51
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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]
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Abstract
The advent of click chemistry has led to an influx of new ideas in the nucleic acids field. The copper catalysed alkyne-azide cycloaddition (CuAAC) reaction is the method of choice for DNA click chemistry due to its remarkable efficiency. It has been used to label oligonucleotides with fluorescent dyes, sugars, peptides and other reporter groups, to cyclise DNA, to synthesise DNA catenanes, to join oligonucleotides to PNA, and to produce analogues of DNA with modified nucleobases and backbones. In this critical review we describe some of the pioneering work that has been carried out in this area (78 references).
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Affiliation(s)
- Afaf H El-Sagheer
- School of Chemistry, University of Southampton, Highfield, Southampton, UK SO17 1BJ
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53
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Kappe CO, Van der Eycken E. Click chemistry under non-classical reaction conditions. Chem Soc Rev 2010; 39:1280-90. [DOI: 10.1039/b901973c] [Citation(s) in RCA: 312] [Impact Index Per Article: 22.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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54
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Pourceau G, Meyer A, Vasseur JJ, Morvan F. Azide solid support for 3'-conjugation of oligonucleotides and their circularization by click chemistry. J Org Chem 2009; 74:6837-42. [PMID: 19663415 DOI: 10.1021/jo9014563] [Citation(s) in RCA: 66] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/03/2023]
Abstract
A solid support bearing an azido linker was used to synthesize a 3'-azido-alkyl-oligonucleotide by phosphoramidite chemistry. The resulting oligonucleotide was either conjugated by 1,3-dipolar cycloaddition on solid support or in solution with mannose-propargyl derivative and in solution with dansyl propargyl. Besides, after introduction of an alkyne function at the 5'-end, the resulting oligonucleotide bearing both 3'-azide and 5'-alkyne functions was circularized.
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Affiliation(s)
- Gwladys Pourceau
- Institut des Biomolécules Max Mousseron (IBMM), UMR 5247 CNRS, Université Montpellier 1, Université Montpellier 2, Place Eugène Bataillon, CC1704, 34095 Montpellier Cedex 5, France
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55
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Zhang J, Pourceau G, Meyer A, Vidal S, Praly JP, Souteyrand E, Vasseur JJ, Morvan F, Chevolot Y. Specific recognition of lectins by oligonucleotide glycoconjugates and sorting on a DNA microarray. Chem Commun (Camb) 2009:6795-7. [PMID: 19885482 DOI: 10.1039/b915132j] [Citation(s) in RCA: 26] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Abstract
Two glycoconjugates bearing different DNA tags are mixed in solution with lectins; both interact with their specific lectin and the resulting complexes are sorted, according to their DNA sequences, at the surface of micro-reactors bearing the immobilised complementary DNA sequences.
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Affiliation(s)
- Jing Zhang
- INL UMR5270 CNRS Ecole Centrale de Lyon, 36 avenue G. de Collongue, 69134 Ecully cedex, France
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56
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Moni L, Pourceau G, Zhang J, Meyer A, Vidal S, Souteyrand E, Dondoni A, Morvan F, Chevolot Y, Vasseur JJ, Marra A. Design of triazole-tethered glycoclusters exhibiting three different spatial arrangements and comparative study of their affinities towards PA-IL and RCA 120 by using a dna-based glycoarray. Chembiochem 2009; 10:1369-78. [PMID: 19405074 DOI: 10.1002/cbic.200900024] [Citation(s) in RCA: 61] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Abstract
Sugar-coated chips: Glycoside clusters are valuable tools for carbohydrate-lectin recognition studies. However, the spatial arrangement of the sugar residues is a key issue in the design of high-affinity glycoclusters. Here the affinities of linear and antenna- and calixarene-based galactoside clusters towards two lectins derived from Pseudomonas aeruginosa and Ricinus communis were compared by means of glycoarrays.Interactions between proteins and carbohydrates are involved in a large number of crucial biological events. Many efforts have been devoted to the design and synthesis of unnatural saccharides displaying high affinities towards targeted lectins. Among others, glycoside clusters have proven to be valuable tools for these recognition studies. However, the spatial arrangements of the sugar residues are a key issue in the design of high-affinity glycoclusters. Here, the affinities of linear and antenna- and calixarene-based galactoside clusters against two lectins, derived from Pseudomonas aeruginosa and Ricinus communis, have been compared by means of glycoarrays.
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Affiliation(s)
- Lisa Moni
- Dipartimento di Chimica, Laboratorio di Chimica Organica, Università di Ferrara, Via L. Borsari 46, 44100, Ferrara, Italy
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57
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Pourceau G, Meyer A, Vasseur JJ, Morvan F. Synthesis of mannose and galactose oligonucleotide conjugates by bi-click chemistry. J Org Chem 2009; 74:1218-22. [PMID: 19123843 DOI: 10.1021/jo802536q] [Citation(s) in RCA: 74] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/28/2023]
Abstract
Glyco oligonucleotide conjugates, each exhibiting two mannose and two galactose residues, were efficiently synthesized by two successive 1,3-dipolar cycloadditions (click chemistry). Two phosphoramidite derivatives were used: one bearing a bromoalkyl group as a precursor to azide functionalization and another bearing a propargyl group. After a first cycloaddition with a mannosyl-azide derivative, the bromine atoms were substituted with NaN(3) and a second click reaction was performed with a 1'-O-propargyl galactose, affording the heteroglyco oligonucleotide conjugate.
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Affiliation(s)
- Gwladys Pourceau
- Institut des Biomolecules Max Mousseron, UMR 5247 CNRS, Universite Montpellier 1, Place Eugene Bataillon, CC1704, 34095 Montpellier Cedex 5, France
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58
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Synthesis and base-pairing properties of C-nucleotides having 1-substituted 1H-1,2,3-triazoles. Bioorg Med Chem Lett 2009; 19:3316-9. [PMID: 19419865 DOI: 10.1016/j.bmcl.2009.04.063] [Citation(s) in RCA: 31] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/19/2009] [Revised: 04/14/2009] [Accepted: 04/16/2009] [Indexed: 11/21/2022]
Abstract
Oligonucleotides including C-nucleotides having 1-substitued 1H-1,2,3-triazoles as artificial nucleobases were conveniently synthesized by the post-elongation modification method using the copper(I)-catalyzed alkyne-azide 1,3-dipolar cycloaddition (CuAAC) reaction. The base-pairing properties of the triazole nucleobase analogs in forming duplexes with oligonucleotides were investigated by the T(m) experiments.
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59
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Sirivolu VR, Chittepu P, Seela F. DNA with branched internal side chains: synthesis of 5-tripropargylamine-dU and conjugation by an azide-alkyne double click reaction. Chembiochem 2009; 9:2305-16. [PMID: 18780386 DOI: 10.1002/cbic.200800313] [Citation(s) in RCA: 38] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Abstract
5-Tripropargylamine-2'-deoxyuridine (1 a) containing two terminal triple bonds was synthesized by a Pd-assisted Sonogashira cross-coupling reaction and was subsequently converted into the corresponding phosphoramidite building block (9) and employed in solid-phase oligonucleotide synthesis. T(m) experiments demonstrate that the presence of covalently attached branched tripropargylamine residues has a positive effect on the base pair stability. The two terminal C[triple chemical bond]C bonds of modified DNA were functionalized by means of Cu(I)-mediated 1,3-dipolar cycloaddition reactions (click chemistry) with azides such as 3-azido-7-hydroxycoumarin or 3'-azido-3'-deoxythymidine (AZT) both in solution and on solid support. In particular, with the nonfluorescent 3-azido-7-hydroxycoumarin a strongly fluorescent oligonucleotide bis-dye conjugate was generated. For comparison, the N(3)-propargylated 2'-deoxyuridine 2 was prepared from 2'-deoxyuridine and propargyl bromide and incorporated into DNA. The two terminal triple bonds of 1 a allow the simultaneous post-modification of DNA by two reporter molecules and can be applied to almost any azido derivatives (oligonucleotides, proteins, polysaccharides etc.) including those forming dendrimeric side chains.
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Affiliation(s)
- Venkata Ramana Sirivolu
- Laboratory for Bioorganic Chemistry and Chemical Biology, Center for Nanotechnology, Heisenbergstrasse 11, 48149 Münster, Germany
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60
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Gramlich P, Wirges C, Manetto A, Carell T. Postsynthetische DNA-Modifizierung mithilfe der kupferkatalysierten Azid-Alkin-Cycloaddition. Angew Chem Int Ed Engl 2008. [DOI: 10.1002/ange.200802077] [Citation(s) in RCA: 103] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
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61
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Gramlich P, Wirges C, Manetto A, Carell T. Postsynthetic DNA Modification through the Copper-Catalyzed Azide-Alkyne Cycloaddition Reaction. Angew Chem Int Ed Engl 2008; 47:8350-8. [DOI: 10.1002/anie.200802077] [Citation(s) in RCA: 363] [Impact Index Per Article: 22.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
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62
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Weisbrod SH, Marx A. Novel strategies for the site-specific covalent labelling of nucleic acids. Chem Commun (Camb) 2008:5675-85. [PMID: 19009049 DOI: 10.1039/b809528k] [Citation(s) in RCA: 181] [Impact Index Per Article: 11.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
To broaden the scope of applications in DNA nano- and biotechnology, material science, diagnostics and molecular recognition the functionalization of DNA is of utmost importance. In the last decade many new methods have been developed to achieve this goal. Apart from the direct chemical synthesis of modified DNA by automated phosphoramidite chemistry incorporation of labelled triphosphates and the post-synthetic labelling approach evolved as valuable methods. New bioorthogonal reactions as Diels-Alder, click and Staudinger ligations pushed forward the post-synthetic approach as new insights into DNA polymerase substrate specificity allowed generation and amplification of labelled DNA strands. These novel developments are summarized herein.
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Affiliation(s)
- Samuel H Weisbrod
- Department of Chemistry and Konstanz Research School Chemical Biology, University of Konstanz, 78457, Konstanz, Germany
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63
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64
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Godeau G, Staedel C, Barthélémy P. Lipid-conjugated oligonucleotides via "click chemistry" efficiently inhibit hepatitis C virus translation. J Med Chem 2008; 51:4374-6. [PMID: 18605715 DOI: 10.1021/jm800518u] [Citation(s) in RCA: 75] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Abstract
Conjugation of a lipid moiety via "click chemistry" potentiates the cellular uptake of oligonucleotides and allows their intracellular delivery. These nontoxic lipid conjugates efficiently inhibit hepatitis C virus internal ribosome entry site (IRES)-mediated translation in human hepatic Huh7 cells. The biological activity of the lipid-conjugated oligonucleotides is not affected by the presence of serum.
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65
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Pourceau G, Meyer A, Vasseur JJ, Morvan F. Combinatorial and Automated Synthesis of Phosphodiester Galactosyl Cluster on Solid Support by Click Chemistry Assisted by Microwaves. J Org Chem 2008; 73:6014-7. [DOI: 10.1021/jo8009837] [Citation(s) in RCA: 35] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Gwladys Pourceau
- Institut des Biomolécules Max Mousseron (IBMM), UMR 5247 CNRS - Université Montpellier 1 - Université Montpellier 2, Place Eugène Bataillon, CC1704, 34095 Montpellier Cedex 5, France
| | - Albert Meyer
- Institut des Biomolécules Max Mousseron (IBMM), UMR 5247 CNRS - Université Montpellier 1 - Université Montpellier 2, Place Eugène Bataillon, CC1704, 34095 Montpellier Cedex 5, France
| | - Jean-Jacques Vasseur
- Institut des Biomolécules Max Mousseron (IBMM), UMR 5247 CNRS - Université Montpellier 1 - Université Montpellier 2, Place Eugène Bataillon, CC1704, 34095 Montpellier Cedex 5, France
| | - François Morvan
- Institut des Biomolécules Max Mousseron (IBMM), UMR 5247 CNRS - Université Montpellier 1 - Université Montpellier 2, Place Eugène Bataillon, CC1704, 34095 Montpellier Cedex 5, France
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