Identification of acquired antimicrobial resistance genes
Ea Zankari,Henrik Hasman,Salvatore Cosentino,Martin Vestergaard,Simon Rasmussen,Ole Lund,Frank Møller Aarestrup,Mette Voldby Larsen +7 more
TLDR
A web server providing a convenient way of identifying acquired antimicrobial resistance genes in completely sequenced isolates was created, and the method was evaluated on WGS chromosomes and plasmids of 30 isolates.Abstract:
Objectives
Identification of antimicrobial resistance genes is important for understanding the underlying mechanisms and the epidemiology of antimicrobial resistance. As the costs of whole-genome sequencing (WGS) continue to decline, it becomes increasingly available in routine diagnostic laboratories and is anticipated to substitute traditional methods for resistance gene identification. Thus, the current challenge is to extract the relevant information from the large amount of generated data.read more
Citations
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Posted ContentDOI
Using the NCBI AMRFinder Tool to Determine Antimicrobial Resistance Genotype-Phenotype Correlations Within a Collection of NARMS Isolates
Michael Feldgarden,Brover,Daniel H. Haft,Arjun B. Prasad,Douglas J. Slotta,Igor Tolstoy,Gregory H. Tyson,Shaohua Zhao,Chih-Hao Hsu,Patrick F. McDermott,Daniel A. Tadesse,Cesar A. Morales,Mustafa Simmons,Glenn E. Tillman,Jamie L. Wasilenko,Jason P. Folster,William Klimke +16 more
TL;DR: A database of 4,579 acquired antimicrobial resistance genes, the largest publicly available, and a software tool to identify genes in bacterial genomes, AMRFinder are described, which appears to be a highly accurate AMR gene detection system.
Journal ArticleDOI
Diversity of mutations in regulatory genes of resistance-nodulation-cell division efflux pumps in association with tigecycline resistance in Acinetobacter baumannii.
Stefanie Gerson,Jennifer Nowak,Esther Zander,Julia Ertel,Yurong Wen,Oleg Krut,Oleg Krut,Harald Seifert,Paul G. Higgins +8 more
TL;DR: This study provides an insight into the different mechanisms associated with tigecycline resistance using a genomic approach and points out the importance of considering adeRS and adeN as markers for tigECYcline-resistant A. baumannii isolates.
Journal ArticleDOI
Diversity and Population Overlap between Avian and Human Escherichia coli Belonging to Sequence Type 95
Steffen Jørgensen,Marc Stegger,Marc Stegger,Egle Kudirkiene,Berit Lilje,Louise Ladefoged Poulsen,Troels Ronco,Teresa Pires dos Santos,Kristoffer Kiil,Magne Bisgaard,Karl Pedersen,Lisa K. Nolan,Lance B. Price,Rikke Heidemann Olsen,Paal Skytt Andersen,Paal Skytt Andersen,Henrik Christensen +16 more
TL;DR: It is demonstrated that multiple lineages of ExPEC belonging to ST95 exist, of which the majority may cause infection in humans, while only part of the ST95 cluster seem to be avian pathogenic, further support the idea that urinary tract infections may be a zoonotic infection.
Journal ArticleDOI
Novel Aminoglycoside Resistance Transposons and Transposon-Derived Circular Forms Detected in Carbapenem-Resistant Acinetobacter baumannii Clinical Isolates
Nabil Karah,Chinmay Kumar Dwibedi,Karin Sjöström,Petra Edquist,Anders Johansson,Sun Nyunt Wai,Bernt Eric Uhlin +6 more
TL;DR: Two classical point mutations were responsible for resistance to quinolones in all the isolates and a number of circular forms related to the IS26 or ISAba125 composite transposons were detected, indicating a potential role of these circular forms in the dissemination of antibiotic resistance genes.
Journal ArticleDOI
WGS Analysis and Interpretation in Clinical and Public Health Microbiology Laboratories: What Are the Requirements and How Do Existing Tools Compare?
Kelly L. Wyres,Thomas C. Conway,Saurabh Garg,Carlos Queiroz,Matthias Reumann,Kathryn E. Holt,Laura Irina Rusu +6 more
TL;DR: To fully realise the potential of WGS analyses for clinical and public health microbiology laboratories of all scales, tools will need to be developed specifically with the needs of these laboratories in mind.
References
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Journal ArticleDOI
Multilocus Sequence Typing of Total-Genome-Sequenced Bacteria
Mette Voldby Larsen,Salvatore Cosentino,Simon Rasmussen,Carsten Friis,Henrik Hasman,Rasmus L. Marvig,Lars Jelsbak,Thomas Sicheritz-Pontén,David W. Ussery,Frank Møller Aarestrup,Ole Lund +10 more
TL;DR: A Web-based method for MLST of 66 bacterial species based on whole-genome sequencing data that enables investigators to determine the sequence types of their isolates on the basis of WGS data.
Journal ArticleDOI
Molecular genetics of aminoglycoside resistance genes and familial relationships of the aminoglycoside-modifying enzymes.
TL;DR: A preliminary assessment of the amino acids which may be important in binding aminoglycosides was obtained from data and from the results of mutational analysis of several of the genes encoding am inoglycoside-modifying enzymes.
Journal ArticleDOI
Acquired Antibiotic Resistance Genes: An Overview
Angela H.A.M. van Hoek,Dik Mevius,Dik Mevius,Beatriz Guerra,Peter Mullany,Adam P. Roberts,Henk Aarts +6 more
TL;DR: Attention is paid to mobile genetic elements such as plasmids, transposons, and integrons, which are associated with AR genes, and involved in the dispersal of antimicrobial determinants between different bacteria.
Journal ArticleDOI
Staphylococcus aureus CC398: Host Adaptation and Emergence of Methicillin Resistance in Livestock
Lance B. Price,Marc Stegger,Henrik Hasman,Maliha Aziz,Jesper Larsen,Paal Skytt Andersen,Talima Pearson,Andrew E. Waters,Jeffrey T. Foster,James M. Schupp,John D. Gillece,Elizabeth M. Driebe,Cindy M. Liu,Cindy M. Liu,Burkhard Springer,Irena Zdovc,Antonio Battisti,Alessia Franco,Jacek Żmudzki,Stefan Schwarz,Patrick Butaye,Eric Jouy,Constança Pomba,M. Concepción Porrero,Raymond Ruimy,Tara C. Smith,D. Ashley Robinson,J. Scott Weese,Carmen Sofia Arriola,Fangyou Yu,Frédéric Laurent,Paul Keim,Paul Keim,Robert Skov,Frank Møller Aarestrup +34 more
TL;DR: The results strongly suggest that livestock-associated MRSA CC398 originated in humans as MSSA, which appears to have undergone a rapid radiation in conjunction with the jump from humans to livestock, where it subsequently acquired tetracycline and methicillin resistance.
Journal ArticleDOI
Comparison of antimicrobial resistance phenotypes and resistance genes in Enterococcus faecalis and Enterococcus faecium from humans in the community, broilers, and pigs in Denmark.
TL;DR: Differences in the occurrence of resistance and tetracycline resistance genes were observed among isolates from the different sources, however, similar resistance patterns and resistant genes were detected frequently indicating that transmission of resistant enterococci or resistance genes takes place between humans, broilers, and pigs.
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