101
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Rao C, Wang ZG, Li N, Zhang W, Xu X, Ding B. Tunable optical activity of plasmonic dimers assembled by DNA origami. NANOSCALE 2015; 7:9147-52. [PMID: 25924774 DOI: 10.1039/c5nr01634g] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/23/2023]
Abstract
We investigate the optical response of gold nanorod (AuNR) dimers assembled in parallel on a DNA origami template. Plasmonic circular dichroism (CD) was found to be highly dependent on the orientation of the dimers relative to the DNA axis and the inter-rod distances. Dipole-dipole distances play a critical role in the induced plasmonic chirality. The orientation dependence of induced CD was further verified by AuNR/Au nanosphere (AuNS) heterodimers. The experimental results of the plasmonic CD agreed well with theoretical calculations.
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Affiliation(s)
- Chengcheng Rao
- Department of Physics, East China Normal University, No. 500 Dong Chuan Road, 200241 Shanghai, China.
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102
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Li Z, Su W, Liu S, Ding X. An electrochemical biosensor based on DNA tetrahedron/graphene composite film for highly sensitive detection of NADH. Biosens Bioelectron 2015; 69:287-93. [PMID: 25770460 DOI: 10.1016/j.bios.2015.02.031] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/26/2014] [Revised: 02/07/2015] [Accepted: 02/19/2015] [Indexed: 12/15/2022]
Abstract
Dihydronicotinamide adenine dinucleotide (NADH) is a major biomarker correlated with lethal diseases such as cancers and bacterial infection. Herein, we report a graphene-DNA tetrahedron-gold nanoparticle modified gold disk electrode for highly sensitive NADH detection. By assembling the DNA tetrahedron/graphene composite film on the gold disk electrode surface which prior harnessed electrochemical deposition of gold nanoparticles to enhance the effective surface area, the oxidation potential of NADH was substantially decreased to 0.28V (vs. Ag/AgCl) and surface fouling effects were successfully eliminated. Furthermore, the lower detection limit of NADH by the presented platform was reduced down to 1fM, with an upper limit of 10pM. Both the regeneration and selectivity of composite film-modified electrode are investigated and proved to be robust. The novel sensor developed here could serve as a highly sensitive probe for NADH detection, which would further benefit the field of NADH related disease diagnostics.
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Affiliation(s)
- Zonglin Li
- Med-x Research Institute, Shanghai Jiao Tong University, Shanghai 200240, PR China
| | - Wenqiong Su
- School of Chemistry and Chemical Engineering, State Key Laboratory Metal Matrix Composities, Shanghai Jiao Tong University, Shanghai, 200240, PR China
| | - Shuopeng Liu
- Med-x Research Institute, Shanghai Jiao Tong University, Shanghai 200240, PR China
| | - Xianting Ding
- Med-x Research Institute, Shanghai Jiao Tong University, Shanghai 200240, PR China.
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103
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Xiong W, Sikdar D, Yap LW, Premaratne M, Li X, Cheng W. Multilayered core-satellite nanoassemblies with fine-tunable broadband plasmon resonances. NANOSCALE 2015; 7:3445-52. [PMID: 25644681 DOI: 10.1039/c4nr06756h] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/20/2023]
Abstract
We report on a robust nanotemplating approach to synthesize plasmonic multilayered core-satellite (MCS) nanoassemblies. Templated with gold nanorods, ultrathin Au/Ag alloy cages and satellite gold nanoparticles can be constructed sequentially by galvanic replacement reactions and electrostatic self-assembly, respectively, forming structurally well-defined MCS. The MCS nanoassemblies exhibit strong broadband plasmon resonances from ∼440 to ∼1100 nm, and their resonant features can be fine-tuned by adjusting the size and number density of satellite nanoparticles and by adjusting the thickness of the silica spacer between cage and satellite particles. Such fine-engineered MCS nanoassemblies enable precise programming of the strength and distribution of "hot spots" to maximize the overall enhancement of surface enhanced Raman scattering.
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Affiliation(s)
- Wei Xiong
- Department of Chemical Engineering, Monash University, Clayton 3800, Victoria, Australia.
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104
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Qi H, Huang G, Han Y, Zhang X, Li Y, Pingguan-Murphy B, Lu TJ, Xu F, Wang L. Engineering artificial machines from designable DNA materials for biomedical applications. TISSUE ENGINEERING PART B-REVIEWS 2015; 21:288-97. [PMID: 25547514 DOI: 10.1089/ten.teb.2014.0494] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
Deoxyribonucleic acid (DNA) emerges as building bricks for the fabrication of nanostructure with complete artificial architecture and geometry. The amazing ability of DNA in building two- and three-dimensional structures raises the possibility of developing smart nanomachines with versatile controllability for various applications. Here, we overviewed the recent progresses in engineering DNA machines for specific bioengineering and biomedical applications.
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Affiliation(s)
- Hao Qi
- 1Key Laboratory of Systems Bioengineering, Ministry of Education, Tianjin, P.R. China.,2School of Chemical Engineering and Technology, Tianjin University, Tianjin, P.R. China
| | - Guoyou Huang
- 3MOE Key Laboratory of Biomedical Information Engineering, School of Life Science and Technology, Xi'an Jiaotong University, Xi'an, P.R. China.,4Bioinspired Engineering and Biomechanics Center, Xi'an Jiaotong University, Xi'an, P.R. China
| | - Yulong Han
- 3MOE Key Laboratory of Biomedical Information Engineering, School of Life Science and Technology, Xi'an Jiaotong University, Xi'an, P.R. China.,4Bioinspired Engineering and Biomechanics Center, Xi'an Jiaotong University, Xi'an, P.R. China
| | - Xiaohui Zhang
- 3MOE Key Laboratory of Biomedical Information Engineering, School of Life Science and Technology, Xi'an Jiaotong University, Xi'an, P.R. China.,4Bioinspired Engineering and Biomechanics Center, Xi'an Jiaotong University, Xi'an, P.R. China
| | - Yuhui Li
- 3MOE Key Laboratory of Biomedical Information Engineering, School of Life Science and Technology, Xi'an Jiaotong University, Xi'an, P.R. China.,4Bioinspired Engineering and Biomechanics Center, Xi'an Jiaotong University, Xi'an, P.R. China
| | - Belinda Pingguan-Murphy
- 5Department of Biomedical Engineering, Faculty of Engineering, University of Malaya, Kuala Lumpur, Malaysia
| | - Tian Jian Lu
- 4Bioinspired Engineering and Biomechanics Center, Xi'an Jiaotong University, Xi'an, P.R. China
| | - Feng Xu
- 3MOE Key Laboratory of Biomedical Information Engineering, School of Life Science and Technology, Xi'an Jiaotong University, Xi'an, P.R. China.,4Bioinspired Engineering and Biomechanics Center, Xi'an Jiaotong University, Xi'an, P.R. China
| | - Lin Wang
- 3MOE Key Laboratory of Biomedical Information Engineering, School of Life Science and Technology, Xi'an Jiaotong University, Xi'an, P.R. China.,4Bioinspired Engineering and Biomechanics Center, Xi'an Jiaotong University, Xi'an, P.R. China
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105
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Yao G, Li J, Chao J, Pei H, Liu H, Zhao Y, Shi J, Huang Q, Wang L, Huang W, Fan C. Gold-Nanoparticle-Mediated Jigsaw-Puzzle-like Assembly of Supersized Plasmonic DNA Origami. Angew Chem Int Ed Engl 2015; 54:2966-9. [DOI: 10.1002/anie.201410895] [Citation(s) in RCA: 90] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/10/2014] [Revised: 12/31/2014] [Indexed: 11/09/2022]
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106
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Yao G, Li J, Chao J, Pei H, Liu H, Zhao Y, Shi J, Huang Q, Wang L, Huang W, Fan C. Gold-Nanoparticle-Mediated Jigsaw-Puzzle-like Assembly of Supersized Plasmonic DNA Origami. Angew Chem Int Ed Engl 2015. [DOI: 10.1002/ange.201410895] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
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107
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Gates EP, Jensen JK, Harb JN, Woolley AT. Optimizing gold nanoparticle seeding density on DNA origami. RSC Adv 2015. [DOI: 10.1039/c4ra15451g] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
Characterization of various experimental parameters leads to optimized conditions for depositing linear strings of gold nanoparticle seeds on DNA origami.
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Affiliation(s)
- E. P. Gates
- Department of Chemistry and Biochemistry
- Brigham Young University
- Provo
- USA
| | - J. K. Jensen
- Department of Chemistry and Biochemistry
- Brigham Young University
- Provo
- USA
| | - J. N. Harb
- Department of Chemical Engineering
- Brigham Young University
- Provo
- USA
| | - A. T. Woolley
- Department of Chemistry and Biochemistry
- Brigham Young University
- Provo
- USA
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108
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Dugasani SR, Park B, Gnapareddy B, Pamanji SR, Yoo S, Lee KW, Lee S, Jun SC, Kim JH, Kim C, Park SH. Tunable near white light photoluminescence of lanthanide ion (Dy3+, Eu3+and Tb3+) doped DNA lattices. RSC Adv 2015. [DOI: 10.1039/c5ra07360j] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
We constructed lanthanide ion doped double-crossover DNA lattices grown on a silica substrate and studied their photoluminescence characteristics.
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Affiliation(s)
- Sreekantha Reddy Dugasani
- Department of Physics and Sungkyunkwan Advanced Institute of Nanotechnology (SAINT)
- Sungkyunkwan University
- Suwon 440-746
- Korea
| | - Byeongho Park
- Sensor System Research Center
- Korea Institute of Science and Technology (KIST)
- Seoul 136-791
- Korea
- School of Mechanical Engineering
| | - Bramaramba Gnapareddy
- Department of Physics and Sungkyunkwan Advanced Institute of Nanotechnology (SAINT)
- Sungkyunkwan University
- Suwon 440-746
- Korea
| | | | - Sanghyun Yoo
- Department of Physics and Sungkyunkwan Advanced Institute of Nanotechnology (SAINT)
- Sungkyunkwan University
- Suwon 440-746
- Korea
| | - Keun Woo Lee
- Department of Physics and Sungkyunkwan Advanced Institute of Nanotechnology (SAINT)
- Sungkyunkwan University
- Suwon 440-746
- Korea
| | - Seok Lee
- Sensor System Research Center
- Korea Institute of Science and Technology (KIST)
- Seoul 136-791
- Korea
| | - Seong Chan Jun
- School of Mechanical Engineering
- Yonsei University
- Seoul 120-749
- Korea
| | - Jae Hun Kim
- Sensor System Research Center
- Korea Institute of Science and Technology (KIST)
- Seoul 136-791
- Korea
| | - Chulki Kim
- Sensor System Research Center
- Korea Institute of Science and Technology (KIST)
- Seoul 136-791
- Korea
| | - Sung Ha Park
- Department of Physics and Sungkyunkwan Advanced Institute of Nanotechnology (SAINT)
- Sungkyunkwan University
- Suwon 440-746
- Korea
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109
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Tandon A, Mitta SB, Vellampatti S, Kim B, Lee J, Kim S, Son J, Park SH. Fabrication of multi-layered DNA nanostructures using single-strand and double-crossover tile connectors. RSC Adv 2015. [DOI: 10.1039/c5ra03477a] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
We demonstrated the sequential fabrication of multi-layered DNA nanostructures by single-strand and double-crossover tile connectors via substrate-assisted and multi-step annealings.
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Affiliation(s)
- Anshula Tandon
- Department of Physics and Sungkyunkwan Advanced Institute of Nanotechnology (SAINT)
- Sungkyunkwan University
- Suwon 440-746
- Korea
| | - Sekhar Babu Mitta
- Department of Physics and Sungkyunkwan Advanced Institute of Nanotechnology (SAINT)
- Sungkyunkwan University
- Suwon 440-746
- Korea
| | - Srivithya Vellampatti
- Department of Physics and Sungkyunkwan Advanced Institute of Nanotechnology (SAINT)
- Sungkyunkwan University
- Suwon 440-746
- Korea
| | - Byeonghoon Kim
- Department of Physics and Sungkyunkwan Advanced Institute of Nanotechnology (SAINT)
- Sungkyunkwan University
- Suwon 440-746
- Korea
| | - Junwye Lee
- Department of Physics and Sungkyunkwan Advanced Institute of Nanotechnology (SAINT)
- Sungkyunkwan University
- Suwon 440-746
- Korea
| | - Soyeon Kim
- Department of Physics and Sungkyunkwan Advanced Institute of Nanotechnology (SAINT)
- Sungkyunkwan University
- Suwon 440-746
- Korea
| | - Junyoung Son
- Department of Physics and Sungkyunkwan Advanced Institute of Nanotechnology (SAINT)
- Sungkyunkwan University
- Suwon 440-746
- Korea
| | - Sung Ha Park
- Department of Physics and Sungkyunkwan Advanced Institute of Nanotechnology (SAINT)
- Sungkyunkwan University
- Suwon 440-746
- Korea
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110
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Afonin KA, Lindsay B, Shapiro BA. Engineered RNA Nanodesigns for Applications in RNA Nanotechnology. DNA AND RNA NANOTECHNOLOGY 2015; 1:1-15. [PMID: 34322585 PMCID: PMC8315564 DOI: 10.2478/rnan-2013-0001] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
Abstract
Nucleic acids have emerged as an extremely promising platform for nanotechnological applications because of their unique biochemical properties and functions. RNA, in particular, is characterized by relatively high thermal stability, diverse structural flexibility, and its capacity to perform a variety of functions in nature. These properties make RNA a valuable platform for bio-nanotechnology, specifically RNA Nanotechnology, that can create de novo nanostructures with unique functionalities through the design, integration, and re-engineering of powerful mechanisms based on a variety of existing RNA structures and their fundamental biochemical properties. This review highlights the principles that underlie the rational design of RNA nanostructures, describes the main strategies used to construct self-assembling nanoparticles, and discusses the challenges and possibilities facing the application of RNA Nanotechnology in the future.
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Affiliation(s)
- Kirill A. Afonin
- Center for Cancer Research Nanobiology Program, National Cancer Institute, Frederick, MD 21702, USA
| | - Brian Lindsay
- Center for Cancer Research Nanobiology Program, National Cancer Institute, Frederick, MD 21702, USA
| | - Bruce A. Shapiro
- Center for Cancer Research Nanobiology Program, National Cancer Institute, Frederick, MD 21702, USA
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111
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Gnapareddy B, Ha T, Dugasani SR, Kim JA, Kim B, Kim T, Kim JH, Park SH. DNA reusability and optoelectronic characteristics of streptavidin-conjugated DNA crystals on a quartz substrate. RSC Adv 2015. [DOI: 10.1039/c5ra02924d] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
We introduced reusability process to fabricate the DNA crystals and studied the optical band gap of them.
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Affiliation(s)
- Bramaramba Gnapareddy
- Sungkyunkwan Advanced Institute of Nanotechnology (SAINT)
- Sungkyunkwan University
- Suwon 440-746
- Korea
- Department of Physics
| | - Taewoo Ha
- Department of Physics
- Yonsei University
- Seoul
- Korea
| | - Sreekantha Reddy Dugasani
- Sungkyunkwan Advanced Institute of Nanotechnology (SAINT)
- Sungkyunkwan University
- Suwon 440-746
- Korea
- Department of Physics
| | - Jang Ah Kim
- Sungkyunkwan Advanced Institute of Nanotechnology (SAINT)
- Sungkyunkwan University
- Suwon 440-746
- Korea
- School of Mechanical Engineering
| | - Byeonghoon Kim
- Sungkyunkwan Advanced Institute of Nanotechnology (SAINT)
- Sungkyunkwan University
- Suwon 440-746
- Korea
- Department of Physics
| | - Taesung Kim
- Sungkyunkwan Advanced Institute of Nanotechnology (SAINT)
- Sungkyunkwan University
- Suwon 440-746
- Korea
- School of Mechanical Engineering
| | - Jae Hoon Kim
- Department of Physics
- Yonsei University
- Seoul
- Korea
| | - Sung Ha Park
- Sungkyunkwan Advanced Institute of Nanotechnology (SAINT)
- Sungkyunkwan University
- Suwon 440-746
- Korea
- Department of Physics
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112
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Lin M, Wang J, Zhou G, Wang J, Wu N, Lu J, Gao J, Chen X, Shi J, Zuo X, Fan C. Programmable Engineering of a Biosensing Interface with Tetrahedral DNA Nanostructures for Ultrasensitive DNA Detection. Angew Chem Int Ed Engl 2014. [DOI: 10.1002/ange.201410720] [Citation(s) in RCA: 49] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
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113
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Lin M, Wang J, Zhou G, Wang J, Wu N, Lu J, Gao J, Chen X, Shi J, Zuo X, Fan C. Programmable Engineering of a Biosensing Interface with Tetrahedral DNA Nanostructures for Ultrasensitive DNA Detection. Angew Chem Int Ed Engl 2014; 54:2151-5. [DOI: 10.1002/anie.201410720] [Citation(s) in RCA: 288] [Impact Index Per Article: 28.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/04/2014] [Indexed: 11/06/2022]
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114
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Nakahata M, Takashima Y, Hashidzume A, Harada A. Macroscopic Self-Assembly Based on Complementary Interactions between Nucleobase Pairs. Chemistry 2014; 21:2770-4. [DOI: 10.1002/chem.201404674] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2014] [Indexed: 11/10/2022]
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115
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Wu P, Yu Y, McGhee CE, Tan LH, Lu Y. Applications of synchrotron-based spectroscopic techniques in studying nucleic acids and nucleic acid-functionalized nanomaterials. ADVANCED MATERIALS (DEERFIELD BEACH, FLA.) 2014; 26:7849-72. [PMID: 25205057 PMCID: PMC4275547 DOI: 10.1002/adma.201304891] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/01/2013] [Revised: 06/02/2014] [Indexed: 05/22/2023]
Abstract
In this review, we summarize recent progress in the application of synchrotron-based spectroscopic techniques for nucleic acid research that takes advantage of high-flux and high-brilliance electromagnetic radiation from synchrotron sources. The first section of the review focuses on the characterization of the structure and folding processes of nucleic acids using different types of synchrotron-based spectroscopies, such as X-ray absorption spectroscopy, X-ray emission spectroscopy, X-ray photoelectron spectroscopy, synchrotron radiation circular dichroism, X-ray footprinting and small-angle X-ray scattering. In the second section, the characterization of nucleic acid-based nanostructures, nucleic acid-functionalized nanomaterials and nucleic acid-lipid interactions using these spectroscopic techniques is summarized. Insights gained from these studies are described and future directions of this field are also discussed.
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Affiliation(s)
- Peiwen Wu
- Department of Biochemistry, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | - Yang Yu
- Center of Biophysics and Computational Biology, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | - Claire E. McGhee
- Department of Chemistry, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | - Li Huey Tan
- Department of Chemistry, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | - Yi Lu
- Department of Biochemistry, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA. Center of Biophysics and Computational Biology, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA. Department of Chemistry, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
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116
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Park HY, Dugasani SR, Kang DH, Jeon J, Jang SK, Lee S, Roh Y, Park SH, Park JH. n- and p-Type doping phenomenon by artificial DNA and M-DNA on two-dimensional transition metal dichalcogenides. ACS NANO 2014; 8:11603-11613. [PMID: 25354666 DOI: 10.1021/nn5048712] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
Deoxyribonucleic acid (DNA) and two-dimensional (2D) transition metal dichalcogenide (TMD) nanotechnology holds great potential for the development of extremely small devices with increasingly complex functionality. However, most current research related to DNA is limited to crystal growth and synthesis. In addition, since controllable doping methods like ion implantation can cause fatal crystal damage to 2D TMD materials, it is very hard to achieve a low-level doping concentration (nondegenerate regime) on TMD in the present state of technology. Here, we report a nondegenerate doping phenomenon for TMD materials (MoS2 and WSe2, which represent n- and p-channel materials, respectively) using DNA and slightly modified DNA by metal ions (Zn(2+), Ni(2+), Co(2+), and Cu(2+)), named as M-DNA. This study is an example of interdisciplinary convergence research between DNA nanotechnology and TMD-based 2D device technology. The phosphate backbone (PO4(-)) in DNA attracts and holds hole carriers in the TMD region, n-doping the TMD films. Conversely, M-DNA nanostructures, which are functionalized by intercalating metal ions, have positive dipole moments and consequently reduce the electron carrier density of TMD materials, resulting in p-doping phenomenon. N-doping by DNA occurs at ∼6.4 × 10(10) cm(-2) on MoS2 and ∼7.3 × 10(9) cm(-2) on WSe2, which is uniform across the TMD area. p-Doping which is uniformly achieved by M-DNA occurs between 2.3 × 10(10) and 5.5 × 10(10) cm(-2) on MoS2 and between 2.4 × 10(10) and 5.0 × 10(10) cm(-2) on WSe2. These doping levels are in the nondegenerate regime, allowing for the proper design of performance parameters of TMD-based electronic and optoelectronic devices (VTH, on-/off-currents, field-effect mobility, photoresponsivity, and detectivity). In addition, by controlling the metal ions used, the p-doping level of TMD materials, which also influences their performance parameters, can be controlled. This interdisciplinary convergence research will allow for the successful integration of future layered semiconductor devices requiring extremely small and very complicated structures.
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Affiliation(s)
- Hyung-Youl Park
- School of Electronics and Electrical Engineering, Sungkyunkwan University , Suwon 440-746, Korea
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117
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Takabayashi S, Klein WP, Onodera C, Rapp B, Flores-Estrada J, Lindau E, Snowball L, Sam JT, Padilla JE, Lee J, Knowlton WB, Graugnard E, Yurke B, Kuang W, Hughes WL. High precision and high yield fabrication of dense nanoparticle arrays onto DNA origami at statistically independent binding sites. NANOSCALE 2014; 6:13928-38. [PMID: 25311051 PMCID: PMC4547787 DOI: 10.1039/c4nr03069a] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/18/2023]
Abstract
High precision, high yield, and high density self-assembly of nanoparticles into arrays is essential for nanophotonics. Spatial deviations as small as a few nanometers can alter the properties of near-field coupled optical nanostructures. Several studies have reported assemblies of few nanoparticle structures with controlled spacing using DNA nanostructures with variable yield. Here, we report multi-tether design strategies and attachment yields for homo- and hetero-nanoparticle arrays templated by DNA origami nanotubes. Nanoparticle attachment yield via DNA hybridization is comparable with streptavidin-biotin binding. Independent of the number of binding sites, >97% site-occupation was achieved with four tethers and 99.2% site-occupation is theoretically possible with five tethers. The interparticle distance was within 2 nm of all design specifications and the nanoparticle spatial deviations decreased with interparticle spacing. Modified geometric, binomial, and trinomial distributions indicate that site-bridging, steric hindrance, and electrostatic repulsion were not dominant barriers to self-assembly and both tethers and binding sites were statistically independent at high particle densities.
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Affiliation(s)
- Sadao Takabayashi
- Department of Materials Science & Engineering, Boise, ID 83725, USA.
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118
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Controlled accommodation of metal nanostructures within the matrices of polymer architectures through solution-based synthetic strategies. Prog Polym Sci 2014. [DOI: 10.1016/j.progpolymsci.2014.07.005] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
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119
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Ye T, Chen J, Liu Y, Ji X, Zhou G, He Z. Periodic fluorescent silver clusters assembled by rolling circle amplification and their sensor application. ACS APPLIED MATERIALS & INTERFACES 2014; 6:16091-16096. [PMID: 25116051 DOI: 10.1021/am504035a] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/03/2023]
Abstract
A simple method for preparing DNA-stabilized Ag nanoclusters (NCs) nanowires is presented. To fabricate the Ag NCs nanowires, we use just two unmodified component strands and a long enzymatically produced scaffold. These nanowires form at room temperature and have periodic sequence units that are available for fluorescence Ag NCs assembled which formed three-way junction (TWJ) structure. These Ag NCs nanowires can be clearly visualized by confocal microscopy. Furthermore, due to the high efficiency of rolling circle amplification reaction in signal amplification, the nanowires exhibit high sensitivity for the specific DNA detection with a wide linear range from 6 to 300 pM and a low detection limit of 0.84 pM, which shows good performance in the complex serum samples. Therefore, these Ag NCs nanowires might have great potential in clinical and imaging applications in the future.
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Affiliation(s)
- Tai Ye
- Key Laboratory of Analytical Chemistry for Biology and Medicine (Ministry of Education), College of Chemistry and Molecular Sciences, Wuhan University , Wuhan 430072, P. R. China
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120
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Samanta A, Zhou Y, Zou S, Yan H, Liu Y. Fluorescence quenching of quantum dots by gold nanoparticles: a potential long range spectroscopic ruler. NANO LETTERS 2014; 14:5052-7. [PMID: 25084363 DOI: 10.1021/nl501709s] [Citation(s) in RCA: 69] [Impact Index Per Article: 6.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/19/2023]
Abstract
The dependence of quantum dot (QD) fluorescence emission on the proximity of 30 nm gold nanoparticles (AuNPs) was studied with controlled interparticle distances ranging from 15 to 70 nm. This was achieved by coassembling DNA-conjugated QDs and AuNPs in a 1:1 ratio at precise positions on a triangular-shaped DNA origami platform. A profound, long-range quenching of the photoluminescence intensity of the QDs was observed. A combination of static and time-resolved fluorescence measurements suggests that the quenching is due to an increase in the nonradiative decay rate of QD emission. Unlike FRET, the energy transfer is inversely proportional to the 2.7th power of the distance between nanoparticles with half quenching at ∼28 nm. This long-range quenching phenomena may be useful for developing extended spectroscopic rulers in the future.
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Affiliation(s)
- Anirban Samanta
- Department of Chemistry and Biochemistry, and Center for Molecular Design and Biomimicry, Biodesign Institute at Arizona State University , 1001 South McAllister Avenue, Tempe, Arizona 85287-5601, United States
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121
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Wang D, Capehart SL, Pal S, Liu M, Zhang L, Schuck PJ, Liu Y, Yan H, Francis MB, De Yoreo JJ. Hierarchical assembly of plasmonic nanostructures using virus capsid scaffolds on DNA origami templates. ACS NANO 2014; 8:7896-904. [PMID: 25020109 DOI: 10.1021/nn5015819] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/23/2023]
Abstract
Building plasmonic nanostructures using biomolecules as scaffolds has shown great potential for attaining tunable light absorption and emission via precise spatial organization of optical species and antennae. Here we report bottom-up assembly of hierarchical plasmonic nanostructures using DNA origami templates and MS2 virus capsids. These serve as programmable scaffolds that provide molecular level control over the distribution of fluorophores and nanometer-scale control over their distance from a gold nanoparticle antenna. While previous research using DNA origami to assemble plasmonic nanostructures focused on determining the distance-dependent response of single fluorophores, here we address the challenge of constructing hybrid nanostructures that present an organized ensemble of fluorophores and then investigate the plasmonic response. By combining finite-difference time-domain numerical simulations with atomic force microscopy and correlated scanning confocal fluorescence microscopy, we find that the use of the scaffold keeps the majority of the fluorophores out of the quenching zone, leading to increased fluorescence intensity and mild levels of enhancement. The results show that the degree of enhancement can be controlled by exploiting capsid scaffolds of different sizes and tuning capsid-AuNP distances. These bioinspired plasmonic nanostructures provide a flexible design for manipulating photonic excitation and photoemission.
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Affiliation(s)
- Debin Wang
- Materials Sciences Division, Lawrence Berkeley National Laboratory , Berkeley, California 94720, United States
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122
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Zhan P, Jiang Q, Wang ZG, Li N, Yu H, Ding B. DNA Nanostructure-Based Imaging Probes and Drug Carriers. ChemMedChem 2014; 9:2013-20. [DOI: 10.1002/cmdc.201402137] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/22/2014] [Indexed: 12/22/2022]
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123
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Tintoré M, Eritja R, Fábrega C. DNA Nanoarchitectures: Steps towards Biological Applications. Chembiochem 2014; 15:1374-90. [DOI: 10.1002/cbic.201402014] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/06/2014] [Indexed: 12/26/2022]
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124
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Wang ZG, Ding B. Engineering DNA self-assemblies as templates for functional nanostructures. Acc Chem Res 2014; 47:1654-62. [PMID: 24588320 DOI: 10.1021/ar400305g] [Citation(s) in RCA: 95] [Impact Index Per Article: 9.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Abstract
CONSPECTUS: DNA is a well-known natural molecule that carries genetic information. In recent decades, DNA has been used beyond its genetic role as a building block for the construction of engineering materials. Many strategies, such as tile assembly, scaffolded origami and DNA bricks, have been developed to design and produce 1D, 2D, and 3D architectures with sophisticated morphologies. Moreover, the spatial addressability of DNA nanostructures and sequence-dependent recognition enable functional elements to be precisely positioned and allow for the control of chemical and biochemical processes. The spatial arrangement of heterogeneous components using DNA nanostructures as the templates will aid in the fabrication of functional materials that are difficult to produce using other methods and can address scientific and technical challenges in interdisciplinary research. For example, plasmonic nanoparticles can be assembled into well-defined configurations with high resolution limit while exhibiting desirable collective behaviors, such as near-field enhancement. Conducting metallic or polymer patterns can be synthesized site-specifically on DNA nanostructures to form various controllable geometries, which could be used for electronic nanodevices. Biomolecules can be arranged into organized networks to perform programmable biological functionalities, such as distance-dependent enzyme-cascade activities. DNA nanostructures can carry multiple cytoactive molecules and cell-targeting groups simultaneously to address medical issues such as targeted therapy and combined administration. In this Account, we describe recent advances in the functionalization of DNA nanostructures in different fashions based on our research efforts in nanophotonics, nanoelectronics, and nanomedicine. We show that DNA origami nanostructures can guide the assembly of achiral, spherical, metallic nanoparticles into nature-mimicking chiral geometries through hybridization between complementary DNA strands on the surface of nanoparticles and DNA scaffolds, to generate circular dichroism (CD) response in the visible light region. We also show that DNA nanostructures, on which a HRP-mimicking DNAzyme acts as the catalyst, can direct the site-selective growth of conductive polymer nanomaterials with template configuration-dependent doping behaviors. We demonstrate that DNA origami nanostructures can act as an anticancer-drug carrier, loading drug through intercalation, and can effectively circumvent the drug resistance of cultured cancer cells. Finally, we show a label-free strategy for probing the location and stability of DNA origami nanocarriers in cellular environments by docking turn-off fluorescence dyes in DNA double helices. These functionalizations require further improvement and expansion for realistic applications. We discuss the future opportunities and challenges of DNA based assemblies. We expect that DNA nanostructures as engineering materials will stimulate the development of multidisciplinary and interdisciplinary research.
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Affiliation(s)
- Zhen-Gang Wang
- National Center for NanoScience and Technology, No. 11
BeiYiTiao, ZhongGuanCun, Beijing, 100190 China
| | - Baoquan Ding
- National Center for NanoScience and Technology, No. 11
BeiYiTiao, ZhongGuanCun, Beijing, 100190 China
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125
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Kumar A, Kumar V. Biotemplated Inorganic Nanostructures: Supramolecular Directed Nanosystems of Semiconductor(s)/Metal(s) Mediated by Nucleic Acids and Their Properties. Chem Rev 2014; 114:7044-78. [DOI: 10.1021/cr4007285] [Citation(s) in RCA: 61] [Impact Index Per Article: 6.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
Affiliation(s)
- Anil Kumar
- Department of Chemistry, Indian Institute of Technology Roorkee, Roorkee-247667, India
| | - Vinit Kumar
- Department of Chemistry, Indian Institute of Technology Roorkee, Roorkee-247667, India
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126
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Gates EP, Dearden AM, Woolley AT. DNA‐templated lithography and nanofabrication for the fabrication of nanoscale electronic circuitry. Crit Rev Anal Chem 2014; 44:354-70. [DOI: 10.1080/10408347.2014.910636] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
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127
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Samanta A, Deng Z, Liu Y. Infrared emitting quantum dots: DNA conjugation and DNA origami directed self-assembly. NANOSCALE 2014; 6:4486-4490. [PMID: 24632941 DOI: 10.1039/c3nr06578b] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/03/2023]
Abstract
QDs that emit in the infrared (IR) range are of special interest at the moment because of their potential as tissue imaging reagents. Due to autofluorescence from tissues, QDs that emit in the visible range fail to produce good signal to noise ratios. Here we report the production of Cd(x)Pb(1-x)Te tertiary-alloyed QDs that emit in the 1100-1300 nm wavelength range, capped with the hydrophilic ligands mercaptopropionic acid (MPA) or glutathione (GSH), together with DNA, as specific surface tags. We observed an interesting dependence of the QD emission peaks on the species of capping ligand used. ICP-MS analysis confirmed that changing the identity of the surface ligand in the reaction mixture shifted the elemental composition of the particles and resulted in different Cd/Pb ratios. Further, DNA directed assembly of the particles onto DNA nanostructures ensures that the particle remains stable in high salt conditions, which is crucial to biological applications.
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Affiliation(s)
- Anirban Samanta
- Department of Chemistry and Biochemistry, Center for Single Molecule Biophysics, Biodesign Institute at Arizona State University, 1001 South McAllister Avenue, Tempe, Arizona 85287-5601, USA.
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128
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Liu Q, Song C, Wang ZG, Li N, Ding B. Precise organization of metal nanoparticles on DNA origami template. Methods 2014; 67:205-14. [DOI: 10.1016/j.ymeth.2013.10.006] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/18/2013] [Revised: 09/28/2013] [Accepted: 10/07/2013] [Indexed: 01/28/2023] Open
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129
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Eskelinen AP, Moerland RJ, Kostiainen MA, Törmä P. Self-assembled silver nanoparticles in a bow-tie antenna configuration. SMALL (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2014; 10:1057-1062. [PMID: 24659271 DOI: 10.1002/smll.201302046] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/28/2023]
Abstract
The self-assembly of silver nanoparticles into a bow-tie antenna configuration is achieved with the DNA origami method. Instead of complicated particle geometries, spherical silver nanoparticles are used. Formation of the structures in high yields is verified with transmission electron microscopy and agarose gel electrophoresis. According to finite-difference time-domain simulations, the antenna configuration could be used as a DNA sensor.
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130
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Pilo-Pais M, Watson A, Demers S, LaBean TH, Finkelstein G. Surface-enhanced Raman scattering plasmonic enhancement using DNA origami-based complex metallic nanostructures. NANO LETTERS 2014; 14:2099-104. [PMID: 24645937 DOI: 10.1021/nl5003069] [Citation(s) in RCA: 67] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/25/2023]
Abstract
DNA origami is a novel self-assembly technique allowing one to form various two-dimensional shapes and position matter with nanometer accuracy. We use DNA origami templates to engineer surface-enhanced Raman scattering substrates. Specifically, gold nanoparticles were selectively placed on the corners of rectangular origami and subsequently enlarged via solution-based metal deposition. The resulting assemblies exhibit "hot spots" of enhanced electromagnetic field between the nanoparticles. We observed a significant Raman signal enhancement from molecules covalently attached to the assemblies, as compared to control nanoparticle samples that lack interparticle hot spots. Furthermore, Raman molecules are used to map out the hot spots' distribution, as they are burned when experiencing a threshold electric field. Our method opens up the prospects of using DNA origami to rationally engineer and assemble plasmonic structures for molecular spectroscopy.
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Affiliation(s)
- M Pilo-Pais
- Department of Physics, Duke University , Durham, North Carolina 27708, United States
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131
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Mikkilä J, Eskelinen AP, Niemelä EH, Linko V, Frilander MJ, Törmä P, Kostiainen MA. Virus-encapsulated DNA origami nanostructures for cellular delivery. NANO LETTERS 2014; 14:2196-200. [PMID: 24627955 DOI: 10.1021/nl500677j] [Citation(s) in RCA: 176] [Impact Index Per Article: 17.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/25/2023]
Abstract
DNA origami structures can be programmed into arbitrary shapes with nanometer scale precision, which opens up numerous attractive opportunities to engineer novel functional materials. One intriguing possibility is to use DNA origamis for fully tunable, targeted, and triggered drug delivery. In this work, we demonstrate the coating of DNA origami nanostructures with virus capsid proteins for enhancing cellular delivery. Our approach utilizes purified cowpea chlorotic mottle virus capsid proteins that can bind and self-assemble on the origami surface through electrostatic interactions and further pack the origami nanostructures inside the viral capsid. Confocal microscopy imaging and transfection studies with a human HEK293 cell line indicate that protein coating improves cellular attachment and delivery of origamis into the cells by 13-fold compared to bare DNA origamis. The presented method could readily find applications not only in sophisticated drug delivery applications but also in organizing intracellular reactions by origami-based templates.
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Affiliation(s)
- Joona Mikkilä
- Molecular Materials, Department of Applied Physics, Aalto University , FI-00076 Aalto, Finland
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132
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Zhang C, Li X, Tian C, Yu G, Li Y, Jiang W, Mao C. DNA nanocages swallow gold nanoparticles (AuNPs) to form AuNP@DNA cage core-shell structures. ACS NANO 2014; 8:1130-5. [PMID: 24410162 DOI: 10.1021/nn406039p] [Citation(s) in RCA: 57] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/28/2023]
Abstract
DNA offers excellent programming properties to nanomaterials syntheses. Host-guest interaction between DNA nanostructures and inorganic nanoparticles (NPs) is of particular interest because the resulting complexes would possess both programming properties intrinsic to DNA and physical properties associated with inorganic NPs, such as plasmonic and magnetic features. Here, we report a class of core-shell complexes (AuNP@DNA cages): hard gold NPs (AuNPs) are encapsulated in geometrically well-defined soft DNA nanocages. The AuNP guest can be further controllably released from the host (DNA nanocages), pointing to potential applications in surface engineering of inorganic NPs and cargo delivery of DNA nanocages.
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Affiliation(s)
- Chuan Zhang
- Department of Chemistry and ‡Markey Center for Structural Biology and Department of Biological Sciences, Purdue University , West Lafayette, Indiana 47907, United States
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133
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Shen X, Zhan P, Kuzyk A, Liu Q, Asenjo-Garcia A, Zhang H, de Abajo FJG, Govorov A, Ding B, Liu N. 3D plasmonic chiral colloids. NANOSCALE 2014; 6:2077-2081. [PMID: 24424350 DOI: 10.1039/c3nr06006c] [Citation(s) in RCA: 44] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/03/2023]
Abstract
3D plasmonic chiral colloids are synthesized through deterministically grouping of two gold nanorod AuNRs on DNA origami. These nanorod crosses exhibit strong circular dichroism (CD) at optical frequencies which can be engineered through position tuning of the rods on the origami. Our experimental results agree qualitatively well with theoretical predictions.
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Affiliation(s)
- Xibo Shen
- National Center for Nanoscience and Technology, No. 11 BeiYiTiao, ZhongGuanCun, Beijing 100190, China.
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134
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Uprety B, Gates EP, Geng Y, Woolley AT, Harb JN. Site-specific metallization of multiple metals on a single DNA origami template. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2014; 30:1134-1141. [PMID: 24410066 DOI: 10.1021/la403617r] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/03/2023]
Abstract
This work examines the selective deposition of two different metals on a single DNA origami template that was designed and assembled to direct the deposition. As a result, we were able to direct copper and gold to predesignated locations on the template, as verified by both compositional and morphological data, to form a heterogeneous Cu-Au junction. Seeding and deposition were performed in sequential steps. An enabling aspect of this work was the use of an organic layer or "chemical mask" to prevent unwanted deposition during the deposition of the second metal. In light of recent efforts in the field, the ability to localize components of different composition and structure to specific sections of a DNA template represents an important step forward in the fabrication of nanostructures based on DNA templates.
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Affiliation(s)
- Bibek Uprety
- Department of Chemical Engineering and ‡Department of Chemistry and Biochemistry, Brigham Young University , Provo, Utah 84602, United States
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135
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Nguyen TD, Tran TH. Multicomponent nanoarchitectures for the design of optical sensing and diagnostic tools. RSC Adv 2014. [DOI: 10.1039/c3ra44056g] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
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136
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Schreiber R, Do J, Roller EM, Zhang T, Schüller VJ, Nickels PC, Feldmann J, Liedl T. Hierarchical assembly of metal nanoparticles, quantum dots and organic dyes using DNA origami scaffolds. NATURE NANOTECHNOLOGY 2014; 9:74-8. [PMID: 24292513 DOI: 10.1038/nnano.2013.253] [Citation(s) in RCA: 303] [Impact Index Per Article: 30.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/21/2012] [Accepted: 10/29/2013] [Indexed: 05/17/2023]
Abstract
The self-assembly of nanoscale elements into three-dimensional structures with precise shapes and sizes is important in fields such as nanophotonics, metamaterials and biotechnology. Short molecular linkers have previously been used to create assemblies of nanoparticles, but the approach is limited to small interparticle distances, typically less than 10 nm. Alternatively, DNA origami can precisely organize nanoscale objects over much larger length scales. Here we show that rigid DNA origami scaffolds can be used to assemble metal nanoparticles, quantum dots and organic dyes into hierarchical nanoclusters that have a planet-satellite-type structure. The nanoclusters have a tunable stoichiometry, defined distances of 5-200 nm between components, and controllable overall sizes of up to 500 nm. We also show that the nanoscale components can be positioned along the radial DNA spacers of the nanostructures, which allows short- and long-range interactions between nanoparticles and dyes to be studied in solution. The approach could, in the future, be used to construct efficient energy funnels, complex plasmonic architectures, and porous, nanoengineered scaffolds for catalysis.
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Affiliation(s)
- Robert Schreiber
- 1] Molecular Self-Assembly and Nanoengineering Group, Physics Department and CeNS, Ludwig-Maximilians-Universität München, Geschwister-Scholl-Platz 1, 80539 Munich, Germany [2]
| | - Jaekwon Do
- 1] Photonics and Optoelectronics Group, Physics Department and CeNS, Ludwig-Maximilians-Universität München, Amalienstrasse 54, 80799 Munich, Germany [2]
| | - Eva-Maria Roller
- Molecular Self-Assembly and Nanoengineering Group, Physics Department and CeNS, Ludwig-Maximilians-Universität München, Geschwister-Scholl-Platz 1, 80539 Munich, Germany
| | - Tao Zhang
- Molecular Self-Assembly and Nanoengineering Group, Physics Department and CeNS, Ludwig-Maximilians-Universität München, Geschwister-Scholl-Platz 1, 80539 Munich, Germany
| | - Verena J Schüller
- Molecular Self-Assembly and Nanoengineering Group, Physics Department and CeNS, Ludwig-Maximilians-Universität München, Geschwister-Scholl-Platz 1, 80539 Munich, Germany
| | - Philipp C Nickels
- Molecular Self-Assembly and Nanoengineering Group, Physics Department and CeNS, Ludwig-Maximilians-Universität München, Geschwister-Scholl-Platz 1, 80539 Munich, Germany
| | - Jochen Feldmann
- Photonics and Optoelectronics Group, Physics Department and CeNS, Ludwig-Maximilians-Universität München, Amalienstrasse 54, 80799 Munich, Germany
| | - Tim Liedl
- Molecular Self-Assembly and Nanoengineering Group, Physics Department and CeNS, Ludwig-Maximilians-Universität München, Geschwister-Scholl-Platz 1, 80539 Munich, Germany
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137
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Wang H, Li Y, Gong M, Deng Z. Core solution: a strategy towards gold core/non-gold shell nanoparticles bearing strict DNA-valences for programmable nanoassembly. Chem Sci 2014. [DOI: 10.1039/c3sc52445k] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
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138
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Hellstrom SL, Kim Y, Fakonas JS, Senesi AJ, Macfarlane RJ, Mirkin CA, Atwater HA. Epitaxial growth of DNA-assembled nanoparticle superlattices on patterned substrates. NANO LETTERS 2013; 13:6084-6090. [PMID: 24206268 DOI: 10.1021/nl4033654] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/02/2023]
Abstract
DNA-functionalized nanoparticles, including plasmonic nanoparticles, can be assembled into a wide range of crystalline arrays via synthetically programmable DNA hybridization interactions. Here we demonstrate that such assemblies can be grown epitaxially on lithographically patterned templates, eliminating grain boundaries and enabling fine control over orientation and size of assemblies up to thousands of square micrometers. We also demonstrate that this epitaxial growth allows for orientational control, systematic introduction of strain, and designed defects, which extend the range of structures that can be made using superlattice assembly. Ultimately, this will open the door to integrating self-assembled plasmonic nanoparticle materials into on-chip optical or optoelectronic platforms.
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Affiliation(s)
- Sondra L Hellstrom
- Kavli Nanoscience Institute, California Institute of Technology , Pasadena, California 91125, United States
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139
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Chen Z, Lan X, Wang Q. DNA origami directed large-scale fabrication of nanostructures resembling room temperature single-electron transistors. SMALL (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2013; 9:3567-3571. [PMID: 23813856 DOI: 10.1002/smll.201300640] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/28/2013] [Revised: 03/25/2013] [Indexed: 06/02/2023]
Abstract
Room temperature single-electron transistor core nanostructures are fabricated on a large scale with DNA origami as a template with an unprecedented yield. The accuracy of DNA origami enables precise positioning of a Coulomb island in the center of a 10 nm gap between the source and the drain electrodes, which can not be realized by using state-of-the-art nanofabrication techniques.
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Affiliation(s)
- Zhong Chen
- Suzhou Key Laboratory of Nanomedical Characterization, Division of Nanobiomedicine and i-Lab, Suzhou Institute of Nano-Tech and Nano-Bionics, Chinese Academy of Sciences, Suzhou 215123, PR China
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140
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Cai H, Wang Z, Liu J, Zhang K, Wang X. Fabrication of Highly Conductive Pd Nanowires using PDMS Transfer Method on DNA Scaffolds through Ethanol‐Reduction. CHINESE J CHEM PHYS 2013. [DOI: 10.1063/1674-0068/26/05/607-611] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022]
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141
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Wu N, Czajkowsky DM, Zhang J, Qu J, Ye M, Zeng D, Zhou X, Hu J, Shao Z, Li B, Fan C. Molecular Threading and Tunable Molecular Recognition on DNA Origami Nanostructures. J Am Chem Soc 2013; 135:12172-5. [DOI: 10.1021/ja403863a] [Citation(s) in RCA: 54] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023]
Affiliation(s)
- Na Wu
- Division of Physical Biology,
and Bioimaging Center, Shanghai Synchrotron Radiation Facility, Shanghai
Institute of Applied Physics, Chinese Academy of Sciences, Shanghai 201800, China
| | - Daniel M. Czajkowsky
- School of Biomedical Engineering, Shanghai Jiao Tong University, Shanghai 200240, China
| | - Jinjin Zhang
- Division of Physical Biology,
and Bioimaging Center, Shanghai Synchrotron Radiation Facility, Shanghai
Institute of Applied Physics, Chinese Academy of Sciences, Shanghai 201800, China
| | - Jianxun Qu
- School of Biomedical Engineering, Shanghai Jiao Tong University, Shanghai 200240, China
| | - Ming Ye
- Division of Physical Biology,
and Bioimaging Center, Shanghai Synchrotron Radiation Facility, Shanghai
Institute of Applied Physics, Chinese Academy of Sciences, Shanghai 201800, China
| | - Dongdong Zeng
- Division of Physical Biology,
and Bioimaging Center, Shanghai Synchrotron Radiation Facility, Shanghai
Institute of Applied Physics, Chinese Academy of Sciences, Shanghai 201800, China
| | - Xingfei Zhou
- Physics Department, Ningbo University, Zhejiang 315211, China
| | - Jun Hu
- Division of Physical Biology,
and Bioimaging Center, Shanghai Synchrotron Radiation Facility, Shanghai
Institute of Applied Physics, Chinese Academy of Sciences, Shanghai 201800, China
| | - Zhifeng Shao
- School of Biomedical Engineering, Shanghai Jiao Tong University, Shanghai 200240, China
| | - Bin Li
- Division of Physical Biology,
and Bioimaging Center, Shanghai Synchrotron Radiation Facility, Shanghai
Institute of Applied Physics, Chinese Academy of Sciences, Shanghai 201800, China
| | - Chunhai Fan
- Division of Physical Biology,
and Bioimaging Center, Shanghai Synchrotron Radiation Facility, Shanghai
Institute of Applied Physics, Chinese Academy of Sciences, Shanghai 201800, China
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142
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Wang ZG, Ding B. DNA-based self-assembly for functional nanomaterials. ADVANCED MATERIALS (DEERFIELD BEACH, FLA.) 2013; 25:3905-3914. [PMID: 24048977 DOI: 10.1002/adma.201301450] [Citation(s) in RCA: 48] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/31/2013] [Revised: 04/15/2013] [Indexed: 06/02/2023]
Abstract
The unprecedented development of DNA nanotechnology has caused DNA self-assembly to attract close attention in many disciplines. In this research news article, the employment of DNA self-assembly in the fields of materials science and nanotechnology is described. DNA self-assembly can be used to prepare bulk-scale hydrogels and 3D macroscopic crystals with nanoscale internal structures, to induce the crystallization of nanoparticles, to template the fabrication of organic conductive nanomaterials, and to act as drug delivery vehicles for therapeutic agents. The properties and functions are fully tunable because of the designability and specificity of DNA assembly. Moreover, because of the intrinsic dynamics, DNA self-assembly can act as a program switch and can efficiently control stimuli responsiveness. We highlight the power of DNA self-assembly in the preparation and function regulation of materials, aiming to motivate future multidisciplinary and interdisciplinary research. Finally, we describe some of the challenges currently faced by DNA assembly that may affect the functional evolution of such materials, and we provide our insights into the future directions of several DNA self-assembly-based nanomaterials.
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Affiliation(s)
- Zhen-Gang Wang
- National Center for Nanoscience and Technology, Beijing, 100190, PR China
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143
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Wang ZG, Song C, Ding B. Functional DNA nanostructures for photonic and biomedical applications. SMALL (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2013; 9:2210-2222. [PMID: 23733711 DOI: 10.1002/smll.201300141] [Citation(s) in RCA: 31] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/15/2013] [Indexed: 06/02/2023]
Abstract
DNA nanostructures, especially DNA origami, receive close interest because of the programmable control over their shape and size, precise spatial addressability, easy and high-yield preparation, mechanical flexibility, and biocompatibility. They have been used to organize a variety of nanoscale elements for specific functions, resulting in unprecedented improvements in the field of nanophotonics and nanomedical research. In this review, the discussion focuses on the employment of DNA nanostructures for the precise organization of noble metal nanoparticles to build interesting plasmonic nanoarchitectures, for the fabrication of visualized sensors and for targeted drug delivery. The effects offered by DNA nanostructures are highlighted in the areas of nanoantennas, collective plasmonic behaviors, single-molecule analysis, and cancer-cell targeting or killing. Finally, the challenges in the field of DNA nanotechnology for realistic application are discussed and insights for future directions are provided.
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Affiliation(s)
- Zhen-Gang Wang
- National Center for Nanoscience and Technology, Beijing 100190, PR China
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144
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Xu PF, Noh H, Lee JH, Domaille DW, Nakatsuka MA, Goodwin AP, Cha JN. Imparting the unique properties of DNA into complex material architectures and functions. MATERIALS TODAY (KIDLINGTON, ENGLAND) 2013; 16:290-296. [PMID: 25525408 PMCID: PMC4266936 DOI: 10.1016/j.mattod.2013.07.001] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/03/2023]
Abstract
While the remarkable chemical and biological properties of DNA have been known for decades, these properties have only been imparted into materials with unprecedented function much more recently. The inimitable ability of DNA to form programmable, complex assemblies through stable, specific, and reversible molecular recognition has allowed the creation of new materials through DNA's ability to control a material's architecture and properties. In this review we discuss recent progress in how DNA has brought unmatched function to materials, focusing specifically on new advances in delivery agents, devices, and sensors.
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Affiliation(s)
- Phyllis F. Xu
- Department of Nanoengineering and Materials Science and Engineering Program, University of California, San Diego, 9500 Gilman Dr. MC 0448, La Jolla, CA 92093-0448, USA
| | - Hyunwoo Noh
- Department of Nanoengineering and Materials Science and Engineering Program, University of California, San Diego, 9500 Gilman Dr. MC 0448, La Jolla, CA 92093-0448, USA
- Department of Chemical and Biological Engineering, University of Colorado, Boulder, 3415 Colorado Avenue, 596 UCB, Boulder, CO 80303, USA
| | - Ju Hun Lee
- Department of Nanoengineering and Materials Science and Engineering Program, University of California, San Diego, 9500 Gilman Dr. MC 0448, La Jolla, CA 92093-0448, USA
- Department of Chemical and Biological Engineering, University of Colorado, Boulder, 3415 Colorado Avenue, 596 UCB, Boulder, CO 80303, USA
| | - Dylan W. Domaille
- Department of Chemical and Biological Engineering, University of Colorado, Boulder, 3415 Colorado Avenue, 596 UCB, Boulder, CO 80303, USA
| | - Matthew A. Nakatsuka
- Department of Nanoengineering and Materials Science and Engineering Program, University of California, San Diego, 9500 Gilman Dr. MC 0448, La Jolla, CA 92093-0448, USA
| | - Andrew P. Goodwin
- Department of Chemical and Biological Engineering, University of Colorado, Boulder, 3415 Colorado Avenue, 596 UCB, Boulder, CO 80303, USA
| | - Jennifer N. Cha
- Department of Nanoengineering and Materials Science and Engineering Program, University of California, San Diego, 9500 Gilman Dr. MC 0448, La Jolla, CA 92093-0448, USA
- Department of Chemical and Biological Engineering, University of Colorado, Boulder, 3415 Colorado Avenue, 596 UCB, Boulder, CO 80303, USA
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145
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Tintoré M, Gállego I, Manning B, Eritja R, Fàbrega C. DNA Origami as a DNA Repair Nanosensor at the Single-Molecule Level. Angew Chem Int Ed Engl 2013. [DOI: 10.1002/ange.201301293] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
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146
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Tintoré M, Gállego I, Manning B, Eritja R, Fàbrega C. DNA origami as a DNA repair nanosensor at the single-molecule level. Angew Chem Int Ed Engl 2013; 52:7747-50. [PMID: 23766021 DOI: 10.1002/anie.201301293] [Citation(s) in RCA: 51] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/13/2013] [Revised: 04/12/2013] [Indexed: 12/21/2022]
Abstract
The folding of DNA molecules by DNA origami is used in a nanosensor to analyze enzymatic DNA repair activity of hAGT. The method uses conformational changes that condition α-thrombin interaction with DNA aptamers, and illustrates the use of DNA origami as a proteinrecognition biosensor.
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Affiliation(s)
- Maria Tintoré
- IRB Barcelona, IQAC-CSIC, CIBER-BBN Networking Centre on Bioengineering Biomaterials and Nanomedicine c/Jordi Girona 18-26, 08034 Barcelona, Spain
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147
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Wei X, Nangreave J, Jiang S, Yan H, Liu Y. Mapping the thermal behavior of DNA origami nanostructures. J Am Chem Soc 2013; 135:6165-76. [PMID: 23537246 DOI: 10.1021/ja4000728] [Citation(s) in RCA: 61] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Understanding the thermodynamic properties of complex DNA nanostructures, including rationally designed two- and three-dimensional (2D and 3D, respectively) DNA origami, facilitates more accurate spatiotemporal control and effective functionalization of the structures by other elements. In this work fluorescein and tetramethylrhodamine (TAMRA), a Förster resonance energy transfer (FRET) dye pair, were incorporated into selected staples within various 2D and 3D DNA origami structures. We monitored the temperature-dependent changes in FRET efficiency that occurred as the dye-labeled structures were annealed and melted and subsequently extracted information about the associative and dissociative behavior of the origami. In particular, we examined the effects of local and long-range structural defects (omitted staple strands) on the thermal stability of common DNA origami structures. The results revealed a significant decrease in thermal stability of the structures in the vicinity of the defects, in contrast to the negligible long-range effects that were observed. Furthermore, we probed the global assembly and disassembly processes by comparing the thermal behavior of the FRET pair at several different positions. We demonstrated that the staple strands located in different areas of the structure all exhibit highly cooperative hybridization but have distinguishable melting temperatures depending on their positions. This work underscores the importance of understanding fundamental aspects of the self-assembly of DNA nanostructures and can be used to guide the design of more complicated DNA nanostructures, to optimize annealing protocol and manipulate functionalized DNA nanostructures.
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Affiliation(s)
- Xixi Wei
- Department of Chemistry and Biochemistry and Center for Single Molecule Biophysics, Biodesign Institute at Arizona State University, 1001 South McAllister Avenue, Tempe, Arizona 85287-5701, USA
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148
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Wong NY, Xing H, Tan LH, Lu Y. Nano-encrypted Morse code: a versatile approach to programmable and reversible nanoscale assembly and disassembly. J Am Chem Soc 2013; 135:2931-4. [PMID: 23373425 PMCID: PMC3612397 DOI: 10.1021/ja3122284] [Citation(s) in RCA: 38] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
While much work has been devoted to nanoscale assembly of functional materials, selective reversible assembly of components in the nanoscale pattern at selective sites has received much less attention. Exerting such a reversible control of the assembly process will make it possible to fine-tune the functional properties of the assembly and to realize more complex designs. Herein, by taking advantage of different binding affinities of biotin and desthiobiotin toward streptavidin, we demonstrate selective and reversible decoration of DNA origami tiles with streptavidin, including revealing an encrypted Morse code "NANO" and reversible exchange of uppercase letter "I" with lowercase "i". The yields of the conjugations are high (>90%), and the process is reversible. We expect this versatile conjugation technique to be widely applicable with different nanomaterials and templates.
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Affiliation(s)
- Ngo Yin Wong
- Department of Materials Science and Engineering, University of Illinois at Urbana-Champaign, Urbana, IL 61801, United States
- Beckman Institute for Advanced Science and Technology, University of Illinois at Urbana-Champaign, Urbana, IL 61801, United States
| | - Hang Xing
- Department of Chemistry, University of Illinois at Urbana-Champaign, Urbana, IL 61801, United States
- Beckman Institute for Advanced Science and Technology, University of Illinois at Urbana-Champaign, Urbana, IL 61801, United States
| | - Li Huey Tan
- Department of Chemistry, University of Illinois at Urbana-Champaign, Urbana, IL 61801, United States
| | - Yi Lu
- Department of Materials Science and Engineering, University of Illinois at Urbana-Champaign, Urbana, IL 61801, United States
- Department of Chemistry, University of Illinois at Urbana-Champaign, Urbana, IL 61801, United States
- Beckman Institute for Advanced Science and Technology, University of Illinois at Urbana-Champaign, Urbana, IL 61801, United States
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149
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Saaem I, LaBean TH. Overview of DNA origami for molecular self-assembly. WILEY INTERDISCIPLINARY REVIEWS-NANOMEDICINE AND NANOBIOTECHNOLOGY 2013; 5:150-62. [DOI: 10.1002/wnan.1204] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/23/2023]
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150
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Said H, Schüller VJ, Eber FJ, Wege C, Liedl T, Richert C. M1.3--a small scaffold for DNA origami . NANOSCALE 2013; 5:284-90. [PMID: 23160434 DOI: 10.1039/c2nr32393a] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/20/2023]
Abstract
The DNA origami method produces programmable nanoscale objects that form when one long scaffold strand hybridizes to numerous oligonucleotide staple strands. One scaffold strand is dominating the field: M13mp18, a bacteriophage-derived vector 7249 nucleotides in length. The full-length M13 is typically folded by using over 200 staple oligonucleotides. Here we report the convenient preparation of a 704 nt fragment dubbed "M1.3" as a linear or cyclic scaffold and the assembly of small origami structures with just 15-24 staple strands. A typical M1.3 origami is large enough to be visualized by TEM, but small enough to show a cooperativity in its assembly and thermal denaturation that is reminiscent of oligonucleotide duplexes. Due to its medium size, M1.3 origami with globally modified staples is affordable. As a proof of principle, two origami structures with globally 5'-capped staples were prepared and were shown to give higher UV-melting points than the corresponding assembly with unmodified DNA. M1.3 has the size of a gene, not a genome, and may function as a model for gene-based nanostructures. Small origami with M1.3 as a scaffold may serve as a workbench for chemical, physical, and biological experiments.
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Affiliation(s)
- Hassan Said
- Institute for Organic Chemistry, University of Stuttgart, Pfaffenwaldring 55, 70569 Stuttgart, Germany
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