Skip to main content
bioRxiv
  • Home
  • About
  • Submit
  • ALERTS / RSS
Advanced Search
New Results

Low-cost, bottom-up fabrication of large-scale single-molecule nanoarrays by DNA origami placement

View ORCID ProfileRishabh M. Shetty, Sarah R. Brady, View ORCID ProfilePaul W. K. Rothemund, View ORCID ProfileRizal F. Hariadi, View ORCID ProfileAshwin Gopinath
doi: https://doi.org/10.1101/2020.08.14.250951
Rishabh M. Shetty
aBiodesign Center for Molecular Design and Biomimetics (at the Biodesign Institute) at Arizona State University, Tempe, AZ 85287, USA
bSchool of Biological and Health Systems Engineering, Arizona State University, Tempe, AZ 85287, USA
eDepartment of Mechanical Engineering, Massachusetts Institute of Technology, Cambridge, MA, USA
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Rishabh M. Shetty
  • For correspondence: rmshetty@mit.edu rhariadi@asu.edu agopi@mit.edu
Sarah R. Brady
aBiodesign Center for Molecular Design and Biomimetics (at the Biodesign Institute) at Arizona State University, Tempe, AZ 85287, USA
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Paul W. K. Rothemund
cDepartments of Bioengineering, Computational and Mathematical Sciences, and Computation and Neural Systems, California Institute of Technology, Pasadena, CA, USA
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Paul W. K. Rothemund
Rizal F. Hariadi
aBiodesign Center for Molecular Design and Biomimetics (at the Biodesign Institute) at Arizona State University, Tempe, AZ 85287, USA
dDepartment of Physics, Arizona State University, Tempe, AZ 85287, USA
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Rizal F. Hariadi
  • For correspondence: rmshetty@mit.edu rhariadi@asu.edu agopi@mit.edu
Ashwin Gopinath
cDepartments of Bioengineering, Computational and Mathematical Sciences, and Computation and Neural Systems, California Institute of Technology, Pasadena, CA, USA
eDepartment of Mechanical Engineering, Massachusetts Institute of Technology, Cambridge, MA, USA
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Ashwin Gopinath
  • For correspondence: rmshetty@mit.edu rhariadi@asu.edu agopi@mit.edu
  • Abstract
  • Full Text
  • Info/History
  • Metrics
  • Data/Code
  • Preview PDF
Loading

Abstract

Large-scale nanoarrays of single biomolecules enable high-throughput assays while unmasking the underlying heterogeneity within ensemble populations. Until recently, creating such grids which combine the unique advantages of microarrays and single-molecule experiments (SMEs) has been particularly challenging due to the mismatch between the size of these molecules and the resolution of top-down fabrication techniques. DNA Origami Placement (DOP) combines two powerful techniques to address this issue: (i) DNA origami, which provides a ∼ 100-nm self-assembled template for single-molecule organization with 5 nm resolution, and (ii) top-down lithography, which patterns these DNA nanostructures, transforming them into functional nanodevices via large-scale integration with arbitrary substrates. Presently, this technique relies on state-of-the-art infrastructure and highly-trained personnel, making it prohibitively expensive for researchers. Here, we introduce a bench-top technique to create meso-to-macro-scale DNA origami nanoarrays using self-assembled colloidal nanoparticles, thereby circumventing the need for top-down fabrication. We report a maximum yield of 74%, two-fold higher than the statistical limit of 37% imposed on non-specific molecular loading alternatives. Furthermore, we provide a proof-of-principle for the ability of this nanoarray platform to transform traditionally low-throughput, stochastic, single-molecule assays into high-throughput, deterministic ones, without compromising data quality. Our approach has the potential to democratize single-molecule nanoarrays and demonstrates their utility as a tool for biophysical assays and diagnostics.

Competing Interest Statement

The authors have declared no competing interest.

Footnotes

  • https://www.dropbox.com/sh/obnhnvr4sqe3pg8/AADHhjsAKv8a2iMnZrI9qNA9a?dl=0

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-NC-ND 4.0 International license.
Back to top
PreviousNext
Posted August 14, 2020.
Download PDF
Data/Code
Email

Thank you for your interest in spreading the word about bioRxiv.

NOTE: Your email address is requested solely to identify you as the sender of this article.

Enter multiple addresses on separate lines or separate them with commas.
Low-cost, bottom-up fabrication of large-scale single-molecule nanoarrays by DNA origami placement
(Your Name) has forwarded a page to you from bioRxiv
(Your Name) thought you would like to see this page from the bioRxiv website.
CAPTCHA
This question is for testing whether or not you are a human visitor and to prevent automated spam submissions.
Share
Low-cost, bottom-up fabrication of large-scale single-molecule nanoarrays by DNA origami placement
Rishabh M. Shetty, Sarah R. Brady, Paul W. K. Rothemund, Rizal F. Hariadi, Ashwin Gopinath
bioRxiv 2020.08.14.250951; doi: https://doi.org/10.1101/2020.08.14.250951
Reddit logo Twitter logo Facebook logo LinkedIn logo Mendeley logo
Citation Tools
Low-cost, bottom-up fabrication of large-scale single-molecule nanoarrays by DNA origami placement
Rishabh M. Shetty, Sarah R. Brady, Paul W. K. Rothemund, Rizal F. Hariadi, Ashwin Gopinath
bioRxiv 2020.08.14.250951; doi: https://doi.org/10.1101/2020.08.14.250951

Citation Manager Formats

  • BibTeX
  • Bookends
  • EasyBib
  • EndNote (tagged)
  • EndNote 8 (xml)
  • Medlars
  • Mendeley
  • Papers
  • RefWorks Tagged
  • Ref Manager
  • RIS
  • Zotero
  • Tweet Widget
  • Facebook Like
  • Google Plus One

Subject Area

  • Biophysics
Subject Areas
All Articles
  • Animal Behavior and Cognition (4677)
  • Biochemistry (10348)
  • Bioengineering (7667)
  • Bioinformatics (26315)
  • Biophysics (13512)
  • Cancer Biology (10676)
  • Cell Biology (15429)
  • Clinical Trials (138)
  • Developmental Biology (8491)
  • Ecology (12811)
  • Epidemiology (2067)
  • Evolutionary Biology (16842)
  • Genetics (11385)
  • Genomics (15471)
  • Immunology (10606)
  • Microbiology (25191)
  • Molecular Biology (10212)
  • Neuroscience (54411)
  • Paleontology (401)
  • Pathology (1668)
  • Pharmacology and Toxicology (2892)
  • Physiology (4335)
  • Plant Biology (9240)
  • Scientific Communication and Education (1586)
  • Synthetic Biology (2557)
  • Systems Biology (6774)
  • Zoology (1462)