1
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Choi J, Kim J, Park JY, Hyun JK, Park SJ. Domain-Selective Enzymatic Cross-linking and Etching for Shape-Morphing DNA-Linked Nanoparticle Films. NANO LETTERS 2024; 24:2574-2580. [PMID: 38349338 DOI: 10.1021/acs.nanolett.3c04637] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/29/2024]
Abstract
The highly programmable and responsive molecular recognition properties of DNA provide unparalleled opportunities for fabricating dynamic nanostructures capable of structural transformation in response to various external stimuli. However, they typically operate in tightly controlled environments because certain conditions (ionic strength, pH, temperature, etc.) must be met for DNA duplex formation. In this study, we adopted site-specific enzymatic ligation and DNA-based layer-by-layer thin film fabrication to build shape-morphing DNA-linked nanoparticle films operational in a broad range of environments. The ligated films remained intact in unusual conditions such as pure water and high temperature causing dissociation of DNA duplexes and showed predictable and reversible shape morphing in response to various environmental changes and DNA exchange reactions. Furthermore, domain-selective ligation combined with photoinduced interlayer mixing allowed for the fabrication of unusual edge-sealed double-layered films through midlayer etching, which is difficult to realize by other methods.
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Affiliation(s)
- Jisu Choi
- Department of Chemistry and Nanoscience, Ewha Womans University, 52 Ewhayeodae-gil, Seodaemun-gu, Seoul 03760, Korea
| | - Jongwook Kim
- Department of Chemistry and Nanoscience, Ewha Womans University, 52 Ewhayeodae-gil, Seodaemun-gu, Seoul 03760, Korea
| | - Jin-Young Park
- Department of Chemistry and Nanoscience, Ewha Womans University, 52 Ewhayeodae-gil, Seodaemun-gu, Seoul 03760, Korea
| | - Jerome Kartham Hyun
- Department of Chemistry and Nanoscience, Ewha Womans University, 52 Ewhayeodae-gil, Seodaemun-gu, Seoul 03760, Korea
| | - So-Jung Park
- Department of Chemistry and Nanoscience, Ewha Womans University, 52 Ewhayeodae-gil, Seodaemun-gu, Seoul 03760, Korea
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2
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Bethur E, Guha R, Zhao Z, Katz BB, Ashby PD, Zeng H, Copp SM. Formation and Nanomechanical Properties of Silver-Mediated Guanine DNA Duplexes in Aqueous Solution. ACS NANO 2024; 18:3002-3010. [PMID: 38227309 PMCID: PMC10832345 DOI: 10.1021/acsnano.3c08008] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/24/2023] [Revised: 01/04/2024] [Accepted: 01/10/2024] [Indexed: 01/17/2024]
Abstract
Silver cations can mediate base pairing of guanine (G) DNA oligomers, yielding linear parallel G-Ag+-G duplexes with enhanced stabilities compared to those of canonical DNA duplexes. To enable their use in programmable DNA nanotechnologies, it is critical to understand solution-state formation and the nanomechanical stiffness of G-Ag+-G duplexes. Using temperature-controlled circular dichroism (CD) spectroscopy, we find that heating mixtures of G oligomers and silver salt above 50 °C fully destabilizes G-quadruplex structures and converts oligomers to G-Ag+-G duplexes. Electrospray ionization mass spectrometry supports that G-Ag+-G duplexes form at stoichiometries of 1 Ag+ per base pair, and CD spectroscopy suggests that as the Ag+/base stoichiometry increases further, G-Ag+-G duplexes undergo additional morphological changes. Using liquid-phase atomic force microscopy, we find that this excess Ag+ enables assembly of long fiberlike structures with ∼2.5 nm heights equivalent to a single DNA duplex but with lengths that far exceed a single duplex. Finally, using the conditions established to form single G-Ag+-G duplexes, we use a surface forces apparatus (SFA) to compare the solution-phase stiffness of single G-Ag+-G duplexes with dG-dC Watson-Crick-Franklin duplexes. SFA shows that G-Ag+-G duplexes are 1.3 times stiffer than dG-dC duplexes, confirming gas-phase ion mobility spectrometry measurements and computational predictions. These findings may guide the development of structural DNA nanotechnologies that rely on silver-mediated base pairing.
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Affiliation(s)
- Eshana Bethur
- Department
of Materials Science and Engineering, University
of California, Irvine, California 92697, United States
| | - Rweetuparna Guha
- Department
of Materials Science and Engineering, University
of California, Irvine, California 92697, United States
| | - Ziqian Zhao
- Department
of Chemical and Materials Engineering, University
of Alberta, Edmonton, Alberta T6G 1H9, Canada
| | - Benjamin B. Katz
- Department
of Chemistry, University of California, Irvine, California 92697, United States
| | - Paul D. Ashby
- Molecular
Foundry, Lawrence Berkeley National Laboratory, Berkeley, California 94720, United States
| | - Hongbo Zeng
- Department
of Chemical and Materials Engineering, University
of Alberta, Edmonton, Alberta T6G 1H9, Canada
| | - Stacy M. Copp
- Department
of Materials Science and Engineering, University
of California, Irvine, California 92697, United States
- Department
of Physics and Astronomy, University of
California, Irvine, California 92697, United States
- Department
of Chemical and Biomolecular Engineering, University of California, Irvine, California 92697, United States
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3
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Li Y, Jin H, Zhou W, Wang Z, Lin Z, Mirkin CA, Espinosa HD. Ultrastrong colloidal crystal metamaterials engineered with DNA. SCIENCE ADVANCES 2023; 9:eadj8103. [PMID: 37774024 PMCID: PMC10541499 DOI: 10.1126/sciadv.adj8103] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/17/2023] [Accepted: 08/30/2023] [Indexed: 10/01/2023]
Abstract
Lattice-based constructs, often made by additive manufacturing, are attractive for many applications. Typically, such constructs are made from microscale or larger elements; however, smaller nanoscale components can lead to more unusual properties, including greater strength, lighter weight, and unprecedented resiliencies. Here, solid and hollow nanoparticles (nanoframes and nanocages; frame size: ~15 nanometers) were assembled into colloidal crystals using DNA, and their mechanical strengths were studied. Nanosolid, nanocage, and nanoframe lattices with identical crystal symmetries exhibit markedly different specific stiffnesses and strengths. Unexpectedly, the nanoframe lattice is approximately six times stronger than the nanosolid lattice. Nanomechanical experiments, electron microscopy, and finite element analysis show that this property results from the buckling, densification, and size-dependent strain hardening of nanoframe lattices. Last, these unusual open architectures show that lattices with structural elements as small as 15 nanometers can retain a high degree of strength, and as such, they represent target components for making and exploring a variety of miniaturized devices.
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Affiliation(s)
- Yuanwei Li
- Department of Chemical and Biological Engineering, Northwestern University, Evanston, IL 60208, USA
- International Institute for Nanotechnology, Northwestern University, Evanston, IL 60208, USA
| | - Hanxun Jin
- International Institute for Nanotechnology, Northwestern University, Evanston, IL 60208, USA
- Department of Mechanical Engineering, Northwestern University, Evanston, IL 60208, USA
| | - Wenjie Zhou
- International Institute for Nanotechnology, Northwestern University, Evanston, IL 60208, USA
- Department of Chemistry, Northwestern University, Evanston, IL 60208, USA
| | - Zhe Wang
- International Institute for Nanotechnology, Northwestern University, Evanston, IL 60208, USA
- Department of Chemistry, Northwestern University, Evanston, IL 60208, USA
| | - Zhaowen Lin
- International Institute for Nanotechnology, Northwestern University, Evanston, IL 60208, USA
- Department of Mechanical Engineering, Northwestern University, Evanston, IL 60208, USA
| | - Chad A. Mirkin
- Department of Chemical and Biological Engineering, Northwestern University, Evanston, IL 60208, USA
- International Institute for Nanotechnology, Northwestern University, Evanston, IL 60208, USA
- Department of Chemistry, Northwestern University, Evanston, IL 60208, USA
| | - Horacio D. Espinosa
- International Institute for Nanotechnology, Northwestern University, Evanston, IL 60208, USA
- Department of Mechanical Engineering, Northwestern University, Evanston, IL 60208, USA
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4
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Mirkin CA, Petrosko SH. Inspired Beyond Nature: Three Decades of Spherical Nucleic Acids and Colloidal Crystal Engineering with DNA. ACS NANO 2023; 17:16291-16307. [PMID: 37584399 DOI: 10.1021/acsnano.3c06564] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 08/17/2023]
Abstract
The conception, synthesis, and invention of a nanostructure, now known as the spherical nucleic acid, or SNA, in 1996 marked the advent of a new field of chemistry. Over the past three decades, the SNA and its analogous anisotropic equivalents have provided an avenue for us to think about some of the most fundamental concepts in chemistry in new ways and led to technologies that are significantly impacting fields from medicine to materials science. A prime example is colloidal crystal engineering with DNA, the framework for using SNAs and related structures to synthesize programmable matter. Herein, we document the evolution of this framework, which was initially inspired by nature, and describe how it now allows researchers to chart paths to move beyond it, as programmable matter with real-world significance is envisioned and created.
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Affiliation(s)
- Chad A Mirkin
- Department of Chemistry and International Institute for Nanotechnology, Northwestern University, Evanston, Illinois 60208, United States
| | - Sarah Hurst Petrosko
- Department of Chemistry and International Institute for Nanotechnology, Northwestern University, Evanston, Illinois 60208, United States
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5
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Calcaterra HA, Zheng CY, Seifert S, Yao Y, Jiang Y, Mirkin CA, Deng J, Lee B. Hints of Growth Mechanism Left in Supercrystals. ACS NANO 2023; 17:15999-16007. [PMID: 37552879 DOI: 10.1021/acsnano.3c04365] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 08/10/2023]
Abstract
Supercrystals of DNA-functionalized nanoparticles are visualized in three dimensions using X-ray ptychographic tomography, and their reciprocal spaces are mapped with small-angle X-ray scattering in order to better understand their internal defect structures. X-ray ptychographic tomography reveals various types of defects in an assembly that otherwise exhibits a single crystalline diffraction pattern. On average, supercrystals composed of smaller nanoparticles are smaller in size than supercrystals composed of larger particles. Additionally, supercrystals composed of small nanoparticles are typically aggregated into larger "necklace-like" structures. Within these larger structures, some but not all pairs of connected domains are coherent in their relative orientations. In contrast, supercrystals composed of larger nanoparticles with longer DNA ligands typically form faceted crystals. The combination of these two complementary X-ray techniques reveals that the crystalline assemblies grow by aggregation of smaller assemblies followed by rearrangement of nanoparticles.
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Affiliation(s)
- Heather A Calcaterra
- Department of Chemical and Biological Engineering, Northwestern University, Evanston, Illinois 60208, United States
- International Institute for Nanotechnology, Northwestern University, Evanston, Illinois 60208, United States
| | - Cindy Y Zheng
- International Institute for Nanotechnology, Northwestern University, Evanston, Illinois 60208, United States
- Department of Chemistry, Northwestern University, Evanston, Illinois 60208, United States
| | - Soenke Seifert
- Department of Chemistry, Northwestern University, Evanston, Illinois 60208, United States
| | - Yudong Yao
- X-ray Science Division, Advanced Photon Source, Argonne National Laboratory, Argonne, Illinois 60439, United States
| | - Yi Jiang
- X-ray Science Division, Advanced Photon Source, Argonne National Laboratory, Argonne, Illinois 60439, United States
| | - Chad A Mirkin
- Department of Chemical and Biological Engineering, Northwestern University, Evanston, Illinois 60208, United States
- International Institute for Nanotechnology, Northwestern University, Evanston, Illinois 60208, United States
- Department of Chemistry, Northwestern University, Evanston, Illinois 60208, United States
| | - Junjing Deng
- X-ray Science Division, Advanced Photon Source, Argonne National Laboratory, Argonne, Illinois 60439, United States
| | - Byeongdu Lee
- X-ray Science Division, Advanced Photon Source, Argonne National Laboratory, Argonne, Illinois 60439, United States
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6
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Kong H, Sun B, Yu F, Wang Q, Xia K, Jiang D. Exploring the Potential of Three-Dimensional DNA Crystals in Nanotechnology: Design, Optimization, and Applications. ADVANCED SCIENCE (WEINHEIM, BADEN-WURTTEMBERG, GERMANY) 2023; 10:e2302021. [PMID: 37327311 PMCID: PMC10460852 DOI: 10.1002/advs.202302021] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/28/2023] [Revised: 05/23/2023] [Indexed: 06/18/2023]
Abstract
DNA has been used as a robust material for the building of a variety of nanoscale structures and devices owing to its unique properties. Structural DNA nanotechnology has reported a wide range of applications including computing, photonics, synthetic biology, biosensing, bioimaging, and therapeutic delivery, among others. Nevertheless, the foundational goal of structural DNA nanotechnology is exploiting DNA molecules to build three-dimensional crystals as periodic molecular scaffolds to precisely align, obtain, or collect desired guest molecules. Over the past 30 years, a series of 3D DNA crystals have been rationally designed and developed. This review aims to showcase various 3D DNA crystals, their design, optimization, applications, and the crystallization conditions utilized. Additionally, the history of nucleic acid crystallography and potential future directions for 3D DNA crystals in the era of nanotechnology are discussed.
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Affiliation(s)
- Huating Kong
- Shanghai Synchrotron Radiation FacilityShanghai Advanced Research InstituteChinese Academy of SciencesShanghai201204China
| | - Bo Sun
- Shanghai Synchrotron Radiation FacilityShanghai Advanced Research InstituteChinese Academy of SciencesShanghai201204China
| | - Feng Yu
- Shanghai Synchrotron Radiation FacilityShanghai Advanced Research InstituteChinese Academy of SciencesShanghai201204China
| | - Qisheng Wang
- Shanghai Synchrotron Radiation FacilityShanghai Advanced Research InstituteChinese Academy of SciencesShanghai201204China
| | - Kai Xia
- Shanghai Frontier Innovation Research InstituteShanghai201108China
- Shanghai Stomatological HospitalFudan UniversityShanghai200031China
| | - Dawei Jiang
- Wuhan Union HospitalTongji Medical CollegeHuazhong University of Science and TechnologyWuhan430022China
- Hubei Key Laboratory of Molecular ImagingWuhan430022China
- Key Laboratory of Biological Targeted Therapythe Ministry of EducationWuhan430022China
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7
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Landy KM, Gibson KJ, Chan RR, Pietryga J, Weigand S, Mirkin CA. Programming Nucleation and Growth in Colloidal Crystals Using DNA. ACS NANO 2023; 17:6480-6487. [PMID: 36995781 DOI: 10.1021/acsnano.2c11674] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/19/2023]
Abstract
Colloidal crystal engineering with DNA has advanced beyond controlling the lattice symmetry and parameters of ordered crystals to now tuning crystal habit and size. However, the predominately used slow-cooling procedure that enables faceted crystal habits also limits control over crystal size and uniformity because nucleation and growth cannot be separated. Here, we explore how DNA sequence design can be used to deliberately separate nucleation and growth in a given crystallization process. Specifically, two batches of complementary particles are created with one batch exhibiting perfectly complementary base pairs while the other has a strategically introduced mismatch. This design enables the weaker binding "growth" particles to participate in heterogeneous growth on the nucleates formed from the stronger binding "seed" particles, effectively eliminating secondary nucleation pathways. By eliminating secondary nucleation events, this approach improves crystal uniformity, as measured by polydispersity (from PDI = 0.201 to 0.091). By using this approach with two different particle cores (gold and silver), we show how core-shell colloidal crystals can be synthesized in a one-pot fashion. This work shows how tuning DNA interaction strength can profoundly impact crystal size, uniformity, and structure, parameters central to using such materials as device components.
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Affiliation(s)
- Kaitlin M Landy
- Department of Chemistry, Northwestern University, 2145 Sheridan Road, Evanston, Illinois 60208, United States
- International Institute for Nanotechnology, Northwestern University, 2145 Sheridan Road, Evanston, Illinois 60208, United States
| | - Kyle J Gibson
- Department of Chemistry, Northwestern University, 2145 Sheridan Road, Evanston, Illinois 60208, United States
- International Institute for Nanotechnology, Northwestern University, 2145 Sheridan Road, Evanston, Illinois 60208, United States
| | - Rachel R Chan
- Department of Chemistry, Northwestern University, 2145 Sheridan Road, Evanston, Illinois 60208, United States
- International Institute for Nanotechnology, Northwestern University, 2145 Sheridan Road, Evanston, Illinois 60208, United States
| | - Jacob Pietryga
- International Institute for Nanotechnology, Northwestern University, 2145 Sheridan Road, Evanston, Illinois 60208, United States
- Department of Materials Science and Engineering, Northwestern University, 2220 Campus Drive, Evanston, Illinois 60208, United States
| | - Steven Weigand
- DuPont-Northwestern-Dow Collaborative Access Team (DND-CAT), Synchrotron Research Center, Northwestern University, 9700 South Cass Avenue, Argonne, Illinois 60439, United States
| | - Chad A Mirkin
- Department of Chemistry, Northwestern University, 2145 Sheridan Road, Evanston, Illinois 60208, United States
- International Institute for Nanotechnology, Northwestern University, 2145 Sheridan Road, Evanston, Illinois 60208, United States
- Department of Materials Science and Engineering, Northwestern University, 2220 Campus Drive, Evanston, Illinois 60208, United States
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8
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Zhang Y, Tang H, Wang R. Controlling the two components modified on nanoparticles to construct nanomaterials. SOFT MATTER 2022; 18:8213-8222. [PMID: 36285648 DOI: 10.1039/d2sm00877g] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/16/2023]
Abstract
Nanoparticle self-assembly technology has made great progress in the past 30 years. Many kinds of self-assembly strategies of modifiable nanoparticles have been developed and used to construct nano-aggregates by designing the shape, size and type of nanoparticles and controlling the components modified on nanoparticles. These strategies are widely used in many fields, such as medical diagnosis, biological detection, drug delivery, materials synthesis and sensors. The modified components can be DNA chains, polymer chains, proteins, and even organic molecules based on different molecular conformations and chemical properties. In recent years, the self-assembly of two-component modified nanoparticles has gradually attracted more attention. Nanoparticles modified with two components of different DNA strands can self-assemble to produce a variety of nano arrangement structures, such as BCC, FCC and other cubic crystals, which can be used in crystal materials. Two-component modification of hydrophilic and hydrophobic polymers can produce vesicular aggregates, which can be used for drug delivery. In this review, we summarize the latest experimental progress and theoretical simulation of self-assembly of two-component modified nanoparticles including different DNA chains, different polymer chains, DNA and polymer chains, proteins and polymer chains, and different organic molecules. Their self-assembly characteristics and application prospects were discussed. Compared with single-component modified nanoparticles, two-component nanoparticles have different tethered molecules or molecular chains, which can be multifunctional by regulating different modified components and types of nanoparticles and ultimately expand the scope of applications.
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Affiliation(s)
- Yixin Zhang
- Department of Polymer Science and Engineering, State Key Laboratory of Coordination Chemistry, Key Laboratory of High Performance Polymer Materials and Technology of Ministry of Education, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing, 210023, China.
| | - Hao Tang
- Department of Polymer Science and Engineering, State Key Laboratory of Coordination Chemistry, Key Laboratory of High Performance Polymer Materials and Technology of Ministry of Education, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing, 210023, China.
| | - Rong Wang
- Department of Polymer Science and Engineering, State Key Laboratory of Coordination Chemistry, Key Laboratory of High Performance Polymer Materials and Technology of Ministry of Education, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing, 210023, China.
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9
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Open-channel metal particle superlattices. Nature 2022; 611:695-701. [DOI: 10.1038/s41586-022-05291-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/18/2021] [Accepted: 08/30/2022] [Indexed: 11/08/2022]
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10
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Li CY, Lv SW, Yang L, Wang J, Liu JM, Wang S. Facile preparation of uniform-sized covalent organic framework nanoflowers as versatile sample-pretreatment platforms for sensitive and specific determination of hazardous substances. JOURNAL OF HAZARDOUS MATERIALS 2022; 438:129566. [PMID: 35999751 DOI: 10.1016/j.jhazmat.2022.129566] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/25/2022] [Revised: 06/28/2022] [Accepted: 07/07/2022] [Indexed: 06/15/2023]
Abstract
Covalent-organic frameworks (COFs) have lately received extensive interest for their outstanding performance, especially to adsorption of hazards, while easy-preparation of uniform-sized COFs hold a great challenge. This research presented a simple synthesis method of flower-shaped COF (nanoflower) with strong hydrophobic surface at room temperature. Taking advantage of its easy-prepared and uniform-sized features, we proposed a versatile and efficient sample-pretreatment platform by employing the nanoflower COF for affinity adsorption of various hydrophobic biotoxins and further surface imprinting for selective enrichment of specific biotoxin (COF@MIP), respectively. The COF@MIP was integrating COF with molecular imprinting technique to achieve selective identification of sterigmatocystin (ST) with high specificity and sensitivity. They both exhibited well reusability, preserving 81% of initial activity after being used for six cycles. The as-prepared materials coupled with offline solid phase extraction (SPE) and high performance liquid chromatography (HPLC) were successfully applied to five common cereals with good recoveries in the range of 70.3-100.7%. Moreover, the principle of versatile sample pretreatment and detection platform based on the facile-prepared and uniform-sized COF nanoflower would be easily extended to other hazards. It provided a prospective approach for the pretreatment and determination of hazardous substances with low level in complex sample matrix.
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Affiliation(s)
- Chun-Yang Li
- Tianjin Key Laboratory of Food Science and Health, School of Medicine, Nankai University, Tianjin 300071, China
| | - Shi-Wen Lv
- Tianjin Key Laboratory of Food Science and Health, School of Medicine, Nankai University, Tianjin 300071, China
| | - Lu Yang
- Tianjin Key Laboratory of Food Science and Health, School of Medicine, Nankai University, Tianjin 300071, China
| | - Jin Wang
- Tianjin Key Laboratory of Food Science and Health, School of Medicine, Nankai University, Tianjin 300071, China
| | - Jing-Min Liu
- Tianjin Key Laboratory of Food Science and Health, School of Medicine, Nankai University, Tianjin 300071, China.
| | - Shuo Wang
- Tianjin Key Laboratory of Food Science and Health, School of Medicine, Nankai University, Tianjin 300071, China; State Key Laboratory of Food Nutrition and Safety, Tianjin University of Science and Technology, Tianjin 300457, China.
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11
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Gao Y, Zhou Y, Xu X, Chen C, Xiong B, Zhu J. Fabrication of Oriented Colloidal Crystals from Capillary Assembly of Polymer-Tethered Gold Nanoparticles. SMALL (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2022; 18:e2106880. [PMID: 35146905 DOI: 10.1002/smll.202106880] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/09/2021] [Revised: 01/10/2022] [Indexed: 06/14/2023]
Abstract
Self-assembled colloidal crystals (CCs) or nanoparticle (NPs) superlattices have attracted significant attention due to their potential applications in many fields. However, due to the complex interactions that govern the self-assembly, it is difficult to predict and control the superstructure organization of CCs. Herein, a facile yet effective way is demonstrated to fabricate oriented CCs from capillary assembly of polymer-tethered gold NPs (AuNPs). Assembly mechanism of polymer-tethered AuNPs and their superlattice structures are systematically studied by in situ small-angle X-ray scattering (SAXS) technology. The results show that the oriented CCs of polymer-tethered AuNPs can be obtained upon solvent evaporation in a capillary tube and the oriented structure is mainly determined by the chain length of polymer ligands and size of AuNPs. Assembly of AuNPs tethered by short-chain ligand can result in oriented face-centered cubic (fcc) superlattice, whereas AuNPs tethered by long-chain ligand can assemble into an oriented body-centered tetragonal (bct) superlattice structure. Interestingly, in situ SAXS study shows that for the sample of bct superlattice structure, a transformation from fcc to bct superlattice upon solvent evaporation is observed, which strongly depends on chain length of ligands. This work provides a useful guide for polymer-tethered AuNPs to prepare orientation colloidal crystals.
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Affiliation(s)
- Yutong Gao
- Key Laboratory of Materials Chemistry for Energy Conversion and Storage (HUST) of Ministry of Education, School of Chemistry and Chemical Engineering, Huazhong University of Science and Technology (HUST), Wuhan, 430074, China
| | - Youshuang Zhou
- Key Laboratory for the Green Preparation and Application of Functional Materials of Ministry of Education, Hubei Key Laboratory of Polymer Materials, Faculty of Materials Science and Engineering, Hubei University, Wuhan, 430062, China
| | - Xiangyun Xu
- Key Laboratory of Materials Chemistry for Energy Conversion and Storage (HUST) of Ministry of Education, School of Chemistry and Chemical Engineering, Huazhong University of Science and Technology (HUST), Wuhan, 430074, China
| | - Chungui Chen
- Key Laboratory of Materials Chemistry for Energy Conversion and Storage (HUST) of Ministry of Education, School of Chemistry and Chemical Engineering, Huazhong University of Science and Technology (HUST), Wuhan, 430074, China
| | - Bijin Xiong
- Key Laboratory of Materials Chemistry for Energy Conversion and Storage (HUST) of Ministry of Education, School of Chemistry and Chemical Engineering, Huazhong University of Science and Technology (HUST), Wuhan, 430074, China
| | - Jintao Zhu
- Key Laboratory of Materials Chemistry for Energy Conversion and Storage (HUST) of Ministry of Education, School of Chemistry and Chemical Engineering, Huazhong University of Science and Technology (HUST), Wuhan, 430074, China
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12
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Samanta D, Zhou W, Ebrahimi SB, Petrosko SH, Mirkin CA. Programmable Matter: The Nanoparticle Atom and DNA Bond. ADVANCED MATERIALS (DEERFIELD BEACH, FLA.) 2022; 34:e2107875. [PMID: 34870875 DOI: 10.1002/adma.202107875] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/01/2021] [Revised: 11/22/2021] [Indexed: 05/21/2023]
Abstract
Colloidal crystal engineering with DNA has led to significant advances in bottom-up materials synthesis and a new way of thinking about fundamental concepts in chemistry. Here, programmable atom equivalents (PAEs), comprised of nanoparticles (the "atoms") functionalized with DNA (the "bonding elements"), are assembled through DNA hybridization into crystalline lattices. Unlike atomic systems, the "atom" (e.g., the nanoparticle shape, size, and composition) and the "bond" (e.g., the DNA length and sequence) can be tuned independently, yielding designer materials with unique catalytic, optical, and biological properties. In this review, nearly three decades of work that have contributed to the evolution of this class of programmable matter is chronicled, starting from the earliest examples based on gold-core PAEs, and then delineating how advances in synthetic capabilities, DNA design, and fundamental understanding of PAE-PAE interactions have led to new classes of functional materials that, in several cases, have no natural equivalent.
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Affiliation(s)
- Devleena Samanta
- Department of Chemistry and International Institute for Nanotechnology, Northwestern University, 2145 Sheridan Road, Evanston, IL, 60208, USA
| | - Wenjie Zhou
- Department of Chemistry and International Institute for Nanotechnology, Northwestern University, 2145 Sheridan Road, Evanston, IL, 60208, USA
| | - Sasha B Ebrahimi
- Department of Chemical Engineering and International Institute for Nanotechnology, Northwestern University, 2145 Sheridan Road, Evanston, IL, 60208, USA
| | - Sarah Hurst Petrosko
- Department of Chemistry and International Institute for Nanotechnology, Northwestern University, 2145 Sheridan Road, Evanston, IL, 60208, USA
| | - Chad A Mirkin
- Department of Chemistry and International Institute for Nanotechnology, Northwestern University, 2145 Sheridan Road, Evanston, IL, 60208, USA
- Department of Chemical Engineering and International Institute for Nanotechnology, Northwestern University, 2145 Sheridan Road, Evanston, IL, 60208, USA
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13
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Saran R, Piccolo KA, He Y, Kang Y, Huang PJJ, Wei C, Chen D, Dieckmann T, Liu J. Thioflavin T fluorescence and NMR spectroscopy suggesting a non-G-quadruplex structure for a sodium binding aptamer embedded in DNAzymes. CAN J CHEM 2021. [DOI: 10.1139/cjc-2021-0024] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Abstract
Recently, a Na+-binding aptamer was reported to be embedded in a few RNA-cleaving DNAzymes, including NaA43, Ce13d, and NaH1. The Na+ aptamer consists of multiple GG stretches, which is a prerequisite for the formation of G-quadruplex (G4) structures. These DNAzymes require Na+ for activity but show no activity in the presence of K+ or other metal ions. Given that DNA can selectively bind K+ by forming a G4 structure, this work aims to answer whether this Na+ aptamer also uses a G4 to bind Na+. Through comparative ThT fluorescence spectrometry studies, while a control G4 DNA exhibited notable fluorescence enhancement up to 5 mM K+ with a Kd of 0.28 ± 0.06 mM, the Ce13d DNAzyme fluorescence was negligibly perturbed with similar concentrations of K+. Opposed to this, Ce13d displayed specific remarkable fluorescence decrease with low millimolar concentrations of Na+. NMR experiments at two different pH values suggest that Ce13d adopts a significantly different conformation or equilibrium of conformations in the presence of Na+ versus K+ and has a more stable structure in the presence of Na+. Additionally, absence of characteristic G4 peaks in one-dimensional 1H NMR suggest that G4 is not responsible for the Na+ binding. This hypothesis is confirmed by the absence of characteristic peaks in the CD spectra of this sequence. Therefore, we concluded that the aptamer must be selective for Na+ and that it binds Na+ using a structural element that does not contain G4.
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Affiliation(s)
- Runjhun Saran
- Department of Chemistry, University of Waterloo, Waterloo, ON N2L 3G1, Canada
- Waterloo Institute for Nanotechnology, University of Waterloo, Waterloo, ON N2L 3G1, Canada
| | - Kyle A. Piccolo
- Department of Chemistry, University of Waterloo, Waterloo, ON N2L 3G1, Canada
| | - Yanping He
- Department of Chemistry, University of Waterloo, Waterloo, ON N2L 3G1, Canada
- Waterloo Institute for Nanotechnology, University of Waterloo, Waterloo, ON N2L 3G1, Canada
- State Key Laboratory of Precision Measurement Technology and Instruments, Tianjin University, Tianjin 300072, P.R. China
| | - Yongqiang Kang
- Key Laboratory of Chemical Biology and Molecular Engineering of Ministry of Education, Institute of Molecular Science, Shanxi University, Taiyuan 030006, P.R. China
| | - Po-Jung Jimmy Huang
- Department of Chemistry, University of Waterloo, Waterloo, ON N2L 3G1, Canada
- Waterloo Institute for Nanotechnology, University of Waterloo, Waterloo, ON N2L 3G1, Canada
| | - Chunying Wei
- Key Laboratory of Chemical Biology and Molecular Engineering of Ministry of Education, Institute of Molecular Science, Shanxi University, Taiyuan 030006, P.R. China
| | - Da Chen
- State Key Laboratory of Precision Measurement Technology and Instruments, Tianjin University, Tianjin 300072, P.R. China
| | - Thorsten Dieckmann
- Department of Chemistry, University of Waterloo, Waterloo, ON N2L 3G1, Canada
| | - Juewen Liu
- Department of Chemistry, University of Waterloo, Waterloo, ON N2L 3G1, Canada
- Waterloo Institute for Nanotechnology, University of Waterloo, Waterloo, ON N2L 3G1, Canada
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14
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Petrosko SH, Coleman BD, Drout RJ, Schultz JD, Mirkin CA. Spherical Nucleic Acids: Integrating Nanotechnology Concepts into General Chemistry Curricula. JOURNAL OF CHEMICAL EDUCATION 2021; 98:3090-3099. [PMID: 35250048 PMCID: PMC8890693 DOI: 10.1021/acs.jchemed.1c00441] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/14/2023]
Abstract
Nanoscience and technology research offer exciting avenues to modernize undergraduate-level General Chemistry curricula. In particular, spherical nucleic acid (SNA) nanoconjugates, which behave as "programmable atom equivalents" (PAEs) in the context of colloidal crystals, are one system that one can use to reinforce foundational concepts in chemistry including matter and atoms, the Periodic Table, Lewis dot structures and the octet rule, valency and valence-shell electron-pair repulsion (VSEPR) theory, and Pauling's rules, ultimately leading to enriching discussions centered on materials chemistry and biochemistry with key implications in medicine, optics, catalysis, and other areas. These lessons connect historical and modern concepts in chemistry, relate course content to current professional and popular science topics, inspire critical and creative thinking, and spur some students to continue their science, technology, engineering, and mathematics (STEM) education and attain careers in STEM fields. Ultimately, and perhaps most importantly, these lessons may expand the pool of young students interested in chemistry by making connections to a broader group of contemporary concepts and technologies that impact their lives and enhance their view of the field. Herein, a way of teaching aspects of General Chemistry in the context of modern nanoscience concepts is introduced to instructors and curricula developers at research institutions, primarily undergraduate institutions, and community colleges worldwide.
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Affiliation(s)
- Sarah Hurst Petrosko
- Department of Chemistry and International Institute for Nanotechnology, Evanston, Illinois 60208, United States
| | - Benjamin D Coleman
- Department of Chemistry and International Institute for Nanotechnology, Evanston, Illinois 60208, United States
| | - Riki J Drout
- Department of Chemistry and International Institute for Nanotechnology, Evanston, Illinois 60208, United States
| | - Jonathan D Schultz
- Department of Chemistry and International Institute for Nanotechnology, Evanston, Illinois 60208, United States
| | - Chad A Mirkin
- Department of Chemistry and International Institute for Nanotechnology, Evanston, Illinois 60208, United States
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15
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Wang S, Xie X, Chen Z, Ma N, Zhang X, Li K, Teng C, Ke Y, Tian Y. DNA-Grafted 3D Superlattice Self-Assembly. Int J Mol Sci 2021; 22:7558. [PMID: 34299179 PMCID: PMC8306452 DOI: 10.3390/ijms22147558] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/02/2021] [Revised: 06/22/2021] [Accepted: 06/23/2021] [Indexed: 12/12/2022] Open
Abstract
The exploitation of new methods to control material structure has historically been dominating the material science. The bottom-up self-assembly strategy by taking atom/molecule/ensembles in nanoscale as building blocks and crystallization as a driving force bring hope for material fabrication. DNA-grafted nanoparticle has emerged as a "programmable atom equivalent" and was employed for the assembly of hierarchically ordered three-dimensional superlattice with novel properties and studying the unknown assembly mechanism due to its programmability and versatility in the binding capabilities. In this review, we highlight the assembly strategies and rules of DNA-grafted three-dimensional superlattice, dynamic assembly by different driving factors, and discuss their future applications.
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Affiliation(s)
- Shuang Wang
- Institute of Marine Biomedicine, Shenzhen Polytechnic, Shenzhen 518055, China; (S.W.); (K.L.)
- State Key Laboratory of Analytical Chemistry for Life Science, Nanjing University, Nanjing 210023, China; (X.X.); (Z.C.); (N.M.); (X.Z.)
| | - Xiaolin Xie
- State Key Laboratory of Analytical Chemistry for Life Science, Nanjing University, Nanjing 210023, China; (X.X.); (Z.C.); (N.M.); (X.Z.)
| | - Zhi Chen
- State Key Laboratory of Analytical Chemistry for Life Science, Nanjing University, Nanjing 210023, China; (X.X.); (Z.C.); (N.M.); (X.Z.)
| | - Ningning Ma
- State Key Laboratory of Analytical Chemistry for Life Science, Nanjing University, Nanjing 210023, China; (X.X.); (Z.C.); (N.M.); (X.Z.)
| | - Xue Zhang
- State Key Laboratory of Analytical Chemistry for Life Science, Nanjing University, Nanjing 210023, China; (X.X.); (Z.C.); (N.M.); (X.Z.)
| | - Kai Li
- Institute of Marine Biomedicine, Shenzhen Polytechnic, Shenzhen 518055, China; (S.W.); (K.L.)
- State Key Laboratory of Analytical Chemistry for Life Science, Nanjing University, Nanjing 210023, China; (X.X.); (Z.C.); (N.M.); (X.Z.)
| | - Chao Teng
- Institute of Marine Biomedicine, Shenzhen Polytechnic, Shenzhen 518055, China; (S.W.); (K.L.)
| | - Yonggang Ke
- Wallace H. Coulter Department of Biomedical Engineering, Georgia Institute of Technology and Emory University, Atlanta, GA 30322, USA
| | - Ye Tian
- Shenzhen Research Institute of Nanjing University, Shenzhen 518000, China
- College of Engineering and Applied Sciences, Nanjing University, Nanjing 210023, China
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16
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Kubiak JM, Morje AP, Lewis DJ, Wilson SL, Macfarlane RJ. Dynamic Manipulation of DNA-Programmed Crystals Embedded in a Polyelectrolyte Hydrogel. ACS APPLIED MATERIALS & INTERFACES 2021; 13:11215-11223. [PMID: 33645965 DOI: 10.1021/acsami.0c23097] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
DNA is a powerful tool for programming the three-dimensional organization of nanomaterials, where the specificity of nucleotide base-pairing can enable precise, complex, and dynamically addressable structures like colloidal crystals. However, because these DNA-programmed materials are often only stable in solution, their organization can be easily disrupted by changes to its local environment. Methods to stabilize these materials have been developed, but often come at the expense of altering or permanently fixing the materials' structures, removing many of the benefits of using DNA interactions to program assembly. Thus, these methods limit the application of DNA-assembled structures as dynamic and programmable material components. Here, a method is presented to resolve these drawbacks for DNA-grafted nanoparticles, also known as Programmable Atom Equivalents (PAEs), by embedding assembled lattices within a hydrogel matrix. The preformed lattices are exposed to polymerizable residues that electrostatically bind to the charged backbone of the DNA ligands and form a continuous, permeating gel network that stabilizes the colloidal crystals upon introduction of a radical initiator. After embedding PAEs in a hydrogel, deformation of the macroscopic matrix results in concomitant deformation of the PAE lattices, allowing superlattice structural changes to be induced by chemical methods (such as changing solute concentration to alter swelling pressure) or by application of mechanical strain. Changes to the structure of the PAE lattices are reversible and repeatable over multiple cycles and can be either isotropic (such as by swelling) or anisotropic (such as by mechanical deformation). This method of embedding nanoparticle crystals inside of a flexible and environmentally responsive hydrogel is therefore a useful tool in extending the utility of PAEs and other micro- and nanostructures assembled with DNA.
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Affiliation(s)
- Joshua M Kubiak
- Department of Materials Science and Engineering, Massachusetts Institute of Technology (MIT), 77 Massachusetts Avenue, Cambridge, Massachusetts 02139, United States
| | - Amogh P Morje
- Department of Materials Science and Engineering, Massachusetts Institute of Technology (MIT), 77 Massachusetts Avenue, Cambridge, Massachusetts 02139, United States
| | - Diana J Lewis
- Department of Materials Science and Engineering, Massachusetts Institute of Technology (MIT), 77 Massachusetts Avenue, Cambridge, Massachusetts 02139, United States
- The Charles Stark Draper Laboratory, Inc., 555 Technology Square, Cambridge, Massachusetts 02139, United States
| | - Sara L Wilson
- Department of Materials Science and Engineering, Massachusetts Institute of Technology (MIT), 77 Massachusetts Avenue, Cambridge, Massachusetts 02139, United States
| | - Robert J Macfarlane
- Department of Materials Science and Engineering, Massachusetts Institute of Technology (MIT), 77 Massachusetts Avenue, Cambridge, Massachusetts 02139, United States
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17
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Dey J, Lee SJ, Kim J, Lim SH, Ha JM, Lee MJ, Choi SM. Spontaneous Formation of Highly Stable Nanoparticle Supercrystals Driven by a Covalent Bonding Interaction. NANO LETTERS 2021; 21:258-264. [PMID: 33372784 DOI: 10.1021/acs.nanolett.0c03616] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
Nanoparticle supercrystals (NPSCs) are of great interest as materials with emergent properties. Different types of intermolecular forces, such as van der Waals interaction and hydrogen bonding, are present in the NPSCs fabricated to date. However, the limited structural stability of such NPSCs that results from the weakness of these intermolecular forces is a challenge. Here, we report a spontaneous formation of NPSCs driven by covalent bonding interactions, a type of intramolecular force much stronger than the above-mentioned intermolecular forces. A model solution-phase anhydride reaction is used to form covalent bonds between molecules grafted on the surface of gold nanoparticles, resulting in three-dimensional NPSCs. The NPSCs are very stable in different solvents, in dried conditions, and at temperatures as high as 160 °C. In addition to this, the large library of covalent-bond-forming reactions available and the low cost of reactants make the covalent bonding approach highly versatile and economical.
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Affiliation(s)
- Jahar Dey
- Department of Nuclear and Quantum Engineering, Korea Advanced Institute of Science and Technology, Daejeon 34141, Republic of Korea
| | - Sang-Jo Lee
- Department of Nuclear and Quantum Engineering, Korea Advanced Institute of Science and Technology, Daejeon 34141, Republic of Korea
| | - Jiwhan Kim
- Department of Nuclear and Quantum Engineering, Korea Advanced Institute of Science and Technology, Daejeon 34141, Republic of Korea
| | - Sung-Hwan Lim
- Department of Nuclear and Quantum Engineering, Korea Advanced Institute of Science and Technology, Daejeon 34141, Republic of Korea
| | - Jae-Min Ha
- Department of Nuclear and Quantum Engineering, Korea Advanced Institute of Science and Technology, Daejeon 34141, Republic of Korea
| | - Min-Jae Lee
- Department of Nuclear and Quantum Engineering, Korea Advanced Institute of Science and Technology, Daejeon 34141, Republic of Korea
| | - Sung-Min Choi
- Department of Nuclear and Quantum Engineering, Korea Advanced Institute of Science and Technology, Daejeon 34141, Republic of Korea
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18
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Zhao Y, Xu C. DNA-Based Plasmonic Heterogeneous Nanostructures: Building, Optical Responses, and Bioapplications. ADVANCED MATERIALS (DEERFIELD BEACH, FLA.) 2020; 32:e1907880. [PMID: 32596873 DOI: 10.1002/adma.201907880] [Citation(s) in RCA: 23] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/02/2019] [Revised: 04/23/2020] [Accepted: 04/25/2020] [Indexed: 06/11/2023]
Abstract
The integration of multiple functional nanoparticles into a specific architecture allows the precise manipulation of light for coherent electron oscillations. Plasmonic metals-based heterogeneous nanostructures are fabricated by using DNA as templates. This comprehensive review provides an overview of the controllable synthesis and self-assembly of heterogeneous nanostructures, and analyzes the effects of structural parameters on the regulation of optical responses. The potential applications and challenges of heterogeneous nanostructures in the fields of biosensors and bioanalysis, in vivo monitoring, and phototheranostics are discussed.
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Affiliation(s)
- Yuan Zhao
- Key Lab of Synthetic and Biological Colloids, Ministry of Education, School of Chemical and Material Engineering, Wuxi, Jiangsu, 214122, China
- International Joint Research Laboratory for Biointerface and Biodetection, State Key Lab of Food Science and Technology, Jiangnan University, Wuxi, Jiangsu, 214122, China
| | - Chuanlai Xu
- International Joint Research Laboratory for Biointerface and Biodetection, State Key Lab of Food Science and Technology, Jiangnan University, Wuxi, Jiangsu, 214122, China
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19
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Wang S, Park SS, Buru CT, Lin H, Chen PC, Roth EW, Farha OK, Mirkin CA. Colloidal crystal engineering with metal-organic framework nanoparticles and DNA. Nat Commun 2020; 11:2495. [PMID: 32427872 PMCID: PMC7237412 DOI: 10.1038/s41467-020-16339-w] [Citation(s) in RCA: 65] [Impact Index Per Article: 16.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/21/2019] [Accepted: 04/16/2020] [Indexed: 01/15/2023] Open
Abstract
Colloidal crystal engineering with nucleic acid-modified nanoparticles is a powerful way for preparing 3D superlattices, which may be useful in many areas, including catalysis, sensing, and photonics. To date, the building blocks studied have been primarily based upon metals, metal oxides, chalcogenide semiconductors, and proteins. Here, we show that metal–organic framework nanoparticles (MOF NPs) densely functionalized with oligonucleotides can be programmed to crystallize into a diverse set of superlattices with well-defined crystal symmetries and compositions. Electron microscopy and small-angle X-ray scattering characterization confirm the formation of single-component MOF superlattices, binary MOF–Au single crystals, and two-dimensional MOF nanorod assemblies. Importantly, DNA-modified porphyrinic MOF nanorods (PCN-222) were assembled into 2D superlattices and found to be catalytically active for the photooxidation of 2-chloroethyl ethyl sulfide (CEES, a chemical warfare simulant of mustard gas). Taken together, these new materials and methods provide access to colloidal crystals that incorporate particles with the well-established designer properties of MOFs and, therefore, increase the scope of possibilities for colloidal crystal engineering with DNA. Colloidal crystals assembled from nanoscale building blocks are powerful designer materials with diverse functionalities. Here, the authors describe a colloidal crystal engineering strategy to prepare hierarchical structures from metal–organic framework nanoparticles and DNA which retain permanent porosity and catalytic activity.
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Affiliation(s)
- Shunzhi Wang
- Department of Chemistry, Northwestern University, 2145 Sheridan Road, Evanston, IL, 60208, USA.,International Institute for Nanotechnology, 2145 Sheridan Road, Evanston, IL, 60208, USA
| | - Sarah S Park
- Department of Chemistry, Northwestern University, 2145 Sheridan Road, Evanston, IL, 60208, USA.,International Institute for Nanotechnology, 2145 Sheridan Road, Evanston, IL, 60208, USA
| | - Cassandra T Buru
- Department of Chemistry, Northwestern University, 2145 Sheridan Road, Evanston, IL, 60208, USA.,International Institute for Nanotechnology, 2145 Sheridan Road, Evanston, IL, 60208, USA
| | - Haixin Lin
- Department of Chemistry, Northwestern University, 2145 Sheridan Road, Evanston, IL, 60208, USA.,International Institute for Nanotechnology, 2145 Sheridan Road, Evanston, IL, 60208, USA
| | - Peng-Cheng Chen
- International Institute for Nanotechnology, 2145 Sheridan Road, Evanston, IL, 60208, USA.,Department of Materials Science and Engineering, Northwestern University, 2220 Campus Drive, Evanston, IL, 60208, USA
| | - Eric W Roth
- International Institute for Nanotechnology, 2145 Sheridan Road, Evanston, IL, 60208, USA.,Department of Materials Science and Engineering, Northwestern University, 2220 Campus Drive, Evanston, IL, 60208, USA
| | - Omar K Farha
- Department of Chemistry, Northwestern University, 2145 Sheridan Road, Evanston, IL, 60208, USA.,International Institute for Nanotechnology, 2145 Sheridan Road, Evanston, IL, 60208, USA
| | - Chad A Mirkin
- Department of Chemistry, Northwestern University, 2145 Sheridan Road, Evanston, IL, 60208, USA. .,International Institute for Nanotechnology, 2145 Sheridan Road, Evanston, IL, 60208, USA. .,Department of Materials Science and Engineering, Northwestern University, 2220 Campus Drive, Evanston, IL, 60208, USA.
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20
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Paul S, Vashisth H. Self-assembly of lobed particles into amorphous and crystalline porous structures. SOFT MATTER 2020; 16:1142-1147. [PMID: 31815274 DOI: 10.1039/c9sm01878f] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
We report simulation studies on the self-assembly of hard-lobed particles (patchy particles where patches appear as lobes around a seed) of different shapes and show that various types of self-assembled morphologies can be achieved by tuning inter-lobe interactions. On self-assembly, the linear building blocks having two lobes around the seed formed rings, the trigonal planar building blocks formed cylindrical hollow tubes and two-dimensional sheets, and the square planar building blocks formed spherical clathrates. The tetrahedral, trigonal bipyramidal, and the octahedral-shaped particles formed compact porous crystalline structures which are constituted by either hexagonal close packed or face centered cubic lattices. The pore size distributions revealed that linear, trigonal planar, and square planar building blocks create highly porous self-assembled structures. Our results suggest that these self-assembled morphologies will potentially find applications in tissue engineering, host-guest chemistry, adsorption, and catalysis.
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Affiliation(s)
- Sanjib Paul
- Department of Chemical Engineering, University of New Hampshire, 33 Academic Way, Durham, NH 03824, USA.
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21
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Park SS, Urbach ZJ, Brisbois CA, Parker KA, Partridge BE, Oh T, Dravid VP, Olvera de la Cruz M, Mirkin CA. DNA- and Field-Mediated Assembly of Magnetic Nanoparticles into High-Aspect Ratio Crystals. ADVANCED MATERIALS (DEERFIELD BEACH, FLA.) 2020; 32:e1906626. [PMID: 31814172 DOI: 10.1002/adma.201906626] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/09/2019] [Revised: 11/20/2019] [Indexed: 05/22/2023]
Abstract
Under an applied magnetic field, superparamagnetic Fe3 O4 nanoparticles with complementary DNA strands assemble into crystalline, pseudo-1D elongated superlattice structures. The assembly process is driven through a combination of DNA hybridization and particle dipolar coupling, a property dependent on particle composition, size, and interparticle distance. The DNA controls interparticle distance and crystal symmetry, while the magnetic field leads to anisotropic crystal growth. Increasing the dipole interaction between particles by increasing particle size or external field strength leads to a preference for a particular crystal morphology (e.g., rhombic dodecahedra, stacked clusters, and smooth rods). Molecular dynamics simulations show that an understanding of both DNA hybridization energetic and magnetic interactions is required to predict the resulting crystal morphology. Taken together, the data show that applied magnetic fields with magnetic nanoparticles can be deliberately used to access nanostructures beyond what is possible with DNA hybridization alone.
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Affiliation(s)
- Sarah S Park
- Department of Chemistry and International Institute for Nanotechnology, Northwestern University, 2145 Sheridan Road, Evanston, IL, 60208, USA
| | - Zachary J Urbach
- Department of Chemistry and International Institute for Nanotechnology, Northwestern University, 2145 Sheridan Road, Evanston, IL, 60208, USA
| | - Chase A Brisbois
- Department of Materials Science and Engineering, Northwestern University, 2220 Campus Drive, Evanston, IL, 60208, USA
| | - Kelly A Parker
- Department of Materials Science and Engineering, Northwestern University, 2220 Campus Drive, Evanston, IL, 60208, USA
| | - Benjamin E Partridge
- Department of Chemistry and International Institute for Nanotechnology, Northwestern University, 2145 Sheridan Road, Evanston, IL, 60208, USA
| | - Taegon Oh
- Department of Materials Science and Engineering, Northwestern University, 2220 Campus Drive, Evanston, IL, 60208, USA
| | - Vinayak P Dravid
- Department of Materials Science and Engineering, Northwestern University, 2220 Campus Drive, Evanston, IL, 60208, USA
| | - Monica Olvera de la Cruz
- Department of Chemistry and International Institute for Nanotechnology, Northwestern University, 2145 Sheridan Road, Evanston, IL, 60208, USA
- Department of Materials Science and Engineering, Northwestern University, 2220 Campus Drive, Evanston, IL, 60208, USA
- Department of Chemical and Biological Engineering, Northwestern University, 2145 Sheridan Road, Evanston, IL, 60208, USA
- Department of Physics and Astronomy, Northwestern University, 2145 Sheridan Road, Evanston, IL, 60208, USA
| | - Chad A Mirkin
- Department of Chemistry and International Institute for Nanotechnology, Northwestern University, 2145 Sheridan Road, Evanston, IL, 60208, USA
- Department of Materials Science and Engineering, Northwestern University, 2220 Campus Drive, Evanston, IL, 60208, USA
- Department of Chemical and Biological Engineering, Northwestern University, 2145 Sheridan Road, Evanston, IL, 60208, USA
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22
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Li Y, Deng Z. Ag Ion Soldering: An Emerging Tool for Sub-nanomeric Plasmon Coupling and Beyond. Acc Chem Res 2019; 52:3442-3454. [PMID: 31742388 DOI: 10.1021/acs.accounts.9b00463] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
Self-assembly represents probably the most flexible way to construct metastructured materials and devices from a wealth of colloidal building blocks with synthetically controllable sizes, shapes, and elemental compositions. In principle, surface capping is unavoidable during the synthesis of nanomaterials with well-defined geometry and stability. The ligand layer also endows inorganic building blocks with molecular recognition ability responsible for their assembly into desired structures. In the case of plasmonic nanounits, precise positioning of them in a nanomolecule or an ordered nanoarray provides a chance to shape their electrodynamic behaviors and thereby assists experimental demonstration of modern nanoplasmonics toward practical uses. Despite previous achievements in bottom-up nanofabrication, a big challenge exists toward strong coupling and facile charge transfer between adjacent nanounits in an assembly. This difficulty has impeded a functional development of plasmonic nanoassemblies. The weakened interparticle coupling originates from the electrostatic and steric barriers of ionic/molecular adsorbates to guarantee a good colloidal stability. Such a dilemma is rooted in fundamental colloidal science, which lacks an effective solution. During the past several years, a chemical tool termed Ag ion soldering (AIS) has been developed to overcome the above situation toward functional colloidal nanotechnology. In particular, a dimeric assembly of plasmonic nanoparticles has been taken as an ideal model to study plasmonic coupling and interparticle charge transfer. This Account starts with a demonstration of the chemical mechanism of AIS, followed by a verification of its workability in various self-assembly systems. A further use of AIS to realize postsynthetic coupling of DNA-directed nanoparticle clusters evidences its compatibility with DNA nanotechnology. Benefiting from the sub-nanometer interparticle gap achieved by AIS, a conductive pathway is established between two nanoparticles in an assembly. Accordingly, light-driven charge transfer between the conductively bridged plasmonic units is realized with highly tunable resonance frequencies. These situations have been demonstrated by thermal/photothermal sintering of silica-isolated nanoparticle dimers as well as gap-specific electroless gold/silver deposition. The regioselective silver deposition is then combined with galvanic replacement to obtain catalytically active nanofoci (plasmonic nanogaps). The resulting structures are useful for real time and on-site Raman spectroscopic tracking of chemical reactions in the plasmonic hotspots (nanogaps) as well as for study of plasmon-mediated/field-enhanced catalysis. The Account is concluded by a deeper insight into the chemical mechanism of AIS and its adaption to conformation-rich structures. Finally, AIS-enabled functional pursuits are suggested for self-assembled materials with strongly coupled and easily reshapable physicochemical properties.
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Affiliation(s)
- Yulin Li
- Hefei National Research Center for Physical Sciences at the Microscale, CAS Key Laboratory of Soft Matter Chemistry, Department of Chemistry, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Zhaoxiang Deng
- Hefei National Research Center for Physical Sciences at the Microscale, CAS Key Laboratory of Soft Matter Chemistry, Department of Chemistry, University of Science and Technology of China, Hefei, Anhui 230026, China
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23
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24
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Lee S, Zheng CY, Bujold KE, Mirkin CA. A Cross-Linking Approach to Stabilizing Stimuli-Responsive Colloidal Crystals Engineered with DNA. J Am Chem Soc 2019; 141:11827-11831. [PMID: 31318543 DOI: 10.1021/jacs.9b06106] [Citation(s) in RCA: 21] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Abstract
Two DNA-cross-linking reagents, bis-chloroethylnitrosourea and 8-methoxypsoralen, are used to covalently cross-link interstrand base pairs in DNA bonds that, in part, define colloidal crystals engineered with DNA. The irreversible linkages formed increase the chemical and thermal stability of the crystals and do not significantly affect their long-range order, as evidenced by small-angle X-ray scattering data. The post-modified crystals are stable in environments that the pre-modified structures are not, including solvents that encompass a broad range of polarities from ethanol to hexanes, and in aqueous media at pH 0 and 14. Interestingly, the cross-linked DNA bonds within these crystals still retain their flexibility, which is reflected by a solvent-dependent reversible change in lattice parameter. Since these organic cross-linking reagents, in comparison with inorganic approaches (use of silver ions or SiO2), have marginal effects on the composition and properties of the crystals, they provide an attractive alternative for stabilizing colloidal crystals engineered with DNA and make them potentially useful in a broader range of media.
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Affiliation(s)
- Seungkyu Lee
- Department of Chemistry , Northwestern University , Evanston , Illinois 60208 , United States
| | - Cindy Y Zheng
- Department of Chemistry , Northwestern University , Evanston , Illinois 60208 , United States
| | - Katherine E Bujold
- Department of Chemistry , Northwestern University , Evanston , Illinois 60208 , United States
| | - Chad A Mirkin
- Department of Chemistry , Northwestern University , Evanston , Illinois 60208 , United States.,Department of Materials Science and Engineering , Northwestern University , Evanston , Illinois 60208 , United States
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25
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Hu Y, Niemeyer CM. From DNA Nanotechnology to Material Systems Engineering. ADVANCED MATERIALS (DEERFIELD BEACH, FLA.) 2019; 31:e1806294. [PMID: 30767279 DOI: 10.1002/adma.201806294] [Citation(s) in RCA: 64] [Impact Index Per Article: 12.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/28/2018] [Revised: 11/29/2018] [Indexed: 05/25/2023]
Abstract
In the past 35 years, DNA nanotechnology has grown to a highly innovative and vibrant field of research at the interface of chemistry, materials science, biotechnology, and nanotechnology. Herein, a short summary of the state of research in various subdisciplines of DNA nanotechnology, ranging from pure "structural DNA nanotechnology" over protein-DNA assemblies, nanoparticle-based DNA materials, and DNA polymers to DNA surface technology is given. The survey shows that these subdisciplines are growing ever closer together and suggests that this integration is essential in order to initiate the next phase of development. With the increasing implementation of machine-based approaches in microfluidics, robotics, and data-driven science, DNA-material systems will emerge that could be suitable for applications in sensor technology, photonics, as interfaces between technical systems and living organisms, or for biomimetic fabrication processes.
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Affiliation(s)
- Yong Hu
- Karlsruhe Institute of Technology (KIT), Institute for Biological Interfaces (IBG 1), Hermann-von-Helmholtz-Platz 1, D-76344, Eggenstein-Leopoldshafen, Germany
| | - Christof M Niemeyer
- Karlsruhe Institute of Technology (KIT), Institute for Biological Interfaces (IBG 1), Hermann-von-Helmholtz-Platz 1, D-76344, Eggenstein-Leopoldshafen, Germany
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26
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Albert SK, Hu X, Park SJ. Dynamic Nanostructures from DNA-Coupled Molecules, Polymers, and Nanoparticles. SMALL (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2019; 15:e1900504. [PMID: 30985085 DOI: 10.1002/smll.201900504] [Citation(s) in RCA: 21] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/28/2019] [Revised: 03/28/2019] [Indexed: 05/20/2023]
Abstract
Dynamic and reconfigurable systems that can sense and react to physical and chemical signals are ubiquitous in nature and are of great interest in diverse areas of science and technology. DNA is a powerful tool for fabricating such smart materials and devices due to its programmable and responsive molecular recognition properties. For the past couple of decades, DNA-based self-assembly is actively explored to fabricate various DNA-organic and DNA-inorganic hybrid nanostructures with high-precision structural control. Building upon past development, researchers have recently begun to design and assemble dynamic nanostructures that can undergo an on-demand transformation in the structure, properties, and motion in response to various external stimuli. In this Review, recent advances in dynamic DNA nanostructures, focusing on hybrid structures fabricated from DNA-conjugated molecules, polymers, and nanoparticles, are introduced, and their potential applications and future perspectives are discussed.
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Affiliation(s)
- Shine K Albert
- Department of Chemistry and Nanoscience, Ewha Womans University, 52 Ewhayeodae-gil, Seodaemun-gu, Seoul, 03760, Korea
| | - Xiaole Hu
- Department of Chemistry and Nanoscience, Ewha Womans University, 52 Ewhayeodae-gil, Seodaemun-gu, Seoul, 03760, Korea
| | - So-Jung Park
- Department of Chemistry and Nanoscience, Ewha Womans University, 52 Ewhayeodae-gil, Seodaemun-gu, Seoul, 03760, Korea
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27
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Gabrys PA, Zornberg LZ, Macfarlane RJ. Programmable Atom Equivalents: Atomic Crystallization as a Framework for Synthesizing Nanoparticle Superlattices. SMALL (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2019; 15:e1805424. [PMID: 30970182 DOI: 10.1002/smll.201805424] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/20/2018] [Revised: 03/08/2019] [Indexed: 06/09/2023]
Abstract
Decades of research efforts into atomic crystallization phenomenon have led to a comprehensive understanding of the pathways through which atoms form different crystal structures. With the onset of nanotechnology, methods that use colloidal nanoparticles (NPs) as nanoscale "artificial atoms" to generate hierarchically ordered materials are being developed as an alternative strategy for materials synthesis. However, the assembly mechanisms of NP-based crystals are not always as well-understood as their atomic counterparts. The creation of a tunable nanoscale synthon whose assembly can be explained using the context of extensively examined atomic crystallization will therefore provide significant advancement in nanomaterials synthesis. DNA-grafted NPs have emerged as a strong candidate for such a "programmable atom equivalent" (PAE), because the predictable nature of DNA base-pairing allows for complex yet easily controlled assembly. This Review highlights the characteristics of these PAEs that enable controlled assembly behaviors analogous to atomic phenomena, which allows for rational material design well beyond what can be achieved with other crystallization techniques.
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Affiliation(s)
- Paul A Gabrys
- Department of Materials Science and Engineering, Massachusetts Institute of Technology (MIT), 77 Massachusetts Avenue, Cambridge, MA, 02139, USA
| | - Leonardo Z Zornberg
- Department of Materials Science and Engineering, Massachusetts Institute of Technology (MIT), 77 Massachusetts Avenue, Cambridge, MA, 02139, USA
| | - Robert J Macfarlane
- Department of Materials Science and Engineering, Massachusetts Institute of Technology (MIT), 77 Massachusetts Avenue, Cambridge, MA, 02139, USA
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28
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De Fazio AF, El-Sagheer AH, Kahn JS, Nandhakumar I, Burton MR, Brown T, Muskens OL, Gang O, Kanaras AG. Light-Induced Reversible DNA Ligation of Gold Nanoparticle Superlattices. ACS NANO 2019; 13:5771-5777. [PMID: 30958671 DOI: 10.1021/acsnano.9b01294] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/09/2023]
Abstract
DNA-mediated self-assembly of nanoparticles has been of great interest because it enables access to nanoparticle superstructures that cannot be synthesized otherwise. However, the programmability of higher order nanoparticle structures can be easily lost under DNA denaturing conditions. Here, we demonstrate that light can be employed as an external stimulus to master the stability of nanoparticle superlattices (SLs) via the promotion of a reversible photoligation of DNA in SLs. The oligonucleotides attached to the nanoparticles are encoded to ligate using 365 nm light, effectively locking the SLs and rendering them stable under DNA denaturing conditions. The reversible process of unlocking these structures is possible by irradiation with light at 315 nm, recovering the structures to their natural state. Our work inspires an alternative research direction toward postassembly manipulation of nanoparticle superstructures using external stimuli as a tool to enrich the library of additional material forms and their application in different media and environments.
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Affiliation(s)
- Angela F De Fazio
- School of Physics and Astronomy, Faculty of Engineering and Physical Sciences , University of Southampton , Southampton , SO17 1BJ , U.K
| | - Afaf H El-Sagheer
- Chemistry Research Laboratory, Department of Chemistry , University of Oxford , 12 Mansfield Road , Oxford , OX1 3TA , U.K
- Chemistry Branch, Department of Science and Mathematics, Faculty of Petroleum and Mining Engineering , Suez University , Suez 43721 , Egypt
| | - Jason S Kahn
- Center for Functional Nanomaterials , Brookhaven National Laboratory , Upton , New York 11973 , United States
- Department of Chemical Engineering , Columbia University , New York , New York 10027 , United States
| | - Iris Nandhakumar
- School of Chemistry, Faculty of Engineering and Physical Sciences , University of Southampton , Southampton , SO17 1BJ , U.K
| | - Matthew Richard Burton
- SPECIFIC-IKC, Materials Research Centre, College of Engineering , Swansea University , Bay Campus, Fabian Way , Swansea , SA1 8EN , U.K
| | - Tom Brown
- Chemistry Research Laboratory, Department of Chemistry , University of Oxford , 12 Mansfield Road , Oxford , OX1 3TA , U.K
| | - Otto L Muskens
- School of Physics and Astronomy, Faculty of Engineering and Physical Sciences , University of Southampton , Southampton , SO17 1BJ , U.K
- Institute for Life Sciences , University of Southampton , Southampton , SO17 1BJ , U.K
| | - Oleg Gang
- Center for Functional Nanomaterials , Brookhaven National Laboratory , Upton , New York 11973 , United States
- Department of Chemical Engineering , Columbia University , New York , New York 10027 , United States
- Department of Applied Physics and Applied Mathematics , Columbia University , New York , New York 10027 , United States
| | - Antonios G Kanaras
- School of Physics and Astronomy, Faculty of Engineering and Physical Sciences , University of Southampton , Southampton , SO17 1BJ , U.K
- Institute for Life Sciences , University of Southampton , Southampton , SO17 1BJ , U.K
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29
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Seo S, Girard M, de la Cruz MO, Mirkin CA. The Importance of Salt-Enhanced Electrostatic Repulsion in Colloidal Crystal Engineering with DNA. ACS CENTRAL SCIENCE 2019; 5:186-191. [PMID: 30693337 PMCID: PMC6346395 DOI: 10.1021/acscentsci.8b00826] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/09/2018] [Indexed: 05/06/2023]
Abstract
Realizing functional colloidal single crystals requires precise control over nanoparticles in three dimensions across multiple size regimes. In this regard, colloidal crystallization with programmable atom equivalents (PAEs) composed of DNA-modified nanoparticles allows one to program in a sequence-specific manner crystal symmetry, lattice parameter, and, in certain cases, crystal habit. Here, we explore how salt and the electrostatic properties of DNA regulate the attachment kinetics between PAEs. Counterintuitively, simulations and theory show that at high salt concentrations (1 M NaCl), the energy barrier for crystal growth increases by over an order of magnitude compared to low concentration (0.3 M), resulting in a transition from interface-limited to diffusion-limited crystal growth at larger crystal sizes. Remarkably, at elevated salt concentrations, well-formed rhombic dodecahedron-shaped microcrystals up to 21 μm in size grow, whereas at low salt concentration, the crystal size typically does not exceed 2 μm. Simulations show an increased barrier to hybridization between complementary PAEs at elevated salt concentrations. Therefore, although one might intuitively conclude that higher salt concentration would lead to less electrostatic repulsion and faster PAE-to-PAE hybridization kinetics, the opposite is the case, especially at larger inter-PAE distances. These observations provide important insight into how solution ionic strength can be used to control the attachment kinetics of nanoparticles coated with charged polymeric materials in general and DNA in particular.
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Affiliation(s)
- Soyoung
E. Seo
- Departments
of Chemistry and Materials Science and Engineering, International Institute
for Nanotechnology, and Physics and Astronomy, Northwestern University, Evanston, Illinois 60208, United States
| | - Martin Girard
- Departments
of Chemistry and Materials Science and Engineering, International Institute
for Nanotechnology, and Physics and Astronomy, Northwestern University, Evanston, Illinois 60208, United States
| | - Monica Olvera de la Cruz
- Departments
of Chemistry and Materials Science and Engineering, International Institute
for Nanotechnology, and Physics and Astronomy, Northwestern University, Evanston, Illinois 60208, United States
- (M.O.C.) E-mail:
| | - Chad A. Mirkin
- Departments
of Chemistry and Materials Science and Engineering, International Institute
for Nanotechnology, and Physics and Astronomy, Northwestern University, Evanston, Illinois 60208, United States
- (C.A.M.) E-mail:
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