title: Selection of unique Escherichia coli clones by random amplified polymorphic DNA (RAPD): Evaluation by whole genome sequencing.
abstract: Identifying and characterizing clonal diversity are important when analysing fecal flora. We evaluated random amplified polymorphic DNA (RAPD) PCR, applied for selection of Escherichia coli isolates, by whole genome sequencing. RAPD was fast, and reproducible as screening method for selection of distinct E. coli clones in fecal swabs.
authors.affiliation: Department of Clinical Microbiology, Hvidovre Hospital, 2640 Hvidovre, Denmark; Department of Microbiology and Infection Control, Statens Serum Institut, 2300 Copenhagen S, Denmark. Electronic address: KTE@ssi.dk.
authors.forename: Karen L
authors.initials: KL
authors.lastname: Nielsen
authors.affiliation: Genome Sequencing and Analysis Program, Broad Institute of Harvard and Massachusetts Institute of Technology, Cambridge, MA, USA.
authors.forename: Paul A
authors.initials: PA
authors.lastname: Godfrey
authors.affiliation: Department of Microbiology and Infection Control, Statens Serum Institut, 2300 Copenhagen S, Denmark.
authors.forename: Marc
authors.initials: M
authors.lastname: Stegger
authors.affiliation: Department of Microbiology and Infection Control, Statens Serum Institut, 2300 Copenhagen S, Denmark.
authors.forename: Paal S
authors.initials: PS
authors.lastname: Andersen
authors.affiliation: Genome Sequencing and Analysis Program, Broad Institute of Harvard and Massachusetts Institute of Technology, Cambridge, MA, USA.
authors.forename: Michael
authors.initials: M
authors.lastname: Feldgarden
authors.affiliation: Department of Clinical Microbiology, Hvidovre Hospital, 2640 Hvidovre, Denmark.
authors.forename: Niels
authors.initials: N
authors.lastname: Frimodt-Møller
mesh_terms: D004926:Escherichia coli / Q000145:classification / Q000235:genetics* / Q000302:isolation & purification; D004927:Escherichia coli Infections / Q000382:microbiology; D005243:Feces / Q000382:microbiology; D016680:Genome, Bacterial; D059014:High-Throughput Nucleotide Sequencing; D058889:Molecular Typing / Q000379:methods; D019105:Random Amplified Polymorphic DNA Technique; D015203:Reproducibility of Results
keywords: Escherichia coli; Fecal flora; Molecular typing; Urinary tract infection; Whole-genome sequencing