Genomic and phylogenetic analysis of a multidrug-resistant Klebsiella pneumoniae ST15 strain co-carrying blaOXA-232 and blaCTX-M-15 recovered from a gallbladder infection in China

Abstract

Objectives: The occurrence of OXA-232-producing carbapenem-resistant Klebsiella pneumoniae (CRKP) has been increasing in China during the last five years. The blaOXA-232-carrying CRKP strain's clonal propagation can readily lead to nosocomial epidemics. Here, we report the genome sequence of an OXA-232 and CTX-M-15 co-producing K. pneumoniae strain isolated from a gallbladder infection in China. Methods: The genome sequence of K. pneumoniae S105 was determined using the Illumina NovaSeq 6000 platform. Antimicrobial resistance genes (ARGs), multilocus sequence typing (MLST) and plasmid replicons were identified using the BacWGSTdb server. The phylogenetic relationship between S105 and other K. pneumoniae strains was analysed using the core genome multilocus sequence typing (cgMLST) strategy. Results: The genomic sequence of K. pneumoniae S105 is made up of 111 contigs with a total length of 5 748 752 bp. According to the Pasteur MLST scheme, S105 belongs to sequence type (ST) 15. Fifteen ARGs were discovered in the genome, including the beta-lactam resistance genes blaOXA-232 and blaCTX-M-15. The blaOXA-232 gene was located in a ColKP3 plasmid. KL112 was anticipated to be the capsule and lipopolysaccharide serotype. A total of 73 phylogenetically related strains were found from 19 nations across four continents; 22 of them were from China, with 21 strains harbouring the blaOXA-232 gene, and the majority of them diverged by just 6–37 cgMLST alleles. Conclusion: In summary, we reported the genomic sequencing of a K. pneumoniae ST15 clinical strain co-carrying the blaOXA-232 and blaCTX-M-15 genes. The clonal dissemination of OXA-232-producing K. pneumoniae ST15 strains in China needs our attention.

Keywords

• Klebsiella pneumoniae
• Phylogenetic analysis
• blaOXA-232
• blaCTX-M-15
• ST15