Genotypic characterization of multiple drug resistant Escherichia coli isolates from a pediatric cancer hospital in Egypt.

Scientific Reports
Reem HassanAhmed A Sayed

Abstract

Infection with multiple drug resistant (MDR) Escherichia coli poses a life threat to immunocompromised pediatric cancer patients. Our aim is to genotypically characterize the plasmids harbored in MDR E. coli isolates recovered from bacteremic patients of Children's Cancer Hospital in Egypt 57357 (CCHE 57357). In this study, 21 carbapenem-resistant E. coli (CRE) isolates were selected that exhibit Quinolones and Aminoglycosides resistance. Plasmid shot-gun sequencing was performed using Illumina next- generation sequencing platform. Isolates demonstrated resistant to all beta-lactams, carbapenems, aminoglycosides and quinolones. Of the 32 antimicrobial resistant genes identified that exceeded the analysis cutoff coverage, the highest represented genes were aph(6)-Id, sul2, aph(3″)-Ib, aph(3')-Ia, sul1, dfrA12, TEM-220, NDM-11. Isolates employed a wide array of resistance mechanisms including antibiotic efflux, antibiotic inactivation, antibiotic target replacements and antibiotic target alteration. Sequenced isolates displayed diverse insertion sequences, including IS26, suggesting dynamic reshuffling of the harbored plasmids. Most isolates carried plasmids originating from other bacterial species suggesting a possible horizonta...Continue Reading

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Citations

Aug 7, 2020·International Journal of Environmental Research and Public Health·Kar Hui OngKyaw Thu Aung
Apr 30, 2021·Frontiers in Microbiology·Zaira SeferbekovaOlga O Bochkareva
Oct 30, 2021·Journal of Global Antimicrobial Resistance·Yao ZhuWanjiang Zhang

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Methods Mentioned

BETA
glucosylation
prophylactic therapy
PCR

Software Mentioned

PlasmidFinder
circlize
PEAR
Virulence Finder
Rstudio
Fastp
ggplot2
QUAST
BayesHammer SPAdes
UniCycler

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