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Dynamic Evolution of Pathogenicity Revealed by Sequencing and Comparative Genomics of 19 Pseudomonas syringae Isolates

Figure 2

The core- and pan-genome of P. syringae.

Collectively, P. syringae isolates share ∼50% of their ORFs with other pseudomonads. (A) The P. syringae core genome contains 3397 genes. (B) The P. syringae pan genome contains 12749 ORFs. (C) P. syringae, P. fluorescens, and P. putida share 2501 ORFs. P. syringae has the smallest core genome (3397) compared to P. fluorescens and P. putida (4422, 4034 respectively). P. fluorescens and P. putida share more genes with each other than either does with P. syringae. (D) Phylogenetic distribution of shared and clade/strain specific genes. Numbers on the earliest branch for each group indicate the size of the core (black) and pan (red) genomes for groups with multiple sequenced genomes (I, II, III), as well as the number of clade specific ORFs (blue, conserved within each group but absent from other groups). Internal branches display the number of ORFs gained, and shared by all genomes, after each branch bifurcation (see Methods). Numbers of ORFs within each genome absent from other strains within the relevant P. syringae group (black) and throughout the species (blue) are shown at the far right. Group I strains (including Pto DC3000) contain the largest number of shared ORFs and the smallest number of pan ORFs. Pja and Pla 107 have the smallest and the largest number of unique ORFs (88, 1507 respectively).

Figure 2

doi: https://doi.org/10.1371/journal.ppat.1002132.g002