Fluorescence energy transfer probes based on the guanine quadruplex formation for the fluorometric detection of potassium ion

Nagatoishi, Satoru; Nojima, Takahiko; Galezowska, Elzbieta; Głuszyńska, Agata; Juskowiak, Bernard; Takenaka, Shigeori

doi:10.1016/j.aca.2006.08.010

Cited by 60 publications

(56 citation statements)

References 28 publications

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“…22 Thus, we synthesized a FAT-0 probe, which possessed a TBA sequence carrying FAM and TAMRA groups at the 5′-and 3′-termini, respectively (Table 1). 23,24 As shown in Fig. 6, the FAT-0 probe formed a chair-type structure upon the addition of K + with two dyes located in a close proximity.…”

Section: Potassium Sensing Oligonucleotide Probe Based On a Thrombin mentioning

confidence: 99%

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Fluorescence Detection of Potassium Ion Using the G-Quadruplex Structure

Takenaka

Juskowiak

2011

ANAL. SCI.

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Section: Potassium Sensing Oligonucleotide Probe Based On a Thrombin mentioning

confidence: 99%

“…Fortunately, no fluorescence changes were observed upon the addition of Na + excess, and the FAT-5 probe exhibited quite good binding selectivity for K + over the Na + ion. 23,24 …”

Section: Potassium Sensing Oligonucleotide Probe Based On a Thrombin mentioning

confidence: 99%

Fluorescence Detection of Potassium Ion Using the G-Quadruplex Structure

Takenaka

Juskowiak

2011

ANAL. SCI.

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“…[5] The adaptive binding property has been used to design fluorescence resonance energy transfer (FRET)-based sensors with end-labeled fluorophores since FRET is known to be sensitive to such distance changes. Many molecules include adenosine/ATP, [6] cocaine, [7] arginiamide, [8] K I , [9][10][11][12] Mg II /Ca II , [13] Ag I , [14] Hg II , [15,16] thrombin, [17] and (platelet-derived growth factor) PDGF [18,19] have been detected using this method. One particularly interesting example is the Hg II binding DNA shown in Figure 1A.…”

Section: Introductionmentioning

confidence: 99%

Metal‐Induced Specific and Nonspecific Oligonucleotide Folding Studied by FRET and Related Biophysical and Bioanalytical Implications

Kiy

Jacobi

Liu

2011

Chemistry A European J

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Abstract.Metal induced nucleic acid folding has been extensively studied with ribozymes, DNAzymes, tRNA and riboswitches. These RNA/DNA molecules usually have a high content of double-stranded regions to support a rigid scaffold. On the other hand, such rigid structural features are not available for many in vitro selected or rationally designed DNA aptamers; they adopt flexible random coil structures in the absence of target molecules. Upon target binding, these aptamers adaptively fold into a compact structure with a reduced end-to-end distance, making fluorescence resonance energy transfer (FRET) a popular signaling mechanism. However, non-specific folding induced by mono-or divalent metal ions can also reduce the end-to-end distance and thus lead to false positive results. In this study we used a FRET pair labeled Hg II binding DNA and monitored metal induced folding in the presence of various cations. While non-specific electrostatically mediated folding can be very significant, at each tested salt condition, Hg II induced folding was still observed with a similar sensitivity. We also studied the biophysical meaning of the acceptor/donor fluorescence ratio that allowed us to explain the experimental observations. Potential solutions for this ionic strength problem have been discussed. For example, probes designed to signaling the formation of double-stranded DNA showed a lower dependency on ionic strength.3

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“…Interface 11: 20130931 be partly wrapped around the NP surface, or they might be dangling in solution [146]. However, in the case the NP surface is saturated with attached spacer molecules, they all will adopt similar geometry and thus lead to defined distances R. Fluorophores can be linked to the end of the spacer molecules [147,148], and by using spacers with different molecular weight the average distance between fluorophores and the NP surface can be tuned [143,149,150]. This principle has been applied to sense local H þ [55,57] and Cl 2 [56] concentrations.…”

Section: Effects Of Ion-induced Nanoenvironments On the Stability Andmentioning

confidence: 99%

Interaction of colloidal nanoparticles with their local environment: the (ionic) nanoenvironment around nanoparticles is different from bulk and determines the physico-chemical properties of the nanoparticles

Pfeiffer

Rehbock

Hühn

et al. 2014

J. R. Soc. Interface.

331

301

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The physico-chemical properties of colloidal nanoparticles (NPs) are influenced by their local environment, as, in turn, the local environment influences the physico-chemical properties of the NPs. In other words, the local environment around NPs has a profound impact on the NPs, and it is different from bulk due to interaction with the NP surface. So far, this important effect has not been addressed in a comprehensive way in the literature. The vicinity of NPs can be sensitively influenced by local ions and ligands, with effects already occurring at extremely low concentrations. NPs in the Hü ckel regime are more sensitive to fluctuations in the ionic environment, because of a larger Debye length. The local ion concentration hereby affects the colloidal stability of the NPs, as it is different from bulk owing to Debye Hü ckel screening caused by the charge of the NPs. This can have subtle effects, now caused by the environment to the performance of the NP, such as for example a buffering effect caused by surface reaction on ultrapure ligandfree nanogold, a size quenching effect in the presence of specific ions and a significant impact on fluorophore-labelled NPs acting as ion sensors. Thus, the aim of this review is to clarify and give an unifying view of the complex interplay between the NP's surface with their nanoenvironment.

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Fluorescence energy transfer probes based on the guanine quadruplex formation for the fluorometric detection of potassium ion

Cited by 60 publications

References 28 publications

Fluorescence Detection of Potassium Ion Using the G-Quadruplex Structure

Fluorescence Detection of Potassium Ion Using the G-Quadruplex Structure

Metal‐Induced Specific and Nonspecific Oligonucleotide Folding Studied by FRET and Related Biophysical and Bioanalytical Implications

Interaction of colloidal nanoparticles with their local environment: the (ionic) nanoenvironment around nanoparticles is different from bulk and determines the physico-chemical properties of the nanoparticles

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