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DNA origami

DNA origami is a technique in structural DNA nanotechnology that enables the self-assembly of long single-stranded DNA (ssDNA) scaffolds into precisely defined two-dimensional (2D) or three-dimensional (3D) nanostructures by using hundreds of short synthetic "staple" DNA strands to guide folding through Watson-Crick base pairing.^[1] This method allows for the creation of complex shapes at the nanoscale, typically ranging from 10 to 100 nanometers in size, with high yield and addressability for attaching functional molecules.^[2] The foundational concept of using DNA as a programmable structural material traces back to Nadrian C. Seeman's 1982 proposal of nucleic acid junctions and lattices to organize matter at the molecular level, laying the groundwork for DNA nanotechnology. DNA origami was pioneered by Paul W. K. Rothemund in 2006, who demonstrated the folding of a ~7,249-nucleotide ssDNA scaffold derived from the M13 bacteriophage genome into arbitrary 2D shapes using 200–250 staple strands, each about 32 nucleotides long, in a magnesium-ion-buffered solution to stabilize the assembly.^[1] This approach advanced the field by enabling scalable, computer-aided design of intricate patterns, such as smiley faces and maps, visualized via atomic force microscopy.^[2] Extensions to 3D structures followed in 2009, with Shih and colleagues developing honeycomb-lattice-based origami to form closed polyhedra like tetrahedrons and nuts, expanding the technique's geometric versatility. At its core, DNA origami operates through scaffolded self-assembly, where design software like caDNAno models helical bundles and staple crossovers to enforce rigidity and shape fidelity, often achieving sub-nanometer precision under thermal annealing conditions.^[3] The resulting nanostructures exhibit biocompatibility, chemical stability in physiological buffers, and site-specific functionalization, making them ideal for bottom-up nanofabrication.^[2] DNA origami has transformative applications across biomedicine, materials science, and photonics, including targeted drug delivery vehicles that respond to cellular cues, plasmonic arrays for enhanced Raman spectroscopy with signal amplifications up to 10¹⁰-fold, and scaffolds for organizing enzymes to boost catalytic cascades.^[2] Recent advances since 2018 include gigadalton-scale assemblies via crisscross polymerization, dynamic molecular motors such as rotary ratchets, and hybrid nanomaterials like gold nanorod superstructures with chiroptical properties, underscoring its evolving role in functional nanodevices and synthetic biology.^[2]

Introduction and Fundamentals

Overview

DNA origami is a nanotechnology technique that enables the folding of a long single-stranded DNA scaffold into precisely defined two-dimensional or three-dimensional nanostructures using hundreds of shorter "staple" strands, which hybridize to the scaffold via Watson-Crick base pairing to enforce the desired geometry.^[1] The approach is analogous to traditional paper origami, in which the extended scaffold DNA serves as the flexible sheet and the staple strands direct folds and junctions to sculpt arbitrary shapes at the nanoscale.^[4] This method provides key advantages over conventional top-down fabrication techniques like electron-beam lithography, including atomic-scale precision with resolutions down to 6 nm, inherent biocompatibility due to the use of DNA as a building material, and exceptional programmability through sequence-specific design of the staple strands.^[1] These properties allow for the bottom-up self-assembly of complex structures with yields and detail comparable to lithographic processes, but in a biocompatible and solution-based format.^[1] Pioneered by Paul W. K. Rothemund in 2006, DNA origami was initially demonstrated by creating diverse two-dimensional patterns, such as smiley faces, maps of the Western Hemisphere, and alphanumeric characters, all assembled from a 7,249-nucleotide scaffold derived from the M13 bacteriophage genome and over 200 staple strands.^[1]^[4] Typical structures span approximately 100 nm by 100 nm in the lateral dimensions, with thicknesses ranging from about 2 nm for flat two-dimensional designs to 100 nm for multilayered or three-dimensional forms, enabling applications in biomedicine and materials science through their programmable assembly.^[1]^[5]^[6]

History and Development

The field of structural DNA nanotechnology originated with Nadrian Seeman's pioneering work in the early 1980s at New York University, where he proposed using DNA as a programmable construction material for assembling periodic lattices and geometric objects. In a 1982 theoretical paper, Seeman introduced the concept of nucleic acid junctions and lattices, emphasizing the potential of DNA's predictable Watson-Crick base pairing to form rigid, branched structures.^[7] He followed this in 1983 by experimentally constructing the first immobile Holliday junctions from synthetic oligonucleotides, which prevented branch migration and served as foundational building blocks for more complex DNA architectures, laying the groundwork for DNA origami.^[8] A major breakthrough came in 2006 when Paul Rothemund, then at the California Institute of Technology, published the seminal paper on DNA origami in Nature. This method involved folding a long single-stranded scaffold DNA (typically from the M13 phage, ~7,249 nucleotides) into two-dimensional shapes using hundreds of short staple strands (~32 nucleotides each), guided by a rasterfill design that allowed parallel bottom-up self-assembly without enzymatic intervention. Rothemund demonstrated the technique by creating diverse nanoscale patterns, such as squares, triangles, and even a map of the Western Hemisphere, achieving resolutions down to 6 nm and enabling the rapid prototyping of arbitrary 2D structures.^[1] The extension to three-dimensional structures marked the next paradigm shift in 2009–2011. William Shih and colleagues at Harvard University reported the self-assembly of DNA into discrete 3D polyhedra, including monoliths, square nuts, and genie bottles, using multilayer origami designs that expanded the scaffold's folding into volumetric forms with high yield and uniformity. Concurrently, Hendrik Dietz's group at the Technical University of Munich advanced isotropic 3D origami, introducing rotationally symmetric crossovers for more flexible and mechanically robust multilayer structures; their 2011 primer provided essential guidelines for scaffolded DNA origami design and assembly. In the 2010s, innovations focused on efficiency and functionality. Dongran Han and coworkers in 2013 developed a unidirectional scaffold-strand arrangement for DNA origami, which streamlined routing and reduced the number of unique staple strands required, facilitating larger and more complex assemblies.^[9] Simultaneously, Masayuki Endo and Hiroshi Sugiyama at Kyoto University pioneered site-specific integration of proteins onto DNA origami scaffolds, enabling precise spatial organization of biomolecules for applications in single-molecule studies and biocatalytic systems, as demonstrated in their 2012 work on high-speed atomic force microscopy visualization.^[10] Recent developments in the 2020s have emphasized scalability and practical translation. Advances in enzymatic methods, such as terminal deoxynucleotidyl transferase (TdT)-catalyzed extension of DNA strands with threose nucleic acid (TNA) for enhanced stability, have supported the production of robust nanostructures.^[11] A 2025 study introduced long-staple designs (100–200 nucleotides per staple), which minimize the number of oligonucleotides needed and enable high-yield assembly of scaffolded origami, paving the way for industrial-scale manufacturing.^[12] Biomedical progress includes pre-clinical demonstrations of DNA origami for targeted drug delivery, with prototypes showing promise in vivo stability and cargo release, advancing toward clinical evaluation.^[13]

Design Principles

Scaffold and Staple Strands

In DNA origami, the scaffold strand serves as the primary structural backbone, typically consisting of a long single-stranded DNA (ssDNA) molecule approximately 7,000 nucleotides in length. The most commonly used scaffold is derived from the M13mp18 bacteriophage genome, which comprises 7,249 nucleotides and is commercially available as a circular ssDNA that can be circularly permuted to initiate linear folding at a desired point. This permutation allows the scaffold to raster-fill the intended nanoscale shape, providing a continuous template for assembly.^[1]^[14] Staple strands are shorter ssDNA oligonucleotides, generally 20–40 nucleotides long, that hybridize to complementary regions on the scaffold to direct its folding into precise architectures. Each staple strand binds to the scaffold at specific locations, with hundreds (often over 200) required per structure to achieve the desired configuration. These staples create crossovers approximately every 10 nucleotides—corresponding to one full helical turn of the DNA double helix—for structural rigidity and to prevent slippage between adjacent helices.^[1]^[15] The specificity of base pairing in DNA origami relies on Watson-Crick rules, where adenine (A) pairs with thymine (T) via two hydrogen bonds and guanine (G) pairs with cytosine (C) via three, ensuring selective hybridization between scaffold and staple regions. Staple sequences are designed to have balanced GC content (typically 40–60%) for optimal thermal stability at crossover points, which interlock parallel helices and minimize misalignment. This design rationale employs double-crossover motifs, where staples bridge two adjacent helices, forming rigid bundled structures usually 2–6 helices wide to maintain overall shape integrity.^[1]^[16] Variations in scaffold design include custom ssDNA sequences generated from synthetic genes or plasmids, enabling structures larger than the standard M13mp18, up to approximately 10,000 nucleotides or more for expanded nanoscale assemblies. These custom scaffolds maintain the core principles of staple hybridization but allow for tailored lengths and sequences to accommodate complex or oversized geometries.^[17]^[18]

Computational Design Tools

Computational design tools play a crucial role in DNA origami by enabling the precise modeling, sequence generation, and optimization of nanostructures before physical assembly. These tools facilitate the arrangement of scaffold and staple strands, predict three-dimensional (3D) conformations, and analyze mechanical stresses, thereby reducing experimental trial-and-error. Early software focused on lattice-based designs, while modern tools incorporate advanced simulations and automation for complex, free-form structures.^[19] One of the earliest tools, Tiamat, introduced in 2008, provided a graphical user interface for editing and visualizing complex DNA structures in three dimensions, particularly suited for honeycomb and square lattice designs common in initial DNA origami efforts. However, Tiamat had limitations in handling intricate 3D geometries and automated sequence generation, requiring significant manual input. Similarly, vHelix, developed around 2012 as a plugin for Autodesk Maya, allowed users to design polyhedral DNA nanostructures by importing 3D meshes and routing strands along edges, but it was constrained to wireframe topologies and struggled with rasterized, multilayered 3D complexity.^[20]^[21]^[22] caDNAno, released in 2009 as an open-source platform, marked a significant advancement by supporting both two-dimensional (2D) and 3D raster designs through an intuitive drag-and-drop interface for bundling helices and routing staple strands. Users can visually assign scaffold paths and generate complementary staple sequences, exporting designs compatible with synthesis and assembly protocols; it remains widely used due to its accessibility and integration with downstream tools.^[23]^[24] For more sophisticated analysis, CanDo employs finite element modeling to predict 3D structures and evaluate mechanical properties, such as stress distribution and flexibility, from caDNAno inputs, achieving predictions at single base-pair resolution in minutes. This tool has revealed that DNA origami bending moduli are approximately 230 pN·nm², consistent with the bending rigidity of double-stranded DNA (persistence length ~50 nm), aiding in the design of mechanically robust nanostructures. Complementing this, oxDNA, a coarse-grained molecular dynamics model introduced in 2013 and refined through the 2020s, simulates folding kinetics and self-assembly pathways by modeling nucleotide-level interactions, including electrostatics and base stacking, to validate design stability under thermal conditions.^[25]^[26]^[27] Key algorithms underpin these tools, including graph-based routing for optimizing staple paths, which maps designs to weighted graphs where shortest paths minimize hybridization errors and ensure complete scaffold coverage. For instance, recent implementations use edge weights to score route favorability, improving folding accuracy in multilayered structures. Finite element methods, as in CanDo and extensions like SNUPI, further quantify mechanical behaviors by discretizing nanostructures into elements that account for bending, twisting, and electrostatic forces.^[16]^[28] In the 2020s, tools have evolved toward automation and integration, with AI-assisted platforms like generative design software enabling rapid exploration of wireframe DNA origami shapes by optimizing geometries against user-defined constraints, such as symmetry or curvature. Examples include Adenita for multilayered voxel designs, MagicDNA for scaffold-free wireframes, and ENSnano for interactive editing with real-time previews; these facilitate hybrid applications in nanoelectronics by exporting to CAD formats for combining with inorganic components. As of 2025, further advancements include generative design tools relying on grammar rules for diverse wireframe structures and DAEDALUS for constraint-based algebraic designs, enhancing automation and shape exploration. Such advancements, building on graph theory and machine learning, have accelerated the creation of diverse, functional nanostructures.^[29]^[30]^[31]^[32]^[33]

Fabrication Techniques

Self-Assembly Process

The self-assembly process of DNA origami begins with the preparation of the folding reaction mixture, where the long single-stranded DNA scaffold, typically at a concentration of 10-20 nM, is combined with staple strands at a 10-fold excess (approximately 100-200 nM each) in a folding buffer. This buffer commonly includes 5 mM Mg²⁺ to screen electrostatic repulsion between negatively charged DNA backbones and 40 mM Tris·HCl at pH 7.4-8.0 for maintaining optimal ionic conditions during hybridization. Divalent cations like Mg²⁺ or Ca²⁺ are essential for stabilizing the double helices by reducing repulsion and promoting strand association, with Mg²⁺ being the most widely used due to its compatibility with downstream applications. Following preparation, the mixture undergoes thermal annealing to drive the folding. The standard protocol involves a temperature ramp starting from 95°C, where strands are denatured, down to 25°C over 12-72 hours, with a controlled cooling rate of about 1°C per minute to enable sequential hybridization. This gradual cooling facilitates the self-assembly kinetics, beginning with nucleation at higher temperatures—where a small number of staple strands bind to the scaffold to form an initial seed structure—followed by rapid "zipping" of the remaining staples along the scaffold to complete the target shape. For simple two-dimensional designs, this process achieves yields exceeding 90%, reflecting the high fidelity of the programmed base-pairing interactions.^[2] To enhance scalability, efforts in the 2010s introduced microfluidic annealing systems that accelerate folding to under 1 hour while maintaining high yields through precise temperature gradients and reduced reaction volumes. Recent advances include isothermal self-assembly methods, which enable folding at constant room temperature using magnesium-free buffers with monovalent salts like NaCl, avoiding thermal ramps and improving process efficiency for complex or sensitive structures.^[34] Additionally, enzymatic amplification methods, such as bacterial production of scaffold strands via phage replication in shaker-flask cultures, enable mass production of DNA origami components at gram scales, lowering costs for large-scale applications.^[35]

Purification and Characterization

After the self-assembly of DNA origami nanostructures, purification is essential to remove excess staple strands and isolate the correctly folded products from misfolded or incomplete assemblies. The most widely adopted method is agarose gel electrophoresis (AGE), which separates DNA origami based on size and shape due to differences in electrophoretic mobility; folded structures migrate slower than free staples, allowing extraction of the desired band via excision and elution. ^[36] Alternative techniques include polyethylene glycol (PEG) precipitation, which exploits the lower solubility of larger DNA origami in PEG solutions to selectively precipitate them while keeping excess staples in solution, and rate-zonal ultracentrifugation, which uses density gradients to fractionate structures by sedimentation velocity for scalable purification with resolution comparable to AGE. ^[37] ^[38] Yields of purified DNA origami typically range from 50% to 95% for optimized designs, depending on factors such as structural complexity and assembly conditions, with higher efficiencies achieved through refined annealing protocols and staple strand ratios. These yields are commonly assessed by quantifying band intensities in AGE, where the ratio of the origami band to total DNA provides a direct measure of folding efficiency. ^[36] Characterization of purified DNA origami relies on imaging techniques to visualize structure and confirm integrity. Atomic force microscopy (AFM) provides high-resolution topographical images in air or liquid, achieving ~1 nm lateral resolution to reveal surface features and overall dimensions of two- and three-dimensional designs. ^[39] Transmission electron microscopy (TEM), often employing negative staining with uranyl acetate to enhance contrast, offers insights into internal architecture and connectivity, with sub-nanometer resolution suitable for validating bundle cross-sections and wireframe lattices. ^[40] Spectroscopic methods complement imaging for bulk analysis. Ultraviolet-visible (UV-Vis) spectroscopy determines origami concentration by measuring absorbance at 260 nm, accounting for the hyperchromic effect of double-stranded DNA while correcting for residual staples post-purification. ^[41] Dynamic light scattering (DLS) assesses hydrodynamic size distribution and polydispersity, enabling detection of aggregation or incomplete folding in solution with sensitivity to structures as small as 10 nm. ^[42] Advanced techniques provide deeper insights into three-dimensional conformation and dynamics. Cryo-electron microscopy (cryo-EM), developed for DNA origami in the 2010s, enables 3D reconstruction at near-atomic resolution (~1 nm) by imaging vitrified samples, as demonstrated in the first full structural model of a complex origami object. ^[43] Single-molecule Förster resonance energy transfer (smFRET) tracks folding pathways and structural fluctuations in real time, revealing transient intermediates and breathing motions in dynamic designs with spatiotemporal resolution down to milliseconds. ^[44]

Structural Variations

Two-Dimensional Structures

Two-dimensional DNA origami structures are primarily assembled using rasterfill patterns, in which a long scaffold strand is routed through parallel bundles of double-stranded DNA helices arranged in a honeycomb or square lattice to form flat, filled shapes. This design strategy, introduced by Paul Rothemund in 2006, enables the creation of arbitrary nanoscale patterns by connecting adjacent helices with staple strands at periodic crossover points every 7 or 21 nucleotides, ensuring structural integrity across the plane.^[1]^[45] Foundational examples include geometric forms such as dolmens, equilateral triangles, and more complex motifs like smiling faces or maps of the western United States coastline, all spanning up to 100 nm in lateral dimensions while maintaining high yields over 90% under optimized annealing conditions.^[1] The complexity of these structures arises from the use of approximately 200 short staple strands to fold the ~7,249-nucleotide M13mp18 scaffold into intricate, non-repeating designs, such as detailed geographic maps or patterns approximating aperiodic tilings that avoid long-range periodicity. These configurations allow for pixel-like resolution at the 5-6 nm scale of each helical segment, facilitating the encoding of information or artistic representations at the nanoscale. Mechanically, the planar rigidity of these sheets stems from the dense network of inter-helix crossovers, which resist bending with a persistence length on the order of hundreds of nanometers, while targeted omissions or modifications at hinge regions introduce localized flexibility for rudimentary shape transitions, such as flapping or pivoting motions.^[1]^[46]^[47] Notable extensions include the 2010 assembly of a DNA origami Möbius strip, a single-sided topological ribbon approximately 30 nm wide and 210 nm long, formed by twisting the helical bundles into a half-loop with seamless crossovers to demonstrate non-trivial geometry in two dimensions. Additionally, designs incorporating embedded conductive paths have been realized by selectively metallizing staple strands with silver nanoparticles or nanowires, enabling low-resistance electrical conduction along predefined routes within the 100 nm-scale sheet for potential nanoelectronic prototyping. Despite these advances, two-dimensional structures are inherently limited to a thickness of about 2 nm per monolayer due to the diameter of the DNA double helix, though this constraint is mitigated through multilayer stacking, where multiple parallel sheets are interlocked via shared staples to build thicker assemblies while preserving planarity.

Three-Dimensional and Wireframe Structures

Three-dimensional (3D) DNA origami structures extend the capabilities of the technique beyond planar designs by enabling the creation of volumetric architectures with precise control over shape and internal features. Early multilayer 3D designs utilized pleated layers of parallel DNA helices arranged in a honeycomb lattice, allowing for the assembly of compact objects such as boxes and nuts formed from 6-helix bundles, typically on the scale of 30-50 nm. These structures, developed by Shih and colleagues, demonstrated the feasibility of folding a single scaffold strand with staple oligonucleotides to form enclosed volumes suitable for nanoscale containment. Subsequent advancements introduced curved and isotropic 3D forms with enhanced symmetry. In 2011, Yan's group reported pleated multilayer designs capable of forming complex curvatures, exemplified by a nanoscale flask approximately 70 nm tall and 40 nm wide, constructed from 35 concentric helical rings that taper to enclose a cavity. For isotropic structures, Dietz and coworkers in 2012 demonstrated the cryo-EM structure of a complex 3D DNA origami object, highlighting advances in imaging large assemblies.^[43] Wireframe designs further advanced 3D origami by minimizing staple usage and creating open-lattice frameworks, reducing overall DNA material requirements by up to 75% compared to solid multilayer approaches. Han et al. in 2013 pioneered this using four-arm junctions as vertices connected by double-helix edges, enabling the construction of polyhedral wireframes like DNA tetrahedra with longer staple strands spanning multiple edges for efficient routing. These designs prioritize skeletal frameworks over filled volumes, facilitating larger spans and lower material costs while preserving nanoscale precision. Representative examples of 3D and wireframe origami include viral capsid mimics, such as icosahedral-like assemblies reported in 2015 that replicate symmetric protein shells for potential cargo encapsulation.^[48] In the 2020s, chiral 3D structures have emerged for photonic applications, with diamond-lattice assemblies of helical bundles exhibiting tailored optical chirality through controlled twisting and periodic arrangement.^[49] These architectures offer advantages in complexity, allowing enclosed volumes for cargo protection and integration into higher-order materials, while addressing challenges like folding yields, which typically range from 20-50% for intricate 3D forms due to kinetic trapping and strand entanglement.^[48]^[2]

Dynamic and Functional Origami

Reconfigurable Designs

Reconfigurable DNA origami structures enable dynamic shape changes through controlled transitions from static to responsive configurations, leveraging intrinsic DNA properties for actuation without external mechanical input. These designs typically incorporate flexible hinges or displacement mechanisms that allow reversible folding, unfolding, or motion in response to specific triggers, facilitating applications in nanoscale transport and sensing. Seminal work demonstrated this capability with a three-dimensional DNA box featuring a lid that opens via strand displacement, where a key strand binds to release the latch and expose an internal cavity for cargo. Hinge-based actuation relies on local flexibility in the DNA scaffold, often at junctions where double helices pivot, enabling large-scale conformational shifts. In the 2009 DNA box design, the lid was secured by a DNA triplex structure sensitive to pH changes, allowing protonation at low pH to destabilize the triplex and initiate opening through strand displacement, though the primary trigger was a complementary key strand. This approach highlighted the potential for environmental responsiveness, with the box dimensions of 42 × 36 × 36 nm providing a contained space for molecular cargo. Subsequent refinements extended hinge mechanisms to lattices, where pH shifts from 7.4 to 5.0 induced reconfiguration from open to closed states in two-dimensional arrays.^[50] Toehold-mediated strand displacement, inspired by early DNA nanotechnology principles from Seeman's group, provides precise kinetic control for reversible reconfiguration. This process involves a short single-stranded toehold (typically 6-8 nucleotides) that initiates hybridization of an invading strand, displacing the incumbent strand and altering the structure with second-order rate constants on the order of 10⁶ M⁻¹ s⁻¹ for optimal toehold lengths. In DNA origami, this enables isothermal transitions, such as unfolding bundles or switching arms, without thermal denaturation, allowing cycles of assembly and disassembly driven by fuel strands. The kinetics follow an exponential dependence on toehold length, ensuring specificity and speed in complex environments.^[51] Representative examples include DNA walkers that exhibit stepwise motion along predefined tracks. In a 2010 design, a "molecular spider" with multiple enzymatic legs traversed a DNA origami surface by cleaving substrate footholds, achieving directional walking over micrometer distances through sequential binding and release, powered by enzymatic activity rather than strand displacement alone. For cargo manipulation, scorpion-like grippers use hinged arms that close upon trigger activation to secure and release payloads, as demonstrated in reconfigurable nanocapsules where pH-induced displacement opens claws for targeted unloading. These walkers and grippers illustrate how reconfiguration can mimic biological motility, with step sizes matching the 30-60 nm spacing of DNA helices.^[52] Various stimuli trigger these reconfigurations, expanding functionality. pH changes, as in the original box and later lattices, exploit protonation of cytosine-rich motifs to form Hoogsteen-type triplex structures that drive lid opening or lattice contraction at acidic conditions typical of cellular compartments. Temperature responsiveness utilizes melting of specific duplexes above 40-50°C to unfold hinges, enabling reversible expansion in thermo-sensitive arrays without global denaturation of the scaffold. Light actuation incorporates azobenzene moieties attached to staple strands, where UV irradiation (365 nm) induces cis-trans isomerization, disrupting base pairing to open flaps or rotate domains, with visible light (450 nm) reversing the process for cyclable motion. Enzymatic triggers, such as restriction endonucleases, cleave specific sequences to release gates in vaults, confining and liberating enzymes on demand for controlled catalysis. Recent 2025 advances include multi-reconfigurable DNA origami lattice actuators that transform shapes in response to combinations of external cues, such as pH and temperature, and size-switchable structures enabled by dynamic crossovers for stimuli-responsive resizing.^[50]^[53]^[54]^[55]^[56]^[57] In the 2020s, advances focused on autonomous motors powered by fuel strands for sustained operation via Brownian ratcheting. A 2020 design featured a rod-shaped DNA origami motor that translocates ballistically over micrometer distances on surfaces, using sequential strand displacement of fuel molecules to burn bridges behind it, achieving speeds up to 100 nm/min without external fields. This burnt-bridge mechanism rectifies thermal fluctuations into directed motion, with fuel consumption driving hundreds of steps per assembly, approaching the efficiency of natural protein motors.

Integration with Other Molecules

DNA origami scaffolds enable the precise attachment and organization of non-DNA molecules, such as proteins, nanoparticles, and small molecules, through specific chemical and biological interactions that leverage the programmable addressability of DNA nanostructures. This integration expands the functionality of DNA origami beyond pure nucleic acid assemblies, allowing for the creation of hybrid systems with applications in synthetic biology and nanotechnology. The attachment typically occurs via exposed single-stranded DNA handles or modified staple strands on the origami surface, ensuring site-specific binding without disrupting the overall scaffold integrity.^[58] Common attachment strategies include the use of biotin-streptavidin interactions for proteins, where biotinylated proteins bind to streptavidin molecules pre-attached to the DNA origami via biotinylated DNA staples, providing a strong, non-covalent linkage with dissociation constants in the femtomolar range. For nanoparticles, particularly gold nanoparticles, thiol-gold chemistry facilitates covalent attachment, in which thiol-modified DNA strands on the nanoparticle surface hybridize to complementary overhangs on the origami, enabling stable immobilization even in physiological conditions. Small molecules are often integrated via aptamer binding, where DNA aptamers—short, single-stranded sequences selected for high-affinity binding—are incorporated into the origami design to selectively capture targets like metabolites or drugs through specific molecular recognition.^[59]^[60]^[61] The spatial control afforded by DNA origami allows for precise positioning of attached molecules on a sub-10 nm scale, such as a 5 nm grid defined by the helical pitch of B-form DNA, which is crucial for organizing enzyme cascades to enhance reaction efficiency or arranging quantum dots to tune optical properties. In enzyme cascades, for instance, multiple enzymes can be positioned at defined distances to minimize diffusion losses and optimize substrate channeling, as demonstrated in wireframe origami structures where bienzyme assemblies improved catalytic turnover rates by up to 10-fold compared to free enzymes. Similarly, quantum dots attached at controlled intervals enable the creation of extended photonic chains with programmable emission wavelengths.^[62] Representative examples include the organization of protein arrays on DNA origami for synthetic biology applications in the 2010s, where biotin-streptavidin mediated the assembly of functional enzymes like restriction endonucleases into ordered lattices, facilitating pathway reconstruction with yields exceeding 80% and enabling bottom-up construction of metabolic networks. Another early milestone was the 2010 assembly of gold nanoparticle dimers and chains on triangular DNA origami templates using thiol-gold linkages, which positioned particles at sub-10 nm separations to generate plasmonic hotspots for surface-enhanced Raman scattering with enhancement factors of 10^4 to 10^6.^[2]^[60] Attachment efficiencies typically range from 70-90% for site-specific bindings, influenced by factors like linker length and surface density, though dense packing can lead to steric hindrance that reduces yields to below 50% in crowded configurations due to electrostatic repulsion and physical occlusion between molecules.

Biomedical Applications

Targeted Drug Delivery

DNA origami nanostructures serve as versatile vehicles for targeted drug delivery in biomedicine, enabling the precise transport and controlled release of therapeutic agents to specific cellular targets, particularly in cancer therapy. These structures, typically engineered in sizes ranging from 50 to 100 nm to facilitate cellular uptake via endocytosis, can encapsulate hydrophobic drugs like doxorubicin through intercalation into the DNA double helix or bind nucleic acid therapeutics such as small interfering RNA (siRNA) via hybridization.^[63]^[64] Tubular DNA origami designs, often formed by folding a long single-stranded DNA scaffold into cylindrical shapes approximately 100 nm in length, have been utilized to load doxorubicin, achieving high encapsulation efficiencies of hundreds of molecules per structure due to the drug's affinity for DNA.^[63] Similarly, octahedral or framework-based DNA origami can organize multiple siRNA strands on their surfaces or interiors, protecting them from nuclease degradation while promoting endosomal escape for gene silencing.^[65] To enhance specificity, DNA origami vehicles are functionalized with targeting ligands such as aptamers or antibodies conjugated to protruding DNA strands, directing them to overexpressed receptors on cancer cells. For instance, folate moieties attached to the origami scaffold bind to folate receptors prevalent on breast and ovarian cancer cells, enabling selective uptake and reducing delivery to healthy tissues.^[66] Antibody conjugation, such as anti-epidermal growth factor receptor (EGFR) antibodies, has been integrated into rod-like DNA origami to target EGFR-positive tumor cells, demonstrating up to 10-fold higher binding affinity compared to non-targeted controls in vitro.^[67] Drug release from these nanostructures is often triggered by environmental cues within the tumor microenvironment or endosomes. pH-sensitive mechanisms exploit the acidic conditions of endosomes (pH ≈ 5.5), where protonation of DNA bases destabilizes the structure, leading to significantly faster doxorubicin release than at physiological pH 7.4.^[68] Photo-triggered disassembly, using near-infrared (NIR) light to activate embedded photothermal agents or cleavable linkers, allows spatiotemporal control, with studies showing over 60% doxorubicin release within 24 hours under NIR irradiation at pH 5.0.^[69] In vivo studies have validated the efficacy of DNA origami for tumor-targeted delivery. Studies in mouse models of breast cancer have demonstrated enhanced accumulation of doxorubicin-loaded DNA origami in tumors compared to free drug, attributed to the enhanced permeability and retention (EPR) effect and prolonged circulation stability.^[70] Preclinical research in xenograft models has shown targeted DNA origami reducing tumor growth while minimizing systemic toxicity. As of 2025, biomedical applications of DNA origami remain in preclinical stages, with no reported clinical trials. Compared to traditional liposomal carriers, DNA origami offers superior biocompatibility due to its biological origin, with lower immunogenicity and faster renal clearance, alongside precise spatial control over ligand placement that minimizes off-target effects.

Biosensing and Imaging

DNA origami nanostructures have emerged as versatile platforms for biosensing, enabling the precise detection of biomolecules through engineered molecular recognition elements integrated into their scaffolds. These designs often incorporate fluorophore-quencher pairs that facilitate Förster resonance energy transfer (FRET) mechanisms, where binding events between target analytes and aptamers or antibodies on the origami surface disrupt quenching, producing detectable fluorescence signals. For instance, origami-based chips have demonstrated high sensitivity for thrombin detection, achieving limits of detection as low as 1 nM by leveraging the structural rigidity of DNA scaffolds to position reporters in close proximity for efficient FRET. This approach benefits from the nanoscale addressability of DNA origami, allowing multiple sensing sites to be spatially organized on a single structure for enhanced signal specificity and reduced background noise. In imaging applications, DNA origami enables super-resolution techniques that surpass the diffraction limit of light microscopy. A seminal method, DNA points accumulation in nanoscale topography (DNA-PAINT), introduced in 2014, utilizes transient hybridization between origami-immobilized docking strands and fluorescently labeled imager strands to generate stochastic binding events, enabling localization precisions down to 1 nm when combined with stochastic optical reconstruction microscopy (STORM). This technique has been applied to visualize complex biomolecular structures, such as synaptic proteins in neurons, providing insights into cellular architecture at unprecedented resolution. Additionally, DNA origami scaffolds have facilitated intracellular protein tracking by conjugating tracking dyes to the nanostructures, allowing real-time monitoring of dynamic processes like endosomal trafficking without significant perturbation to cellular functions. DNA origami has also been adapted for viral detection, particularly in rapid diagnostic assays. During the COVID-19 pandemic, DNA nanostructure-based scaffolds functionalized with SARS-CoV-2 spike protein-binding aptamers served as portable biosensors for detecting viral antigens in under 30 minutes.^[71] For in vivo applications, DNA origami nanostructures conjugated with near-infrared dyes have enabled non-invasive imaging in mouse models, highlighting their potential for deep-tissue diagnostics. A key advantage of these platforms is their capacity for multiplexing, where diverse analytes—such as multiple cytokines or pathogens—can be simultaneously detected on the same origami tile through orthogonal hybridization sites, improving diagnostic throughput in complex biological samples.^[72]

Nanotechnology and Materials Applications

Nanoscale Devices and Motors

DNA origami has enabled the fabrication of intricate nanoscale mechanical devices and motors that mimic biological molecular machines, such as rotors and walkers, by leveraging the precise spatial control and programmability of self-assembled DNA structures. These devices operate at the molecular scale, typically spanning tens to hundreds of nanometers, and convert input energy into directed motion, paving the way for synthetic molecular machinery in nanotechnology. Key advancements include rotary mechanisms and linear actuators, which demonstrate controlled rotation and translation through hybridization-based actuation or external stimuli. Rotary motors constructed from DNA origami represent a milestone in emulating biological rotary ATPases, with Hendrik Dietz's group developing gear-like structures in 2016 that achieve passive rotation up to 180 degrees via tight-fitting 3D origami components, including a rotor arm pivoting within a stator frame. These structures, assembled from multi-stranded DNA scaffolds, exhibit frictionless dynamics driven by thermal fluctuations, allowing reversible motion without external energy input. Subsequent refinements, such as the 2022 DNA origami rotary ratchet motor, enable active, unidirectional rotation powered by strand displacement, approaching the torque and speed of natural F1-ATPase enzymes. Linear walkers, foundational to DNA-based transport systems, originated with Friedrich Simmel's contributions to bipedal designs in 2004, featuring a DNA walker that processively steps along a predefined track via sequential hybridization and strand release. These early non-origami prototypes evolved into origami-integrated systems, where rigid DNA tracks guide bipedal or multipedal walkers with step sizes of approximately 10 nm and speeds on the order of 1 nm/s, as demonstrated in single-molecule fluorescence studies of actuated origami platforms. The enhanced structural rigidity of origami scaffolds enables longer-range, more stable motion compared to flexible DNA tracks. Notable examples include cargo-transporting robots reported in 2015, where a gold nanorod "walker" propelled by DNA hybridization performs stepwise translocation along an origami track, effectively transporting plasmonic cargo over micrometer distances. Similarly, synthetic ion channels derived from origami pores, such as membrane-spanning DNA duplexes forming selective conduits, facilitate ion transport with conductances up to 1 nS, mimicking protein channels for potential use in artificial membranes. These devices are powered by diverse energy sources, including chemical fuels like ATP analogs that drive hybrid kinesin-DNA motors on origami scaffolds or synthetic strand-displacement cascades acting as non-enzymatic equivalents. Light-driven actuation has also been integrated, with azobenzene-modified origami enabling photoisomerization to induce conformational changes and directional walking at speeds exceeding 40 nm/min under UV irradiation. Recent 2025 developments extend DNA origami to quantum interfaces, where spin-labeled structures pattern programmable 2D arrays of molecular spins on diamond surfaces for nitrogen-vacancy (NV) center qubits, enabling nanoscale quantum sensing and computing with preserved spin coherence and site-specific qubit addressing.^[73]

Self-Assembled Materials

DNA origami facilitates the self-assembly of extended crystalline structures by designing shape-complementary tiles that interlock via base-pairing interactions, enabling the formation of programmable two-dimensional lattices. In a seminal demonstration, square-shaped DNA origami tiles with blunt ends were used to assemble into ordered arrays spanning 2–3 micrometers on each edge, achieving crystalline order through controlled hybridization conditions including magnesium ions and thermal annealing. These lattices exhibit long-range positional order, with defects minimized by optimizing tile geometry and surface interactions, representing a key step toward scalable periodic materials from nanoscale building blocks. Films and surfaces formed by DNA origami arrays provide platforms for high-density organization on substrates, supporting applications such as biosensors through precise molecular positioning. Large-scale deposition of purified DNA origami nanostructures on silicon and glass substrates has been achieved via electrophoretic methods, yielding uniform monolayers without salt crystallization artifacts and enabling wafer-scale coverage.^[74] In three dimensions, DNA origami serves as crosslinks in hydrogels, where rigid nanostructures bridge polymer chains to create mechanically tunable networks with enhanced stiffness.^[75] Such assemblies achieve surface densities up to approximately 10^{10} structures per cm² on silicon, though challenges persist in maintaining long-range order beyond micrometer scales due to thermal fluctuations and substrate heterogeneity.^[76] DNA origami also underpins the creation of metamaterials with exotic optical properties, such as chirality-induced negative refractive index, by templating nanoparticle arrangements into periodic arrays. Chiral DNA origami scaffolds assemble gold nanoparticles into helical structures that exhibit strong circular dichroism and magnetic resonances at visible wavelengths, enabling effective negative refractive index in the near-infrared.^[77] Responsive metamaterials further extend this capability, with pH-tunable reconfiguration of quasi-enantiomeric plasmonic arrays on origami platforms causing reversible bending and shifts in optical activity under stimuli.^[78] Representative examples include DNA origami-templated metallization for patterning graphene sheets, where silver-coated origami transfers precise nanostructures onto graphene surfaces to enhance conductivity and enable circuit fabrication.^[79] These approaches have demonstrated photovoltaic enhancements through optimized light harvesting in origami-assembled nanoparticle arrays, improving efficiency by up to 20% via plasmonic field concentration.^[80] In 2025, DNA origami has been used to direct the integration of colloidal nanophotonic materials into prescribed architectures for enhanced light-matter interactions.^[81] Overall, while yields reach high local densities, achieving defect-free macroscopic order remains a key scalability hurdle for practical material applications.

Challenges and Future Directions

Scalability and Stability Issues

One major challenge in DNA origami production is the high cost associated with component synthesis. The long scaffold strand, typically derived from M13 phage DNA, can be produced biologically via phage amplification at low cost, enabling scalable yields through fermentation processes.^[82] In contrast, the hundreds of short staple strands required for folding are chemically synthesized, leading to overall material expenses that limit large-scale fabrication.^[18] Yield and error rates further complicate scalability, as misfolding can affect 40-50% of structures under optimized annealing conditions, but incomplete assembly or off-pathway errors can reduce overall efficiency to 50-60% depending on design complexity.^[16] Strategies such as incorporating redundant or "proofreading" staple sequences help correct minor hybridization errors during folding, improving structural fidelity without additional post-assembly steps.^[83] Stability remains a critical barrier, particularly in biological environments, where unprotected DNA origami undergoes nuclease degradation with a half-life of approximately hours in serum due to enzymatic cleavage of exposed single-stranded regions.^[84] Thermal stability is limited, with melting temperatures typically ranging from 50-60°C in standard buffers, beyond which the structures disassemble via strand dissociation.^[85] Protective modifications like PEGylation, involving attachment of polyethylene glycol chains to staple ends, extend nuclease resistance and thermal tolerance by shielding the DNA backbone and reducing enzymatic access. DNA origami rigidity and integrity are highly sensitive to environmental factors, with structural stiffness dependent on divalent salt concentrations (e.g., Mg²⁺ at 10-20 mM for optimal folding and maintenance), as low-salt conditions lead to flexible, unstable conformations. pH stability spans approximately 5-9, where deviations cause protonation or deprotonation of bases, disrupting base pairing and leading to denaturation outside this range.^[86] As of 2025, industrial scaling for therapeutic applications poses ongoing challenges, including the need for good manufacturing practice (GMP)-compliant production pilots to ensure purity, reproducibility, and regulatory approval for clinical use.^[87]

Emerging Advances and Research Trends

Recent advancements in enzymatic synthesis have enabled the production of custom-length single-stranded DNA scaffolds for DNA origami using polymerase-based methods. In 2023, researchers demonstrated asymmetric polymerase chain reaction (aPCR) with Taq polymerases to generate scaffolds of varying lengths, facilitating the direct assembly of functionalized DNA nanoparticles without the limitations of fixed-length viral genomes. This approach improves scalability by allowing precise control over scaffold size, achieving high yields of pure single-stranded DNA suitable for complex origami designs.^[88] Hybrid systems combining DNA origami with RNA components have introduced enhanced dynamic properties. Advances in RNA origami, including developments since 2023, leverage co-transcriptional folding for potentially faster assembly kinetics compared to purely DNA-based systems, enabling biologically compatible nanostructures with improved responsiveness in cellular environments.^[89] Integration of these hybrid designs with CRISPR-Cas systems has advanced gene editing capabilities; for instance, DNA origami scaffolds have been used to deliver CRISPR components for precise genomic integration and post-processing reconfiguration of nanostructures post-2020.^[90] These hybrids facilitate targeted editing by organizing Cas proteins and guide RNAs with nanometer precision, enhancing delivery efficiency in therapeutic applications. Artificial intelligence and machine learning have revolutionized de novo design of DNA origami. Generative design frameworks introduced in 2024 enable automated creation of wireframe nanostructures from user-defined constraints, optimizing routing and staple strand placement to achieve high folding fidelity without predefined meshes.^[29] Machine learning models, such as those predicting stability in physiological media as of 2025, support rational design by forecasting assembly outcomes, reducing experimental iterations and enabling complex, reconfigurable architectures with reported folding accuracies exceeding 90% in validated cases.^[91] Emerging trends include the application of DNA origami in quantum sensing. In 2025, DNA origami was employed to pattern programmable two-dimensional arrays of gadolinium spins on diamond surfaces, interfacing with nitrogen-vacancy centers for high-resolution quantum sensing of magnetic fields at the nanoscale. This approach preserves quantum coherence while allowing precise control over spin spacing, opening avenues for advanced quantum technologies.^[73] Space-related research highlights potential for DNA origami in microgravity assembly; explorations of DNA-mimicking nanomaterials in microgravity (e.g., during the 2023 Ax-2 mission) show improved homogeneity and bioactivity in orbital fabrication, suggesting parallels for origami-based self-assembly in extraterrestrial environments.^[92] Future directions face ethical and regulatory challenges, particularly in nanomedicine. Key hurdles include standardized physicochemical characterization, immunotoxicity assessment, and harmonized guidelines for clinical translation of DNA origami therapeutics, as emphasized in 2024 reviews on nanomedicine innovation. Additionally, DNA origami shows promise in environmental applications, such as structured nanomaterials for pollutant sequestration, though scalability remains a barrier.^[93]

DNA Nanotechnology Precursors

The field of DNA nanotechnology began with foundational efforts to engineer DNA structures beyond the canonical B-form double helix, enabling the creation of rigid, branched motifs for programmed assembly. In 1982, Nadrian Seeman proposed the concept of immobile nucleic acid junctions, which are four-arm DNA structures designed to prevent branch migration—a natural process that destabilizes branched DNA in vivo—through sequence symmetry constraints that lock the arms in place.^[7] These immobile junctions, typically ~10 nm in scale, allowed for the first time the stable formation of non-linear DNA geometries, such as Holliday junction analogs, serving as rigid building blocks for potential lattices.^[94] Experimental realization followed in 1983, when Seeman and colleagues synthesized and characterized such a four-arm junction from synthetic oligonucleotides, confirming its immobility via gel electrophoresis and demonstrating its utility in creating branched motifs resistant to rearrangement.^[8] Building on these junctions, researchers developed more complex rigid tiles to facilitate algorithmic self-assembly into periodic lattices. The double-crossover (DX) motif was introduced in 1993 by Tsu-Ju Fu and Nadrian Seeman.^[95] A key advance came in 1998 when Erik Winfree, Furong Liu, Lisa A. Wenzler, and Nadrian Seeman used DX tiles, which consist of two double-helical domains connected by two crossover points to enhance rigidity and specificity. These antiparallel DX tiles, approximately 10-20 nm in length, were designed to self-assemble into two-dimensional crystalline arrays through complementary sticky ends, as observed via atomic force microscopy, enabling the formation of extended lattices with programmable spacing of about 32 nm per tile repeat. The double-crossover architecture minimized flexibility compared to single-crossover motifs, allowing for error-corrected assembly and laying the groundwork for computational pattern formation in DNA nanostructures. Further progress in tile-based lattices emphasized computational capabilities, exemplified by Paul Rothemund's work on algorithmic self-assembly using DNA tiles to generate complex patterns. In 2004, Rothemund, Efthimis Papadakis, and Erik Winfree demonstrated the self-assembly of DNA tiles into Sierpinski triangle fractals, a canonical pattern from cellular automata theory, using 29 unique tile types incorporating DX and triple-crossover motifs. This system, nucleated by long single-stranded DNA seeds, produced ordered fractal lattices up to 500 nm in size, visualized by atomic force microscopy, showcasing how tile interactions could execute logical operations during growth to form non-periodic patterns. Such designs highlighted DNA's potential as a medium for parallel computation through self-assembly, bridging structural engineering with information processing. Despite these advances, early DNA nanotechnology faced significant limitations that constrained its scale and practicality. Structures assembled from immobile junctions and DX tiles were generally limited to dimensions under 10 nm per motif, resulting in finite lattices rarely exceeding a few hundred nanometers due to error accumulation and low yields in thermal annealing.^[96] Many designs required enzymatic steps, such as ligation with T4 DNA ligase to covalently seal nicks and enhance stability, adding complexity and reducing reproducibility in solution-based assembly.^[97] These challenges prompted a shift toward scaffolded architectures, where a long single-stranded DNA template directs short staple strands to form larger, more precise structures, as later realized in DNA origami.^[96] The collective impact of these precursor techniques was profound, establishing DNA's programmability through Watson-Crick base pairing as a versatile platform for nanoscale engineering. By demonstrating rigid motifs, crossover rigidity, and algorithmic lattice formation, Seeman's junctions and subsequent tile systems provided the conceptual framework for hierarchical assembly, directly influencing the scaffold paradigm of DNA origami that enabled arbitrary shape design at scales up to 100 nm.^[97]

Alternative DNA-Based Assembly Methods

While DNA origami relies on a long scaffold strand folded by short staple oligonucleotides to create custom two- and three-dimensional shapes, alternative DNA-based assembly methods emphasize modularity, scaffold-free designs, or enzymatic processes to achieve nanostructures with distinct advantages in uniformity, scalability, or periodic organization. These approaches often trade origami's rapid folding for greater flexibility in component reuse or production of repetitive patterns, enabling applications where precise custom geometries are less critical than reproducible lattice formation or cost-effective synthesis.^[98] One prominent alternative is DNA brick self-assembly, introduced in 2012, which uses short, single-stranded DNA bricks—each approximately 8 bases long with specific sticky ends—to build voxel-like three-dimensional structures without a long scaffold strand. This modular method allows for the construction of complex shapes, such as a 100 nm cube composed of over 1,000 unique brick types, by relying on blunt-end stacking and base-pairing interactions for hierarchical assembly. Unlike origami, DNA bricks enable addressable, reconfigurable lattices where individual voxels can be removed or replaced, facilitating dynamic nanostructures, though assembly yields can be lower due to the need for precise stoichiometric control of hundreds of strand types.^[99] Another scaffold-free approach is single-stranded DNA origami (ssDNA origami), which emerged around 2017 and involves designing a single long DNA strand to self-fold into compact, wireframe-like structures without additional staples or a viral scaffold like M13, simplifying synthesis by using only short oligonucleotides for initial strand production. This method produces unknotted, three-helix bundle-based forms, such as octahedrons or rods, with folding efficiencies up to 50% under optimized thermal annealing, offering advantages in purity and reduced error rates from missing staples compared to traditional origami. However, ssDNA origami is limited to simpler topologies due to the absence of multiple guiding strands, making it suitable for basic scaffolds rather than intricate designs.^[100] In comparison to earlier DNA tile-based assemblies, which use multi-stranded tiles connected via sticky ends to form periodic lattices, DNA origami achieves faster self-assembly—typically completing in 2-4 hours via thermal ramping—while tiles often require days for equilibration due to their stepwise, error-prone nucleation. Tile systems excel in modularity, allowing reuse of tile motifs for scalable, uniform arrays like ribbons or grids, but suffer from slower kinetics and lower complexity for arbitrary shapes, whereas origami prioritizes custom, aperiodic architectures at the expense of modularity.^[98]^[101] Additional methods include rolling circle amplification (RCA) for generating periodic DNA arrays, where a circular DNA template is enzymatically replicated into long, repetitive single-stranded DNA that self-assembles into nanotemplates with tunable periodicity, such as 32-base repeat units forming linear or tubular structures. This enzymatic approach, demonstrated in 2005, enables high-yield production of uniform, one-dimensional arrays for templating inorganic nanomaterials, contrasting origami's non-repetitive designs by favoring scalability for periodic applications over structural versatility. More recent innovations in the 2020s incorporate CRISPR-Cas systems for templated assembly, where guide RNAs direct Cas nucleases to hybridize and align DNA components, enabling programmable, sequence-specific joining of nanostructures with high specificity; for example, a 2022 study demonstrated CRISPR/Cas9-mediated integration of DNA nanostructures for enhanced genomic delivery.^[90] Though still emerging for large-scale DNA builds as of 2025. Overall, while DNA origami excels in creating bespoke, high-resolution shapes through scaffold-guided folding, alternatives like bricks and tiles provide superior modularity for reconfigurable or uniform lattices, and RCA or CRISPR-based methods enhance scalability and periodicity, broadening DNA nanotechnology's toolkit for diverse material and device applications.^[2]

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DNA-Assembled Nanoparticle Rings Exhibit Electric and Magnetic ...
Jan 22, 2015 · A negative refractive index metamaterial requires both electric permittivity and magnetic permeability to be negative. While metals naturally ...
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Chiral plasmonic DNA nanostructures with switchable circular ...
Dec 13, 2013 · Here we show that by first aligning and then toggling the orientation of DNA-origami-scaffolded nanoparticle helices attached to a substrate, we ...Missing: 2014 | Show results with:2014
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Metallized DNA nanolithography for encoding and transferring ...
Apr 9, 2013 · We examined six types of DNA templates to test the transfer and preservation of spatial information (such angles and curvature) from the ...
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FRET enhancement close to gold nanoparticles positioned in DNA ...
Dec 5, 2016 · DNA origami has been demonstrated to be a versatile platform for positioning plasmonic nanostructures and fluorophore molecules with nanometer ...
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Bioproduction of pure, kilobase-scale single-stranded DNA - Nature
Apr 16, 2019 · Notably, any DNA origami with scaffold lengths larger than 1,676 nt can have perfectly matched phage genome lengths, as exemplified in the ...Plasmid Assembly By... · Synthetic Phage Production · Dna Origami Assembly
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Nuclease resistance of DNA nanostructures - Nature
Feb 10, 2021 · A major reason for degradation of DNA nanostructures in these conditions is the presence of nucleases (enzymes that degrade nucleic acids). To ...
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Stability of DNA Origami Nanostructure under Diverse Chemical ...
Aug 25, 2014 · It is well-known that double-stranded DNA is unstable under extreme pH, and over time it undergoes hydrolysis resulting in degradation/ ...
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Structural stability of DNA origami nanostructures under application ...
In this mini-review we discuss the structural stability, denaturation, and degradation of DNA origami nanostructures under different conditions.
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Applications of DNA origami in biomedicine: advances, challenges ...
Oct 1, 2025 · This review highlights the significance and benefits of employing DNA origami in the programming and fabrication of DNA nanostructures, ...
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Customized Scaffolds for Direct Assembly of Functionalized DNA ...
Jun 2, 2023 · To facilitate the synthesis of functional DNA-NPs, we propose a simple and robust strategy based on an asymmetric polymerase chain reaction ( ...
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RNA origami: design, simulation and application - PMC - NIH
Jul 27, 2023 · Here, we review the key achievements which inspired and enabled RNA origami design and draw comparisons with the development and applications of DNA origami ...
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Review Integrating CRISPR/Cas systems with programmable DNA ...
Jun 17, 2022 · CRISPR/Cas tools for genetic editing (genes, bases, primes, and epigenomes), gene regulation and imaging can be integrated with programmable DNA nanostructures.
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Precision Delivery of CRISPR/Cas Systems via DNA Nanostructures ...
Aug 13, 2025 · The integration of multifunctional DNA nanostructures with diverse CRISPR/Cas systems may facilitate the development of integrated theranostic ...
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Patterning programmable spin arrays on DNA origami for quantum ...
Sep 13, 2025 · Here, we combine DNA-based patterning with nitrogen-vacancy (NV) ensemble quantum sensors in diamond to form and sense programmable 2D arrays of ...
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In space fabrication of Janus base nano matrix for improved ... - Nature
Jul 2, 2025 · We observed that the JBNms manufactured in space had improved homogeneity and scaffold assembly, which significantly increased cell bioactivity.
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Regulatory insights into nanomedicine and gene vaccine innovation
This review aims to provide a comprehensive overview of the advancements and regulatory challenges associated with nanomedicine and gene vaccines for the ...Missing: origami | Show results with:origami
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Innovative Nanomaterials with DNA Origami - Nanografi
Feb 4, 2025 · DNA origami-based nanomaterials have a broad application range, from biotechnology to environmental engineering, and are anticipated to be ...
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Nucleic acid junctions and lattices - PubMed - NIH
Nucleic acid junctions and lattices. ... 1982 Nov 21;99(2):237-47. doi: 10.1016/0022-5193(82)90002-9. Author. N C Seeman.Missing: immobile Holliday
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Challenges and opportunities for structural DNA nanotechnology - NIH
Nov 6, 2011 · Here we examine the technical challenges in the field of structural DNA nanotechnology and outline some of the promising applications that could be developed.
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A Conversation withProf. Ned Seeman:Founder of DNA ...
Topology of DNA junctions (see text): (A) double-crossover (DX), (B) Holliday, (C) triple-crossover (TX), and (D) PX-JX2. Adapted with permission from ref 5.
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Concepts and Application of DNA Origami and DNA Self-Assembly
Nov 16, 2021 · In 2006, a new DNA self-assembly method, DNA origami, was proposed by Rothemund [46]. According to the concept of DNA origami, a series of ...
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Rational design of self-assembly pathways for complex ... - PNAS
May 4, 2015 · The reliable self-assembly of large DNA-brick structures is thus a direct consequence of the small number of bonds made by each brick.
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Single-stranded DNA and RNA origami - Science
Dec 15, 2017 · Han et al. show that large origami (up to 10,000 nucleotides for DNA and 6000 nucleotides for RNA) can be created in simple shapes, such as ...
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Self-assembly of DNA origami for nanofabrication, biosensing, drug ...
May 19, 2023 · This review will briefly summarize the recent progress of DNA origami, two-dimensional pattern, and three-dimensional assembly based on DNA origami.