Complex multicomponent patterns rendered on a 3D DNA-barrel pegboard

Abstract

DNA origami, in which a long scaffold strand is assembled with a many short staple strands into parallel arrays of double helices, has proven a powerful method for custom nanofabrication. However, currently the design and optimization of custom 3D DNA-origami shapes is a barrier to rapid application to new areas. Here we introduce a modular barrel architecture, and demonstrate hierarchical assembly of a 100 megadalton DNA-origami barrel of ~90 nm diameter and ~250 nm height, that provides a rhombic-lattice canvas of a thousand pixels each, with pitch of ~8 nm, on its inner and outer surfaces. Complex patterns rendered on these surfaces were resolved using up to twelve rounds of Exchange-PAINT super-resolution microscopy. We envision these structures as versatile nanoscale pegboards for applications requiring complex 3D arrangements of matter, which will serve to promote rapid uptake of this technology in diverse fields beyond specialist groups working in DNA nanotechnology.

Optimizing protein V untranslated region sequence in M13 phage for increased production of single-stranded DNA for origami

“…Finally, we profiled the robustness of the mutated phage DNA (M13mp18k-62) for DNA origami. Using M13mp18k-62 as a scaffold, we folded nanobarrel-shaped DNA structures (Figure 4A ) ( 30 ) as a representative example of DNA origami (see detailed structural information in Supplementary Figure S5 and Table S2 ). These nanobarrels were designed to have a diameter and height of 30 nm via coaxial stacking of DNA duplex rings.…”

DNA Manipulation and Single-Molecule Imaging

“…DNA nanostructures with single binding sites spaced 5 nm apart were observed as the “MPI” and “LMU” logos [ 204 ]. Thus, DNA-PAINT has provided new insight into the design analysis of DNA-origami nanostructures [ 205 , 206 , 207 , 208 , 209 ].…”

Multi-micron crisscross structures from combinatorially assembled DNA-origami slats

“…Hierarchical approaches can be used, however achieving assemblies containing more than a few distinct DNA nanostructures has been challenging [21][22][23][24][25][26][27][28][29][30][31] . In the most complex demonstration to date, structures consisting of 64 unique DNA-origami components were constructed using a method termed fractal assembly.…”