Fig. 1

Phylogenetic tree showing the evolutionary relationships of the 21 strains with long-read assemblies. Tree reconstruction was based on a concatenated alignment of 4998 single-copy genes. Identical positions were omitted from the alignment providing an alignment of 105,591 nucleotide positions. A maximum likelihood approach was used to reconstruct the tree and a rapid bootstrap was calculated. All nodes had full support. Strains sequenced in this study are marked in bold. Strains are sorted into clades based on differences between branch lengths leading to the clades and internal branch lengths (see “Methods”)