Quencher-free molecular beacons: a new strategy in fluorescence based nucleic acid analysis

Venkatesan, Natarajan; Seo, Young Jun; Kim, Byeang Hyean

doi:10.1039/b705468h

Cited by 193 publications

(92 citation statements)

References 50 publications

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“…S1). The increase in fluorescence lifetime and the enhancement of fluorescence intensity are consistent with PET mechanism reported by others and our previous studies [63,66,70,71,75]. These results suggest that the intramolecular interaction between the labeled TMR and adjacent guanine bases in the aptamer probe gives rise to PET, which is eliminated upon binding to Pb 2+ , resulting in the formation of a G-quadruplex.…”

Section: Principle Of Sensing Pb 2+ By Fasupporting

confidence: 78%

A sensitive fluorescence anisotropy method for detection of lead (II) ion by a G-quadruplex-inducible DNA aptamer

Zhang

Meng

et al. 2014

Analytica Chimica Acta

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h i g h l i g h t s• A fluorescence anisotropy approach for detection of Pb 2+ was developed.• The strategy was based on bindinginduced allosteric conformational change of aptamer probe.• The sensing mechanism was established by testing the photoinduced electron transfer interaction. in homogeneous solution by a G-rich thrombin binding aptamer (TBA). The TBA labeled with 6-carboxytetramethylrhodamine (TMR) at the seventh thymine nucleotide was used as a fluorescent probe for signaling Pb 2+ . It was found that the aptamer probe had a high FA in the absence of Pb 2+ . This is because the rotation of TMR is restricted by intramolecular interaction with the adjacent guanine bases, which results in photoinduced electron transfer (PET). When the aptamer probe binds to Pb 2+ to form G-quadruplex, the intramolecular interaction should be eliminated, resulting in faster rotation of the fluorophore TMR in solution. Therefore, FA of aptamer probe is expected to decrease significantly upon binding to Pb 2+ . Indeed, we observed a decrease in FA of aptamer probe upon Pb 2+ binding. Circular dichroism, fluorescence spectra, and fluorescence lifetime measurement were used to verify the reliability and reasonability of the sensing mechanism. By monitoring the FA change of the aptamer probe, we were able to real-time detect binding between the TBA probe and Pb 2+ . Moreover, the aptamer probe was exploited as a recognition element for quantification of Pb 2+ in homogeneous solution. The change in FA showed a linear response to Pb 2+ from 10 nM to 2.0 M, with 1.0 nM limit of detection. In addition, this sensing system exhibited good selectivity for Pb 2+ over other metal ions. The method is simple, quick and inherits the advantages of aptamer and FA.

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Section: Principle Of Sensing Pb 2+ By Fasupporting

confidence: 78%

A sensitive fluorescence anisotropy method for detection of lead (II) ion by a G-quadruplex-inducible DNA aptamer

Zhang

Meng

et al. 2014

Analytica Chimica Acta

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“…Since the onset of MB development [126], they have been used for widespread applications ranging from molecular and cellular biology, to pathogen detection and biomedical diagnostics [127,128].…”

Section: Figurementioning

confidence: 99%

Nano-bio interfaces probed by advanced optical spectroscopy: From model system studies to optical biosensors

Zhang

Han

et al. 2013

Chin. Sci. Bull.

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Research in biology and medicine is a rapidly expanding field incorporating some of the most fundamental questions concerning structure, function, and purpose. The forefront of new research demands access to advanced techniques and instrumentation capable of probing these unanswered questions. Over the past several decades, nano-scale materials and devices ranging from quasione dimensional quantum dots to two dimensional graphene sheets have been engineered and have found applications in nano-bio imaging and spectroscopy. In this review, the incorporation of nanomaterials into three influential spectroscopic and microscopic techniques including fluorescence microscopy, surface plasmon resonance, and sum frequency generation will be introduced. Fluorescence imaging has visualized nanomaterials as compliments or replacements to comparable organic fluorphores, act as a quencher for FRET-based sensing, and serve as a nanoscaffold for molecular beacons. Their versatility in coating materials makes nanomaterials an excellent targeting molecule for any cellular macromolecule or structure. In addition to the targeting capabilities of nanomaterials in fluorescence imaging, surface plasmon resonance has incorporated nanomaterials for applications in signal enhancement, selectivity of target molecules, and the development of more refined and accurate detection. Functionalized nanoparticles enhance the capabilities of sum frequency generation vibrational spectroscopy by providing unique surface chemistry which alters target molecule interactions and orientations. In summary, the incorporation of nanomaterials has greatly enhanced the field of biology and medicine and has allowed for the continual advancement of not only research but instrument development. nano-bio interfaces, optical spectroscopy, fluoroscence, SERS, SFG Citation:Zhang X X, Han X F, Wu F G, et al. Nano-bio interfaces probed by advanced optical spectroscopy: From model system studies to optical biosensors. Chin Sci Bull, 2013, 58: 25372556, doi: 10.1007/s11434-013-5700-y Nanomaterials, which size ranges (1-100 nm) coincide with fundamentally important length scales in physics, are considered to be promising building blocks for future electrical, optical and optoelectronic applications [1][2][3][4][5][6][7][8]. For example, in metals, the mean free path of an electron at room temperature is ~10-100 nm [9]; the Bohr radius of photo-excited electron-hole pairs in semiconductors is ~1-10 nm [10]; and the 1-100 nm dimension is the range over which molecules assemble into nucleic acids and proteins [11]. Nanostructures on this size scale provide a unique technology to determine many critical structure/function relationships of biological molecules at the cellular level without introducing substantial interference. Advances in nanotechnology have developed at several stages: materials, devices, and systems. A decade ago, extensive research has focused on the development of various methods to precisely control the synthesis of nanomaterials. Therefore, many differ...

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“…9 The quencherfree F-aptasensor does not require additional quencher molecule or a quencher-labeled hybridization strand, thus allowing facile applications in biological analysis. [10][11][12] In fact, this simple Ade F-aptasensor has allowed real-time fluorescence imaging of Ade secretion from rat astrocyte, although the F-aptasensor still has a problem of low off/on efficiency in fluorescence measurements. By utilizing the same concept, we successfully designed a quencher-free F-aptasensor targeting interferon-γ (IFN-γ), 13 one of the most important cytokines related to immune systems.…”

Section: Introductionmentioning

confidence: 99%

BODIPY-labeled Fluorescent Aptamer Sensors for Turn-on Sensing of Interferon-gamma and Adenine Compounds on Cells

et al. 2016

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Quencher-free molecular beacons: a new strategy in fluorescence based nucleic acid analysis

Cited by 193 publications

References 50 publications

A sensitive fluorescence anisotropy method for detection of lead (II) ion by a G-quadruplex-inducible DNA aptamer

A sensitive fluorescence anisotropy method for detection of lead (II) ion by a G-quadruplex-inducible DNA aptamer

Nano-bio interfaces probed by advanced optical spectroscopy: From model system studies to optical biosensors

BODIPY-labeled Fluorescent Aptamer Sensors for Turn-on Sensing of Interferon-gamma and Adenine Compounds on Cells

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