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Neighbor-Joining phylogenetic tree for 64 Escherichia coli genomes based on PopPUNK lineage-model analysis of core genome SNPs as displayed by MicroReact.org. Legend indicates host and region of isolation; scale bar indicates tree distance. Inset is the cluster analysis for network relationships. New isolates from lame broilers are circled in the inset, and circled and labeled in the tree. Additional genome details are provided in Table S1.
