Plasmid-encoded insertion sequences promote rapid adaptation in clinical enterobacteria

The genomic sequences found in this project were generated to study the evolution of clinical enterobacteria bearing the carbapenem resistance plasmid pOXA-48 in multiple assays. The samples analyzed during this study were recovered from hospitalized patients in the Ramon y Cajal University Hospital in Madrid, during the R-GNOSIS project. We performed an experimental evolution (EE), as well as the study of within-patient adaptation of clinical enterobacteria, to show the potential role of plasmid-encoded insertion sequences in promoting bacterial evolution. The samples contain sequences of E. coli, K. pneumoniae and C. freundii genomes.Specifically, the project includes the whole genome sequencing of: i) original strains recovered (reference ancestral strains of the EE); ii) evolved populations and clones of the EE; iii) samples sequenced after a fluctuation assay testing the IS transposition rate; iv) reference strains of the within-patient analysis.