A DNA nanoscope via auto-cycling proximity recording

Thomas E. Schaus, Sungwook Woo, Feng Xuan, Xi Chen and Peng Yin ()
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Thomas E. Schaus: Harvard University
Sungwook Woo: Harvard University
Feng Xuan: Harvard University
Xi Chen: Harvard University
Peng Yin: Harvard University

Nature Communications, 2017, vol. 8, issue 1, 1-9

Abstract: Abstract Analysis of the spatial arrangement of molecular features enables the engineering of synthetic nanostructures and the understanding of natural ones. The ability to acquire a comprehensive set of pairwise proximities between components would satisfy an increasing interest in investigating individual macromolecules and their interactions, but current biochemical techniques detect only a single proximity partner per probe. Here, we present a biochemical DNA nanoscopy method that records nanostructure features in situ and in detail for later readout. Based on a conceptually novel auto-cycling proximity recording (APR) mechanism, it continuously and repeatedly produces proximity records of any nearby pairs of DNA-barcoded probes, at physiological temperature, without altering the probes themselves. We demonstrate the production of dozens of records per probe, decode the spatial arrangements of 7 unique probes in a homogeneous sample, and repeatedly sample the same probes in different states.

Date: 2017
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DOI: 10.1038/s41467-017-00542-3

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