Phylogenomic analysis of CTX-M-15-producing Enterobacter hormaechei belonging to the high-risk ST78 from animal infection: Another successful One Health clone?

Elsevier

Available online 18 February 2022

Journal of Global Antimicrobial Resistance
doi.org/10.1016/j.jgar.2022.02.010Get rights and content

Highlights

ESBL-positive Enterobacter cloacae complex members are critical priority pathogens.

E. hormaechei belonging to sequence type (ST) ST78 is an emergent high-risk clone.

Phylogenomic data of an E. hormaechei ST78/CTX-M-15 infecting a calf is presented.

E. hormaechei carried a broad resistome and phylogenomic relatedness to human ST78.

The successful of E. hormaechei ST78 as a One Health clone is discussed.

ABSTRACT

Background

: Extended-spectrum β-lactamase (ESBL)-producing Enterobacter cloacae complex (ECC) members have been a leading cause of severe infections in hospital setting, being lately recognized as important pathogens for animals.

Objective

: To report phylogenomic data of a multidrug-resistant and CTX-M-15-positive E. hormaechei belonging to ST78 isolated from a calf with omphalitis.

Methods

: Genomic DNA was extracted and sequenced using the Illumina NextSeq platform. De novo assembly was performed by Unicycler and in silico prediction accomplished by curated bioinformatics tools. SNP-based comparative phylogenomic analysis was conducted by using publicly available ECC genomes belonging to ST78.

Results

: The genome size was calculated at 3,846,540 bp, comprising 4,717 total genes, 3 rRNAs, 43 tRNAs, 7 ncRNAs, and 74 pseudogenes. The animal-associated E. hormaechei (ECBEZ strain) ST78 harbored the blaCTX-M-15 ESBL gene, besides other critically important resistance genes conferring resistance to β-lactams, aminoglycosides, fosfomycin, phenicol, quinolones, sulphonamides, tetracyclines, and trimethoprim. Phylogenetic analysis revealed that ECBEZ is closely related to human-isolated strains from Asian and African countries.

Conclusion

: Phylogenomic analysis of CTX-M-15-producing E. hormaechei from animal infection reveals that ST78 is a successful One Health clone among ECC members. Furthermore, data presented in this study reinforce the urgent need to monitor ESBL-producing ECC members in veterinary settings.

Keywords

Enterobacterales

ESBL

dairy cattle

antimicrobial resistance

genomic surveillance

Brazil

© 2022 Published by Elsevier Ltd on behalf of International Society for Antimicrobial Chemotherapy.

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