Abstract
The Pseudomonas syringae phylogenetic group comprises 15 recognized bacterial species and more than 60 pathovars. The classification and identification of strains is relevant for practical reasons but also for understanding the epidemiology and ecology of this group of plant pathogenic bacteria. Genome-based taxonomic analyses have been introduced recently to clarify the taxonomy of the whole genus. A set of 139 draft and complete genome sequences of strains belonging to all species of the P. syringae group available in public databases were analyzed, together with the genomes of closely related species used as outgroups. Comparative genomics based on the genome sequences of the species type strains in the group allowed the delineation of phylogenomic species and demonstrated that a high proportion of strains included in the study are misclassified. Furthermore, representatives of at least 7 putative novel species were detected. It was also confirmed that P. ficuserectae, P. meliae, and P. savastanoi are later synonyms of P. amygdali and that “P. coronafaciens” should be revived as a nomenspecies.
Highlights
The genus Pseudomonas is divided into two phylogenetic lineages (Pseudomonas aeruginosa and Pseudomonas fluorescens) based on inferred evolutionary relationships by using multilocus sequence analysis (MLSA) of four housekeeping genes (Mulet et al, 2010)
The genome sequences of the 15 species type strains so far described in the P. syringae phylogenetic group were included
The sequences of the genomes of the P. cichorii, P. viridiflava, P. congelans, and P. meliae type strains were studied in duplicate, i.e., two type strains from two different culture collections
Summary
The genus Pseudomonas is divided into two phylogenetic lineages (Pseudomonas aeruginosa and Pseudomonas fluorescens) based on inferred evolutionary relationships by using multilocus sequence analysis (MLSA) of four housekeeping genes (Mulet et al, 2010). The P. fluorescens lineage contains six phylogenetic groups, one of them represented by Pseudomonas syringae, and includes most of the phytopathogens within the genus Pseudomonas (Bull et al, 2010). In the Approved List of Bacterial Names (Skerman et al, 1980), three other species of phytopathogenic Pseudomonas were included: Pseudomonas cichorii (Stapp, 1928), Pseudomonas viridiflava (Burkholder, 1939), Pseudomonas caricapapayae (Robbs, 1956), and Pseudomonas amygdali (Psallidas and Panagopoulos, 1975). “Pseudomonas coronafaciens” (Schaad and Cunfer, 1979) was not included in the Approved List of Bacterial Names and is not recognized as a valid species name. Several other species closely related to P. syringae were proposed and validated: Pseudomonas
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