title: Phenylethynylpyrene-labeled oligonucleotide probes for excimer fluorescence SNP analysis of 23S rRNA gene in clarithromycin-resistant Helicobacter pylori strains.
abstract: The use of phenylethynylpyrene excimer forming pair in the design of specific fluorescent probes for determination of A2144G (A2143G and/or A2143C) mutations in 23S rRNA gene of Helicobacter pylori is described. Analysis of fluorescence spectra of model duplexes revealed optimal positions of fluorophore residues in the probe sequences for maximum efficiency of SNP detection. Application of excimer forming probes for analysis of DNA samples isolated from natural bacterial strains of H. pylori was demonstrated.
authors.affiliation: Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry, Miklukho-Maklaya 16/10, Moscow 117997, Russia.
authors.forename: Igor A
authors.initials: IA
authors.lastname: Prokhorenko
authors.forename: Andrei D
authors.initials: AD
authors.lastname: Malakhov
authors.forename: Anna A
authors.initials: AA
authors.lastname: Kozlova
authors.forename: Kuvat
authors.initials: K
authors.lastname: Momynaliev
authors.forename: Vadim M
authors.initials: VM
authors.lastname: Govorun
authors.forename: Vladimir A
authors.initials: VA
authors.lastname: Korshun
mesh_terms: D001483:Base Sequence; D017291:Clarithromycin / Q000494:pharmacology; D004269:DNA, Bacterial / Q000235:genetics; D024881:Drug Resistance, Bacterial / Q000235:genetics; D005456:Fluorescent Dyes / Q000737:chemistry; D005798:Genes, Bacterial; D016480:Helicobacter pylori / Q000187:drug effects / Q000235:genetics*; D008969:Molecular Sequence Data; D015394:Molecular Structure; D015345:Oligonucleotide Probes / Q000737:chemistry / Q000235:genetics; D017354:Point Mutation; D020641:Polymorphism, Single Nucleotide; D011721:Pyrenes / Q000737:chemistry; D012329:RNA, Bacterial / Q000235:genetics*; D012338:RNA, Ribosomal, 23S / Q000235:genetics*; D013050:Spectrometry, Fluorescence
chemical_list: D004269:DNA, Bacterial; D005456:Fluorescent Dyes; D015345:Oligonucleotide Probes; D011721:Pyrenes; D012329:RNA, Bacterial; D012338:RNA, Ribosomal, 23S; D017291:Clarithromycin