Optical and Topological Characterization of Hexagonal DNA Origami Nanotags

Abstract

Background:DNA origami can be applied as a "ruler" for nanoscale calibration or super-resolution fluorescence microscopy with an ideal structure for defining fluorophore arrangement, allowing the distance between fluorophores to be precisely controlled at the nanometer scale. DNA origami can also be used as a nanotag with arbitrary programmable shapes. Results:We formed a hexagonal origami structure embedded with three different fluorescent dyes on the surface. The distance between each fluorescent block was 120 nm, which is below the diffraction limit of light, allowing for its application as a nano-ruler for super-resolution fluorescence microscopy. The outside edge of the hexagonal structure was redesigned to form three different substructures as topological labels. Atomic and scanning force microscopy demonstrated consistency of the nanoscale distance between morphological and fluorescent labels. Conclusion:We assembled the hexagonal origami platform and confirmed the fluorescent and topological labels, this fluorophore-embedded hexagonal origami platform can be used as a dual nano-ruler for both optical and topological calibration.

DNA Origami Nanostructure Detection and Yield Estimation Using Deep Learning

“…The DNA origami structures were collected from our previous experiments. − Four kinds of DNA origamis were selected: origami lines (the persistence length was 100 ± 18 and 4 nm in width), origami crews, regular triangle DNA origami (120 nm length for each edge), and the cross-shape DNA origami (30 nm length and 24 nm width for each arm). All of the defective origami structures were labeled as the fifth kind.…”