Fig. 1

a Neighbour-joining tree of 180 E. faecium genomes used in this study. BAPS clusters 1, 2, 3 and 4 are inferred BAPS groups that all contained invasive isolates. The pie charts for BAPS groups 1, 2, 3 and 4 contain 13, 87, 26 and 26 isolates, respectively. The BAPS groups were on average 4797.97 SNPs apart. The average pairwise SNP distance for isolates within BAPS1, 2, 3 and 4 were 3.97, 2.13, 2.86 and 1.30, respectively. The BAPS run columns correspond to clustering results with five and ten values for the estimated numbers of clusters in the hierBAPS analysis. Each colour signifies one group. BAPS groups 1, 2, 3 and 4, which contained invasive isolates, were inferred with both parameter sets. The root of the tree is the midpoint of the two most distant taxa in the collection. Frequency of isolates based on patient (b) and source of isolation (c) across four BAPS groups