Comparison of genotypic features between two groups of antibiotic resistant Klebsiella pneumoniae clinical isolates obtained before and after the COVID-19 pandemic from Egypt

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Gameleldin, Pansee, Alseqely, Mustafa, Evans, Benjamin A. ORCID: https://orcid.org/0000-0001-6849-9758, Omar, Hoda and Abouelfetouh, Alaa (2024) Comparison of genotypic features between two groups of antibiotic resistant Klebsiella pneumoniae clinical isolates obtained before and after the COVID-19 pandemic from Egypt. BMC Genomics, 25. ISSN 1471-2164

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Abstract

Klebsiella pneumoniae is a common pathogen capable of causing a wide range of infections. Antibiotic resistance complicates treatment of these infections significantly. We are comparing resistance levels and genotypes among two collections of K. pneumoniae clinical isolates from Alexandria Main University Hospital (AMUH). We used disc diffusion and Minimum Inhibitory Concentration (MIC) by microbroth dilution to assess resistance levels and performed whole genome sequencing (WGS) to describe multilocus sequence types (MLST) and resistance gene presence. Among a collection of 56 K. pneumoniae clinical isolates (19 from 2019 to 37 from 2021), multidrug resistance (MDR) was 33% and 10%, extended drug resistance (XDR) was 24% and 46% and pan-drug resistance (PDR) was 43% and 43%, respectively. We identified 15 MLST STs including two novel types (ST-6118 and ST-6119 ). ST-101 and ST-383 were common between the two collections; ST-101 was the most common genotype in 2019 (28.6%) and ST-147 was most common in 2021 (25%). Ampicillin/sulbactam, amikacin, cefepime, ceftriaxone and ertapenem MICs were significantly higher in 2021. Prevalence of aph(3’) – Ia, aph(3’)-VI, mphA was significantly higher in 2021. The increasing resistance levels and the persistence of some MDR/XDR genotypes is concerning. Understanding mechanisms of resistance will inform infection control and antimicrobial stewardship plans to prevent evolution and spread of XDR and PDR strains.

Item Type: Article
Additional Information: Data availability statement: Genome assemblies and raw sequence data from SRA were deposited in NCBI’s Assembly database under BioProject accession number PRJNA1071125. https://www.ncbi.nlm.nih.gov/bioproject/PRJNA1071125. Funding information: The whole genome sequencing work was made possible by funding from the UEA Vice-Chancellor’s Global Challenges Research Fellowship.
Uncontrolled Keywords: carbapenem resistance,esbls,multi-locus sequence typing (mlst),multidrug resistance (mdr),whole-genome sequencing (wgs),biotechnology,genetics ,/dk/atira/pure/subjectarea/asjc/1300/1305
Faculty \ School: Faculty of Medicine and Health Sciences > Norwich Medical School
UEA Research Groups: Faculty of Medicine and Health Sciences > Research Groups > Pathogen Biology Group
Faculty of Medicine and Health Sciences > Research Groups > Gastroenterology and Gut Biology
Faculty of Medicine and Health Sciences > Research Centres > Metabolic Health
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Depositing User: LivePure Connector
Date Deposited: 05 Dec 2024 01:31
Last Modified: 13 Dec 2024 01:38
URI: https://ueaeprints.uea.ac.uk/id/eprint/97900
DOI: 10.1186/s12864-024-10661-z

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