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
Quantifying acquisition and transmission of Enterococcus faecium using genomic surveillance.
Theodore Gouliouris,Francesc Coll,Catherine Ludden,Beth Blane,Kathy E. Raven,Plamena Naydenova,Charles Crawley,M. E. Török,M. E. Török,David A Enoch,David A Enoch,Nicholas M. Brown,Nicholas M. Brown,Ewan M. Harrison,Ewan M. Harrison,Julian Parkhill,Sharon J. Peacock,Sharon J. Peacock,Sharon J. Peacock +18 more
TL;DR: It is shown that carriage and environmental contamination by the hospital-adapted E. faecium lineage were hyperendemic in the study population and that improved infection control measures will be needed to reduce hospital acquisition rates.
Journal ArticleDOI
Resistome of carbapenem- and colistin-resistant Klebsiella pneumoniae clinical isolates.
Sara Lomonaco,Matthew A. Crawford,Christine Lascols,Ruth Timme,Kevin Anderson,David R. Hodge,Debra J. Fisher,Segaran P. Pillai,Stephen A. Morse,Erum Khan,Molly A. Hughes,Marc W. Allard,Shashi Sharma +12 more
TL;DR: WGS data was used to characterize the genomic content of antimicrobial resistance genes, including those encoding carbapenemases, in 10 multidrug-resistant Klebsiella pneumoniae isolates from Pakistan to provide a more complete understanding of the global distribution of MDR isolates and a robust surveillance tool useful for detecting emerging threats to public health.
Journal ArticleDOI
Whole Genome Sequencing: Bridging One-Health Surveillance of Foodborne Diseases.
Peter Gerner-Smidt,John M. Besser,Jeniffer Concepción-Acevedo,Jason P. Folster,Jasmine Huffman,Lavin A. Joseph,Zuzana Kucerova,Megin Nichols,Colin Schwensohn,Beth Tolar +9 more
TL;DR: Using recent examples from outbreaks investigated in the United States, some aspects of One Health approaches that have been used successfully to solve such outbreaks are presented, including using different combinations of flexible WGS based case definition, efficient epidemiological follow-up, traceback, surveillance and testing of potential food and environmental sources and animal hosts.
Journal ArticleDOI
Unencapsulated Streptococcus pneumoniae from conjunctivitis encode variant traits and belong to a distinct phylogenetic cluster
Michael D. Valentino,Michael D. Valentino,Michael D. Valentino,Abigail Manson McGuire,Jason W. Rosch,Paulo J.M. Bispo,Paulo J.M. Bispo,Corinna Burnham,Christine M Sanfilippo,Christine M Sanfilippo,Robert A. Carter,Michael E. Zegans,Bernard Beall,Ashlee M. Earl,Elaine Tuomanen,Timothy W. Morris,Wolfgaang Haas,Wolfgaang Haas,Michael S. Gilmore,Michael S. Gilmore,Michael S. Gilmore +20 more
TL;DR: It is found that the vast majority of conjunctivitis strains are members of a distinct cluster of closely related unencapsulated strains that possess divergent forms of pneumococcal virulence factors that are not shared with other un encapsulated nasopharyngeal S. pneumoniae strains.
Journal ArticleDOI
Multihospital Occurrence of Pan-Resistant Klebsiella pneumoniae Sequence Type 147 with an ISEcp1-Directed blaOXA-181 Insertion in the mgrB Gene in the United Arab Emirates.
Agnes Sonnevend,Akela Ghazawi,Rayhan Hashmey,Aliasgher Haidermota,Safinaz Girgis,Mubarak Alfaresi,Mohammed Omar,David L. Paterson,David L. Paterson,Hosam M. Zowawi,Tibor Pál +10 more
TL;DR: A cluster of 9 pan-resistant K. pneumoniae sequence type 147 (ST147) isolates encountered in 4 patients over nearly 1 year in 3 hospitals of the United Arab Emirates show that this pan- resistant clone has an alarming capacity to maintain itself over an extended period of time and is even likely to be transmitted internationally.
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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