title: Recognition of two genetic groups in the Klebsiella oxytoca taxon on the basis of chromosomal beta-lactamase and housekeeping gene sequences as well as ERIC-1 R PCR typing.
abstract: Whilst searching for a molecular method to identify the different species of Raoultella and Klebsiella oxytoca, it was observed that the OXY-1 and OXY-2 beta-lactamase-producing K. oxytoca isolates displayed two distinguishable enterobacterial repetitive intergenic consensus (ERIC)-1R profiles. It was hypothesized that the two groups of chromosomal beta-lactamases might correspond to two groups of strains in the K. oxytoca taxon. To confirm this hypothesis, clinical isolates and reference strains of K. oxytoca were studied by determination of the sequence of their bla(OXY) genes, and of a partial fragment of their 16S rRNA (387 bp) and rpoB (512 bp) genes. The sequence data were phylogenetically analysed by using the parsimony method. Four clinical isolates possessed a bla(OXY-1) gene and nine possessed a bla(OXY-2) gene. The mean percentage of rpoB and 16S rRNA gene identity was > 99% within each group of strains, whereas it was 96.56 +/- 0.24% for rpoB genes and 97.80 +/- 0.22% for 16S rRNA genes between the group of strains harbouring the bla(OXY-1) gene and the group harbouring the bla(OXY-2) gene. The phylogenetic tree resulting from combined analysis of the 16S rRNA and rpoB datasets showed that the K. oxytoca isolates were monophyletic and separated into two clades; these clades included strains with either the bla(OXY-1) gene or the bla(OXY-2) gene. This result was supported with high bootstrap values of 97 and 99%, respectively. Moreover, the two groups of strains displayed distinct ERIC-1R profiles, with bands characteristic of each profile. Thus, the chromosomal bla(OXY) gene sequence is able to delineate not only two groups of beta-lactamases in K. oxytoca, but also two clades in the K. oxytoca taxon, in a manner similar to the sequence of housekeeping genes. These results suggest that K. oxytoca should be divided into two genetic groups, group OXY-1 represented by K. oxytoca strain SL781 (=CIP 104963) and group OXY-2 by K. oxytoca strain SL91l (= CIP 106098).
authors.affiliation: Laboratoire de Microbiologie Médicale, Fondation Hôpital Saint-Joseph, Paris, France.|Service de Microbiologie-Hygiène, Hôpital Ambroise Paré AP-HP, Université Versailles-Saint-Quentin-en-Yvelines-UFR Médicale Paris-Ile-de-France-Ouest, 9 avenue Charles de Gaulle, 92100 Boulogne-Billancourt, France.
authors.forename: Sophie A
authors.initials: SA
authors.lastname: Granier
authors.affiliation: Centre de Biologie et d'Ecologie Tropicale et Méditerranéenne, UMR 5555, Université de Perpignan, France.
authors.forename: Laetitia
authors.initials: L
authors.lastname: Plaisance
authors.affiliation: Service de Microbiologie-Hygiène, Hôpital Ambroise Paré AP-HP, Université Versailles-Saint-Quentin-en-Yvelines-UFR Médicale Paris-Ile-de-France-Ouest, 9 avenue Charles de Gaulle, 92100 Boulogne-Billancourt, France.
authors.forename: Véronique
authors.initials: V
authors.lastname: Leflon-Guibout
authors.affiliation: Service de Microbiologie, Centre Hospitalier du Pays d'Aix, Aix en Provence, France.
authors.forename: Evelyne
authors.initials: E
authors.lastname: Lagier
authors.affiliation: Centre de Biologie et d'Ecologie Tropicale et Méditerranéenne, UMR 5555, Université de Perpignan, France.
authors.forename: Serge
authors.initials: S
authors.lastname: Morand
authors.affiliation: Laboratoire de Microbiologie Médicale, Fondation Hôpital Saint-Joseph, Paris, France.
authors.forename: Fred W
authors.initials: FW
authors.lastname: Goldstein
authors.affiliation: Service de Microbiologie-Hygiène, Hôpital Ambroise Paré AP-HP, Université Versailles-Saint-Quentin-en-Yvelines-UFR Médicale Paris-Ile-de-France-Ouest, 9 avenue Charles de Gaulle, 92100 Boulogne-Billancourt, France.
authors.forename: Marie-Hélène
authors.initials: MH
authors.lastname: Nicolas-Chanoine
mesh_terms: D015373:Bacterial Typing Techniques; D002876:Chromosomes, Bacterial / Q000235:genetics; D021901:DNA, Intergenic / Q000032:analysis; D004275:DNA, Ribosomal / Q000032:analysis; D012321:DNA-Directed RNA Polymerases / Q000235:genetics*; D020459:Genes, rRNA; D006801:Humans; D041121:Klebsiella oxytoca / Q000145:classification* / Q000235:genetics*; D008969:Molecular Sequence Data; D010802:Phylogeny; D016133:Polymerase Chain Reaction / Q000379:methods*; D012336:RNA, Ribosomal, 16S / Q000235:genetics*; D012091:Repetitive Sequences, Nucleic Acid; D017422:Sequence Analysis, DNA; D013045:Species Specificity; D001618:beta-Lactamases / Q000235:genetics*
chemical_list: D021901:DNA, Intergenic; D004275:DNA, Ribosomal; D012336:RNA, Ribosomal, 16S; D012321:DNA-Directed RNA Polymerases; C105078:RNA polymerase beta subunit; D001618:beta-Lactamases