title: A set of PCRs for rapid identification and characterization of Pseudomonas syringae phylogroups.
abstract: OBJECTIVE
  The aim of this study was to develop a rapid PCR-based method for the specific detection of individual phylogroups of the Pseudomonas syringae complex.
  
  
  RESULTS
  Seven primer pairs were developed by analysing whole genomes of 54 Ps. syringae strains. The specificity and sensitivity of these primer pairs were assessed on 236 strains from a large and comprehensive Ps. syringae collection. The method was also validated by characterizing the phylogenetic diversity of 174 putative Ps. syringae isolates from kiwifruit and apricot orchards of southeastern France.
  
  
  CONCLUSIONS
  Our PCR-based method allows for the detection and characterization of nine of the 13 Ps. syringae phylogroups (phylogroups 1, 2, 3, 4, 7, 8, 9, 10 and 13).
  
  
  CONCLUSIONS
  To date, phylogenetic affiliation within the Ps. syringae complex was only possible by sequencing housekeeping genes. Here, we propose a rapid PCR-based method for the detection of specific phylogroups of the Ps. syringae complex. Furthermore, for the first time we reveal the presence of Ps. syringae strains belonging to phylogroups 10 and 13 as epiphytes on plants, whereas they had previously only been observed in aquatic habitats.
authors.affiliation: Unité de Pathologie Végétale, INRA, Montfavet, France.|IMBE, Université d'Avignon et des Pays de Vaucluse, UMR CNRS IRD Aix Marseille Université, Avignon, France.
authors.forename: B
authors.initials: B
authors.lastname: Borschinger
authors.affiliation: Laboratoire des Interactions Plantes-Microorganismes (LIPM), INRA, Castanet-Tolosan, France.|Laboratoire des Interactions Plantes-Microorganismes (LIPM), CNRS, Castanet-Tolosan, France.
authors.forename: C
authors.initials: C
authors.lastname: Bartoli
authors.affiliation: Unité de Pathologie Végétale, INRA, Montfavet, France.
authors.forename: C
authors.initials: C
authors.lastname: Chandeysson
authors.affiliation: Unité de Pathologie Végétale, INRA, Montfavet, France.
authors.forename: C
authors.initials: C
authors.lastname: Guilbaud
authors.affiliation: Unité de Pathologie Végétale, INRA, Montfavet, France.
authors.forename: L
authors.initials: L
authors.lastname: Parisi
authors.affiliation: Unité de Pathologie Végétale, INRA, Montfavet, France.
authors.forename: J F
authors.initials: JF
authors.lastname: Bourgeay
authors.affiliation: IMBE, Université d'Avignon et des Pays de Vaucluse, UMR CNRS IRD Aix Marseille Université, Avignon, France.
authors.forename: E
authors.initials: E
authors.lastname: Buisson
authors.affiliation: Unité de Pathologie Végétale, INRA, Montfavet, France.
authors.forename: C E
authors.initials: CE
authors.lastname: Morris
mesh_terms: D029042:Actinidia / Q000382:microbiology; D017931:DNA Primers / Q000235:genetics; D017753:Ecosystem; D005602:France; D010802:Phylogeny; D010935:Plant Diseases / Q000382:microbiology; D016133:Polymerase Chain Reaction / Q000379:methods*; D000068219:Prunus armeniaca / Q000382:microbiology; D044224:Pseudomonas syringae / Q000145:classification* / Q000235:genetics / Q000302:isolation & purification*
chemical_list: D017931:DNA Primers
keywords: microbial ecology; multiplex PCR; orchards; pathobiome; plant pathogen