Control and synchronization of rapid nanoscale DNA heat engine by local heating

Wang, Kun; Hardikar, Aditya; Chen, Wenjun; Huang, Qiuyan; Guo, Buming; Zhu, Guolong; Ni, Heng; Sha, Ruojie; Seeman, Nadrian C.; Chaikin, Paul M.

doi:10.1126/sciadv.adx6316

Title: Control and synchronization of rapid nanoscale DNA heat engine by local heating

Journal Article · Wed Jul 30 00:00:00 UTC 2025 · Science Advances

DOI: https://doi.org/10.1126/sciadv.adx6316 · OSTI ID:3363390

^[1]; Hardikar, Aditya ^[1];

^[1]; Huang, Qiuyan ^[1];

^[1];

^[2]; Ni, Heng ^[1];

^[1];

^[1]

New York University, NY (United States)
Fairleigh Dickinson University, Madison, NJ (United States)

To further activate devices based on DNA nanotechnology, we introduce an approach that notably enhances both the speed and force of DNA powered machines and artificial hinge machine. A microheater, with millisecond response, heats or recools DNA origami constructs, hybridizing or dehybridizing sticky ends. Because anything within 20 micrometers of the heater equilibrates to a programmed temperature change in milliseconds, sticky ends of a compound DNA origami machine can open and close synchronously and operate cooperatively, in phase, additively increasing the drive force compared to single pair of sticky ends DNA machine (the six-helix bundle DNA origami hinge machine). In our demonstrations, we fold and unfold two square origami with 10 pairs of complementary sticky ends to drive a bead on the end of a rod like origami to speeds exceeding 30 micrometers per second. Our device envisions the creation of complex, synchronized DNA machines.

View Accepted Manuscript (DOE)

Cite

Export

Save

Research Organization:: New York University, NY (United States)

Sponsoring Organization:: National Science Foundation (NSF); Office of Naval Research (ONR); Simons Foundation; USDOE Office of Science (SC), Basic Energy Sciences (BES). Materials Sciences & Engineering Division (MSE)

Grant/Contract Number:: SC0000989; SC0007991; SC0020971

OSTI ID:: 3363390

Journal Information:: Science Advances, Journal Name: Science Advances Journal Issue: 31 Vol. 11; ISSN 2375-2548

Publisher:: American Association for the Advancement of Science (AAAS)Copyright Statement

Country of Publication:: United States

Language:: English

References (35)

A Proton-Fuelled DNA Nanomachine Liu, Dongsheng; Balasubramanian, Shankar Angewandte Chemie International Edition, Vol. 42, Issue 46 https://doi.org/10.1002/anie.200352402	journal	December 2003
Nucleic acid junctions and lattices Seeman, Nadrian C. Journal of Theoretical Biology, Vol. 99, Issue 2 https://doi.org/10.1016/0022-5193(82)90002-9	journal	November 1982
The effect of force on thermodynamics and kinetics of single molecule reactions Tinoco Jr, Ignacio; Bustamante, Carlos Biophysical Chemistry, Vol. 101-102 https://doi.org/10.1016/S0301-4622(02)00177-1	journal	December 2002
A Kinetic Zipper Model with Intrachain Interactions Applied to Nucleic Acid Hairpin Folding Kinetics Kuznetsov, Serguei V.; Ansari, Anjum Biophysical Journal, Vol. 102, Issue 1 https://doi.org/10.1016/j.bpj.2011.11.4017	journal	January 2012
Axial and transverse Stokes flow past slender axisymmetric bodies Tillett, J. P. K. Journal of Fluid Mechanics, Vol. 44, Issue 3 https://doi.org/10.1017/S0022112070001908	journal	November 1970
The motion of long slender bodies in a viscous fluid Part 1. General theory Cox, R. G. Journal of Fluid Mechanics, Vol. 44, Issue 04 https://doi.org/10.1017/S002211207000215X	journal	December 1970
Hydromechanics of low-Reynolds-number flow. Part 2. Singularity method for Stokes flows Chwang, Allen T.; Wu, T. Yao-Tsu Journal of Fluid Mechanics, Vol. 67, Issue 4 https://doi.org/10.1017/S0022112075000614	journal	February 1975
Three-Dimensional DNA Nanomachine Biosensor by Integrating DNA Walker and Rolling Machine Cascade Amplification for Ultrasensitive Detection of Cancer-Related Gene Wu, Na; Wang, Kun; Wang, Yi-Ting Analytical Chemistry, Vol. 92, Issue 16 https://doi.org/10.1021/acs.analchem.0c01074	journal	July 2020
High-Density PEO- b -DNA Brushes on Polymer Particles for Colloidal Superstructures Oh, Joon Suk; Wang, Yufeng; Pine, David J. Chemistry of Materials, Vol. 27, Issue 24 https://doi.org/10.1021/acs.chemmater.5b03683	journal	December 2015
Divalent Multilinking Bonds Control Growth and Morphology of Nanopolymers Xiong, Yan; Lin, Zhiwei; Mostarac, Deniz Nano Letters, Vol. 21, Issue 24 https://doi.org/10.1021/acs.nanolett.1c03009	journal	October 2021
Environmentally Controlled Oscillator with Triplex Guided Displacement of DNA Duplexes Huang, Qiuyan; Kim, Jiyeon; Wang, Kun Nano Letters, Vol. 23, Issue 16 https://doi.org/10.1021/acs.nanolett.3c02176	journal	August 2023
Study of Heat Transfer Dynamics from Gold Nanorods to the Environment via Time-Resolved Infrared Spectroscopy Nguyen, Son C.; Zhang, Qiao; Manthiram, Karthish ACS Nano, Vol. 10, Issue 2 https://doi.org/10.1021/acsnano.5b06623	journal	January 2016
Design and Characterization of 1D Nanotubes and 2D Periodic Arrays Self-Assembled from DNA Multi-Helix Bundles Wang, Tong; Schiffels, Daniel; Martinez Cuesta, Sergio Journal of the American Chemical Society, Vol. 134, Issue 3 https://doi.org/10.1021/ja207976q	journal	January 2012
Molecular Pumps and Motors Feng, Yuanning; Ovalle, Marco; Seale, James S. W. Journal of the American Chemical Society, Vol. 143, Issue 15 https://doi.org/10.1021/jacs.0c13388	journal	April 2021
The Formation and Displacement of Ordered DNA Triplexes in Self-Assembled Three-Dimensional DNA Crystals Zhao, Yue; Chandrasekaran, Arun Richard; Rusling, David A. Journal of the American Chemical Society, Vol. 145, Issue 6 https://doi.org/10.1021/jacs.2c12667	journal	February 2023
A Precisely Controlled DNA Biped Walking Device Sherman, William B.; Seeman, Nadrian C. Nano Letters, Vol. 4, Issue 7 https://doi.org/10.1021/nl049527q	journal	July 2004
Direct Mechanical Measurements Reveal the Material Properties of Three-Dimensional DNA Origami Kauert, Dominik J.; Kurth, Thomas; Liedl, Tim Nano Letters, Vol. 11, Issue 12 https://doi.org/10.1021/nl203503s	journal	December 2011
Nanoscale Structure and Microscale Stiffness of DNA Nanotubes Schiffels, Daniel; Liedl, Tim; Fygenson, Deborah K. ACS Nano, Vol. 7, Issue 8 https://doi.org/10.1021/nn401362p	journal	July 2013
A nanomechanical device based on the B–Z transition of DNA Mao, Chengde; Sun, Weiqiong; Shen, Zhiyong Nature, Vol. 397, Issue 6715 https://doi.org/10.1038/16437	journal	January 1999
Remote electronic control of DNA hybridization through inductive coupling to an attached metal nanocrystal antenna Hamad-Schifferli, Kimberly; Schwartz, John J.; Santos, Aaron T. Nature, Vol. 415, Issue 6868 https://doi.org/10.1038/415152a	journal	January 2002
Magnesium-free self-assembly of multi-layer DNA objects Martin, Thomas G.; Dietz, Hendrik Nature Communications, Vol. 3, Issue 1 https://doi.org/10.1038/ncomms2095	journal	January 2012
DNA nanomachines Bath, Jonathan; Turberfield, Andrew J. Nature Nanotechnology, Vol. 2, Issue 5 https://doi.org/10.1038/nnano.2007.104	journal	May 2007
High-speed DNA-based rolling motors powered by RNase H Yehl, Kevin; Mugler, Andrew; Vivek, Skanda Nature Nanotechnology, Vol. 11, Issue 2 https://doi.org/10.1038/nnano.2015.259	journal	November 2015
Membrane-anchored DNA nanojunctions enable closer antigen-presenting cell–T-cell contact in elevated T-cell receptor triggering Du, Yulin; Lyu, Yifan; Lin, Jie Nature Nanotechnology, Vol. 18, Issue 7 https://doi.org/10.1038/s41565-023-01333-2	journal	March 2023
A rhythmically pulsing leaf-spring DNA-origami nanoengine that drives a passive follower Centola, Mathias; Poppleton, Erik; Ray, Sujay Nature Nanotechnology, Vol. 19, Issue 2 https://doi.org/10.1038/s41565-023-01516-x	journal	October 2023
Rotation tracking of genome-processing enzymes using DNA origami rotors Kosuri, Pallav; Altheimer, Benjamin D.; Dai, Mingjie Nature, Vol. 572, Issue 7767 https://doi.org/10.1038/s41586-019-1397-7	journal	July 2019
Colloidal diamond He, Mingxin; Gales, Johnathon P.; Ducrot, Étienne Nature, Vol. 585, Issue 7826 https://doi.org/10.1038/s41586-020-2718-6	journal	September 2020
On the temperature stability of gold nanorods: comparison between thermal and ultrafast laser-induced heating Petrova, Hristina; Perez Juste, Jorge; Pastoriza-Santos, Isabel Phys. Chem. Chem. Phys., Vol. 8, Issue 7 https://doi.org/10.1039/B514644E	journal	January 2006
Nanomechanical measurements of the sequence-dependent folding landscapes of single nucleic acid hairpins Woodside, M. T.; Behnke-Parks, W. M.; Larizadeh, K. Proceedings of the National Academy of Sciences, Vol. 103, Issue 16 https://doi.org/10.1073/pnas.0511048103	journal	April 2006
Microchemomechanical devices using DNA hybridization Zhu, Guolong; Hannel, Mark; Sha, Ruojie Proceedings of the National Academy of Sciences, Vol. 118, Issue 21 https://doi.org/10.1073/pnas.2023508118	journal	May 2021
Direct Measurement of the Full, Sequence-Dependent Folding Landscape of a Nucleic Acid Woodside, M. T.; Anthony, P. C.; Behnke-Parks, W. M. Science, Vol. 314, Issue 5801 https://doi.org/10.1126/science.1133601	journal	November 2006
A cargo-sorting DNA robot Thubagere, Anupama J.; Li, Wei; Johnson, Robert F. Science, Vol. 357, Issue 6356 https://doi.org/10.1126/science.aan6558	journal	September 2017
A self-assembled nanoscale robotic arm controlled by electric fields Kopperger, Enzo; List, Jonathan; Madhira, Sushi Science, Vol. 359, Issue 6373 https://doi.org/10.1126/science.aao4284	journal	January 2018
Toward three-dimensional DNA industrial nanorobots Zhou, Feng; Ni, Heng; Zhu, Guolong Science Robotics, Vol. 8, Issue 85 https://doi.org/10.1126/scirobotics.adf1274	journal	December 2023
From bead to rod: Comparison of theories by measuring translational drag coefficients of micron-sized magnetic bead-chains in Stokes flow Yang, Kaiyuan; Lu, Chen; Zhao, Xiaodan PLOS ONE, Vol. 12, Issue 11 https://doi.org/10.1371/journal.pone.0188015	journal	November 2017

Similar Records

Tri-state logic computation by activating DNA origami chains

Journal Article · Mon Jan 01 00:00:00 UTC 2024 · Nanoscale · OSTI ID:2578245

Wang, Kun; Huang, Qiuyan; Elshaer, Mohammed; +3 more

Microchemomechanical devices using DNA hybridization

Journal Article · Mon May 17 00:00:00 UTC 2021 · Proceedings of the National Academy of Sciences of the United States of America · OSTI ID:1783361

Zhu, Guolong; Hannel, Mark; Sha, Ruojie; +7 more

Reciprocal Control of Hierarchical DNA Origami-Nanoparticle Assemblies

Journal Article · Wed Oct 30 00:00:00 UTC 2019 · Nano Letters · OSTI ID:1657521

Johnson, Joshua A.; Dehankar, Abhilasha; Winter, Jessica O.; +1 more

Title: Control and synchronization of rapid nanoscale DNA heat engine by local heating

Citation Formats

References (35)

Similar Records

Related Subjects