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Genomic Characterization of MDR Escherichia coli Harboring blaOXA-48 on the IncL/M-type Plasmid Isolated from Blood

S Alousi1, T Salloum1, H Arabaghian1

  • 1Department of Natural Sciences, School of Arts & Sciences, Lebanese American University, Byblos, Lebanon.

Biomed Research International
|July 28, 2018
PubMed

Insights

This study details the genomic analysis of an OXA-48 and CTX-M-3 producing Escherichia coli strain (EC-IMP153) from Lebanon. The findings highlight its multidrug resistance and ST-405 lineage, crucial for understanding pathogen spread.

Area of Science:

  • Microbiology
  • Genomics
  • Infectious Diseases

Background:

  • Extraintestinal pathogenic Escherichia coli (E. coli) infections are a significant public health concern.
  • The rise of multidrug-resistant (MDR) E. coli, particularly those producing extended-spectrum beta-lactamases (ESBLs), poses a major clinical challenge.
  • OXA-48 and CTX-M-3 are critical carbapenemase and ESBL enzymes, respectively, conferring resistance to important antibiotics.

Purpose of the Study:

  • To perform a comprehensive genomic characterization of an OXA-48 and CTX-M-3 co-producing E. coli isolate (EC-IMP153).
  • To identify the genetic basis of antibiotic resistance and understand the phylogenetic context of the isolate.
  • To provide insights into the emergence and dissemination of MDR E. coli in Lebanon.

Main Methods:

  • Whole-genome sequencing (WGS) and initial assembly to determine genome size and contig number.
  • Phylogenetic analysis using whole-genome single nucleotide polymorphisms (wgSNPs) compared to public E. coli genomes.
  • In silico and experimental plasmid analysis to identify resistance gene-carrying plasmids.

Main Results:

  • The E. coli isolate EC-IMP153 genome consisted of 146 contigs (5,504,170 bp, 50.5% G+C content).
  • EC-IMP153 belongs to Sequence Type 405 (ST-405) and carries multiple resistance genes (blaOXA-48, blaCTX-M-3, blaTEM-1B, blaOXA-1, blaCMY-70, fyuA, aac(3)IId, tet(A), tet(R), gyrA, parC, mfd).
  • Multiple plasmid incompatibility groups (IncI1-α, IncL, IncW, Col(BS512), IncF) were detected, carrying resistance determinants.

Conclusions:

  • This is the first in-depth genomic analysis of an OXA-48 producing E. coli ST-405 from a bloodstream infection in Lebanon.
  • The isolate possesses a significant MDR profile, including ESBL and carbapenemase genes, posing a threat to patient treatment.
  • Continuous genomic surveillance is essential to track the spread of such MDR pathogens, especially considering regional population movements.

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