PMID: 9443965Mar 14, 1998Paper

Determination of interactions between structured nucleic acids by fluorescence resonance energy transfer (FRET): selection of target sites for functional nucleic acids

Nucleic Acids Research
N OtaK Taira

Abstract

We previously developed a method for monitoring the integrity of oligonucleotides in vitro and in vivo by quantitating fluorescence resonance energy transfer (FRET) between two different fluorochromes attached to a single oligonucleotide. As an extension of this analysis, we examined changes in the extent of FRET in the presence or absence of target nucleic acids with a specific sequence and a higher-ordered structure. In this system FRET was maximal when probes were free in solution and a decrease in FRET was evidence of successful hybridization. We used a single-stranded oligodeoxyribonucleotide labeled at its 5'-end and its 3'-end with 6-carboxyfluorescein and 6-carboxytetramethylrhodamine, respectively. Incubation of the probe with a single-stranded complementary oligonucleotide reduced the FRET. Moreover, a small change in FRET was also observed when the probe was incubated with an oligonucleotide in which the target site had been embedded in a stable hairpin structure. The decrease in the extent of FRET depended on the length of the stem region of the hairpin structure and also on the higher-ordered structure of the probe. These results indicate that this spectrofluorometric method and FRET probes can be used to estimate ...Continue Reading

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Citations

Apr 12, 2001·Current Opinion in Structural Biology·A HillischS Diekmann
Jun 6, 2003·Bioorganic & Medicinal Chemistry·Atsushi MaharaAkira Murakami
Sep 28, 2000·Current Opinion in Chemical Biology·D M Lilley, T J Wilson
May 10, 2002·Journal of Biotechnology·Mike LorenzStephan Diekmann
Sep 3, 2009·Nucleic Acids Research·Arjang HassibiBabak Hassibi
Jan 6, 2001·Analytical Biochemistry·J R LakowiczJ S Kang
Nov 1, 2002·Proceedings of the National Academy of Sciences of the United States of America·Reiko OnukiKazunari Taira
Jun 13, 2006·The International Journal of Biochemistry & Cell Biology·Veena VijayanathanThresia Thomas
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Aug 11, 2007·Clinica Chimica Acta; International Journal of Clinical Chemistry·Kim B BarkenTim Tolker-Nielsen
Feb 14, 2017·Nano Letters·Aleksandre JaparidzeGiovanni Dietler
Jun 19, 2013·Current Protocols in Nucleic Acid Chemistry·Andrei P Guzaev
Nov 14, 2001·Phytochemical Analysis : PCA
Jul 27, 2001·Journal of the American Chemical Society·S HashimotoS M Hecht

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