Transposable elements are driving rapid adaptation of Enterococcus faecium
Bacterial genomic datasets compiled for this study Several bacterial genomic datasets were compiled for this study, and different selections of these datasets were used, as appropriate, for the analyses described herein. We refer to these datasets as: ‘NCBI complete genomes’, ‘NCBI long-read assemblies’, ‘NCBI short-read E. faecium assemblies’, ‘SHC long-read Enterococcus isolates’ and ‘SHC long-read metagenomes’….