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Gioftsidou DK, Kallitsakis MG, Kavaratzi K, Hatzidimitriou AG, Terzidis MA, Lykakis IN, Angaridis PA. Synergy of redox-activity and hemilability in thioamidato cobalt(III) complexes for the chemoselective reduction of nitroarenes to anilines: catalytic and mechanistic investigation. Dalton Trans 2024; 53:1469-1481. [PMID: 38126463 DOI: 10.1039/d3dt02923a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2023]
Abstract
Reduction of nitro-compounds to amines is one of the most often employed and challenging catalytic processes in the fine and bulk chemical industry. Herein, we present two series of mononuclear homoleptic and heteroleptic Co(III) complexes, i.e., [Co(LNS)3] and [Co(LNS)2L1L2]x+, respectively (x = 0 or 1, LNS = pyrimidine- or pyridine-thioamidato, L1/L2 = thioamidato, phosphine or pyridine), which successfully catalyze the transformation of nitroarenes to anilines by methylhydrazine. The catalytic reaction can be accomplished for a range of electronically and sterically diverse nitroarenes, using mild experimental conditions and low catalyst loadings, resulting in the corresponding anilines in high yields, with high chemoselectivity, and no side-products. Electronic and steric properties of the ligands play pivotal role in the catalytic efficacy of the respective complexes. In particular, complexes bearing ligands of high hemilability/lability and being capable of stabilizing lower metal oxidation-states exhibit the highest catalytic activity. Mechanistic investigations suggest the participation of the Co(III) complexes in two parallel reaction pathways: (a) coordination-induced activation of methylhydrazine and (b) reduction of nitroarenes to anilines by methylhydrazine, through the formation of Co(I) and Co-hydride intermediates.
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Affiliation(s)
- Dimitra K Gioftsidou
- Laboratory of Inorganic Chemistry, Department of Chemistry, Aristotle University of Thessaloniki, 54124 Thessaloniki, Greece.
| | - Michael G Kallitsakis
- Laboratory of Organic Chemistry, Department of Chemistry, Aristotle University of Thessaloniki, 54124 Thessaloniki, Greece.
| | - Konstantina Kavaratzi
- Laboratory of Inorganic Chemistry, Department of Chemistry, Aristotle University of Thessaloniki, 54124 Thessaloniki, Greece.
| | - Antonios G Hatzidimitriou
- Laboratory of Inorganic Chemistry, Department of Chemistry, Aristotle University of Thessaloniki, 54124 Thessaloniki, Greece.
| | - Michael A Terzidis
- Laboratory of Chemical Biology, Department of Nutritional Sciences and Dietetics, International Hellenic University, Sindos, 57400 Thessaloniki, Greece
| | - Ioannis N Lykakis
- Laboratory of Organic Chemistry, Department of Chemistry, Aristotle University of Thessaloniki, 54124 Thessaloniki, Greece.
| | - Panagiotis A Angaridis
- Laboratory of Inorganic Chemistry, Department of Chemistry, Aristotle University of Thessaloniki, 54124 Thessaloniki, Greece.
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2
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Moccia M, Pascucci B, Saviano M, Cerasa MT, Terzidis MA, Chatgilialoglu C, Masi A. Advances in Nucleic Acid Research: Exploring the Potential of Oligonucleotides for Therapeutic Applications and Biological Studies. Int J Mol Sci 2023; 25:146. [PMID: 38203317 PMCID: PMC10778772 DOI: 10.3390/ijms25010146] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/07/2023] [Revised: 12/13/2023] [Accepted: 12/19/2023] [Indexed: 01/12/2024] Open
Abstract
In recent years, nucleic acids have emerged as powerful biomaterials, revolutionizing the field of biomedicine. This review explores the multifaceted applications of nucleic acids, focusing on their pivotal role in various biomedical applications. Nucleic acids, including deoxyribonucleic acid (DNA) and ribonucleic acid (RNA), possess unique properties such as molecular recognition ability, programmability, and ease of synthesis, making them versatile tools in biosensing and for gene regulation, drug delivery, and targeted therapy. Their compatibility with chemical modifications enhances their binding affinity and resistance to degradation, elevating their effectiveness in targeted applications. Additionally, nucleic acids have found utility as self-assembling building blocks, leading to the creation of nanostructures whose high order underpins their enhanced biological stability and affects the cellular uptake efficiency. Furthermore, this review delves into the significant role of oligonucleotides (ODNs) as indispensable tools for biological studies and biomarker discovery. ODNs, short sequences of nucleic acids, have been instrumental in unraveling complex biological mechanisms. They serve as probes for studying gene expression, protein interactions, and cellular pathways, providing invaluable insights into fundamental biological processes. By examining the synergistic interplay between nucleic acids as powerful biomaterials and ODNs as indispensable tools for biological studies and biomarkers, this review highlights the transformative impact of these molecules on biomedical research. Their versatile applications not only deepen our understanding of biological systems but also are the driving force for innovation in diagnostics and therapeutics, ultimately advancing the field of biomedicine.
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Affiliation(s)
- Maria Moccia
- Istituto di Cristallografia, Consiglio Nazionale delle Ricerche, Strada Provinciale 35d, n. 9, 00010 Montelibretti, Italy; (M.M.); (B.P.)
| | - Barbara Pascucci
- Istituto di Cristallografia, Consiglio Nazionale delle Ricerche, Strada Provinciale 35d, n. 9, 00010 Montelibretti, Italy; (M.M.); (B.P.)
| | - Michele Saviano
- Istituto di Cristallografia, Consiglio Nazionale delle Ricerche, URT Caserta, Via Vivaldi 43, 81100 Caserta, Italy;
| | - Maria Teresa Cerasa
- Istituto di Cristallografia, Consiglio Nazionale delle Ricerche, Via Giovanni Amendola 122/O, 70126 Bari, Italy;
| | - Michael A. Terzidis
- Laboratory of Chemical Biology, Department of Nutritional Sciences and Dietetics, Sindos Campus, International Hellenic University, 57400 Thessaloniki, Greece;
| | - Chryssostomos Chatgilialoglu
- Istituto per la Sintesi Organica e la Fotoreattività, Consiglio Nazionale delle Ricerche, 40129 Bologna, Italy;
- Center of Advanced Technologies, Adam Mickiewicz University, 61-712 Poznań, Poland
| | - Annalisa Masi
- Istituto di Cristallografia, Consiglio Nazionale delle Ricerche, Strada Provinciale 35d, n. 9, 00010 Montelibretti, Italy; (M.M.); (B.P.)
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3
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Masi A, Leonelli F, Scognamiglio V, Gasperuzzo G, Antonacci A, Terzidis MA. Chlamydomonas reinhardtii: A Factory of Nutraceutical and Food Supplements for Human Health. Molecules 2023; 28:molecules28031185. [PMID: 36770853 PMCID: PMC9921279 DOI: 10.3390/molecules28031185] [Citation(s) in RCA: 8] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/29/2022] [Revised: 01/17/2023] [Accepted: 01/20/2023] [Indexed: 01/27/2023] Open
Abstract
Chlamydomonas reinhardtii (C. reinhardtii) is one of the most well-studied microalgae organisms that revealed important information for the photosynthetic and metabolic processes of plants and eukaryotes. Numerous extensive studies have also underpinned its great potential as a biochemical factory, capable of producing various highly desired molecules with a direct impact on human health and longevity. Polysaccharides, lipids, functional proteins, pigments, hormones, vaccines, and antibodies are among the valuable biomolecules that are produced spontaneously or under well-defined conditions by C. reinhardtii and can be directly linked to human nutrition and diet. The aim of this review is to highlight the recent advances in the field focusing on the most relevant applications related to the production of important biomolecules for human health that are also linked with human nutrition and diet. The limitations and challenges are critically discussed along with the potential future applications of C. reinhardtii biomass and processed products in the field of nutraceuticals and food supplements. The increasing need for high-value and low-cost biomolecules produced in an environmentally and economy sustainable manner also underline the important role of C. reinhardtii.
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Affiliation(s)
- Annalisa Masi
- Institute of Crystallography, National Research Council, 00010 Montelibretti, Italy
| | - Francesca Leonelli
- Department of Chemistry, University of Rome “Sapienza”, 00185 Rome, Italy
| | - Viviana Scognamiglio
- Institute of Crystallography, National Research Council, 00010 Montelibretti, Italy
| | - Giulia Gasperuzzo
- Institute of Crystallography, National Research Council, 00010 Montelibretti, Italy
| | - Amina Antonacci
- Institute of Crystallography, National Research Council, 00010 Montelibretti, Italy
- Correspondence: (A.A.); (M.A.T.); Tel.: +39-0690675597 (A.A.); +30-2310013224 (M.A.T.)
| | - Michael A. Terzidis
- Department of Nutritional Sciences and Dietetics, International Hellenic University, Sindos Campus, 57400 Thessaloniki, Greece
- Correspondence: (A.A.); (M.A.T.); Tel.: +39-0690675597 (A.A.); +30-2310013224 (M.A.T.)
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4
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Iordanidou D, Kallitsakis MG, Tzani MA, Ioannou DI, Zarganes-Tzitzikas T, Neochoritis CG, Dömling A, Terzidis MA, Lykakis IN. Supported Gold Nanoparticle-Catalyzed Selective Reduction of Multifunctional, Aromatic Nitro Precursors into Amines and Synthesis of 3,4-Dihydroquinoxalin-2-Ones. Molecules 2022; 27:molecules27144395. [PMID: 35889270 PMCID: PMC9323044 DOI: 10.3390/molecules27144395] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/09/2022] [Revised: 07/05/2022] [Accepted: 07/06/2022] [Indexed: 11/16/2022]
Abstract
The synthesis of 3,4-dihydroquinoxalin-2-ones via the selective reduction of aromatic, multifunctional nitro precursors catalyzed by supported gold nanoparticles is reported. The reaction proceeds through the in situ formation of the corresponding amines under heterogeneous transfer hydrogenation of the initial nitro compounds catalyzed by the commercially available Au/TiO2-Et3SiH catalytic system, followed by an intramolecular C-N transamidation upon treatment with silica acting as a mild acid. Under the present conditions, the Au/TiO2-TMDS system was also found to catalyze efficiently the present selective reduction process. Both transfer hydrogenation processes showed very good functional-group tolerance and were successfully applied to access more structurally demanding products bearing other reducible moieties such as chloro, aldehyde or methyl ketone. An easily scalable (up to 1 mmol), low catalyst loading (0.6 mol%) synthetic protocol was realized, providing access to this important scaffold. Under these mild catalytic conditions, the desired products were isolated in good to high yields and with a TON of 130. A library analysis was also performed to demonstrate the usefulness of our synthetic strategy and the physicochemical profile of the derivatives.
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Affiliation(s)
- Domna Iordanidou
- Department of Chemistry, Aristotle University of Thessaloniki, University Campus, 54124 Thessaloniki, Greece; (D.I.); (M.G.K.); (M.A.T.); (D.I.I.)
- Department of Nutritional Sciences and Dietetics, International Hellenic University, Sindos Campus, 57400 Thessaloniki, Greece
| | - Michael G. Kallitsakis
- Department of Chemistry, Aristotle University of Thessaloniki, University Campus, 54124 Thessaloniki, Greece; (D.I.); (M.G.K.); (M.A.T.); (D.I.I.)
| | - Marina A. Tzani
- Department of Chemistry, Aristotle University of Thessaloniki, University Campus, 54124 Thessaloniki, Greece; (D.I.); (M.G.K.); (M.A.T.); (D.I.I.)
| | - Dimitris I. Ioannou
- Department of Chemistry, Aristotle University of Thessaloniki, University Campus, 54124 Thessaloniki, Greece; (D.I.); (M.G.K.); (M.A.T.); (D.I.I.)
| | | | | | - Alexander Dömling
- Department of Pharmacy, University of Groningen, A. Deusinglaan 1, 9700 AV Groningen, The Netherlands;
| | - Michael A. Terzidis
- Department of Nutritional Sciences and Dietetics, International Hellenic University, Sindos Campus, 57400 Thessaloniki, Greece
- Correspondence: (M.A.T.); (I.N.L.)
| | - Ioannis N. Lykakis
- Department of Chemistry, Aristotle University of Thessaloniki, University Campus, 54124 Thessaloniki, Greece; (D.I.); (M.G.K.); (M.A.T.); (D.I.I.)
- Correspondence: (M.A.T.); (I.N.L.)
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5
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Tzani MA, Gioftsidou DK, Kallitsakis MG, Pliatsios NV, Kalogiouri NP, Angaridis PA, Lykakis IN, Terzidis MA. Direct and Indirect Chemiluminescence: Reactions, Mechanisms and Challenges. Molecules 2021; 26:7664. [PMID: 34946744 PMCID: PMC8705051 DOI: 10.3390/molecules26247664] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/24/2021] [Revised: 12/12/2021] [Accepted: 12/14/2021] [Indexed: 11/29/2022] Open
Abstract
Emission of light by matter can occur through a variety of mechanisms. When it results from an electronically excited state of a species produced by a chemical reaction, it is called chemiluminescence (CL). The phenomenon can take place both in natural and artificial chemical systems and it has been utilized in a variety of applications. In this review, we aim to revisit some of the latest CL applications based on direct and indirect production modes. The characteristics of the chemical reactions and the underpinning CL mechanisms are thoroughly discussed in view of studies from the very recent bibliography. Different methodologies aiming at higher CL efficiencies are summarized and presented in detail, including CL type and scaffolds used in each study. The CL role in the development of efficient therapeutic platforms is also discussed in relation to the Reactive Oxygen Species (ROS) and singlet oxygen (1O2) produced, as final products. Moreover, recent research results from our team are included regarding the behavior of commonly used photosensitizers upon chemical activation under CL conditions. The CL prospects in imaging, biomimetic organic and radical chemistry, and therapeutics are critically presented in respect to the persisting challenges and limitations of the existing strategies to date.
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Affiliation(s)
- Marina A. Tzani
- Department of Chemistry, Aristotle University of Thessaloniki, University Campus, 54124 Thessaloniki, Greece; (M.A.Tz.); (D.K.G.); (M.G.K.); (N.V.P.); (N.P.K.); (P.A.A.)
| | - Dimitra K. Gioftsidou
- Department of Chemistry, Aristotle University of Thessaloniki, University Campus, 54124 Thessaloniki, Greece; (M.A.Tz.); (D.K.G.); (M.G.K.); (N.V.P.); (N.P.K.); (P.A.A.)
| | - Michael G. Kallitsakis
- Department of Chemistry, Aristotle University of Thessaloniki, University Campus, 54124 Thessaloniki, Greece; (M.A.Tz.); (D.K.G.); (M.G.K.); (N.V.P.); (N.P.K.); (P.A.A.)
| | - Nikolaos V. Pliatsios
- Department of Chemistry, Aristotle University of Thessaloniki, University Campus, 54124 Thessaloniki, Greece; (M.A.Tz.); (D.K.G.); (M.G.K.); (N.V.P.); (N.P.K.); (P.A.A.)
| | - Natasa P. Kalogiouri
- Department of Chemistry, Aristotle University of Thessaloniki, University Campus, 54124 Thessaloniki, Greece; (M.A.Tz.); (D.K.G.); (M.G.K.); (N.V.P.); (N.P.K.); (P.A.A.)
| | - Panagiotis A. Angaridis
- Department of Chemistry, Aristotle University of Thessaloniki, University Campus, 54124 Thessaloniki, Greece; (M.A.Tz.); (D.K.G.); (M.G.K.); (N.V.P.); (N.P.K.); (P.A.A.)
| | - Ioannis N. Lykakis
- Department of Chemistry, Aristotle University of Thessaloniki, University Campus, 54124 Thessaloniki, Greece; (M.A.Tz.); (D.K.G.); (M.G.K.); (N.V.P.); (N.P.K.); (P.A.A.)
| | - Michael A. Terzidis
- Department of Nutritional Sciences and Dietetics, International Hellenic University, Sindos Campus, 57400 Thessaloniki, Greece
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6
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Kallitsakis MG, Gioftsidou DK, Tzani MA, Angaridis PA, Terzidis MA, Lykakis IN. Selective C-H Allylic Oxygenation of Cycloalkenes and Terpenoids Photosensitized by [Cu(Xantphos)(neoc)]BF 4. J Org Chem 2021; 86:13503-13513. [PMID: 34435497 DOI: 10.1021/acs.joc.1c01591] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
We present herein for the first time the use of the [Cu(Xantphos)(neoc)]BF4 as a photocatalyst for the selective C-H allylic oxygenation of cycloalkenes into the corresponding allylic hydroperoxides or alcohols in the presence of molecular oxygen. The proposed methodology affords the products at good yields and has also been applied successfully to several bioactive terpenoids, such as geraniol, linalool, β-citronellol, and phytol. A mechanistic study involving also kinetic isotope effects (KIEs) supports the proposed singlet oxygen-mediated reaction. On the basis of the high chemoselectivity and yields and the fast and clean reaction processes observed, the present catalytic system, [Cu(Xantphos)(neoc)]BF4, has also been applied to the synthesis, at a laboratory scale, of the cis-Rose oxide, a well-known perfumery ingredient used in rose and geranium perfumes.
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Affiliation(s)
- Michael G Kallitsakis
- Department of Chemistry, Aristotle University of Thessaloniki, University Campus, 54124 Thessaloniki, Greece
| | - Dimitra K Gioftsidou
- Department of Chemistry, Aristotle University of Thessaloniki, University Campus, 54124 Thessaloniki, Greece
| | - Marina A Tzani
- Department of Chemistry, Aristotle University of Thessaloniki, University Campus, 54124 Thessaloniki, Greece
| | - Panagiotis A Angaridis
- Department of Chemistry, Aristotle University of Thessaloniki, University Campus, 54124 Thessaloniki, Greece
| | - Michael A Terzidis
- Department of Nutritional Sciences and Dietetics, International Hellenic University, Sindos, 57400 Thessaloniki, Greece
| | - Ioannis N Lykakis
- Department of Chemistry, Aristotle University of Thessaloniki, University Campus, 54124 Thessaloniki, Greece
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7
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Andreou D, Essien NB, Pubill-Ulldemolins C, Terzidis MA, Papadopoulos AN, Kostakis GE, Lykakis IN. Skeletally Tunable Seven-Membered-Ring Fused Pyrroles. Org Lett 2021; 23:6685-6690. [PMID: 34424721 DOI: 10.1021/acs.orglett.1c02251] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
Abstract
We describe a copper-mediated method that enables the synthesis of seven-membered-ring fused pyrroles (7-mrFPs). The protocol proceeds via an in situ spiro-intermediate ring expansion and tolerates a library of 7-mrFP derivatives with a broad range of functional groups in a simple step with tangible parameters and substrate adaptations. These rare 7-mrFPs are now accessible on a millimolar scale, and selected examples exhibit high antioxidant activity.
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Affiliation(s)
- Dimitrios Andreou
- Department of Chemistry, Aristotle University of Thessaloniki, University Campus, 54124 Thessaloniki, Greece
| | - Nsikak B Essien
- Department of Chemistry, School of Life Sciences, University of Sussex, Brighton BN19QJ, United Kingdom
| | | | - Michael A Terzidis
- Department of Nutritional Sciences & Dietetics, International Hellenic University, 57400 Thessaloniki, Greece
| | - Athanasios N Papadopoulos
- Department of Nutritional Sciences & Dietetics, International Hellenic University, 57400 Thessaloniki, Greece
| | - George E Kostakis
- Department of Chemistry, School of Life Sciences, University of Sussex, Brighton BN19QJ, United Kingdom
| | - Ioannis N Lykakis
- Department of Chemistry, Aristotle University of Thessaloniki, University Campus, 54124 Thessaloniki, Greece
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8
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Ioannou DI, Gioftsidou DK, Tsina VE, Kallitsakis MG, Hatzidimitriou AG, Terzidis MA, Angaridis PA, Lykakis IN. Selective Reduction of Nitroarenes to Arylamines by the Cooperative Action of Methylhydrazine and a Tris( N-heterocyclic thioamidate) Cobalt(III) Complex. J Org Chem 2021; 86:2895-2906. [PMID: 33497222 DOI: 10.1021/acs.joc.0c02814] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
We report an efficient catalytic protocol that chemoselectively reduces nitroarenes to arylamines, by using methylhydrazine as a reducing agent in combination with the easily synthesized and robust catalyst tris(N-heterocyclic thioamidate) Co(III) complex [Co(κS,N-tfmp2S)3], tfmp2S = 4-(trifluoromethyl)-pyrimidine-2-thiolate. A series of arylamines and heterocyclic amines were formed in excellent yields and chemoselectivity. High conversion yields of nitroarenes into the corresponding amines were observed by using polar protic solvents, such as MeOH and iPrOH. Among several hydrogen donors that were examined, methylhydrazine demonstrated the best performance. Preliminary mechanistic investigations, supported by UV-vis and NMR spectroscopy, cyclic voltammetry, and high-resolution mass spectrometry, suggest a cooperative action of methylhydrazine and [Co(κS,N-tfmp2S)3] via a coordination activation pathway that leads to the formation of a reduced cobalt species, responsible for the catalytic transformation. In general, the corresponding N-arylhydroxylamines were identified as the sole intermediates. Nevertheless, the corresponding nitrosoarenes can also be formed as intermediates, which, however, are rapidly transformed into the desired arylamines in the presence of methylhydrazine through a noncatalytic path. On the basis of the observed high chemoselectivity and yields, and the fast and clean reaction processes, the present catalytic system [Co(κS,N-tfmp2S)3]/MeNHNH2 shows promise for the efficient synthesis of aromatic amines that could find various industrial applications.
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Affiliation(s)
- Dimitris I Ioannou
- Department of Chemistry, Aristotle University of Thessaloniki, University Campus, Thessaloniki 54124, Greece
| | - Dimitra K Gioftsidou
- Department of Chemistry, Aristotle University of Thessaloniki, University Campus, Thessaloniki 54124, Greece
| | - Vasiliki E Tsina
- Department of Chemistry, Aristotle University of Thessaloniki, University Campus, Thessaloniki 54124, Greece
| | - Michael G Kallitsakis
- Department of Chemistry, Aristotle University of Thessaloniki, University Campus, Thessaloniki 54124, Greece
| | - Antonios G Hatzidimitriou
- Department of Chemistry, Aristotle University of Thessaloniki, University Campus, Thessaloniki 54124, Greece
| | - Michael A Terzidis
- Department of Nutritional Sciences and Dietetics, International Hellenic University, Sindos, Thessaloniki 57400, Greece
| | - Panagiotis A Angaridis
- Department of Chemistry, Aristotle University of Thessaloniki, University Campus, Thessaloniki 54124, Greece
| | - Ioannis N Lykakis
- Department of Chemistry, Aristotle University of Thessaloniki, University Campus, Thessaloniki 54124, Greece
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9
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Abstract
Hydroxyl radical (HO•) is the most reactive toward DNA among the reactive oxygen species (ROS) generated in aerobic organisms by cellular metabolisms. HO• is generated also by exogenous sources such as ionizing radiations. In this review we focus on the purine DNA damage by HO• radicals. In particular, emphasis is given on mechanistic aspects for the various lesion formation and their interconnections. Although the majority of the purine DNA lesions like 8-oxo-purine (8-oxo-Pu) are generated by various ROS (including HO•), the formation of 5',8-cyclopurine (cPu) lesions in vitro and in vivo relies exclusively on the HO• attack. Methodologies generally utilized for the purine lesions quantification in biological samples are reported and critically discussed. Recent results on cPu and 8-oxo-Pu lesions quantification in various types of biological specimens associated with the cellular repair efficiency as well as with distinct pathologies are presented, providing some insights on their biological significance.
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Affiliation(s)
- Chryssostomos Chatgilialoglu
- ISOF, Consiglio Nazionale delle Ricerche, Bologna, Italy.,Center for Advanced Technologies, Adam Mickiewicz University, Poznan, Poland
| | - Carla Ferreri
- ISOF, Consiglio Nazionale delle Ricerche, Bologna, Italy
| | - Marios G Krokidis
- Institute of Nanoscience and Nanotechnology, NCSR "Demokritos", Athens, Greece
| | - Annalisa Masi
- ISOF, Consiglio Nazionale delle Ricerche, Bologna, Italy.,Istituto di Cristallografia, Consiglio Nazionale delle Ricerche, Monterotondo, Italy
| | - Michael A Terzidis
- Department of Nutritional Sciences and Dietetics, International Hellenic University, Thessaloniki, Greece
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10
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Abstract
We report the selective photoinduced reduction of nitroarenes to N-arylhydroxylamines. The present methodology facilitates this transformation in the absence of catalyst or additives and uses only light and methylhydrazine. This noncatalytic photoinduced transformation proceeds with a broad scope, excellent functional-group tolerance, and high yields. The potential of this protocol reflects on the selective and straightforward conversion of two general antibiotics, azomycin and chloramphenicol, to the bioactive hydroxylamine species.
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Affiliation(s)
- Michael G Kallitsakis
- Department of Chemistry, Aristotle University of Thessaloniki, University Campus, Thessaloniki 54124, Greece
| | - Dimitris I Ioannou
- Department of Chemistry, Aristotle University of Thessaloniki, University Campus, Thessaloniki 54124, Greece
| | - Michael A Terzidis
- Department of Nutritional Sciences & Dietetics, International Hellenic University, P.O. 141 Sindos, 57400 Thessaloniki, Greece
| | - George E Kostakis
- Department of Chemistry, School of Life Sciences, University of Sussex, Brighton BN1 9QJ, U.K
| | - Ioannis N Lykakis
- Department of Chemistry, Aristotle University of Thessaloniki, University Campus, Thessaloniki 54124, Greece
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11
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Chatgilialoglu C, Krokidis MG, Masi A, Barata-Vallejo S, Ferreri C, Terzidis MA, Szreder T, Bobrowski K. New Insights into the Reaction Paths of Hydroxyl Radicals with Purine Moieties in DNA and Double-Stranded Oligodeoxynucleotides. Molecules 2019; 24:molecules24213860. [PMID: 31717733 PMCID: PMC6865195 DOI: 10.3390/molecules24213860] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/24/2019] [Revised: 10/22/2019] [Accepted: 10/23/2019] [Indexed: 11/21/2022] Open
Abstract
The reaction of hydroxyl radical (HO•) with DNA produces many primary reactive species and many lesions as final products. In this study, we have examined the optical spectra of intermediate species derived from the reaction of HO• with a variety of single- and double-stranded oligodeoxynucleotides and ct-DNA in the range of 1 μs to 1 ms by pulse radiolysis using an Intensified Charged Coupled Device (ICCD) camera. Moreover, we applied our published analytical protocol based on an LC-MS/MS system with isotopomeric internal standards to enable accurate and precise measurements of purine lesion formation. In particular, the simultaneous measurement of the four purine 5′,8-cyclo-2′-deoxynucleosides (cPu) and two 8-oxo-7,8-dihydro-2′-deoxypurine (8-oxo-Pu) was obtained upon reaction of genetic material with HO• radicals generated either by γ-radiolysis or Fenton-type reactions. Our results contributed to the debate in the literature regarding absolute level of lesions, method of HO• radical generation, 5′R/5′S diastereomeric ratio in cPu, and relative abundance between cPu and 8-oxo-Pu.
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Affiliation(s)
- Chryssostomos Chatgilialoglu
- Istituto per la Sintesi Organica e la Fotoreattività, Consiglio Nazionale delle Ricerche, 40129 Bologna, Italy; (M.G.K.); (A.M.); (C.F.); (M.A.T.)
- Center for Advanced Technologies, Adam Mickiewicz University, 61-614 Poznań, Poland
- Correspondence: (C.C.); (K.B.); Tel.: +39-051-6398309 (C.C.)
| | - Marios G. Krokidis
- Istituto per la Sintesi Organica e la Fotoreattività, Consiglio Nazionale delle Ricerche, 40129 Bologna, Italy; (M.G.K.); (A.M.); (C.F.); (M.A.T.)
- Institute of Nanoscience and Nanotechnology, N.C.S.R. “Demokritos”, 15310 Agia Paraskevi Attikis, Greece
| | - Annalisa Masi
- Istituto per la Sintesi Organica e la Fotoreattività, Consiglio Nazionale delle Ricerche, 40129 Bologna, Italy; (M.G.K.); (A.M.); (C.F.); (M.A.T.)
| | - Sebastian Barata-Vallejo
- Istituto per la Sintesi Organica e la Fotoreattività, Consiglio Nazionale delle Ricerche, 40129 Bologna, Italy; (M.G.K.); (A.M.); (C.F.); (M.A.T.)
- Departamento de Quimíca Organíca, Facultad de Farmacia y Bioquimíca, Universidad de Buenos Aires, Junin 954, Buenos Aires CP 1113, Argentina
| | - Carla Ferreri
- Istituto per la Sintesi Organica e la Fotoreattività, Consiglio Nazionale delle Ricerche, 40129 Bologna, Italy; (M.G.K.); (A.M.); (C.F.); (M.A.T.)
| | - Michael A. Terzidis
- Istituto per la Sintesi Organica e la Fotoreattività, Consiglio Nazionale delle Ricerche, 40129 Bologna, Italy; (M.G.K.); (A.M.); (C.F.); (M.A.T.)
- Centre of Radiation Research and Technology, Institute of Nuclear Chemistry and Technology, Dorodna 16, 03-195 Warsaw, Poland;
| | - Tomasz Szreder
- Centre of Radiation Research and Technology, Institute of Nuclear Chemistry and Technology, Dorodna 16, 03-195 Warsaw, Poland;
| | - Krzysztof Bobrowski
- Centre of Radiation Research and Technology, Institute of Nuclear Chemistry and Technology, Dorodna 16, 03-195 Warsaw, Poland;
- Correspondence: (C.C.); (K.B.); Tel.: +39-051-6398309 (C.C.)
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Shafirovich V, Kolbanovskiy M, Kropachev K, Liu Z, Cai Y, Terzidis MA, Masi A, Chatgilialoglu C, Amin S, Dadali A, Broyde S, Geacintov NE. Nucleotide Excision Repair and Impact of Site-Specific 5',8-Cyclopurine and Bulky DNA Lesions on the Physical Properties of Nucleosomes. Biochemistry 2019; 58:561-574. [PMID: 30570250 DOI: 10.1021/acs.biochem.8b01066] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
Abstract
The nonbulky 5',8-cyclopurine DNA lesions (cP) and the bulky, benzo[ a]pyrene diol epoxide-derived stereoisomeric cis- and trans- N2-guanine adducts (BPDE-dG) are good substrates of the human nucleotide excision repair (NER) mechanism. These DNA lesions were embedded at the In or Out rotational settings near the dyad axis in nucleosome core particles reconstituted either with native histones extracted from HeLa cells (HeLa-NCP) or with recombinant histones (Rec-NCP). The cP lesions are completely resistant to NER in human HeLa cell extracts. The BPDE-dG adducts are also NER-resistant in Rec-NCPs but are good substrates of NER in HeLa-NCPs. The four BPDE-dG adduct samples are excised with different efficiencies in free DNA, but in HeLa-NCPs, the efficiencies are reduced by a common factor of 2.2 ± 0.2 relative to the NER efficiencies in free DNA. The NER response of the BPDE-dG adducts in HeLa-NCPs is not directly correlated with the observed differences in the thermodynamic destabilization of HeLa-NCPs, the Förster resonance energy transfer values, or hydroxyl radical footprint patterns and is weakly dependent on the rotational settings. These and other observations suggest that NER is initiated by the binding of the DNA damage-sensing NER factor XPC-RAD23B to a transiently opened BPDE-modified DNA sequence that corresponds to the known footprint of XPC-DNA-RAD23B complexes (≥30 bp). These observations are consistent with the hypothesis that post-translational modifications and the dimensions and properties of the DNA lesions are the major factors that have an impact on the dynamics and initiation of NER in nucleosomes.
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Affiliation(s)
- Vladimir Shafirovich
- Department of Chemistry , New York University , 31 Washington Place , New York , New York 10003-5180 , United States
| | - Marina Kolbanovskiy
- Department of Chemistry , New York University , 31 Washington Place , New York , New York 10003-5180 , United States
| | - Konstantin Kropachev
- Department of Chemistry , New York University , 31 Washington Place , New York , New York 10003-5180 , United States
| | - Zhi Liu
- Department of Chemistry , New York University , 31 Washington Place , New York , New York 10003-5180 , United States
| | - Yuquin Cai
- Department of Biology , New York University , 31 Washington Place , New York , New York 10003-5180 , United States
| | - Michael A Terzidis
- Istituto per la Sintesi Organica e la Fotoreattività , Consiglio Nazionale delle Ricerche , Via P. Gobetti 101 , 40129 Bologna , Italy
| | - Annalisa Masi
- Istituto per la Sintesi Organica e la Fotoreattività , Consiglio Nazionale delle Ricerche , Via P. Gobetti 101 , 40129 Bologna , Italy
| | - Chryssostomos Chatgilialoglu
- Istituto per la Sintesi Organica e la Fotoreattività , Consiglio Nazionale delle Ricerche , Via P. Gobetti 101 , 40129 Bologna , Italy
| | - Shantu Amin
- Department of Pharmacology, Milton S. Hershey Medical Center , Pennsylvania State University College of Medicine , Hershey , Pennsylvania 17033 , United States
| | - Alexander Dadali
- Bronx College of the City University of New York , Bronx , New York 10453 , United States
| | - Suse Broyde
- Department of Biology , New York University , 31 Washington Place , New York , New York 10003-5180 , United States
| | - Nicholas E Geacintov
- Department of Chemistry , New York University , 31 Washington Place , New York , New York 10003-5180 , United States
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Krokidis MG, Terzidis MA, Efthimiadou E, Zervou SK, Kordas G, Papadopoulos K, Hiskia A, Kletsas D, Chatgilialoglu C. Purine 5′,8-cyclo-2′-deoxynucleoside lesions: formation by radical stress and repair in human breast epithelial cancer cells. Free Radic Res 2017; 51:470-482. [DOI: 10.1080/10715762.2017.1325485] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
Affiliation(s)
- Marios G. Krokidis
- Institute of Nanoscience and Nanotechnology, NSCR “Demokritos”, Athens, Greece
| | | | - Eleni Efthimiadou
- Institute of Nanoscience and Nanotechnology, NSCR “Demokritos”, Athens, Greece
| | | | - George Kordas
- Institute of Nanoscience and Nanotechnology, NSCR “Demokritos”, Athens, Greece
| | | | - Anastasia Hiskia
- Institute of Nanoscience and Nanotechnology, NSCR “Demokritos”, Athens, Greece
| | - Dimitris Kletsas
- Institute of Biosciences and Applications, NCSR “Demokritos”, Athens, Greece
| | - Chryssostomos Chatgilialoglu
- Institute of Nanoscience and Nanotechnology, NSCR “Demokritos”, Athens, Greece
- ISOF, Consiglio Nazionale delle Ricerche, Bologna, Italy
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Terzidis MA, Prisecaru A, Molphy Z, Barron N, Randazzo A, Dumont E, Krokidis MG, Kellett A, Chatgilialoglu C. Radical-induced purine lesion formation is dependent on DNA helical topology. Free Radic Res 2017; 50:S91-S101. [PMID: 27733084 DOI: 10.1080/10715762.2016.1244820] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
Abstract
Herein we report the quantification of purine lesions arising from gamma-radiation sourced hydroxyl radicals (HO•) on tertiary dsDNA helical forms of supercoiled (SC), open circular (OC), and linear (L) conformation, along with single-stranded folded and non-folded sequences of guanine-rich DNA in selected G-quadruplex structures. We identify that DNA helical topology and folding plays major, and unexpected, roles in the formation of 8-oxo-7,8-dihydro-2'-deoxyguanosine (8-oxo-dG) and 8-oxo-7,8-dihydro-2'-deoxyadenosine (8-oxo-dA), along with tandem-type purine lesions 5',8-cyclo-2'-deoxyguanosine (5',8-cdG) and 5',8-cyclo-2'-deoxyadenosine (5',8-cdA). SC, OC, and L dsDNA conformers together with folded and non-folded G-quadruplexes d[TGGGGT]4 (TG4T), d[AGGG(TTAGGG)3] (Tel22), and the mutated tel24 d[TTGGG(TTAGGG)3A] (mutTel24) were exposed to HO• radicals and purine lesions were then quantified via stable isotope dilution LC-MS/MS analysis. Purine oxidation in dsDNA follows L > OC ≫ SC indicating greater damage towards the extended B-DNA topology. Conversely, G-quadruplex sequences were significantly more resistant toward purine oxidation in their unfolded states as compared with G-tetrad folded topologies; this effect is confirmed upon comparative analysis of Tel22 (∼50% solution folded) and mutTel24 (∼90% solution folded). In an effort to identify the accessibly of hydroxyl radicals to quadruplex purine nucleobases, G-quadruplex solvent cavities were then modeled at 1.33 Å with evidence suggesting that folded G-tetrads may act as potential oxidant traps to protect against chromosomal DNA damage.
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Affiliation(s)
| | - Andreea Prisecaru
- b School of Chemical Sciences and National Institute for Cellular Biotechnology , Dublin City University , Glasnevin , Dublin , Ireland
| | - Zara Molphy
- b School of Chemical Sciences and National Institute for Cellular Biotechnology , Dublin City University , Glasnevin , Dublin , Ireland
| | - Niall Barron
- b School of Chemical Sciences and National Institute for Cellular Biotechnology , Dublin City University , Glasnevin , Dublin , Ireland
| | - Antonio Randazzo
- c Department of Pharmacy , University of Naples "Federico II" , Napoli , Italy
| | - Elise Dumont
- d Laboratoire de Chimie, UMR 5182 CNRS , École Normale Supérieure de Lyon , Lyon Cedex , France
| | - Marios G Krokidis
- e NCSR "Demokritos" , Institute of Nanoscience and Nanotechnology , Athens , Greece
| | - Andrew Kellett
- b School of Chemical Sciences and National Institute for Cellular Biotechnology , Dublin City University , Glasnevin , Dublin , Ireland
| | - Chryssostomos Chatgilialoglu
- a ISOF , Consiglio Nazionale delle Ricerche , Bologna , Italy.,e NCSR "Demokritos" , Institute of Nanoscience and Nanotechnology , Athens , Greece
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Terzidis MA, Chatgilialoglu C. An ameliorative protocol for the quantification of purine 5',8-cyclo-2'-deoxynucleosides in oxidized DNA. Front Chem 2015; 3:47. [PMID: 26284235 PMCID: PMC4517065 DOI: 10.3389/fchem.2015.00047] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/08/2015] [Accepted: 07/13/2015] [Indexed: 01/17/2023] Open
Abstract
5',8-Cyclo-2'-deoxyadenosine (cdA) and 5',8-cyclo-2'-deoxyguanosine (cdG) are lesions resulting from hydroxyl radical (HO (·) ) attack on the 5'H of the nucleoside sugar moiety and exist in both 5'R and 5'S diastereomeric forms. Increased levels of cdA and cdG are linked to Nucleotide Excision Repair (NER) mechanism deficiency and mutagenesis. Discrepancies in the damage measurements reported over recent years indicated the weakness of the actual protocols, in particular for ensuring the quantitative release of these lesions from the DNA sample and the appropriate method for their analysis. Herein we report the detailed revision leading to a cost-effective and efficient protocol for the DNA damage measurement, consisting of the nuclease benzonase and nuclease P1 enzymatic combination for DNA digestion followed by liquid chromatography isotope dilution tandem mass spectrometry analysis.
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Affiliation(s)
- Michael A Terzidis
- Istituto per la Sintesi Organica e la Fotoreattività, Consiglio Nazionale delle Ricerche Bologna, Italy
| | - Chryssostomos Chatgilialoglu
- Istituto per la Sintesi Organica e la Fotoreattività, Consiglio Nazionale delle Ricerche Bologna, Italy ; Institute of Nanoscience and Nanotechnology, National Centre of Scientific Research "Demokritos" Athens, Greece
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Cai Y, Kropachev K, Terzidis MA, Masi A, Chatgilialoglu C, Shafirovich V, Geacintov NE, Broyde S. Differences in the Access of Lesions to the Nucleotide Excision Repair Machinery in Nucleosomes. Biochemistry 2015; 54:4181-5. [PMID: 26091016 DOI: 10.1021/acs.biochem.5b00564] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
In nucleosomes, the access of DNA lesions to nucleotide excision repair is hindered by histone proteins. However, evidence that the nature of the DNA lesions may play a role in facilitating access is emerging, but these phenomena are not well-understood. We have used molecular dynamics simulations to elucidate the structural, dynamic, and energetic properties of the R and S 5'-8-cyclo-2'-dG and the (+)-cis-anti-B[a]P-dG lesions in a nucleosome. Our results show that the (+)-cis-anti-B[a]P-dG adduct is more dynamic and more destabilizing than the smaller and more constrained 5',8-cyclo-2'-dG lesions, suggesting more facile access to the more bulky (+)-cis-anti-B[a]P-dG lesion.
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Affiliation(s)
| | | | - Michael A Terzidis
- §Istituto per la Sintesi Organica e la Fotoreattività, Consiglio Nazionale delle Ricerche, Bologna, 40129, Italy
| | - Annalisa Masi
- §Istituto per la Sintesi Organica e la Fotoreattività, Consiglio Nazionale delle Ricerche, Bologna, 40129, Italy
| | - Chryssostomos Chatgilialoglu
- §Istituto per la Sintesi Organica e la Fotoreattività, Consiglio Nazionale delle Ricerche, Bologna, 40129, Italy.,∥Institute of Nanoscience and Nanotechnology, National Center for Scientific Research Demokritos, 15341 Agia, Paraskevi, Athens, Greece
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Jiang Z, Xu M, Lai Y, Laverde EE, Terzidis MA, Masi A, Chatgilialoglu C, Liu Y. Bypass of a 5',8-cyclopurine-2'-deoxynucleoside by DNA polymerase β during DNA replication and base excision repair leads to nucleotide misinsertions and DNA strand breaks. DNA Repair (Amst) 2015; 33:24-34. [PMID: 26123757 DOI: 10.1016/j.dnarep.2015.06.004] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2015] [Revised: 04/23/2015] [Accepted: 06/09/2015] [Indexed: 12/18/2022]
Abstract
5',8-Cyclopurine-2'-deoxynucleosides including 5',8-cyclo-dA (cdA) and 5',8-cyclo-dG (cdG) are induced by hydroxyl radicals resulting from oxidative stress such as ionizing radiation. 5',8-cyclopurine-2'-deoxynucleoside lesions are repaired by nucleotide excision repair with low efficiency, thereby leading to their accumulation in the human genome and lesion bypass by DNA polymerases during DNA replication and base excision repair (BER). In this study, for the first time, we discovered that DNA polymerase β (pol β) efficiently bypassed a 5'R-cdA, but inefficiently bypassed a 5'S-cdA during DNA replication and BER. We found that cell extracts from pol β wild-type mouse embryonic fibroblasts exhibited significant DNA synthesis activity in bypassing a cdA lesion located in replication and BER intermediates. However, pol β knock-out cell extracts exhibited little DNA synthesis to bypass the lesion. This indicates that pol β plays an important role in bypassing a cdA lesion during DNA replication and BER. Furthermore, we demonstrated that pol β inserted both a correct and incorrect nucleotide to bypass a cdA at a low concentration. Nucleotide misinsertion was significantly stimulated by a high concentration of pol β, indicating a mutagenic effect induced by pol β lesion bypass synthesis of a 5',8-cyclopurine-2'-deoxynucleoside. Moreover, we found that bypass of a 5'S-cdA by pol β generated an intermediate that failed to be extended by pol β, resulting in accumulation of single-strand DNA breaks. Our study provides the first evidence that pol β plays an important role in bypassing a 5',8-cyclo-dA during DNA replication and repair, as well as new insight into mutagenic effects and genome instability resulting from pol β bypassing of a cdA lesion.
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Affiliation(s)
- Zhongliang Jiang
- Department of Chemistry and Biochemistry, USA; Biochemistry Ph.D. Program, USA
| | - Meng Xu
- Department of Chemistry and Biochemistry, USA
| | - Yanhao Lai
- Department of Chemistry and Biochemistry, USA
| | | | - Michael A Terzidis
- ISOF, Consiglio Nazionale delle Ricerche, Via P. Gobetti 101, 40129 Bologna, Italy
| | - Annalisa Masi
- ISOF, Consiglio Nazionale delle Ricerche, Via P. Gobetti 101, 40129 Bologna, Italy
| | - Chryssostomos Chatgilialoglu
- ISOF, Consiglio Nazionale delle Ricerche, Via P. Gobetti 101, 40129 Bologna, Italy; Institute of Nanoscience and Nanotechnology, N.C.S.R. "Demokritos", 15341, Agia Paraskevi, Athens, Greece
| | - Yuan Liu
- Department of Chemistry and Biochemistry, USA; Biochemistry Ph.D. Program, USA; Biomolecular Sciences Institute, School of Integrated Sciences and Humanities, Florida International University, 11200 SW 8th Street, Miami, FL 33199, USA.
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Capobianco A, Caruso T, Fusco S, Terzidis MA, Masi A, Chatgilialoglu C, Peluso A. The association constant of 5',8-cyclo-2'-deoxyguanosine with cytidine. Front Chem 2015; 3:22. [PMID: 25870853 PMCID: PMC4376000 DOI: 10.3389/fchem.2015.00022] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/18/2015] [Accepted: 03/06/2015] [Indexed: 01/11/2023] Open
Abstract
The association of 5′,8-cyclo-2′-deoxyguanosine (cdG), a DNA tandem lesion, with its complementary base cytosine has been studied by voltammetry and NMR in chloroform, using properly silylated derivatives of the two nucleobases for increasing their solubilities. Both voltammetric data and NMR titrations indicated that the Watson-Crick complex of cytidine with cdG is weaker than that with guanosine, the difference being approximately of one order of magnitude between the two association constants.
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Affiliation(s)
- Amedeo Capobianco
- Dipartimento di Chimica e Biologia, Università di Salerno Fisciano, Salerno, Italy
| | - Tonino Caruso
- Dipartimento di Chimica e Biologia, Università di Salerno Fisciano, Salerno, Italy
| | - Sandra Fusco
- Dipartimento di Chimica e Biologia, Università di Salerno Fisciano, Salerno, Italy
| | - Michael A Terzidis
- Istituto per la Sintesi Organica e la Fotoreattività, Consiglio Nazionale delle Ricerche Bologna, Italy
| | - Annalisa Masi
- Istituto per la Sintesi Organica e la Fotoreattività, Consiglio Nazionale delle Ricerche Bologna, Italy
| | - Chryssostomos Chatgilialoglu
- Istituto per la Sintesi Organica e la Fotoreattività, Consiglio Nazionale delle Ricerche Bologna, Italy ; Institute of Nanoscience and Nanotechnology, National Center for Scientific Research "Demokritos," Athens, Greece
| | - Andrea Peluso
- Dipartimento di Chimica e Biologia, Università di Salerno Fisciano, Salerno, Italy
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Terzidis MA, Ferreri C, Chatgilialoglu C. Radiation-induced formation of purine lesions in single and double stranded DNA: revised quantification. Front Chem 2015; 3:18. [PMID: 25853120 PMCID: PMC4367438 DOI: 10.3389/fchem.2015.00018] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/02/2015] [Accepted: 02/25/2015] [Indexed: 12/13/2022] Open
Abstract
The formation of oxidative lesions arising from double stranded DNA damage is of major significance to chemical biology from the perspective of application to human health. The quantification of purine lesions arising from γ-radiation-induced hydroxyl radicals (HO(•)) has been the subject of numerous studies, with discrepancies on the measured 5',8-cyclo-2'-deoxyadenosine (cdA) and 5',8-cyclo-2'-deoxyguanosine (cdG) lesions reported by different groups. Here we applied an ameliorative protocol for the analysis of DNA damage with quantitative determination of these lesions via isotope dilution liquid chromatography coupled with tandem mass spectrometry. Tandem-type purine lesions were quantified along with 7,8-dihydro-8-oxo-2'-deoxyguanosine (8-oxo-dG) and 7,8-dihydro-8-oxo-2'-deoxyadenosine (8-oxo-dA) in single and double stranded DNA, generated during DNA exposure to diffusible HO(•) radicals in the absence or presence of physiological levels of oxygen. The cdA and cdG lesions in absence of oxygen were found ~2 times higher in single than double stranded DNA, with 5'R being ~6.5 and ~1.5 times more predominant than 5'S in cdG and cdA, respectively. Interestingly, in the presence of 5% molecular oxygen the R/S ratios are retained with substantially decreased yields for cdA and cdG, whereas 8-oxo-dA and 8-oxo-dG remain nearly constant. The overall lesion formation follows the order: 8-oxo-dG >> 8-oxo-dA > 5'R-cdG > 5'R-cdA > 5'S-cdA > 5'S-cdG. By this method, there was a conclusive evaluation of radiation-induced DNA purine lesions.
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Affiliation(s)
- Michael A Terzidis
- Istituto per la Sintesi Organica e la Fotoreattività, Consiglio Nazionale delle Ricerche Bologna, Italy
| | - Carla Ferreri
- Istituto per la Sintesi Organica e la Fotoreattività, Consiglio Nazionale delle Ricerche Bologna, Italy
| | - Chryssostomos Chatgilialoglu
- Istituto per la Sintesi Organica e la Fotoreattività, Consiglio Nazionale delle Ricerche Bologna, Italy ; Institute of Nanoscience and Nanotechnology, National Centre for Scientific Research "Demokritos" Athens, Greece
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Xu M, Lai Y, Jiang Z, Terzidis MA, Masi A, Chatgilialoglu C, Liu Y. A 5', 8-cyclo-2'-deoxypurine lesion induces trinucleotide repeat deletion via a unique lesion bypass by DNA polymerase β. Nucleic Acids Res 2014; 42:13749-63. [PMID: 25428354 PMCID: PMC4267656 DOI: 10.1093/nar/gku1239] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022] Open
Abstract
5',8-cyclo-2'-deoxypurines (cdPus) are common forms of oxidized DNA lesions resulting from endogenous and environmental oxidative stress such as ionizing radiation. The lesions can only be repaired by nucleotide excision repair with a low efficiency. This results in their accumulation in the genome that leads to stalling of the replication DNA polymerases and poor lesion bypass by translesion DNA polymerases. Trinucleotide repeats (TNRs) consist of tandem repeats of Gs and As and therefore are hotspots of cdPus. In this study, we provided the first evidence that both (5'R)- and (5'S)-5',8-cyclo-2'-deoxyadenosine (cdA) in a CAG repeat tract caused CTG repeat deletion exclusively during DNA lagging strand maturation and base excision repair. We found that a cdA induced the formation of a CAG loop in the template strand, which was skipped over by DNA polymerase β (pol β) lesion bypass synthesis. This subsequently resulted in the formation of a long flap that was efficiently cleaved by flap endonuclease 1, thereby leading to repeat deletion. Our study indicates that accumulation of cdPus in the human genome can lead to TNR instability via a unique lesion bypass by pol β.
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Affiliation(s)
- Meng Xu
- Department of Chemistry and Biochemistry, Florida International University, 11200 SW, 8th Street, Miami, FL 33199, USA
| | - Yanhao Lai
- Department of Chemistry and Biochemistry, Florida International University, 11200 SW, 8th Street, Miami, FL 33199, USA
| | - Zhongliang Jiang
- Department of Chemistry and Biochemistry, Florida International University, 11200 SW, 8th Street, Miami, FL 33199, USA
| | - Michael A Terzidis
- ISOF, Consiglio Nazionale delle Ricerche, Via P. Gobetti 101, 40129 Bologna, Italy
| | - Annalisa Masi
- ISOF, Consiglio Nazionale delle Ricerche, Via P. Gobetti 101, 40129 Bologna, Italy
| | - Chryssostomos Chatgilialoglu
- ISOF, Consiglio Nazionale delle Ricerche, Via P. Gobetti 101, 40129 Bologna, Italy Institute of Nanoscience and Nanotechnology, N.C.S.R. 'Demokritos', 15341 Agia, Paraskevi, Athens, Greece
| | - Yuan Liu
- Department of Chemistry and Biochemistry, Florida International University, 11200 SW, 8th Street, Miami, FL 33199, USA Biomolecular Sciences Institute, School of Integrated Sciences and Humanities, Florida International University, 11200 SW, 8th Street, Miami, FL 33199, USA
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Terzidis MA, Tsiaras VG, Drosos NM, Kasapidou PM, Stephanidou-Stephanatou J, Tsoleridis CA, Buth G, Kostakis GE. Chromeno[2,3-c]pyrroles by one-pot multicomponent domino addition–amination reaction. Tetrahedron Lett 2014. [DOI: 10.1016/j.tetlet.2014.08.048] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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Pieraccini S, Terzidis MA, Baldassarri EJ, Fragneto G, Mariani P, Masiero S, Chatgilialoglu C. A lipophilic "fully-anti" dodecamer from a (5'S)-5',8-cyclo-2'-deoxyguanosine. Chem Commun (Camb) 2014; 50:10722-5. [PMID: 25083514 DOI: 10.1039/c4cc04275a] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The self-assembly of a lipophilic derivative of (5'S)-5',8-cyclo-2'-deoxyguanosine, a mutagenic product formed by hydroxyl radical attack against DNA, has been investigated. This derivative forms, with high fidelity, a dodecameric complex composed of three stacked G-quartets in the presence of strontium picrate. This is the first example of a fully-anti lipophilic G-quadruplex.
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Affiliation(s)
- Silvia Pieraccini
- Dipartimento di Chimica 'Giacomo Ciamician' Alma Mater Studiorum - Università di Bologna, via San Giacomo 11, 40126 Bologna, Italy.
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Kropachev K, Ding S, Terzidis MA, Masi A, Liu Z, Cai Y, Kolbanovskiy M, Chatgilialoglu C, Broyde S, Geacintov NE, Shafirovich V. Structural basis for the recognition of diastereomeric 5',8-cyclo-2'-deoxypurine lesions by the human nucleotide excision repair system. Nucleic Acids Res 2014; 42:5020-32. [PMID: 24615810 PMCID: PMC4041128 DOI: 10.1093/nar/gku162] [Citation(s) in RCA: 62] [Impact Index Per Article: 6.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/11/2023] Open
Abstract
The hydroxyl radical is a powerful oxidant that generates DNA lesions including the
stereoisomeric R and S
5′,8-cyclo-2′-deoxyadenosine (cdA) and
5′,8-cyclo-2′-deoxyguanosine (cdG) pairs that have been detected in cellular
DNA. Unlike some other oxidatively generated DNA lesions, cdG and cdA are repaired by the
human nucleotide excision repair (NER) apparatus. The relative NER efficiencies of all
four cyclopurines were measured and compared in identical human HeLa cell extracts for the
first time under identical conditions, using identical sequence contexts. The cdA and cdG
lesions were excised with similar efficiencies, but the efficiencies for both
5′R cyclopurines were greater by a factor of ∼2 than for the
5′S lesions. Molecular modeling and dynamics simulations have
revealed structural and energetic origins of this difference in NER-incision efficiencies.
These lesions cause greater DNA backbone distortions and dynamics relative to unmodified
DNA in 5′R than in 5′S stereoisomers,
producing greater impairment in van der Waals stacking interaction energies in the
5′R cases. The locally impaired stacking interaction energies
correlate with relative NER incision efficiencies, and explain these results on a
structural basis in terms of differences in dynamic perturbations of the DNA backbone
imposed by the R and S covalent 5′,8 bonds.
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Affiliation(s)
- Konstantin Kropachev
- Department of Chemistry New York University, 100 Washington Square East, New York, NY 10003, USA, Department of Biology, New York University, 100 Washington Square East, New York, NY 10003, USA and Istituto per la Sintesi Organica e la Fotoreattività, Consiglio Nazionale delle Ricerche, Via P. Gobetti 101, 40129 Bologna, Italy
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Chatgilialoglu C, Ferreri C, Masi A, Sansone A, Terzidis MA, Tsakos M. A problem solving approach for the diastereoselective synthesis of (5′S)- and (5′R)-5′,8-cyclopurine lesions. Org Chem Front 2014. [DOI: 10.1039/c4qo00133h] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
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Chatgilialoglu C, Ferreri C, Masi A, Melchiorre M, Sansone A, Terzidis MA, Torreggiani A. Free radicals in chemical biology: from chemical behavior to biomarker development. J Vis Exp 2013. [PMID: 23629513 PMCID: PMC3664958 DOI: 10.3791/50379] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/25/2023] Open
Abstract
The involvement of free radicals in life sciences has constantly increased with time and has been connected to several physiological and pathological processes. This subject embraces diverse scientific areas, spanning from physical, biological and bioorganic chemistry to biology and medicine, with applications to the amelioration of quality of life, health and aging. Multidisciplinary skills are required for the full investigation of the many facets of radical processes in the biological environment and chemical knowledge plays a crucial role in unveiling basic processes and mechanisms. We developed a chemical biology approach able to connect free radical chemical reactivity with biological processes, providing information on the mechanistic pathways and products. The core of this approach is the design of biomimetic models to study biomolecule behavior (lipids, nucleic acids and proteins) in aqueous systems, obtaining insights of the reaction pathways as well as building up molecular libraries of the free radical reaction products. This context can be successfully used for biomarker discovery and examples are provided with two classes of compounds: mono-trans isomers of cholesteryl esters, which are synthesized and used as references for detection in human plasma, and purine 5',8-cyclo-2'-deoxyribonucleosides, prepared and used as reference in the protocol for detection of such lesions in DNA samples, after ionizing radiations or obtained from different health conditions.
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Terzidis MA, Chatgilialoglu C. Radical Cascade Protocol for the Synthesis of (5'S)- and (5'R)-5',8-Cyclo-2'-deoxyguanosine Derivatives. Aust J Chem 2013. [DOI: 10.1071/ch12494] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Abstract
The reaction of the appropriately substituted 8-bromo-2′-deoxyguanosine with Bu3SnH/2,2′-azobisisobutyronitrile (AIBN) can be favourably tuned to give the analogous 5′,8-cyclo-2′-deoxyguanosine derivatives in good yields, thus providing easy access to modified nucleosides that constitute an important DNA lesion. A large excess of AIBN is necessary. The creation of the new C5′–C8 bond is a non-chain radical cascade protocol.
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Terzidis MA, Zarganes-Tzitzikas T, Tsimenidis C, Stephanidou-Stephanatou J, Tsoleridis CA, Kostakis GE. One-pot five-component synthesis of spirocyclopenta[b]chromene derivatives and their acid-catalyzed rearrangement. J Org Chem 2012; 77:9018-28. [PMID: 22978377 DOI: 10.1021/jo3014947] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Abstract
The reaction of the zwitterionic intermediate, generated in situ from either tert-butylisocyanide or cyclohexylisocyanide and acetylenedicarboxylates, with 3-cyanochromones is described, whereupon spirochromenofuran derivatives 5 or 6 were obtained in good yields. The subsequent acid-catalyzed rearrangement of the isolated 2-imino-spirochromenofurans 5 to 2-amino-spirochromenofurans 7 has also been studied. Rational mechanistic schemes for the formation of compounds 5, 6, and 7 are proposed. The structure elucidation of the products was accomplished by 1D and 2D NMR experiments and confirmed by X-ray crystallographic analysis. Full assignment of all (1)H and (13)C NMR chemical shifts has been unambiguously achieved with the aid of DFT/GIAO calculations.
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Affiliation(s)
- Michael A Terzidis
- Department of Chemistry, Laboratory of Organic Chemistry, Aristotle University of Thessaloniki, Thessaloniki 54124, Macedonia, Greece
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Chatgilialoglu C, Ferreri C, Masi A, Melchiorre M, Sansone A, Terzidis MA, Torreggiani A. Biomimetic Models of Radical Stress and Related Biomarkers. Chimia (Aarau) 2012; 66:368-71. [DOI: 10.2533/chimia.2012.368] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022] Open
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Zarganes-Tzitzikas T, Terzidis MA, Stephanidou-Stephanatou J, Tsoleridis CA, Kostakis GE. One-Pot Synthesis of Functionalized Spirobenzofuranones via MCR involving 3-Cyanochromones. J Org Chem 2011; 76:9008-14. [DOI: 10.1021/jo201732g] [Citation(s) in RCA: 35] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Tryfon Zarganes-Tzitzikas
- Department of Chemistry, Laboratory
of Organic Chemistry, Aristotle University of Thessaloniki, Thessaloniki 54124, Macedonia, Greece
| | - Michael A. Terzidis
- Department of Chemistry, Laboratory
of Organic Chemistry, Aristotle University of Thessaloniki, Thessaloniki 54124, Macedonia, Greece
| | - Julia Stephanidou-Stephanatou
- Department of Chemistry, Laboratory
of Organic Chemistry, Aristotle University of Thessaloniki, Thessaloniki 54124, Macedonia, Greece
| | - Constantinos A. Tsoleridis
- Department of Chemistry, Laboratory
of Organic Chemistry, Aristotle University of Thessaloniki, Thessaloniki 54124, Macedonia, Greece
| | - George E. Kostakis
- Institute of Nanotechnology, Karlsruhe Institute of Technology, Postfach 3640, D-76021
Karlsruhe, Germany
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Papafilippou A, Terzidis MA, Stephanidou-Stephanatou J, Tsoleridis CA. Reactivity of the Mitsunobu reagent toward 3-formylchromones: a strategy for the one-pot synthesis of chromeno[2,3-c]pyrazolines and chromeno[2,3-e]tetrazepines. Tetrahedron Lett 2011. [DOI: 10.1016/j.tetlet.2011.01.063] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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Terzidis MA, Stephanidou-Stephanatou J, Tsoleridis CA. One-pot synthesis of chromenylfurandicarboxylates and cyclopenta[b]chromenedicarboxylates involving zwitterionic intermediates. A DFT investigation on the regioselectivity of the reaction. J Org Chem 2010; 75:1948-55. [PMID: 20151714 DOI: 10.1021/jo902702j] [Citation(s) in RCA: 31] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
The reaction of 1:1 zwitterionic intermediates generated in situ from either tert-butylisocyanide or cyclohexylisocyanide and acetylenedicarboxylates with 3-formylchromones is described, whereupon either chromenylfurandicarboxylates or cyclopenta[b]chromenedicarboxylates are formed, depending on the nature of the chromone 6-position substituent and also on the acetylene ester group. In addition, from the reaction with a 1:2 zwitterionic intermediate, cyclohepta[b]chromenetetracarboxylates are isolated. The regioselectivity of the reaction was also investigated by DFT calculations. The geometries of the reactants, intermediate zwitterions, transition structures, and intermediate products, leading to the final products, were optimized using the B3LYP functional with the 6-31G(d) basis set. The structures of the products were elucidated by 1D and 2D NMR experiments. Full assignment of all (1)H and (13)C NMR chemical shifts has been achieved. Plausible mechanistic schemes are provided.
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Affiliation(s)
- Michael A Terzidis
- Department of Chemistry, Laboratory of Organic Chemistry, University of Thessaloniki, Thessaloniki 54124, Macedonia, Greece
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Terzidis MA, Stephanidou-Stephanatou J, Tsoleridis CA, Terzis A, Raptopoulou CP, Psycharis V. Expeditious one-pot synthesis of highly substituted thiazolo[3,2-a]pyridines involving chromones. Tetrahedron 2010. [DOI: 10.1016/j.tet.2009.11.096] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
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Terzidis MA, Stephanidou-Stephanatou J, Tsoleridis CA. Engaging a thiazole-DMAD zwitterion in novel one-pot multicomponent reactions involving chromones. Expeditious synthesis of thiazolo- and chromenothiazolopyridines. Tetrahedron Lett 2009. [DOI: 10.1016/j.tetlet.2008.12.106] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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Terzidis MA, Tsoleridis CA, Stephanidou-Stephanatou J, Terzis A, Raptopoulou CP, Psycharis V. Successive Michael reactions on chromone derivatives with dimethyl 1,3-acetonedicarboxylate: one-pot synthesis of functionalized benzophenones, benzo[c]chromones and hydroxybenzoylfuroates. Tetrahedron 2008. [DOI: 10.1016/j.tet.2008.10.023] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
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