DNA Origami: The Bridge from Top-to-Bottom, Professor Ashwin Gopinath, Samsung Forum

24 Jun 2019 · 53 min
53:23

In this lecture Ashwin Gopinath explains how DNA origami can serve as a scalable bridge between bottom‑up molecular self‑assembly and top‑down nanofabrication. He begins by contrasting conventional top‑down semiconductor manufacturing—repeated cycles of lithography, deposition, etching—with bottom‑up approaches that build structures from atoms and molecules (proteins, carbon nanotubes, quantum dots). He argues that bottom‑up methods can create functionalities impossible for top‑down tools, but lack scalability and modularity. DNA origami, introduced by Seeman and later refined by Rothemund, provides a programmable, high‑yield (~99.6 %) nanoscopic scaffold (≈100 nm) with addressable sites spaced ~5 nm. By designing staple strands, any shape can be folded from a viral genome strand, and functional moieties (proteins, nanoparticles, quantum dots) can be attached at precise locations. Gopinath’s core contribution is a method to place individual origami structures on patterned substrates with >98 % single‑origami yield and controlled orientation. The process uses standard lithography (photolithography, e‑beam, nano‑imprint) to define neutral or charged patches on surfaces, followed by silane chemistry and a brief oxygen plasma. Magnesium ions mediate weak, reversible binding between the negatively charged DNA and the surface, allowing origami to diffuse into the patch and lock in place. By designing asymmetric origami (e.g., an asymmetric donut) that matches an asymmetric binding site, deterministic orientation is achieved with <4° error, eliminating the sixfold degeneracy of symmetric shapes. The technique is demonstrated on a wafer‑scale array of 65 000 photonic crystal cavities, each receiving a controlled number (0‑7) of DNA‑origami‑bound emitters, producing discrete intensity levels and proving scalability. Further experiments show control of molecular dipole orientation, enabling polarization‑dependent optical responses. Applications discussed include: (i) single‑molecule proteomic sensors capable of detecting proteins down to ~10 pM by using DNA‑origami‑based “Venus‑flytrap” constructs; (ii) large‑area structural‑color patterning where gram‑scale quantities of origami can cover ~1 000 m², and the origami can be converted into metallic or dielectric features via chemical metallization; (iii) placement of single quantum emitters (europium ions, quantum dots) for next‑generation light sources and quantum information devices. Gopinath envisions future devices where DNA‑origami scaffolds underlie nanowire logic, quantum photonics, and integrated biosensors, effectively making DNA the “glue” that unites bottom‑up and top‑down nanotechnologies. The talk concludes with acknowledgments of collaborators and an invitation for questions.

Chapters

More from Ashwin

59:44
youtube.com

#161 Organizational Memory Is the Next Moat: Ashwin Gopinath on Building a Company Brain

2mo ago
youtube.com

Dr Ashwin Gopinath, PhD - CTO, Biostate AI - Transforming Healthcare Through Next-Gen RNAseq & GenAI

1y ago
1:12
youtube.com

Who is Ashwin Gopinath inspired by?

1y ago
35:48
youtube.com

Anu + Ashwin: Understanding Your Protein Signals

3y ago
youtube.com

Anu + Ashwin: Understanding Your Protein Signals

3y ago
youtube.com

molpigs podcast #23: Ashwin Gopinath - Merging top-down and bottom-up synthesis - AI in Research

3y ago
47:26
youtube.com

molpigs podcast #23: Ashwin Gopinath - Merging top-down and bottom-up synthesis - AI in Research

3y ago
6:04
youtube.com

Closing the loop in distance education using generative AI | Ashwin Gopinath | TEDxBoston

3y ago
58:27
youtube.com

EECS Seminar Spring 2021 - Dr. Ashwin Gopinath, MIT - The Bridge from Top to Bottom

5y ago
1:08:46
youtube.com

SENSE.nano 2020 Symposium Session 1: Sensing at the level of cell and subcell

5y ago
8:29
youtube.com

Ashwin Gopinath - Nano Doctor Octopus

6y ago
See all content