title: Sequence diversity of the OprD protein of environmental Pseudomonas strains.
abstract: OprD has been widely described for Pseudomonas aeruginosa at both structural and functional levels. Here, we describe the sequence diversity of the OprD proteins from other fluorescent Pseudomonads. We analysed the sequence of the oprD gene in each of the 49 Pseudomonas isolates, mostly putida and fluorescens species, obtained from various environmental sources, including soil, rhizosphere and hospitals. Phylogeny based on OprD sequences distinguished three well-separated clusters in the P. fluorescens species whereas P. putida isolates formed only one cluster. The OprD sequences were generally well conserved within each cluster whereas on the opposite, they were highly variable from one cluster to another and particularly with regards to the cluster of P. aeruginosa. Predicted secondary structures, based on the topological model elaborated for P. aeruginosa, suggest signatures in the large extracellular loops of OprD, which are linked to the OprD-based clusters. Correlations between these OprD-based clusters and ecological niches, growth on various carbon sources and antibiotic sensitivity were investigated.
authors.affiliation: LMDF (Laboratoire de Microbiologie du Froid), UPRES 2123, Université de Rouen, 55, rue St Germain 27000 Evreux, France. sylvie.chevalier@univ-rouen.fr
authors.forename: Sylvie
authors.initials: S
authors.lastname: Chevalier
authors.forename: Josselin
authors.initials: J
authors.lastname: Bodilis
authors.forename: Thomas
authors.initials: T
authors.lastname: Jaouen
authors.forename: Sylvie
authors.initials: S
authors.lastname: Barray
authors.forename: Marc G J
authors.initials: MG
authors.lastname: Feuilloley
authors.forename: Nicole
authors.initials: N
authors.lastname: Orange
mesh_terms: D000595:Amino Acid Sequence; D004269:DNA, Bacterial / Q000032:analysis; D004783:Environmental Microbiology; D014644:Genetic Variation; D006761:Hospitals; D008969:Molecular Sequence Data; D018517:Plant Roots / Q000382:microbiology; D018272:Porins / Q000235:genetics*; D011549:Pseudomonas / Q000145:classification* / Q000235:genetics / Q000254:growth & development / Q000302:isolation & purification; D011550:Pseudomonas aeruginosa / Q000145:classification / Q000235:genetics / Q000254:growth & development / Q000302:isolation & purification; D017422:Sequence Analysis, DNA; D012988:Soil Microbiology
chemical_list: D004269:DNA, Bacterial; D018272:Porins; C077157:OprD protein, Pseudomonas aeruginosa