DOE PAGES title logo U.S. Department of Energy
Office of Scientific and Technical Information

Title: DNA origami protection and molecular interfacing through engineered sequence-defined peptoids

Journal Article · · Proceedings of the National Academy of Sciences of the United States of America
 [1];  [2]; ORCiD logo [3];  [4];  [5];  [3]; ORCiD logo [6];  [4]; ORCiD logo [7]; ORCiD logo [3];  [1]
  1. Brookhaven National Lab. (BNL), Upton, NY (United States). Center for Functional Nanomaterials (CFN)
  2. Stanford Univ., CA (United States). Dept. of Chemistry
  3. Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)
  4. Imperial College, London (United Kingdom)
  5. Brookhaven National Lab. (BNL), Upton, NY (United States). National Synchrotron Light Source II (NSLS-II)
  6. Royal Melbourne Inst. of Technology (Australia)
  7. Stanford Univ., CA (United States). Dept. of Chemistry and Howard Hughes Medical Inst.

DNA nanotechnology provides a structural toolkit for the fabrication of programmable DNA nano-constructs; however, their use in biomedical applications is challenging due the limited structural integrity in complex biological fluids. Here, we report a class of tailorable molecular coatings, peptoids, which can efficiently stabilize three-dimensional wireframed DNA constructs under a variety of biomedically relevant conditions, including magnesium-ion depletion and presence of degrading nuclease. Furthermore, we show that peptoid-coated DNA constructs offer a controllable anticancer drug release and an ability to display functional biomolecules on the DNA surfaces. Our study demonstrates an approach for building multifunctional and environmentally robust DNA-based molecular structures for nanomedicine and biosensing.

Research Organization:
Brookhaven National Laboratory (BNL), Upton, NY (United States)
Sponsoring Organization:
USDOE Office of Science (SC), Basic Energy Sciences (BES)
Grant/Contract Number:
SC0012704; AC02-05CH11231; SC0008772; KP1605010
OSTI ID:
1604260
Alternate ID(s):
OSTI ID: 1607714
Report Number(s):
BNL-213757-2020-JAAM
Journal Information:
Proceedings of the National Academy of Sciences of the United States of America, Vol. 117, Issue 12; ISSN 0027-8424
Publisher:
National Academy of SciencesCopyright Statement
Country of Publication:
United States
Language:
English
Citation Metrics:
Cited by: 77 works
Citation information provided by
Web of Science

References (104)

Block Copolymer Micellization as a Protection Strategy for DNA Origami journal March 2017
Smart Drug Delivery Nanocarriers with Self-Assembled DNA Nanostructures journal June 2013
Structure and Dynamics of Condensed DNA Probed by 1,1‘-(4,4,8,8-Tetramethyl-4,8-diazaundecamethylene)bis[4-[[3- methylbenz-1,3-oxazol-2-yl]methylidine]-1,4-dihydroquinolinium] Tetraiodide Fluorescence journal December 2002
Proteolytic studies of homologous peptide and N-substituted glycine peptoid oligomers journal November 1994
Addressing the Instability of DNA Nanostructures in Tissue Culture journal August 2014
DNA Origami as a Carrier for Circumvention of Drug Resistance journal August 2012
BioXTAS RAW : improvements to a free open-source program for small-angle X-ray scattering data reduction and analysis journal September 2017
Sequence-Specific Molecular Lithography on Single DNA Molecules journal July 2002
Prescribed nanoparticle cluster architectures and low-dimensional arrays built using octahedral DNA origami frames journal May 2015
Virus-Encapsulated DNA Origami Nanostructures for Cellular Delivery journal March 2014
Folding DNA to create nanoscale shapes and patterns journal March 2006
Platinated DNA as Precursors to Templated Chains of Metal Nanoparticles journal December 2001
A Logic-Gated Nanorobot for Targeted Transport of Molecular Payloads journal February 2012
Intramolecular fluorescence self-quenching of fluoresceinamine journal March 1990
Effects of Hydration, Ion Release, and Excluded Volume on the Melting of Triplex and Duplex DNA journal January 1999
The design, synthesis, and evaluation of molecules that enable or enhance cellular uptake: Peptoid molecular transporters journal November 2000
Automated Sequence Design of 3D Polyhedral Wireframe DNA Origami with Honeycomb Edges journal January 2019
Spatially-Interactive Biomolecular Networks Organized by Nucleic Acid Nanostructures journal May 2012
Block Copolymer Micellization as a Protection Strategy for DNA Origami journal March 2017
New Peptidomimetic Polymers for Antifouling Surfaces journal June 2005
Control of enzyme reactions by a reconfigurable DNA nanovault journal October 2017
Highly sensitive fluorescent detection of trypsin based on BSA-stabilized gold nanoclusters journal February 2012
Universal computing by DNA origami robots in a living animal journal April 2014
A DNA-based method for rationally assembling nanoparticles into macroscopic materials journal August 1996
One-Step Formation of “Chain-Armor”-Stabilized DNA Nanostructures journal May 2015
Designer DNA Nanoarchitectures journal March 2009
Synthesis and Characterization of Well-Defined PEGylated Polypeptoids as Protein-Resistant Polymers journal February 2017
Atomic-level engineering and imaging of polypeptoid crystal lattices journal October 2019
Peptoid Polymers: A Highly Designable Bioinspired Material journal May 2013
DNA Origami as an In Vivo Drug Delivery Vehicle for Cancer Therapy journal June 2014
Designer nanoscale DNA assemblies programmed from the top down journal May 2016
Optimized DNA “Nanosuitcases” for Encapsulation and Conditional Release of siRNA journal October 2016
Challenges and opportunities for structural DNA nanotechnology journal November 2011
Highly sensitive fluorescent detection of trypsin based on BSA-stabilized gold nanoclusters journal February 2012
Covalent DNA-Streptavidin Conjugates as Building Blocks for Novel Biometallic Nanostructures journal September 1998
Protein Coating of DNA Nanostructures for Enhanced Stability and Immunocompatibility journal July 2017
New Peptidomimetic Polymers for Antifouling Surfaces journal June 2005
Precisely Tailored DNA Nanostructures and their Theranostic Applications journal June 2017
Lattice engineering through nanoparticle–DNA frameworks journal February 2016
Nucleases: diversity of structure, function and mechanism journal September 2010
DNA Origami as an In Vivo Drug Delivery Vehicle for Cancer Therapy journal June 2014
Cellular delivery of enzyme-loaded DNA origami journal January 2016
Arginine-Rich Molecular Transporters for Drug Delivery:  Role of Backbone Spacing in Cellular Uptake journal August 2002
Simulated Annealing of Chemical Potential:  A General Procedure for Locating Bound Waters. Application to the Study of the Differential Hydration Propensities of the Major and Minor Grooves of DNA journal January 1996
Synthesis and Characterization of Well-Defined PEGylated Polypeptoids as Protein-Resistant Polymers journal February 2017
SYBR Green I: Fluorescence Properties and Interaction with DNA journal April 2012
Precision glycocalyx editing as a strategy for cancer immunotherapy journal August 2016
Hydration Regulates Thermodynamics of G-Quadruplex Formation under Molecular Crowding Conditions journal June 2006
DNA Surface Technology: From Gene Sensors to Integrated Systems for Life and Materials Sciences journal December 2018
On the Stability of DNA Origami Nanostructures in Low-Magnesium Buffers journal June 2018
Cocoon-Like Self-Degradable DNA Nanoclew for Anticancer Drug Delivery journal October 2014
Self-assembly of DNA into nanoscale three-dimensional shapes journal May 2009
Control of stability and structure of nucleic acids using cosolutes journal May 2014
[25] Synthesis of N-substituted glycine peptoid libraries book January 1996
Virus-Encapsulated DNA Origami Nanostructures for Cellular Delivery journal March 2014
Addressing the Instability of DNA Nanostructures in Tissue Culture journal August 2014
Native Bovine Pancreatic Trypsin text January 2005
Control of stability and structure of nucleic acids using cosolutes journal May 2014
Structure and Dynamics of Condensed DNA Probed by 1,1‘-(4,4,8,8-Tetramethyl-4,8-diazaundecamethylene)bis[4-[[3- methylbenz-1,3-oxazol-2-yl]methylidine]-1,4-dihydroquinolinium] Tetraiodide Fluorescence journal December 2002
Designer DNA Nanoarchitectures journal March 2009
Programmable and Multifunctional DNA-Based Materials for Biomedical Applications journal February 2018
Peptoidic Amino- and Guanidinium-Carrier Systems: Targeted Drug Delivery into the Cell Cytosol or the Nucleus journal February 2008
DNA Surface Technology: From Gene Sensors to Integrated Systems for Life and Materials Sciences journal December 2018
Sequence-programmable covalent bonding of designed DNA assemblies journal August 2018
A general strategy for the DNA-mediated self-assembly of functional nanoparticles into heterogeneous systems journal October 2013
One-Step Formation of “Chain-Armor”-Stabilized DNA Nanostructures journal May 2015
Cocoon-Like Self-Degradable DNA Nanoclew for Anticancer Drug Delivery journal October 2014
DNA-guided crystallization of colloidal nanoparticles journal January 2008
A DNA-fuelled molecular machine made of DNA journal August 2000
Cellular Immunostimulation by CpG-Sequence-Coated DNA Origami Structures journal November 2011
Hydration Regulates Thermodynamics of G-Quadruplex Formation under Molecular Crowding Conditions journal June 2006
Simulated Annealing of Chemical Potential:  A General Procedure for Locating Bound Waters. Application to the Study of the Differential Hydration Propensities of the Major and Minor Grooves of DNA journal January 1996
Smart Drug Delivery Nanocarriers with Self-Assembled DNA Nanostructures journal June 2013
SYBR Green I: Fluorescence Properties and Interaction with DNA journal April 2012
Organization of 'nanocrystal molecules' using DNA journal August 1996
Folding DNA to create nanoscale shapes and patterns journal March 2006
Oligolysine-based coating protects DNA nanostructures from low-salt denaturation and nuclease degradation journal May 2017
Precisely Tailored DNA Nanostructures and their Theranostic Applications journal June 2017
Prescribed nanoparticle cluster architectures and low-dimensional arrays built using octahedral DNA origami frames journal May 2015
DNA rendering of polyhedral meshes at the nanoscale journal July 2015
DNase I-induced DNA conformation journal December 1991
Automated design of DNA origami journal August 2016
DNA in a material world journal January 2003
DNA Nanocages journal August 2016
DNA Origami as a Carrier for Circumvention of Drug Resistance journal August 2012
Investigations on DNA intercalation and surface binding by SYBR Green I, its structure determination and methodological implications journal July 2004
Recent Advances in the Synthesis of Peptoid Macrocycles journal February 2018
Recent Advances in the Synthesis of Peptoid Macrocycles journal February 2018
Optimized DNA “Nanosuitcases” for Encapsulation and Conditional Release of siRNA journal October 2016
Challenges and opportunities for structural DNA nanotechnology journal November 2011
Effects of Design Choices on the Stiffness of Wireframe DNA Origami Structures journal August 2018
Peptoid Polymers: A Highly Designable Bioinspired Material journal May 2013
Atomic-level engineering and imaging of polypeptoid crystal lattices journal October 2019
Control of enzyme reactions by a reconfigurable DNA nanovault journal October 2017
Investigations on DNA intercalation and surface binding by SYBR Green I, its structure determination and methodological implications journal July 2004
Cationic polymers for DNA origami coating – examining their binding efficiency and tuning the enzymatic reaction rates journal January 2016
A combinatorial approach to the discovery of efficient cationic peptoid reagents for gene delivery journal February 1998
Spatially-Interactive Biomolecular Networks Organized by Nucleic Acid Nanostructures journal May 2012
Stability of DNA Origami Nanostructure under Diverse Chemical Environments journal September 2014
On the Stability of DNA Origami Nanostructures in Low-Magnesium Buffers journal June 2018
A general strategy for the DNA-mediated self-assembly of functional nanoparticles into heterogeneous systems journal October 2013
Sequence-programmable covalent bonding of designed DNA assemblies journal August 2018
Effects of Hydration, Ion Release, and Excluded Volume on the Melting of Triplex and Duplex DNA journal January 1999
Protein Coating of DNA Nanostructures for Enhanced Stability and Immunocompatibility journal July 2017

Cited By (1)

3D DNA Nanostructures: The Nanoscale Architect journal March 2021