title: High density whole genome fingerprinting of methicillin-resistant and -susceptible strains of Staphylococcus aureus in search of phenotype-specific molecular determinants.
abstract: AFLP is a selective restriction fragment amplification method generating DNA fingerprints for microbial isolates. We present high-throughput AFLP (htAFLP) to characterize molecular markers associated with bacterial phenotypes. Methicillin-resistant and -susceptible isolates of Staphylococcus aureus have been used for this model study in conjunction with the available S. aureus genome sequences. This facilitates the calculation of theoretical AFLP fingerprints, comparison of these fingerprints with genuine experimental fingerprints, and the subsequent identification of polymorphic AFLP markers without sequence analysis. Analysis of 46 MRSA and 46 MSSA strains by 39 different AFLP reactions generated more than 2500 fragments per strain and an overall number of 6180 scorable markers within all strains. We successfully identify MRSA specific markers and elaborate on the general applicability of the htAFLP approach. This method can be applied to any microbial species for which at least one full-genome sequence is available.
authors.affiliation: VU University Medical Center, Department of Medical Microbiology & Infection Control, De Boelelaan 1117, 1081 HV Amsterdam, The Netherlands. p.savelkoul@vumc.nl
authors.forename: Paul H M
authors.initials: PH
authors.lastname: Savelkoul
authors.forename: Damian C
authors.initials: DC
authors.lastname: Melles
authors.forename: Nico
authors.initials: N
authors.lastname: Buffing
authors.forename: Roy
authors.initials: R
authors.lastname: Gorkink
authors.forename: Guus
authors.initials: G
authors.lastname: Simons
authors.forename: Alex
authors.initials: A
authors.lastname: van Belkum
mesh_terms: D015373:Bacterial Typing Techniques; D016172:DNA Fingerprinting / Q000379:methods; D004269:DNA, Bacterial; D024881:Drug Resistance, Bacterial; D005819:Genetic Markers; D016680:Genome, Bacterial; D008712:Methicillin / Q000494:pharmacology; D016106:Methicillin Resistance / Q000235:genetics*; D010641:Phenotype; D013203:Staphylococcal Infections / Q000453:epidemiology / Q000382:microbiology; D013211:Staphylococcus aureus / Q000145:classification / Q000187:drug effects / Q000235:genetics*
chemical_list: D004269:DNA, Bacterial; D005819:Genetic Markers; D008712:Methicillin