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Thiede J, Rothenbühler S, Iacovache I, Langenegger SM, Zuber B, Häner R. Supramolecular assembly of pyrene-DNA conjugates: influence of pyrene substitution pattern and implications for artificial LHCs. Org Biomol Chem 2023; 21:7908-7912. [PMID: 37750811 PMCID: PMC10566252 DOI: 10.1039/d3ob01375h] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/28/2023] [Accepted: 09/20/2023] [Indexed: 09/27/2023]
Abstract
The supramolecular self-assembly of pyrene-DNA conjugates into nanostructures is presented. DNA functionalized with different types of pyrene isomers at the 3'-end self-assemble into nano-objects. The shape of the nanostructures is influenced by the type of pyrene isomer appended to the DNA. Multilamellar vesicles are observed with the 1,6- and 1,8-isomers, whereas conjugates of the 2,7-isomer exclusively assemble into spherical nanoparticles. Self-assembled nano-spheres obtained with the 2,7-dialkynyl pyrene isomer were used for the construction of an artificial light-harvesting complex (LHC) in combination with Cy3 as the energy acceptor.
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Affiliation(s)
- Jan Thiede
- Department of Chemistry, Biochemistry, and Pharmaceutical Sciences, University of Bern, Freiestrasse 3, CH-3012 Bern, Switzerland.
| | - Simon Rothenbühler
- Department of Chemistry, Biochemistry, and Pharmaceutical Sciences, University of Bern, Freiestrasse 3, CH-3012 Bern, Switzerland.
| | - Ioan Iacovache
- Institute of Anatomy, University of Bern, Baltzerstrasse 2, CH-3012 Bern, Switzerland
| | - Simon M Langenegger
- Department of Chemistry, Biochemistry, and Pharmaceutical Sciences, University of Bern, Freiestrasse 3, CH-3012 Bern, Switzerland.
| | - Benoît Zuber
- Institute of Anatomy, University of Bern, Baltzerstrasse 2, CH-3012 Bern, Switzerland
| | - Robert Häner
- Department of Chemistry, Biochemistry, and Pharmaceutical Sciences, University of Bern, Freiestrasse 3, CH-3012 Bern, Switzerland.
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2
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García Coll J, Ulrich S. Nucleic-Acid-Templated Synthesis of Smart Polymer Vectors for Gene Delivery. Chembiochem 2023; 24:e202300333. [PMID: 37401911 DOI: 10.1002/cbic.202300333] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/02/2023] [Revised: 06/12/2023] [Accepted: 07/04/2023] [Indexed: 07/05/2023]
Abstract
Nucleic acids are information-rich and readily available biomolecules, which can be used to template the polymerization of synthetic macromolecules. Here, we highlight the control over the size, composition, and sequence one can nowadays obtain by using this methodology. We also highlight how templated processes exploiting dynamic covalent polymerization can, in return, result in therapeutic nucleic acids fabricating their own dynamic delivery vector - a biomimicking concept that can provide original solutions for gene therapies.
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Affiliation(s)
- José García Coll
- IBMM, Institut des Biomolécules Max Mousseron, Université de Montpellier, CNRS, ENSCM, 34095, Montpellier, France
| | - Sébastien Ulrich
- IBMM, Institut des Biomolécules Max Mousseron, Université de Montpellier, CNRS, ENSCM, 34095, Montpellier, France
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3
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Gaur R. Combined experimental and theoretical studies of bis-chalcone: Estimation of non-covalent interactions. J Mol Struct 2023. [DOI: 10.1016/j.molstruc.2023.135189] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/21/2023]
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4
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Chakraborty J. An account of noncovalent interactions in homoleptic palladium(II) and platinum(II) complexes within the DFT framework: A correlation between geometries, energy components of symmetry-adapted perturbation theory and NCI descriptors. Heliyon 2022; 8:e11408. [DOI: 10.1016/j.heliyon.2022.e11408] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/28/2022] [Revised: 09/26/2022] [Accepted: 10/31/2022] [Indexed: 11/10/2022] Open
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5
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Ibrar A, Zaib S, Hökelek T, Simpson J, McAdam CJ, El Azab IH, Mersal GA, Ibrahim MM, Frontera A, Khan I. Investigation of solid state architectures in tetrazolyl tryptophol stabilized by crucial aromatic interactions and hydrogen bonding: Experimental and theoretical analysis. J Mol Struct 2022. [DOI: 10.1016/j.molstruc.2022.133079] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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6
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Bibi A, Khan I, Andleeb H, Simpson J, Tahir MN, Hameed S, Frontera A. Synthesis, X-ray characterization, Hirshfeld surface analysis and DFT calculations on tetrazolyl-phenol derivatives: H-bonds vs C–H…π/π…π interactions. J Mol Struct 2021. [DOI: 10.1016/j.molstruc.2020.129425] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
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7
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Coste M, Kotras C, Bessin Y, Gervais V, Dellemme D, Leclercq M, Fossépré M, Richeter S, Clément S, Surin M, Ulrich S. Synthesis, Self‐Assembly, and Nucleic Acid Recognition of an Acylhydrazone‐Conjugated Cationic Tetraphenylethene Ligand. European J Org Chem 2021. [DOI: 10.1002/ejoc.202001420] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Affiliation(s)
- Maëva Coste
- IBMM Université de Montpellier, CNRS, ENSCM Montpellier France
| | - Clément Kotras
- ICGM Institut Charles Gerhardt Montpellier UMR 5253 Université de Montpellier CNRS, ENSCM Montpellier France
- Laboratory for Chemistry of Novel Materials Center of Innovation and Research in Materials and Polymers (CIRMAP) University of Mons-UMONS 7000 Mons Belgium
| | - Yannick Bessin
- IBMM Université de Montpellier, CNRS, ENSCM Montpellier France
| | - Virginie Gervais
- CNRS Institut de Pharmacologie et de Biologie Structurale (IPBS) Université de Toulouse, UPS 205 route de Narbonne 31077 Toulouse France
| | - David Dellemme
- Laboratory for Chemistry of Novel Materials Center of Innovation and Research in Materials and Polymers (CIRMAP) University of Mons-UMONS 7000 Mons Belgium
| | - Maxime Leclercq
- Laboratory for Chemistry of Novel Materials Center of Innovation and Research in Materials and Polymers (CIRMAP) University of Mons-UMONS 7000 Mons Belgium
| | - Mathieu Fossépré
- Laboratory for Chemistry of Novel Materials Center of Innovation and Research in Materials and Polymers (CIRMAP) University of Mons-UMONS 7000 Mons Belgium
| | - Sébastien Richeter
- ICGM Institut Charles Gerhardt Montpellier UMR 5253 Université de Montpellier CNRS, ENSCM Montpellier France
| | - Sébastien Clément
- ICGM Institut Charles Gerhardt Montpellier UMR 5253 Université de Montpellier CNRS, ENSCM Montpellier France
| | - Mathieu Surin
- Laboratory for Chemistry of Novel Materials Center of Innovation and Research in Materials and Polymers (CIRMAP) University of Mons-UMONS 7000 Mons Belgium
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8
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Kowalik M, Brzeski J, Gawrońska M, Kazimierczuk K, Makowski M. Experimental and theoretical investigation of conformational states and noncovalent interactions in crystalline sulfonamides with a methoxyphenyl moiety. CrystEngComm 2021. [DOI: 10.1039/d1ce00869b] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
Abstract
The conformational and noncovalent interaction properties of sulfonamides with a methoxyphenyl moiety were examined by both experimental and theoretical methods.
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Affiliation(s)
- Mateusz Kowalik
- Faculty of Chemistry, University of Gdańsk, Wita Stwosza 63, 80-308 Gdańsk, Poland
| | - Jakub Brzeski
- Faculty of Chemistry, University of Gdańsk, Wita Stwosza 63, 80-308 Gdańsk, Poland
| | - Małgorzata Gawrońska
- Faculty of Chemistry, University of Gdańsk, Wita Stwosza 63, 80-308 Gdańsk, Poland
| | - Katarzyna Kazimierczuk
- Faculty of Chemistry, Gdańsk University of Technology, Gabriela Narutowicza 11/12, 80-233 Gdańsk, Poland
| | - Mariusz Makowski
- Faculty of Chemistry, University of Gdańsk, Wita Stwosza 63, 80-308 Gdańsk, Poland
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9
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Surin M, Ulrich S. From Interaction to Function in DNA-Templated Supramolecular Self-Assemblies. ChemistryOpen 2020; 9:480-498. [PMID: 32328404 PMCID: PMC7175023 DOI: 10.1002/open.202000013] [Citation(s) in RCA: 16] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/15/2020] [Revised: 03/24/2020] [Indexed: 12/13/2022] Open
Abstract
DNA-templated self-assembly represents a rich and growing subset of supramolecular chemistry where functional self-assemblies are programmed in a versatile manner using nucleic acids as readily-available and readily-tunable templates. In this review, we summarize the different DNA recognition modes and the basic supramolecular interactions at play in this context. We discuss the recent results that report the DNA-templated self-assembly of small molecules into complex yet precise nanoarrays, going from 1D to 3D architectures. Finally, we show their emerging functions as photonic/electronic nanowires, sensors, gene delivery vectors, and supramolecular catalysts, and their growing applications in a wide range of area from materials to biological sciences.
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Affiliation(s)
- Mathieu Surin
- Laboratory for Chemistry of Novel MaterialsCenter of Innovation and Research in Materials and Polymers (CIRMAP)University of Mons-UMONS7000MonsBelgium
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10
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Ghosh D, Datta LP, Govindaraju T. Molecular architectonics of DNA for functional nanoarchitectures. BEILSTEIN JOURNAL OF NANOTECHNOLOGY 2020; 11:124-140. [PMID: 31976202 PMCID: PMC6964666 DOI: 10.3762/bjnano.11.11] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/03/2019] [Accepted: 12/09/2019] [Indexed: 05/08/2023]
Abstract
DNA is the key biomolecule central to almost all processes in living organisms. The eccentric idea of utilizing DNA as a material building block in molecular and structural engineering led to the creation of numerous molecular-assembly systems and materials at the nanoscale. The molecular structure of DNA is believed to have evolved over billions of years, with structure and stability optimizations that allow life forms to sustain through the storage and transmission of genetic information with fidelity. The nanoscale structural characteristics of DNA (2 nm thickness and ca. 40-50 nm persistence length) have inspired the creation of numerous functional patterns and architectures through noncovalent conventional and unconventional base pairings as well as through mutual templating-interactions with small organic molecules and metal ions. The recent advancements in structural DNA nanotechnology allowed researchers to design new DNA-based functional materials with chemical and biological properties distinct from their parent components. The modulation of structural and functional properties of hybrid DNA ensembles of small functional molecules (SFMs) and short oligonucleotides by adapting the principles of molecular architectonics enabled the creation of novel DNA nanoarchitectures with potential applications, which has been termed as templated DNA nanotechnology or functional DNA nanoarchitectonics. This review highlights the molecular architectonics-guided design principles and applications of the derived DNA nanoarchitectures. The advantages and ability of functional DNA nanoarchitectonics to overcome the trivial drawbacks of classical DNA nanotechnology to fulfill realistic and practical applications are highlighted, and an outlook on future developments is presented.
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Affiliation(s)
- Debasis Ghosh
- Bioorganic Chemistry Laboratory, New Chemistry Unit and The School of Advanced Materials (SAMat), Jawaharlal Nehru Centre for Advanced Scientific Research, Jakkur P. O., Bengaluru 560064, Karnataka, India
| | - Lakshmi P Datta
- Bioorganic Chemistry Laboratory, New Chemistry Unit and The School of Advanced Materials (SAMat), Jawaharlal Nehru Centre for Advanced Scientific Research, Jakkur P. O., Bengaluru 560064, Karnataka, India
| | - Thimmaiah Govindaraju
- Bioorganic Chemistry Laboratory, New Chemistry Unit and The School of Advanced Materials (SAMat), Jawaharlal Nehru Centre for Advanced Scientific Research, Jakkur P. O., Bengaluru 560064, Karnataka, India
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11
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Mirdya S, Banerjee S, Chattopadhyay S. An insight into the non-covalent Pb⋯S and S⋯S interactions in the solid-state structure of a hemidirected lead(ii) complex. CrystEngComm 2020. [DOI: 10.1039/c9ce01548e] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
Abstract
A hemi-directed copper(ii)/lead(ii) complex has been synthesized and characterized. The energy of chalcogen–chalcogen and tetrel bonding interactions in this complex was analyzed by DFT calculations.
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Affiliation(s)
- Saikat Mirdya
- Department of Chemistry
- Inorganic Section
- Jadavpur University
- Kolkata-700032
- India
| | - Snehasis Banerjee
- Govt. College of Engineering and Leather Technology
- Kolkata-700106
- India
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12
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Đud M, Glasovac Z, Margetić D, Piantanida I. Guanidino-aryl derivatives: protonation and structure tuning for spectrophotometric recognition of ds-DNA and ds-RNA. NEW J CHEM 2020. [DOI: 10.1039/d0nj01879a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Fine interplay between protonation of guanidine and size of Aryl controls DNA/RNA recognition and fluorimetric or CD response.
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Affiliation(s)
- Mateja Đud
- Laboratory for Physical Organic Chemistry
- Division of Organic Chemistry & Biochemistry
- Ruđer Bošković Institute
- HR 10002 Zagreb
- Croatia
| | - Zoran Glasovac
- Laboratory for Physical Organic Chemistry
- Division of Organic Chemistry & Biochemistry
- Ruđer Bošković Institute
- HR 10002 Zagreb
- Croatia
| | - Davor Margetić
- Laboratory for Physical Organic Chemistry
- Division of Organic Chemistry & Biochemistry
- Ruđer Bošković Institute
- HR 10002 Zagreb
- Croatia
| | - Ivo Piantanida
- Laboratory for Biomolecular Interactions and Spectroscopy
- Division of Organic Chemistry & Biochemistry, Ruđer Bošković Institute
- HR 10002 Zagreb
- Croatia
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13
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Laroui N, Coste M, Lichon L, Bessin Y, Gary-Bobo M, Pratviel G, Bonduelle C, Bettache N, Ulrich S. Combination of photodynamic therapy and gene silencing achieved through the hierarchical self-assembly of porphyrin-siRNA complexes. Int J Pharm 2019; 569:118585. [DOI: 10.1016/j.ijpharm.2019.118585] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/29/2019] [Revised: 07/29/2019] [Accepted: 07/30/2019] [Indexed: 12/15/2022]
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14
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Hofsäβ R, Ensslen P, Wagenknecht HA. Control of helical chirality in supramolecular chromophore-DNA architectures. Chem Commun (Camb) 2019; 55:1330-1333. [PMID: 30638231 DOI: 10.1039/c8cc08887j] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
Four different d- and l-configured chromophore-2'-deoxyuridine conjugates were applied to elucidate the helical chirality of their non-covalent assemblies along the d- and l-configured DNA templates by optical spectroscopy. There is no configuration-selective recognition between these nucleosides and the DNA templates. The helicity of the DNA assemblies is either controlled by the configuration of the DNA template or by the nucleoside configuration.
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Affiliation(s)
- Robert Hofsäβ
- Institute of Organic Chemistry, Karlsruhe Institute of Technology (KIT), Fritz-Haber-Weg 6, 76131 Karlsruhe, Germany.
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15
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Mirdya S, Frontera A, Chattopadhyay S. Formation of a tetranuclear supramolecule via non-covalent Pb⋯Cl tetrel bonding interaction in a hemidirected lead(ii) complex with a nickel(ii) containing metaloligand. CrystEngComm 2019. [DOI: 10.1039/c9ce01283d] [Citation(s) in RCA: 21] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
Abstract
A hetero-nuclear nickel(ii)/lead(ii) complex has been synthesized and characterized. The tetrel bonding interactions established between the σ-hole at the hemi-coordinated lead(ii) and the electron rich chlorido ligand has been analyzed by DFT study.
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Affiliation(s)
- Saikat Mirdya
- Department of Chemistry
- Inorganic Section
- Jadavpur University
- Kolkata-700032
- India
| | - Antonio Frontera
- Departament de Química
- Universitat de les Illes Balears
- 07122 Palma de Mallorca
- Spain
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16
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Synthesis and characterization of three hetero-dinuclear complexes with CuO 2 M cores (M = Na, Hg): Exploration of their phenoxazinone synthase mimicking activity. Polyhedron 2018. [DOI: 10.1016/j.poly.2018.04.018] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023]
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17
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Krishnan SB, Krishnan R, Gopidas KR. Effect ofN-Alkyl Substituents on the Hierarchical Self-Assembly of β-Cyclodextrin-Linked Pyrene-Pyromellitic Diimide Charge-Transfer Complexes. Chemistry 2018; 24:11451-11460. [DOI: 10.1002/chem.201802090] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/26/2018] [Indexed: 01/15/2023]
Affiliation(s)
- Sumesh Babu Krishnan
- Photosciences and Photonics Section; Chemical Sciences and Technology Division; CSIR-National Institute for Interdisciplinary Science and Technology; Trivandrum 695 019 India
- Academy of Scientific and Innovative Research (AcSIR); New Delhi 110001 India
| | - Retheesh Krishnan
- Photosciences and Photonics Section; Chemical Sciences and Technology Division; CSIR-National Institute for Interdisciplinary Science and Technology; Trivandrum 695 019 India
- Present address: Department of Chemistry; Government College for Women; Trivandrum 695014 India
| | - Karical Raman Gopidas
- Photosciences and Photonics Section; Chemical Sciences and Technology Division; CSIR-National Institute for Interdisciplinary Science and Technology; Trivandrum 695 019 India
- Academy of Scientific and Innovative Research (AcSIR); New Delhi 110001 India
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18
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Zhang Y, Petit E, Barboiu M. Multivalent Dendrimers and their Differential Recognition of Short Single-Stranded DNAs of Various Length and Sequence. Chempluschem 2018; 83:354-360. [PMID: 31957369 DOI: 10.1002/cplu.201800081] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/12/2018] [Revised: 03/22/2018] [Indexed: 12/18/2022]
Abstract
Polycationic dendrimers were generated through simple and versatile reversible amine/aldehyde-imine chemistry. The inherent CD spectroscopic signal arising from the helical structures of single-stranded DNA (ssDNA) undergoes a dramatic amplification in the presence of the synthesised polycationic dendrimers. Compared to the first-generation core molecule, the second-generation dendrimer shows high spectroscopic responses upon chiral recognition of short ssDNA, owing to the combination of self-assembly and multivalency effects. The maximum signal variation is reached at the molar ratio at which the ratio between the negative charges in ssDNA balance the positive charges of the dendrimers, thus the approach enables differential recognition of ssDNAs of different lengths. Altogether, these results accelerate the simple and systematic discovery of efficient adaptive molecules for biomimetic recognition of ssDNA with high accuracy.
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Affiliation(s)
- Yan Zhang
- Institut Européen des Membranes, Adaptive Supramolecular Nanosystems Group, University of Montpellier, ENSCM, CNRS, Place Eugène Bataillon, CC 047, 34095, Montpellier, France.,School of Pharmaceutical Sciences, Jiangnan University, Lihu Road 1800, 214122, Wuxi, P. R. China
| | - Eddy Petit
- Institut Européen des Membranes, Adaptive Supramolecular Nanosystems Group, University of Montpellier, ENSCM, CNRS, Place Eugène Bataillon, CC 047, 34095, Montpellier, France
| | - Mihail Barboiu
- Institut Européen des Membranes, Adaptive Supramolecular Nanosystems Group, University of Montpellier, ENSCM, CNRS, Place Eugène Bataillon, CC 047, 34095, Montpellier, France
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Trévisan M, Fossépré M, Paolantoni D, Rubio-Magnieto J, Dumy P, Ulrich S, Surin M. Self-assembly and chiroptical properties in supramolecular complexes of adenosine phosphates and guanidinium-bispyrene. Chirality 2018; 30:719-729. [PMID: 29578614 DOI: 10.1002/chir.22852] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/22/2017] [Revised: 02/14/2018] [Accepted: 02/16/2018] [Indexed: 11/10/2022]
Abstract
Supramolecular systems that respond to the hydrolysis of adenosine phosphates (APs) are attractive for biosensing and to fabricate bioinspired self-assembled materials. Here, we report on the formation of supramolecular complexes between an achiral guanidinium derivative bearing two pyrene moieties, with each of the three adenosine phosphates: AMP, ADP, and ATP. By combining results from circular dichroism spectroscopy and molecular modeling simulations, we explore the induced chirality, the dynamics of the complexes, and the interactions at play, which altogether provide insights into the supramolecular self-assembly between APs and the guanidinium-bispyrene. Finally, we identify the chiroptical signals of interest in mixtures of the guanidinium derivative with the three APs in different proportions. This study constitutes a basis to evolve toward a chiroptical detection of the hydrolysis of APs based on organic supramolecular probes.
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Affiliation(s)
- Marie Trévisan
- Laboratory for Chemistry of Novel Materials, Center of Innovation and Research in Materials and Polymers, University of Mons-UMONS, Mons, Belgium
| | - Mathieu Fossépré
- Laboratory for Chemistry of Novel Materials, Center of Innovation and Research in Materials and Polymers, University of Mons-UMONS, Mons, Belgium
| | - Delphine Paolantoni
- Institut des Biomolécules Max Mousseron (IBMM, UMR 5247), Université de Montpellier, CNRS, ENSCM, Montpellier, France
| | - Jenifer Rubio-Magnieto
- Laboratory for Chemistry of Novel Materials, Center of Innovation and Research in Materials and Polymers, University of Mons-UMONS, Mons, Belgium
| | - Pascal Dumy
- Institut des Biomolécules Max Mousseron (IBMM, UMR 5247), Université de Montpellier, CNRS, ENSCM, Montpellier, France
| | - Sébastien Ulrich
- Institut des Biomolécules Max Mousseron (IBMM, UMR 5247), Université de Montpellier, CNRS, ENSCM, Montpellier, France
| | - Mathieu Surin
- Laboratory for Chemistry of Novel Materials, Center of Innovation and Research in Materials and Polymers, University of Mons-UMONS, Mons, Belgium
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20
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Roy S, Bhattacharyya A, Purkait S, Bauzá A, Frontera A, Chattopadhyay S. A combined experimental and computational study on supramolecular assemblies in hetero-tetranuclear nickel(ii)-cadmium(ii) complexes with N 2O 4-donor compartmental Schiff bases. Dalton Trans 2018; 45:15048-15059. [PMID: 27722334 DOI: 10.1039/c6dt02587k] [Citation(s) in RCA: 38] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Abstract
Two new hetero-tetranuclear nickel(ii)/cadmium(ii) complexes, a cubane [(CH3CO2)2Ni2(L1)2Cd2(NCS)2] (1) and a linear tetramer [(DMSO)2NiL2Cd(NCS)(μ1,3-SCN)Ni(DMSO)L2Cd(NCS)2] (2) {where H2L1 = N,N'-bis(3-methoxysalicylidene)propane-1,3-diamine and H2L2 = N,N'-bis(3-ethoxysalicylidene)propane-1,3-diamine are potential octadentate compartmental Schiff bases}, were synthesized and characterized. The structures of both complexes were confirmed by single crystal X-ray diffraction studies. Complex 1 contained a Ni2Cd2O4 cubane core, whereas complex 2 featured an end-to-end thiocyanate-bridged tetranuclear moiety. Furthermore, complex 1 showed C-HH-C interactions, whereas a unique Sπ interaction was observed in complex 2. Theoretical studies were performed using several computational tools such as NBO and AIM analyses. Both complexes showed photoluminescence in DMSO medium at room temperature upon irradiation with ultraviolet light. The lifetimes of the excited states were ∼27 ns.
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Affiliation(s)
- Sourav Roy
- Department of Chemistry, Inorganic Section, Jadavpur University, Kolkata - 700032, India.
| | - Anik Bhattacharyya
- Department of Chemistry, Inorganic Section, Jadavpur University, Kolkata - 700032, India.
| | - Sourav Purkait
- Department of Chemistry, Inorganic Section, Jadavpur University, Kolkata - 700032, India.
| | - Antonio Bauzá
- Departamento de Química, Universitat de les Illes Balears, Crta. deValldemossa km 7.5, 07122 Palma, Baleares, Spain.
| | - Antonio Frontera
- Departamento de Química, Universitat de les Illes Balears, Crta. deValldemossa km 7.5, 07122 Palma, Baleares, Spain.
| | - Shouvik Chattopadhyay
- Department of Chemistry, Inorganic Section, Jadavpur University, Kolkata - 700032, India.
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21
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Amirbekyan K, Mansot J, Ohara K, Markarian SA, Vasseur JJ, Smietana M. Template-directed excimer formation via specific non-covalent interactions between pyrene guanidinium derivatives and nucleic acids. Tetrahedron Lett 2018. [DOI: 10.1016/j.tetlet.2017.12.046] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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22
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Photomodulation of DNA-Templated Supramolecular Assemblies. Chemistry 2017; 24:706-714. [DOI: 10.1002/chem.201704538] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/25/2017] [Indexed: 12/22/2022]
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23
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Chiral multichromophoric supramolecular nanostructures assembled by single stranded DNA and RNA templates. Coord Chem Rev 2017. [DOI: 10.1016/j.ccr.2017.08.018] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
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24
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Usman M, Arjmand F, Ahmad M, Khan MS, Ahmad I, Tabassum S. A comparative analyses of bioactive Cu(II) complexes using Hirshfeld surface and density functional theory (DFT) methods: DNA binding studies, cleavage and antibiofilm activities. Inorganica Chim Acta 2016. [DOI: 10.1016/j.ica.2016.08.011] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
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25
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Nakano SI, Oka H, Fujii M, Sugimoto N. Use of a Ureido-Substituted Deoxycytidine Module for DNA Assemblies. NUCLEOSIDES NUCLEOTIDES & NUCLEIC ACIDS 2016; 35:370-8. [PMID: 27152551 DOI: 10.1080/15257770.2016.1174262] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Key Words] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
Abstract
Ureido-substituted cytosine derivatives are promising for constructing self-assembly structures that can be applied to nanotechnology research. However, conventional cytosine modules achieve assembly in organic solvents. In this study, an N-phenylcarbamoyl deoxycytidine nucleoside was incorporated into a C-rich oligonucleotide to achieve self-assembly in aqueous solution. The results show that the capability of the module to form DNA assemblies varied depending on the number of modules incorporated. The deoxycytidine derivative has a potential application in the development of smart materials based on DNA assembly.
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Affiliation(s)
- Shu-Ichi Nakano
- a Department of Nanobiochemistry , Faculty of Frontiers of Innovative Research in Science and Technology (FIRST), Konan University , Kobe , Japan
| | - Hirohito Oka
- b Department of Chemistry , Faculty of Science and Engineering, Konan University , Kobe , Japan
| | - Masayuki Fujii
- c Molecular Engineering Institute (MEI), Kinki University , Fukuoka , Japan.,d Department of Environmental and Biological Chemistry , Kinki University , Fukuoka , Japan
| | - Naoki Sugimoto
- a Department of Nanobiochemistry , Faculty of Frontiers of Innovative Research in Science and Technology (FIRST), Konan University , Kobe , Japan.,e Frontier Institute for Biomolecular Engineering Research (FIBER), Konan University , Kobe , Japan
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26
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Kang M, Zhang P, Cui H, Loverde SM. π- π Stacking Mediated Chirality in Functional Supramolecular Filaments. Macromolecules 2016; 49:994-1001. [PMID: 30792552 DOI: 10.1021/acs.macromol.5b02148] [Citation(s) in RCA: 37] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/27/2023]
Abstract
While a great diversity of peptide-based supra-molecular filaments have been reported, the impact of an auxiliary segment on the chiral assembly of peptides remains poorly understood. Herein we report on the formation of chiral filaments by the self-assembly of a peptide-drug conjugate containing an aromatic drug camptothecin (CPT) in a computational study. We find that the chirality of the filament is mediated by the π‒π stacking between CPTs, not only by the well-expected intermolecular hydrogen bonding between peptide segments. Our simulations show that π‒π stacking of CPTs governs the early stages of the self-assembly process, while a hydrogen bonding network starts at a relatively later stage to contribute to the eventual morphology of the filament. Our results also show the possible presence of water within the core of the CPT filament. These results provide very useful guiding principles for the rational design of supramolecular assemblies of peptide conjugates with aromatic segments.
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Affiliation(s)
- Myungshim Kang
- Department of Chemistry, College of Staten Island, The City University of New York, 2800 Victory Boulevard, Staten Island, New York 10314, United States
| | - Pengcheng Zhang
- Department of Chemical and Biomolecular Engineering and Institute for NanoBioTechnology, The Johns Hopkins University, 3400 North Charles Street, Baltimore, Maryland 21218, United States
| | - Honggang Cui
- Department of Oncology and Sidney Kimmel Comprehensive Cancer Center, Johns Hopkins University School of Medicine, Baltimore, Maryland 21205, United States.,Department of Chemical and Biomolecular Engineering and Institute for NanoBioTechnology, The Johns Hopkins University, 3400 North Charles Street, Baltimore, Maryland 21218, United States
| | - Sharon M Loverde
- Department of Chemistry, College of Staten Island, The City University of New York, 2800 Victory Boulevard, Staten Island, New York 10314, United States.,Ph.D. Program in Chemistry, Biochemistry, and Physics, The Graduate Center of the City University of New York, New York, New York 10016, United States
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27
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Surin M. From nucleobase to DNA templates for precision supramolecular assemblies and synthetic polymers. Polym Chem 2016. [DOI: 10.1039/c6py00480f] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Abstract
In this minireview, we report on the recent advances of utilization of nucleobases and DNA as templates to achieve well-defined supramolecular polymers, synthetic polymers, and sequence-controlled polymers.
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Affiliation(s)
- Mathieu Surin
- Laboratory for Chemistry of Novel Materials
- Center for Innovation and Research in Materials and Polymers
- University of Mons – UMONS
- B-7000 Mons
- Belgium
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28
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Rubio-Magnieto J, Kumar M, Brocorens P, Idé J, George SJ, Lazzaroni R, Surin M. Chiral supramolecular organization and cooperativity in DNA-templated assemblies of ZnII–chromophore complexes. Chem Commun (Camb) 2016; 52:13873-13876. [DOI: 10.1039/c6cc07414f] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Abstract
Templated cooperative binding induced assembly of chromophores is achieved via interactions between Zn-complexes and the DNA phosphodiester backbone.
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Affiliation(s)
- Jenifer Rubio-Magnieto
- Laboratory for Chemistry of Novel Materials
- Center for Innovation in Materials and Polymers
- University of Mons – UMONS
- B-7000 Mons
- Belgium
| | - Mohit Kumar
- Supramolecular Chemistry Laboratory
- New Chemistry Unit
- Jawaharlal Nehru Centre for Advanced Scientific Research (JNCASR)
- Bangalore
- India
| | - Patrick Brocorens
- Laboratory for Chemistry of Novel Materials
- Center for Innovation in Materials and Polymers
- University of Mons – UMONS
- B-7000 Mons
- Belgium
| | - Julien Idé
- Laboratory for Chemistry of Novel Materials
- Center for Innovation in Materials and Polymers
- University of Mons – UMONS
- B-7000 Mons
- Belgium
| | - Subi J. George
- Supramolecular Chemistry Laboratory
- New Chemistry Unit
- Jawaharlal Nehru Centre for Advanced Scientific Research (JNCASR)
- Bangalore
- India
| | - Roberto Lazzaroni
- Laboratory for Chemistry of Novel Materials
- Center for Innovation in Materials and Polymers
- University of Mons – UMONS
- B-7000 Mons
- Belgium
| | - Mathieu Surin
- Laboratory for Chemistry of Novel Materials
- Center for Innovation in Materials and Polymers
- University of Mons – UMONS
- B-7000 Mons
- Belgium
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29
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Nakamura M, Tsuto K, Jomura A, Takada T, Yamana K. Donor-Acceptor Heterojunction Configurations Based on DNA-Multichromophore Arrays. Chemistry 2015; 21:11788-92. [DOI: 10.1002/chem.201501955] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/18/2015] [Indexed: 12/22/2022]
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30
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Wang W, Gu J, Zou X, Tong W, Gong H. Solid state studies of the assembly of diionic guanidinium/carboxylate compounds. Tetrahedron Lett 2015. [DOI: 10.1016/j.tetlet.2015.03.123] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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31
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Paolantoni D, Cantel S, Dumy P, Ulrich S. A dynamic combinatorial approach for identifying side groups that stabilize DNA-templated supramolecular self-assemblies. Int J Mol Sci 2015; 16:3609-25. [PMID: 25667976 PMCID: PMC4346916 DOI: 10.3390/ijms16023609] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/05/2015] [Revised: 01/16/2015] [Accepted: 01/23/2015] [Indexed: 12/16/2022] Open
Abstract
DNA-templated self-assembly is an emerging strategy for generating functional supramolecular systems, which requires the identification of potent multi-point binding ligands. In this line, we recently showed that bis-functionalized guanidinium compounds can interact with ssDNA and generate a supramolecular complex through the recognition of the phosphodiester backbone of DNA. In order to probe the importance of secondary interactions and to identify side groups that stabilize these DNA-templated self-assemblies, we report herein the implementation of a dynamic combinatorial approach. We used an in situ fragment assembly process based on reductive amination and tested various side groups, including amino acids. The results reveal that aromatic and cationic side groups participate in secondary supramolecular interactions that stabilize the complexes formed with ssDNA.
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Affiliation(s)
- Delphine Paolantoni
- Institut des Biomolécules Max Mousseron (IBMM), UMR 5247 CNRS-Université de Montpellier, ENSCM, Ecole Nationale Supérieure de Chimie de Montpellier, 8 Rue de l'Ecole Normale, Montpellier Cedex 5 34296, France.
| | - Sonia Cantel
- Institut des Biomolécules Max Mousseron (IBMM), UMR 5247 CNRS-Université de Montpellier, ENSCM, Ecole Nationale Supérieure de Chimie de Montpellier, 8 Rue de l'Ecole Normale, Montpellier Cedex 5 34296, France.
| | - Pascal Dumy
- Institut des Biomolécules Max Mousseron (IBMM), UMR 5247 CNRS-Université de Montpellier, ENSCM, Ecole Nationale Supérieure de Chimie de Montpellier, 8 Rue de l'Ecole Normale, Montpellier Cedex 5 34296, France.
| | - Sébastien Ulrich
- Institut des Biomolécules Max Mousseron (IBMM), UMR 5247 CNRS-Université de Montpellier, ENSCM, Ecole Nationale Supérieure de Chimie de Montpellier, 8 Rue de l'Ecole Normale, Montpellier Cedex 5 34296, France.
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32
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Bhaumik PK, Bauzá A, Drew MGB, Frontera A, Chattopadhyay S. Syntheses, crystal structures and density functional theory investigations of copper(ii) complexes bearing tridentate Schiff base ligands derived from 8-aminoquinoline. CrystEngComm 2015. [DOI: 10.1039/c5ce00809c] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/14/2023]
Abstract
Three copper(ii) Schiff base complexes have been synthesized and characterized. Supramolecular assemblies in the solid state are analyzed by DFT calculations.
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Affiliation(s)
| | - Antonio Bauzá
- Departamento de Química
- Universitat de les Illes Balears
- 07122 Palma, Spain
| | | | - Antonio Frontera
- Departamento de Química
- Universitat de les Illes Balears
- 07122 Palma, Spain
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