Ion-induced DNAzyme switches

Shimron, Simcha; Elbaz, Johann; Henning, Anja; Willner, Itamar

doi:10.1039/b926003j

Cited by 81 publications

(58 citation statements)

References 24 publications

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“…The conjugation of enzymes or DNAzymes to this recognition element may then provide effective means to amplify the recognition events that yields sensitive sensing modules. Indeed, in the past two decades, numerous studies have used nucleic acids and aptamers as recognition probes [58][59][60][61][62] and coupled enzymes [63,64] or DNAzymes [65][66][67][68][69][70][71] as amplifying labels for the sensing events. Furthermore, the formation of DNA duplexes of controlled stabilities, the cooperative stabilization of nucleic acid nanostructures by metal ions (e.g.…”

Section: Applications Of Metalloporphyrins-functionalized G-quadruplexesmentioning

confidence: 99%

“…25(a). The sequence (65) that consists of the Pb 2+ -aptamer recognition sequence was blocked by the complementary sequence (66). The G-quadruplex domain in the duplex (65)/(66) exists in an inactive configuration that does not bind the fluorescence label.…”

Section: Applications Of Metalloporphyrins-functionalized G-quadruplexesmentioning

confidence: 99%

“…The G-quadruplex domain in the duplex (65)/(66) exists in an inactive configuration that does not bind the fluorescence label. In the presence of Pb 2+ -ions the formation of the energetically favored Pb 2+ -G-quadruplex displaces (66). The binding of Zn(II)-protoporphyrin IX to the resulting Pb 2+ -stabilized G-quadruplex leads to a fluorescence intensity that provides a quantitative measure for the concentration of Pb 2+ -ions, Fig.…”

Section: Applications Of Metalloporphyrins-functionalized G-quadruplexesmentioning

confidence: 99%

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Metalloporphyrin/G-quadruplexes: From basic properties to practical applications

Golub

Lü

Willner

2015

J. Porphyrins Phthalocyanines

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Guanine-rich nucleic acids stimulate the formation of planar, Hoogsteen hydrogen bonds-stabilized G-quartet (1), Fig. 1(a). The following p-p stacking of G-quartets, leads to the self-assembly of G-quadruplexes. These G-quadruplexes reveal cation-induced stabilization by means of coordination, mainly in the presence of monovalent ions, generally in the order of stabilization of K + > NH 4 + > Rb + > Na + > Cs + > Li + [1]. The resulting G-quadruplexes may adopt various topologies, such as parallel, anti-parallel or mixed strand configurations [2]. For example, Fig. 1(b) outlines various forms of four-layer guanine-quartets exhibiting different configurations: (i) edge-loop dimeric hairpin structure, (ii) diagonal-loop dimeric hairpin, (iii) unimolecular single strand with diagonal central loop, and (iv) unimolecular edge-type ABSTRACT: Guanine-rich single-stranded nucleic acids self-assemble into G-quadruplex nanostructures (predominately in the presence of K + -ions). Metalloporphyrins bind to the G-quadruplex nanostructures to form supramolecular assemblies exhibiting unique catalytic, electrocatalytic and photophysical properties. This paper addresses the advances in the characterization and the implementation of the metalloporphyrin/G-quadruplexes complexes for various applications. Out of the different complexes, the most extensively studied complexes are the hemin/G-quadruplex horseradish peroxidase-mimicking DNAzyme and the Zn(II)-protoporphyrin IX-functionalized G-quadruplex. Specifically, the hemin/Gquadruplex was found to act as a catalyst for driving different chemical transformations that mimic the native horseradish peroxidase enzyme, and, also, to function as an electrocatalyst for the reduction of H 2 O 2 . Also, the hemin/G-quadruplex stimulates interesting photophysical and photocatalytic processes such as the electron-transfer quenching of semiconductor quantum dots or the chemiluminescence resonance energy transfer to semiconductor quantum dots. Alternatively, Zn(II)-protoporphyrin IX associated with G-quadruplexes exhibit intensified fluorescence properties. Beyond the straight forward application of the metalloporphyrin/G-quadruplexes as catalysts that stimulate different chemical transformations, the specific catalytic, electrocatalytic and photocatalytic functions of hemin/G-quadruplexes are heavily implemented to develop sophisticated colorimetric, electrochemical, and optical sensing platforms. Also, the unique fluorescence properties of Zn(II)-protoporphyrin IX-functionalized G-quadruplexes are applied to develop fluorescence sensing platforms. The article exemplifies different sensing assays for analyzing DNA, ligand-aptamer complexes and telomerase activity using the metalloporphyrins/Gquadruplexes as transducing labels. Also, the use of the hemin/G-quadruplex as a probe to follow the operations of DNA machines is discussed.

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Section: Applications Of Metalloporphyrins-functionalized G-quadruplexesmentioning

confidence: 99%

Section: Applications Of Metalloporphyrins-functionalized G-quadruplexesmentioning

confidence: 99%

Section: Applications Of Metalloporphyrins-functionalized G-quadruplexesmentioning

confidence: 99%

See 1 more Smart Citation

Metalloporphyrin/G-quadruplexes: From basic properties to practical applications

Golub

Lü

Willner

2015

J. Porphyrins Phthalocyanines

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“…58,102,142,198–230 Examples include but not limit to DNA-based sensors for Hg 2+ with colorimetry, 198,199,201,203,204,218 fluorescence, 142,200,208,209,211,219,220,224,225 electrochemistry, 210,215 SERS, 213 surface plasmon resonance, 217,227 and evanescent wave generation 216 as signal output.…”

Section: Mismatched Dna and G-quadruplex Dna For Metal Ion Bindingmentioning

confidence: 99%

“…187 Following this principle, a number of Ag + sensors have been developed (Figure 11C), 187,208,215,225,231–237 using colorimetry, 231,232,235,237 fluorescence, 208,225,233,236 light scattering, 234 electrochemistry, 215 and atomic force microscopy. 238 …”

Section: Mismatched Dna and G-quadruplex Dna For Metal Ion Bindingmentioning

confidence: 99%

DNA as Sensors and Imaging Agents for Metal Ions

Xiang

Lu²

2013

Inorg. Chem.

140

104

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Increasing interests in detecting metal ions in many chemical and biomedical fields have created demands for developing sensors and imaging agents for metal ions with high sensitivity and selectivity. This review covers recent progress in DNA-based sensors and imaging agents for metal ions. Through both combinatorial selection and rational design, a number of metal ion-dependent DNAzymes and metal ion-binding DNA structures that can selectively recognize specific metal ions have been obtained. By attaching these DNA molecules with signal reporters such as fluorophores, chromophores, electrochemical tags, and Raman tags, a number of DNA-based sensors for both diamagnetic and paramagnetic metal ions have been developed for fluorescent, colorimetric, electrochemical, and surface Raman detections. These sensors are highly sensitive (with detection limit down to 11 ppt) and selective (with selectivity up to millions-fold) toward specific metal ions. In addition, through further development to simplify the operation, such as the use of “dipstick tests”, portable fluorometers, computer-readable discs, and widely available glucose meters, these sensors have been applied for on-site and real-time environmental monitoring and point-of-care medical diagnostics. The use of these sensors for in situ cellular imaging has also been reported. The generality of the combinatorial selection to obtain DNAzymes for almost any metal ion in any oxidation state, and the ease of modification of the DNA with different signal reporters make DNA an emerging and promising class of molecules for metal ion sensing and imaging in many fields of applications.

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Gated Mesoporous SiO₂ Nanoparticles Using K⁺‐Stabilized G‐Quadruplexes

Zhang

Wang

Sohn

et al. 2014

Adv Funct Materials

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The K+‐induced formation of G‐quadruplexes provides a versatile motif to lock or unlock substrates trapped in the pores of mesoporous SiO2 nanoparticles, MP‐SiO2 NPs. In one system, the substrate is locked in the MP‐SiO2 NPs by K+‐ion‐stabilized G‐quadruplex units, and the pores are unlocked by the elimination of K+ ions using Kryptofix [2.2.2] (KP) or 18‐crown‐6‐ether (CE) from the G‐quadruplexes. In the second system, the substrate is locked in the pores by means of K+‐stabilized aptameric G‐quadruplex/thrombin units. Unlocking of the pores is triggered by the dissociation of the aptamer/thrombin complexes through the KP‐ or CE‐mediated elimination of the stabilizing K+ ions. In the third system, duplex DNA units lock the pores of MP‐SiO2 NPs, and the release of the entrapped substrate is stimulated by the K+‐ion‐induced dissociation of the duplex caps through the formation of the K+‐stabilized G‐quadruplexes. The latter system is further implemented to release the anti‐cancer drug, doxorubicin, in the presence of K+ ions, from the MP‐SiO2 NPs. Preliminary intracellular experiments reveal that doxorubicin‐loaded MP‐SiO2 NPs lead to effective death of breast cancer cells.

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Ion-induced DNAzyme switches

Abstract: The activities of Mg(2+)-dependent DNAzymes are reversibly switched by ion stimuli using the thymine-Hg(2+)-thymine complexes or cytosine-Ag(+)-cytosine complexes.

Cited by 81 publications

References 24 publications

Metalloporphyrin/G-quadruplexes: From basic properties to practical applications

Metalloporphyrin/G-quadruplexes: From basic properties to practical applications

DNA as Sensors and Imaging Agents for Metal Ions

Gated Mesoporous SiO₂ Nanoparticles Using K⁺‐Stabilized G‐Quadruplexes

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Ion-induced DNAzyme switches

Abstract: The activities of Mg(2+)-dependent DNAzymes are reversibly switched by ion stimuli using the thymine-Hg(2+)-thymine complexes or cytosine-Ag(+)-cytosine complexes.

Cited by 81 publications

References 24 publications

Metalloporphyrin/G-quadruplexes: From basic properties to practical applications

Metalloporphyrin/G-quadruplexes: From basic properties to practical applications

DNA as Sensors and Imaging Agents for Metal Ions

Gated Mesoporous SiO2 Nanoparticles Using K+‐Stabilized G‐Quadruplexes

Contact Info

Product

Resources

About

Gated Mesoporous SiO₂ Nanoparticles Using K⁺‐Stabilized G‐Quadruplexes