1
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Faure C, Ng YM, Belle C, Soler-Lopez M, Khettabi L, Saidi M, Berthet N, Maresca M, Philouze C, Rachidi W, Reglier M, du Moullinet d'Hardemare A, Jamet H. Interactions of phenylalanine derivatives with human tyrosinase: lessons from experimental and theoretical studies. Chembiochem 2024:e202400235. [PMID: 38642076 DOI: 10.1002/cbic.202400235] [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] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/13/2024] [Revised: 04/18/2024] [Accepted: 04/19/2024] [Indexed: 04/22/2024]
Abstract
The pigmentation of the skin, modulated by different actors in melanogenesis, is mainly due to the melanins (protective pigments). In humans, these pigments' precursors are synthetized by an enzyme known as tyrosinase (TyH). The regulation of the enzyme activity by specific modulators (inhibitors or activators) can offer a means to fight hypo- and hyper-pigmentations responsible for medical, psychological and societal handicaps. Herein, we report the investigation of phenylalanine derivatives as TyH modulators. Interacting with the binuclear copper active site of the enzyme, phenylalanine derivatives combine effects induced by combination with known resorcinol inhibitors and natural substrate/intermediate (amino acid part). Computational studies including docking, molecular dynamics and free energy calculations combined with biological activity assays on isolated TyH and in human melanoma MNT-1 cells, and X-ray crystallography analyses with the TyH analogue Tyrp1, provide conclusive evidence of the interactions of phenylalanine derivatives with human tyrosinase. In particular, our findings indicate that an analogue of L-DOPA, namely (S)-3-amino-tyrosine, stands out as an amino phenol derivative with inhibitory properties against TyH.
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Affiliation(s)
- Clarisse Faure
- Department of Molecular Chemistry, Team Cire and Sith, FRANCE
| | | | | | | | | | | | | | - Marc Maresca
- Aix-Marseille University Faculty of Science, ISM2, FRANCE
| | | | | | - Marius Reglier
- Aix-Marseille University Faculty of Science, Ism2, FRANCE
| | | | - Hélène Jamet
- University Grenoble Alpes, DCM, 30 Rue de la Chimie, 38058, Grenoble, FRANCE
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2
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Ziani Z, Cobo S, Berthet N, Royal G. Optical modulation of cell nucleus penetration and singlet oxygen release of a switchable platinum complex. iScience 2024; 27:108704. [PMID: 38299025 PMCID: PMC10829881 DOI: 10.1016/j.isci.2023.108704] [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] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/28/2023] [Revised: 10/06/2023] [Accepted: 12/07/2023] [Indexed: 02/02/2024] Open
Abstract
The activation of anticancer molecules with visible light constitutes an elegant strategy to target tumors and to improve the selectivity of treatments. In this context, we report here a visible-light activatable bis-platinum complex (DHP-Pt2) incorporating an organic photo-switchable ligand based on the dimethyldihydropyrene moiety. Illumination of this metal complex with red light (660 nm) under air readily produces the corresponding endoperoxide form (CPDO2-Pt2). These two metal complexes exhibit different DNA binding properties and, more importantly, we show that only the photogenerated CPDO2-Pt2 is able to penetrate into cancer cell nuclei, where it is then capable of releasing cytotoxic singlet oxygen. This study represents the first proof-of-concept showing that dimethyldihydropyrene derivatives can be used to transport and deliver singlet oxygen into cancer cell nuclei upon visible-light activation.
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Affiliation(s)
- Zakaria Ziani
- University Grenoble Alpes, CNRS, DCM, 38000 Grenoble, France
| | - Saioa Cobo
- University Grenoble Alpes, CNRS, DCM, 38000 Grenoble, France
| | | | - Guy Royal
- University Grenoble Alpes, CNRS, DCM, 38000 Grenoble, France
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3
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Goyard D, Diriwari PI, Berthet N. Metabolic labelling of cancer cells with glycodendrimers stimulate immune-mediated cytotoxicity. RSC Med Chem 2022; 13:72-78. [PMID: 35211675 PMCID: PMC8792828 DOI: 10.1039/d1md00262g] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/05/2021] [Accepted: 11/03/2021] [Indexed: 12/18/2022] Open
Abstract
The recruitment of antibody naturally present in human blood stream at the surface of cancer cells have been proved a promising immunotherapeutic strategy to fight cancer. Antibody recruiting molecules (ARMs) combining tumor and antibody binding modules have been developed for this purpose, however the formation of the interacting complex with both antibody and cell is difficult to optimize to stimulate immune-mediated cytotoxicity. To circumvent this limitation, we report herein a more direct approach combining cell metabolism of azido-sugar and bio-orthogonal click chemistry to conjugate at the cell glycocalyx structurally well-defined glycodendrimers as antibody binding module (ABM). We demonstrate that this strategy allows not only the recruitment of natural antibody at the surface of isolated cells or solid tumor models but also activate a cytotoxic response with human serum as unique source of immune effectors.
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Affiliation(s)
- David Goyard
- Univ. Grenoble Alpes, CNRS DCM UMR 5250 F-38000 Grenoble France
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4
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Achilli S, Berthet N, Renaudet O. Correction: Antibody recruiting molecules (ARMs): synthetic immunotherapeutics to fight cancer. RSC Chem Biol 2021; 2:1297-1300. [PMID: 34458844 PMCID: PMC8340992 DOI: 10.1039/d1cb90021h] [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] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/13/2021] [Accepted: 07/13/2021] [Indexed: 12/02/2022] Open
Abstract
Correction for ‘Antibody recruiting molecules (ARMs): synthetic immunotherapeutics to fight cancer’ by Silvia Achilli et al., RSC Chem. Biol., 2021, 2, 713–724. DOI: 10.1039/d1cb00007a.
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Affiliation(s)
- Silvia Achilli
- Univ. Grenoble Alpes, CNRS, DCM UMR 5250 F-38000 Grenoble France
| | - Nathalie Berthet
- Univ. Grenoble Alpes, CNRS, DCM UMR 5250 F-38000 Grenoble France
| | - Olivier Renaudet
- Univ. Grenoble Alpes, CNRS, DCM UMR 5250 F-38000 Grenoble France
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5
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Todaro B, Achilli S, Liet B, Laigre E, Tiertant C, Goyard D, Berthet N, Renaudet O. Structural influence of antibody recruiting glycodendrimers (ARGs) on antitumoral cytotoxicity. Biomater Sci 2021; 9:4076-4085. [PMID: 33913968 DOI: 10.1039/d1bm00485a] [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: 01/20/2023]
Abstract
The recruitment of endogenous antibodies against cancer cells has become a reliable antitumoral immunotherapeutic alternative over the last decade. The covalent attachment of antibody and tumor binding modules (ABM and TBM) within a single, well-defined synthetic molecule was indeed demonstrated to promote the formation of an interacting ternary complex between both the antibodies and the targeted cell, which usually results in the simultaneous immune-mediated cellular destruction. In a preliminary study, we have described the first Antibody Recruiting Glycodendrimers (ARGs), combining cRGD as ligands for the αVβ3-expressing melanoma cell line M21 and Rha as ligand for natural IgM, and demonstrated that multivalency is an essential requirement to form this complex. In the present study, we synthesized a new series of ARGs composed of ABMs, i.e. self-condensed rhamnosylated cyclopeptide and polylysine dendrimer, which have been conjugated to the TBM with or without spacer. Flow cytometry and confocal microscopy experiments with human serum and different cell lines revealed that the ABM geometry significantly influences the ternary complex formation in M21, whereas no significant binding occurs in BT 549 having low integrin expression. In addition, we demonstrate with a cellular viability assay that ARGs induce high level of cytotoxicity against M21 which is also in close correlation with the ABM structure. In particular, we have shown that ARG combining cyclopeptide core and branches, with or without spacer, induce 40-57% of selective cytotoxicity against M21 cells in the presence of human serum as the unique source of immunity effectors. Finally, we also highlight that the spacer between ABM and TBM enables an increase of the immune-mediate cytotoxicity even with ABM of lower valency.
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Affiliation(s)
- Biagio Todaro
- Univ. Grenoble Alpes, CNRS, DCM UMR 5250, F-38000 Grenoble, France.
| | - Silvia Achilli
- Univ. Grenoble Alpes, CNRS, DCM UMR 5250, F-38000 Grenoble, France.
| | - Benjamin Liet
- Univ. Grenoble Alpes, CNRS, DCM UMR 5250, F-38000 Grenoble, France.
| | - Eugénie Laigre
- Univ. Grenoble Alpes, CNRS, DCM UMR 5250, F-38000 Grenoble, France.
| | - Claire Tiertant
- Univ. Grenoble Alpes, CNRS, DCM UMR 5250, F-38000 Grenoble, France.
| | - David Goyard
- Univ. Grenoble Alpes, CNRS, DCM UMR 5250, F-38000 Grenoble, France.
| | - Nathalie Berthet
- Univ. Grenoble Alpes, CNRS, DCM UMR 5250, F-38000 Grenoble, France.
| | - Olivier Renaudet
- Univ. Grenoble Alpes, CNRS, DCM UMR 5250, F-38000 Grenoble, France.
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6
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Abstract
Antibody-recruiting molecules (ARMs) are one of the most promising tools to redirect the immune response towards cancer cells. In this review, we aim to highlight the recent advances in the field. We will illustrate the advantages of different ARM approaches and emphasize the importance of a multivalent presentation of the binding units. Antibody-recruiting molecules (ARMs) are one of the most promising tools to redirect the immune response towards cancer cells.![]()
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Affiliation(s)
- Silvia Achilli
- Univ. Grenoble Alpes, CNRS DCM UMR 5250 F-38000 Grenoble France
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7
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Pifferi C, Ruiz-de-Angulo A, Goyard D, Tiertant C, Sacristán N, Barriales D, Berthet N, Anguita J, Renaudet O, Fernández-Tejada A. Chemical synthesis and immunological evaluation of new generation multivalent anticancer vaccines based on a Tn antigen analogue. Chem Sci 2020; 11:4488-4498. [PMID: 34122907 PMCID: PMC8159477 DOI: 10.1039/d0sc00544d] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [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: 12/18/2022] Open
Abstract
Tumor associated carbohydrate antigens (TACAs), such as the Tn antigen, have emerged as key targets for the development of synthetic anticancer vaccines. However, the induction of potent and functional immune responses has been challenging and, in most cases, unsuccessful. Herein, we report the design, synthesis and immunological evaluation in mice of Tn-based vaccine candidates with multivalent presentation of the Tn antigen (up to 16 copies), both in its native serine-linked display (Tn-Ser) and as an oxime-linked Tn analogue (Tn-oxime). The high valent vaccine prototypes were synthesized through a late-stage convergent assembly (Tn-Ser construct) and a versatile divergent strategy (Tn-oxime analogue), using chemoselective click-type chemistry. The hexadecavalent Tn-oxime construct induced robust, Tn-specific humoral and CD4+/CD8+ cellular responses, with antibodies able to bind the Tn antigen on the MCF7 cancer cell surface. The superior synthetic accessibility and immunological properties of this fully-synthetic vaccine prototype makes it a compelling candidate for further advancement towards safe and effective synthetic anticancer vaccines.
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Affiliation(s)
- Carlo Pifferi
- Département de Chimie Moléculaire, Université Grenoble Alpes, UMR 5250, CNRS 38000 Grenoble France .,Chemical Immunology Lab, CIC bioGUNE Biscay Science and Technology Park, Building 801A 48160 Derio Spain
| | - Ane Ruiz-de-Angulo
- Chemical Immunology Lab, CIC bioGUNE Biscay Science and Technology Park, Building 801A 48160 Derio Spain
| | - David Goyard
- Département de Chimie Moléculaire, Université Grenoble Alpes, UMR 5250, CNRS 38000 Grenoble France
| | - Claire Tiertant
- Département de Chimie Moléculaire, Université Grenoble Alpes, UMR 5250, CNRS 38000 Grenoble France
| | - Nagore Sacristán
- Chemical Immunology Lab, CIC bioGUNE Biscay Science and Technology Park, Building 801A 48160 Derio Spain
| | - Diego Barriales
- Inflammation and Macrophage Plasticity Lab, CIC bioGUNE Biscay Science and Technology Park, Building 801A 48160 Derio Spain
| | - Nathalie Berthet
- Département de Chimie Moléculaire, Université Grenoble Alpes, UMR 5250, CNRS 38000 Grenoble France
| | - Juan Anguita
- Inflammation and Macrophage Plasticity Lab, CIC bioGUNE Biscay Science and Technology Park, Building 801A 48160 Derio Spain .,Ikerbasque, Basque Foundation for Science Maria Diaz de Haro 13 48009 Bilbao Spain
| | - Olivier Renaudet
- Département de Chimie Moléculaire, Université Grenoble Alpes, UMR 5250, CNRS 38000 Grenoble France
| | - Alberto Fernández-Tejada
- Chemical Immunology Lab, CIC bioGUNE Biscay Science and Technology Park, Building 801A 48160 Derio Spain .,Ikerbasque, Basque Foundation for Science Maria Diaz de Haro 13 48009 Bilbao Spain
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8
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Weynand J, Moreno-Betancourt A, Loiseau F, Berthet N, Defrancq E, Elias B. Redox-Active Bis-Cyclometalated Iridium(III) Complex as a DNA Photo-Cleaving Agent. Inorg Chem 2020; 59:2426-2433. [PMID: 31977196 DOI: 10.1021/acs.inorgchem.9b03312] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [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 development of new photoactive metal complexes that can trigger oxidative damages to the genetic material is of great interest. In the present paper, we describe the detailed study of a highly photo-oxidant iridium(III) complex that triggers photoinduced electron transfer (PET) with purine DNA bases. The PET has been studied by luminescence and laser flash photolysis experiments. From plasmid DNA agarose gel electrophoresis experiments, we demonstrated the high ability of the iridium complex to induce strand breaks upon light irradiation. Reactive oxygen species (ROS)-specific scavengers and stabilizers were employed to identify that the photocleavage process, the results of which infer singlet oxygen and hydrogen peroxide as the predominant species. To the best of our knowledge, the present work represents one of the few study for highly photo-oxidant bis-cyclometalated iridium(III) complex toward DNA.
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Affiliation(s)
- Justin Weynand
- Institut de la Matière Condensée et des Nanosciences (IMCN), Molecular Chemistry, Materials and Catalysis Division (MOST) , Université catholique de Louvain (UCLouvain) , Place Louis Pasteur 1, bte L4.01.02 , B-1348 Louvain-la-Neuve , Belgium.,Département de Chimie Moléculaire, UMR CNRS 5250 , Université Grenoble Alpes , CS 40700, 38058 Grenoble , France
| | - Angélica Moreno-Betancourt
- Département de Chimie Moléculaire, UMR CNRS 5250 , Université Grenoble Alpes , CS 40700, 38058 Grenoble , France
| | - Frédérique Loiseau
- Département de Chimie Moléculaire, UMR CNRS 5250 , Université Grenoble Alpes , CS 40700, 38058 Grenoble , France
| | - Nathalie Berthet
- Département de Chimie Moléculaire, UMR CNRS 5250 , Université Grenoble Alpes , CS 40700, 38058 Grenoble , France
| | - Eric Defrancq
- Département de Chimie Moléculaire, UMR CNRS 5250 , Université Grenoble Alpes , CS 40700, 38058 Grenoble , France
| | - Benjamin Elias
- Institut de la Matière Condensée et des Nanosciences (IMCN), Molecular Chemistry, Materials and Catalysis Division (MOST) , Université catholique de Louvain (UCLouvain) , Place Louis Pasteur 1, bte L4.01.02 , B-1348 Louvain-la-Neuve , Belgium
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9
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Liet B, Laigre E, Goyard D, Todaro B, Tiertant C, Boturyn D, Berthet N, Renaudet O. Front Cover: Multifunctional Glycoconjugates for Recruiting Natural Antibodies against Cancer Cells (Chem. Eur. J. 68/2019). Chemistry 2019. [DOI: 10.1002/chem.201904615] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022]
Affiliation(s)
- Benjamin Liet
- DCM, UMR 5250Université Grenoble Alpes, CNRS 38000 Grenoble France
| | - Eugénie Laigre
- DCM, UMR 5250Université Grenoble Alpes, CNRS 38000 Grenoble France
| | - David Goyard
- DCM, UMR 5250Université Grenoble Alpes, CNRS 38000 Grenoble France
| | - Biagio Todaro
- DCM, UMR 5250Université Grenoble Alpes, CNRS 38000 Grenoble France
| | - Claire Tiertant
- DCM, UMR 5250Université Grenoble Alpes, CNRS 38000 Grenoble France
| | - Didier Boturyn
- DCM, UMR 5250Université Grenoble Alpes, CNRS 38000 Grenoble France
| | - Nathalie Berthet
- DCM, UMR 5250Université Grenoble Alpes, CNRS 38000 Grenoble France
| | - Olivier Renaudet
- DCM, UMR 5250Université Grenoble Alpes, CNRS 38000 Grenoble France
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10
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Liet B, Laigre E, Goyard D, Todaro B, Tiertant C, Boturyn D, Berthet N, Renaudet O. Multifunctional Glycoconjugates for Recruiting Natural Antibodies against Cancer Cells. Chemistry 2019; 25:15508-15515. [PMID: 31613028 PMCID: PMC6916168 DOI: 10.1002/chem.201903327] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/22/2019] [Revised: 09/05/2019] [Indexed: 01/04/2023]
Abstract
We have developed a fully synthetic and multifunctional antibody-recruiting molecule (ARM) to guide natural antibodies already present in the blood stream against cancer cells without pre-immunization. Our ARM is composed of antibody and tumor binding modules (i.e., ABM and TBM) displaying clustered rhamnose and cyclo-RGD, respectively. By using a stepwise approach, we have first demonstrated the importance of multivalency for efficient recognition with naturel IgM and αv β3 integrin expressing M21 tumor cell line. Once covalently conjugated by click chemistry, we confirmed by flow cytometry and confocal microscopy that the recognition properties of both the ABM and TBM are conserved, and more importantly, that the resulting ARM promotes the formation of a ternary complex between natural IgM and cancer cells, which is required for the stimulation of the cytotoxic immune response in vivo. Due to the efficiency of the synthetic process, a larger diversity of heterovalent ligands could be easily explored by using the same multivalent approach and could open new perspectives in this field.
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Affiliation(s)
- Benjamin Liet
- DCM, UMR 5250Université Grenoble Alpes, CNRS38000GrenobleFrance
| | - Eugénie Laigre
- DCM, UMR 5250Université Grenoble Alpes, CNRS38000GrenobleFrance
| | - David Goyard
- DCM, UMR 5250Université Grenoble Alpes, CNRS38000GrenobleFrance
| | - Biagio Todaro
- DCM, UMR 5250Université Grenoble Alpes, CNRS38000GrenobleFrance
| | - Claire Tiertant
- DCM, UMR 5250Université Grenoble Alpes, CNRS38000GrenobleFrance
| | - Didier Boturyn
- DCM, UMR 5250Université Grenoble Alpes, CNRS38000GrenobleFrance
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11
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Liet B, Laigre E, Goyard D, Todaro B, Tiertant C, Boturyn D, Berthet N, Renaudet O. Multifunctional Glycoconjugates for Recruiting Natural Antibodies against Cancer Cells. Chemistry 2019; 25:15429. [PMID: 31804008 DOI: 10.1002/chem.201904616] [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: 11/11/2022]
Abstract
Invited for the cover of this issue is Olivier Renaudet and co-workers at the Université Grenoble Alpes and funded by the European Research Council (CoG "LEGO'" no. 647938). The image illustrates a synthetic chemist playing with supramolecular structures to kill cancer cells by using natural antibodies present in the blood stream. Read the full text of the article at 10.1002/chem.201903327.
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Affiliation(s)
- Benjamin Liet
- DCM, UMR 5250, Université Grenoble Alpes, CNRS, 38000, Grenoble, France
| | - Eugénie Laigre
- DCM, UMR 5250, Université Grenoble Alpes, CNRS, 38000, Grenoble, France
| | - David Goyard
- DCM, UMR 5250, Université Grenoble Alpes, CNRS, 38000, Grenoble, France
| | - Biagio Todaro
- DCM, UMR 5250, Université Grenoble Alpes, CNRS, 38000, Grenoble, France
| | - Claire Tiertant
- DCM, UMR 5250, Université Grenoble Alpes, CNRS, 38000, Grenoble, France
| | - Didier Boturyn
- DCM, UMR 5250, Université Grenoble Alpes, CNRS, 38000, Grenoble, France
| | - Nathalie Berthet
- DCM, UMR 5250, Université Grenoble Alpes, CNRS, 38000, Grenoble, France
| | - Olivier Renaudet
- DCM, UMR 5250, Université Grenoble Alpes, CNRS, 38000, Grenoble, France
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12
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Fayolle D, Berthet N, Doumeche B, Renaudet O, Strazewski P, Fiore M. Towards the preparation of synthetic outer membrane vesicle models with micromolar affinity to wheat germ agglutinin using a dialkyl thioglycoside. Beilstein J Org Chem 2019; 15:937-946. [PMID: 31164930 PMCID: PMC6541351 DOI: 10.3762/bjoc.15.90] [Citation(s) in RCA: 2] [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: 12/10/2018] [Accepted: 04/02/2019] [Indexed: 12/15/2022] Open
Abstract
A series of alkyl thioglycosides and alkyl thiodiglycosides bearing glucose and N-acetylglucosamine residues were prepared by thiol-ene coupling in moderate to good yields (40-85%). Their binding ability towards wheat germ agglutinin was measured by competitive enzyme-linked lectin assays. One of the synthetic compounds presenting two GlcNAc units showed the highest inhibitory effect of this study with an IC50 of 11 µM corresponding to a 3182-fold improvement compared to GlcNAc. These synthetic molecules were used to produce giant vesicles, alone or in mixture with phospholipids, mimicking bacterial outer membrane vesicles (OMV) with potential antiadhesive properties.
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Affiliation(s)
- Dimitri Fayolle
- Institut de Chimie et Biochimie Moléculaires et Supramoléculaires, Université de Lyon, Claude Bernard Lyon 1, 43 blvd du 11 novembre 1918, 69622 Villeurbanne Cedex, France
| | - Nathalie Berthet
- Univ. Grenoble Alpes, CNRS, DCM UMR 5250, F-38000 Grenoble, France
| | - Bastien Doumeche
- Institut de Chimie et Biochimie Moléculaires et Supramoléculaires, Université de Lyon, Claude Bernard Lyon 1, 43 blvd du 11 novembre 1918, 69622 Villeurbanne Cedex, France
| | - Olivier Renaudet
- Univ. Grenoble Alpes, CNRS, DCM UMR 5250, F-38000 Grenoble, France
| | - Peter Strazewski
- Institut de Chimie et Biochimie Moléculaires et Supramoléculaires, Université de Lyon, Claude Bernard Lyon 1, 43 blvd du 11 novembre 1918, 69622 Villeurbanne Cedex, France
| | - Michele Fiore
- Institut de Chimie et Biochimie Moléculaires et Supramoléculaires, Université de Lyon, Claude Bernard Lyon 1, 43 blvd du 11 novembre 1918, 69622 Villeurbanne Cedex, France
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13
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Abstract
Cyclopeptides have been recently used successfully as carriers for the multivalent presentation of carbohydrate and peptide antigens in immunotherapy. Beside their synthetic versatility, these scaffolds are indeed interesting due to their stability against enzyme degradation and low immunogenicity. This mini-review highlights the recent advances in the utilization of cyclopeptides to prepare fully synthetic vaccines prototypes against cancers and pathogens.
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Affiliation(s)
- Carlo Pifferi
- Univ. Grenoble Alpes, CNRS, DCM UMR 5250, F-38000 Grenoble, France.
| | - Nathalie Berthet
- Univ. Grenoble Alpes, CNRS, DCM UMR 5250, F-38000 Grenoble, France.
| | - Olivier Renaudet
- Univ. Grenoble Alpes, CNRS, DCM UMR 5250, F-38000 Grenoble, France. and Institut Universitaire de France, 103 boulevard Saint-Michel, 75005 Paris, France
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14
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Serre D, Erbek S, Berthet N, Ronot X, Martel-Frachet V, Thomas F. Copper(II) complexes of N 3O tripodal ligands appended with pyrene and polyamine groups: Anti-proliferative and nuclease activities. J Inorg Biochem 2017; 179:121-134. [PMID: 29222969 DOI: 10.1016/j.jinorgbio.2017.11.006] [Citation(s) in RCA: 3] [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] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/17/2017] [Revised: 10/28/2017] [Accepted: 11/04/2017] [Indexed: 10/18/2022]
Abstract
A series of tripodal ligands based on the 2-tert-butyl-4-R-6-phenol was synthesized, where R=aldehyde (HL1), R=putrescine-pyrene (HL2) and R=putrescine (HL3). A dinucleating ligand wherein a putrescine group connects two tripodal moieties was also prepared (H2L4). The corresponding copper complexes (1, 2, 3, and 4, respectively) were prepared and characterized. We determined the phenol's pKas in the range 2.47-3.93. The DNA binding constants were determined at 6×106, 5.5×105 and 2.7×106 for 2, 3 and 4, respectively. The complexes display a metal-centered reduction wave at Epc,red=-0.45 to -0.5V vs. saturated calomel electrode, as well as a ligand-centered oxidation wave above 0.57V at pH7. In the presence of ascorbate they promote an efficient cleavage of DNA, with for example a concentration required to cleave 50% of supercoiled DNA of 1.7μM for 2. The nuclease activity is affected by the nature of the R group: putrescine-pyrene≈bis-ligating>putrescine>aldehyde. The species responsible for strand scission is the hydroxyl radical. The cytotoxicity of the complexes was evaluated on bladder cancer cell lines sensitive or resistant to cis-platin. The IC50 of complexes 2 and 4 span over a short range (1.3-2μM) for the two cell lines. They are lower than those of the other complexes (3.1-9.7μM) and cis-platin. The most active compounds block the cell cycle at the G0/1 phase and promote apoptosis.
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Affiliation(s)
- Doti Serre
- Département de Chimie Moléculaire, Université Grenoble Alpes, UMR-5250 CNRS UGA, CS 40700, 38058 Grenoble Cedex 9, France
| | - Sule Erbek
- EPHE, PSL Research University, IAB, INSERM UGA U1209 - CNRS UMR 5309, 38700 La Tronche, France
| | - Nathalie Berthet
- Département de Chimie Moléculaire, Université Grenoble Alpes, UMR-5250 CNRS UGA, CS 40700, 38058 Grenoble Cedex 9, France
| | - Xavier Ronot
- EPHE, PSL Research University, IAB, INSERM UGA U1209 - CNRS UMR 5309, 38700 La Tronche, France
| | | | - Fabrice Thomas
- Département de Chimie Moléculaire, Université Grenoble Alpes, UMR-5250 CNRS UGA, CS 40700, 38058 Grenoble Cedex 9, France.
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Abstract
The large majority of TACA-based (TACA=Tumor-Associated Carbohydrate Antigens) antitumor vaccines target only one carbohydrate antigen, thereby often resulting in the incomplete destruction of cancer cells. However, the morphological heterogeneity of the tumor glycocalix, which is in constant evolution during malignant transformation, is a crucial point to consider in the design of vaccine candidates. In this paper, an efficient synthetic strategy based on orthogonal chemoselective ligations to prepare fully synthetic glycosylated cyclopeptide scaffolds grafted with both Tn and TF antigen analogues is reported. To evaluate their ability to be recognized as tumor antigens, direct interaction ELISA assays have been performed with the anti-Tn monoclonal antibody 9A7. Although both heterovalent structures showed binding capacities with 9A7, the presence of the second TF epitope did not interfere with the recognition of Tn except in one epitope arrangement. This heterovalent glycosylated structure thus represents an attractive epitope carrier to be further functionalized with T-cell peptide epitopes.
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Affiliation(s)
- Carlo Pifferi
- Univ. Grenoble AlpesCNRSDCM UMR 525038000GrenobleFrance
| | | | - David Goyard
- Univ. Grenoble AlpesCNRSDCM UMR 525038000GrenobleFrance
| | | | - Olivier Renaudet
- Univ. Grenoble AlpesCNRSDCM UMR 525038000GrenobleFrance
- Institut Universitaire de France103 boulevard Saint-Michel75005ParisFrance
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16
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Rideout MC, Liet B, Gasparutto D, Berthet N. A high-throughput screen for detection of compound-dependent phosphodiester bond cleavage at abasic sites. Anal Biochem 2016; 513:93-97. [PMID: 27594348 DOI: 10.1016/j.ab.2016.08.028] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/16/2016] [Revised: 07/28/2016] [Accepted: 08/30/2016] [Indexed: 11/20/2022]
Abstract
We have employed a DNA molecular beacon with a real abasic site, namely a 2-deoxyribose, in a fluorescent high-throughput assay to identify artificial nucleases that cleave at abasic sites. We screened a 1280 compound chemical library and identified a compound that functions as an artificial nuclease. We validated a key structure-activity relationship necessary for abasic site cleavage using available analogs of the identified artificial nuclease. We also addressed the activity of the identified compound with dose titrations in the absence and presence of a source of non-specific DNA. Finally, we characterized the phosphodiester backbone cleavage at the abasic site using denaturing gel electrophoresis. This study provides a useful template for researchers seeking to rapidly identify new artificial nucleases.
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Affiliation(s)
- Marc C Rideout
- Département de Chimie Moléculaire (DCM), Laboratoire Ingénierie et Interactions BioMoléculaires (I2BM), UMR-5250, ICMG FR-2607, CNRS, Université Grenoble Alpes (UGA), 570 Rue de la Chimie, BP-53, 38041 Grenoble Cedex 9, France.
| | - Benjamin Liet
- Département de Chimie Moléculaire (DCM), Laboratoire Ingénierie et Interactions BioMoléculaires (I2BM), UMR-5250, ICMG FR-2607, CNRS, Université Grenoble Alpes (UGA), 570 Rue de la Chimie, BP-53, 38041 Grenoble Cedex 9, France
| | - Didier Gasparutto
- Institut des Nanosciences & Cryogénie (INAC), SPrAM - UMR 5819 CEA/CNRS/Université Grenoble Alpes, Commissariat à l'Energie Atomique, 17 rue des Martyrs, F-38054 Grenoble Cedex 9, France
| | - Nathalie Berthet
- Département de Chimie Moléculaire (DCM), Laboratoire Ingénierie et Interactions BioMoléculaires (I2BM), UMR-5250, ICMG FR-2607, CNRS, Université Grenoble Alpes (UGA), 570 Rue de la Chimie, BP-53, 38041 Grenoble Cedex 9, France.
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17
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Gaudaire D, Berthet N, Zientara S, Hans A. A novel molecular diagnostic tool for Equine Arteritis Virus detection and characterization. J Equine Vet Sci 2016. [DOI: 10.1016/j.jevs.2016.02.021] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
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18
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Thomas B, Pifferi C, Daskhan GC, Fiore M, Berthet N, Renaudet O. Divergent and convergent synthesis of GalNAc-conjugated dendrimers using dual orthogonal ligations. Org Biomol Chem 2015; 13:11529-38. [PMID: 26464062 DOI: 10.1039/c5ob01870f] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.1] [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 synthesis of glycodendrimers remains a challenging task. In this paper we propose a protocol based on both oxime ligation (OL) to combine cyclopeptide repeating units as the dendritic core and the copper(i)-catalyzed azide-alkyne cycloaddition (CuAAC) to conjugate peripheral α and β propargylated GalNAc. By contrast with the oxime-based iterative protocol reported in our group, our current strategy can be used in both divergent and convergent routes with similar efficiency and the resulting hexadecavalent glycodendrimers can be easily characterized compared to oxime-linked analogues. A series of glycoconjugates displaying four or sixteen copies of both α and β GalNAc have been prepared and their ability to inhibit the adhesion of the soybean agglutinin (SBA) lectin to polymeric-GalNAc immobilized on microtiter plates has been evaluated. As was anticipated, the higher inhibitory effect (IC50 = 0.46 μM) was measured with the structure displaying αGalNAc with the higher valency (compound 13), which demonstrates that the binding properties of these glycoconjugates are strongly dependent on the orientation and distribution of the GalNAc units.
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19
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Daskhan GC, Berthet N, Thomas B, Fiore M, Renaudet O. Multivalent glycocyclopeptides: toward nano-sized glycostructures. Carbohydr Res 2015; 405:13-22. [DOI: 10.1016/j.carres.2014.07.017] [Citation(s) in RCA: 13] [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] [Received: 06/02/2014] [Revised: 07/18/2014] [Accepted: 07/21/2014] [Indexed: 10/25/2022]
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Affiliation(s)
- E M Leroy
- Centre International de Recherches Médicales, Franceville, Gabon; Institut de Recherche pour le Développement, UMR MIVEGEC 224 'Maladies Infectieuses et Vecteurs: Ecologie, Génétique Evolution et Contrôle, Montpellier, France.
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21
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Ghirardello M, Öberg K, Staderini S, Renaudet O, Berthet N, Dumy P, Hed Y, Marra A, Malkoch M, Dondoni A. Thiol-ene and thiol-yne-based synthesis of glycodendrimers as nanomolar inhibitors of wheat germ agglutinin. ACTA ACUST UNITED AC 2014. [DOI: 10.1002/pola.27262] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Affiliation(s)
- Mattia Ghirardello
- Dipartimento di Scienze Chimiche e Farmaceutiche; Università di Ferrara; Via Fossato di Mortara 17 44121 Ferrara Italy
| | - Kim Öberg
- Division of Coating Technology; KTH The Royal Institute of Technology, School of Chemical Science and Engineering; Teknikringen 56-58 SE-10044 Stockholm Sweden
| | - Samuele Staderini
- Dipartimento di Scienze Chimiche e Farmaceutiche; Università di Ferrara; Via Fossato di Mortara 17 44121 Ferrara Italy
| | - Olivier Renaudet
- Département de Chimie Moléculaire; UMR CNRS 5250, Université Joseph Fourier, 570 Rue de la chimie, BP 53; 38041 Grenoble cedex 9 France
| | - Nathalie Berthet
- Département de Chimie Moléculaire; UMR CNRS 5250, Université Joseph Fourier, 570 Rue de la chimie, BP 53; 38041 Grenoble cedex 9 France
| | - Pascal Dumy
- Institut des Biomolécules Max Mousseron (IBMM); UMR 5247, Université Montpellier 2, Ecole Nationale Supérieure de Chimie de Montpellier, 8 Rue de l'Ecole Normale; 34296 Montpellier cedex 5 France
| | - Yvonne Hed
- Division of Coating Technology; KTH The Royal Institute of Technology, School of Chemical Science and Engineering; Teknikringen 56-58 SE-10044 Stockholm Sweden
| | - Alberto Marra
- Institut des Biomolécules Max Mousseron (IBMM); UMR 5247, Université Montpellier 2, Ecole Nationale Supérieure de Chimie de Montpellier, 8 Rue de l'Ecole Normale; 34296 Montpellier cedex 5 France
| | - Michael Malkoch
- Division of Coating Technology; KTH The Royal Institute of Technology, School of Chemical Science and Engineering; Teknikringen 56-58 SE-10044 Stockholm Sweden
| | - Alessandro Dondoni
- Interdisciplinary Center for the Study of Inflammation, Università di Ferrara; Via Borsari 46 44100 Ferrara Italy
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Fiore M, Berthet N, Marra A, Gillon E, Dumy P, Dondoni A, Imberty A, Renaudet O. Tetravalent glycocyclopeptide with nanomolar affinity to wheat germ agglutinin. Org Biomol Chem 2014; 11:7113-22. [PMID: 24057055 DOI: 10.1039/c3ob41203b] [Citation(s) in RCA: 38] [Impact Index Per Article: 3.8] [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
A series of tetravalent glycocyclopeptides functionalized with GlcNAc was synthesized using copper(i)-catalysed alkyne-azide cycloaddition, oxime ligation and thiol-ene coupling. The binding ability of these compounds towards wheat germ agglutinin was studied by a competitive ELLA test and ITC experiments. While all compounds were able to inhibit WGA binding to GlcNAc-polymer coated surfaces at low concentrations, derivative 17 having an aliphatic spacer and thioether linkage was 4.9 × 10(6) times more potent on a per sugar basis than GlcNAc. This remarkably strong effect was confirmed by ITC experiments as these revealed an association constant of 9 nM for this compound, therefore presenting a gain of 200,000 times over GlcNAc. These results for compound 17 represent the highest binding properties reported for WGA.
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Affiliation(s)
- Michele Fiore
- Département de Chimie Moléculaire, UMR-CNRS 5250 & ICMG FR 2607, Université Joseph Fourier, BP 53, 38041 Grenoble Cedex 9, France.
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23
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Abstract
New types of glycopolymers have been designed and evaluated as multivalent systems for lectin recognition.
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Affiliation(s)
- Michele Fiore
- Département de Chimie Moléculaire
- CNRS-Université Joseph Fourier
- 38041 Grenoble Cedex 9
- France
| | - Nathalie Berthet
- Département de Chimie Moléculaire
- CNRS-Université Joseph Fourier
- 38041 Grenoble Cedex 9
- France
| | - Olivier Renaudet
- Département de Chimie Moléculaire
- CNRS-Université Joseph Fourier
- 38041 Grenoble Cedex 9
- France
- Institut Universitaire de France
| | - Valessa Barbier
- Département de Chimie Moléculaire
- CNRS-Université Joseph Fourier
- 38041 Grenoble Cedex 9
- France
- Université Paris-Est de Créteil
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Berthet N, Thomas B, Bossu I, Dufour E, Gillon E, Garcia J, Spinelli N, Imberty A, Dumy P, Renaudet O. High affinity glycodendrimers for the lectin LecB from Pseudomonas aeruginosa. Bioconjug Chem 2013; 24:1598-611. [PMID: 23888914 DOI: 10.1021/bc400239m] [Citation(s) in RCA: 47] [Impact Index Per Article: 4.3] [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
Following an iterative oxime ligation procedure, cyclopeptide (R) and lysine-based dendron (D) were combined in all possible arrangements and successively functionalized with α-fucose and β-fucose to provide a new series of hexadecavalent glycosylated scaffolds (i.e., scaffolds RD16, RR16, DR16, and DD16). These compounds and smaller analogs (tetra- and hexavalent scaffolds R4 and R6) were used to evaluate the influence of the ligand valency and architecture, and of the anomer configuration in the binding to the αFuc-specific lectin LecB from Pseudomonas aeruginosa . Competitive enzyme-linked lectin assays (ELLA) revealed that only the RD16 architecture displaying αFuc (9A) reaches strong binding improvement (IC50 of 0.6 nM) over αMeFuc, and increases the α-selectivity of LecB. Dissociation constant of 28 nM was measured by isothermal titration micorcalorimetry (ITC) for 9A, which represents the highest affinity ligand ever reported for LecB. ITC and molecular modeling suggested that the high affinity observed might be due to an aggregative chelate binding involving four sugar head groups and two lectins. Interestingly, unprecedented binding effects were observed with β-fucosylated conjugates, albeit being less active than the corresponding ligands of the αFuc series. In particular, the more flexible lysine-based dendritic structures (15B and 18B) showed a slight inhibitory enhancement in comparison with those having cyclopeptide core.
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Affiliation(s)
- Nathalie Berthet
- Département de Chimie Moléculaire, UMR-CNRS 5250 & ICMG FR 2607 , Université Joseph Fourier, BP 53, 38041 Grenoble Cedex 9, France
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25
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Marra A, Staderini S, Berthet N, Dumy P, Renaudet O, Dondoni A. Thiyl Glycosylation of Propargylated Octasilsesquioxane: Synthesis and Lectin-Binding Properties of Densely Glycosylated Clusters on a Cubic Platform. European J Org Chem 2013. [DOI: 10.1002/ejoc.201201453] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
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26
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Berthet N, Martel-Frachet V, Michel F, Philouze C, Hamman S, Ronot X, Thomas F. Nuclease and anti-proliferative activities of copper(ii) complexes of N3O tripodal ligands involving a sterically hindered phenolate. Dalton Trans 2013; 42:8468-83. [DOI: 10.1039/c3dt32659d] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
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27
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Thomas B, Berthet N, Garcia J, Dumy P, Renaudet O. Expanding the scope of oxime ligation: facile synthesis of large cyclopeptide-based glycodendrimers. Chem Commun (Camb) 2013; 49:10796-8. [DOI: 10.1039/c3cc45368e] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/11/2023]
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28
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Filippone C, Marianneau P, Murri S, Mollard N, Avsic-Zupanc T, Chinikar S, Desprès P, Caro V, Gessain A, Berthet N, Tordo N. Molecular diagnostic and genetic characterization of highly pathogenic viruses: application during Crimean-Congo haemorrhagic fever virus outbreaks in Eastern Europe and the Middle East. Clin Microbiol Infect 2012; 19:E118-28. [PMID: 23240764 PMCID: PMC3663000 DOI: 10.1111/1469-0691.12075] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.6] [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] [Received: 06/13/2012] [Revised: 08/24/2012] [Accepted: 09/03/2012] [Indexed: 01/15/2023]
Abstract
Several haemorrhagic fevers are caused by highly pathogenic viruses that must be handled in Biosafety level 4 (BSL–4) containment. These zoonotic infections have an important impact on public health and the development of a rapid and differential diagnosis in case of outbreak in risk areas represents a critical priority. We have demonstrated the potential of a DNA resequencing microarray (PathogenID v2.0) for this purpose. The microarray was first validated in vitro using supernatants of cells infected with prototype strains from five different families of BSL-4 viruses (e.g. families Arenaviridae, Bunyaviridae, Filoviridae, Flaviviridae and Paramyxoviridae). RNA was amplified based on isothermal amplification by Phi29 polymerase before hybridization. We were able to detect and characterize Nipah virus and Crimean–Congo haemorrhagic fever virus (CCHFV) in the brains of experimentally infected animals. CCHFV was finally used as a paradigm for epidemics because of recent outbreaks in Turkey, Kosovo and Iran. Viral variants present in human sera were characterized by BLASTN analysis. Sensitivity was estimated to be 105–106 PFU/mL of hybridized cDNA. Detection specificity was limited to viral sequences having ∼13–14% of global divergence with the tiled sequence, or stretches of ∼20 identical nucleotides. These results highlight the benefits of using the PathogenID v2.0 resequencing microarray to characterize geographical variants in the follow-up of haemorrhagic fever epidemics; to manage patients and protect communities; and in cases of bioterrorism.
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Affiliation(s)
- C Filippone
- Institut Pasteur, Unit of Epidemiology and Pathophysiology of Oncogenic Viruses, Paris, France
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29
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Berthet N, Paulous S, Coffey LL, Frenkiel MP, Moltini I, Tran C, Matheus S, Ottone C, Ungeheuer MN, Renaudat C, Caro V, Dussart P, Gessain A, Desprès P. Resequencing microarray method for molecular diagnosis of human arboviral diseases. J Clin Virol 2012; 56:238-43. [PMID: 23219893 DOI: 10.1016/j.jcv.2012.10.022] [Citation(s) in RCA: 16] [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] [Received: 10/01/2012] [Accepted: 10/31/2012] [Indexed: 12/29/2022]
Abstract
BACKGROUND Resequencing DNA microarray (RMA) technology uses probes designed to identify a panel of viral sequences. It can be used for detecting emerging viruses by revealing the nucleotide polymorphisms within the target of interest. OBJECTIVES/STUDY DESIGN As a new tool for molecular diagnosis of arbovirus infection, high density PathogenID v2.0 RMA (PID2-RMA) was assessed for the detection and genetic analysis of dengue, West Nile, and Chikungunya viruses in spiked blood samples or sera from individuals infected with dengue virus. Viral RNAs extracted from biological samples were retrotranscribed into cDNA and amplified using the Phi 29 polymerase-based method. This amplified cDNA was used for hybridization on PID2-RMA. RESULTS A good specificity of RMA-based detection was demonstrated using a panel of arboviruses including Dengue, West Nile and Chikungunya viruses. This technology was also efficient for the detection and genetic analysis of the different serotypes of dengue virus in sera of infected patients. Furthermore, the mixing of dengue, West Nile and Chikungunya prototype viruses within a single sample of human blood did not interfere with the sensitivity of PID2-RMA. CONCLUSIONS Our data show that high density PID2-RMA was suitable for the identification of medically important arboviruses. It appears to be particularly adapted to the genetic analysis of dengue, West Nile, and Chikungunya viruses in urgent clinical situations where the rapid identification and characterization of the pathogen is essential.
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Affiliation(s)
- N Berthet
- Institut Pasteur, Epidemiology and Physiopathology of Oncogenic Viruses Unit, 28 rue du Docteur Roux, F75015 Paris, France
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30
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Lo Conte M, Staderini S, Chambery A, Berthet N, Dumy P, Renaudet O, Marra A, Dondoni A. Glycoside and peptide clustering around the octasilsesquioxane scaffold via photoinduced free-radical thiol–ene coupling. The observation of a striking glycoside cluster effect. Org Biomol Chem 2012; 10:3269-77. [DOI: 10.1039/c2ob07078b] [Citation(s) in RCA: 54] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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31
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Affiliation(s)
- Isabelle Bossu
- a Département de Chimie Moléculaire, UMR-CNRS 5250 & ICMG FR 2607 , Université Joseph Fourier , 570 rue de la chimie, BP 53, 38041 , Grenoble Cedex 9 , France
| | - Nathalie Berthet
- a Département de Chimie Moléculaire, UMR-CNRS 5250 & ICMG FR 2607 , Université Joseph Fourier , 570 rue de la chimie, BP 53, 38041 , Grenoble Cedex 9 , France
| | - Pascal Dumy
- a Département de Chimie Moléculaire, UMR-CNRS 5250 & ICMG FR 2607 , Université Joseph Fourier , 570 rue de la chimie, BP 53, 38041 , Grenoble Cedex 9 , France
| | - Olivier Renaudet
- a Département de Chimie Moléculaire, UMR-CNRS 5250 & ICMG FR 2607 , Université Joseph Fourier , 570 rue de la chimie, BP 53, 38041 , Grenoble Cedex 9 , France
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32
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Bossu I, Šulc M, Křenek K, Dufour E, Garcia J, Berthet N, Dumy P, Křen V, Renaudet O. Dendri-RAFTs: a second generation of cyclopeptide-based glycoclusters. Org Biomol Chem 2011; 9:1948-59. [PMID: 21221455 DOI: 10.1039/c0ob00772b] [Citation(s) in RCA: 39] [Impact Index Per Article: 3.0] [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
Synthetic glycoclusters and their related biological applications have stimulated increasing interest over the last decade. As a prerequisite to discovering active and selective therapeuticals, the development of multivalent glycoconjugates with diverse topologies is faced with inherent synthetic and structural characterisation difficulties. Here we describe a new series of molecularly-defined glycoclusters that were synthesized in a controlled manner using a robust and versatile divergent protocol. Starting from a Regioselectively Addressable Functionalized Template (RAFT) carrier, either a polylysine dendritic framework or a second RAFT, then 16 copies of βGal, αMan, βLac or cancer-related Thomsen-Freidenreich (αTF) antigen were successively conjugated within the same molecule using oxime chemistry. We thus obtained a new generation of dendri-RAFTs glycoclusters with high glycosidic density and variable spatial organizations. These compounds displaying 16 endgroups were unambiguously characterized by NMR spectroscopy and mass spectrometry. Further biological assays between a model lectin from Canavalia ensiformis (ConA) and mannosylated glycoclusters revealed a higher inhibition potency than the tetravalent counterpart, in particular for the hexadecavalent polylysine skeleton. Together with the efficiency of the synthetic and characterisation processes, this preliminary biological study provided clear evidence of promising properties that make the second generation of cyclopeptide-based glycoclusters attractive for biomedical applications.
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Affiliation(s)
- Isabelle Bossu
- Département de Chimie Moléculaire, UMR CNRS 5250 and ICMG FR 2607, Université Joseph Fourier, BP53, 38041 Grenoble Cedex 9, France
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Berthet N, Crey-Desbiolles C, Kotera M, Dumy P. Chemical synthesis, DNA incorporation and biological study of a new photocleavable 2'-deoxyadenosine mimic. Nucleic Acids Res 2009; 37:5237-45. [PMID: 19586934 PMCID: PMC2760783 DOI: 10.1093/nar/gkp562] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [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: 01/26/2023] Open
Abstract
The phototriggered cleavage of chemical bonds has found numerous applications in biology, particularly in the field of gene sequencing through photoinduced DNA strand scission. However, only a small number of modified nucleosides that are able to cleave DNA at selected positions have been reported in the literature. Herein, we show that a new photoactivable deoxyadenosine analogue, 3-nitro-3-deaza-2'-deoxyadenosine (d(3-NiA)), was able to induce DNA backbone breakage upon irradiation (lambda > 320 nm). The d(3-NiA) nucleoside was chemically incorporated at desired positions into 40-mer oligonucleotides as a phosphoramidite monomer and subsequent hybridization studies confirmed that the resulting modified duplexes display a behaviour that is close to that of the related natural sequence. Enzymatic action of the Klenow fragment exonuclease free revealed the preferential incorporation of dAMP opposite the 3-NiA base. On the other hand, incorporation of the analogous 3-NiA triphosphate to a primer revealed high enzyme efficiency and selectivity for insertion opposite thymine. Furthermore, only the enzymatically synthesized base pair 3-NiA:T was a substrate for further extension by the enzyme. All the hybridization and enzymatic data indicate that this new photoactivable 3-NiA triphosphate can be considered as a photochemically cleavable dATP analogue.
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Affiliation(s)
- Nathalie Berthet
- Département de Chimie Moléculaire-Equipe Ingénierie et Interactions BioMoléculaires, UMR-5250, ICMG FR-2607, CNRS, Université Joseph Fourier, BP53, 38041 Grenoble Cedex 9, France.
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Teulade-Fichou MP, Vigneron JP, Lehn JM, Berthet N, Michon J, Garcia J, Jourdan M, Lhomme J. Specific Recognition and Stabilization of an Abasic Site-Containing DNA Duplex by a Macrocyclic Bisacridine. ACTA ACUST UNITED AC 2006. [DOI: 10.1080/07328319908044714] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
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Crey-Desbiolles C, Berthet N, Kotera M, Dumy P. Hybridization properties and enzymatic replication of oligonucleotides containing the photocleavable 7-nitroindole base analog. Nucleic Acids Res 2005; 33:1532-43. [PMID: 15767278 PMCID: PMC1065254 DOI: 10.1093/nar/gki293] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023] Open
Abstract
Universal DNA base analogs having photocleavable properties would be of great interest for development of new nucleic acid fragmentation tools. The photocleavable 7-nitroindole 2'-deoxyribonucleoside d(7-Ni) was previously shown to furnish a highly efficient approach to photochemically trigger DNA backbone cleavage at preselected position when inserted in a DNA fragment. In the present report, we examine its potential use as universal DNA nucleoside, by analogy with the 5-nitroindole analog that is generally considered as universal base. The d(7-Ni) phosphoramidite was incorporated into oligonucleotides. Hybridization properties of resulting 11mer duplexes indicated a behavior close to that of the 5-nitroindole analog. Enzymatic recognition by Klenow fragment exonuclease-free using 40mers containing the unnatural bases as templates indicated notably a decrease of the polymerase activity with preferential incorporation of dAMP opposite both the 7-Ni and 5-Ni bases. Incorporation of the d(7-Ni) triphosphate was also studied indicating absence of significant differences between the incorporation kinetics opposite each natural base in the template. All the hybridization and enzymatic data indicate that 7-nitroindole can be considered as a cleavable base analog, although not strictly fulfilling, like the 5-nitro isomer, all properties required for a universal base.
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Affiliation(s)
| | - Nathalie Berthet
- To whom correspondence should be addressed. Tel: +33 476 514430; Fax: +33 476 514946;
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Berthet N, Faure O, Bakri A, Ambroise-Thomas P, Grillot R, Brugère JF. In vitro susceptibility of Aspergillus spp. clinical isolates to albendazole. J Antimicrob Chemother 2003; 51:1419-22. [PMID: 12716778 DOI: 10.1093/jac/dkg245] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
The in vitro antifungal activity of albendazole, a benzimidazole widely used as an antihelmintic drug in humans, was investigated and assessed for its activity against Aspergillus spp. Forty-eight isolates, representing the most frequent species found in human pathology [Aspergillus fumigatus (n = 27), Aspergillus flavus (n = 10), Aspergillus terreus (n = 7), Aspergillus nidulans (n = 3) and Aspergillus niger (n = 1)], and one quality control strain (A. niger ATCC 9804 83435) were tested according to the NCCLS M38-P methodology for moulds. All the strains were susceptible to albendazole, with homogeneous MICs for each species; three strains were resistant to itraconazole.
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Affiliation(s)
- N Berthet
- Laboratoire Interactions Cellulaires Parasite-Hôte ICPH, Faculté de Médecine et Pharmacie, Université Joseph Fourier, F-38706 La Tronche, France
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Berthet N, Roupioz Y, Constant JF, Kotera M, Lhomme J. Translesional synthesis on DNA templates containing the 2'-deoxyribonolactone lesion. Nucleic Acids Res 2001; 29:2725-32. [PMID: 11433017 PMCID: PMC55770 DOI: 10.1093/nar/29.13.2725] [Citation(s) in RCA: 17] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
Abstract
A site-specifically modified oligonucleotide containing a single 2'-deoxyribonolactone lesion was used as a template for primer extension reactions catalyzed by M-MuLV reverse transcriptase (RT) and by the Klenow fragments of Escherichia coli DNA polymerase proficient (KF exo(+)) or deficient (KF exo(-)) in exonuclease activity. Analysis of the extension products in the presence of the four dNTPs or of a single dNTP showed that the M-MuLV RT was completely blocked and did not incorporate any dNMP opposite 2'-deoxyribonolactone. KF exo(-) preferentially incorporated nucleotides opposite the lesion following the frequency order dAMP > dGMP >> dTMP approximately dCMP and thus appeared to obey the 'A rule' for preferential incorporation as has been shown previously for the 2'-deoxyribose abasic site. In the sequence context examined, the primer extension by KF exo(-) appeared to be less efficient when dAMP was positioned opposite the lesion as compared with dTMP or dGMP. These two nucleotides promoted a more efficient polymerization accompanied by nucleotide deletion through misalignment incorporations. We therefore predict that the sequence context may strongly influence the translesional synthesis by KF exo(-) and thus the miscoding and mutational potential of the 2'-deoxyribonolactone in E.coli.
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Affiliation(s)
- N Berthet
- LEDSS, Chimie Bioorganique, UMR CNRS 5616, Université Joseph Fourier, BP 53, 38041 Grenoble Cedex 9, France.
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Abstract
Abasic sites in DNA have been specifically targeted by synthetic compounds able to cleave DNA at abasic sites and to induce photodamages in the vicinity of the lesion. The synthesis and the photoactivity of the drugs on abasic sites containing DNA and oligonucleotides are reported.
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Affiliation(s)
- A Martelli
- LEDSS, Chimie Bioorganique, UMR CNRS 5616, Université Joseph Fourier, Grenoble, France
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Berthet N, Constant JF, Demeunynck M, Michon P, Lhomme J. Search for DNA repair inhibitors: selective binding of nucleic bases-acridine conjugates to a DNA duplex containing an abasic site. J Med Chem 1997; 40:3346-52. [PMID: 9341909 DOI: 10.1021/jm970225t] [Citation(s) in RCA: 27] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/05/2023]
Abstract
The abasic site is one of the most frequent DNA lesions generated by spontaneous or enzymatic cleavage of the N-glycosidic bond. The abasic site is also an intermediate in the nucleotide and base excision DNA repair. We examined molecules which recognize and cleave DNA at the abasic site with high efficiency. These molecules incorporate in their structure a nucleic base for abasic site recognition, an intercalator for DNA binding, and a polyamino linker for ionic interaction and DNA cleavage. Such compounds, by interfering with abasic sites in DNA, are also inhibitors of DNA repair. In order to better understand the parameters of the interaction, we carried out a UV thermal denaturation study of synthetic oligonucleotides containing the lesion both in the absence and in the presence of the drugs. A similar study was also carried out using the corresponding nonmodified oligonucleotide. The results indicate selective binding of the base-chain-intercalator conjugates to the abasic site containing oligonucleotides.
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Affiliation(s)
- N Berthet
- L.E.D.S.S., Chimie Bioorganique, UMR CNRS 5616, Université Joseph Fourier, Grenoble, France
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Coppel Y, Berthet N, Coulombeau C, Coulombeau C, Garcia J, Lhomme J. Solution conformation of an abasic DNA undecamer duplex d(CGCACXCACGC) x d(GCGTGTGTGCG): the unpaired thymine stacks inside the helix. Biochemistry 1997; 36:4817-30. [PMID: 9125502 DOI: 10.1021/bi962677y] [Citation(s) in RCA: 60] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/04/2023]
Abstract
The three-dimensional structural analysis of DNA undecamer 5'd(C1G2C3A4C5X6C7A8C9G10C11)3', 3'd(G22C21G20T19G18T17G16T15G14C13G12)5' duplex in which the X residue is a modified abasic site [3-hydroxy-2-(hydroxymethyl)tetrahydrofuran] has been performed using NOESY, DQFCOSY, TOCSY, and 31P-1H HSQC-TOCSY spectra in relation with molecular dynamics simulations. A total of 249 distances and 224 dihedral angles were used for construction. The optimal distances were calculated using the complete relaxation matrix method from hybrid matrices which were built with the experimental NOE intensities and additional data derived from either standard A- or B-DNA. Six independent refined structures starting from canonical A- and B-DNA were determined on the basis of the NMR data, and all converged to a single family with average rms deviations below 0.6 A and final NOE Rx factors of 0.055 +/- 0.03. A satisfactory agreement was obtained between measured NOE intensities and those resulting from full relaxation matrix calculations. A single intrahelical form of right-handed DNA duplex is observed; the aromatic base of residue T17 opposite the abasic site is stacked inside the helix. No clear correlation was detected between the C5 and C7 residues, excluding their proximity and the looping out of the abasic site. The abasic site induces a kink of about 30 degrees in the DNA duplex. This kink allows the formation of a bifurcated hydrogen bond between the amino protons of C5 and the O4 oxygen of T17. A detailed analysis of the final structures and their comparison with previous studies of abasic site lesions are described.
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Affiliation(s)
- Y Coppel
- LEDSS, Chimie Bioorganique, UMR CNRS 5616, Université Joseph Fourier, Grenoble, France
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Berthet N, Boudali A, Constant JF, Decout JL, Demeunynck M, Fkyerat A, Garcia J, Laayoun A, Michon P, Lhomme J. Design of molecules that specifically recognize and cleave apurinic sites in DNA. J Mol Recognit 1994; 7:99-107. [PMID: 7826679 DOI: 10.1002/jmr.300070207] [Citation(s) in RCA: 29] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/27/2023]
Abstract
We have prepared a series of tailor-made molecules that recognize and cleave DNA at apurinic sites in vitro. These molecules incorporate in their structure different units designed for specific function: an intercalator for DNA binding, a nucleic base for abasic site recognition and a linking chain of variable length and nature (including amino and/or amido functions). The cleavage efficiency of the molecules can be modulated by varying successively the nature of the intercalating agent, the nucleic base and the chain. All molecules bind to native calf thymus DNA with binding constants ranging from 10(4) to 10(6) M-1. Their cleavage activity was determined on plasmid DNA (pBR 322) containing 1.8 AP-sites per DNA-molecule. The minimum requirements for cleavage are the presence of the three units, the intercalator, the nucleic base and at least one amino function in the chain. The most efficient molecules cleave plasmid DNA at nanomolar concentrations. Enzymatic experiments on the termini generated after cleavage of AP-DNA suggest a strand break induced by a beta-elimination reaction. In order to get insight into the mode of action (efficiency, selectivity, interaction), we have used synthetic oligonucleotides containing either a true abasic site at a determined position to analyse the cleavage parameters of the synthetic molecules by HPLC or a chemically stable analog (tetrahydrofuran) of the abasic site for high field 1H NMR spectrometry and footprinting experiments. All results are consistent with a beta-elimination mechanism in which each constituent of the molecule exerts a specific function as indicated in the scheme: DNA targeting, abasic site recognition, phosphate binding and beta-elimination catalysis.(ABSTRACT TRUNCATED AT 250 WORDS)
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Affiliation(s)
- N Berthet
- L.E.D.S.S., URA CNRS 332, Université Joseph Fourier, Grenoble, France
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