Phenotypic versus genotypic distances. A) Dot plot of pairwise distances between strains. Dots represent all 666 possible pairs of distinct strains, in color if the pair of strains corresponds to co-occurrence in phenotypic class I (pink), II (green) or III (yellow), and in white otherwise. Density of dots is highlighted by black to red colors and white density curves. x-axis: genetic distance computed as in Figure 1A. y-axis: phenotypic similarity. Every strain was associated to its coordinates along the first 28 principal components. Similarity between two strains was estimated by the Pearson correlation coefficient between the two vectors of coordinates associated to the strains. The two types of distances are not correlated (Spearman correlation between x and y values = −0.08). B) Position of strains from phenotypic classes I, II and III on the tree of genetic distances (same tree as in Figure 1A).