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
Complete Nucleotide Sequence of an Escherichia coli Sequence Type 410 Strain Carrying blaNDM-5 on an IncF Multidrug Resistance Plasmid and blaOXA-181 on an IncX3 Plasmid
Søren Overballe-Petersen,Louise Roer,Kim Lee Ng,Frank Hansen,Ulrik Stenz Justesen,Leif P. Andersen,Marc Stegger,Anette M. Hammerum,Henrik Hasman +8 more
TL;DR: Using Nanopore sequencing, an Escherichia coli sequence type 410 (ST410) strain with five closed plasmids is described, finding that E. coli isolates with both blaNDM-5 and blaOXA-181 carbapenemases are rare.
Journal ArticleDOI
LA-MRSA CC398 in Dairy Cattle and Veal Calf Farms Indicates Spillover From Pig Production
Julie Elvekjær Hansen,Troels Ronco,Marc Stegger,Raphael N. Sieber,Mette Ely Fertner,Henrik Læssøe Martin,Michael Farre,Nils Toft,Anders Rhod Larsen,Karl Pedersen +9 more
TL;DR: Danish cattle represent a low prevalence reservoir of LA-MRSA CC398, which at present, is not of major human health concern.
Journal ArticleDOI
Dissemination and Characteristics of a Novel Plasmid-Encoded Carbapenem-Hydrolyzing Class D β-Lactamase, OXA-436, Found in Isolates from Four Patients at Six Different Hospitals in Denmark.
Ørjan Samuelsen,Frank Hansen,Bettina Aasnæs,Henrik Hasman,Bjarte Aarmo Lund,Hanna-Kirsti S. Leiros,Berit Lilje,Jessin Janice,Lotte Jakobsen,Pia Littauer,Lillian Marie Søes,Barbara Juliane Holzknecht,Leif P. Andersen,Marc Stegger,Marc Stegger,Paal Skytt Andersen,Paal Skytt Andersen,Paal Skytt Andersen,Anette M. Hammerum +18 more
TL;DR: OxA-436 is a novel CHDL with functional properties similar to those of OXA-48-like CHDLs, and the described geographical spread among different Enterobacteriaceae and the plasmid location of blaOXA- 436 illustrate its potential for further dissemination.
Journal ArticleDOI
Characterization and Prevalence of Campylobacter spp. From Broiler Chicken Rearing Period to the Slaughtering Process in Eastern China.
Yuanyue Tang,Qidong Jiang,Haiyan Tang,Zhenyu Wang,Yi Yin,Fangzhe Ren,Linghua Kong,Xinan Jiao,Jinlin Huang +8 more
TL;DR: A high prevalence of Campylobacter is observed during the early chicken meat production, and further studies will be needed to investigate the diversity and transmission of Campyobacter in the poultry production chain.
Metagenome-assembled genomes and gene catalog from the chicken gut microbiome aid in deciphering antibiotic resistomes.
TL;DR: Feng et al. as mentioned in this paper constructed a gene catalog consisting of 16.6 million genes by integrating 799 public chicken gut microbiome samples from ten countries and found that 893 and 38 metagenome-assembled genomes in their dataset were putative novel species and genera, respectively.
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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