1. Plasmid diversity among genetically related Klebsiella pneumoniae bla KPC-2 and bla KPC-3 isolates collected in the Dutch national surveillance
- Author
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Hendrickx, APA, Landman, F, de Haan, A, Borst, D, Witteveen, S, van Santen-Verheuvel, MG, van der Heide, HGJ, Schouls, LM, Halaby, T, Steingrover, R, Stuart, JWTC, Melles, DC, Dijk, K, Spijkerman, IJB, Notermans, DW, Oudbier, JH, van Ogtrop, ML, Dam, A, den Reijer, M, Kluytmans, JAJW, van der Linden, MPG, Mattsson, EE, van der Vusse, M, Jong, EM, Maijer-Reuwer, A, van Trijp, M, van Griethuysen, AJ, Ott, A, Bathoorn, E, Sinnige, JC, Heikens, E, de Brauwer, EIGB, Stals, FS, Silvis, W, Dorigo-Zetsma, JW, Waar, K, van Mens, SP, Roescher, N, Voss, A, Wertheim, HFL, Slingerland, BCGC, Frenay, HME, Schulin, T, Diederen, BMW, Bode, Lonneke, Rijn, M, Dinant, S, Damen, M, de Man, P, Leversteijn-van Hall, MA, van Elzakker, EP, Muller, AE, Schneeberger, P, van Dam, DW, Buiting, AG, Vlek, ALM, Stam, A, Troelstra, A, Overdevest, ITMA, Bosboom, RW, Trienekens, TAM, Wolfhagen, MJ, Paltansing, S, Medical Microbiology and Infection Prevention, AII - Infectious diseases, Surgery, Medical Microbiology & Infectious Diseases, Experimental Immunology, Nursing, APH - Aging & Later Life, and APH - Health Behaviors & Chronic Diseases
- Subjects
0301 basic medicine ,DNA, Bacterial ,Klebsiella pneumoniae ,030106 microbiology ,lcsh:Medicine ,Virulence ,Biology ,Microbiology ,Article ,beta-Lactamases ,03 medical and health sciences ,Plasmid ,polycyclic compounds ,Humans ,Insertion sequence ,lcsh:Science ,Pathogen ,Netherlands ,Genetics ,Multidisciplinary ,Strain (biology) ,lcsh:R ,High-Throughput Nucleotide Sequencing ,biochemical phenomena, metabolism, and nutrition ,bacterial infections and mycoses ,biology.organism_classification ,Resistome ,Computational biology and bioinformatics ,Klebsiella Infections ,030104 developmental biology ,lcsh:Q ,Plasmidome ,Cation transport - Abstract
Carbapenemase-producingKlebsiella pneumoniaeemerged over the past decades as an important pathogen causing morbidity and mortality in hospitalized patients. For infection prevention and control, it is important to track the spread of bacterial strains in humans including the plasmids they contain. However, little is known concerning the plasmid repertoire amongK. pneumoniaestrains. Therefore, the major aim was to recapitulate the size, contents and diversity of the plasmids of genetically relatedK. pneumoniaestrains harboring the beta-lactamase geneblaKPC-2orblaKPC-3to determine their dissemination in the Netherlands and the former Dutch Caribbean islands from 2014-2019. Next-generation sequencing was combined with long-read third-generation sequencing to reconstruct 18 plasmids ofK. pneumoniae. wgMLST revealed five genetic clusters (termed KpnClusters) comprised ofK. pneumoniae blaKPC-2isolates and four clusters consisted ofblaKPC-3isolates. Each cluster was characterized by a distinct resistome and plasmidome. KpnCluster-019blaKPC-2isolates were found both in the Netherlands and the Caribbean islands.K. pneumoniae blaKPC-3isolates were found in the collection of the Netherlands. The 18 plasmids were mostly unrelated and varied betweenK. pneumoniae blaKPC-2andblaKPC-3clusters. However, the large and medium sized plasmids contained a variety of antibiotic resistance genes, transposons, insertion sequence elements, conjugal transfer systems, cation transport systems, toxin/antitoxin systems, and prophage-related sequence elements. The small plasmids carried genes implicated in virulence. Thus, implementing long-read plasmid sequencing analysis forK. pneumoniaesurveillance provided important insights in the success and understanding of transmission of a KpnCluster-019blaKPC-2strain between the Netherlands and the Caribbean.ImportanceCarbapenemase-producingKlebsiella pneumoniaehas spread globally and is of great concern for debilitated patients.K.pneumoniaeis notorious for spreading antimicrobial resistance genes by plasmids amongEnterobacterales. Combining short and long read sequencing enables reconstruction of plasmids containing antibiotic resistance genes, conjugation machinery, transposons, toxins and/or virulence determinants and thereby enhancing international pathogen surveillance.
- Published
- 2020