Genomic analysis of a kpc-2-producing Klebsiella pneumoniae ST15 from argentina

2- D?AMICO GONZALEZ G; MASSÓ, MG; QUIROGA MARÍA PAULA

Congreso; Reunión Annual de Sociedades de Biociencias SAIC, SAI, SAIF 2020.; 2020

Sociedades de Biociencias SAIC, SAI, SAIF.

Theisolation of colistin and carbapenem resistant Klebsiella pneumoniae (CCR-Kp)is increasing in hospital settings worldwide, and is related to increasedmorbidity, mortality and health care costs. K. pneumoniae ST15 is a lesscommon Sequence Type than ST258 and ST11 nevertheless is also reported aroundthe globe as responsible for CaR-Kp outbreaks. The aim of this work was tocarry out the whole-genome sequencing (WGS), genomic and phylogenetic analysis ofa multidrug resistant (MDR) CCR-Kp from Argentina. The MDR CCR-Kp strain KpS26was isolated from a bloodstream infection at a hospital setting from CiudadAutónoma de Buenos Aires, in February 2020. WGS was carried out using IlluminaMiSeq-I with Nextera XT libraries. De novo assembly was carried out usingSPADES v.3.11. Contigs were re-ordered using the ST15 reference genome Klebsiellapneumoniae PMK1 (GenBank CP008929) and oriented with MAUVE Contig Mover.The coding regions were detected with the Rapid Annotations using SubsystemsTechnology (RAST) server. Multilocus sequence typing (MLST) was performed insilico using the MLST database and schema for K. pneumoniae at thePasteur MLST website. A maximum-likelihood tree was created with MEGA7 based oncore SNPs from whole-genome alignment obtained with SNP sites. The genomic, resistome,plasmids, IS and integrons content was analyzed with PathogenFinder, Resfinder,ISFinder, plasmid-SPAdes, PlasmidFinder and IntegronFinder. The KpS26 analysis revealeda genome of 5,815,319 bp (5342 CDS, 121 RNAs)of ST15. The Col(pHAD28), IncFIA(HI1),IncFIB(K), IncFII(K) and IncM1 plasmid replicons and 14 transferable associatedantimicrobial resistance genes (ARGs), including blaKPC-2, comprisingsix drug classes were detected. A class 1 integron with dfrA14 as wellas other gene cassettes were identified. The MDR CCR-Kp analyzed here showsthat ST15 disseminates blaKPC-2 in Argentina alongside otherantimicrobial resistance genes through Lateral Genetic Transfer.