Auxetic Two‐Dimensional Nanostructures from DNA**

Li, Ruixin; Chen, Haorong; Choi, Jong Hyun

doi:10.1002/anie.202014729

Cited by 22 publications

(43 citation statements)

References 50 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…The height is estimated using the diameter of a dsDNA bundle (~2.2 nm) and the distance between the center of neighboring bundles (~2.3 nm when closely packed). 20,46 However, the gap between adjacent bundles is noticeably wider than the bundle diameter based on our previous AFM results. 27 For a fair estimation, we assume the gap to be approximately 2.3×1.2 nm.…”

Section: Methodsmentioning

confidence: 53%

“…37–39 While the strand displacement reaction is possible at room-temperature due to the low energy barrier, the reannealing with new strands is often performed at elevated temperatures to provide necessary activation energies. 40–42 For both static and dynamic DNA origami architectures, their structural properties and mechanical behaviors are of great interest, including the twisting of a double-stranded DNA (dsDNA) bundle, 43,44 the interconnection between bundles by crossovers, 45 the interaction between ds-regions in an origami structure, 46 and the structural deformation by applied external forces. 47 A better understanding of such fundamental mechanics will significantly advance the design and development of DNA origami for a variety of applications.…”

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

Elucidating the Mechanical Energy for Cyclization of a DNA Origami Tile

Li¹,

Chen²,

Lee³

et al. 2021

Preprint

Self Cite

View full text Add to dashboard Cite

DNA origami has emerged as a versatile method to synthesize nanostructures with high precision. This bottom-up self-assembly approach can produce not only complex static architectures, but also dynamic reconfigurable structures with tunable properties. While DNA origami has been explored increasingly for diverse applications such as biomedical and biophysical tools, related mechanics are also under active investigation. Here we studied the structural properties of DNA origami and investigated the energy needed to deform the DNA structures. We used a single-layer rectangular DNA origami tile as a model system and studied its cyclization process. This origami tile was designed with an inherent twist by placing crossovers every 16 base-pairs (bp), corresponding to a helical pitch of 10.67 bp/turn which is slightly different from that of native B-form DNA (10.5 bp/turn). We used molecular dynamics (MD) simulations based on a coarse-grained model on an open-source computational platform, oxDNA. We calculated the energies needed to overcome the initial curvature and induce mechanical deformation by applying linear spring forces. We found that the initial curvature may be overcome gradually during cyclization and a total of ~33.1 kcal/mol is required to complete the deformation. These results provide insights into the DNA origami mechanics and should be useful for diverse applications such as adaptive reconfiguration and energy absorption.

show abstract

Section: Methodsmentioning

confidence: 53%

Section: Introductionmentioning

confidence: 99%

Elucidating the Mechanical Energy for Cyclization of a DNA Origami Tile

Li¹,

Chen²,

Lee³

et al. 2021

Preprint

Self Cite

View full text Add to dashboard Cite

show abstract

“…The flight ring is unique in that its structure is finite, while other typical auxetic geometries are periodic, extended in 2D or 3D. [30,31] In closing, Hoberman flight rings are realized using DNA origami, which forms a trefoil knot. The deployable and auxetic nanostructures may serve as a versatile platform for topological studies and open new opportunities for bioengineering and biosensors such as high-precision drug delivery [32] and molecular targeting and swallow.…”

Section: S X Y = ⋅mentioning

confidence: 99%

Topological Assembly of a Deployable Hoberman Flight Ring from DNA

Chen

Choi

2021

Small

Self Cite

View full text Add to dashboard Cite

Deployable geometries are 2D or 3D finite structures that preserve their global shapes during expansion and contraction. [1] The structural transformation shows auxetic behaviors, which may be characterized by a negative Poisson's ratio (ν). Such topological behaviors emerge from their unique, intricate geometrical designs. In a Jitterbug transformer, for example, eight rigid equilateral triangles are linked at vertices, and the triangles can rotate around the linkages. [2] This allows deployable reconfigurations between octahedron (one of five Platonic solids) and cuboctahedron (one of thirteen Archimedean solids). By varying the shape and length of elements (regular polygons) in the transformer, multiple variants such as other deployable Platonic and Archimedean solids have been studied mathematically. [3] Another example is the Hoberman sphere, a commercially available, popular toy for kids and a possible choice for sculptures. The Hoberman sphere is also formed by rigid edges with flexible linkages, [4] and can shrink and expand by scissor-like actions at the joints while maintaining the overall spherical shape. In theory, it can be constructed regardless of materials and lengthscale. There is a 6-m-diameter Hoberman sphere from aluminum in the AHHAA Science Center in Tartu, Estonia, while the commercial toys made of plastics are typically ≈10 cm in length. [5] In nature, the shell of cowpea Deployable geometries are finite auxetic structures that preserve their overall shapes during expansion and contraction. The topological behaviors emerge from intricately arranged elements and their connections. Despite the considerable utility of such configurations in nature and in engineering, deployable nanostructures have never been demonstrated. Here a deployable flight ring, a simplified planar structure of Hoberman sphere is shown, using DNA origami. The DNA flight ring consists of topologically assembled six triangles in two layers that can slide against each other, thereby switching between two distinct (open and closed) states. The origami topology is a trefoil knot, and its auxetic reconfiguration results in negative Poisson's ratios. This work shows the feasibility of deployable nanostructures, providing a versatile platform for topological studies and opening new opportunities for bioengineering.

show abstract

“…While the strand displacement reaction is possible at room-temperature due to the low energy barrier, the reannealing with new strands is often performed at elevated temperatures to provide necessary activation energies [40][41][42]. For both static and dynamic DNA origami architectures, their structural properties and mechanical behaviors are of great interest, including the twisting of a double-stranded DNA (dsDNA) bundle [43,44], the interconnection between bundles by crossovers [45], the interaction between ds-regions in an origami structure [46], and the structural deformation by applied external forces [47]. A better understanding of such fundamental mechanics will significantly advance the design and development of DNA origami for a variety of applications.…”

Section: Introductionmentioning

confidence: 99%

Elucidating the Mechanical Energy for Cyclization of a DNA Origami Tile

Chen

Lee

et al. 2021

Applied Sciences

Self Cite

View full text Add to dashboard Cite

DNA origami has emerged as a versatile method to synthesize nanostructures with high precision. This bottom-up self-assembly approach can produce not only complex static architectures, but also dynamic reconfigurable structures with tunable properties. While DNA origami has been explored increasingly for diverse applications, such as biomedical and biophysical tools, related mechanics are also under active investigation. Here we studied the structural properties of DNA origami and investigated the energy needed to deform the DNA structures. We used a single-layer rectangular DNA origami tile as a model system and studied its cyclization process. This origami tile was designed with an inherent twist by placing crossovers every 16 base-pairs (bp), corresponding to a helical pitch of 10.67 bp/turn, which is slightly different from that of native B-form DNA (~10.5 bp/turn). We used molecular dynamics (MD) simulations based on a coarse-grained model on an open-source computational platform, oxDNA. We calculated the energies needed to overcome the initial curvature and induce mechanical deformation by applying linear spring forces. We found that the initial curvature may be overcome gradually during cyclization and a total of ~33.1 kcal/mol is required to complete the deformation. These results provide insights into the DNA origami mechanics and should be useful for diverse applications such as adaptive reconfiguration and energy absorption.

show abstract

Auxetic Two‐Dimensional Nanostructures from DNA**

Cited by 22 publications

References 50 publications

Elucidating the Mechanical Energy for Cyclization of a DNA Origami Tile

Elucidating the Mechanical Energy for Cyclization of a DNA Origami Tile

Topological Assembly of a Deployable Hoberman Flight Ring from DNA

Elucidating the Mechanical Energy for Cyclization of a DNA Origami Tile

Contact Info

Product

Resources

About