Fig. 3

Distribution of the pan-genome on a phylogenetic tree for some key taxa. The phylogenetic tree was based on the tree found using the core genome. The green and black values indicate the number of genes acquired and lost, respectively, for the specific branch using the parsimonious Dollo model. The branch lengths represent the total number of genes acquired or lost. The three functional categories for which genes are the most affected for branches 1 and 2 are indicated. For more details on the analysis of the functional categories see Additional file 1. For A. salmonicida subsp. salmonicida the strain used was 01-B526