Genome analyses of blaNDM-4 carrying ST 315 Escherichia coli isolate from sewage water of one of the Indian hospitals

Abstract

BackgroundEmergence of carbapenem resistant Escherichia coli pathovars and their environmental dissemination are alarming problems. E. coli isolated from sewage water of hospital setting conferred a high resistance towards β-lactams, particularly towards carbapenem. This prompted us to perform whole genome sequence analysis to investigate the antimicrobial determinants, pathogenicity status and mobile genetic elements associated with resistance genes.ResultsTo the best of our knowledge this is the first report of ST 315 carrying NDM-4 from India. The genome analysis has revealed the unknown characteristics associated with this sequence type (ST 315) like resistance and virulence factors. Based on virulence markers, its pathotype was identified as ExPEC. Furthermore, a mobile plasmid with multiple β-lactamases genes and clinically relevant resistance markers was detected. Phylogenetic analysis of Inc F plasmids sequences carrying ESBLs and NDM variants, revealed un-relatedness in these plasmids due to their varying size and backbone sequences.ConclusionsPresence of carbapenem resistant E. coli ST 315 with high level antibiotic resistance, near hospital environment is an alarming situation in context to its spread. WGS based analyses have provided details on virulence and resistance status which could overcome the lack of information available on ST 315, globally. This could further help in its quick detection and control in clinical settings.Electronic supplementary materialThe online version of this article (10.1186/s13099-018-0247-8) contains supplementary material, which is available to authorized users.

Metagenomic Insight into Microbiome and Antibiotic Resistance Genes of High Clinical Concern in Urban and Rural Hospital Wastewater of Northern India Origin: a Major Reservoir of Antimicrobial Resistance

“…hospital wastewater (HWW-1), but due to lack of surveillance at other sites of study, this is the first time that we are reporting the presence of bla NDM-1 in HWW-2, HWW-4, HWW-5, and HWW-6 ( Fig. 6A to C ) ( 34 – 36 ). bla NDM-1 often spreads through plasmid-mediated horizontal gene transfer (HGT) ( 37 ), and in this study, bla NDM-1 was predicted to be harbored by plasmid in HWW-2.…”

First Report of Enteroaggregative E. Coli Harbouring NDM-4 and NDM-7 From Asymptomatic Children in India

“…NDM-4 has a single amino acid substitution (Met154Leu) while NDM-7 has double mutations [(Asp130 Asn) and (Met154Leu)], all of these mutations have been con rmed to increase the carbapenemase activity (2). Till now, only sporadic isolations of carbapenem resistant Enterobacteriaceae (CRE) carrying NDM-4 and NDM-7 variants have been reported from patients admitted to ICUs, and hospital sewage mainly from Asian countries (3)(4)(5).…”