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Dong Y, Yao C, Zhu Y, Yang L, Luo D, Yang D. DNA Functional Materials Assembled from Branched DNA: Design, Synthesis, and Applications. Chem Rev 2020; 120:9420-9481. [DOI: 10.1021/acs.chemrev.0c00294] [Citation(s) in RCA: 168] [Impact Index Per Article: 42.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
Affiliation(s)
- Yuhang Dong
- Frontiers Science Center for Synthetic Biology, Key Laboratory of Systems Bioengineering (MOE), School of Chemical Engineering and Technology, Tianjin University, Tianjin 300350, P. R. China
| | - Chi Yao
- Frontiers Science Center for Synthetic Biology, Key Laboratory of Systems Bioengineering (MOE), School of Chemical Engineering and Technology, Tianjin University, Tianjin 300350, P. R. China
| | - Yi Zhu
- Frontiers Science Center for Synthetic Biology, Key Laboratory of Systems Bioengineering (MOE), School of Chemical Engineering and Technology, Tianjin University, Tianjin 300350, P. R. China
| | - Lu Yang
- Frontiers Science Center for Synthetic Biology, Key Laboratory of Systems Bioengineering (MOE), School of Chemical Engineering and Technology, Tianjin University, Tianjin 300350, P. R. China
| | - Dan Luo
- Department of Biological & Environmental Engineering, Cornell University, Ithaca, New York 14853, United States
| | - Dayong Yang
- Frontiers Science Center for Synthetic Biology, Key Laboratory of Systems Bioengineering (MOE), School of Chemical Engineering and Technology, Tianjin University, Tianjin 300350, P. R. China
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Trinh T, Saliba D, Liao C, de Rochambeau D, Prinzen AL, Li J, Sleiman HF. “Printing” DNA Strand Patterns on Small Molecules with Control of Valency, Directionality, and Sequence. Angew Chem Int Ed Engl 2019; 58:3042-3047. [PMID: 30290048 DOI: 10.1002/anie.201809251] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/10/2018] [Indexed: 01/17/2023]
Affiliation(s)
- Tuan Trinh
- Department of ChemistryMcGill University 801 rue Sherbrooke West Montreal QC H3A 0B8 Canada
| | - Daniel Saliba
- Department of ChemistryMcGill University 801 rue Sherbrooke West Montreal QC H3A 0B8 Canada
| | - Chenyi Liao
- Deparment of ChemistryThe University of Vermont Burlington VT 05405 USA
| | - Donatien de Rochambeau
- Department of ChemistryMcGill University 801 rue Sherbrooke West Montreal QC H3A 0B8 Canada
| | - Alexander Lee Prinzen
- Department of ChemistryMcGill University 801 rue Sherbrooke West Montreal QC H3A 0B8 Canada
| | - Jianing Li
- Deparment of ChemistryThe University of Vermont Burlington VT 05405 USA
| | - Hanadi F. Sleiman
- Department of ChemistryMcGill University 801 rue Sherbrooke West Montreal QC H3A 0B8 Canada
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Trinh T, Saliba D, Liao C, de Rochambeau D, Prinzen AL, Li J, Sleiman HF. “Printing” DNA Strand Patterns on Small Molecules with Control of Valency, Directionality, and Sequence. Angew Chem Int Ed Engl 2018. [DOI: 10.1002/ange.201809251] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Affiliation(s)
- Tuan Trinh
- Department of ChemistryMcGill University 801 rue Sherbrooke West Montreal QC H3A 0B8 Canada
| | - Daniel Saliba
- Department of ChemistryMcGill University 801 rue Sherbrooke West Montreal QC H3A 0B8 Canada
| | - Chenyi Liao
- Deparment of ChemistryThe University of Vermont Burlington VT 05405 USA
| | - Donatien de Rochambeau
- Department of ChemistryMcGill University 801 rue Sherbrooke West Montreal QC H3A 0B8 Canada
| | - Alexander Lee Prinzen
- Department of ChemistryMcGill University 801 rue Sherbrooke West Montreal QC H3A 0B8 Canada
| | - Jianing Li
- Deparment of ChemistryThe University of Vermont Burlington VT 05405 USA
| | - Hanadi F. Sleiman
- Department of ChemistryMcGill University 801 rue Sherbrooke West Montreal QC H3A 0B8 Canada
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Schwenger A, Birchall N, Richert C. Solution-Phase Synthesis of Branched Oligonucleotides with up to 32 Nucleotides and the Reversible Formation of Materials. European J Org Chem 2017. [DOI: 10.1002/ejoc.201700686] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
Affiliation(s)
- Alexander Schwenger
- Institut für Organische Chemie; Universität Stuttgart; 70569 Stuttgart Germany
| | - Nicholas Birchall
- Institut für Organische Chemie; Universität Stuttgart; 70569 Stuttgart Germany
| | - Clemens Richert
- Institut für Organische Chemie; Universität Stuttgart; 70569 Stuttgart Germany
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Finke A, Bußkamp H, Manea M, Marx A. Durch Polymerase-Kettenreaktion erzeugte DNA-Peptid-Netzwerke als künstliche extrazelluläre Matrix. Angew Chem Int Ed Engl 2016. [DOI: 10.1002/ange.201604687] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Affiliation(s)
- Alexander Finke
- Fachbereich Chemie und Konstanz Research School, Chemical Biology; Universität Konstanz; Universitätsstraße 10 78457 Konstanz Deutschland
| | - Holger Bußkamp
- Fachbereich Chemie und Konstanz Research School, Chemical Biology; Universität Konstanz; Universitätsstraße 10 78457 Konstanz Deutschland
| | - Marilena Manea
- Fachbereich Chemie und Konstanz Research School, Chemical Biology; Universität Konstanz; Universitätsstraße 10 78457 Konstanz Deutschland
| | - Andreas Marx
- Fachbereich Chemie und Konstanz Research School, Chemical Biology; Universität Konstanz; Universitätsstraße 10 78457 Konstanz Deutschland
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Finke A, Bußkamp H, Manea M, Marx A. Designer Extracellular Matrix Based on DNA-Peptide Networks Generated by Polymerase Chain Reaction. Angew Chem Int Ed Engl 2016; 55:10136-40. [DOI: 10.1002/anie.201604687] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/13/2016] [Indexed: 11/06/2022]
Affiliation(s)
- Alexander Finke
- Department of Chemistry and Konstanz Research School Chemical Biology; University of Konstanz; Universitätsstrasse 10 78457 Konstanz Germany
| | - Holger Bußkamp
- Department of Chemistry and Konstanz Research School Chemical Biology; University of Konstanz; Universitätsstrasse 10 78457 Konstanz Germany
| | - Marilena Manea
- Department of Chemistry and Konstanz Research School Chemical Biology; University of Konstanz; Universitätsstrasse 10 78457 Konstanz Germany
| | - Andreas Marx
- Department of Chemistry and Konstanz Research School Chemical Biology; University of Konstanz; Universitätsstrasse 10 78457 Konstanz Germany
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Ponomarenko AI, Brylev VA, Sapozhnikova KA, Ustinov AV, Prokhorenko IA, Zatsepin TS, Korshun VA. Tetrahedral DNA conjugates from pentaerythritol-based polyazides. Tetrahedron 2016. [DOI: 10.1016/j.tet.2016.03.051] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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Kumari R, Singh S, Monisha M, Bhowmick S, Roy A, Das N, Das P. Hierarchical coassembly of DNA-triptycene hybrid molecular building blocks and zinc protoporphyrin IX. BEILSTEIN JOURNAL OF NANOTECHNOLOGY 2016; 7:697-707. [PMID: 27335759 PMCID: PMC4901925 DOI: 10.3762/bjnano.7.62] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/13/2016] [Accepted: 04/29/2016] [Indexed: 05/06/2023]
Abstract
Herein, we describe the successful construction of composite DNA nanostructures by the self-assembly of complementary symmetrical 2,6,14-triptycenetripropiolic acid (TPA)-DNA building blocks and zinc protoporphyrin IX (Zn PpIX). DNA-organic molecule scaffolds for the composite DNA nanostructure were constructed through covalent conjugation of TPA with 5'-C12-amine-terminated modified single strand DNA (ssDNA) and its complementary strand. The repeated covalent conjugation of TPA with DNA was confirmed by using denaturing polyacrylamide gel electrophoresis (PAGE), reverse-phase high-performance liquid chromatography (RP-HPLC) and matrix-assisted laser desorption/ionization time-of-flight (MALDI-TOF). The biologically relevant photosensitizer Zn PpIX was used to direct the hybridization-mediated self-assembly of DNA-TPA molecular building blocks as well as a model guest molecule within the DNA-TPA supramolecular self-assembly. The formation of fiber-like composite DNA nanostructures was observed. Native PAGE, circular dichroism (CD) and atomic force microscopy (AFM) have been utilized for analyzing the formation of DNA nanofibers after the coassembly. Computational methods were applied to discern the theoretical dimension of the DNA-TPA molecular building block of the nanofibers. A notable change in photocatalytic efficiency of Zn PpIX was observed when it was inside the TPA-DNA scaffold. The significant increase in ROS generation by Zn PpIX when trapped in this biocompatible DNA-TPA hybrid nanofiber may be an effective tool to explore photodynamic therapy (PDT) applications as well as photocatalytic reactions.
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Affiliation(s)
- Rina Kumari
- Department of Chemistry, IIT Patna, Bihata 801118, India
| | - Sumit Singh
- Department of Chemistry, IIT Patna, Bihata 801118, India
| | - Mohan Monisha
- Department of Biotechnology, IIT Hyderabad, Hyderabad, 502205, India
| | | | - Anindya Roy
- Department of Biotechnology, IIT Hyderabad, Hyderabad, 502205, India
| | - Neeladri Das
- Department of Chemistry, IIT Patna, Bihata 801118, India
| | - Prolay Das
- Department of Chemistry, IIT Patna, Bihata 801118, India
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Kumari R, Banerjee SS, Bhowmick AK, Das P. DNA-melamine hybrid molecules: from self-assembly to nanostructures. BEILSTEIN JOURNAL OF NANOTECHNOLOGY 2015. [PMID: 26199847 PMCID: PMC4505151 DOI: 10.3762/bjnano.6.148] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/03/2023]
Abstract
Single-stranded DNA-melamine hybrid molecular building blocks were synthesized using a phosphoramidation cross-coupling reaction with a zero linker approach. The self-assembly of the DNA-organic hybrid molecules was achieved by DNA hybridization. Following self-assembly, two distinct types of nanostructures in the form of linear chains and network arrays were observed. The morphology of the self-assembled nanostructures was found to depend on the number of DNA strands that were attached to a single melamine molecule.
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Affiliation(s)
- Rina Kumari
- Department of Chemistry, Indian Institute of Technology Patna, Patna 800013, India
| | - Shib Shankar Banerjee
- Department of Materials Science and Engineering, Indian Institute of Technology Patna, Patna 800013, India
| | - Anil K Bhowmick
- Rubber Technology Centre, Indian Institute of Technology Kharagpur, Kharagpur 721302, India
| | - Prolay Das
- Department of Chemistry, Indian Institute of Technology Patna, Patna 800013, India
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