Format

Send to

Choose Destination
Nat Commun. 2017 Sep 25;8(1):696. doi: 10.1038/s41467-017-00542-3.

A DNA nanoscope via auto-cycling proximity recording.

Schaus TE1,2, Woo S1,2, Xuan F1,2, Chen X1,2, Yin P3,4.

Author information

1
Wyss Institute for Biologically Inspired Engineering, Harvard University, 3 Blackfan Circle, 5th Floor, Boston, MA, 02115, USA.
2
Department of Systems Biology, Harvard Medical School, Boston, MA, 02115, USA.
3
Wyss Institute for Biologically Inspired Engineering, Harvard University, 3 Blackfan Circle, 5th Floor, Boston, MA, 02115, USA. py@hms.harvard.edu.
4
Department of Systems Biology, Harvard Medical School, Boston, MA, 02115, USA. py@hms.harvard.edu.

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.The spatial organisation of nanostructures is fundamental to their function. Here, the authors develop a non-destructive, proximity-based method to record extensive spatial organization information in DNA molecules for later readout.

PMID:
28947733
PMCID:
PMC5612940
DOI:
10.1038/s41467-017-00542-3
[Indexed for MEDLINE]
Free PMC Article

Supplemental Content

Full text links

Icon for Nature Publishing Group Icon for PubMed Central
Loading ...
Support Center