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Genomic epidemiology, antimicrobial resistance and virulence factors of Enterobacter cloacae complex causing potential community-onset bloodstream infections in a tertiary care hospital of Nepal.

Published version
Peer-reviewed

Type

Article

Change log

Authors

Manandhar, Sulochana 
Nguyen, Quynh 
Nguyen Thi Nguyen, To 
Pham, Duy Thanh 
Rabaa, Maia A 

Abstract

OBJECTIVES: Community-onset bloodstream infections (BSIs) caused by carbapenemase-producing Enterobacter cloacae complex (ECC) species are increasing internationally. This observation suggests that ECC are emerging pathogens, requiring for detailed understanding on their genomic epidemiology including transmission dynamics and antimicrobial resistance profiles. PATIENTS AND METHODS: We performed WGS on 79 Enterobacter spp. isolated from the patients with clinically significant BSIs and admitted to emergency department of a major tertiary hospital in Nepal between April 2016 and October 2017. RESULTS: We identified 5 species and 13 STs of ECC. Enterobacter xiangfangensis ST171, one of the globally emerging carbapenem resistant ECC clones with epidemic potential, was the most prevalent (42%). Phylogenetic analysis showed a large (>19 400 SNPs) core genome SNP distance across major STs, which was minimal (<30 SNPs) among the isolates of each prevalent ST, suggesting the relatively recent importation of major STs followed by local clonal expansions. Genomic evidence for resistance to all major antimicrobial classes except for colistin and macrolides was detected. A limited number of isolates also carried bla NDM-1 (n = 2) and bla OXA-48 (n = 1) carbapenemase genes. Virulence factors encoding siderophores (24%), T6SSD (25%) and fimbriae (54%) were detected. CONCLUSIONS: Our study highlighted that MDR ECC clones are important pathogens of BSIs in community. Though of low prevalence, carbapenem resistance observed in our ECC isolates raised concern about further community dissemination, underscoring the need for community surveillance to identify MDR ECC clones with epidemic potential.

Description

Keywords

3207 Medical Microbiology, 32 Biomedical and Clinical Sciences, 3202 Clinical Sciences, Antimicrobial Resistance, Emerging Infectious Diseases, Clinical Research, Biodefense, Infectious Diseases, Sepsis, Hematology, Infection

Journal Title

JAC Antimicrob Resist

Conference Name

Journal ISSN

2632-1823
2632-1823

Volume Title

4

Publisher

Oxford University Press (OUP)
Sponsorship
Royal Society (100087/14/Z)
Oak Foundation (AK OCAY-15-547)
Wellcome Trust (100087)