Article
Microbiology
Ibrahim Bitar, Costas C. Papagiannitsis, Lucie Kraftova, Vittoria Mattioni Marchetti, Efthymia Petinaki, Marc Finianos, Katerina Chudejova, Helena Zemlickova, Jaroslav Hrabak
Summary: This study aimed to characterize the genetic elements involved in the increased spread of bla(VIM) genes in VIM-producing Enterobacterales isolated from Czech hospitals between 2019 and 2020. The results showed variations in carbapenem susceptibility among the isolates, with bla(VIM-1) and bla(VIM-4) genes being prevalent. Multiple integrons and plasmids carrying the bla(VIM) genes were identified, indicating the ongoing evolution and spread of VIM-encoding integrons.
FRONTIERS IN MICROBIOLOGY
(2023)
Article
Microbiology
Danieli Conte, Dany Mesa, Thomas Jove, Caetana Paes Zamparette, Thais Cristine Marques Sincero, Jussara Kasuko Palmeiro, Libera Maria Dalla-Costa
Summary: Mobile genetic elements contribute to the emergence and spread of multi-drug-resistant bacteria. This study characterizes the genetic backbone of bla(GES) in Aeromonas spp. and Klebsiella spp. isolated from untreated hospital effluents. The results reveal large genetic diversity in these species and emphasize the importance of considering the public health risk associated with antimicrobial-resistant genes.
MICROBIOLOGY SPECTRUM
(2022)
Article
Environmental Sciences
Andrea Di Cesare, Raffaella Sabatino, Ying Yang, Diego Brambilla, Pu Li, Diego Fontaneto, Ester M. Eckert, Gianluca Corno
Summary: Wastewater treatment plants are major hotspots for antibiotic resistance genes in the environment. Metal resistance genes, plasmids, and integrons have different contributions to the persistence of antibiotic resistance genes.
ENVIRONMENTAL POLLUTION
(2022)
Article
Microbiology
Amanda Yaeko Yamada, Andreia Rodrigues de Souza, Marisa de Jesus de Castro Lima, Alex Domingos Reis, Karoline Rodrigues Campos, Amanda Maria de Jesus Bertani, Leonardo Jose Tadeu de Araujo, Claudio Tavares Sacchi, Monique Ribeiro Tiba-Casas, Carlos Henrique Camargo
Summary: The emergence of resistance to classical antimicrobial agents is a public health issue. This study reports the genomic characterization of a carbapenem-resistant Pseudomonas clinical isolate, revealing the presence of a putative new species and the co-occurrence of A and B carbapenemase genes. These findings highlight the evolving emergence of complex antimicrobial resistance in opportunistic pathogens.
CURRENT MICROBIOLOGY
(2022)
Article
Food Science & Technology
I. A. Raufu, O. A. Ahmed, A. Aremu, J. A. Ameh, R. E. Timme, R. S. Hendriksen, A. G. Ambali
Summary: Salmonella enterica, a foodborne pathogen of global public health importance, showed low-level resistance against multiple antimicrobial agents in pig farms in Ilorin, Nigeria. The study identified diverse sequence types and existing clusters of Salmonella serovars, emphasizing the need for continuous surveillance programs in Nigeria to curb the spread of resistant strains.
INTERNATIONAL JOURNAL OF FOOD MICROBIOLOGY
(2021)
Article
Microbiology
Eugen Pfeifer, Remy A. Bonnin, Eduardo P. C. Rocha
Summary: Antibiotic resistance is rapidly spreading through horizontal transfer mediated by phage-plasmids, which carry a diverse range of clinically relevant antibiotic resistance genes and can transfer them across bacteria.
Article
Veterinary Sciences
Xiaonan Zhao, Zijing Ju, Guisheng Wang, Jie Yang, Fangkun Wang, Hui Tang, Xiaomin Zhao, Shuhong Sun
Summary: This study aimed to explore Salmonella prevalence and antimicrobial resistance characteristics in chicken embryo mortality in China. Salmonella Thompson and Salmonella Infantis were the most prevalent isolates, showing strong ampicillin resistance and multi-drug resistance. Most isolates carried bla(TEM) and qnrS genes, while Class 1 integrons were carried by a minority of isolates.
FRONTIERS IN VETERINARY SCIENCE
(2021)
Article
Infectious Diseases
Sandra Martinez-Alvarez, Pierre Chatre, Teresa Cardona-Cabrera, Pauline Francois, Alberto Sanchez-Cano, Ursula Hofle, Myriam Zarazaga, Jean-Yves Madec, Marisa Haenni, Carmen Torres
Summary: This study aimed to characterize Escherichia coli isolates from cloacal samples of white stork nestlings, with a special focus on extended-spectrum β-lactamases (ESBLs)-producing E. coli isolates and their plasmid content. Various methods were used, including disc diffusion method, polymerase chain reaction (PCR), Pulsed-Field-Gel-Electrophoresis (PFGE), Southern blotting, and whole-genome sequencing, to screen for antimicrobial susceptibility, genotypic characterization, and plasmid sequencing. The study identified the presence of ESBL-producing E. coli and their plasmid characteristics.
JOURNAL OF GLOBAL ANTIMICROBIAL RESISTANCE
(2023)
Article
Biotechnology & Applied Microbiology
S. Lengliz, S. Benlabidi, A. Raddaoui, S. Cheriet, N. Ben Chehida, T. Najar, M. S. Abbassi
Summary: The study focused on antibiotic susceptibility and the presence of ESBL/carbapenemase-producing E. coli isolates from rabbits in Tunisia. It was found that rabbits may serve as a reservoir for carbapenem-resistant E. coli, and the first report of bla(VIM) and bla(IMP) genes in livestock in Tunisia was identified.
LETTERS IN APPLIED MICROBIOLOGY
(2021)
Article
Microbiology
Jose Eduardo Toledano-Tableros, Catalina Gayosso-Vazquez, Ma Dolores Jarillo-Quijada, Jose Luis Fernandez-Vazquez, Rayo Morfin-Otero, Eduardo Rodriguez-Noriega, Silvia Giono-Cerezo, Gabriel Gutkind, Jose Di Conza, Jose Ignacio Santos-Preciado, Maria Dolores Alcantar-Curiel
Summary: This study investigated NDM-1-producing K. pneumoniae strains causing bacteremia in a tertiary referral hospital in Mexico. The isolates showed various levels of resistance to different antibiotics, and bla(NDM-1) was found to be the most prevalent carbapenemase gene. The horizontal transfer of bla(NDM-1) gene through IncF-like plasmids among different clones underscores the urgent need for measures to control the spread of NDM-1 carbapenemase in the hospital.
FRONTIERS IN MICROBIOLOGY
(2021)
Article
Microbiology
Fangzhou Chen, Peng Wang, Zhe Yin, Huiying Yang, Lingfei Hu, Ting Yu, Ying Jing, Jiayao Guan, Jiahong Wu, Dongsheng Zhou
Summary: This study provides a detailed analysis of mobile genetic elements (MGEs) carrying the bla(VIM) gene in Pseudomonas. Multiple new combinations of genes were identified within these MGEs. The transfer of these MGEs among strains helps the bacteria survive antibiotic stress.
ANNALS OF CLINICAL MICROBIOLOGY AND ANTIMICROBIALS
(2022)
Article
Ecology
David Kneis, Claudele Lemay-St-Denis, Stella Cellier-Goetghebeur, Alan X. Elena, Thomas U. Berendonk, Joelle N. Pelletier, Stefanie Hess
Summary: In this study, shotgun metagenomics was used to estimate the abundance of dfrB gene variants in aquatic environments. The results showed that dfrB1, dfrB2, dfrB3, dfrB4, dfrB5, and dfrB7 were more prevalent in wastewater microbiomes, while dfrB9, dfrB10, and dfrB13 were more prevalent in freshwater. This suggests that natural freshwater communities serve as a major reservoir for the recently discovered dfrB gene variants.
Article
Infectious Diseases
Mahnaz Nikibakhsh, Farzaneh Firoozeh, Farzad Badmasti, Kourosh Kabir, Mohammad Zibaei
Summary: The study detected a high prevalence of MBLs genes, especially bla(VIM), in multidrug-resistant A. baumannii isolates from burn patients. Most strains also carried class 1 integrons, and gene cassettes arrays of integrons including cmlA5 and cmlA7 were detected in Iran for the first time in A. baumannii.
BMC INFECTIOUS DISEASES
(2021)
Article
Infectious Diseases
Hanan A. Al-Sarawi, Nazima Habibi, Saif Uddin, Awadhesh N. Jha, Mohammed A. Al-Sarawi, Brett P. Lyons
Summary: In this study, the prevalence of antibiotic-resistance genes (ARGs) in Escherichia coli isolated from mollusks and coastal water samples in Kuwait's marine environment was investigated using a genome-based approach. The study also examined the plasmids and integron genes associated with the spread of ARGs. The findings revealed the presence of various genes conferring resistance to different classes of antibiotics, including those commonly found in E. coli plasmids. Additionally, a significant correlation was observed between integron genes and antibiotic resistance. These results are valuable for monitoring horizontal gene transfer of antibiotic resistance in Kuwait's marine environments.
Review
Microbiology
Qi Zheng, Liguan Li, Xiaole Yin, You Che, Tong Zhang
Summary: This study demonstrates the important role of integrative and conjugative elements (ICEs) in the dissemination of antibiotic resistance genes (ARGs). ICEs have a broader phylogenetic distribution and higher pathogenicity compared to other mobile genetic elements, and they are significantly enriched in potential human pathogens. The study also reveals the distinct ARG profiles harbored by different MGE groups, providing insights for optimizing control strategies against antibiotic resistance crises.
Article
Infectious Diseases
Aline Cuenod, Martina Aerni, Claudia Bagutti, Banu Bayraktar, Efe Serkan Boz, Cynthia Beisert Carneiro, Carlo Casanova, Alix T. Coste, Peter Damborg, Dirk W. van Dam, Mehmet Demirci, Pavel Drevinek, Olivier Dubuis, Jose Fernandez, Gilbert Greub, Jaroslav Hrabak, Gulen Hurkal Yigitler, Jakub Hurych, Thoger Gorm Jensen, Geraldine Jost, Greetje A. Kampinga, Sonja Kittl, Christine Lammens, Claudia Lang, Reto Lienhard, Julie Logan, Carola Maffioli, Ivana Marekovic, Matthias Marschal, Jacob Moran-Gilad, Oliver Nolte, Michael Oberle, Michael Pedersen, Valentin Pfluger, Sigrid Pranghofer, Julia Reichl, Rob J. Rentenaar, Arnaud Riat, Belen Rodriguez-Sanchez, Camille Schilt, Ann-Kathrin Schlotterbeck, Jacques Schrenzel, Shani Troib, Elise Willems, Mandy Wootton, Dominik Ziegler, Adrian Egli
Summary: The study assessed the mass spectral quality (MSQ) of MALDI-TOF MS and identified simple workflow adaptations to improve it. The intervention of providing feedback and instructions on acquiring MALDI-TOF mass spectra showed improvements in MSQs.
CLINICAL MICROBIOLOGY AND INFECTION
(2023)
Editorial Material
Infectious Diseases
Juan M. Pericas, Lennie P. G. Derde, Scott M. Berry
CLINICAL MICROBIOLOGY AND INFECTION
(2023)
Article
Medicine, General & Internal
Alisa M. Higgins, Lindsay R. Berry, Elizabeth Lorenzi, Srinivas Murthy, Zoe McQuilten, Paul R. Mouncey, Farah Al-Beidh, Djillali Annane, Yaseen M. Arabi, Abi Beane, Wilma Van Bentum-Puijk, Zahra Bhimani, Marc J. M. Bonten, Charlotte A. Bradbury, Frank M. Brunkhorst, Aiden Burrell, Adrian Buzgau, Meredith Buxton, Walton N. Charles, Matthew Cove, Michelle A. Detry, Lise J. Estcourt, Elizabeth O. Fagbodun, Mark Fitzgerald, Timothy D. Girard, Ewan C. Goligher, Herman Goossens, Rashan Haniffa, Thomas Hills, Christopher M. Horvat, David T. Huang, Nao Ichihara, Francois Lamontagne, John C. Marshall, Daniel F. McAuley, Anna McGlothlin, Shay P. McGuinness, Bryan J. McVerry, Matthew D. Neal, Alistair D. Nichol, Rachael L. Parke, Jane C. Parker, Karen Parry-Billings, Sam E. C. Peters, Luis F. Reyes, Kathryn M. Rowan, Hiroki Saito, Marlene S. Santos, Christina T. Saunders, Ary Serpa-Neto, Christopher W. Seymour, Manu Shankar-Hari, Lucy M. Stronach, Alexis F. Turgeon, Anne M. Turner, Frank L. van de Veerdonk, Ryan Zarychanski, Cameron Green, Roger J. Lewis, Derek C. Angus, Colin J. McArthur, Scott Berry, Lennie P. G. Derde, Anthony C. Gordon, Steve A. Webb, Patrick R. Lawler
Summary: The longer-term effects of therapies for critically ill COVID-19 patients are unknown. In this study, 4869 patients were randomized to receive different interventions, and it was found that treatment with IL-6 receptor antagonists and antiplatelet agents significantly improved survival rates after 180 days. These findings suggest that most therapies have consistent effects over a 6-month period.
JAMA-JOURNAL OF THE AMERICAN MEDICAL ASSOCIATION
(2023)
Article
Microbiology
Ibrahim Bitar, Costas C. Papagiannitsis, Lucie Kraftova, Vittoria Mattioni Marchetti, Efthymia Petinaki, Marc Finianos, Katerina Chudejova, Helena Zemlickova, Jaroslav Hrabak
Summary: This study aimed to characterize the genetic elements involved in the increased spread of bla(VIM) genes in VIM-producing Enterobacterales isolated from Czech hospitals between 2019 and 2020. The results showed variations in carbapenem susceptibility among the isolates, with bla(VIM-1) and bla(VIM-4) genes being prevalent. Multiple integrons and plasmids carrying the bla(VIM) genes were identified, indicating the ongoing evolution and spread of VIM-encoding integrons.
FRONTIERS IN MICROBIOLOGY
(2023)
Article
Respiratory System
Ignacio Martin-Loeches, Antoni Torres, Blin Nagavci, Stefano Aliberti, Massimo Antonelli, Matteo Bassetti, Lieuwe Bos, James Chalmers, Lennie Derde, Jan de Waele, Jose Garnacho-Montero, Marin Kollef, Carlos Luna, Rosario Menendez, Michael Niederman, Dimitry Ponomarev, Marcos Restrepo, David Rigau, Marcus Schultz, Emmanuele Weiss, Tobias Welte, Richard Wunderink
Summary: The ERS, ESICM, ESCMID and ALAT have developed the first international guidelines for severe community-acquired pneumonia (sCAP). These guidelines provide evidence-based recommendations for diagnosis, empirical treatment and antibiotic therapy for sCAP.
EUROPEAN RESPIRATORY JOURNAL
(2023)
Correction
Critical Care Medicine
Ignacio Martin-Loeches, Antoni Torres, Blin Nagavci, Stefano Aliberti, Massimo Antonelli, Matteo Bassetti, Lieuwe D. Bos, James D. Chalmers, Lennie Derde, Jan De Waele, Jose Garnacho-Montero, Marin Kollef, Carlos M. Luna, Rosario Menendez, Michael S. Niederman, Dmitry Ponomarev, Marcos I. Restrepo, David Rigau, Marcus J. Schultz, Emmanuel Weiss, Tobias Welte, Richard Wunderink
INTENSIVE CARE MEDICINE
(2023)
Letter
Critical Care Medicine
Charlotte A. Bradbury, Patrick R. Lawler, Bryan J. McVerry, Ryan Zarychanski, REMAP C A P Investigators
INTENSIVE CARE MEDICINE
(2023)
Article
Medicine, General & Internal
Ewan C. C. Goligher, Patrick R. R. Lawler, Thomas P. P. Jensen, Victor Talisa, Lindsay R. R. Berry, Elizabeth Lorenzi, Bryan J. J. McVerry, Chung-Chou Ho Chang, Eric Leifer, Charlotte Bradbury, Jeffrey Berger, Beverly J. J. Hunt, Lana A. A. Castellucci, Lucy Z. Kornblith, Anthony C. C. Gordon, Colin McArthur, Steven Webb, Judith Hochman, Matthew D. D. Neal, Ryan Zarychanski, Scott Berry, Derek C. C. Angus
Summary: This study aimed to evaluate the heterogeneity of treatment effect (HTE) of therapeutic-dose heparin in patients hospitalized for COVID-19 and compare different approaches to assessing HTE. The findings showed that the effect of therapeutic-dose heparin varied among patients with different severity levels and BMI, with more benefit observed in less severe or lower BMI patients and more harm in sicker or higher BMI patients.
JAMA-JOURNAL OF THE AMERICAN MEDICAL ASSOCIATION
(2023)
Article
Medicine, General & Internal
Patrick R. Lawler, Lennie P. G. Derde, Frank L. van de Veerdonk, Bryan J. McVerry, David T. Huang, Lindsay R. Berry, Elizabeth Lorenzi, Roland van Kimmenade, Frank Gommans, Muthiah Vaduganathan, David E. Leaf, Rebecca M. Baron, Edy Y. Kim, Claudia Frankfurter, Slava Epelman, Yvonne Kwan, Richard Grieve, Stephen O'Neill, Zia Sadique, Michael Puskarich, John C. Marshall, Alisa M. Higgins, Paul R. Mouncey, Kathryn M. Rowan, Farah Al-Beidh, Djillali Annane, Yaseen M. Arabi, Carly Au, Abi Beane, Wilma van Bentum-Puijk, Marc J. M. Bonten, Charlotte A. Bradbury, Frank M. Brunkhorst, Aidan Burrell, Adrian Buzgau, Meredith Buxton, Maurizio Cecconi, Allen C. Cheng, Matthew Cove, Michelle A. Detry, Lise J. Estcourt, Justin Ezekowitz, Mark Fitzgerald, David Gattas, Lucas C. Godoy, Herman Goossens, Rashan Haniffa, David A. Harrison, Thomas Hills, Christopher M. Horvat, Nao Ichihara, Francois Lamontagne, Kelsey M. Linstrum, Daniel F. McAuley, Anna McGlothlin, Shay P. McGuinness, Zoe McQuilten, Srinivas Murthy, Alistair D. Nichol, David R. J. Owen, Rachael L. Parke, Jane C. Parker, Katrina M. Pollock, Luis Felipe Reyes, Hiroki Saito, Marlene S. Santos, Christina T. Saunders, Christopher W. Seymour, Manu Shankar-Hari, Vanessa Singh, Alexis F. Turgeon, Anne M. Turner, Ryan Zarychanski, Cameron Green, Roger J. Lewis, Derek C. Angus, Scott Berry, Anthony C. Gordon, Colin J. McArthur, Steve A. Webb
Summary: In patients with COVID-19, overactivation of the renin-angiotensin system (RAS) may have negative clinical outcomes. This study aimed to determine if initiating angiotensin-converting enzyme (ACE) inhibitors or angiotensin receptor blockers (ARBs) could improve outcomes in hospitalized COVID-19 patients. The results showed that in critically ill patients, the use of ACE inhibitors or ARBs did not improve, and likely worsened, clinical outcomes.
JAMA-JOURNAL OF THE AMERICAN MEDICAL ASSOCIATION
(2023)
Article
Medicine, General & Internal
Nikki de Mul, Diede Verlaan, Jelle P. Ruurda, Wilhelmina M. U. van Grevenstein, Jeroen Hagendoorn, Gert-Jan de Borst, Menno R. Vriens, Remco de Bree, Ronald P. Zweemer, Charles Vogely, Jelle L. G. Haitsma Mulier, Lisette M. Vernooij, Johannes B. Reitsma, Marcel R. de Zoete, Janetta Top, Jan A. J. Kluijtmans, Imo E. Hoefer, Peter Noordzij, Thijs Rettig, Marije Marsman, Anne Marie G. A. de Smet, Lennie Derde, Judith van Waes, Mienke Rijsdijk, Willem Jan M. Schellekens, Marc J. M. Bonten, Arjen J. C. Slooter, Olaf L. Cremer
Summary: The PLUTO cohort study aims to establish a comprehensive biorepository to facilitate research on perioperative complications and long-term outcomes. Participants are patients undergoing non-cardiac surgery. The study focuses on postoperative occurrences such as infections, cardiac events, pulmonary complications, kidney injury, and delirium/acute encephalopathy.
Article
Biochemical Research Methods
Josef Dvorak, Jana Novakova, Lucie Kraftova, Vendula Studentova, Martin Matejovic, Jaroslav Radej, Thomas Karvunidis, Jan Horak, Marcela Kralovcova, Jaroslav Hrabak, Zuzana Kalaninova, Michael Volny, Petr Novak, Petr Pompach
Summary: A rapid PCT detection method using MALDI-TOF mass spectrometry was developed and validated against LC-MS bottom-up workflow. The new method detects intact PCT and uncovers its alterations in septic patients' serum.
CLINICAL PROTEOMICS
(2023)
Article
Microbiology
V. Mattioni Marchetti, L. Kraftova, M. Finianos, T. Sourenian, J. Hrabak, I. Bitar
Summary: The study investigated fosfomycin susceptibility profiles among carbapenem-resistant Enterobacterales (CRE) in the Czech Republic, characterized the genetic environment of fosA genes, and evaluated the presence of amino acid mutations in proteins involved in FOS resistance mechanisms. The results showed the occurrence of several FOS resistance mechanisms in different clones spreading in the Czech Republic.
MICROBIOLOGY SPECTRUM
(2023)
Article
Biochemistry & Molecular Biology
Karolina Wegrzynska, Jaroslaw Walory, Radoslaw Charkiewicz, Marzena Anna Lewandowska, Izabela Wasko, Aleksandra Kozinska, Piotr Majewski, Anna Baraniak
Summary: Accurate and rapid identification of COVID-19 is critical. The GenBody COVID-19 Ag rapid antigen tests showed high sensitivity and specificity, making them suitable for diagnosis and timely isolation and treatment of COVID-19 patients, contributing to the better control of virus spread.
Article
Immunology
Jaroslaw Walory, Iza Ksiazek, Michal Karynski, Anna Baraniak
Summary: This study found that the BNT162b2 vaccine had strong immunogenicity, but antibody levels declined over time, potentially contributing to breakthrough infections. Booster doses significantly enhanced antibody levels and provided longer-lasting immunity compared to breakthrough infection.
Article
Critical Care Medicine
Robin M. E. Janssen, Anke J. M. Oerlemans, Johannes G. van der Hoeven, Evelien A. N. Oostdijk, Lennie P. G. Derde, Jaap ten Oever, Heiman F. L. Wertheim, Marlies E. J. L. Hulscher, Jeroen A. Schouten
Summary: This study provides insight into the decision-making process on antibiotic therapy duration in intensive care units (ICUs) through direct observations of multidisciplinary meetings in four Dutch ICUs. The findings reveal that the decision-making process for antibiotic therapy duration is complex, involving various healthcare professionals and utilizing different types of arguments.
JOURNAL OF CRITICAL CARE
(2023)