Reconfiguring DNA Nanotube Architectures via Selective Regulation of Terminating Structures

• Published in: ACS nano Vol. 14; no. 10; pp. 13451 - 13462
• Main Authors: Schaffter, Samuel W, Schneider, Joanna, Agrawal, Deepak K, Pacella, Michael S, Rothchild, Eric, Murphy, Terence, Schulman, Rebecca
• Format: Journal Article
• Language: English
• Published: United States American Chemical Society 27.10.2020; American Chemical Society (ACS)
• Subjects: BASIC BIOLOGICAL SCIENCES; carbon nanotubes; chemical structure; DNA; DNA nanotechnology; DNA origami; DNA strand displacement; dynamic nanostructures; genetics; Macromolecular Substances; monomers; Nanostructures; Nanotechnology; Nanotubes; Nucleic Acid Conformation; nucleic acid diagnostics; self-assembly; self-assembly; DNA nanotechnology; DNA origami; DNA strand displacement; nucleic acid diagnostics; dynamic nanostructures
• DOI: 10.1021/acsnano.0c05340
• ISSN: 1936-0851; 1936-086X

Molecular assemblies inside cells often undergo structural reconfiguration in response to stimuli to alter their function. Adaptive reconfiguration of cytoskeletal networks, for example, enables cellular shape change, movement, and cargo transport and plays a key role in driving complex processes such as division and differentiation. The cellular cytoskeleton is a self-assembling polymer network composed of simple filaments, so reconfiguration often occurs through the rearrangement of its component filaments’ connectivities. DNA nanotubes have emerged as promising building blocks for constructing programmable synthetic analogs of cytoskeletal networks. Nucleating seeds can control when and where nanotubes grow, and capping structures can bind nanotube ends to stop growth. Such seeding and capping structures, collectively called termini, can organize nanotubes into larger architectures. However, these structures cannot be selectively activated or inactivated in response to specific stimuli to rearrange nanotube architectures, a key property of cytoskeletal networks. Here, we demonstrate how selective regulation of the binding affinity of DNA nanotube termini for DNA nanotube monomers or nanotube ends can direct the reconfiguration of nanotube architectures. Using DNA hybridization and strand displacement reactions that specifically activate or inactivate four orthogonal nanotube termini, we demonstrate that nanotube architectures can be reconfigured by selective addition or removal of distinct termini. Finally, we show how terminus activation could be a sensitive detector and amplifier of a DNA sequence signal. These results could enable the development of adaptive and multifunctional materials or diagnostic tools.