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      Pathway-Controlled Formation of Mesostructured all-DNA Colloids and Superstructures

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          Abstract

          DNA has traditionally been used for programmable design of nanostructures exploiting its sequence-defined supramolecular recognition. However, control on larger lengths scales or even hierarchical materials translating to the macroscale remain difficult to construct. Here, we show that the polymer character of ssDNA can be activated via a nucleobase-specific lower critical solution temperature (LCST), providing unique access to mesoscale structuring mechanisms on larger length scales. We integrate both effects into ssDNA multiblock copolymers coding sequences for phase-separation, hybridization, and functionalization. Kinetic pathway guidance using temperature ramps balances the counteracting mesoscale phase-separation during heating with nanoscale duplex recognition during cooling, yielding a diversity of complex all-DNA colloids with control over internal dynamics and of their superstructures. Our approach provides a facile and versatile platform to add mesostructural layers into hierarchical all-DNA materials. The high density of addressable ssDNA blocks opens routes for applications like gene delivery, artificial evolution, or spatially encoded (bio)materials.

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          Most cited references44

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          A DNA-based method for rationally assembling nanoparticles into macroscopic materials.

          Colloidal particles of metals and semiconductors have potentially useful optical, optoelectronic and material properties that derive from their small (nanoscopic) size. These properties might lead to applications including chemical sensors, spectroscopic enhancers, quantum dot and nanostructure fabrication, and microimaging methods. A great deal of control can now be exercised over the chemical composition, size and polydispersity of colloidal particles, and many methods have been developed for assembling them into useful aggregates and materials. Here we describe a method for assembling colloidal gold nanoparticles rationally and reversibly into macroscopic aggregates. The method involves attaching to the surfaces of two batches of 13-nm gold particles non-complementary DNA oligonucleotides capped with thiol groups, which bind to gold. When we add to the solution an oligonucleotide duplex with 'sticky ends' that are complementary to the two grafted sequences, the nanoparticles self-assemble into aggregates. This assembly process can be reversed by thermal denaturation. This strategy should now make it possible to tailor the optical, electronic and structural properties of the colloidal aggregates by using the specificity of DNA interactions to direct the interactions between particles of different size and composition.
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            Self-assembly of DNA into nanoscale three-dimensional shapes

            Molecular self-assembly offers a ‘bottom-up’ route to fabrication with subnanometre precision of complex structures from simple components1. DNA has proven a versatile building block2–5 for programmable construction of such objects, including two-dimensional crystals6, nanotubes7–11, and three-dimensional wireframe nanopolyhedra12–17. Templated self-assembly of DNA18 into custom two-dimensional shapes on the megadalton scale has been demonstrated previously with a multiple-kilobase ‘scaffold strand’ that is folded into a flat array of antiparallel helices by interactions with hundreds of oligonucleotide ‘staple strands’19, 20. Here we extend this method to building custom three-dimensional shapes formed as pleated layers of helices constrained to a honeycomb lattice. We demonstrate the design and assembly of nanostructures approximating six shapes — monolith, square nut, railed bridge, genie bottle, stacked cross, slotted cross — with precisely controlled dimensions ranging from 10 to 100 nm. We also show hierarchical assembly of structures such as homomultimeric linear tracks and of heterotrimeric wireframe icosahedra. Proper assembly requires week-long folding times and calibrated monovalent and divalent cation concentrations. We anticipate that our strategy for self-assembling custom three-dimensional shapes will provide a general route to the manufacture of sophisticated devices bearing features on the nanometer scale.
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              Folding DNA into twisted and curved nanoscale shapes.

              We demonstrate the ability to engineer complex shapes that twist and curve at the nanoscale from DNA. Through programmable self-assembly, strands of DNA are directed to form a custom-shaped bundle of tightly cross-linked double helices, arrayed in parallel to their helical axes. Targeted insertions and deletions of base pairs cause the DNA bundles to develop twist of either handedness or to curve. The degree of curvature could be quantitatively controlled, and a radius of curvature as tight as 6 nanometers was achieved. We also combined multiple curved elements to build several different types of intricate nanostructures, such as a wireframe beach ball or square-toothed gears.
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                Author and article information

                Contributors
                Journal
                101283273
                34218
                Nat Nanotechnol
                Nat Nanotechnol
                Nature nanotechnology
                1748-3387
                1748-3395
                29 May 2018
                25 June 2018
                August 2018
                25 December 2018
                : 13
                : 8
                : 730-738
                Affiliations
                Institute for Macromolecular Chemistry, Stefan-Meier-Str. 31, University of Freiburg, 79104 Freiburg, Germany
                Freiburg Materials Research Center, Stefan-Meier-Str. 21, University of Freiburg, 79104 Freiburg, Germany
                Freiburg Center for Interactive Materials and Bioinspired Technologies, Georges-Köhler-Allee 105, University of Freiburg, 79110 Freiburg, Germany
                Freiburg Institute for Advanced Studies (FRIAS), Albertstraße 19, University of Freiburg, 79104 Freiburg, Germany
                Author notes
                Correspondence and requests for materials should be addressed to A. Walther. Andreas.Walther@ 123456makro.uni-freiburg.de
                Article
                EMS77763
                10.1038/s41565-018-0168-1
                6082344
                29941888
                a15c45c9-e216-4b2e-be63-325220ba6a84

                Users may view, print, copy, and download text and data-mine the content in such documents, for the purposes of academic research, subject always to the full Conditions of use: http://www.nature.com/authors/editorial_policies/license.html#terms

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                Nanotechnology
                Nanotechnology

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