A Logic-Gated Nanorobot for Targeted Transport of Molecular Payloads

Nanorobots Deliver DNA aptamers are short strands that have high binding affinity for a target protein that can be used as triggers for releasing cargo from delivery vehicles. Douglas et al. (p. 831) used this strategy to design DNA origami “nanorobots”—complex shaped structures created by manipulating a long DNA strand through binding with shorter “staple” strands—that could deliver payloads such as gold nanoparticles or fluorescently labeled antibody fragments. These nanorobots were designed to open in response to specific cell-surface proteins, releasing molecules that triggered cell signaling. Cargoes stored in folded DNA origami are released when aptamers in the structure bind target protein molecules. We describe an autonomous DNA nanorobot capable of transporting molecular payloads to cells, sensing cell surface inputs for conditional, triggered activation, and reconfiguring its structure for payload delivery. The device can be loaded with a variety of materials in a highly organized fashion and is controlled by an aptamer-encoded logic gate, enabling it to respond to a wide array of cues. We implemented several different logical AND gates and demonstrate their efficacy in selective regulation of nanorobot function. As a proof of principle, nanorobots loaded with combinations of antibody fragments were used in two different types of cell-signaling stimulation in tissue culture. Our prototype could inspire new designs with different selectivities and biologically active payloads for cell-targeting tasks.

[1]  F. Young Biochemistry , 1955, The Indian Medical Gazette.

[2]  Nebojsa Janjic,et al.  Inhibitory DNA ligands to platelet-derived growth factor B-chain. , 1996, Biochemistry.

[3]  P. Schultz,et al.  Organization of 'nanocrystal molecules' using DNA , 1996, Nature.

[4]  J. Ritz,et al.  Characterization of a cell line, NKL, derived from an aggressive human natural killer cell leukemia. , 1996, Experimental hematology.

[5]  J. Altman,et al.  Initiation of signal transduction through the T cell receptor requires the multivalent engagement of peptide/MHC ligands [corrected]. , 1998, Immunity.

[6]  J. Ashby References and Notes , 1999 .

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

[8]  D. Olive,et al.  Surface expression and function of p75/AIRM-1 or CD33 in acute myeloid leukemias: Engagement of CD33 induces apoptosis of leukemic cells , 2001, Proceedings of the National Academy of Sciences of the United States of America.

[9]  A. Ellington,et al.  Aptamer beacons for the direct detection of proteins. , 2001, Analytical biochemistry.

[10]  Yingfu Li,et al.  Structure-switching signaling aptamers. , 2003, Journal of the American Chemical Society.

[11]  Darko Stefanovic,et al.  A deoxyribozyme-based molecular automaton , 2003, Nature Biotechnology.

[12]  E. Shapiro,et al.  An autonomous molecular computer for logical control of gene expression , 2004, Nature.

[13]  宁北芳,et al.  疟原虫var基因转换速率变化导致抗原变异[英]/Paul H, Robert P, Christodoulou Z, et al//Proc Natl Acad Sci U S A , 2005 .

[14]  L. Wilkinson Immunity , 1891, The Lancet.

[15]  P. Rothemund Folding DNA to create nanoscale shapes and patterns , 2006, Nature.

[16]  N. Seeman,et al.  Operation of a DNA Robot Arm Inserted into a 2D DNA Crystalline Substrate , 2006, Science.

[17]  G. Seelig,et al.  Enzyme-Free Nucleic Acid Logic Circuits , 2022 .

[18]  Kemin Wang,et al.  Selection of aptamers for molecular recognition and characterization of cancer cells. , 2007, Analytical chemistry.

[19]  Zhiyong Ye,et al.  Burkholderia pseudomallei Infection of T Cells Leads to T-Cell Costimulation Partially Provided by Flagellin , 2008, Infection and Immunity.

[20]  Xiaoling Zhang,et al.  Molecular Assembly of an Aptamer–Drug Conjugate for Targeted Drug Delivery to Tumor Cells , 2009, Chembiochem : a European journal of chemical biology.

[21]  Akinori Kuzuya,et al.  Precisely Programmed and Robust 2D Streptavidin Nanoarrays by Using Periodical Nanometer‐Scale Wells Embedded in DNA Origami Assembly , 2009, Chembiochem : a European journal of chemical biology.

[22]  Shawn M. Douglas,et al.  Folding DNA into Twisted and Curved Nanoscale Shapes , 2009, Science.

[23]  Hao Yan,et al.  Scaffolded DNA origami of a DNA tetrahedron molecular container. , 2009, Nano letters.

[24]  J. Kjems,et al.  Self-assembly of a nanoscale DNA box with a controllable lid , 2009, Nature.

[25]  R. Rosenfeld Nature , 2009, Otolaryngology--head and neck surgery : official journal of American Academy of Otolaryngology-Head and Neck Surgery.

[26]  Shawn M. Douglas,et al.  Self-assembly of DNA into nanoscale three-dimensional shapes , 2009, Nature.

[27]  Adam H. Marblestone,et al.  Rapid prototyping of 3D DNA-origami shapes with caDNAno , 2009, Nucleic acids research.

[28]  Hao Yan,et al.  Immobilization and one-dimensional arrangement of virus capsids with nanoscale precision using DNA origami. , 2010, Nano letters.

[29]  Wael Mamdouh,et al.  Single-molecule chemical reactions on DNA origami. , 2010, Nature nanotechnology.

[30]  G. Gamez,et al.  ν=5/2fractional quantum Hall state in low-mobility electron systems: Different roles of disorder , 2011, 1101.5856.