Controlled Release of Encapsulated Cargo from a DNA Icosahedron using a Chemical Trigger

Banerjee, Anusuya; Bhatia, Dhiraj; Saminathan, Anand; Chakraborty, Saikat; Kar, Shaunak; Krishnan, Yamuna

doi:10.1002/anie.201302759

Cited by 114 publications

(105 citation statements)

References 23 publications

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“…Since then, efforts to fabricate dynamic DNA systems have primarily focused on strand displacement approaches (30) mainly on systems comprising a few strands or arrays of strands undergoing ∼nm-scale motions (31-37) in some cases guided by DNA origami templates (38)(39)(40). More recently, strand displacement has been used to reconfigure DNA origami nanostructures, for example opening DNA containers (19,41,42), controlling molecular binding (43,44), or reconfiguring structures (45). The largest triggerable structural change was achieved by Han et al in a DNA origami Möbius strip (one-sided ribbon structure) that could be opened to approximately double in size (45).…”

mentioning

confidence: 99%

Programmable motion of DNA origami mechanisms

Marras

Zhou

et al. 2015

Proc. Natl. Acad. Sci. U.S.A.

369

388

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DNA origami enables the precise fabrication of nanoscale geometries. We demonstrate an approach to engineer complex and reversible motion of nanoscale DNA origami machine elements. We first design, fabricate, and characterize the mechanical behavior of flexible DNA origami rotational and linear joints that integrate stiff double-stranded DNA components and flexible single-stranded DNA components to constrain motion along a single degree of freedom and demonstrate the ability to tune the flexibility and range of motion. Multiple joints with simple 1D motion were then integrated into higher order mechanisms. One mechanism is a crank-slider that couples rotational and linear motion, and the other is a Bennett linkage that moves between a compacted bundle and an expanded frame configuration with a constrained 3D motion path. Finally, we demonstrate distributed actuation of the linkage using DNA input strands to achieve reversible conformational changes of the entire structure on ∼minute timescales. Our results demonstrate programmable motion of 2D and 3D DNA origami mechanisms constructed following a macroscopic machine design approach.T he ability to control, manipulate, and organize matter at the nanoscale has demonstrated immense potential for advancements in industrial technology, medicine, and materials (1-3). Bottom-up self-assembly has become a particularly promising area for nanofabrication (4, 5); however, to date designing complex motion at the nanoscale remains a challenge (6-9). Amino acid polymers exhibit well-defined and complex dynamics in natural systems and have been assembled into designed structures including nanotubes, sheets, and networks (10-12), although the complexity of interactions that govern amino acid folding make designing complex geometries extremely challenging. DNA nanotechnology, on the other hand, has exploited well-understood assembly properties of DNA to create a variety of increasingly complex designed nanostructures (13-15).Scaffolded DNA origami, the process of folding a long singlestranded DNA (ssDNA) strand into a custom structure (16-18), has enabled the fabrication of nanoscale objects with unprecedented geometric complexity that have recently been implemented in applications such as containers for drug delivery (19,20), nanopores for single-molecule sensing (21-23), and templates for nanoparticles (24, 25) or proteins (26-28). The majority of these and other applications of DNA origami have largely focused on static structures. Natural biomolecular machines, in contrast, have a rich diversity of functionalities that rely on complex but well-defined and reversible conformational changes. Currently, the scope of biomolecular nanotechnology is limited by an inability to achieve similar motion in designed nanosystems.DNA nanotechnology has enabled critical steps toward that goal starting with the work of Mao et al. (29), who developed a DNA nanostructure that took advantage of the B-Z transition of DNA to switch states. Since then, efforts to fabricate dynamic DNA systems hav...

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mentioning

confidence: 99%

Programmable motion of DNA origami mechanisms

Marras

Zhou

et al. 2015

Proc. Natl. Acad. Sci. U.S.A.

369

388

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“…Krishnan et al constructed a controlled release complex using a DNA icosahedron. [79] In this work, the cargo (10 kDa FITC dextran) was encapsulated in the icosahedral cavity, which was then released upon the recognition of cyclic-di-GMP (opening "key" of the icosahedraon) by its DNA aptamer (closing "lock"). Anderson et al used double-helical DNA tetrahedral nanoparticles for the delivery of siRNAs into cells to silence target genes in tumors.…”

Section: In-vivo Cargo Deliverymentioning

confidence: 99%

“…[84] (Figure 5D) Krishnan et al constructed a DNA-icosahedra-based host-cargo complex for functional (a pH reporter) in vivo imaging [85] and on-demand release. [79] Fan et al developed a DNA tetrahedron-based platform for the immobilization of biomolecular probes on a solid surface for sensing applications. [86] In this way, they realized a series of bio-sensing methods with significantly improved performances.…”

Section: In-vivo Cargo Deliverymentioning

confidence: 99%

Supramolecular Wireframe DNA Polyhedra: Assembly and Applications

Mao

Deng

2017

Chin. J. Chem.

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Wireframe, polyhedral, supramolecular complexes made of DNA have uniform sizes, defined three-dimensional shapes, porous facets, hollow interiors, good biocompatibilities, and chemical functionalizability. They confer great potentials in bottom-up nanoengineering towards various applications. In this review, we summarize recent advances in the rational design and programmed assembly of DNA wireframe polyhedra. Their assembly is based on three distinctively different strategies: individual strands-based assembly, tile-based assembly, and scaffolded DNA origami. Applications of these polyhedral structures in templated nanomaterial assembly and in-vivo cargo delivery are discussed. In the future, expanding the structural complexity and exploring their applications, especially in nanomaterials science and biomedicines, should be a primary focus of this rapidly developing and evolving activity of structural DNA nanotechnology.

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“…Addition of an aptamer-specific target induces the folding of the aptamer and displaces it from the duplex, thus unlocking the two parts previously bound together. This strategy has been used for the generation of mechanochemical sensing platforms [82], aptamer-encoded logic gates [32] or for controlled release of encapsulated cargo from a DNA cage [30]. …”

Section: Dna As a Recognition Motifmentioning

confidence: 99%

“…Besides solving design challenges, scientists rapidly succeeded in demonstrating the use of those structures for realistic applications, from the development of addressable molecular pegboards for protein patterning [24][25][26][27] or encapsulation [28][29][30][31][32], to optoelectronic hybrid materials [33] and organic catalysts [34]. Another field in great expansion is coupled to the advancement of single-molecule technologies, enabling for example the precise localization and counting of molecules in spatially distributed samples or the disclosure of anomalous kinetic events occurring on a time scale normally not accessible by standard methods [8,[35][36][37][38][39][40].…”

Section: Introductionmentioning

confidence: 99%