1
|
Ouyang X, De Stefano M, Krissanaprasit A, Bank Kodal AL, Bech Rosen C, Liu T, Helmig S, Fan C, Gothelf KV. Docking of Antibodies into the Cavities of DNA Origami Structures. Angew Chem Int Ed Engl 2017. [DOI: 10.1002/ange.201706765] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
Affiliation(s)
- Xiangyuan Ouyang
- Key Laboratory of Synthetic and Natural Functional Molecule Chemistry of Ministry of Education of China; Key Laboratory of Modern Separation Science in Shaanxi Province; College of Chemistry & Material Science; Northwest University; Xi'an 710127 China
- Center for DNA Nanotechnology (CDNA) at the Interdisciplinary Nanoscience Center (iNANO) and the D; epartment of Chemistry Aarhus University; 8000 Aarhus C Denmark
- Division of Physical Biology, Bioimaging Center; Shanghai Synchrotron Radiation Facility (SSRF); Shanghai Institute of Applied Physics, Chinese Academy of Sciences; Shanghai 201800 China
| | - Mattia De Stefano
- Center for DNA Nanotechnology (CDNA) at the Interdisciplinary Nanoscience Center (iNANO) and the D; epartment of Chemistry Aarhus University; 8000 Aarhus C Denmark
| | - Abhichart Krissanaprasit
- Center for DNA Nanotechnology (CDNA) at the Interdisciplinary Nanoscience Center (iNANO) and the D; epartment of Chemistry Aarhus University; 8000 Aarhus C Denmark
- Present address: Department of Materials Science and Engineering; North Carolina State University; Raleigh NC 27606 USA
| | - Anne Louise Bank Kodal
- Center for DNA Nanotechnology (CDNA) at the Interdisciplinary Nanoscience Center (iNANO) and the D; epartment of Chemistry Aarhus University; 8000 Aarhus C Denmark
| | - Christian Bech Rosen
- Center for DNA Nanotechnology (CDNA) at the Interdisciplinary Nanoscience Center (iNANO) and the D; epartment of Chemistry Aarhus University; 8000 Aarhus C Denmark
| | - Tianqiang Liu
- Center for DNA Nanotechnology (CDNA) at the Interdisciplinary Nanoscience Center (iNANO) and the D; epartment of Chemistry Aarhus University; 8000 Aarhus C Denmark
| | - Sarah Helmig
- Center for DNA Nanotechnology (CDNA) at the Interdisciplinary Nanoscience Center (iNANO) and the D; epartment of Chemistry Aarhus University; 8000 Aarhus C Denmark
| | - Chunhai Fan
- Division of Physical Biology, Bioimaging Center; Shanghai Synchrotron Radiation Facility (SSRF); Shanghai Institute of Applied Physics, Chinese Academy of Sciences; Shanghai 201800 China
| | - Kurt V. Gothelf
- Center for DNA Nanotechnology (CDNA) at the Interdisciplinary Nanoscience Center (iNANO) and the D; epartment of Chemistry Aarhus University; 8000 Aarhus C Denmark
| |
Collapse
|
2
|
Ouyang X, De Stefano M, Krissanaprasit A, Bank Kodal AL, Bech Rosen C, Liu T, Helmig S, Fan C, Gothelf KV. Docking of Antibodies into the Cavities of DNA Origami Structures. Angew Chem Int Ed Engl 2017; 56:14423-14427. [DOI: 10.1002/anie.201706765] [Citation(s) in RCA: 37] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/03/2017] [Revised: 08/18/2017] [Indexed: 12/21/2022]
Affiliation(s)
- Xiangyuan Ouyang
- Key Laboratory of Synthetic and Natural Functional Molecule Chemistry of Ministry of Education of China; Key Laboratory of Modern Separation Science in Shaanxi Province; College of Chemistry & Material Science; Northwest University; Xi'an 710127 China
- Center for DNA Nanotechnology (CDNA) at the Interdisciplinary Nanoscience Center (iNANO) and the D; epartment of Chemistry Aarhus University; 8000 Aarhus C Denmark
- Division of Physical Biology, Bioimaging Center; Shanghai Synchrotron Radiation Facility (SSRF); Shanghai Institute of Applied Physics, Chinese Academy of Sciences; Shanghai 201800 China
| | - Mattia De Stefano
- Center for DNA Nanotechnology (CDNA) at the Interdisciplinary Nanoscience Center (iNANO) and the D; epartment of Chemistry Aarhus University; 8000 Aarhus C Denmark
| | - Abhichart Krissanaprasit
- Center for DNA Nanotechnology (CDNA) at the Interdisciplinary Nanoscience Center (iNANO) and the D; epartment of Chemistry Aarhus University; 8000 Aarhus C Denmark
- Present address: Department of Materials Science and Engineering; North Carolina State University; Raleigh NC 27606 USA
| | - Anne Louise Bank Kodal
- Center for DNA Nanotechnology (CDNA) at the Interdisciplinary Nanoscience Center (iNANO) and the D; epartment of Chemistry Aarhus University; 8000 Aarhus C Denmark
| | - Christian Bech Rosen
- Center for DNA Nanotechnology (CDNA) at the Interdisciplinary Nanoscience Center (iNANO) and the D; epartment of Chemistry Aarhus University; 8000 Aarhus C Denmark
| | - Tianqiang Liu
- Center for DNA Nanotechnology (CDNA) at the Interdisciplinary Nanoscience Center (iNANO) and the D; epartment of Chemistry Aarhus University; 8000 Aarhus C Denmark
| | - Sarah Helmig
- Center for DNA Nanotechnology (CDNA) at the Interdisciplinary Nanoscience Center (iNANO) and the D; epartment of Chemistry Aarhus University; 8000 Aarhus C Denmark
| | - Chunhai Fan
- Division of Physical Biology, Bioimaging Center; Shanghai Synchrotron Radiation Facility (SSRF); Shanghai Institute of Applied Physics, Chinese Academy of Sciences; Shanghai 201800 China
| | - Kurt V. Gothelf
- Center for DNA Nanotechnology (CDNA) at the Interdisciplinary Nanoscience Center (iNANO) and the D; epartment of Chemistry Aarhus University; 8000 Aarhus C Denmark
| |
Collapse
|
3
|
Valsangkar V, Chandrasekaran AR, Wang R, Haruehanroengra P, Levchenko O, Halvorsen K, Sheng J. Click-based functionalization of a 2'-O-propargyl-modified branched DNA nanostructure. J Mater Chem B 2017; 5:2074-2077. [PMID: 32263680 DOI: 10.1039/c6tb03277j] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Abstract
DNA has emerged as a versatile building block for programmable self-assembly. DNA-based nanostructures have been widely applied in biosensing, bioimaging, drug delivery, molecular computation and macromolecular scaffolding. A variety of strategies have been developed to functionalize these nanostructures. In this study, we report a facile click-based strategy to incorporate a metal chelating ligand and a fluorescent tag into a three-point-star DNA tile containing 2'-O-propargyl groups. Such a strategy opens up the possibility of functionalizing pre-assembled DNA strands to construct platforms for metal or drug delivery.
Collapse
Affiliation(s)
- Vibhav Valsangkar
- Department of Chemistry, University at Albany, State University of New York, Albany, NY, USA.
| | | | | | | | | | | | | |
Collapse
|
4
|
Sánchez-Tirado E, González-Cortés A, Yáñez-Sedeño P, Pingarrón JM. Carbon nanotubes functionalized by click chemistry as scaffolds for the preparation of electrochemical immunosensors. Application to the determination of TGF-beta 1 cytokine. Analyst 2016; 141:5730-5737. [DOI: 10.1039/c6an00941g] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The first electrochemical immunosensor for TGF-β1 cytokine in human serum based on carbon nanotubes functionalized by click chemistry is reported.
Collapse
Affiliation(s)
- E. Sánchez-Tirado
- Department of Analytical Chemistry
- Faculty of Chemistry
- University Complutense of Madrid
- 28040-Madrid
- Spain
| | - A. González-Cortés
- Department of Analytical Chemistry
- Faculty of Chemistry
- University Complutense of Madrid
- 28040-Madrid
- Spain
| | - P. Yáñez-Sedeño
- Department of Analytical Chemistry
- Faculty of Chemistry
- University Complutense of Madrid
- 28040-Madrid
- Spain
| | - J. M. Pingarrón
- Department of Analytical Chemistry
- Faculty of Chemistry
- University Complutense of Madrid
- 28040-Madrid
- Spain
| |
Collapse
|
5
|
Estalayo-Adriàn S, Lartia R, Meyer A, Vasseur JJ, Morvan F, Defrancq E. Assessment of the Full Compatibility of Copper(I)-Catalyzed Alkyne-Azide Cycloaddition and Oxime Click Reactions for bis-Labelling of Oligonucleotides. ChemistryOpen 2014; 4:169-73. [PMID: 25969815 PMCID: PMC4420589 DOI: 10.1002/open.201402099] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/03/2014] [Indexed: 12/23/2022] Open
Abstract
The conjugation of oligonucleotides with reporters is of great interest for improving their intrinsic properties or endowing new ones. In this context, we report herein a new procedure for the bis-labelling of oligonucleotides through oxime ligation (Click-O) and copper(I)-catalyzed alkyne–azide cycloaddition (Click-H). 5′-Azido and 3′-aldehyde precursors were incorporated into oligonucleotides, and subsequent coupling reactions through Click-O and Click-H (or vice versa) were successfully achieved. In particular, we exhaustively investigated the full compatibility of each required step for both tethering strategies. The results demonstrate that click Huisgen and click oxime reactions are fully compatible. However, whilst both approaches can deliver the targeted doubly conjugated oligonucleotide, the route involving click oxime ligation prior to click Huisgen is significantly more successful. Thus the reactions investigated here can be considered to be key elements of the chemical toolbox for the synthesis of highly sophisticated bioconjugates.
Collapse
Affiliation(s)
- Sandra Estalayo-Adriàn
- Département de Chimie Moléculaire UMR CNRS 5250, Université Grenoble Alpes 38041, Grenoble Cedex 9, France
| | - Rémy Lartia
- Département de Chimie Moléculaire UMR CNRS 5250, Université Grenoble Alpes 38041, Grenoble Cedex 9, France
| | - Albert Meyer
- Institut des Biomolécules Max Mousseron, UMR 5247 CNRS, Université de Montpellier 34095, Montpellier Cedex 5, France
| | - Jean-Jacques Vasseur
- Institut des Biomolécules Max Mousseron, UMR 5247 CNRS, Université de Montpellier 34095, Montpellier Cedex 5, France
| | - François Morvan
- Institut des Biomolécules Max Mousseron, UMR 5247 CNRS, Université de Montpellier 34095, Montpellier Cedex 5, France
| | - Eric Defrancq
- Département de Chimie Moléculaire UMR CNRS 5250, Université Grenoble Alpes 38041, Grenoble Cedex 9, France
| |
Collapse
|
6
|
Qi H, Ling C, Huang R, Qiu X, Shangguan L, Gao Q, Zhang C. Functionalization of single-walled carbon nanotubes with protein by click chemistry as sensing platform for sensitized electrochemical immunoassay. Electrochim Acta 2012. [DOI: 10.1016/j.electacta.2011.12.084] [Citation(s) in RCA: 31] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
|
7
|
Lartia R, Murat P, Dumy P, Defrancq E. Versatile introduction of azido moiety into oligonucleotides through diazo transfer reaction. Org Lett 2011; 13:5672-5. [PMID: 21958022 DOI: 10.1021/ol202397e] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
The use of a diazo transfer (DZT) reagent enables clean and efficient conversion of aminated oligodeoxyribonucleotides (ODNs) into their azido counterparts under mild conditions. ODNs bearing an amino tether at the 3', 5', or any internal position could be modified in this manner thus demonstrating the versatility of this reaction. Easy access to such azido-modified ODNs is of great interest for conjugation in particular through copper catalyzed 1,3-dipolar cycloaddition (CuAAC reaction).
Collapse
Affiliation(s)
- Rémy Lartia
- Département de Chimie Moléculaire, UMR CNRS 5250, Université Joseph Fourier, BP 53, 38041 Grenoble Cedex 9, France
| | | | | | | |
Collapse
|
8
|
Marks IS, Kang JS, Jones BT, Landmark KJ, Cleland AJ, Taton TA. Strain-promoted "click" chemistry for terminal labeling of DNA. Bioconjug Chem 2011; 22:1259-63. [PMID: 21539391 DOI: 10.1021/bc1003668] [Citation(s) in RCA: 69] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
Abstract
1,3-Dipolar [3 + 2] cycloaddition between azides and alkynes--an archetypal "click" chemistry--has been used increasingly for the functionalization of nucleic acids. Copper(I)-catalyzed 1,3-dipolar cycloaddition reactions between alkyne-tagged DNA molecules and azides work well, but they require optimization of multiple reagents, and Cu ions are known to mediate DNA cleavage. For many applications, it would be preferable to eliminate the Cu(I) catalyst from these reactions. Here, we describe the solid-phase synthesis and characterization of 5'-dibenzocyclooctyne (DIBO)-modified oligonucleotides, using a new DIBO phosphoramidite, which react with azides via copper-free, strain-promoted alkyne-azide cycloaddition (SPAAC). We found that the DIBO group not only survived the standard acidic and oxidative reactions of solid-phase oligonucleotide synthesis (SPOS), but that it also survived the thermal cycling and standard conditions of the polymerase chain reaction (PCR). As a result, PCR with DIBO-modified primers yielded "clickable" amplicons that could be tagged with azide-modified fluorophores or immobilized on azide-modified surfaces. Given its simplicity, SPAAC on DNA could streamline the bioconjugate chemistry of nucleic acids in a number of modern biotechnologies.
Collapse
Affiliation(s)
- Isaac S Marks
- Department of Chemistry, University of Minnesota, 207 Pleasant Street SE, Minneapolis, Minnesota 55455, United States
| | | | | | | | | | | |
Collapse
|
9
|
Abstract
Integrins have become key targets for molecular imaging and for selective delivery of anti-cancer agents. Here we review recent work concerning the targeted delivery of antisense and siRNA oligonucleotides via integrins. A variety of approaches have been used to link oligonucleotides to ligands capable of binding integrins with high specificity and affinity. This includes direct chemical conjugation, incorporating oligonucleotides into lipoplexes, and use of various polymeric nanocarriers including dendrimers. The ligand-oligonucleotide conjugate or complex associates selectively with the integrin, followed by internalization into endosomes and trafficking through subcellular compartments. Escape of antisense or siRNA from the endosome to the cytosol and nucleus may come about through endogenous trafficking mechanisms, or because of membrane disrupting capabilities built into the conjugate or complex. Thus a variety of useful strategies are available for using integrins to enhance the pharmacological efficacy of therapeutic oligonucleotides.
Collapse
|
10
|
Huang W, Chao J, Yan Q, Xiao S. Binding His-tagged Proteins to NTA Stripes Assembled in 2D DNA Scaffold. CHINESE J CHEM 2010. [DOI: 10.1002/cjoc.201090301] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
|
11
|
Ustinov AV, Stepanova IA, Dubnyakova VV, Zatsepin TS, Nozhevnikova EV, Korshun VA. Modification of nucleic acids using [3 + 2]-dipolar cycloaddition of azides and alkynes. RUSSIAN JOURNAL OF BIOORGANIC CHEMISTRY 2010; 36:437-81. [DOI: 10.1134/s1068162010040011] [Citation(s) in RCA: 35] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
|
12
|
Lee JB, Campolongo MJ, Kahn JS, Roh YH, Hartman MR, Luo D. DNA-based nanostructures for molecular sensing. NANOSCALE 2010; 2:188-197. [PMID: 20644794 DOI: 10.1039/b9nr00142e] [Citation(s) in RCA: 40] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/29/2023]
Abstract
Nanotechnology has opened up new avenues towards ultra-sensitive, highly selective detection of biological molecules and toxic agents, as well as for therapeutic targeting and screening. Though the goals may seem singular, there is no universal method to identify or detect a molecular target. Each system is application-specific and must not only identify the target, but also transduce this interaction into a meaningful signal rapidly, reliably, and inexpensively. This review focuses on the current capabilities and future directions of DNA-based nanostructures in sensing and detection.
Collapse
Affiliation(s)
- Jong Bum Lee
- Department of Biological & Environmental Engineering, Cornell University, 226 Riley Robb, Ithaca, New York 14853, USA
| | | | | | | | | | | |
Collapse
|