title: Phylogeny of the genus Pseudomonas: intrageneric structure reconstructed from the nucleotide sequences of gyrB and rpoD genes.
abstract: Phylogenetic analysis of the genus Pseudomonas: was conducted by using the combined gyrB and rpoD nucleotide sequences of 31 validly described species of Pseudomonas: (a total of 125 strains). Pseudomonas: strains diverged into two major clusters designated intrageneric cluster I (IGC I) and intrageneric cluster II (IGC II). IGC I was further split into two subclusters, the 'P: aeruginosa complex', which included P: aeruginosa, P: alcaligenes, P: citronellolis, P: mendocina, P: oleovorans and P: pseudoalcaligenes, and the 'P: stutzeri complex', which included P: balearica and P: stutzeri. IGC II was further split into three subclusters that were designated the 'P: putida complex', the 'P: syringae complex' and the 'P: fluorescens complex'. The 'P: putida complex' included P: putida and P: fulva. The 'P: syringae complex' was the cluster of phytopathogens including P: amygdali, P: caricapapayae, P: cichorii, P: ficuserectae, P: viridiflava and the pathovars of P. savastanoi and P. syringae. The 'P. fluorescens complex' was further divided into two subpopulations, the 'P. fluorescens lineage' and the 'P. chlororaphis lineage'. The 'P. fluorescens lineage' contained P. fluorescens biotypes A, B and C, P. azotoformans, P. marginalis pathovars, P. mucidolens, P. synxantha and P. tolaasii, while the 'P. chlororaphis lineage' included P. chlororaphis, P. agarici, P. asplenii, P. corrugata, P. fluorescens biotypes B and G and P. putida biovar B. The strains of P. fluorescens biotypes formed a polyphyletic group within the 'P. fluorescens complex'.
authors.affiliation: Marine Biotechnology Institute, Kamaishi Laboratories, Kamaishi City, Iwate 026, Japan1.
authors.forename: Satoshi
authors.initials: S
authors.lastname: Yamamoto
authors.affiliation: Marine Biotechnology Institute, Kamaishi Laboratories, Kamaishi City, Iwate 026, Japan1.
authors.forename: Hiroaki
authors.initials: H
authors.lastname: Kasai
authors.affiliation: Centre for Research in Plant Science, Faculty of Applied Sciences, University of the West of England, Coldharbour Lane, Bristol BS16 1QY, UK2.
authors.forename: Dawn L
authors.initials: DL
authors.lastname: Arnold
authors.affiliation: Centre for Research in Plant Science, Faculty of Applied Sciences, University of the West of England, Coldharbour Lane, Bristol BS16 1QY, UK2.
authors.forename: Robert W
authors.initials: RW
authors.lastname: Jackson
authors.affiliation: Centre for Research in Plant Science, Faculty of Applied Sciences, University of the West of England, Coldharbour Lane, Bristol BS16 1QY, UK2.
authors.forename: Alan
authors.initials: A
authors.lastname: Vivian
authors.affiliation: Marine Biotechnology Institute, Kamaishi Laboratories, Kamaishi City, Iwate 026, Japan1.
authors.forename: Shigeaki
authors.initials: S
authors.lastname: Harayama
mesh_terms: D001483:Base Sequence; D027081:DNA Gyrase; D004250:DNA Topoisomerases, Type II / Q000235:genetics*; D012321:DNA-Directed RNA Polymerases / Q000235:genetics*; D005798:Genes, Bacterial; D008969:Molecular Sequence Data; D010802:Phylogeny; D016133:Polymerase Chain Reaction / Q000379:methods; D011549:Pseudomonas / Q000145:classification / Q000235:genetics*; D012808:Sigma Factor / Q000235:genetics*
chemical_list: D012808:Sigma Factor; C081775:RNA polymerase sigma 70; D012321:DNA-Directed RNA Polymerases; D027081:DNA Gyrase; D004250:DNA Topoisomerases, Type II