Open AccessRapid Resistome Fingerprinting and Clonal Lineage Profiling of Carbapenem-Resistant Klebsiella pneumoniae Isolates by Targeted Next-Generation Sequencing
Author(s) -
Fabio Arena,
Alex Rolfe,
Graeme Doran,
Viola Conte,
S Gruszka,
Thomas B. Clarke,
Yemi Adesokan,
Tommaso Giani,
Gian María Rossolini
Publication year - 2014
Publication title -
journal of clinical microbiology
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 2.349
H-Index - 255
eISSN - 1070-633X
pISSN - 0095-1137
DOI - 10.1128/jcm.03247-13
Subject(s) - klebsiella pneumoniae , biology , resistome , microbiology and biotechnology , dna profiling , dna sequencing , carbapenem , molecular epidemiology , minion , antibiotic resistance , computational biology , genetics , genotype , antibiotics , gene , nanopore sequencing , dna , escherichia coli , integron
Thirty-two carbapenem-resistantKlebsiella pneumoniae isolates, representative of different resistance mechanisms and clonal lineages, were analyzed with the Pathogenica HAI BioDetection system, based on targeted next-generation sequencing (NGS) technology. With most strains, the system simultaneously yielded comprehensive information on relevant β-lactam resistance determinants and accurate discrimination of clonal lineages, in a shorter time frame and in a less labor-intensive manner than currently available methods for molecular epidemiology analysis. Results supported the usefulness of targeted NGS-based technologies for similar applications.
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