Fig. 4: Enterococcus faecium strains compared between patients.
From: Rare transmission of commensal and pathogenic bacteria in the gut microbiome of hospitalized adults
a Alignment average nucleotide Identity (ANI) based tree of E. faecium MAGs. MAGs identified as E. faecium, medium quality or above and at least 75% the mean length of the reference genomes are included. Several reference genomes are included and labeled with an asterisk. Two clades containing samples from multiple patients are highlighted for further comparison. Alignment values used to construct this tree can be found in Supplementary Data 10. b, c Heatmaps showing pairwise popANI values calculated with inStrain for clades B and C, respectively. Color scale ranges from 99.99–100% popANI and is in log space to highlight the samples with high popANI. Cells in the heatmap above the transmission threshold of 99.999% popANI are labeled. Four groups containing samples from multiple patients with popANI values above the transmission threshold are highlighted on the top of the heatmaps. Source Data for this figure are provided in Supplementary Data 9 and 10.
