Whole-genome sequencing of Egyptian multidrug-resistant Klebsiella pneumoniae isolates: a multi-center pilot study
| Autor: | Amani El-Kholy, Eman Elsayed, Aliaa Gamaleldin Aboulela, Radwa Ahmad Rabea Abdel-Latif, Caroline Mirande, Hadir A. El-Mahallawy, Hebat-Allah G Rashed, Alex van Belkum, May M. Sherif, Soheir Abdelrahman, Fadwa Abd-El-Reheem, Laila Yosef Saeed, Mattia Palmieri, Arwa Ramadan El-Manakhly |
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| Rok vydání: | 2020 |
| Předmět: |
0301 basic medicine
Microbiology (medical) medicine.medical_specialty Klebsiella pneumoniae 030106 microbiology Virulence Pilot Projects Biology Yersiniabactin 03 medical and health sciences chemistry.chemical_compound 0302 clinical medicine Antibiotic resistance Medical microbiology Drug Resistance Multiple Bacterial medicine Humans 030212 general & internal medicine Pathogen Phylogeny Whole genome sequencing Genetics Whole Genome Sequencing General Medicine biology.organism_classification Anti-Bacterial Agents Klebsiella Infections Infectious Diseases chemistry Multilocus sequence typing Egypt |
| Zdroj: | European journal of clinical microbiologyinfectious diseases : official publication of the European Society of Clinical Microbiology. 40(7) |
| ISSN: | 1435-4373 |
| Popis: | Multidrug-resistant (MDR) Klebsiella pneumoniae is a common infectious pathogen. We performed whole-genome sequencing (WGS) of 39 randomly selected, geographically diverse MDR K. pneumoniae from nine Egyptian hospitals. Clinical sources, phenotypic antibiotic resistance, and hyper-mucoviscosity were documented. WGS data were epidemiologically interpreted and tested for the presence of antibiotic resistance and virulence genes. Based on WGS data, we identified 18 classical multi-locus sequence types (MLST), the most common type being ST101 (23.1%) followed by ST147 (17.9%). Phylogenetic analyses identified small numbers of closely related isolates in a few of the centers, so we mostly documented independent nosocomial acquisition or import from public sources. The most common acquired resistance gene found was blaCTX-M-15, detected in 27 isolates (69.2%). Carbapenemase genes encountered were blaNDM-1 (n = 13), blaNDM-5 (n = 1), blaOXA-48 (n = 12), blaOXA-181 (n = 2), and blaKPC2 (n = 1). Seven strains (18%) contained more than a single carbapenemase gene. While searching for virulence-associated genes, sixteen wzi alleles were identified with wzi137, wzi64, and wzi50 most commonly found in ST101, ST147, and ST16, respectively. Yersiniabactin was the most common virulence factor (69.2%). Hyper-mucoviscosity was documented for 6 out of 39 isolates.This is the first genomic study of MDR K. pneumoniae from Egypt. The study revealed a clear spread of well-known international clones and their associated antimicrobial resistance and (hyper)virulence traits. The clinical situation in Egypt seems to reflect the scenario documented in many other countries and requires close attention. |
| Databáze: | OpenAIRE |
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