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Open AccessArticle

Molecular Typing, Characterization of Antimicrobial Resistance, Virulence Profiling and Analysis of Whole-Genome Sequence of Clinical Klebsiella pneumoniae Isolates

1
Central Research Institute of Epidemiology, Novogireevskaya str., 3a, 111123 Moscow, Russia
2
National Medical and Surgical Center named after N.I. Pirogov, Nizhnyaya Pervomayskaya str., 70, 105203 Moscow, Russia
3
Pirogov Russian National Research Medical University, Ostrovitianova str., 1, 117997 Moscow, Russia
*
Author to whom correspondence should be addressed.
The authors contributed equally.
Received: 15 April 2020 / Revised: 12 May 2020 / Accepted: 15 May 2020 / Published: 17 May 2020
(This article belongs to the Special Issue Gram-Negative Bloodstream Infections)
Klebsiella pneumoniae is one of the most important pathogens concerned with multidrug resistance in healthcare-associated infections. The treating of infections caused by this bacterium is complicated due to the emergence and rapid spreading of carbapenem-resistant strains, which are associated with high mortality rates. Recently, several hypervirulent and carbapenemase-producing isolates were reported that make the situation even more complicated. In order to better understand the resistance and virulence mechanisms, and, in turn, to develop effective treatment strategies for the infections caused by multidrug-resistant K. pneumoniae, more comprehensive genomic and phenotypic data are required. Here, we present the first detailed molecular epidemiology report based on second and third generation (long-read) sequencing for the clinical isolates of K. pneumoniae in the Russian Federation. The data include three schemes of molecular typing, phenotypic and genotypic antibiotic resistance determination, as well as the virulence and plasmid profiling for 36 K. pneumoniae isolates. We have revealed 2 new multilocus sequence typing (MLST)-based sequence types, 32 multidrug-resistant (MDR) isolates and 5 colistin-resistant isolates in our samples. Three MDR isolates belonged to a very rare ST377 type. The whole genome sequences and additional data obtained will greatly facilitate further investigations in the field of antimicrobial resistance studies. View Full-Text
Keywords: Enterobacteriaceae; antibiotic resistance; whole-genome sequencing; genomic epidemiology Enterobacteriaceae; antibiotic resistance; whole-genome sequencing; genomic epidemiology
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MDPI and ACS Style

Shelenkov, A.; Mikhaylova, Y.; Yanushevich, Y.; Samoilov, A.; Petrova, L.; Fomina, V.; Gusarov, V.; Zamyatin, M.; Shagin, D.; Akimkin, V. Molecular Typing, Characterization of Antimicrobial Resistance, Virulence Profiling and Analysis of Whole-Genome Sequence of Clinical Klebsiella pneumoniae Isolates. Antibiotics 2020, 9, 261. https://0-doi-org.brum.beds.ac.uk/10.3390/antibiotics9050261

AMA Style

Shelenkov A, Mikhaylova Y, Yanushevich Y, Samoilov A, Petrova L, Fomina V, Gusarov V, Zamyatin M, Shagin D, Akimkin V. Molecular Typing, Characterization of Antimicrobial Resistance, Virulence Profiling and Analysis of Whole-Genome Sequence of Clinical Klebsiella pneumoniae Isolates. Antibiotics. 2020; 9(5):261. https://0-doi-org.brum.beds.ac.uk/10.3390/antibiotics9050261

Chicago/Turabian Style

Shelenkov, Andrey; Mikhaylova, Yulia; Yanushevich, Yuri; Samoilov, Andrei; Petrova, Lyudmila; Fomina, Valeria; Gusarov, Vitaly; Zamyatin, Mikhail; Shagin, Dmitriy; Akimkin, Vasiliy. 2020. "Molecular Typing, Characterization of Antimicrobial Resistance, Virulence Profiling and Analysis of Whole-Genome Sequence of Clinical Klebsiella pneumoniae Isolates" Antibiotics 9, no. 5: 261. https://0-doi-org.brum.beds.ac.uk/10.3390/antibiotics9050261

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