A Smart DNA Tetrahedron That Isothermally Assembles or Dissociates in Response to the Solution pH Value Changes

Liu, Zhiyu; Li, Yingmei; Tian, Cheng; Mao, Chengde

doi:10.1021/bm400426f

Cited by 75 publications

(71 citation statements)

References 48 publications

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“…Thekey to success of this method is the formation of aDNA triplex at the inter-unit cohesion region. [13][14][15][16][17] Tr iplex formation will stabilize the sticky-end cohesion and thus the 3D crystals.The resulting DNAcrystals are stable in solutions of low ionic strength, such as approximately 0.02 m (NH 4 ) 2 SO 4 . Post-assembly stabilization of DNA crystals by triplex formation.…”

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confidence: 99%

Post‐Assembly Stabilization of Rationally Designed DNA Crystals

Zhao

Chandrasekaran

et al. 2015

Angew Chem Int Ed

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This manuscript reports an effort to stabilize self-assembled DNA crystals. Owing to their weak inter-unit cohesion, self-assembled DNA crystals are fragile, which limits the potential applications of such crystals. To overcome this problem, another molecule was introduced, which binds to the cohesive sites and stabilizes the inter-unit interactions. The extra interactions greatly improve the stability of the DNA crystals. The original DNA crystals are only stable in solutions of high ionic strength (e.g., ≥1.2 M (NH4)2SO4); in contrast, the stabilized crystals can be stable at ionic strengths as low as that of a 0.02 M solution of (NH4)2SO4. The current strategy is expected to represent a general approach for increasing the stability of self-assembled DNA nanostructures for potential applications, for example, as structural scaffolds and molecular sieves.

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confidence: 99%

Post‐Assembly Stabilization of Rationally Designed DNA Crystals

Zhao

Chandrasekaran

et al. 2015

Angew Chem Int Ed

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“…Another pH‐sensitive element is triple helical DNA . Assembly of 3‐point‐star motifs into a DNA tetrahedron is stabilized by triplex formation at pH 5; the interactions become weaker at pH 8 when the triplex forming strand dissociates, thus breaking open the tetrahedron . Cargo molecules attached to DNA nanostructures through photocleavable crosslinkers can be released by exposure to light of specific wavelengths .…”

Section: Dna Nanostructures For Drug Deliverymentioning

confidence: 99%

A Molecular Hero Suit for In Vitro and In Vivo DNA Nanostructures

Kizer

Linhardt

Chandrasekaran

et al. 2019

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Precise control of DNA base pairing has rapidly developed into a field full of diverse nanoscale structures and devices that are capable of automation, performing molecular analyses, mimicking enzymatic cascades, biosensing, and delivering drugs. This DNA‐based platform has shown the potential of offering novel therapeutics and biomolecular analysis but will ultimately require clever modification to enrich or achieve the needed “properties” and make it whole. These modifications total what are categorized as the molecular hero suit of DNA nanotechnology. Like a hero, DNA nanostructures have the ability to put on a suit equipped with honing mechanisms, molecular flares, encapsulated cargoes, a protective body armor, and an evasive stealth mode.

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“…Not surprisingly, 3D DNA nanostructures capable of molecular switching play an important role because of their potential applications in molecular sensing, drug delivery, miniaturized robotics and dynamic nanomaterials . Different strategies including addition of specific DNA strands, small molecules, protons, enzymes or photons have been used to control the 3D movement in terms of shapes and sizes. Inspired by the reversible conformational switching properties of the G‐rich nucleic acids under appropriate conditions, the exploration of stimuli‐responsive G‐quadruplex‐containing 3D DNA nanomaterials with increasing patterns of molecular diversity, complexity, and functions is still a challenge.…”

Section: Figurementioning

confidence: 99%

G‐Quadruplex‐Mediated Molecular Switching of Self‐Assembled 3D DNA Nanocages

et al. 2017

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We demonstrated as trategy to reversibly extend and contract 3D DNA nanocages based on G-rich DNA strandsa ss caffolds in the presence of K + or chelating agents. The contraction and extension of nanocage would be regulated by formation and deformationo fGquadruplexi nt he presence of K + ions and chelating agents, respectively.C ompared to single telomeric DNA strands, self-assembled 3D DNA nanocages integrated with three HTLs act as horseradish peroxidase mimicking DNAzymesf or colorimetric detectiona nd monitoring of cholesterol with high stability towardn uclease and blood serum degradations. This is the first example of facile construction of 3D DNA nanostructures with contractile, reversible, and catalytic features based on the assembly and disassembly of G-quadruplexes. This work offers an ew platform for manipulation of nanoscale conformational changes and as tep forwardi no btaining stimuli-responsive 3D DNA nanomaterials with versatile reactivity and functionalities.The base sequence of oligonucleotides, which encodes substantialf unctional and structural information, facilitates the rational design of stimuli-responsive materials.[1] Guanine-rich nucleic acids exhibit not only specificb inding capabilities to various targets including metal ions, [2] proteins [3] or small molecules, [4] but also reversible catalytic functions in the form of hemin/G-quadruplexc omplexes. [5][6][7] The catalytically inactive, random-coil structure of guanine-rich DNA reversibly switches into ac atalytically active G-quadruplex by corresponding input, [8] enablingi ts structuralr econfigurationa nd promoting its applicationsi ns ensing, [3,4,9,10] analytical biochemistry, [11] molecular biology, [12] biomedicine [13] and logic gate development.[14] This G-rich, non-Watson-Crick base-paired building block has been increasingly encoded in self-assembled DNA nanostructures to generate stimuli-responsivet wo dimensional DNA networks [15][16][17] and long DNA nanowires.[18] So far,t he use of G-quadruplex-functionalized 3D DNA nanostructures for structuralr econfiguration is highly limited. Not surprisingly,3 D DNA nanostructures capable of molecular switching play an important role because of their potentialapplications in molecular sensing, drug delivery,m iniaturized robotics and dynamic nanomaterials.[19] Different strategies including addition of specific DNA strands, [20,21] small molecules, [22] protons, [23] enzymes [24] or photons [25] have been used to control the 3D movement in terms of shapes and sizes. Inspired by the reversible conformational switching properties of the G-rich nucleic acids under appropriate conditions, the exploration of stimuliresponsive G-quadruplex-containing 3D DNA nanomaterials with increasing patterns of molecular diversity,c omplexity,a nd functions is still ac hallenge.Herein, we report on the reversible conformationalc hange of 3D DNA nanocages that allows switchable turn ON and OFF of their optical signals. The contraction and extension of HT-NC can be regulated by formation...

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A Smart DNA Tetrahedron That Isothermally Assembles or Dissociates in Response to the Solution pH Value Changes

Cited by 75 publications

References 48 publications

Post‐Assembly Stabilization of Rationally Designed DNA Crystals

Post‐Assembly Stabilization of Rationally Designed DNA Crystals

A Molecular Hero Suit for In Vitro and In Vivo DNA Nanostructures

G‐Quadruplex‐Mediated Molecular Switching of Self‐Assembled 3D DNA Nanocages

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