Genomic characterization of a carbapenem-resistant Klebsiella quasipneumoniae subsp. quasipneumoniae harboring blaNDM-1 from Costa Rica
Abstract
Klebsiella quasipneumoniae has been associated with severe infections and can harbor antimicrobial resistance genes, including carbapenemases. This species is indistinguishable from K. pneumoniae using conventional clinical microbiology methods; therefore, its true prevalence remains unknown. This study aimed to characterize the genome of a carbapenem-resistant, NDM-1-producing Klebsiella quasipneumoniae subsp. quasipneumoniae (KQPN) isolate recovered from Costa Rica and to place it within an international phylogenomic context. Whole-genome sequencing assigned the isolate to ST3028 and confirmed the presence of blaNDM-1. The contig harboring this carbapenemase was assigned to a putative IncC plasmid and showed high identity with IncC plasmids previously described in NDM-1-producing K. pneumoniae isolates from Costa Rica. Phylogenomic analysis of publicly available KQPN genomes revealed a genetically diverse population covering multiple continents and sequence types, with blaNDM-1 distributed across different genetic backgrounds. Our findings contribute to a better understanding of the circulation and genomic epidemiology of antimicrobial resistance in KQPN and support the surveillance of carbapenem-resistant Klebsiella in Latin America.
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