High prevalence of multiple antibiotic resistance in clinical E. coli isolates from Bangladesh and prediction of molecular resistance determinants using WGS of an XDR isolate

Abstract

Multi-drug-resistance (MDR) is a severe public health concern worldwide, and its containment is more challenging in developing countries due to poor antimicrobial resistance (AMR) surveillance and irrational use of antibiotics. The current study investigated 100 clinical E. coli isolates and revealed that 98% of them were MDR. PCR analysis using 25 selected isolates showed the predominance of metallo-β-lactamase gene blaNDM (80%) and ESBL genes blaOXA (48%) and blaCTX-M-15 (32%). The AmpC gene was detected in 68% of the isolates, while 32% was tetC positive. Notably, 34% of the isolates were resistant to carbapenem. Whole genome sequence (WGS) analysis of an extensively drug-resistant (XDR) isolate (L16) revealed the presence of the notorious sequence type 131 responsible for multi-drug-resistant infections, multiple antibiotic resistance genes (ARGs), virulence genes, and mobile genetic elements that pose risks to environmental transmission. Our results indicate that MDR is alarmingly increasing in Bangladesh that critically limits the treatment option against infections and contributes to further aggravation to the prevailing situation of MDR worldwide. The findings of this study will be valuable in designing sustainable strategies to contain MDR in the region.

Comparative genomics of four lactic acid bacteria identified with Vitek MS (MALDI-TOF) and whole-genome sequencing

“…Because, recently, the European Food Safety Authority (EFSA) has suggested inspecting whole genomes of lactic acid bacteria due to several safety concerns such as antibiotic resistance genes and virulence factors. Therefore, genes belonging to some antimicrobial resistant mechanisms such as “antibiotic target modifying enzyme”, “gene conferring resistance via absence”, and “protein-altering cell wall charge conferring antibiotic resistance”, were identified (Jain et al 2021 ). Bacteria had most probiotic potency-related genes which indicate their potential as a probiotic candidate.…”

First report of coexistence of blaKPC-2 and blaNDM-1 in carbapenem-resistant clinical isolates of Klebsiella aerogenes in Brazil

“…The ramA , acrR , acrA and acrB genes, and MFS_MMR_MDR-like gene were found to be associated with MITEEc. MITEEc belongs to the IS630 family and was found in an extensively drug-resistant (XDR) Escherichia coli isolate ( Jain et al, 2021 ). RamA belongs to the AraC/XylS protein family and shows a close association with the marA and soxS proteins ( Rosenblum et al, 2011 ).…”

Phenotypic and Genotypic Characterization of Extended Spectrum Beta‐Lactamase‐Producing Clinical Isolates of Escherichia coli and Klebsiella pneumoniae in Two Kenyan Facilities: A National Referral and a Level Five Hospital

“…The occurrence and transmission of antimicrobial-resistant strains of commensal and pathogenic bacteria have significantly hampered global efforts to mitigate infectious diseases [ 31 , 32 ]. The World Health Organisation (WHO) report shows there are insufficient data to guide policy formulation and recommendations on antimicrobial resistance (AMR), especially in Africa [ 33 ].…”