Design of proton-fueled tweezers for controlled, multi-function DNA-based molecular device.

A novel multi-functional, proton-fueled DNA tweezers has been constructed. Starting from simple conformation change of i-motif DNA, the nanodevice can accomplish movements such as repeatedly capture or release target DNA and protein. The DNA tweezers, driven by the solution pH without the need of injecting external energy, are robust and highly reversible with the responses of 1-2 orders of magnitude faster than the DNA-fueled machine, and does not accumulate duplex waste products to poison the system. Our work has demonstrated the successful combination of the operating principles of DNA-based nanomechanical device with the unique molecular recognition properties of DNA, which we believed could open an exciting avenue in the design and construction of easy-to-handle, cost-efficient, reliable and high efficient functional nanostructure.

[1]  Yamuna Krishnan,et al.  A DNA nanomachine that maps spatial and temporal pH changes inside living cells. , 2009, Nature nanotechnology.

[2]  F. Simmel Towards biomedical applications for nucleic acid nanodevices. , 2007, Nanomedicine.

[3]  A. Turberfield,et al.  A DNA-fuelled molecular machine made of DNA , 2022 .

[4]  N. Harada,et al.  Light-driven monodirectional molecular rotor , 2022 .

[5]  A. Turberfield,et al.  DNA nanomachines. , 2007, Nature nanotechnology.

[6]  S. Balasubramanian,et al.  DNA molecular motor driven micromechanical cantilever arrays. , 2005, Journal of the American Chemical Society.

[7]  A. Phan,et al.  The solution structure and internal motions of a fragment of the cytidine-rich strand of the human telomere. , 2000, Journal of molecular biology.

[8]  Anne Condon,et al.  Designed DNA molecules: principles and applications of molecular nanotechnology , 2006, Nature Reviews Genetics.

[9]  P. Yin,et al.  A DNAzyme that walks processively and autonomously along a one-dimensional track. , 2005, Angewandte Chemie.

[10]  Jean-Louis Mergny,et al.  DNA duplex–quadruplex exchange as the basis for a nanomolecular machine , 2003, Proceedings of the National Academy of Sciences of the United States of America.

[11]  Jie Yan,et al.  A contractile DNA machine. , 2008, Angewandte Chemie.

[12]  A. Turberfield,et al.  A free-running DNA motor powered by a nicking enzyme. , 2005, Angewandte Chemie.

[13]  R. Haugland Handbook of fluorescent probes and research products , 2002 .

[14]  F. Simmel,et al.  DNA-based nanodevices , 2007 .

[15]  Weihong Tan,et al.  A Single DNA Molecule Nanomotor , 2002 .

[16]  I. Willner,et al.  Coherent activation of DNA tweezers: a "SET-RESET" logic system. , 2009, Angewandte Chemie.

[17]  Stoddart,et al.  Electronically configurable molecular-based logic gates , 1999, Science.

[18]  J. Reif,et al.  A two-state DNA lattice switched by DNA nanoactuator. , 2003, Angewandte Chemie.

[19]  N. Seeman,et al.  A nanomechanical device based on the B–Z transition of DNA , 1999, Nature.

[20]  J. Leroy,et al.  Intramolecular Folding of Pyrimidine Oligodeoxynucleotides into an i-DNA Motif , 1995 .

[21]  Itamar Willner,et al.  Autonomous fueled mechanical replication of nucleic acid templates for the amplified optical detection of DNA. , 2006, Angewandte Chemie.

[22]  F. Simmel,et al.  Using DNA to construct and power a nanoactuator. , 2001, Physical review. E, Statistical, nonlinear, and soft matter physics.

[23]  J. Huberman,et al.  Enforcement of Late Replication Origin Firing by Clusters of Short G-rich DNA Sequences*♦ , 2004, Journal of Biological Chemistry.

[24]  Xiaogang Han,et al.  Catch and release: DNA tweezers that can capture, hold, and release an object under control. , 2008, Journal of the American Chemical Society.

[25]  N. Pierce,et al.  A synthetic DNA walker for molecular transport. , 2004, Journal of the American Chemical Society.

[26]  N. Seeman,et al.  A robust DNA mechanical device controlled by hybridization topology , 2002, Nature.

[27]  Chengde Mao,et al.  Molecular gears: a pair of DNA circles continuously rolls against each other. , 2004, Journal of the American Chemical Society.

[28]  M Guéron,et al.  Intramolecular folding of a fragment of the cytosine-rich strand of telomeric DNA into an i-motif. , 1994, Nucleic acids research.

[29]  Shankar Balasubramanian,et al.  Prevalence of quadruplexes in the human genome , 2005, Nucleic acids research.

[30]  A. Credi,et al.  Molecular Devices and Machines , 2007, New Frontiers in Nanochemistry.

[31]  Friedrich C Simmel,et al.  A DNA-based machine that can cyclically bind and release thrombin. , 2004, Angewandte Chemie.

[32]  Y. Mi,et al.  Capture and release of protein by a reversible DNA-induced sol-gel transition system. , 2008, Angewandte Chemie.

[33]  J. Feigon,et al.  Three-dimensional solution structure of the thrombin-binding DNA aptamer d(GGTTGGTGTGGTTGG). , 1994, Journal of molecular biology.

[34]  J. Gimzewski,et al.  Electronics using hybrid-molecular and mono-molecular devices , 2000, Nature.

[35]  Yang Yang,et al.  A pH-driven, reconfigurable DNA nanotriangle. , 2009, Chemical communications.