title: Comparative analysis of different typing methods for Helicobacter pylori clinical isolates.
abstract: The goal of the present work was to compare different techniques of molecular typing using as an example clinical isolates of Helicobacter pylori obtained from patients in different regions of Russia. DNA-macroarray genome scanning using individual genes was employed to set up our basic classification of isolates that did or did not contain pathogenicity islands. In parallel, DNA of the same isolates was used in the conventional random amplified polymorphic DNA (RAPD) PCR analysis, and the isolates were also genotyped (cagA, vacA, iceA, and babA status) and their proteomic maps were obtained by means of unidimensional SDS polyacrylamide gel electrophoresis (1D-SDS-PAGE) coupled with identification using peptide mass fingerprinting by MALDI-TOF mass spectrometry. A statistically significant correlation (coefficient of correlation r = 0.25, p = 0.005) was observed between the results of genome scanning and 1D-SDS-PAGE. No correlation was found between RAPD-PCR typing and genome scanning.
authors.affiliation: Orekhovich Institute of Biomedical Chemistry, Russian Academy of Medical Sciences, Moscow, 119121, Russia. proteomics@ibmh.msk.su
authors.forename: V M
authors.initials: VM
authors.lastname: Govorun
authors.forename: P G
authors.initials: PG
authors.lastname: Lokhov
authors.forename: S A
authors.initials: SA
authors.lastname: Moshkovskii
authors.forename: K T
authors.initials: KT
authors.lastname: Momynaliev
authors.forename: O V
authors.initials: OV
authors.lastname: Selesnyova
authors.forename: L V
authors.initials: LV
authors.lastname: Kudryavtseva
authors.forename: M V
authors.initials: MV
authors.lastname: Serebryakova
authors.forename: O V
authors.initials: OV
authors.lastname: Tikhonova
authors.forename: E I
authors.initials: EI
authors.lastname: Goufman
authors.forename: A I
authors.initials: AI
authors.lastname: Archakov
mesh_terms: D015373:Bacterial Typing Techniques / Q000379:methods*; D004269:DNA, Bacterial / Q000032:analysis; D004591:Electrophoresis, Polyacrylamide Gel; D044404:Genomic Islands / Q000235:genetics; D016480:Helicobacter pylori / Q000145:classification* / Q000302:isolation & purification; D006801:Humans; D015336:Molecular Probe Techniques; D016133:Polymerase Chain Reaction; D040901:Proteomics; D019105:Random Amplified Polymorphic DNA Technique; D019032:Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization
chemical_list: D004269:DNA, Bacterial