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1. WHO global research priorities for antimicrobial resistance in human health

Author

Aanensen, David, Alanio, Alexandre, Alastruey-Izquierdo, Ana, Alemayehu, Tinsae, Al-Hasan, Majdi, Allegaert, Karel, Al-Maani, Amal Saif, Al-Salman, Jameela, Alshukairi, Abeer Nizar, Amir, Afreenish, Applegate, Tanya, Araj, George F, Villalobos, Marlen Arce, Årdal, Christine, Ashiru-Oredope, Diane, Ashley, Elizabeth A, Babin, François-Xavier, Bachmann, Laura H, Bachmann, Till, Baker, Kate Susan, Balasegaram, Manica, Bamford, Colleen, Baquero, Fernando, Barcelona, Laura Isabel, Bassat, Quique, Bassetti, Matteo, Basu, Sulagna, Beardsley, Justin, Vásquez, Grey Benoit, Berkley, James A, Bhatnagar, Anuj K, Bielicki, Julia, Bines, Julie, Bongomin, Felix, Bonomo, Robert A, Bradley, John S, Bradshaw, Catriona, Brett, Ana, Brink, Adrian, Brown, Colin, Brown, Jeremy, Buising, Kirsty, Carson, Carolee, Carvalho, Anna Cristina, Castagnola, Elio, Cavaleri, Marco, Cecchini, Michele, Chabala, Chishala, Chaisson, Richard E, Chakrabarti, Arunaloke, Chandler, Clare, Chandy, Sujith John, Charani, Esmita, Chen, Lisa, Chiara, Francesca, Chowdhary, Anuradha, Chua, Arlene, Chuki, Pem, Chun, Doo Ryeon, Churchyard, Gavin, Cirillo, Daniela, Clack, Lauren, Coffin, Susan E, Cohn, Jennifer, Cole, Michelle, Conly, John, Cooper, Ben, Corso, Alejandra, Cosgrove, Sara E, Cox, Helen, Daley, Charles L, Darboe, Saffiatou, Darton, Tom, Davies, Gerry, de Egea, Viviana, Dedeić-Ljubović, Amela, Deeves, Miranda, Denkinger, Claudia, Dillon, Jo-Anne R, Dramowski, Angela, Eley, Brian, Roberta Esposito, Susanna Maria, Essack, Sabiha Y, Farida, Helmia, Farooqi, Joveria, Feasey, Nicholas, Ferreyra, Cecilia, Fifer, Helen, Finlayson, Heather, Frick, Mike, Gales, Ana Cristina, Galli, Luisa, Gandra, Sumanth, Gerber, Jeffrey S, Giske, Christian, Gordon, Bruce, Govender, Nelesh, Guessennd, Nathalie, Guindo, Ibrehima, Gurbanova, Elmira, Gwee, Amanda, Hagen, Ferry, Harbarth, Stephan, Haze, John, Heim, Jutta, Hendriksen, Rene, Heyderman, Robert Simon, Holt, Kathryn Elizabeth, Hönigl, Martin, Hook, Edward W, Hope, William, Hopkins, Heidi, Hughes, Gwenda, Ismail, Ghada, Issack, Mohammad Iqbal, Jacobs, Jan, Jasovský, Dušan, Jehan, Fyeza, Pearson, Antonieta Jimenez, Jones, Makoto, Joshi, Mohan P, Kapil, Arti, Kariuki, Samuel, Karkey, Abhilasha, Kearns, Gregory L, Keddy, Karen Helena, Khanna, Nina, Kitamura, Akiko, Kolho, Kaija-Leena, Kontoyiannis, Dimitrios P, Kotwani, Anita, Kozlov, Roman S, Kranzer, Katharina, Kularatne, Ranmini, Lahra, Monica M, Langford, Bradley J, Laniado-Laborin, Rafael, Larsson, Joakim, Lass-Flörl, Cornelia, Le Doare, Kirsty, Lee, Hyukmin, Lessa, Fernanda, Levin, Anna S, Limmathurotsakul, Direk, Lincopan, Nilton, Lo Vecchio, Andrea, Lodha, Rakesh, Loeb, Mark, Longtin, Yves, Lye, David Chien, Mahmud, Asif Mujtaba, Manaia, Célia, Manderson, Lenore, Mareković, Ivana, Marimuthu, Kalisvar, Martin, Irene, Mashe, Tapfumanei, Mei, Zeng, Meis, Jacques F, Lyra Tavares De Melo, Flávio Augusto, Mendelson, Marc, Miranda, Angelica Espinosa, Moore, David, Morel, Chantal, Moremi, Nyambura, Moro, Maria Luisa, Moussy, Francis, Mshana, Stephen, Mueller, Arno, Ndow, Francis J, Nicol, Mark, Nunn, Andrew, Obaro, Stephen, Obiero, Christina W, Okeke, Iruka N, Okomo, Uduak, Okwor, Tochi J, Oladele, Rita, Omulo, Sylvia, Ondoa, Pascale, Ortellado de Canese, Juana Medarda, Ostrosky-Zeichner, Luis, Padoveze, Maria Clara, Pai, Madhukar, Park, Benjamin, Parkhill, Julian, Parry, Christopher M, Peeling, Rosanna, Sobreira Vieira Peixe, Luísa Maria, Perovic, Olga, Pettigrew, Melinda M, Principi, Nicola, Pulcini, Céline, Puspandari, Nelly, Rawson, Timothy, Reddy, Denasha Lavanya, Reddy, Kessendri, Redner, Paulo, Rodríguez Tudela, Juan Luis, Rodríguez-Baño, Jesús, Van Katwyk, Susan Rogers, Roilides, Emmanuel, Rollier, Christine, Rollock, Leslie, Ronat, Jean-Baptiste, Ruppe, Etienne, Sadarangani, Manish, Salisbury, David, Salou, Mounerou, Samison, Luc Hervé, Sanguinetti, Maurizio, Sartelli, Massimo, Schellack, Natalie, Schouten, Jeroen, Schwaber, Mitchell J, Seni, Jeremiah, Senok, Abiola, Shafer, William M, Shakoor, Sadia, Sheppard, Donald, Shin, Jong-Hee, Sia, Sonia, Sievert, Dawn, Singh, Ishwar, Singla, Rupak, Skov, Robert Leo, Soge, Olusegun O, Sprute, Rosanne, Srinivasan, Arjun, Srinivasan, Subasree, Sundsfjord, Arnfinn, Tacconelli, Evelina, Tahseen, Sabira, Tangcharoensathien, Viroj, Tängdén, Thomas, Thursky, Karin, Thwaites, Guy, Tigulini de Souza Peral, Renata, Tong, Deborah, Tootla, Hafsah Deepa, Tsioutis, Constantinos, Turner, Katy M, Turner, Paul, Omar, Shaheed Vally, van de Sande, Wendy WJ, van den Hof, Susan, van Doorn, Rogier, Veeraraghavan, Balaji, Verweij, Paul, Wahyuningsih, Retno, Wang, Hui, Warris, Adilia, Weinstock, Hillard, Wesangula, Evelyn, Whiley, David, White, Peter J, Williams, Phoebe, Xiao, Yonghong, Moscoso, Martin Yagui, Yang, Hsu Li, Yoshida, Sachiyo, Yu, Yunsong, Żabicka, Dorota, Zignol, Matteo, Rudan, Igor, Bertagnolio, Silvia, Dobreva, Zlatina, Centner, Chad M, Olaru, Ioana Diana, Donà, Daniele, Burzo, Stefano, Huttner, Benedikt D, Chaillon, Antoine, Gebreselassie, Nebiat, Wi, Teodora, Hasso-Agopsowicz, Mateusz, Allegranzi, Benedetta, Sati, Hatim, Ivanovska, Verica, Kothari, Kavita U, Balkhy, Hanan H, Cassini, Alessandro, Hamers, Raph L, and Weezenbeek, Kitty Van

Published
2024
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4. Making waves: The NORMAN antibiotic resistant bacteria and resistance genes database (NORMAN ARB&ARG)–An invitation for collaboration to tackle antibiotic resistance

Author

Alygizakis, Nikiforos, Ng, Kelsey, Čirka, Ľuboš, Berendonk, Thomas, Cerqueira, Francisco, Cytryn, Eddie, Deviller, Geneviève, Fortunato, Gianuario, Iakovides, Iakovos C., Kampouris, Ioannis, Michael-Kordatou, Irene, Lai, Foon Yin, Lundy, Lian, Manaia, Celia M., Marano, Roberto B.M., Paulus, Gabriela K., Piña, Benjamin, Radu, Elena, Rizzo, Luigi, Ślipko, Katarzyna, Kreuzinger, Norbert, Thomaidis, Nikolaos S., Ugolini, Valentina, Vaz-Moreira, Ivone, Slobodnik, Jaroslav, and Fatta-Kassinos, Despo

Published
2024
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6. Mitigating risks and maximizing sustainability of treated wastewater reuse for irrigation

Author

Yalin, David, Craddock, Hillary A., Assouline, Shmuel, Ben Mordechay, Evyatar, Ben-Gal, Alon, Bernstein, Nirit, Chaudhry, Rabia M., Chefetz, Benny, Fatta-Kassinos, Despo, Gawlik, Bernd M., Hamilton, Kerry A., Khalifa, Leron, Kisekka, Isaya, Klapp, Iftach, Korach-Rechtman, Hila, Kurtzman, Daniel, Levy, Guy J., Maffettone, Roberta, Malato, Sixto, Manaia, Célia M., Manoli, Kyriakos, Moshe, Orah F., Rimelman, Andrew, Rizzo, Luigi, Sedlak, David L., Shnit-Orland, Maya, Shtull-Trauring, Eliav, Tarchitzky, Jorge, Welch-White, Venus, Williams, Clinton, McLain, Jean, and Cytryn, Eddie

Published
2023
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16. 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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20. 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. The Complex Interplay Between Antibiotic Resistance and Pharmaceutical and Personal Care Products in the Environment.

Author

Manaia, Célia M., Aga, Diana S., Cytryn, Eddie, Gaze, William H., Graham, David W., Guo, Jianhua, Leonard, Anne F. C., Li, Liguan, Murray, Aimee K., Nunes, Olga C., Rodriguez‐Mozaz, Sara, Topp, Edward, and Zhang, Tong

Subjects
*DRUG resistance in bacteria, *HYGIENE products, *HEALTH risk assessment, *HORIZONTAL gene transfer, *POLLUTANTS
Abstract

Antibiotic‐resistant bacteria (ARB) and antibiotic resistance genes (ARGs) are important environmental contaminants. Nonetheless, what drives the evolution, spread, and transmission of antibiotic resistance dissemination is still poorly understood. The abundance of ARB and ARGs is often elevated in human‐impacted areas, especially in environments receiving fecal wastes, or in the presence of complex mixtures of chemical contaminants, such as pharmaceuticals and personal care products. Self‐replication, mutation, horizontal gene transfer, and adaptation to different environmental conditions contribute to the persistence and proliferation of ARB in habitats under strong anthropogenic influence. Our review discusses the interplay between chemical contaminants and ARB and their respective genes, specifically in reference to co‐occurrence, potential biostimulation, and selective pressure effects, and gives an overview of mitigation by existing man‐made and natural barriers. Evidence and strategies to improve the assessment of human health risks due to environmental antibiotic resistance are also discussed. Environ Toxicol Chem 2024;43:637–652. © 2022 SETAC [ABSTRACT FROM AUTHOR]

Published
2024
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31. 2023 Outstanding Papers published in the Environmental Science journals of the Royal Society of Chemistry.

Author

Cai, Zongwei, Donahue, Neil, Gagnon, Graham, Jones, Kevin C., Manaia, Célia, Sunderland, Elsie, and Vikesland, Peter J.

Abstract

The document titled "2023 Outstanding Papers published in the Environmental Science journals of the Royal Society of Chemistry" showcases the winners of the Outstanding Paper Awards in environmental science journals. The winners were chosen based on factors like article downloads, Altmetrics, and citations. The document highlights exceptional papers in the field, covering topics such as the removal of PFAS in contaminated soil, the role of sulfuric acid, ammonia, and organics in particle formation over agricultural land, and the association of nanoplastics with human cells. These papers provide valuable insights into environmental concerns and their potential impacts. [Extracted from the article]

Published
2024
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41. Framework for establishing regulatory guidelines to control antibiotic resistance in treated effluents.

Author

Manaia, Célia M.

Subjects
*DRUG resistance in bacteria, *SEWAGE disposal plants, *POLLUTANTS, *WASTEWATER treatment, *WELL-being, *ENVIRONMENTAL risk
Abstract

Antibiotic resistance is a major threat to human-health and wellbeing. Antibiotic resistant bacteria (ARB) and antibiotic resistance genes (ARGs) are environmental contaminants that circulate among humans, animals and the environment. In urban areas, wastewater treatment plants are the major recipients of these contaminants. Despite the partial elimination during treatment, final effluents, even after disinfection, contain high doses of ARB&ARG. The consequent continuous discharge of these effluents has important adverse impacts, which are particularly intense in vulnerable and deteriorated receiving environments (e.g., due to pollution, droughts or floods, reduced biodiversity). ARB&ARGs are biological contaminants capable of self-replication and horizontal gene-transfer, capabilities that due to pollution-induced selective pressure effects or absence of competition can be enhanced in deteriorated environments. Moreover, as other contaminants, ARB&ARGs can be transported, mainly through water, increasing the risks of circling back as a source of exposure to humans. The current knowledge about antibiotic resistance implications in terms of environmental contamination and risks to human-health, as well as the advances on wastewater treatment technology and antibiotic resistance quantification methods, support the need and timeliness of implementing regular wastewater monitoring systems. Because no single chemical or microbiological parameter can be used to infer the antibiotic resistance load, its specific monitoring should be part of the parameters used to assess wastewater quality. The definition of minimal requirements and integrated monitoring are essential to map antibiotic resistance at time- and space scales, and to design and implement corrective measures. These goals are technically and economically feasible and should be incorporated into wastewater quality directives. [ABSTRACT FROM AUTHOR]

Published
2023
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42. Pseudomonadota in the oral cavity: a glimpse into the environment-human nexus.

Author

Leão, Inês, de Carvalho, Teresa Bento, Henriques, Valentina, Ferreira, Catarina, Sampaio-Maia, Benedita, and Manaia, Célia M.

Subjects
SCIENTIFIC literature, DRUG resistance in bacteria, HUMAN microbiota, ENTEROBACTER, ACINETOBACTER
Abstract

The phylum Pseudomonadota is amongst the most represented in the environment, with a comparatively lower prevalence in the human oral cavity. The ubiquity of Pseudomonadota and the fact that the oral cavity is the most likely entry portal of bacteria from external sources underlie the need to better understand its occurrence in the interface environment-humans. Yet, the relevance oral Pseudomonadota is largely underexplored in the scientific literature, a gap that this review aims at addressing by making, for the first time, an overview of the diversity and ecology of Pseudomonadota in the oral cavity. The screening of scientific literature and human microbiome databases unveiled 1328 reports of Pseudomonadota in the oral cavity. Most of these belonged to the classes Beta- and Gammaproteobacteria, mainly to the families Neisseriaceae, Campylobacteriaceae, and Pasteurelaceae. Others also regularly reported include genera such as Enterobacter, Klebsiella, Acinetobacter, Escherichia, Burkholderia, or Citrobacter, whose members have high potential to acquire virulence and antibiotic resistance genes. This review provides evidence that clinically relevant environmental Pseudomonadota may colonize humans via oral cavity. The need for further investigation about Pseudomonadota at the environment-oral cavity interface and their role as vectors potentially involved in virulence and antibiotic resistance transmission is demonstrated. Key points: • Neisseriaceae, Campylobacteriaceae, and Pasteurelaceae are part of the core oral microbiome • Enterobacteriaceae, Acinetobacter, or Burkholderia are frequent in the oral microbiome • Gut dysbiosis may be associated with colonization by ubiquitous oral Pseudomonadota [ABSTRACT FROM AUTHOR]

Published
2023
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43. Dissemination of Metallo-β-Lactamase-Producing Pseudomonas aeruginosa in Serbian Hospital Settings: Expansion of ST235 and ST654 Clones.

Author

Kabic, Jovana, Fortunato, Gianuario, Vaz-Moreira, Ivone, Kekic, Dusan, Jovicevic, Milos, Pesovic, Jovan, Ranin, Lazar, Opavski, Natasa, Manaia, Célia M., and Gajic, Ina

Subjects
MOLECULAR cloning, SERBS, CARBAPENEM-resistant bacteria, MULTIDRUG resistance, KLEBSIELLA pneumoniae, PSEUDOMONAS aeruginosa, PHENOTYPES, BETA lactamases, COLISTIN
Abstract

This nationwide study aimed to investigate the molecular characteristics of metallo-β-lactamase (MBL)-producing Pseudomonas aeruginosa in Serbia, underlying resistance mechanisms, the genetic context of detected MBL genes, and the clonal relationship between isolates harboring genes-encoding MBL. Overall, 320/5334 isolates collected from 2018 to 2021 were identified as P. aeruginosa. Carbapenem-resistant P. aeruginosa (CRPA) were screened for the presence of blaVIM, blaIMP, and blaNDM, genes whereas MBL-positive isolates were tested for the presence of the blaCTX-M-2, blaPER, blaTEM, blaSHV, blaVEB, and blaGES. Multilocus sequence typing and phylogenomic analysis were performed for P. aeruginosa-producing MBL. The majority of the P. aeruginosa isolates were recovered from the lower respiratory tract (n = 120; 37.5%) and wound specimens (n = 108; 33.75%). CRPA isolates accounted for 43.1% (n = 138) of the tested isolates, 31 out of them being blaNDM-1-positive (22.5%). The colistin resistance rate was 0.3%. MLST analysis revealed the occurrence of ST235 (n = 25) and ST654 (n = 6), mostly confined to Serbia. The distribution of beta-lactamase-encoding genes in these isolates suggested clonal dissemination and possible recombination: ST235/blaNDM-1, ST235/blaNDM-1/blaPER-1, ST654/blaNDM-1, ST654/blaNDM-1/blaPER-1, and ST654/blaNDM-1/blaGES-5. High-risk clones ST235 and ST654 identified for the first time in Serbia, are important vectors of acquired MBL and ESBL and their associated multidrug resistance phenotypes represent a cause for considerable concern. [ABSTRACT FROM AUTHOR]

Published
2023
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44. Quantitative PCR versus metagenomics for monitoring antibiotic resistance genes: balancing high sensitivity and broad coverage.

Author

Ferreira, Catarina, Otani, Saria, Aarestrup, Frank Møller, and Manaia, Célia M

Subjects
POLYMERASE chain reaction, METAGENOMICS, DRUG resistance in bacteria, DETECTION limit, GENOMES
Abstract

The widespread occurrence of clinically relevant antibiotic resistance within humans, animals, and environment motivates the development of sensitive and accurate detection and quantification methods. Metagenomics and quantitative PCR (qPCR) are amongst the most used approaches. In this study, we aimed to evaluate and compare the performance of these methods to screen antibiotic resistance genes in animal faecal, wastewater, and water samples. Water and wastewater samples were from hospital effluent, different treatment stages of two treatment plants, and of the receiving river at the discharge point. The animal samples were from pig and chicken faeces. Antibiotic resistance gene coverage, sensitivity, and usefulness of the quantitative information were analyzed and discussed. While both methods were able to distinguish the resistome profiles and detect gradient stepwise mixtures of pig and chicken faeces, qPCR presented higher sensitivity for the detection of a few antibiotic resistance genes in water/wastewater. In addition, the comparison of predicted and observed antibiotic resistance gene quantifications unveiled the higher accuracy of qPCR. Metagenomics analyses, while less sensitive, provided a markedly higher coverage of antibiotic resistance genes compared to qPCR. The complementarity of both methods and the importance of selecting the bestmethod according to the study purpose are discussed. [ABSTRACT FROM AUTHOR]

Published
2023
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47. Antibiotic resistance in wastewater, does the context matter? Poland and Portugal as a case study.

Author

Vaz-Moreira, Ivone, Harnisz, Monika, Abreu-Silva, Joana, Rolbiecki, Damian, Korzeniewska, Ewa, Luczkiewicz, Aneta, Manaia, Célia M., and Plaza, Grażyna

Subjects
DRUG resistance in bacteria, DISTRIBUTION (Probability theory), SEWAGE, ANTIBIOTIC residues, SEWAGE disposal plants
Abstract

Antibiotic resistance has been considered a major human health threat that may endanger the success of medicine. Recent studies have unveiled worldwide asymmetries of antibiotic resistance occurrence, being factors as diverse as climate, socioeconomic, or antibiotic use possible drivers of such asymmetric distribution. In Europe, where clinical antibiotic resistance is surveyed for more than 20 years, the European Center for Disease Prevention and Control (ECDC) consistently describes an increasing gradient from North-to-South and from West-to-East. This observation motivated the current perspective paper aiming to qualitatively compare two countries located at the extreme latitude of Europe and also at distant longitude – Poland in the Central-East region and Portugal in the South-West. Both countries have been among those with the highest prevalence of antibiotic resistance in clinical settings, although as it is discussed, climate, socioeconomic factors, and antibiotic use are different. In general, in Poland higher antibiotic consumption and resistance prevalence is observed, mainly at the community level, when compared to Portugal. However, in Portugal, treated wastewater may hold identical or slightly higher resistance loads. Based on these observations, it is discussed how different factors may influence the abundance of antibiotics, antibiotic resistant bacteria, and genes in wastewater before and after treatment. [ABSTRACT FROM AUTHOR]

Published
2022
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