title: Efficient Discrimination of Single Nucleotide Polymorphisms (SNPs) Using Oligonucleotides Modified with C5-Pyrene-Functionalized DNA and Flanking Locked Nucleic Acid (LNA) Monomers.
abstract: Oligodeoxyribonucleotides modified with 5-[3-(1-pyrenecarboxamido)propynyl]-2'-deoxyuridine monomer X and proximal LNA monomers display higher affinity for complementary DNA, more pronounced increases in fluorescence emission upon DNA binding, and improved discrimination of SNPs at non-stringent conditions, relative to the corresponding LNA-free probes across a range of sequence contexts. The results reported herein suggest that the introduction of LNA monomers influences the position of nearby fluorophores via indirect conformational restriction, a characteristic that can be utilized to develop optimized fluorophore-labeled probes for SNP-discrimination studies.
authors.affiliation: Department of Chemistry, University of Idaho, 875 Perimeter Dr, MS 2343, Moscow, ID, 83844-2343, USA.
authors.forename: Mamta
authors.initials: M
authors.lastname: Kaura
authors.affiliation: Department of Chemistry, University of Idaho, 875 Perimeter Dr, MS 2343, Moscow, ID, 83844-2343, USA. Hrdlicka@uidaho.edu.
authors.forename: Patrick J
authors.identifier: 0000-0002-8113-0450
authors.initials: PJ
authors.lastname: Hrdlicka
mesh_terms: D004247:DNA / Q000737:chemistry*; D005453:Fluorescence; D005456:Fluorescent Dyes / Q000737:chemistry*; D009841:Oligonucleotides / Q000138:chemical synthesis / Q000737:chemistry*; D020641:Polymorphism, Single Nucleotide
chemical_list: D005456:Fluorescent Dyes; D009841:Oligonucleotides; C477371:locked nucleic acid; D004247:DNA
keywords: DNA targeting; locked nucleic acids; modified oligonucleotides; pyrene; single nucleotide polymorphisms