Search

Your search keyword '"Cormican, Martin"' showing total 370 results
Start Over Author "Cormican, Martin" Language english
370 results on '"Cormican, Martin"'

4. Longitudinal carriage of antimicrobial resistant Enterobacterales in healthy individuals in Ireland - Assessing the impact of recreational water use on duration of carriage

Author

Farrell, Maeve Louise, Chueiri, Alexandra, Maguire, Mark, Kovářová, Aneta, Miliotis, Georgios, O'Connor, Louise, McDonagh, Francesca, Duane, Sinead, Cormican, Martin, Devane, Genevieve, Tuohy, Alma, DeLappe, Niall, De Bock, Florence, Burke, Liam P., and Morris, Dearbháile

Published
2023
Full Text
View/download PDF

9. Dissemination of extensively drug-resistant NDMproducing Providencia stuartii in Europe linked to patients transferred from Ukraine, March 2022 to March 2023.

Author

Witteveen, Sandra, Hans, Jörg B., Izdebski, Radosław, Hasman, Henrik, Samuelsen, Ørjan, Dortet, Laurent, Pfeifer, Yvonne, Delappe, Niall, Oteo-Iglesias, Jesús, Żabicka, Dorota, Cormican, Martin, Sandfort, Mirco, Reichert, Felix, Pöntinen, Anna K., Fischer, Martin A., Verkaik, Nelianne, Pérez-Vazquez, María, Pfennigwerth, Niels, Hammerum, Anette M., and Hallstrøm, Søren

Published
2024
Full Text
View/download PDF

11. Multicenter Study of Cronobacter sakazakii Infections in Humans, Europe, 2017

Author

Lepuschitz, Sarah, Ruppitsch, Werner, Pekard-Amenitsch, Shiva, Forsythe, Stephen J., Cormican, Martin, Mach, Robert L., Pierard, Denis, and Allerberger, Franz

Subjects
Mass spectrometry -- Health aspects, Ionization -- Health aspects, Infection -- Health aspects, Genomes -- Health aspects, Cephalothin -- Health aspects, Medical research -- Health aspects, Genomics -- Health aspects, Microbial drug resistance -- Health aspects, DNA sequencing, Newborn infants, Spectroscopy, Drug resistance, Health, World Health Organization
Abstract

Cronobacter sakazakii is a motile, gram-negative, rodshaped opportunistic pathogen of the family Enterbacteriaceae (1). In 2007, organisms previously classified as Enterobacter sakazakii were reassigned to the new genus Cronobacter, which [...]

Published
2019
Full Text
View/download PDF

12. Dissecting the molecular evolution of fluoroquinolone-resistant Shigella sonnei

Author

Chung The, Hao, Boinett, Christine, Pham Thanh, Duy, Jenkins, Claire, Weill, Francois-Xavier, Howden, Benjamin P., Valcanis, Mary, De Lappe, Niall, Cormican, Martin, Wangchuk, Sonam, Bodhidatta, Ladaporn, Mason, Carl J., Nguyen, To Nguyen Thi, Ha Thanh, Tuyen, Voong, Vinh Phat, Duong, Vu Thuy, Nguyen, Phu Huong Lan, Turner, Paul, Wick, Ryan, Ceyssens, Pieter-Jan, Thwaites, Guy, Holt, Kathryn E., Thomson, Nicholas R., Rabaa, Maia A., and Baker, Stephen

Published
2019
Full Text
View/download PDF

13. Investigation of a monophasic Salmonella Typhimurium outbreak linked to chocolate products as part of wider international outbreak: A matched case–control study, Ireland, 2022.

Author

Nielsen, Charlotte Salgaard, Garvey, Patricia, Cormican, Martin, DeLappe, Niall, Lenahan, Mary, Moore, Orla, Casey, Kay, Cotter, Suzanne, Gee, Sarah, Aniugbo, Benjamin, Meagher, Gerard, Brabazon, Elaine, Quintyne, Keith Ian, Breslin, Anthony, McBride, RoseMary, Burke, Eimear, White, Margaret, Casey, Marie, Evans, Leah, and Conlon, Catherine

Published
2023
Full Text
View/download PDF

14. Rapid cross-border emergence of NDM-5-producing in the European Union/European Economic Area, 2012 to June 2022

Author

Linkevicius, Marius, Bonnin, Rémy A, Alm, Erik, Svartström, Olov, Apfalter, Petra, Hartl, Rainer, Hasman, Henrik, Roer, Louise, Räisänen, Kati, Dortet, Laurent, Pfennigwerth, Niels, Hans, Jörg B, Tóth, Ákos, Buzgó, Lilla, Cormican, Martin, Delappe, Niall, Monaco, Monica, Giufrè, Maria, Hendrickx, Antoni Pa, Samuelsen, Ørjan, Pöntinen, Anna K, Caniça, Manuela, Manageiro, Vera, Oteo-Iglesias, Jesús, Pérez-Vázquez, María, Westmo, Karin, Mäkitalo, Barbro, Palm, Daniel, Monnet, Dominique L, and Kohlenberg, Anke

Subjects
carbapenemase, whole genome sequencing, Carbapenem-resistant Enterobacterales, Escherichia coli, surveillance, cross-border import, NDM-5
Abstract

Whole genome sequencing data of 874 Escherichia coli isolates carrying bla NDM-5 from 13 European Union/European Economic Area countries between 2012 and June 2022 showed the predominance of sequence types ST167, ST405, ST410, ST361 and ST648, and an increasing frequency of detection. Nearly a third (30.6%) of these isolates were associated with infections and more than half (58.2%) were predicted to be multidrug-resistant. Further spread of E. coli carrying bla NDM-5 would leave limited treatment options for serious E. coli infections.

Published
2023

15. Economic Assessment of Waterborne Outbreak of Cryptosporidiosis

Author

Chyzheuskaya, Aksana, Cormican, Martin, Srivinas, Raghavendra, O'Donovan, Diarmuid, Prendergast, Martina, O'Donoghue, Cathal, and Morris, Dearbhaile

Subjects
Cryptosporidiosis -- Health aspects -- Economic aspects, Waterborne infections -- Health aspects -- Economic aspects, Health
Abstract

Cryptosporidium spp. are protozoan parasites that might be present in inadequately treated water. Human infection can result in watery diarrhea, stomach cramps, bloating, vomiting, and fever (1-3). Although usually a [...]

Published
2017
Full Text
View/download PDF

16. A global genomic analysis of Salmonella Concord reveals lineages with high antimicrobial resistance in Ethiopia

Author

Cuypers, Wim L., Meysman, Pieter, Weill, François-Xavier, Hendriksen, Rene S., Beyene, Getenet, Wain, John, Nair, Satheesh, Chattaway, Marie A., Perez-Sepulveda, Blanca M., Ceyssens, Pieter-Jan, de Block, Tessa, Lee, Winnie W. Y., Pardos de la Gandara, Maria, Kornschober, Christian, Moran-Gilad, Jacob, Veldman, Kees T., Cormican, Martin, Torpdahl, Mia, Fields, Patricia I., Černý, Tomáš, Hardy, Liselotte, Tack, Bieke, Mellor, Kate C., Thomson, Nicholas, Dougan, Gordon, Deborggraeve, Stijn, Jacobs, Jan, Laukens, Kris, Van Puyvelde, Sandra, Cuypers, Wim L [0000-0002-1895-3526], Meysman, Pieter [0000-0001-5903-633X], Weill, François-Xavier [0000-0001-9941-5799], Chattaway, Marie A [0000-0002-5288-9089], Perez-Sepulveda, Blanca M [0000-0002-2891-4010], Pardos de la Gandara, Maria [0000-0002-3273-6392], Veldman, Kees T [0000-0002-2560-3276], Hardy, Liselotte [0000-0002-8785-5081], Tack, Bieke [0000-0002-1129-0440], Thomson, Nicholas [0000-0002-4432-8505], Jacobs, Jan [0000-0002-8657-6777], Laukens, Kris [0000-0002-8217-2564], Van Puyvelde, Sandra [0000-0001-8434-5732], and Apollo - University of Cambridge Repository

Subjects
Salmonella, Drug Resistance, Bacterial, Humans, Life Science, Ethiopia, Genomics, Biology, Anti-Bacterial Agents
Abstract

Antimicrobial resistant Salmonella enterica serovar Concord (S. Concord) is known to cause severe gastrointestinal and bloodstream infections in patients from Ethiopia and Ethiopian adoptees, and occasional records exist of S. Concord linked to other countries. The evolution and geographical distribution of S. Concord remained unclear. Here, we provide a genomic overview of the population structure and antimicrobial resistance (AMR) of S. Concord by analysing genomes from 284 historical and contemporary isolates obtained between 1944 and 2022 across the globe. We demonstrate that S. Concord is a polyphyletic serovar distributed among three Salmonella super-lineages. Super-lineage A is composed of eight S. Concord lineages, of which four are associated with multiple countries and low levels of AMR. Other lineages are restricted to Ethiopia and horizontally acquired resistance to most antimicrobials used for treating invasive Salmonella infections in low- and middle-income countries. By reconstructing complete genomes for 10 representative strains, we demonstrate the presence of AMR markers integrated in structurally diverse IncHI2 and IncA/C2 plasmids, and/or the chromosome. Molecular surveillance of pathogens such as S. Concord supports the understanding of AMR and the multi-sector response to the global AMR threat. This study provides a comprehensive baseline data set essential for future molecular surveillance.

Published
2023

19. 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

22. Rapid cross-border emergence of NDM-5-producing Escherichia coli in the European Union/European Economic Area, 2012 to June 2022.

Author

Linkevicius, Marius, Bonnin, Rémy A., Alm, Erik, Svartström, Olov, Apfalter, Petra, Hartl, Rainer, Hasman, Henrik, Roer, Louise, Räisänen, Kati, Dortet, Laurent, Pfennigwerth, Niels, Hans, Jörg B., Tóth, Ákos, Buzgó, Lilla, Cormican, Martin, Delappe, Niall, Monaco, Monica, Giufrè, Maria, Hendrickx, Antoni P. A., and Samuelsen, Ørjan

Published
2023
Full Text
View/download PDF

23. Clinical epidemiology of the global expansion of Klebsiella pneumoniae carbapenemases

Author

Munoz-Price, L Silvia, Poirel, Laurent, Bonomo, Robert A, Schwaber, Mitchell J, Daikos, George L, Cormican, Martin, Cornaglia, Giuseppe, Garau, Javier, Gniadkowski, Marek, Hayden, Mary K, Kumarasamy, Karthikeyan, Livermore, David M, Maya, Juan J, Nordmann, Patrice, Patel, Jean B, Paterson, David L, Pitout, Johann, Villegas, Maria Virginia, Wang, Hui, Woodford, Neil, and Quinn, John P

Published
2013
Full Text
View/download PDF

26. Intervention to improve the quality of antimicrobial prescribing for urinary tract infection: a cluster randomized trial

Author

Vellinga, Akke, Galvin, Sandra, Duane, Sinead, Callan, Aoife, Bennett, Kathleen, Cormican, Martin, Domegan, Christine, and Murphy, Andrew W.

Subjects
Urinary tract infections -- Drug therapy, Prescription writing -- Standards, Drug resistance -- Prevention, Health
Abstract

Background: Overuse of antimicrobial therapy in the community adds to the global spread of antimicrobial resistance, which is jeopardizing the treatment of common infections. Methods: We designed a cluster randomized complex intervention to improve antimicrobial prescribing for urinary tract infection in Irish general practice. During a 3-month baseline period, all practices received a workshop to promote consultation coding for urinary tract infections. Practices in intervention arms A and B received a second workshop with information on antimicrobial prescribing guidelines and a practice audit report (baseline data). Practices in intervention arm B received additional evidence on delayed prescribing of antimicrobials for suspected urinary tract infection. A reminder integrated into the patient management software suggested first-line treatment and, for practices in arm B, delayed prescribing. Over the 6-month intervention, practices in arms A and B received monthly audit reports of antimicrobial prescribing. Results: The proportion of antimicrobial prescribing according to guidelines for urinary tract infection increased in arms A and B relative to control (adjusted overall odds ratio [OR] 2.3, 95% confidence interval [CI] 1.7 to 3.2; arm A adjusted OR 2.7, 95% CI 1.8 to 4.1; arm B adjusted OR 2.0, 95% CI 1.3 to 3.0). An unintended increase in antimicrobial prescribing was observed in the intervention arms relative to control (arm A adjusted OR 2.2, 95% CI 1.2 to 4.0; arm B adjusted OR 1.4, 95% CI 0.9 to 2.1). Improvements in guideline-based prescribing were sustained at 5 months after the intervention. Interpretation: A complex intervention, including audit reports and reminders, improved the quality of prescribing for urinary tract infection in Irish general practice. Trial registration: ClinicalTrials.gov, no. NCT01913860, In its recent global report on antimicrobial resistance, the World Health Organization warned that widespread resistance is not just a future threat but a present-day reality. Many of the current [...]

Published
2016
Full Text
View/download PDF

27. COSUTI: A Core Outcome Set (COS) for Interventions for the Treatment of Uncomplicated Urinary Tract Infection (UTI) in Adults.

Author

Beecher, Claire, Duane, Sinead, Vellinga, Akke, Murphy, Andrew W., Cormican, Martin, Smyth, Andrew, Healy, Patricia, Moore, Michael, Little, Paul, Geoghegan, Carmel, and Devane, Declan

Subjects
URINARY tract infections, ADULTS, BACTERIAL diseases, CRIME & the press
Abstract

Background: Uncomplicated urinary tract infections (UTIs) are among the most common presentations of bacterial infections in the outpatient setting. The variation of outcomes reported in trials to assess the most effective treatment interventions for uncomplicated UTIs has meant that comparing and synthesising the outcomes across trials is challenging and limits the reliability of evidence which would otherwise inform healthcare decisions. Objective: Develop a Core Outcome Set (COS) for interventions for the treatment of uncomplicated UTIs in otherwise healthy adults. Methods: The COS development consisted of three phases: (1) A systematic review to identify outcomes reported in randomised trials and systematic reviews of randomised trials comparing the effectiveness of any interventions for the treatment of uncomplicated UTI in otherwise healthy adults; (2) Outcomes identified in the systematic review were prioritised in an online 3-round modified Delphi survey with healthcare practitioners (n = 68), researchers (n = 5), and people who have experienced or cared for someone experiencing a UTI (n = 180); (3) An online consensus meeting to determine the final COS with healthcare practitioners and policymakers (n = 9), researchers (n = 4), and people who have experienced or cared for someone experiencing a UTI (n = 7). Results: We identified a large number of outcomes. Through the use of robust consensus methods, those outcomes were reduced to a core set of six outcomes that should, at a minimum, be measured and reported in randomised trials and systematic reviews of interventions treating uncomplicated UTIs in adults. [ABSTRACT FROM AUTHOR]

Published
2022
Full Text
View/download PDF

29. Global monitoring of antimicrobial resistance based on metagenomics analyses of urban sewage

Author

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, 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., Sub RIVM, dIRAS RA-I&I RA, One Health Microbieel, dIRAS RA-I&I I&I, University of Helsinki, Food Hygiene and Environmental Health, Producció Animal, Sanitat Animal, Tilraunastöð í meinafræði að Keldum (HÍ), Institute for Experimental Pathology, Keldur (UI), Heilbrigðisvísindasvið (HÍ), School of Health Sciences (UI), Háskóli Íslands, University of Iceland, Food Hygiene and Environmental Health, Helsinki One Health (HOH), Zoonotic Antimicrobial Resistance, and Virology

Subjects
0301 basic medicine, Water microbiology, global surveillance, Sanitation, Kwantitatieve Veterinaire Epidemiologie, Drug Resistance, General Physics and Astronomy, Sewage, 02 engineering and technology, Drug resistance, Antimicrobial resistance, 413 Veterinary science, BU Veterinary Drugs, Abundance (ecology), Drug Resistance, Multiple, Bacterial, Genamengi, AMR, lcsh:Science, resistome, Ónæmisfræði, Multidisciplinary, Population Health, 021001 nanoscience & nanotechnology, 3. Good health, Europe, machine learning, Geography, Epidemiological Monitoring, 0210 nano-technology, Asia, Science, Microbial Consortia, Oceania, Article, General Biochemistry, Genetics and Molecular Biology, BU Dierbehandelingsmiddelen, 03 medical and health sciences, Antibiotic resistance, SDG 3 - Good Health and Well-being, Environmental health, Erfðafræði, Life Science, Humans, ddc:610, wastewater, Ecological epidemiology, Bacteria, business.industry, Quantitative Veterinary Epidemiology, prediction, General Chemistry, South America, Resistome, 030104 developmental biology, Genes, Socioeconomic Factors, 416 Food Science, Genes, Bacterial, Metagenomics, ENVIRONMENTAL SURVEILLANCE, Africa, North America, Metagenome, UPDATE, lcsh:Q, business, 610 Medizin und Gesundheit
Abstract

Publisher's version (útgefin grein), 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., We are grateful to Hanne Nørgaard Nielsen, Christina Aaby Svendsen, Jacob Dyring Jensen, Birthe S. Rosenqvist Lund, Kate Vina Vibefeldt, Inge Marianne Hansen, Gunhild Larsen, Hanne Mordhorst, and Carsten Bidstrup for technical assistance. We also thank Jeffrey Edward Skiby for internal review. This study has received funding from the European Union’s Horizon 2020 research and innovation programme under grant agreement no. 643476 (COMPARE), the World Health Organization, The Villum Foundation (VKR023052), and The Novo Nordisk Foundation (NNF16OC0021856: Global Surveillance of Antimicrobial Resistance).

Published
2019

30. Correction to: Setting a baseline for global urban virome surveillance in sewage

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, van Passel, Mark, van de Schans, Milou G.M., Zuidema, Tina, and Koopmans, Marion P.G.

Subjects
Team Animal Drugs 1, Life Science
Abstract

The Acknowledgements section in the original version of this Article was incomplete. “This study has received funding from the European Union’s Horizon 2020 research and innovation program under Grant agreement no. 643476 (COMPARE), the World Health Organization, and The Novo Nordisk Foundation (NNF16OC0021856: Global Surveillance of Antimicrobial Resistance). We would like to thank Miranda de Graaf for the technical assistance at Erasmus MC.” now reads: “This study has received funding from the European Union’s Horizon 2020 research and innovation program under Grant agreement no. 643476 (COMPARE), the World Health Organization, and The Novo Nordisk Foundation (NNF16OC0021856: Global Surveillance of Antimicrobial Resistance). My V. T. Phan was supported by a Marie Sklodowska-Curie Individual Fellowship, funded by the EU H2020 research and innovation programme (Grant Agreement No. 799417). We would like to thank Miranda de Graaf for the technical assistance at Erasmus MC.” The original Article has been corrected.

Published
2021

33. Ciprofloxacin-resistant Shigella sonnei associated with travel to India

Author

De Lappe, Niall, O'Connor, Jean, Garvey, Patricia, McKeown, Paul, and Cormican, Martin

Subjects
Health
Abstract

To the Editor: Shigellosis is an uncommon infection in many industrialized countries, and many cases are linked to travel to Shigella spp.-endemic countries. The epidemiology of Shigella infections in developing [...]

Published
2015

35. Cross-border spread of - and -positive : a European collaborative analysis of whole genome sequencing and epidemiological data, 2014 to 2019

Author

Ludden, Catherine, Lötsch, Felix, Alm, Erik, Kumar, Narender, Johansson, Karin, Albiger, Barbara, Huang, Te-Din, Denis, Olivier, Hammerum, Anette M, Hasman, Henrik, Jalava, Jari, Räisänen, Kati, Dortet, Laurent, Jousset, Agnès B, Gatermann, Sören, Haller, Sebastian, Cormican, Martin, Brennan, Wendy, Del Grosso, Maria, Monaco, Monica, Schouls, Leo, Samuelsen, Ørjan, Pirš, Mateja, Cerar, Tjaša, Oteo-Iglesias, Jésus, Pérez-Vázquez, Maria, Sjöström, Karin, Edquist, Petra, Hopkins, Katie L, Struelens, Marc J, Palm, Daniel, Monnet, Dominique L, Kohlenberg, Anke, UCL - (MGD) Laboratoire de biologie clinique, and UCL - SSS/IREC/MONT - Pôle Mont Godinne

Subjects
carbapenemase, whole genome sequencing, surveillance, cross-border import, NDM-1, OXA-48, NDM-1, Klebsiella pneumonia, carbapenem-resistant Enterobacterales, OXA-48, geographic locations
Abstract

Analysis of sequencing data for 143 blaNDM-1- and blaOXA-48-positive Klebsiella pneumoniae isolates from 13 European national collections and the public domain resulted in the identification of 15 previously undetected multi-country transmission clusters. For 10 clusters, cases had prior travel/hospitalisation history in countries outside of the European Union including Egypt, Iran, Morocco, Russia, Serbia, Tunisia and Turkey. These findings highlight the benefit of European whole genome sequencing-based surveillance and data sharing for control of antimicrobial resistance.

Published
2020

36. Cross-border spread of blaN DM-1- and blaOX A-48 positive Klebsiella pneumoniae: a European collabo-rative analysis of whole genome sequencing and epidemiological data, 2014 to 2019

Author

Ludden, Catherine, Lötsch, Felix, Alm, Erik, Kumar, Narender, Johansson, Karin, Albiger, Barbara, Huang, Te-Din, Denis, Olivier, Hammerum, Anette M, Hasman, Henrik, Jalava, Jari, Räisänen, Kati, Dortet, Laurent, Jousset, Agnès B, Gatermann, Sören, Haller, Sebastian, Cormican, Martin, Brennan, Wendy, Del Grosso, Maria, Monaco, Monica, Schouls, Leo, Samuelsen, Ørjan, Pirš, Mateja, Cerar, Tjaša, Oteo-Iglesias, Jésus, Pérez-Vázquez, Maria, Sjöström, Karin, Edquist, Petra, Hopkins, Katie L, Struelens, Marc J, Palm, Daniel, Monnet, Dominique L, and Kohlenberg, Anke

Subjects
ddc:610, 610 Medizin und Gesundheit, geographic locations
Abstract

Analysis of sequencing data for 143 blaNDM-1- and blaOXA-48-positive Klebsiella pneumoniae isolates from 13 European national collections and the public domain resulted in the identification of 15 previously undetected multi-country transmission clusters. For 10 clusters, cases had prior travel/hospitalisation history in countries outside of the European Union including Egypt, Iran, Morocco, Russia, Serbia, Tunisia and Turkey. These findings highlight the benefit of European whole genome sequencing-based surveillance and data sharing for control of antimicrobial resistance.

Published
2020

37. Setting a baseline for global urban virome surveillance in sewage

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., IRAS OH Epidemiology Microbial Agents, dIRAS RA-I&I I&I, Singapore Centre for Environmental Life Sciences and Engineering, Nanyang Technological University Food Technology Centre (NAFTEC), Producció Animal, Sanitat Animal, Virology, University of Helsinki, Food Hygiene and Environmental Health, Helsinki One Health (HOH), Zoonotic Antimicrobial Resistance, IRAS OH Epidemiology Microbial Agents, and dIRAS RA-I&I I&I

Subjects
0301 basic medicine, lcsh:Medicine, Sewage, Pilot Projects, POLIOVIRUS, Disease, CORONAVIRUS, Disease Outbreaks, BU Veterinary Drugs, 0302 clinical medicine, Vegetables, lcsh:Science, metagenomic sequencing, sewage, viral pathogens, virome, virus, 11832 Microbiology and virology, Public health, Multidisciplinary, Virome, ENTEROVIRUSES, 3142 Public health care science, environmental and occupational health, Environmental engineering [Engineering], Geography, Public Health, Environmental Monitoring, VIRUSES, High density, Early detection, Food Contamination, CLASSIFICATION, BU Dierbehandelingsmiddelen, Article, 03 medical and health sciences, SDG 3 - Good Health and Well-being, Environmental health, Humans, Life Science, Human virome, Author Correction, business.industry, lcsh:R, Outbreak, SEASONALITY, Cross-Sectional Studies, 030104 developmental biology, Megacity, Metagenomics, PATTERNS, Metagenome, lcsh:Q, business, 030217 neurology & neurosurgery
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.

Published
2020

38. Cost-effective application of pulsed-field gel electrophoresis to typing of Salmonella enterica serovar Typhimurium

Author

Doran, Geraldine, Morris, Dearbhaile, O'Hare, Colette, DeLappe, Niall, Bradshaw, Bernard, Corbett-Feeney, Geraldine, and Cormican, Martin

Subjects
Salmonella -- Genetic aspects, Gel electrophoresis -- Methods, Bacteriophage typing -- Methods, Biological sciences
Abstract

The relationship between phage type and pulsed-field gel electrophoresis (PFGE) pattern in Salmonella enterica serovar Typhimurium isolates from humans, animals and food in Ireland is explored to determine how to apply PFGE to supplement the existing routine phenotypic subtyping of serovar Typhimurium. The analysis facilitates the selective application of PFGE to maximize the yield of epidemiologically relevant information while controlling costs.

Published
2005

42. Reflections on a national public health emergency response to carbapenemase-producing Enterobacterales (CPE).

Author

Humphreys, Hilary, Cormican, Martin, Brennan, Wendy, Burns, Karen, O'Donovan, Diarmuid, Dalchan, Therese, Keane, Shirley, and Sheahan, Anne

Abstract

Carbapenemase-producing Enterobacterales (CPE) are important globally. In 2017, Ireland declared a national public health emergency to address CPE in acute hospitals. A National Public Health Emergency Team and an expert advisory group (EAG) were established. The EAG has identified key learnings to inform future strategies. First, there is still an opportunity to prevent CPE becoming endemic. Second, damp environmental reservoirs in hospitals are inadequately controlled. Third, antibiotic stewardship remains important in control. Finally, there is no current requirement to extend screening to detect CPE outside of acute hospitals. These conclusions and their implications may also be relevant in other countries. [ABSTRACT FROM AUTHOR]

Published
2022
Full Text
View/download PDF

Catalog

Books, media, physical & digital resources
See catalog results