title: Genomes analysis and bacteria identification: The use of overlapping genes as molecular markers.
abstract: The growing number of available microbial genomes offers the possibility to identify features that could be used for identification. In this work, the possibility to exploit overlapping genes to develop a simple PCR based method of identification, was explored. Using the Burkholderia cepacia complex as a model, genomic analyses were performed to check the phylogenetic distribution of an overlap between marC and hisH genes and then, a PCR specific for Burkholderia was designed, set up and tested on a panel of strains and on DNA extracted from the sputum of cystic fibrosis patients. Results obtained revealed the usefulness of this approach, which could then be used to develop PCR for the identification of specific bacteria species or genera.
authors.affiliation: Department of Biology, University of Florence, Via Madonna del Piano 6, I-50019 Sesto F.no, Florence, Italy. Electronic address: elena.perrin@unifi.it.
authors.forename: Elena
authors.initials: E
authors.lastname: Perrin
authors.affiliation: Department of Biology, University of Florence, Via Madonna del Piano 6, I-50019 Sesto F.no, Florence, Italy. Electronic address: marco.fondi@unifi.it.
authors.forename: Marco
authors.initials: M
authors.lastname: Fondi
authors.affiliation: Department of Biology, University of Florence, Via Madonna del Piano 6, I-50019 Sesto F.no, Florence, Italy. Electronic address: isabel.maida@unifi.it.
authors.forename: Isabel
authors.initials: I
authors.lastname: Maida
authors.affiliation: Department of Biology, University of Florence, Via Madonna del Piano 6, I-50019 Sesto F.no, Florence, Italy. Electronic address: alessio.mengoni@unifi.it.
authors.forename: Alessio
authors.initials: A
authors.lastname: Mengoni
authors.affiliation: CRA-ABP Consiglio per la ricerca in agricoltura e l'analisi dell'economia agraria, Centro di ricerca per l'Agrobiologia e la Pedologia, Piazza M. D'Azeglio 30, 50121 Firenze, FI, Italy. Electronic address: carolina.chiellini@entecra.it.
authors.forename: Carolina
authors.initials: C
authors.lastname: Chiellini
authors.affiliation: CRA-ABP Consiglio per la ricerca in agricoltura e l'analisi dell'economia agraria, Centro di ricerca per l'Agrobiologia e la Pedologia, Piazza M. D'Azeglio 30, 50121 Firenze, FI, Italy. Electronic address: stefano.mocali@entecra.it.
authors.forename: Stefano
authors.initials: S
authors.lastname: Mocali
authors.affiliation: Department of Paediatric Medicine, Anna Meyer Children's University Hospital, Viale G. Pieraccini, 24, 50141 Florence, Italy. Electronic address: p.cocchi@meyer.it.
authors.forename: Priscilla
authors.initials: P
authors.lastname: Cocchi
authors.affiliation: Department of Paediatric Medicine, Anna Meyer Children's University Hospital, Viale G. Pieraccini, 24, 50141 Florence, Italy. Electronic address: s.campana@meyer.it.
authors.forename: Silvia
authors.initials: S
authors.lastname: Campana
authors.affiliation: Department of Paediatric Medicine, Anna Meyer Children's University Hospital, Viale G. Pieraccini, 24, 50141 Florence, Italy. Electronic address: g.taccetti@meyer.it.
authors.forename: Giovanni
authors.initials: G
authors.lastname: Taccetti
authors.affiliation: Ghent University, Laboratory of Bacteriology Research, De Pintelaan 185 BA-3/4, 9000 Ghent, Belgium. Electronic address: Mario.Vaneechoutte@UGent.be.
authors.forename: Mario
authors.initials: M
authors.lastname: Vaneechoutte
authors.affiliation: Department of Biology, University of Florence, Via Madonna del Piano 6, I-50019 Sesto F.no, Florence, Italy. Electronic address: renato.fani@unifi.it.
authors.forename: Renato
authors.initials: R
authors.lastname: Fani
mesh_terms: D019121:Burkholderia Infections / Q000175:diagnosis / Q000382:microbiology; D042602:Burkholderia cepacia complex / Q000235:genetics / Q000302:isolation & purification; D003550:Cystic Fibrosis / Q000382:microbiology; D004269:DNA, Bacterial / Q000235:genetics*; D005807:Genes, Overlapping / Q000235:genetics*; D005819:Genetic Markers / Q000235:genetics*; D016680:Genome, Bacterial / Q000235:genetics*; D006801:Humans; D058889:Molecular Typing / Q000379:methods*; D016133:Polymerase Chain Reaction
chemical_list: D004269:DNA, Bacterial; D005819:Genetic Markers
keywords: Burkholderia cepacia complex; Genomes; Identification; Overlapping genes; marC–hisH