title: 2'-Bispyrene-modified 2'-O-methyl RNA probes as useful tools for the detection of RNA: synthesis, fluorescent properties, and duplex stability.
abstract: The synthesis and properties two series of new 2'-O-methyl RNA probes, each containing a single insertion of a 2'-bispyrenylmethylphosphorodiamidate derivative of a nucleotide (U, C, A, and G), are described. As demonstrated by UV melting studies, the probes form stable complexes with model RNAs and DNAs. Significant increases (up to 21-fold) in pyrene excimer fluorescence intensity were observed upon binding of most of the probes with complementary RNAs, but not with DNAs. The fluorescence spectra are independent of the nature of the modified nucleotides. The nucleotides on the 5'-side of the modified nucleotide have no effect on the fluorescence spectra, whereas the natures of the two nucleotides on the 3'-side are important: CC, CG, and UC dinucleotide units on the 3'-side of the modified nucleotide provide the maximum increases in excimer fluorescence intensity. This study suggests that these 2'-bispyrene-labeled 2'-O-methyl RNA probes might be useful tools for detection of RNAs.
authors.affiliation: Institute of Chemical Biology and Fundamental Medicine, 8 Lavrentiev Avenue, Novosibirsk, 630090 (Russia); Novosibirsk State University, 2 Pirogov St., Novosibirsk, 630090 (Russia). okrasheninina@gmail.com.
authors.forename: Olga A
authors.initials: OA
authors.lastname: Krasheninina
authors.forename: Darya S
authors.initials: DS
authors.lastname: Novopashina
authors.forename: Alexander A
authors.initials: AA
authors.lastname: Lomzov
authors.forename: Alya G
authors.initials: AG
authors.lastname: Venyaminova
mesh_terms: D004247:DNA / Q000737:chemistry; D005453:Fluorescence; D005456:Fluorescent Dyes / Q000138:chemical synthesis*; D009711:Nucleotides / Q000737:chemistry; D011721:Pyrenes / Q000138:chemical synthesis / Q000737:chemistry*; D012313:RNA / Q000737:chemistry*; D015347:RNA Probes / Q000138:chemical synthesis / Q000737:chemistry*; D013050:Spectrometry, Fluorescence
chemical_list: D005456:Fluorescent Dyes; D009711:Nucleotides; D011721:Pyrenes; D015347:RNA Probes; D012313:RNA; D004247:DNA
keywords: 2′-O-methyl RNA probes; MDR1 mRNA; RNA recognition; fluorescent probes; pyrene excimer probes