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
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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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Journal ArticleDOI
Antimicrobial resistant enteric bacteria are widely distributed amongst people, animals and the environment in Tanzania
Murugan Subbiah,Mark A. Caudell,Mark A. Caudell,Colette Mair,Margaret A. Davis,Louise Matthews,Robert J. Quinlan,Marsha B. Quinlan,Beatus Lyimo,Joram Buza,Julius Keyyu,Douglas R. Call +11 more
TL;DR: It is found that livelihood factors are more strongly associated with AR prevalence than antibiotic use, demonstrating that to be effective, interventions need to accommodate different cultural practices and resource limitations.
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Prevalence and genetic analysis of mcr-3-positive Aeromonas species from humans, retail meat, and environmental water samples.
Yingbo Shen,Chunyan Xu,Qiaoling Sun,Stefan Schwarz,Yanran Ou,Lu Yang,Zi-Xian Huang,Inga Eichhorn,Timothy R. Walsh,Yang Wang,Rong Zhang,Jianzhong Shen +11 more
TL;DR: Diversity within the genetic environments of mcr-3-positive Aeromonas isolates and possible transmission between different sources in China and even worldwide are indicated.
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Porcine commensal Escherichia coli: a reservoir for class 1 integrons associated with IS26.
Cameron J. Reid,Ethan R. Wyrsch,Piklu Roy Chowdhury,Tiziana Zingali,Michael Liu,Aaron E. Darling,Toni A. Chapman,Steven P. Djordjevic +7 more
TL;DR: This study provides the first detailed genomic analysis and point of reference for commensal E. coli of porcine origin in Australia, facilitating tracking of specific lineages and the mobile resistance genes they carry.
Journal ArticleDOI
SSTAR, a Stand-Alone Easy-To-Use Antimicrobial Resistance Gene Predictor
Tom J. B. de Man,Brandi Limbago +1 more
TL;DR: The easy-to-use Sequence Search Tool for Antimicrobial Resistance, SSTAR, developed, combines a locally executed BLASTN search against a customizable database with an intuitive graphical user interface for identifying antimicrobial resistance (AR) genes from genomic data.
Journal ArticleDOI
Molecular epidemiology of Salmonella Infantis in Europe: insights into the success of the bacterial host and its parasitic pESI-like megaplasmid.
Patricia Alba,Pimlapas Leekitcharoenphon,Virginia Carfora,Roberta Amoruso,Gessica Cordaro,Paola Di Matteo,Angela Ianzano,Manuela Iurescia,Elena Lavinia Diaconu,Susanne Karlsmose Pedersen,Beatriz Guerra,Rene S. Hendriksen,Alessia Franco,Antonio Battisti +13 more
TL;DR: The European S. Infantis population appeared heterogeneous, with different genetic clusters defined at core-genome level, however, pESI-like variants present in 64.1 % of the isolates were more genetically homogeneous and capable of infecting different clonal lineages in most of the countries.
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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