title: Phenotypic and genotypic characterization of phenanthrene-degrading fluorescent Pseudomonas biovars.
abstract: A total of 41 phenanthrene degraders were isolated from a former coal gasification site by using Pseudomonas-selective Gould's S1 medium. All isolates were found to belong to the fluorescent Pseudomonas group and were subjected to characterization by phenotypic methods, including classical taxonomic tests, API 20NE, and Biolog GN, and the strains were further characterized by the genotypic method repetitive extragenic palindromic PCR (REP-PCR). By using classical tests, the population was found to consist of 38 strains belonging to P. fluorescens, 2 P. putida strains, and 1 Pseudomonas sp. Bacteria in phenograms from Biolog GN and REP-PCR data were divided into groups, which were in good agreement with classical test and API 20NE results. We found a nonfluorescent group of 22 bacteria inconsistent with any Pseudomonas sp. in Bergey's Manual of Systematic Bacteriology. The group showed small differences in the genotypic test, indicating that all 22 isolates were not recent clones of the same isolate. Analyses of the nonfluorescent group indicated that it belonged to Pseudomonas, but the group could not be affiliated with P. fluorescens because of differences in DNA-DNA hybridization. Identifications using classical tests and API 20NE were found to correlate, but Biolog GN identifications after 24-h incubation resulted very often in the distantly related P. corrugata. The reproducibilities of individual tests of each phenotypic method were assessed, and low reproducibilities were mainly found to be associated with specific Biolog GN test wells. Classical tests and API 20NE proved to be the best for identification of isolates, whereas Biolog GN and REP-PCR were found to be the best tests for high resolution among these closely related isolates.
authors.affiliation: Department of Ecology and Molecular Biology, Royal Veterinary and Agricultural University, Frederiksberg C, Denmark. Kaare.Johnsen@ecol.kvl.dk
authors.forename: K
authors.initials: K
authors.lastname: Johnsen
authors.forename: S
authors.initials: S
authors.lastname: Andersen
authors.forename: C S
authors.initials: CS
authors.lastname: Jacobsen
mesh_terms: D015373:Bacterial Typing Techniques; D001673:Biodegradation, Environmental; D004269:DNA, Bacterial / Q000032:analysis; D005453:Fluorescence; D005838:Genotype; D010616:Phenanthrenes / Q000378:metabolism*; D010641:Phenotype; D016133:Polymerase Chain Reaction / Q000379:methods; D011549:Pseudomonas / Q000145:classification* / Q000235:genetics / Q000302:isolation & purification / Q000378:metabolism; D012988:Soil Microbiology
chemical_list: D004269:DNA, Bacterial; D010616:Phenanthrenes; C031181:phenanthrene