burak, Pons, Marie-Noelle, Kneis, David, and Berendonk, Thomas U.

Published
2019
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28. Microbiome and Resistome Profiles along a Sewage-Effluent-Reservoir Trajectory Underline the Role of Natural Attenuation in Wastewater Stabilization Reservoirs

Author

Leão, Inês, primary, Khalifa, Leron, additional, Gallois, Nicolas, additional, Vaz-Moreira, Ivone, additional, Klümper, Uli, additional, Youdkes, Daniel, additional, Palmony, Shaked, additional, Dagai, Lotan, additional, Berendonk, Thomas U., additional, Merlin, Christophe, additional, Manaia, Célia M., additional, and Cytryn, Eddie, additional

Published
2023
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33. Toward a Universal Unit for Quantification of Antibiotic Resistance Genes in Environmental Samples

Author

Yin, Xiaole, Chen, Xi, Jiang, Xiao-Tao, Yang, Ying, Li, Bing, Shum, Marcus Ho-Hin, Lam, Tommy T Y, Leung, Gabriel M, Rose, Joan, Sanchez-Cid, Concepcion, Vogel, Timothy M, Walsh, Fiona, Berendonk, Thomas U, Midega, Janet, Uchea, Chibuzor, Frigon, Dominic, Wright, Gerard D, Bezuidenhout, Carlos, Picão, Renata C, Ahammad, Shaikh Z, Nielsen, Per Halkjær, Hugenholtz, Philip, Ashbolt, Nicholas J, Corno, Gianluca, Fatta-Kassinos, Despo, Bürgmann, Helmut, Schmitt, Heike, Cha, Chang-Jun, Pruden, Amy, Smalla, Kornelia, Cytryn, Eddie, Zhang, Yu, Yang, Min, Zhu, Yong-Guan, Dechesne, Arnaud, Smets, Barth F, Graham, David W, Gillings, Michael R, Gaze, William H, Manaia, Célia M, van Loosdrecht, Mark C M, Alvarez, Pedro J J, Blaser, Martin J, Tiedje, James M, Topp, Edward, and Zhang, Tong

Subjects
standardization, metagenomics, one-health, long-read sequencing, ARG copy per cell
Published
2023

34. Managing Water Resources for Urban Catchments

Author

Kolditz, Olaf, primary, Berendonk, Thomas U., additional, Chen, Cui, additional, Fuchs, Lothar, additional, Haase, Matthias, additional, Jungmann, Dirk, additional, Kalbacher, Thomas, additional, Krebs, Peter, additional, Moldaenke, Christian, additional, Müller, Roland, additional, Neubert, Frank, additional, Rink, Karsten, additional, Rinke, Karsten, additional, Sachse, Agnes, additional, and Walther, Marc, additional

Published
2018
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35. WP-C: A Step Towards Secured Drinking Water: Development of an Early Warning System for Lakes

Author

Rybicki, Marcus, primary, Moldaenke, Christian, additional, Rinke, Karsten, additional, Dahlhaus, Hanno, additional, Klingbeil, Knut, additional, Holtermann, Peter L., additional, Hu, Weiping, additional, Wang, Hong-Zhu, additional, Wang, Haijun, additional, Liu, Miao, additional, Zhu, Jinge, additional, Ye, Zeng, additional, Peng, Zhaoliang, additional, Boehrer, Bertram, additional, Jungmann, Dirk, additional, Berendonk, Thomas U., additional, Kolditz, Olaf, additional, and Frassl, Marieke A., additional

Published
2018
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37. Microbiome diversity: A barrier to the environmental spread of antimicrobial resistance?

Author

Klümper, Uli, primary, Gionchetta, Giulia, additional, Catao, Elisa C. P., additional, Bellanger, Xavier, additional, Dielacher, Irina, additional, Fang, Peiju, additional, Galazka, Sonia, additional, Goryluk-Salmonowicz, Agata, additional, Kneis, David, additional, Okafor, Uchechi, additional, Radu, Elena, additional, Szadziul, Mateusz, additional, Szekeres, Edina, additional, Teban-Man, Adela, additional, Coman, Cristian, additional, Kreuzinger, Norbert, additional, Popowska, Magdalena, additional, Vierheilig, Julia, additional, Walsh, Fiona, additional, Woegerbauer, Markus, additional, Bürgmann, Helmut, additional, Merlin, Christophe, additional, and Berendonk, Thomas U., additional

Published
2023
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41. Transient River Habitat Modeling for Macrozoobenthos in Hydrologically Dynamic Running Waters

Author

Stamm, Jürgen, Berendonk, Thomas U., Egger, Gregory, Technische Universität Dresden, Univ.-Prof. Dr.-Ing. Jürgen Stamm, Thepphachanh, Sengdavanh, Stamm, Jürgen, Berendonk, Thomas U., Egger, Gregory, Technische Universität Dresden, Univ.-Prof. Dr.-Ing. Jürgen Stamm, and Thepphachanh, Sengdavanh

Abstract

There have been growing concerns over the decline of healthy river ecosystems and the severe consequences this decline could have on biodiversity, ecosystem services, and human well-being. These concerns have led to increased efforts in river restoration around the globe, which aim to improve the ecological health and functioning of rivers. The restoration is usually done by implementing strategies such as hydromorphological adaptation and flow management. These measures, nevertheless, do not guarantee the recovery of river ecosystems. This is because there are multiple factors contributing to the success of restoration projects, which can vary depending on the specific characteristics of each river system. Habitat modeling, one of the most widely used ecological quality assessment tools for rivers, has been applied in the evaluation of restoration projects. An aquatic ecosystem is complex, and its dynamic nature requires a comprehensive understanding of the interconnections between biotic and abiotic components. These components also have a high degree of spatial and temporal variability. Therefore, it is crucial that approaches and modeling techniques be tailored to capture this dynamic. In the assessment of river restoration, for instance, habitat modeling needs to account for the changes in flow patterns, sediment transport, water quality, and habitat availability/quality for the key indicator species that result from the restoration efforts. This study addresses the need for developing an integrated approach to habitat modeling, particularly for macrozoobenthos, an important indicator of river health that plays a crucial role in the functioning of aquatic ecosystems. The primary research objective is to improve the existing modeling framework (TRiMM) by focusing on three key aspects: 1) expanding the prediction factors of physical habitat that influence habitat suitability for macrozoobenthos; 2) integrating fuzzy algorithms in the suitability assignment proces

Published
2023

42. Exploring the Genomic Basis of Antibiotic Resistance in Wastewater E. coli: Positive Selection, GWAS, and AI Language Model Analyses

Author

Schroeder, Michael, Ploy, Marie-Cécile, Berendonk, Thomas U., Technische Universität Dresden, Malekian Boroujeni, Negin, Schroeder, Michael, Ploy, Marie-Cécile, Berendonk, Thomas U., Technische Universität Dresden, and Malekian Boroujeni, Negin

Abstract

Antibiotic resistance is critical to global health. This thesis examines the relationship between antibiotic resistance and genomic variations in E. coli from wastewater. E. coli is of interest as it causes urinary tract and other infections. Wastewater is a good source because it is a melting pot for E. coli from diverse origins. The research delves into two key aspects: including or excluding antibiotic resistance data and the level of granularity in representing genomic variations. The former is important because there is more genomic data than antibiotic resistance data. Consequently, relying solely on genomic data, this thesis studies positive selection in E. coli to identify mutations and genes favored by evolution. This study demonstrates the preferential selection of known antibiotic resistance genes and mutations, particularly mutations located on functionally important locations of outer membrane porins, and may hence have a direct effect on structure and function. Encouraged by these results, the study was expanded to include antibiotic resistance data and to examine genomic variations at three resolution levels: single mutations, unitigs (genome words) that may contain multiple mutations, and whole coding genome using machine learning classifier models that capture dependencies among multiple mutations and other genomic variations. Representation of single mutations detects well-known resistance mutations as well as potentially novel mechanisms related to biofilm formation and translation. By exploring larger genomic units such as genome words, the analysis confirms the findings from single mutations and additionally uncovers joint mutations in both known and novel genes. Finally, machine learning models, including AI language models, were trained to predict antibiotic resistance based on the whole coding genome. This achieved an accuracy of over 90% in predicting antibiotic resistance when sufficient data were available. Overall, this thesis unveils new

Published
2023

46. Genomic analysis of sewage from 101 countries reveals global landscape of antimicrobial resistance

Author

Munk, Patrick, Brinch, Christian, Møller, Frederik Duus, Petersen, Thomas N., Hendriksen, Rene S., Seyfarth, Anne Mette, Kjeldgaard, Jette S., Svendsen, Christina Aaby, van Bunnik, Bram, Berglund, Fanny, Bego, Artan, Power, Pablo, Rees, Catherine, Lambrinidis, Dionisia, Neilson, Elizabeth Heather Jakobsen, Gibb, Karen, Coventry, Kris, Collignon, Peter, Cassar, Susan, Allerberger, Franz, Begum, Anowara, Hossain, Zenat Zebin, Worrell, Carlon, Vandenberg, Olivier, Pieters, Ilse, Victorien, Dougnon Tamègnon, Gutierrez, Angela Daniela Salazar, Soria, Freddy, Grujić, Vesna Rudić, Mazalica, Nataša, Rahube, Teddie O., Tagliati, Carlos Alberto, Rodrigues, Dalia, Oliveira, Guilherme, de Souza, Larissa Camila Ribeiro, Ivanov, Ivan, Juste, Bonkoungou Isidore, Oumar, Traoré, Sopheak, Thet, Vuthy, Yith, Ngandijo, Antoinette, Nzouankeu, Ariane, Olivier, Ziem A. Abah Jacques, Yost, Christopher K., Kumar, Pratik, Brar, Satinder Kaur, Tabo, Djim-Adjim, Adell, Aiko D., Paredes-Osses, Esteban, Martinez, Maria Cristina, Cuadros-Orellana, Sara, Ke, Changwen, Zheng, Huanying, Baisheng, Li, Lau, Lok Ting, Chung, Teresa, Jiao, Xiaoyang, Yu, Yongjie, JiaYong, Zhao, Morales, Johan F. Bernal, Valencia, Maria Fernanda, Donado-Godoy, Pilar, Coulibaly, Kalpy Julien, Hrenovic, Jasna, Jergović, Matijana, Karpíšková, Renáta, Deogratias, Zozo Nyarukweba, Elsborg, Bodil, Hansen, Lisbeth Truelstrup, Jensen, Pernille Erland, Abouelnaga, Mohamed, Salem, Mohamed Fathy, Koolmeister, Marliin, Legesse, Mengistu, Eguale, Tadesse, Heikinheimo, Annamari, Le Guyader, Soizick, Schaeffer, Julien, Villacis, Jose Eduardo, Sanneh, Bakary, Malania, Lile, Nitsche, Andreas, Brinkmann, Annika, Schubert, Sara, Hesse, Sina, Berendonk, Thomas U., Saba, Courage Kosi Setsoafia, Mohammed, Jibril, Feglo, Patrick Kwame, Banu, Regina Ama, Kotzamanidis, Charalampos, Lytras, Efthymios, Lickes, Sergio A., Kocsis, Bela, Solymosi, Norbert, Thorsteinsdottir, Thorunn R., Hatha, Abdulla Mohamed, Ballal, Mamatha, Bangera, Sohan Rodney, Fani, Fereshteh, Alebouyeh, Masoud, Morris, Dearbhaile, O’Connor, Louise, Cormican, Martin, Moran-Gilad, Jacob, Battisti, Antonio, Diaconu, Elena Lavinia, Corno, Gianluca, Di Cesare, Andrea, Alba, Patricia, Hisatsune, Junzo, Yu, Liansheng, Kuroda, Makoto, Sugai, Motoyuki, Kayama, Shizuo, Shakenova, Zeinegul, Kiiyukia, Ciira, Ng’eno, Eric, Raka, Lul, Jamil, Kazi, Fakhraldeen, Saja Adel, Alaati, Tareq, Bērziņš, Aivars, Avsejenko, Jeļena, Kokina, Kristina, Streikisa, Madara, Bartkevics, Vadims, Matar, Ghassan M., Daoud, Ziad, Pereckienė, Asta, Butrimaite-Ambrozeviciene, Ceslova, Penny, Christian, Bastaraud, Alexandra, Rasolofoarison, Tiavina, Collard, Jean-Marc, Samison, Luc Hervé, Andrianarivelo, Mala Rakoto, Banda, Daniel Lawadi, Amin, Arshana, Rajandas, Heraa, Parimannan, Sivachandran, Spiteri, David, Haber, Malcolm Vella, Santchurn, Sunita J., Vujacic, Aleksandar, Djurovic, Dijana, Bouchrif, Brahim, Karraouan, Bouchra, Vubil, Delfino Carlos, Pal, Pushkar, Schmitt, Heike, van Passel, Mark, Jeunen, Gert-Jan, Gemmell, Neil, Chambers, Stephen T., Mendoza, Fania Perez, Huete-Pιrez, Jorge, Vilchez, Samuel, Ahmed, Akeem Olayiwola, Adisa, Ibrahim Raufu, Odetokun, Ismail Ayoade, Fashae, Kayode, Sørgaard, Anne-Marie, Wester, Astrid Louise, Ryrfors, Pia, Holmstad, Rune, Mohsin, Mashkoor, Hasan, Rumina, Shakoor, Sadia, Gustafson, Natalie Weiler, Schill, Claudia Huber, Rojas, Maria Luz Zamudio, Velasquez, Jorge Echevarria, Magtibay, Bonifacio B., Catangcatang, Kris, Sibulo, Ruby, Yauce, Felipe Campos, Wasyl, Dariusz, Manaia, Celia, Rocha, Jaqueline, Martins, Jose, Álvaro, Pedro, Di Yoong Wen, Doris, Shin, Hanseob, Hur, Hor-Gil, Yoon, Sukhwan, Bosevska, Golubinka, Kochubovski, Mihail, Cojocaru, Radu, Burduniuc, Olga, Hong, Pei-Ying, Perry, Meghan Rose, Gassama, Amy, Radosavljevic, Vladimir, Tay, Moon Y. F., Zuniga-Montanez, Rogelio, Wuertz, Stefan, Gavačová, Dagmar, Pastuchová, Katarína, Truska, Peter, Trkov, Marija, Keddy, Karen, Esterhuyse, Kerneels, Song, Min Joon, Quintela-Baluja, Marcos, Lopez, Mariano Gomez, Cerdà-Cuéllar, Marta, Perera, R.R.D.P., Bandara, N.K.B.K.R.G.W., Premasiri, H.I., Pathirage, Sujatha, Charlemagne, Kareem, Rutgersson, Carolin, Norrgren, Leif, Örn, Stefan, Boss, Renate, Van der Heijden, Tanja, Hong, Yu-Ping, Kumburu, Happiness Houka, Mdegela, Robinson Hammerthon, Hounmanou, Yaovi Mahuton Gildas, Chonsin, Kaknokrat, Suthienkul, Orasa, Thamlikitkul, Visanu, de Roda Husman, Ana Maria, Bidjada, Bawimodom, Njanpop-Lafourcade, Berthe-Marie, Nikiema-Pessinaba, Somtinda Christelle, Levent, Belkis, Kurekci, Cemil, Ejobi, Francis, Kalule, John Bosco, Thomsen, Jens, Obaidi, Ouidiane, Jassim, Laila Mohamed, Moore, Andrew, Leonard, Anne, Graham, David W., Bunce, Joshua T., Zhang, Lihong, Gaze, William H., Lefor, Brett, Capone, Drew, Sozzi, Emanuele, Brown, Joe, Meschke, John Scott, Sobsey, Mark D., Davis, Michael, Beck, Nicola Koren, Sukapanpatharam, Pardi, Truong, Phuong, Lilienthal, Ronald, Kang, Sanghoon, Wittum, Thomas E., Rigamonti, Natalia, Baklayan, Patricia, Van, Chinh Dang, Tran, Doan Minh Nguyen, Do Phuc, Nguyen, Kwenda, Geoffrey, Larsson, D. G. Joakim, Koopmans, Marion, Woolhouse, Mark, Aarestrup, Frank M., Virology, Producció Animal, and Sanitat Animal

Subjects
genomic analysis, sewage, antimicrobial resistance, Multidisciplinary, Sewage, Drug Resistance, Bacterial, Metagenome, General Physics and Astronomy, Drug Resistance, Bacterial/genetics, Genomics, General Chemistry, General Biochemistry, Genetics and Molecular Biology, Anti-Bacterial Agents/pharmacology, Anti-Bacterial Agents
Abstract

Antimicrobial resistance (AMR) is a major threat to global health. Understanding the emergence, evolution, and transmission of individual antibiotic resistance genes (ARGs) is essential to develop sustainable strategies combatting this threat. Here, we use metagenomic sequencing to analyse ARGs in 757 sewage samples from 243 cities in 101 countries, collected from 2016 to 2019. We find regional patterns in resistomes, and these differ between subsets corresponding to drug classes and are partly driven by taxonomic variation. The genetic environments of 49 common ARGs are highly diverse, with most common ARGs carried by multiple distinct genomic contexts globally and sometimes on plasmids. Analysis of flanking sequence revealed ARG-specific patterns of dispersal limitation and global transmission. Our data furthermore suggest certain geographies are more prone to transmission events and should receive additional attention. Antimicrobial resistance (AMR) is a major threat to global health. Understanding the emergence, evolution, and transmission of individual antibiotic resistance genes (ARGs) is essential to develop sustainable strategies combatting this threat. Here, we use metagenomic sequencing to analyse ARGs in 757 sewage samples from 243 cities in 101 countries, collected from 2016 to 2019. We find regional patterns in resistomes, and these differ between subsets corresponding to drug classes and are partly driven by taxonomic variation. The genetic environments of 49 common ARGs are highly diverse, with most common ARGs carried by multiple distinct genomic contexts globally and sometimes on plasmids. Analysis of flanking sequence revealed ARG-specific patterns of dispersal limitation and global transmission. Our data furthermore suggest certain geographies are more prone to transmission events and should receive additional attention.

Published
2022

49. Microbiome and resistome dynamics along a sewage-effluent-reservoir continuum underline the role of natural attenuation in effluent receiving reservoirs

Author

Leão, Inês, primary, Khalifa, Leron, additional, Gallois, Nicolas, additional, Vaz-Moreira, Ivone, additional, Klümper, Uli, additional, Youdkes, Daniel, additional, Palmony, Shaked, additional, Dagai, Lotan, additional, Berendonk, Thomas U., additional, Merlin, Christophe, additional, Manaia, Célia M., additional, and Cytryn, Eddie, additional

Published
2022
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