Whole Genome Sequencing of an Extensively Drug-Resistant Raoultella planticola Isolate Containing bla(KPC-2), bla(NDM-1), and bla(CTX-M-15)

Raoultella planticola harboring genes that confer resistance to antimicrobials, such as carbapenems, have been associated with severe infections in immunocompromised patients. In this study, we reported the first whole genome sequence of a Brazilian isolate of R. planticola and the genomic context of antibiotic resistance markers. By whole-genome sequencing (WGS) of a carbapenem-resistant R. planticola isolate, RpHUM1, we found 23 resistance-encoding genes belonging to 9 classes of antibiotics (aminoglycosides, & beta;-lactams, fluoroquinolones, fosfomycin, macrolides, phenicols, sulfonamides, tetracycline, and diaminopyrimidine derivatives) and 3 plasmids (RpHUM1pEaer-4382s, RpHUM1_pFDAARGOS_440, and RpHUM1pRSF1010). This isolate coharbored the genes bla(KPC-2), which is carried by the plasmid RpHUM1pEaer-4382s, and bla(NDM-1) and bla(CTX-M-15) all located in the accessory genome. In addition, these genes were associated with, at least, one mobile genetic element. This comprehensive knowledge is of great importance for implementation of control measures to prevent the rapid dissemination of this neglected microorganism and their genetic resistance background.

Automated summary

In this study, the whole genome sequence of a Brazilian isolate of R. planticola and the genomic context of antibiotic resistance markers were reported. The isolate coharbored multiple antibiotic resistance genes, including bla(KPC-2), bla(NDM-1), and bla(CTX-M-15), which were associated with plasmids and mobile genetic elements. This comprehensive knowledge is crucial for implementing control measures against the rapid dissemination of this neglected microorganism and its genetic resistance background.