Label-free G-Quadruplex aptamer and Thioflavin-T based turn-off fluorescent detection of ethanolamine

Bayraç, Abdullah Tahir; Acar, Yasemin

doi:10.1016/j.dyepig.2019.107788

Cited by 15 publications

(12 citation statements)

References 49 publications

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“…Under a 425 nm excitation, the emissions at 492 nm were monitored. As reported in the literature, 28 the fluorescence intensity of the samples decreased upon the gradual addition of ethanolamine, and the midpoint of the quenching curves was around 30–50 mM ethanolamine (Fig. 3A).…”

Section: Resultssupporting

confidence: 85%

“…43 Since the conserved region of the aptamer contains a guanine-rich sequence, a recent work used ThT to develop a label-free sensor for ethanolamine. 28 We herein repeated this experiment. We respectively mixed the aptamers (EA#14.3K42, EA#14.3K32 or EA-ConsT) with ThT and then gradually titrated ethanolamine.…”

Section: Resultsmentioning

confidence: 92%

“…3. 28 The only other homogeneous binding assay measured the effect of ethanolamine on the melting temperature ( T m ) change of the aptamers. 29 The aptamers were labeled with a fluorophore and a quencher on the two ends and melting was followed by the fluorescence intensity.…”

Section: Discussionmentioning

confidence: 99%

“…However, the apparent K d was around 40 mM ethanolamine. 28 We reason that the observed quenching was likely due to other events than aptamer binding (as a nM K d is expected). Another homogeneous assay labeled the aptamer with a fluorophore and a quencher to form a molecular beacon structure, where a low nM K d was observed by plotting the melting temperature of the DNA and ethanolamine concentration.…”

Section: Introductionmentioning

confidence: 97%

See 3 more Smart Citations

Homogeneous assays for aptamer-based ethanolamine sensing: no indication of target binding

Ding

Liu

Huang

et al. 2022

Analyst

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Section: Resultssupporting

confidence: 85%

Section: Resultsmentioning

confidence: 92%

Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 97%

See 2 more Smart Citations

Homogeneous assays for aptamer-based ethanolamine sensing: no indication of target binding

Ding

Liu

Huang

et al. 2022

Analyst

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“…ThT, a well-known fluorescence probe, has also been widely exploited for detecting metal ions and biomolecules, especially binding with G4. ,,,,,− ,− The fluorescence intensity of ThT is significantly increased due to its binding with G4 derivated from their intercalation, groove-binding, and end stacking, so that ThT has better recognition of G4 than other common dyes (NMM, thiazole orange, crystal violet, SYBR green, ethidium bromide). In 2015, Sugimoto et al employed ThT as a fluorescence probe for monitoring RNA metabolism in vitro and in vivo .…”

Section: Gfs Noncovalently Modified With Extrinsic Fluorogenic Dyesmentioning

confidence: 99%

Recent Developments in G-Quadruplex Binding Ligands and Specific Beacons on Smart Fluorescent Sensor for Targeting Metal Ions and Biological Analytes

et al. 2022

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The G-quadruplex structure is crucial in several biological processes, including DNA replication, transcription, and genomic maintenance. G-quadruplex-based fluorescent probes have recently gained popularity because of their ease of use, low cost, excellent selectivity, and sensitivity. This review summarizes the latest applications of G-quadruplex structures as detectors of genome-wide, enantioselective catalysts, disease therapeutics, promising drug targets, and smart fluorescence probes. In every section, sensing of Gquadruplex and employing G4 for the detection of other analytes were introduced, respectively. Since the discovery of the G-quadruplex structure, several studies have been conducted to investigate its conformations, biological potential, stability, reactivity, selectivity for chemical modification, and optical properties. The formation mechanism and advancements for detecting different metal ions

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Selection and Characterization of DNA Aptamers for Cytidine and Uridine

Gu,

Zheng,

Zhang

et al. 2024

ChemBioChem

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Cytidine and uridine are two essential pyrimidine ribonucleotides, and accurate detection of these nucleosides holds significant biological importance. While many aptamers were reported to bind purines, little success was achieved for pyrimidine binding. This study employs the library‐immobilization capture‐SELEX technique to isolate aptamers capable of selectively binding to cytidine and uridine. First, a selection was performed using a mixture of cytidine and uridine as the target. This selection led to the isolation of a highly selective aptamer for cytidine with a dissociation constant (Kd) of 0.9 μM as determined by isothermal titration calorimetry (ITC). In addition, a dual‐recognition aptamer was also discovered, which exhibited selective binding to both cytidine and uridine. Subsequently, a separate selection was carried out using uridine as the sole target, and the resulting uridine aptamer displayed a Kd of 4 μM based on a thioflavin T fluorescence assay and a Kd of 102 μM based on ITC. These aptamers do not have a strict requirement of metal ions for binding, and they showed excellent selectivity since no binding was observed with their nucleobases or nucleotides. This study has resulted three aptamers for pyrimidines, which can be employed in biosensors and DNA switches.

show abstract

Label-free G-Quadruplex aptamer and Thioflavin-T based turn-off fluorescent detection of ethanolamine

Cited by 15 publications

References 49 publications

Homogeneous assays for aptamer-based ethanolamine sensing: no indication of target binding

Homogeneous assays for aptamer-based ethanolamine sensing: no indication of target binding

Recent Developments in G-Quadruplex Binding Ligands and Specific Beacons on Smart Fluorescent Sensor for Targeting Metal Ions and Biological Analytes

Selection and Characterization of DNA Aptamers for Cytidine and Uridine

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