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Ding L, Chen X, Ma W, Li J, Liu X, Fan C, Yao G. DNA-mediated regioselective encoding of colloids for programmable self-assembly. Chem Soc Rev 2023; 52:5684-5705. [PMID: 37522252 DOI: 10.1039/d2cs00845a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 08/01/2023]
Abstract
How far we can push chemical self-assembly is one of the most important scientific questions of the century. Colloidal self-assembly is a bottom-up technique for the rational design of functional materials with desirable collective properties. Due to the programmability of DNA base pairing, surface modification of colloidal particles with DNA has become fundamental for programmable material self-assembly. However, there remains an ever-lasting demand for surface regioselective encoding to realize assemblies that require specific, directional, and orthogonal interactions. Recent advances in surface chemistry have enabled regioselective control over the formation of DNA bonds on the particle surface. In particular, the structural DNA nanotechnology provides a simple yet powerful design strategy with unique regioselective addressability, bringing the complexity of colloidal self-assembly to an unprecedented level. In this review, we summarize the state-of-art advances in DNA-mediated regioselective surface encoding of colloids, with a focus on how the regioselective encoding is introduced and how the regioselective DNA recognition plays a crucial role in the self-assembly of colloidal structures. This review highlights the advantages of DNA-based regioselective modification in improving the complexity of colloidal assembly, and outlines the challenges and opportunities for the construction of more complex architectures with tailored functionalities.
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Affiliation(s)
- Longjiang Ding
- School of Chemistry and Chemical Engineering, Frontiers Science Center for Transformative Molecules and National Center for Translational Medicine, Shanghai Jiao Tong University, Shanghai 200240, China.
| | - Xiaoliang Chen
- School of Chemistry and Chemical Engineering, Frontiers Science Center for Transformative Molecules and National Center for Translational Medicine, Shanghai Jiao Tong University, Shanghai 200240, China.
| | - Wenhe Ma
- School of Chemistry and Chemical Engineering, Frontiers Science Center for Transformative Molecules and National Center for Translational Medicine, Shanghai Jiao Tong University, Shanghai 200240, China.
| | - Jiang Li
- Institute of Materiobiology, Department of Chemistry, College of Science, Shanghai University, Shanghai 200444, China
| | - Xiaoguo Liu
- School of Chemistry and Chemical Engineering, Frontiers Science Center for Transformative Molecules and National Center for Translational Medicine, Shanghai Jiao Tong University, Shanghai 200240, China.
| | - Chunhai Fan
- School of Chemistry and Chemical Engineering, Frontiers Science Center for Transformative Molecules and National Center for Translational Medicine, Shanghai Jiao Tong University, Shanghai 200240, China.
| | - Guangbao Yao
- School of Chemistry and Chemical Engineering, Frontiers Science Center for Transformative Molecules and National Center for Translational Medicine, Shanghai Jiao Tong University, Shanghai 200240, China.
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2
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Alsadig A, Abbasgholi-NA B, Vondracek H, Medagli B, Fortuna S, Posocco P, Parisse P, Cabrera H, Casalis L. DNA-Directed Protein Anchoring on Oligo/Alkanethiol-Coated Gold Nanoparticles: A Versatile Platform for Biosensing Applications. NANOMATERIALS (BASEL, SWITZERLAND) 2022; 13:nano13010078. [PMID: 36615988 PMCID: PMC9823620 DOI: 10.3390/nano13010078] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/02/2022] [Revised: 12/12/2022] [Accepted: 12/22/2022] [Indexed: 05/27/2023]
Abstract
Herein, we report on a smart biosensing platform that exploits gold nanoparticles (AuNPs) functionalized through ssDNA self-assembled monolayers (SAM) and the DNA-directed immobilization (DDI) of DNA-protein conjugates; a novel, high-sensitivity optical characterization technique based on a miniaturized gel electrophoresis chip integrated with online thermal lens spectrometry (MGEC-TLS), for the high-sensitivity detection of antigen binding events. Specifically, we characterized the physicochemical properties of 20 nm AuNPs covered with mixed SAMs of thiolated single-stranded DNA and bio-repellent molecules, referred to as top-terminated oligo-ethylene glycol (TOEG6), demonstrating high colloidal stability, optimal binder surface density, and proper hybridization capacity. Further, to explore the design in the frame of cancer-associated antigen detection, complementary ssDNA fragments conjugated with a nanobody, called C8, were loaded on the particles and employed to detect the presence of the HER2-ECD antigen in liquid. At variance with conventional surface plasmon resonance detection, MGEC-TLS characterization confirmed the capability of the assay to titrate the HER2-ECD antigen down to concentrations of 440 ng/mL. The high versatility of the directed protein-DNA conjugates immobilization through DNA hybridization on plasmonic scaffolds and coupled with the high sensitivity of the MGEC-TLS detection qualifies the proposed assay as a potential, easily operated biosensing strategy for the fast and label-free detection of disease-relevant antigens.
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Affiliation(s)
- Ahmed Alsadig
- Department of Physics, University of Trieste, 34127 Trieste, Italy
- NanoInnovation Lab, Elettra-Sincrotrone Trieste S.C.p.A., 34149 Trieste, Italy
| | - Behnaz Abbasgholi-NA
- NanoInnovation Lab, Elettra-Sincrotrone Trieste S.C.p.A., 34149 Trieste, Italy
- Optics Lab, STI Unit, The Abdus Salam International Centre for Theoretical Physics, 34151 Trieste, Italy
| | - Hendrik Vondracek
- NanoInnovation Lab, Elettra-Sincrotrone Trieste S.C.p.A., 34149 Trieste, Italy
| | - Barbara Medagli
- Department of Medicine, Surgery and Health Sciences at the University of Trieste, 34149 Trieste, Italy
| | - Sara Fortuna
- Italian Institute of Technology (IIT), Via Melen–83, B Block, 16152 Genova, Italy
| | - Paola Posocco
- Department of Engineering and Architecture, University of Trieste, 34127 Trieste, Italy
| | - Pietro Parisse
- NanoInnovation Lab, Elettra-Sincrotrone Trieste S.C.p.A., 34149 Trieste, Italy
- Institute of Materials (IOM-CNR), Area Science Park, 34149 Trieste, Italy
| | - Humberto Cabrera
- Optics Lab, STI Unit, The Abdus Salam International Centre for Theoretical Physics, 34151 Trieste, Italy
| | - Loredana Casalis
- NanoInnovation Lab, Elettra-Sincrotrone Trieste S.C.p.A., 34149 Trieste, Italy
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Xu R, Li Y, Zhu C, Liu D, Yang YR. Cellular Ingestible DNA Nanostructures for Biomedical Applications. ADVANCED NANOBIOMED RESEARCH 2022. [DOI: 10.1002/anbr.202200119] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022] Open
Affiliation(s)
- Rui Xu
- Key Laboratory of Bioorganic Phosphorus Chemistry & Chemical Biology (Ministry of Education) Department of Chemistry Tsinghua University Beijing 100084 China
| | - Yujie Li
- Key Laboratory of Bioorganic Phosphorus Chemistry & Chemical Biology (Ministry of Education) Department of Chemistry Tsinghua University Beijing 100084 China
| | - Chenyou Zhu
- Key Laboratory of Bioorganic Phosphorus Chemistry & Chemical Biology (Ministry of Education) Department of Chemistry Tsinghua University Beijing 100084 China
| | - Dongsheng Liu
- Key Laboratory of Bioorganic Phosphorus Chemistry & Chemical Biology (Ministry of Education) Department of Chemistry Tsinghua University Beijing 100084 China
| | - Yuhe R. Yang
- CAS Key Laboratory of Nanosystem and Hierarchical Fabrication CAS Center for Excellence in Nanoscience National Center for Nanoscience and Technology Beijing 100190 China
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4
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An electrophoresis approach with online thermal lens detection to monitoring DNA surface coatings on gold nanoparticles. Microchem J 2022. [DOI: 10.1016/j.microc.2021.106961] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/25/2023]
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Zhang J, Jin J, Du Y, Zhou X, Liang H, Jiang W. Enhancing the stability of single-stranded DNA on gold nanoparticles as molecular machines through salt and acid regulation. J Mater Chem B 2020; 7:5554-5562. [PMID: 31465072 DOI: 10.1039/c9tb01238a] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
DNA-functionalized gold nanoparticles (DNA-AuNPs) have shown great potential and exciting opportunities for constructing machine-like nanodevices. Nonthiolated DNA can be grafted onto gold surfaces via DNA bases, such as polyadenine (polyA)-DNA. The colloidal stability of polyA-DNA-AuNPs has a significant dependency on salt and pH that affects the assembly of AuNPs and their application in polyA-DNA molecular machines. High salt and low pH value contribute to the stabilization of polyA-DNA-AuNPs. In acid conditions, adenine can be protonated and becomes positively-charged, thus enhancing the adsorption of polyA-DNA onto the gold surface by electrostatic interactions; coordination of multiple interactions achieves a high DNA grafting density and colloidal stability. In addition, the length of adenine has an important effect on the efficiency of the DNA machine, while the length of thymine has little effect when the thymine length is less than or equal to seven. The assembly of AuNPs driven by dynamic polyA-DNA molecular machines was successfully accomplished with A5-DNA and A9-DNA. A moderate concentration of catalyst oligomer (50 nM) could improve the DNA hybridization efficiency. The A9-DNA based molecular machine is more efficient than the A5-DNA based one because of the larger amount of A9-DNA on the AuNPs, which increases the probability of collisions between complementary DNA strands. Therefore, polyA-DNA functionalized nanoparticles can be used as a basic unit to construct assembly-ordering structures and achieve dynamic molecular machines to be applied in the molecular diagnostics field.
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Affiliation(s)
- Jianing Zhang
- State Key Laboratory of Polymer Physics and Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, P. R. China.
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6
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Shen P, Zhao G, Liu Y, Ge Q, Sun Q. Liposomal Spherical Nucleic Acid Scaffolded Site-Selective Hybridization of Nanoparticles for Visual Detection of MicroRNAs. ACS APPLIED BIO MATERIALS 2020; 3:1656-1665. [PMID: 35021656 DOI: 10.1021/acsabm.9b01222] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/23/2023]
Abstract
In this study, the advanced liposomal spherical nucleic acid (L-SNA) is exploited for the first time to establish a spherical, three-dimensional biosensing platform by hybridizing with a set of nanoparticles. By hydrophilic and hydrophobic interactions as well as programmable base-pairing, red-emission quantum dots (QDs), green-emission QDs, and gold nanoparticles (AuNPs) are encapsulated into the internal aqueous core, the intermediate lipid bilayer, and the outer SNA shell, respectively, producing an L-SNA-nanoparticle hybrid. As a result of the site-selective encapsulation, the hybrid constitutes a liposomal fluorescent "core-resonance energy transfer" system surrounded by a SNA shell, as is imaged at the single-particle resolution by confocal microscopy. With the outer SNA shell as three-dimensional substrate for duplex-specific nuclease target recycling reaction, the hybrid is capable of amplified detection of microRNAs, featuring one target to many AuNP-manipulated, dual-emission QD-based ratiometric fluorescence. More importantly, the ratiometric fluorescence facilitates the hybrid to visualize microRNAs with remarkably high resolution, which is exemplified by traffic light-type transition in fluorescence color for diagnosing circulating microRNAs in clinical serum samples. Substantially, the controllable hybridization with functional nanoparticles opens an avenue for the exciting biomedical applications of liposomal spherical nucleic acids.
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Affiliation(s)
- Peng Shen
- State Key Laboratory of Bioelectronics, National Demonstration Center for Experimental Biomedical Engineering Education, School of Biological Science & Medical Engineering, Southeast University, Nanjing 210096, China
| | - Guihong Zhao
- State Key Laboratory of Bioelectronics, National Demonstration Center for Experimental Biomedical Engineering Education, School of Biological Science & Medical Engineering, Southeast University, Nanjing 210096, China
| | - Yuqian Liu
- State Key Laboratory of Bioelectronics, National Demonstration Center for Experimental Biomedical Engineering Education, School of Biological Science & Medical Engineering, Southeast University, Nanjing 210096, China
| | - Qinyu Ge
- State Key Laboratory of Bioelectronics, National Demonstration Center for Experimental Biomedical Engineering Education, School of Biological Science & Medical Engineering, Southeast University, Nanjing 210096, China
| | - Qingjiang Sun
- State Key Laboratory of Bioelectronics, National Demonstration Center for Experimental Biomedical Engineering Education, School of Biological Science & Medical Engineering, Southeast University, Nanjing 210096, China
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7
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Xu S, Chang Y, Wu Z, Li Y, Yuan R, Chai Y. One DNA circle capture probe with multiple target recognition domains for simultaneous electrochemical detection of miRNA-21 and miRNA-155. Biosens Bioelectron 2019; 149:111848. [PMID: 31726271 DOI: 10.1016/j.bios.2019.111848] [Citation(s) in RCA: 65] [Impact Index Per Article: 13.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/14/2019] [Revised: 10/23/2019] [Accepted: 11/02/2019] [Indexed: 12/18/2022]
Abstract
In this work, a novel DNA circle capture probe with multiple target recognition domains was designed to develop an electrochemical biosensor for ultrasensitive detection of microRNA-21 (miRNA-21) and miRNA-155 simultaneously. The DNA circle capture probe was anchored at the top of the tetrahedron DNA nanostructure (TDN) to simultaneously recognize miRNA-21 and miRNA-155 through multiple target recognition domains under the assistance of Helper strands, which could trigger mimetic proximity ligation assay (mPLA) for capturing the beacons ferrocene (Fc)-A1 and methylene blue (MB)-A2 to achieve multiple miRNAs detection. In this way, the local reaction concentration could be enhanced and avoid the interference of various capture probes compared with the traditional multiplexed electrochemical biosensor with the use of different capture probes, resulting in the significantly improvement of detection sensitivity. As a result, this proposed biosensor showed wide linearity ranging from 0.1 fM to 10 nM with detection limits of miRNA-21 and miRNA-155 as 18.9 aM and 39.6 aM respectively, which also could be applied in the simultaneously detection of miRNA-21 and miRNA-155 from cancer cell lysates. The present strategy paved a new path in the design of capture probes for achieving more efficient and sensitive multiple biomarkers detections and possessed the potential applications in clinical diagnostic of diseases.
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Affiliation(s)
- Sai Xu
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry (Southwest University), Ministry of Education, College of Chemistry and Chemical Engineering, Southwest University, Chongqing, 400715, PR China
| | - Yuanyuan Chang
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry (Southwest University), Ministry of Education, College of Chemistry and Chemical Engineering, Southwest University, Chongqing, 400715, PR China
| | - Zhongyu Wu
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry (Southwest University), Ministry of Education, College of Chemistry and Chemical Engineering, Southwest University, Chongqing, 400715, PR China
| | - Yunrui Li
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry (Southwest University), Ministry of Education, College of Chemistry and Chemical Engineering, Southwest University, Chongqing, 400715, PR China
| | - Ruo Yuan
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry (Southwest University), Ministry of Education, College of Chemistry and Chemical Engineering, Southwest University, Chongqing, 400715, PR China.
| | - Yaqin Chai
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry (Southwest University), Ministry of Education, College of Chemistry and Chemical Engineering, Southwest University, Chongqing, 400715, PR China.
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8
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Hlaváček A, Mickert MJ, Soukka T, Lahtinen S, Tallgren T, Pizúrová N, Król A, Gorris HH. Large-Scale Purification of Photon-Upconversion Nanoparticles by Gel Electrophoresis for Analogue and Digital Bioassays. Anal Chem 2018; 91:1241-1246. [DOI: 10.1021/acs.analchem.8b04488] [Citation(s) in RCA: 26] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Affiliation(s)
- Antonín Hlaváček
- Institute of Analytical Chemistry of the Czech Academy of Sciences, 602 00 Brno, Czech Republic
| | - Matthias J. Mickert
- Institute of Analytical Chemistry, Chemo- and Biosensors, University of Regensburg, 93053 Regensburg, Germany
| | - Tero Soukka
- Department of Biochemistry/Biotechnology, University of Turku, 20014 Turku, Finland
| | - Satu Lahtinen
- Department of Biochemistry/Biotechnology, University of Turku, 20014 Turku, Finland
| | - Terhi Tallgren
- Department of Biochemistry/Biotechnology, University of Turku, 20014 Turku, Finland
| | - Naděžda Pizúrová
- Institute of Physics of Materials of the Czech Academy of Sciences, 616 62 Brno, Czech Republic
| | - Anna Król
- Centre for Modern Interdisciplinary Technologies/Chair of Environmental Chemistry and Bioanalytics, Faculty of Chemistry, Nicolaus Copernicus University in Toruń, 87-100 Toruń, Poland
| | - Hans H. Gorris
- Institute of Analytical Chemistry, Chemo- and Biosensors, University of Regensburg, 93053 Regensburg, Germany
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9
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Luo X, Chidchob P, Rahbani JF, Sleiman HF. Encapsulation of Gold Nanoparticles into DNA Minimal Cages for 3D-Anisotropic Functionalization and Assembly. SMALL (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2018; 14:1702660. [PMID: 29205958 DOI: 10.1002/smll.201702660] [Citation(s) in RCA: 20] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/01/2017] [Revised: 10/06/2017] [Indexed: 06/07/2023]
Abstract
Gold nanoparticles (AuNPs) endowed with anisotropic DNA valency are an important class of materials, as they can assemble into complex structures with a minimal number of DNA strands. However, methods to encode 3D DNA strand patterns on AuNPs with a controlled number of unique DNA strands in a predesigned spatial arrangement remain elusive. In this work, a simple one-step method to yield such DNA-decorated AuNPs is demonstrated, through encapsulating AuNPs into DNA minimal nanocages. The AuNP@DNA cage encapsulation complex inherits the 3D anisotropic molecular information from the DNA nanocage with enhanced structural stability. The DNA nanocage can be further functionalized and used as a building block for the self-assembly of complex architectures, such as dimers and trimers, programmed assemblies with sequential growth DNA backbones and DNA origami.
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Affiliation(s)
- Xin Luo
- Department of Chemistry, McGill University, 801 Sherbrooke St. West, Montreal, QC, H3A 0B8, Canada
| | - Pongphak Chidchob
- Department of Chemistry, McGill University, 801 Sherbrooke St. West, Montreal, QC, H3A 0B8, Canada
| | - Janane F Rahbani
- Department of Chemistry, McGill University, 801 Sherbrooke St. West, Montreal, QC, H3A 0B8, Canada
| | - Hanadi F Sleiman
- Department of Chemistry, McGill University, 801 Sherbrooke St. West, Montreal, QC, H3A 0B8, Canada
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10
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Król A, Pomastowski P, Rafińska K, Railean-Plugaru V, Buszewski B. Zinc oxide nanoparticles: Synthesis, antiseptic activity and toxicity mechanism. Adv Colloid Interface Sci 2017; 249:37-52. [PMID: 28923702 DOI: 10.1016/j.cis.2017.07.033] [Citation(s) in RCA: 265] [Impact Index Per Article: 37.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/14/2017] [Revised: 07/24/2017] [Accepted: 07/29/2017] [Indexed: 02/02/2023]
Abstract
Zinc oxide (ZnO), as a material with attractive properties, has attracted great interest worldwide, particularly owing to the implementation of the synthesis of nano-sized particles. High luminescent efficiency, a wide band gap (3.36eV), and a large exciton binding energy (60meV) has triggered intense research on the production of nanoparticles using different synthesis methods and on their future applications. ZnO nanomaterials can be used in industry as nano-optical and nano-electrical devices, in food packaging and in medicine as antimicrobial and antitumor agents. The increasing focus on nano zinc oxide resulted in the invention and development of methods of nanoparticles synthesis. Recently, various approaches including physical, chemical and biological ("green chemistry") have been used to prepare ZnO nanocomposites with different morphologies. The obtained nanoparticles can be characterized with a broad range of analytical methods including dynamic light scattering (DLS), electron microscopy (TEM, SEM), UV-VIS spectroscopy, X-ray diffraction (XRD) or inductively coupled plasma with mass spectrometry (ICP-MS). With these it is possible to obtain information concerning the size, shape and optical properties of nanoparticles. ZnO NPs exhibit attractive antimicrobial properties against bacteria (Gram-positive and Gram-negative) and fungi. Zinc oxide nanocomposites show also selective toxicity toward normal and cancerous cells, which is explained by reactive oxygen formation (ROS). Yet despite the potentially interesting antitumor activity of ZnO nanoparticles, it has been proven that they can be also cytotoxic and genotoxic for multiple types of human cells (i.e. neuronal or epithelial cells). This paper reviews the methods of synthesizing zinc oxide nanocomposites as well as their characteristics, antimicrobial activity and cytotoxicity against normal and tumor cells.
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11
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Popp PS, Herrmann JF, Fritz EC, Ravoo BJ, Höppener C. Impact of the Nanoscale Gap Morphology on the Plasmon Coupling in Asymmetric Nanoparticle Dimer Antennas. SMALL (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2016; 12:1667-75. [PMID: 26849412 DOI: 10.1002/smll.201503536] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/20/2015] [Revised: 01/13/2016] [Indexed: 05/12/2023]
Abstract
Coupling of plasmon resonances in metallic gap antennas is of interest for a wide range of applications due to the highly localized strong electric fields supported by these structures, and their high sensitivity to alterations of their structure, geometry, and environment. Morphological alterations of asymmetric nanoparticle dimer antennas with (sub)-nanometer size gaps are assigned to changes of their optical response in correlative dark-field spectroscopy and high-resolution transmission electron microscopy (HR-TEM) investigations. This multimodal approach to investigate individual dimer structures clearly demonstrates that the coupling of the plasmon modes, in addition to well-known parameters such as the particle geometry and the gap size, is also affected by the relative alignment of both nanoparticles. The investigations corroborate that the alignment of the gap forming facets, and with that the gap area, is crucial for their scattering properties. The impact of a flat versus a rounded gap structure on the optical properties of equivalent dimers becomes stronger with decreasing gap size. These results hint at a higher confinement of the electric field in the gap and possibly a different onset of quantum transport effects for flat and rounded gap antennas in corresponding structures for very narrow gaps.
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Affiliation(s)
- Paul S Popp
- NanoBiophotonics Group, Institute of Physics, Westfälische Wilhelms-Universität Münster, Wilhelm-Klemm-Straße 10, 48149, Münster, Germany
| | - Janning F Herrmann
- NanoBiophotonics Group, Institute of Physics, Westfälische Wilhelms-Universität Münster, Wilhelm-Klemm-Straße 10, 48149, Münster, Germany
| | - Eva-Corinna Fritz
- Organic Chemistry Institute, Westfälische Wilhelms-Universität Münster, Corrensstraße 40, 48149, Münster, Germany
| | - Bart Jan Ravoo
- Organic Chemistry Institute, Westfälische Wilhelms-Universität Münster, Corrensstraße 40, 48149, Münster, Germany
| | - Christiane Höppener
- NanoBiophotonics Group, Institute of Physics, Westfälische Wilhelms-Universität Münster, Wilhelm-Klemm-Straße 10, 48149, Münster, Germany
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12
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Edwardson TGW, Lau KL, Bousmail D, Serpell CJ, Sleiman HF. Transfer of molecular recognition information from DNA nanostructures to gold nanoparticles. Nat Chem 2016; 8:162-70. [PMID: 26791900 DOI: 10.1038/nchem.2420] [Citation(s) in RCA: 172] [Impact Index Per Article: 21.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/05/2015] [Accepted: 11/13/2015] [Indexed: 12/22/2022]
Abstract
DNA nanotechnology offers unparalleled precision and programmability for the bottom-up organization of materials. This approach relies on pre-assembling a DNA scaffold, typically containing hundreds of different strands, and using it to position functional components. A particularly attractive strategy is to employ DNA nanostructures not as permanent scaffolds, but as transient, reusable templates to transfer essential information to other materials. To our knowledge, this approach, akin to top-down lithography, has not been examined. Here we report a molecular printing strategy that chemically transfers a discrete pattern of DNA strands from a three-dimensional DNA structure to a gold nanoparticle. We show that the particles inherit the DNA sequence configuration encoded in the parent template with high fidelity. This provides control over the number of DNA strands and their relative placement, directionality and sequence asymmetry. Importantly, the nanoparticles produced exhibit the site-specific addressability of DNA nanostructures, and are promising components for energy, information and biomedical applications.
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Affiliation(s)
- Thomas G W Edwardson
- Department of Chemistry and Centre for Self-assembled Chemical Structures, McGill University, 801 Sherbrooke Street West, Montreal, Quebec H3A 0B8, Canada
| | - Kai Lin Lau
- Department of Chemistry and Centre for Self-assembled Chemical Structures, McGill University, 801 Sherbrooke Street West, Montreal, Quebec H3A 0B8, Canada
| | - Danny Bousmail
- Department of Chemistry and Centre for Self-assembled Chemical Structures, McGill University, 801 Sherbrooke Street West, Montreal, Quebec H3A 0B8, Canada
| | - Christopher J Serpell
- Department of Chemistry and Centre for Self-assembled Chemical Structures, McGill University, 801 Sherbrooke Street West, Montreal, Quebec H3A 0B8, Canada
| | - Hanadi F Sleiman
- Department of Chemistry and Centre for Self-assembled Chemical Structures, McGill University, 801 Sherbrooke Street West, Montreal, Quebec H3A 0B8, Canada
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13
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Ma L, Li F, Fang T, Zhang J, Wang Q. Controlled Self-Assembly of Proteins into Discrete Nanoarchitectures Templated by Gold Nanoparticles via Monovalent Interfacial Engineering. ACS APPLIED MATERIALS & INTERFACES 2015; 7:11024-11031. [PMID: 25943563 DOI: 10.1021/acsami.5b02823] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
Designed rational assembly of proteins promises novel properties and functionalities as well as new insights into the nature of life. De novo design of artificial protein nanostructures has been achieved using protein subunits or peptides as building blocks. However, controlled assembly of protein nanostructures into higher-order discrete nanoarchitectures, rather than infinite arrays or aggregates, remains a challenge due to the complex or symmetric surface chemistry of protein nanostructures. Here we develop a facile strategy to control the hierarchical assembly of protein nanocages into discrete nanoarchitectures with gold nanoparticles (AuNPs) as scaffolds via rationally designing their interfacial interaction. The protein nanocage is monofunctionalized with a polyhistidine tag (Histag) on the external surface through a mixed assembly strategy, while AuNPs are modified with Ni(2+)-NTA chelates, so that the protein nanocage can controllably assemble onto the AuNPs via the Histag-Ni(2+) affinity. Discrete protein nanoarchitectures with tunable composition can be generated by stoichiometric control over the ratio of protein nanocage to AuNP or change of AuNP size. The methodology described here is extendable to other protein nanostructures and chemically synthesized nanomaterials, and can be borrowed by synthetic biology for biomacromolecule manipulation.
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Affiliation(s)
- Lingzhi Ma
- †Key Laboratory of Nano-Bio Interface, Division of Nanobiomedicine and i-Lab, CAS Center for Excellence in Brain Science, Suzhou Institute of Nano-Tech and Nano-Bionics, Chinese Academy of Sciences, 398 Ruoshui Road, Suzhou 215123, P. R. China
| | - Feng Li
- ‡State Key Laboratory of Virology, Wuhan Institute of Virology, Chinese Academy of Sciences, No. 44, Xiaohongshan, Wuhan 430071, P. R. China
| | - Ti Fang
- ‡State Key Laboratory of Virology, Wuhan Institute of Virology, Chinese Academy of Sciences, No. 44, Xiaohongshan, Wuhan 430071, P. R. China
| | - Jianting Zhang
- †Key Laboratory of Nano-Bio Interface, Division of Nanobiomedicine and i-Lab, CAS Center for Excellence in Brain Science, Suzhou Institute of Nano-Tech and Nano-Bionics, Chinese Academy of Sciences, 398 Ruoshui Road, Suzhou 215123, P. R. China
| | - Qiangbin Wang
- †Key Laboratory of Nano-Bio Interface, Division of Nanobiomedicine and i-Lab, CAS Center for Excellence in Brain Science, Suzhou Institute of Nano-Tech and Nano-Bionics, Chinese Academy of Sciences, 398 Ruoshui Road, Suzhou 215123, P. R. China
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14
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Deka J, Měch R, Ianeselli L, Amenitsch H, Cacho-Nerin F, Parisse P, Casalis L. Surface passivation improves the synthesis of highly stable and specific DNA-functionalized gold nanoparticles with variable DNA density. ACS APPLIED MATERIALS & INTERFACES 2015; 7:7033-40. [PMID: 25756758 DOI: 10.1021/acsami.5b01191] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
We report a novel and multifaceted approach for the quick synthesis of highly stable single-stranded DNA (ssDNA) functionalized gold nanoparticles (AuNPs). The method is based on the combined effect of surface passivation by (1-mercaptoundec-11-yl)hexa(ethylene glycol) and low pH conditions, does not require any salt pretreatment or high excess of ssDNA, and can be generalized for oligonucleotides of any length or base sequence. The synthesized ssDNA-coated AuNPs conjugates are stable at salt concentrations as high as 3.0 M, and also functional and specific toward DNA-DNA hybridization, as shown from UV-vis spectrophotometry, scanning electron microscopy, gel electrophoresis, fluorescence, and small angle X-ray scattering based analyses. The method is highly flexible and shows an additional advantage of creating ssDNA-AuNP conjugates with a predefined number of ssDNA strands per particle. Its simplicity and tenability make it widely applicable to diverse biosensing applications involving ssDNA functionalized AuNPs.
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Affiliation(s)
- Jashmini Deka
- †Elettra-Sincrotrone Trieste, s.s. 14 km 163.5 in Area Science Park, 34149 Basovizza, Trieste Italy
| | - Rostislav Měch
- ‡Institute of Physical Engineering, Brno University of Technology, Technická 2, 61669 Brno, Czech Republic
| | - Luca Ianeselli
- †Elettra-Sincrotrone Trieste, s.s. 14 km 163.5 in Area Science Park, 34149 Basovizza, Trieste Italy
| | - Heinz Amenitsch
- §Institute for Inorganic Chemistry, Graz University of Technology, Stremayrgasse 9/V, A-8010 Graz, Austria
| | - Fernando Cacho-Nerin
- §Institute for Inorganic Chemistry, Graz University of Technology, Stremayrgasse 9/V, A-8010 Graz, Austria.,∥Diamond Light Source Ltd, Diamond House, Harwell Science and Innovation Campus, OX11 0DE Didcot, United Kingdom
| | - Pietro Parisse
- ⊥INSTM - ST Unit, s.s. 14 km 163.5 in Area Science Park, 34149 Basovizza, Trieste Italy
| | - Loredana Casalis
- †Elettra-Sincrotrone Trieste, s.s. 14 km 163.5 in Area Science Park, 34149 Basovizza, Trieste Italy.,⊥INSTM - ST Unit, s.s. 14 km 163.5 in Area Science Park, 34149 Basovizza, Trieste Italy
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15
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Zhou W, Wang F, Ding J, Liu J. Tandem phosphorothioate modifications for DNA adsorption strength and polarity control on gold nanoparticles. ACS APPLIED MATERIALS & INTERFACES 2014; 6:14795-800. [PMID: 25144905 DOI: 10.1021/am504791b] [Citation(s) in RCA: 43] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/24/2023]
Abstract
Unmodified DNA was recently used to functionalize gold nanoparticles via DNA base adsorption. Compared to thiolated DNA, however, the application of unmodified DNA is limited by the lack of sequence generality, adsorption polarity control and poor adsorption stability. We report that these problems can be solved using phosphorothioate (PS) DNA. PS DNA binds to gold mainly via the sulfur atom and is thus less sequence dependent. The adsorption affinity is ranked to be thiol > PS > adenine > thymine. Tandem PS improves adsorption strength, allows tunable DNA density, and the resulting conjugates are functional at a low cost.
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Affiliation(s)
- Wenhu Zhou
- School of Pharmaceutical Sciences, Central South University , Changsha, Hunan 410013, China
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16
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Hlaváček A, Sedlmeier A, Skládal P, Gorris HH. Electrophoretic characterization and purification of silica-coated photon-upconverting nanoparticles and their bioconjugates. ACS APPLIED MATERIALS & INTERFACES 2014; 6:6930-6935. [PMID: 24697748 DOI: 10.1021/am500732y] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/03/2023]
Abstract
Photon-upconverting nanoparticles (UCNPs) have attracted much interest as a new class of luminescent label for the background-free detection in bioanalytical applications. UCNPs and other nanoparticles are commonly coated with a silica shell to improve their dispersibility and chemical stability in aqueous buffer and to incorporate functional groups for subsequent bioconjugation steps. The process of silica coating, however, is difficult to control without suitable analytical and preparative methods. Here, we have introduced agarose gel electrophoresis for the analysis and purification of silica-coated UCNPs. The silica shell can be doped with a fluorescent dye for direct detection in the gel without influencing the structure or electrophoretic mobility of the nanoparticles. The preparation of a bare silica shell by reverse microemulsion resulted in individual nanoparticles but also distinct aggregates that could be separated and isolated from the agarose gel. In contrast, the preparation of an ultrathin carboxylated silica shell yielded non-aggregated UCNPs only that could be directly used for protein conjugation. Agarose gel electrophoresis has also facilitated an efficient separation of protein-UCNP conjugates from excess reagents.
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Affiliation(s)
- Antonín Hlaváček
- Institute of Analytical Chemistry, Chemo- and Biosensors, University of Regensburg , 93040 Regensburg, Germany
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17
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Jin J, Xing Y, Xi Y, Liu X, Zhou T, Ma X, Yang Z, Wang S, Liu D. A triggered DNA hydrogel cover to envelop and release single cells. ADVANCED MATERIALS (DEERFIELD BEACH, FLA.) 2013; 25:4714-4717. [PMID: 23836697 DOI: 10.1002/adma.201301175] [Citation(s) in RCA: 73] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/14/2013] [Revised: 05/04/2013] [Indexed: 06/02/2023]
Abstract
We develop an enzyme-triggered permeable DNA hydrogel cover to envelop and release single cells in microwells. The porous structure of the DNA hydrogel allows nutrients and waste to pass through, leading to a cell viability as high as 98%. The design provides a general method to culture, monitor, and manipulate single cells, and has potential applications in cell patterning and studying cell communication.
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Affiliation(s)
- Juan Jin
- Key Laboratory of Organic Optoelectrics & Molecular Engineering of the Ministry of Education, Department of Chemistry, Tsinghua University, Beijing 100084, P. R. China, Fax: +86-10-62796082; National Center for Nanoscience and Technology, Beijing 100190, P. R. China; University of Chinese Academy of Sciences, Beijing 100049, P. R. China
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18
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Su S, Zuo X, Pan D, Pei H, Wang L, Fan C, Huang W. Design and applications of gold nanoparticle conjugates by exploiting biomolecule-gold nanoparticle interactions. NANOSCALE 2013; 5:2589-2599. [PMID: 23423633 DOI: 10.1039/c3nr33870c] [Citation(s) in RCA: 40] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/01/2023]
Abstract
Gold nanoparticles (AuNPs) are a type of widely used nanomaterials with unique chemical and physical properties. AuNPs can be readily synthesized, and modified with various chemical or biological molecules, making them promising candidates for catalysis, drug delivery and biological imaging applications. In this review, we mainly focus on recent advances in the design and synthesis of conjugates of AuNPs by exploiting biomolecule-AuNP interactions. We will also discuss a variety of bioapplications of AuNP-based conjugates.
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Affiliation(s)
- Shao Su
- Key Laboratory for Organic Electronics & Information Displays, Institute of Advanced Materials, School of Materials Science and Engineering, Nanjing University of Posts & Telecommunications, 9 Wenyuan Road, Nanjing, 210046, China
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19
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Wen Y, Wang W, Zhang Z, Xu L, Du H, Zhang X, Song Y. Controllable and reproducible construction of a SERS substrate and its sensing applications. NANOSCALE 2013; 5:523-526. [PMID: 23223828 DOI: 10.1039/c2nr33350c] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/01/2023]
Abstract
A simple method for the preparation of a highly stable and reliable surface-enhanced Raman scattering (SERS) substrate was proposed. The SERS enhancement was demonstrated with good controllability and reproducibility through the controlled formation/deformation of SERS "hotspots" using a reversible DNA nanoswitch. Highly effective DNA detection was achieved using a well-designed sandwich structure.
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Affiliation(s)
- Yongqiang Wen
- Research Center for Bioengineering & Sensing Technology, University of Science and Technology Beijing, Beijing 100083, China.
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20
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Zhou T, Chen P, Niu L, Jin J, Liang D, Li Z, Yang Z, Liu D. pH-Responsive Size-Tunable Self-Assembled DNA Dendrimers. Angew Chem Int Ed Engl 2012. [DOI: 10.1002/ange.201205862] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
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21
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Zhou T, Chen P, Niu L, Jin J, Liang D, Li Z, Yang Z, Liu D. pH-Responsive Size-Tunable Self-Assembled DNA Dendrimers. Angew Chem Int Ed Engl 2012; 51:11271-4. [DOI: 10.1002/anie.201205862] [Citation(s) in RCA: 76] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/24/2012] [Indexed: 02/05/2023]
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22
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Li F, Zhang H, Lai C, Li XF, Le XC. A molecular translator that acts by binding-induced DNA strand displacement for a homogeneous protein assay. Angew Chem Int Ed Engl 2012; 51:9317-20. [PMID: 22893418 DOI: 10.1002/anie.201202677] [Citation(s) in RCA: 92] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/06/2012] [Revised: 07/23/2012] [Indexed: 12/23/2022]
Affiliation(s)
- Feng Li
- Department of Chemistry, University of Alberta, Edmonton, T6G 2G3 Canada
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23
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Li F, Zhang H, Lai C, Li XF, Le XC. A Molecular Translator that Acts by Binding-Induced DNA Strand Displacement for a Homogeneous Protein Assay. Angew Chem Int Ed Engl 2012. [DOI: 10.1002/ange.201202677] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
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24
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Wen Y, Xu L, Wang W, Wang D, Du H, Zhang X. Highly efficient remote controlled release system based on light-driven DNA nanomachine functionalized mesoporous silica. NANOSCALE 2012; 4:4473-4476. [PMID: 22751906 DOI: 10.1039/c2nr31101a] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/01/2023]
Abstract
An intelligent photoswitchable single-molecule nanomachine with DNA hairpin-loop structure was designed by the incorporation of azobenzene groups in DNA sequences, which was studied by fluorescence resonance energy transfer (FRET) and attached onto the surface of mesoporous silica. Based on the photo-induced conformational transformation of DNA, highly efficient controlled release was realized.
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Affiliation(s)
- Yongqiang Wen
- Research Center for Bioengineering & Sensing Technology, University of Science and Technology Beijing, Beijing 100083, China.
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25
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Pei H, Li F, Wan Y, Wei M, Liu H, Su Y, Chen N, Huang Q, Fan C. Designed diblock oligonucleotide for the synthesis of spatially isolated and highly hybridizable functionalization of DNA-gold nanoparticle nanoconjugates. J Am Chem Soc 2012; 134:11876-9. [PMID: 22799460 DOI: 10.1021/ja304118z] [Citation(s) in RCA: 358] [Impact Index Per Article: 29.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
Conjugates of DNA and gold nanoparticles (AuNPs) typically exploit the strong Au-S chemistry to self-assemble thiolated oligonucleotides at AuNPs. However, it remains challenging to precisely control the orientation and conformation of surface-tethered oligonucleotides and finely tune the hybridization ability. We herein report a novel strategy for spatially controlled functionalization of AuNPs with designed diblock oligonucleotides that are free of modifications. We have demonstrated that poly adenine (polyA) can serve as an effective anchoring block for preferential binding with the AuNP surface, and the appended recognition block adopts an upright conformation that favors DNA hybridization. The lateral spacing and surface density of DNA on AuNPs can also be systematically modulated by adjusting the length of the polyA block. Significantly, this diblock oligonucleotide strategy results in DNA-AuNPs nanoconjugates with high and tunable hybridization ability, which form the basis of a rapid plasmonic DNA sensor.
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Affiliation(s)
- Hao Pei
- Laboratory of Physical Biology, Shanghai Institute of Applied Physics, Chinese Academy of Sciences, Shanghai 201800, China
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26
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Zhang T, Dong Y, Sun Y, Chen P, Yang Y, Zhou C, Xu L, Yang Z, Liu D. DNA bimodified gold nanoparticles. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2012; 28:1966-1970. [PMID: 21995619 DOI: 10.1021/la203151b] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/31/2023]
Abstract
We report a general approach to bimodify gold nanoparticles (GNPs) with two different DNA strands via DNA template reaction. Two thioctic acid modified DNA strands, one at 5' end and one at 3' end, were attached to GNPs through bivalent thiol-gold bond. By sequence design, assemblies of 5 nm GNPs chains, 10 nm GNPs chains and alternative arrangement of 5 and 10 nm GNPs could be achieved. Gel electrophoresis, transmission electron microscope (TEM), UV-vis spectra were used to characterize the assemblies. It is believed that this new kind of bimodified GNPs with two different DNA strands at different ends would enrich the toolbox of DNA-GNP conjugates and provide diverse selectivity for further assembly.
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Affiliation(s)
- Tao Zhang
- Department of Chemistry, Renmin University of China, Beijing 100872, PR China
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27
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