Fluorescence anisotropy and FRET studies of G-quadruplex formation in presence of different cations

Juskowiak, Bernard; Galezowska, Elzbieta; Zawadzka, Anna; Głuszyńska, Agata; Takenaka, Shigeori

doi:10.1016/j.saa.2005.08.012

Cited by 37 publications

(44 citation statements)

References 30 publications

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“…[10,15] Interestingly, upon addition of K + , negative and positive peaks appeared (490 and 560 nm respectively) that corresponded to the FAM and TAMRA dyes, respectively. Human A C H T U N G T R E N N U N G telomere tetraplexes carrying FAM and TAMRA dyes described in previous papers exhibited a similar peculiarity, [3,8,20] which was attributed to the interactions between FAM and TAMRA dyes after forming the tetraplex structure.…”

Section: Spectra Of Fat-0mentioning

confidence: 54%

“…Fluorescence changes for F-TBA were expected due to the effect of ionic strength on the protolytic equilibria of the FAM dye, [18,19] whereas the enhancement for TBA-T can be explained by a dequenching effect (quenching operates with unfolded oligonucleotides). [8] In conclusion, fluorescence emission of FAM or TAMRA dyes attached to TBA as single labels appeared to be sensitive to the formation of tetraplex structures in the presence of K + , and these effects should be taken into account when FRET is considered for FAT-n probes.…”

Section: Resultsmentioning

confidence: 87%

“…The quenching of TAMRA fluorescence has already been suggested for similar dual-labeled systems: duplex DNA, [21] i-motif structures, [22] and tetraplex species. [8] FAT-n probes (n = 3, 5 and 7)…”

Section: Absorption Spectra Of Fat-0mentioning

confidence: 99%

“…The human telomere sequence, d(G 3 A C H T U N G T R E N N U N G (TTAG 3 ) 3 ), was labeled with fluorophores 6-carboxyfluorescein (6-FAM) and 6-carboxytetramethylrhodamine (6-TAMRA). The FRET probe obtained was called a potassiumsensing oligonucleotide (PSO) [3,7,8] and has been recommended for the monitoring of K + in an excess of Na + . [3] Application of the PSO for real-time K + monitoring at physiological conditions appeared to be difficult because of the high stability constant of the potassium complex, which caused saturation of the probe signal at submillimolar concentrations of K + .…”

Section: Introductionmentioning

confidence: 99%

“…For example, a higher FRET signal was observed for the PSO/Na + complex; this suggested stacking interactions of fluorophores in the chair-or propeller-type K + -quadruplex (static quenching of TAMRA). [8,9] In a subsequent fluorescent probe (PSO-py), we exploited pyrene excimer emission for the transduction of the cation binding by the 15-mer thrombin-binding aptamer (TBA; d(GGTTGGTGTGGTTGG)). [10] Unlike in the FRET approach, stacking interactions between fluorophores (pyrene) were advantageous and produced efficient excimer emission.…”

Section: Introductionmentioning

confidence: 99%

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G Quadruplex‐Based FRET Probes with the Thrombin‐Binding Aptamer (TBA) Sequence Designed for the Efficient Fluorometric Detection of the Potassium Ion

et al. 2006

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The dual-labeled oligonucleotide derivative, FAT-0, carrying 6- carboxyfluorescein (FAM) and 6-carboxytetramethylrhodamine (TAMRA) labels at the 5' and 3' termini of the thrombin-binding aptamer (TBA) sequence 5'-GGT TGG TGT GGT TGG-3', and its derivatives, FAT-n (n=3, 5, and 7) with a spacer at the 5'-end of a TBA sequence of T(m)A (m=2, 4, and 6) have been designed and synthesized. These fluorescent probes were developed for monitoring K(+) concentrations in living organisms. Circular dichroism, UV-visible absorption, and fluorescence studies revealed that all FAT-n probes could form intramolecular tetraplex structures after binding K(+). Fluorescence resonance energy transfer and quenching results are discussed taking into account dye-dye contact interactions. The relationship between the fluorescence behavior of the probes and the spacer length in FAT-n was studied in detail and is discussed.

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Section: Spectra Of Fat-0mentioning

confidence: 54%

Section: Resultsmentioning

confidence: 87%

Section: Absorption Spectra Of Fat-0mentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

See 3 more Smart Citations

G Quadruplex‐Based FRET Probes with the Thrombin‐Binding Aptamer (TBA) Sequence Designed for the Efficient Fluorometric Detection of the Potassium Ion

et al. 2006

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Aptamer Switches Regulated by Post‐Transition/Transition Metal Ions

et al. 2021

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We introduced an aptamer switch design that relies on the ability of post‐transition/transition metal ions to trigger, through their coordination to nucleobases, substantial DNA destabilization. In the absence of molecular target, the addition of one such metal ion to usual aptamer working solutions promotes the formation of an alternative, inert DNA state. Upon exposure to the cognate compound, the equilibrium is shifted towards the competent DNA form. The switching process was preferentially activated by metal ions of intermediate base over phosphate complexation preference (i.e. Pb2+, Cd2+) and operated with diversely structured DNA molecules. This very simple aptamer switch scheme was applied to the detection of small organics using the fluorescence anisotropy readout mode. We envision that the approach could be adapted to a variety of signalling methods that report on changes in the surface charge density of DNA receptors.

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