Fig. 3

Comparison of the genomes from A. salmonicida subsp. pectinolytica strain 34mel and from A. salmonicida subsp. salmonicida strain A449. a Mummer-based genome alignment. Red dots/lines indicate matches in forward orientation, blue dots/lines matches in reverse orientation. Colored arrows indicate genome inversions. b Schematic representation of the 5 Mb genome from strain 34mel (thick line) with each black box representing a 200 kb region. Small arrowheads with uppercase letters represent the 10 rRNA operons. Those responsible for the 4 Mb inversion (A and I) are indicated by green coloring and dashed bent arrows. Four transposon-triggered inversions are indicated by bent arrows (small inversions not drawn to scale, further details in Fig. 4a-d. Two serial overlapping inversions are indicated. The first inversion (labeled “1”, indicated by red arrows and by the long red line with an arrowhead indicating reverse orientation) was partially re-inverted by a subsequent inversion (labeled “2”, indicated by blue arrows). The re-inverted section is represented by the purple long line, forward orientation is indicated by the arrowhead. c Schematic representation of rRNA operons A and I with the adjacent four protein-coding genes in strains 34mel and A449. Identical color indicates highly conserved sequences. The inverse relationship of the inner genes is obvious