51
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Bouvier B. Optimizing the Multivalent Binding of the Bacterial Lectin LecA by Glycopeptide Dendrimers for Therapeutic Purposes. J Chem Inf Model 2016; 56:1193-204. [DOI: 10.1021/acs.jcim.6b00146] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Affiliation(s)
- Benjamin Bouvier
- Laboratoire de Glycochimie,
des Antimicrobiens et des Agroressources, CNRS UMR7378/Université de Picardie Jules Verne, 10 rue Baudelocque, 80039 Amiens Cedex, France
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52
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Sommer R, Wagner S, Varrot A, Nycholat CM, Khaledi A, Häussler S, Paulson JC, Imberty A, Titz A. The virulence factor LecB varies in clinical isolates: consequences for ligand binding and drug discovery. Chem Sci 2016; 7:4990-5001. [PMID: 30155149 PMCID: PMC6018602 DOI: 10.1039/c6sc00696e] [Citation(s) in RCA: 39] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/15/2016] [Accepted: 05/05/2016] [Indexed: 01/18/2023] Open
Abstract
P. aeruginosa causes a substantial number of nosocomial infections and is the leading cause of death of cystic fibrosis patients. This Gram-negative bacterium is highly resistant against antibiotics and further protects itself by forming a biofilm. Moreover, a high genomic variability among clinical isolates complicates therapy. Its lectin LecB is a virulence factor and necessary for adhesion and biofilm formation. We analyzed the sequence of LecB variants in a library of clinical isolates and demonstrate that it can serve as a marker for strain family classification. LecB from the highly virulent model strain PA14 presents 13% sequence divergence with LecB from the well characterized PAO1 strain. These differences might result in differing ligand binding specificities and ultimately in reduced efficacy of drugs directed towards LecB. Despite several amino acid variations at the carbohydrate binding site, glycan array analysis showed a comparable binding pattern for both variants. A common high affinity ligand could be identified and after its chemoenzymatic synthesis verified in a competitive binding assay: an N-glycan presenting two blood group O epitopes (H-type 2 antigen). Molecular modeling of the complex suggests a bivalent interaction of the ligand with the LecB tetramer by bridging two separate binding sites. This binding rationalizes the strong avidity (35 nM) of LecBPA14 to this human fucosylated N-glycan. Biochemical evaluation of a panel of glycan ligands revealed that LecBPA14 demonstrated higher glycan affinity compared to LecBPAO1 including the extraordinarily potent affinity of 70 nM towards the monovalent human antigen Lewisa. The structural basis of this unusual high affinity ligand binding for lectins was rationalized by solving the protein crystal structures of LecBPA14 with several glycans.
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Affiliation(s)
- Roman Sommer
- Chemical Biology of Carbohydrates , Helmholtz Institute for Pharmaceutical Research Saarland (HIPS) , D-66123 Saarbrücken , Germany . ; http://www.helmholtz-hzi.de/cbch.,Deutsches Zentrum für Infektionsforschung (DZIF) , Standort Hannover , Braunschweig , Germany
| | - Stefanie Wagner
- Chemical Biology of Carbohydrates , Helmholtz Institute for Pharmaceutical Research Saarland (HIPS) , D-66123 Saarbrücken , Germany . ; http://www.helmholtz-hzi.de/cbch.,Deutsches Zentrum für Infektionsforschung (DZIF) , Standort Hannover , Braunschweig , Germany
| | - Annabelle Varrot
- Centre de Recherche sur les Macromolécules Végétales (CERMAV-UPR5301) , CNRS and Université Grenoble Alpes , BP53 , F-38041 Grenoble cedex 9 , France
| | - Corwin M Nycholat
- Department of Cell and Molecular Biology and Department of Chemical Physiology , The Scripps Research Institute , 10550 North Torrey Pines Road , La Jolla , CA 92037 , USA
| | - Ariane Khaledi
- Molecular Bacteriology , Helmholtz Centre for Infection Research , D-38124 Braunschweig , Germany
| | - Susanne Häussler
- Molecular Bacteriology , Helmholtz Centre for Infection Research , D-38124 Braunschweig , Germany
| | - James C Paulson
- Department of Cell and Molecular Biology and Department of Chemical Physiology , The Scripps Research Institute , 10550 North Torrey Pines Road , La Jolla , CA 92037 , USA
| | - Anne Imberty
- Centre de Recherche sur les Macromolécules Végétales (CERMAV-UPR5301) , CNRS and Université Grenoble Alpes , BP53 , F-38041 Grenoble cedex 9 , France
| | - Alexander Titz
- Chemical Biology of Carbohydrates , Helmholtz Institute for Pharmaceutical Research Saarland (HIPS) , D-66123 Saarbrücken , Germany . ; http://www.helmholtz-hzi.de/cbch.,Deutsches Zentrum für Infektionsforschung (DZIF) , Standort Hannover , Braunschweig , Germany
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53
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Huang ML, Fisher CJ, Godula K. Glycomaterials for probing host-pathogen interactions and the immune response. Exp Biol Med (Maywood) 2016; 241:1042-53. [PMID: 27190259 DOI: 10.1177/1535370216647811] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023] Open
Abstract
The initial engagement of host cells by pathogens is often mediated by glycan structures presented on the cell surface. Various components of the glycocalyx can be targeted by pathogens for adhesion to facilitate infection. Glycans also play integral roles in the modulation of the host immune response to infection. Therefore, understanding the parameters that define glycan interactions with both pathogens and the various components of the host immune system can aid in the development of strategies to prevent, interrupt, or manage infection. Glycomaterials provide a unique and powerful tool with which to interrogate the compositional and functional complexity of the glycocalyx. The objective of this review is to highlight some key contributions from this area of research in deciphering the mechanisms of pathogenesis and the associated host response.
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Affiliation(s)
- Mia L Huang
- Department of Chemistry and Biochemistry, University of California-San Diego, La Jolla, CA 92093, USA
| | - Christopher J Fisher
- Department of Chemistry and Biochemistry, University of California-San Diego, La Jolla, CA 92093, USA
| | - Kamil Godula
- Department of Chemistry and Biochemistry, University of California-San Diego, La Jolla, CA 92093, USA
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54
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Ligeour C, Vidal O, Dupin L, Casoni F, Gillon E, Meyer A, Vidal S, Vergoten G, Lacroix JM, Souteyrand E, Imberty A, Vasseur JJ, Chevolot Y, Morvan F. Mannose-centered aromatic galactoclusters inhibit the biofilm formation of Pseudomonas aeruginosa. Org Biomol Chem 2016; 13:8433-44. [PMID: 26090586 DOI: 10.1039/c5ob00948k] [Citation(s) in RCA: 33] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/24/2023]
Abstract
Pseudomonas aeruginosa (PA) is a major public health care issue due to its ability to develop antibiotic resistance mainly through adhesion and biofilm formation. Therefore, targeting the bacterial molecular arsenal involved in its adhesion and the formation of its biofilm appears as a promising tool against this pathogen. The galactose-binding LecA (or PA-IL) has been described as one of the PA virulence factors involved in these processes. Herein, the affinity of three tetravalent mannose-centered galactoclusters toward LecA was evaluated with five different bioanalytical methods: HIA, ELLA, SPR, ITC and DNA-based glycoarray. Inhibitory potential towards biofilms was then assessed for the two glycoclusters with highest affinity towards LecA (Kd values of 157 and 194 nM from ITC measurements). An inhibition of biofilm formation of 40% was found for these galactoclusters at 10 μM concentration. Applications of these macromolecules in anti-bacterial therapy are therefore possible through an anti-adhesive strategy.
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Affiliation(s)
- Caroline Ligeour
- Institut des Biomolécules Max Mousseron (IBMM), UMR 5247 CNRS, Université de Montpellier, ENSCM, place Eugène Bataillon, CC1704, 34095 Montpellier Cedex 5, France.
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55
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Machida T, Winssinger N. One-Step Derivatization of Reducing Oligosaccharides for Rapid and Live-Cell-Compatible Chelation-Assisted CuAAC Conjugation. Chembiochem 2016; 17:811-5. [DOI: 10.1002/cbic.201600003] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/05/2016] [Indexed: 12/21/2022]
Affiliation(s)
- Takuya Machida
- Department of Organic Chemistry; NCCR Chemical Biology; University of Geneva; 30 quai Ernest Ansermet 1211 Geneva Switzerland
| | - Nicolas Winssinger
- Department of Organic Chemistry; NCCR Chemical Biology; University of Geneva; 30 quai Ernest Ansermet 1211 Geneva Switzerland
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56
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Yang Z, Xu W, Wu Q, Xu J. Aminoxidation of Arenethiols to N-Chloro-N-sulfonyl Sulfinamides. J Org Chem 2016; 81:3051-7. [DOI: 10.1021/acs.joc.6b00261] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Zhanhui Yang
- State Key Laboratory
of Chemical
Resource Engineering, Department of Organic Chemistry, Faculty of
Science, Beijing University of Chemical Technology, Beijing 100029, People’s Republic of China
| | - Wei Xu
- State Key Laboratory
of Chemical
Resource Engineering, Department of Organic Chemistry, Faculty of
Science, Beijing University of Chemical Technology, Beijing 100029, People’s Republic of China
| | - Qiuyue Wu
- State Key Laboratory
of Chemical
Resource Engineering, Department of Organic Chemistry, Faculty of
Science, Beijing University of Chemical Technology, Beijing 100029, People’s Republic of China
| | - Jiaxi Xu
- State Key Laboratory
of Chemical
Resource Engineering, Department of Organic Chemistry, Faculty of
Science, Beijing University of Chemical Technology, Beijing 100029, People’s Republic of China
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57
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Wagner S, Sommer R, Hinsberger S, Lu C, Hartmann RW, Empting M, Titz A. Novel Strategies for the Treatment of Pseudomonas aeruginosa Infections. J Med Chem 2016; 59:5929-69. [DOI: 10.1021/acs.jmedchem.5b01698] [Citation(s) in RCA: 176] [Impact Index Per Article: 22.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Affiliation(s)
- Stefanie Wagner
- Chemical
Biology of Carbohydrates, Helmholtz Institute for Pharmaceutical Research Saarland (HIPS), D-66123 Saarbrücken, Germany
- Deutsches Zentrum für Infektionsforschung (DZIF), 30625 Standort Hannover-Braunschweig, Germany
| | - Roman Sommer
- Chemical
Biology of Carbohydrates, Helmholtz Institute for Pharmaceutical Research Saarland (HIPS), D-66123 Saarbrücken, Germany
- Deutsches Zentrum für Infektionsforschung (DZIF), 30625 Standort Hannover-Braunschweig, Germany
| | - Stefan Hinsberger
- Deutsches Zentrum für Infektionsforschung (DZIF), 30625 Standort Hannover-Braunschweig, Germany
- Drug
Design and Optimization, Helmholtz Institute for Pharmaceutical Research Saarland (HIPS), D-66123 Saarbrücken, Germany
| | - Cenbin Lu
- Deutsches Zentrum für Infektionsforschung (DZIF), 30625 Standort Hannover-Braunschweig, Germany
- Drug
Design and Optimization, Helmholtz Institute for Pharmaceutical Research Saarland (HIPS), D-66123 Saarbrücken, Germany
| | - Rolf W. Hartmann
- Deutsches Zentrum für Infektionsforschung (DZIF), 30625 Standort Hannover-Braunschweig, Germany
- Drug
Design and Optimization, Helmholtz Institute for Pharmaceutical Research Saarland (HIPS), D-66123 Saarbrücken, Germany
| | - Martin Empting
- Deutsches Zentrum für Infektionsforschung (DZIF), 30625 Standort Hannover-Braunschweig, Germany
- Drug
Design and Optimization, Helmholtz Institute for Pharmaceutical Research Saarland (HIPS), D-66123 Saarbrücken, Germany
| | - Alexander Titz
- Chemical
Biology of Carbohydrates, Helmholtz Institute for Pharmaceutical Research Saarland (HIPS), D-66123 Saarbrücken, Germany
- Deutsches Zentrum für Infektionsforschung (DZIF), 30625 Standort Hannover-Braunschweig, Germany
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58
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Cott C, Thuenauer R, Landi A, Kühn K, Juillot S, Imberty A, Madl J, Eierhoff T, Römer W. Pseudomonas aeruginosa lectin LecB inhibits tissue repair processes by triggering β-catenin degradation. BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH 2016; 1863:1106-18. [PMID: 26862060 PMCID: PMC4859328 DOI: 10.1016/j.bbamcr.2016.02.004] [Citation(s) in RCA: 28] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 08/16/2015] [Revised: 01/31/2016] [Accepted: 02/05/2016] [Indexed: 01/08/2023]
Abstract
Pseudomonas aeruginosa is an opportunistic pathogen that induces severe lung infections such as ventilator-associated pneumonia and acute lung injury. Under these conditions, the bacterium diminishes epithelial integrity and inhibits tissue repair mechanisms, leading to persistent infections. Understanding the involved bacterial virulence factors and their mode of action is essential for the development of new therapeutic approaches. In our study we discovered a so far unknown effect of the P. aeruginosa lectin LecB on host cell physiology. LecB alone was sufficient to attenuate migration and proliferation of human lung epithelial cells and to induce transcriptional activity of NF-κB. These effects are characteristic of impaired tissue repair. Moreover, we found a strong degradation of β-catenin, which was partially recovered by the proteasome inhibitor lactacystin. In addition, LecB induced loss of cell-cell contacts and reduced expression of the β-catenin targets c-myc and cyclin D1. Blocking of LecB binding to host cell plasma membrane receptors by soluble l-fucose prevented these changes in host cell behavior and signaling, and thereby provides a powerful strategy to suppress LecB function. Our findings suggest that P. aeruginosa employs LecB as a virulence factor to induce β-catenin degradation, which then represses processes that are directly linked to tissue recovery.
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Affiliation(s)
- Catherine Cott
- Faculty of Biology, Schänzlestraße 1, Albert-Ludwigs-University Freiburg, 79104 Freiburg, Germany; BIOSS Centre for Biological Signalling Studies, Schänzlestraße 18, Albert-Ludwigs-University Freiburg, 79104 Freiburg, Germany
| | - Roland Thuenauer
- Faculty of Biology, Schänzlestraße 1, Albert-Ludwigs-University Freiburg, 79104 Freiburg, Germany; BIOSS Centre for Biological Signalling Studies, Schänzlestraße 18, Albert-Ludwigs-University Freiburg, 79104 Freiburg, Germany
| | - Alessia Landi
- Faculty of Biology, Schänzlestraße 1, Albert-Ludwigs-University Freiburg, 79104 Freiburg, Germany; BIOSS Centre for Biological Signalling Studies, Schänzlestraße 18, Albert-Ludwigs-University Freiburg, 79104 Freiburg, Germany
| | - Katja Kühn
- Faculty of Biology, Schänzlestraße 1, Albert-Ludwigs-University Freiburg, 79104 Freiburg, Germany; BIOSS Centre for Biological Signalling Studies, Schänzlestraße 18, Albert-Ludwigs-University Freiburg, 79104 Freiburg, Germany
| | - Samuel Juillot
- Faculty of Biology, Schänzlestraße 1, Albert-Ludwigs-University Freiburg, 79104 Freiburg, Germany; BIOSS Centre for Biological Signalling Studies, Schänzlestraße 18, Albert-Ludwigs-University Freiburg, 79104 Freiburg, Germany; Spemann Graduate School of Biology and Medicine (SGBM), Albert-Ludwigs-University Freiburg, Albertstraße 19, 79104 Freiburg, Germany
| | - Anne Imberty
- Centre de Recherches sur les Macromolécules Végétales, UPR5301 CNRS and University of Grenoble Alpes, BP53, 38041 Grenoble cédex 09, France
| | - Josef Madl
- Faculty of Biology, Schänzlestraße 1, Albert-Ludwigs-University Freiburg, 79104 Freiburg, Germany; BIOSS Centre for Biological Signalling Studies, Schänzlestraße 18, Albert-Ludwigs-University Freiburg, 79104 Freiburg, Germany
| | - Thorsten Eierhoff
- Faculty of Biology, Schänzlestraße 1, Albert-Ludwigs-University Freiburg, 79104 Freiburg, Germany; BIOSS Centre for Biological Signalling Studies, Schänzlestraße 18, Albert-Ludwigs-University Freiburg, 79104 Freiburg, Germany
| | - Winfried Römer
- Faculty of Biology, Schänzlestraße 1, Albert-Ludwigs-University Freiburg, 79104 Freiburg, Germany; BIOSS Centre for Biological Signalling Studies, Schänzlestraße 18, Albert-Ludwigs-University Freiburg, 79104 Freiburg, Germany; Spemann Graduate School of Biology and Medicine (SGBM), Albert-Ludwigs-University Freiburg, Albertstraße 19, 79104 Freiburg, Germany.
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59
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Zambaldo C, Daguer JP, Saarbach J, Barluenga S, Winssinger N. Screening for covalent inhibitors using DNA-display of small molecule libraries functionalized with cysteine reactive moieties. MEDCHEMCOMM 2016. [DOI: 10.1039/c6md00242k] [Citation(s) in RCA: 45] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Abstract
Discriminating between non-covalent and covalent inhibitors with SDS wash in microarray-based screen.
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Affiliation(s)
- C. Zambaldo
- Department of Organic Chemistry
- NCCR Chemical Biology
- University of Geneva
- Switzerland
| | - J.-P. Daguer
- Department of Organic Chemistry
- NCCR Chemical Biology
- University of Geneva
- Switzerland
| | - J. Saarbach
- Department of Organic Chemistry
- NCCR Chemical Biology
- University of Geneva
- Switzerland
| | - S. Barluenga
- Department of Organic Chemistry
- NCCR Chemical Biology
- University of Geneva
- Switzerland
| | - N. Winssinger
- Department of Organic Chemistry
- NCCR Chemical Biology
- University of Geneva
- Switzerland
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60
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Novel PTP1B inhibitors identified by DNA display of fragment pairs. Bioorg Med Chem Lett 2015; 26:1080-1085. [PMID: 26691757 DOI: 10.1016/j.bmcl.2015.11.102] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/23/2015] [Revised: 11/27/2015] [Accepted: 11/28/2015] [Indexed: 12/15/2022]
Abstract
DNA display of PNA-encoded libraries was used to pair fragments containing different phosphotyrosine surrogates with diverse triazoles. Microarray-based screening of the combinatorially paired fragment sets (62,500 combinations) against a prototypical phosphatase, PTP1B, was used to identify the fittest fragments. A focused library (10,000 members) covalently pairing identified fragments with linkers of different length and geometry was synthesized. Screening of the focused library against PTP1B and closely related TCPTP revealed orthogonal inhibitors. The selectivity of the identified inhibitors for PTP1B versus TCPT was confirmed by enzymatic inhibition assay.
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61
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Visini R, Jin X, Bergmann M, Michaud G, Pertici F, Fu O, Pukin A, Branson TR, Thies-Weesie DME, Kemmink J, Gillon E, Imberty A, Stocker A, Darbre T, Pieters RJ, Reymond JL. Structural Insight into Multivalent Galactoside Binding to Pseudomonas aeruginosa Lectin LecA. ACS Chem Biol 2015; 10:2455-62. [PMID: 26295304 DOI: 10.1021/acschembio.5b00302] [Citation(s) in RCA: 43] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Multivalent galactosides inhibiting Pseudomonas aeruginosa biofilms may help control this problematic pathogen. To understand the binding mode of tetravalent glycopeptide dendrimer GalAG2 [(Gal-β-OC6H4CO-Lys-Pro-Leu)4(Lys-Phe-Lys-Ile)2Lys-His-Ile-NH2] to its target lectin LecA, crystal structures of LecA complexes with divalent analog GalAG1 [(Gal-β-OC6H4CO-Lys-Pro-Leu)2Lys-Phe-Lys-Ile-NH2] and related glucose-triazole linked bis-galactosides 3u3 [Gal-β-O(CH2)n-(C2HN3)-4-Glc-β-(C2HN3)-[β-Glc-4-(N3HC2)]2-(CH2)n-O-β-Gal (n = 1)] and 5u3 (n = 3) were obtained, revealing a chelate bound 3u3, cross-linked 5u3, and monovalently bound GalAG1. Nevertheless, a chelate bound model better explaining their strong LecA binding and the absence of lectin aggregation was obtained by modeling for all three ligands. A model of the chelate bound GalAG2·LecA complex was also obtained rationalizing its unusually tight LecA binding (KD = 2.5 nM) and aggregation by lectin cross-linking. The very weak biofilm inhibition with divalent LecA inhibitors suggests that lectin aggregation is necessary for biofilm inhibition by GalAG2, pointing to multivalent glycoclusters as a unique opportunity to control P. aeruginosa biofilms.
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Affiliation(s)
- Ricardo Visini
- Department
of Chemistry and Biochemistry, University of Berne, Freiestrasse
3, 3012 Berne, Switzerland
| | - Xian Jin
- Department
of Chemistry and Biochemistry, University of Berne, Freiestrasse
3, 3012 Berne, Switzerland
| | - Myriam Bergmann
- Department
of Chemistry and Biochemistry, University of Berne, Freiestrasse
3, 3012 Berne, Switzerland
| | - Gaelle Michaud
- Department
of Chemistry and Biochemistry, University of Berne, Freiestrasse
3, 3012 Berne, Switzerland
| | - Francesca Pertici
- Department of Medicinal Chemistry & Chemical Biology, Utrecht Institute for Pharmaceutical Sciences, Utrecht University, NL-3508 TB Utrecht, The Netherlands
| | - Ou Fu
- Department of Medicinal Chemistry & Chemical Biology, Utrecht Institute for Pharmaceutical Sciences, Utrecht University, NL-3508 TB Utrecht, The Netherlands
| | - Aliaksei Pukin
- Department of Medicinal Chemistry & Chemical Biology, Utrecht Institute for Pharmaceutical Sciences, Utrecht University, NL-3508 TB Utrecht, The Netherlands
| | - Thomas R. Branson
- Department of Medicinal Chemistry & Chemical Biology, Utrecht Institute for Pharmaceutical Sciences, Utrecht University, NL-3508 TB Utrecht, The Netherlands
| | - Dominique M. E. Thies-Weesie
- Van’t
Hoff Laboratory for Physical and Colloid Chemistry, Debye Institute
for Nanomaterials Science, Utrecht University, Padualaan 8, 3584 CH Utrecht, The Netherlands
| | - Johan Kemmink
- Department of Medicinal Chemistry & Chemical Biology, Utrecht Institute for Pharmaceutical Sciences, Utrecht University, NL-3508 TB Utrecht, The Netherlands
| | - Emilie Gillon
- Centre
de Recherches sur les Macromolécules Végétales,
UPR5301, CNRS and Université Grenoble Alpes, 601 rue de la
Chimie, F38041 Grenoble, France
| | - Anne Imberty
- Centre
de Recherches sur les Macromolécules Végétales,
UPR5301, CNRS and Université Grenoble Alpes, 601 rue de la
Chimie, F38041 Grenoble, France
| | - Achim Stocker
- Department
of Chemistry and Biochemistry, University of Berne, Freiestrasse
3, 3012 Berne, Switzerland
| | - Tamis Darbre
- Department
of Chemistry and Biochemistry, University of Berne, Freiestrasse
3, 3012 Berne, Switzerland
| | - Roland J. Pieters
- Department of Medicinal Chemistry & Chemical Biology, Utrecht Institute for Pharmaceutical Sciences, Utrecht University, NL-3508 TB Utrecht, The Netherlands
| | - Jean-Louis Reymond
- Department
of Chemistry and Biochemistry, University of Berne, Freiestrasse
3, 3012 Berne, Switzerland
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62
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Singh N, Shetye GS, Zheng H, Sun J, Luk YY. Chemical Signals of Synthetic Disaccharide Derivatives Dominate Rhamnolipids at Controlling Multiple Bacterial Activities. Chembiochem 2015; 17:102-11. [DOI: 10.1002/cbic.201500396] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/03/2015] [Indexed: 02/04/2023]
Affiliation(s)
- Nischal Singh
- Department of Chemistry; Syracuse University; 1-014 CST, 111 College Place Syracuse NY 13244 USA
| | - Gauri S. Shetye
- Department of Chemistry; Syracuse University; 1-014 CST, 111 College Place Syracuse NY 13244 USA
| | - Hewen Zheng
- Department of Chemistry; Syracuse University; 1-014 CST, 111 College Place Syracuse NY 13244 USA
| | - Jiayue Sun
- Department of Chemistry; Syracuse University; 1-014 CST, 111 College Place Syracuse NY 13244 USA
| | - Yan-Yeung Luk
- Department of Chemistry; Syracuse University; 1-014 CST, 111 College Place Syracuse NY 13244 USA
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63
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Vincent SP, Buffet K, Nierengarten I, Imberty A, Nierengarten JF. Biologically Active Heteroglycoclusters Constructed on a Pillar[5]arene-Containing [2]Rotaxane Scaffold. Chemistry 2015; 22:88-92. [PMID: 26467313 PMCID: PMC4832831 DOI: 10.1002/chem.201504110] [Citation(s) in RCA: 53] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/13/2015] [Indexed: 11/29/2022]
Abstract
A synthetic approach combining recent concepts for the preparation of multifunctional nanomolecules (click chemistry on multifunctional scaffolds) with supramolecular chemistry (self‐assembly to prepare rotaxanes) gave easy access to a large variety of sophisticated [2]rotaxane heteroglycoclusters. Specifically, compounds combining galactose and fucose have been prepared to target the two bacterial lectins (LecA and LecB) from the opportunistic pathogen Pseudomonas aeruginosa.
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Affiliation(s)
- Stéphane P Vincent
- University of Namur (UNamur), Académie Louvain, Département de Chimie, Laboratoire de Chimie Bio-Organique, rue de Bruxelles 61, 5000 Namur (Belgium).
| | - Kevin Buffet
- University of Namur (UNamur), Académie Louvain, Département de Chimie, Laboratoire de Chimie Bio-Organique, rue de Bruxelles 61, 5000 Namur (Belgium)
| | - Iwona Nierengarten
- Laboratoire de Chimie des Matériaux Moléculaires, Université de Strasbourg et CNRS (UMR 7509), Ecole Européenne de Chimie, Polymères et Matériaux (ECPM), 25 rue Becquerel, 67087 Strasbourg Cedex 2 (France)
| | - Anne Imberty
- CERMAV (UPR5301), CNRS and Université Grenoble Alpes, BP 53, 38041, Grenoble (France).
| | - Jean-François Nierengarten
- Laboratoire de Chimie des Matériaux Moléculaires, Université de Strasbourg et CNRS (UMR 7509), Ecole Européenne de Chimie, Polymères et Matériaux (ECPM), 25 rue Becquerel, 67087 Strasbourg Cedex 2 (France).
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64
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Schubert T, Römer W. How synthetic membrane systems contribute to the understanding of lipid-driven endocytosis. BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH 2015. [PMID: 26211452 DOI: 10.1016/j.bbamcr.2015.07.014] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
Abstract
Synthetic membrane systems, such as giant unilamellar vesicles and solid supported lipid bilayers, have widened our understanding of biological processes occurring at or through membranes. Artificial systems are particularly suited to study the inherent properties of membranes with regard to their components and characteristics. This review critically reflects the emerging molecular mechanism of lipid-driven endocytosis and the impact of model membrane systems in elucidating the complex interplay of biomolecules within this process. Lipid receptor clustering induced by binding of several toxins, viruses and bacteria to the plasma membrane leads to local membrane bending and formation of tubular membrane invaginations. Here, lipid shape, and protein structure and valency are the essential parameters in membrane deformation. Combining observations of complex cellular processes and their reconstitution on minimal systems seems to be a promising future approach to resolve basic underlying mechanisms. This article is part of a Special Issue entitled: Mechanobiology.
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Affiliation(s)
- Thomas Schubert
- Faculty of Biology, Albert-Ludwigs-University Freiburg, Schänzlestraße 1, 79104 Freiburg, Germany; BIOSS - Centre for Biological Signalling Studies, Albert-Ludwigs-University Freiburg, Schänzlestraβe 18, 79104 Freiburg, Germany.
| | - Winfried Römer
- Faculty of Biology, Albert-Ludwigs-University Freiburg, Schänzlestraße 1, 79104 Freiburg, Germany; BIOSS - Centre for Biological Signalling Studies, Albert-Ludwigs-University Freiburg, Schänzlestraβe 18, 79104 Freiburg, Germany.
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65
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Barluenga S, Winssinger N. PNA as a Biosupramolecular Tag for Programmable Assemblies and Reactions. Acc Chem Res 2015; 48:1319-31. [PMID: 25947113 DOI: 10.1021/acs.accounts.5b00109] [Citation(s) in RCA: 58] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
Abstract
The programmability of oligonucleotide hybridization offers an attractive platform for the design of assemblies with emergent properties or functions. Developments in DNA nanotechnologies have transformed our thinking about the applications of nucleic acids. Progress from designed assemblies to functional outputs will continue to benefit from functionalities added to the nucleic acids that can participate in reactions or interactions beyond hybridization. In that respect, peptide nucleic acids (PNAs) are interesting because they combine the hybridization properties of DNA with the modularity of peptides. In fact, PNAs form more stable duplexes with DNA or RNA than the corresponding natural homoduplexes. The high stability achieved with shorter oligomers (an 8-mer is sufficient for a stable duplex at room temperature) typically results in very high sequence fidelity in the hybridization with negligible impact of the ionic strength of the buffer due to the lack of electrostatic repulsion between the duplex strands. The simple peptidic backbone of PNA has been shown to be tolerant of modifications with substitutions that further enhance the duplex stability while providing opportunities for functionalization. Moreover, the metabolic stability of PNAs facilitates their integration into systems that interface with biology. Over the past decade, there has been a growing interest in using PNAs as biosupramolecular tags to program assemblies and reactions. A series of robust templated reactions have been developed with functionalized PNA. These reactions can be used to translate DNA templates into functional polymers of unprecedented complexity, fluorescent outputs, or bioactive small molecules. Furthermore, cellular nucleic acids (mRNA or miRNA) have been harnessed to promote assemblies and reactions in live cells. The tolerance of PNA synthesis also lends itself to the encoding of small molecules that can be further assembled on the basis of their nucleic acid sequences. It is now well-established that hybridization-based assemblies displaying two or more ligands can interact synergistically with a target biomolecule. These assemblies have now been shown to be functional in vivo. Similarly, PNA-tagged macromolecules have been used to prepare bioactive assemblies and three-dimensional nanostructures. Several technologies based on DNA-templated synthesis of sequence-defined polymers or DNA-templated display of ligands have been shown to be compatible with reiterative cycles of selection/amplification starting with large libraries of DNA templates, bringing the power of in vitro evolution to synthetic molecules and offering the possibility of exploring uncharted molecular diversity space with unprecedented scope and speed.
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Affiliation(s)
- Sofia Barluenga
- Department of Organic Chemistry,
NCCR Chemical Biology, University of Geneva, 30 quai Ernest Ansermet, Geneva, Switzerland
| | - Nicolas Winssinger
- Department of Organic Chemistry,
NCCR Chemical Biology, University of Geneva, 30 quai Ernest Ansermet, Geneva, Switzerland
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66
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Novoa A, Winssinger N. DNA display of glycoconjugates to emulate oligomeric interactions of glycans. Beilstein J Org Chem 2015; 11:707-19. [PMID: 26113879 PMCID: PMC4462854 DOI: 10.3762/bjoc.11.81] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/24/2015] [Accepted: 05/06/2015] [Indexed: 12/21/2022] Open
Abstract
Glycans (carbohydrate portion of glycoproteins and glycolipids) frequently exert their function through oligomeric interactions involving multiple carbohydrate units. In efforts to recapitulate the diverse spatial arrangements of the carbohydrate units, assemblies based on hybridization of nucleic acid conjugates have been used to display simplified ligands with tailored interligand distances and valences. The programmability of the assemblies lends itself to a combinatorial display of multiple ligands. Recent efforts in the synthesis and applications of such conjugates are discussed.
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Affiliation(s)
- Alexandre Novoa
- Department of Organic Chemistry, NCCR Chemical Biology, University of Geneva 30, quai Ernest Ansermet, 1211 Geneva, Switzerland
| | - Nicolas Winssinger
- Department of Organic Chemistry, NCCR Chemical Biology, University of Geneva 30, quai Ernest Ansermet, 1211 Geneva, Switzerland
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67
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Daguer JP, Zambaldo C, Abegg D, Barluenga S, Tallant C, Müller S, Adibekian A, Winssinger N. Identifizierung von niedermolekularen kovalenten Bromodomäne-Bindern aus einer DNA-kodierten Bibliothek. Angew Chem Int Ed Engl 2015. [DOI: 10.1002/ange.201412276] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
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68
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Daguer JP, Zambaldo C, Abegg D, Barluenga S, Tallant C, Müller S, Adibekian A, Winssinger N. Identification of Covalent Bromodomain Binders through DNA Display of Small Molecules. Angew Chem Int Ed Engl 2015; 54:6057-61. [DOI: 10.1002/anie.201412276] [Citation(s) in RCA: 45] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/22/2014] [Indexed: 01/08/2023]
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69
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Fu O, Pukin AV, Quarles van Ufford HC, Kemmink J, de Mol NJ, Pieters RJ. Functionalization of a Rigid Divalent Ligand for LecA, a Bacterial Adhesion Lectin. ChemistryOpen 2015; 4:463-70. [PMID: 26478841 PMCID: PMC4603407 DOI: 10.1002/open.201402171] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/30/2014] [Indexed: 11/21/2022] Open
Abstract
The bacterial adhesion lectin LecA is an attractive target for interference with the infectivity of its producer P. aeruginosa. Divalent ligands with two terminal galactoside moieties connected by an alternating glucose-triazole spacer were previously shown to be very potent inhibitors. In this study, we chose to prepare a series of derivatives with various new substituents in the spacer in hopes of further enhancing the LecA inhibitory potency of the molecules. Based on the binding mode, modifications were made to the spacer to enable additional spacer–protein interactions. The introduction of positively charged, negatively charged, and also lipophilic functional groups was successful. The compounds were good LecA ligands, but no improved binding was seen, even though altered thermodynamic parameters were observed by isothermal titration calorimetry (ITC).
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Affiliation(s)
- Ou Fu
- Department of Medicinal Chemistry and Chemical Biology, Utrecht University P.O. Box 80082, 3508 TB, Utrecht, The Netherlands
| | - Aliaksei V Pukin
- Department of Medicinal Chemistry and Chemical Biology, Utrecht University P.O. Box 80082, 3508 TB, Utrecht, The Netherlands
| | - H C Quarles van Ufford
- Department of Medicinal Chemistry and Chemical Biology, Utrecht University P.O. Box 80082, 3508 TB, Utrecht, The Netherlands
| | - Johan Kemmink
- Department of Medicinal Chemistry and Chemical Biology, Utrecht University P.O. Box 80082, 3508 TB, Utrecht, The Netherlands
| | - Nico J de Mol
- Department of Medicinal Chemistry and Chemical Biology, Utrecht University P.O. Box 80082, 3508 TB, Utrecht, The Netherlands
| | - Roland J Pieters
- Department of Medicinal Chemistry and Chemical Biology, Utrecht University P.O. Box 80082, 3508 TB, Utrecht, The Netherlands
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70
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Zambaldo C, Barluenga S, Winssinger N. PNA-encoded chemical libraries. Curr Opin Chem Biol 2015; 26:8-15. [PMID: 25621730 DOI: 10.1016/j.cbpa.2015.01.005] [Citation(s) in RCA: 76] [Impact Index Per Article: 8.4] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/29/2014] [Accepted: 01/08/2015] [Indexed: 01/04/2023]
Abstract
Peptide nucleic acid (PNA)-encoded chemical libraries along with DNA-encoded libraries have provided a powerful new paradigm for library synthesis and ligand discovery. PNA-encoding stands out for its compatibility with standard solid phase synthesis and the technology has been used to prepare libraries of peptides, heterocycles and glycoconjugates. Different screening formats have now been reported including selection-based and microarray-based methods that have yielded specific ligands against diverse target classes including membrane receptors, lectins and challenging targets such as Hsp70.
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Affiliation(s)
- Claudio Zambaldo
- Department of Organic Chemistry, NCCR Chemical Biology, University of Geneva, 30 quai Ernest Ansermet, Geneva, Switzerland
| | - Sofia Barluenga
- Department of Organic Chemistry, NCCR Chemical Biology, University of Geneva, 30 quai Ernest Ansermet, Geneva, Switzerland
| | - Nicolas Winssinger
- Department of Organic Chemistry, NCCR Chemical Biology, University of Geneva, 30 quai Ernest Ansermet, Geneva, Switzerland.
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71
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Caumes C, Gillon E, Legeret B, Taillefumier C, Imberty A, Faure S. Multivalent thioglycopeptoids via photoclick chemistry: potent affinities towards LecA and BC2L-A lectins. Chem Commun (Camb) 2015; 51:12301-4. [DOI: 10.1039/c5cc04646g] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Abstract
The straightforward access to peptoid-based multivalent thioglycoclusters displaying 1-thio-β-d-galactose or 1-thio-α/β-d-mannose and their evaluation towards two bacterial lectins are described.
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Affiliation(s)
- C. Caumes
- Université Clermont Auvergne
- Université Blaise Pascal
- Institut de Chimie de Clermont-Ferrand
- F-63000 Clermont-Ferrand
- France
| | - E. Gillon
- CERMAV
- UPR5301
- CNRS and Université Grenoble Alpes
- 38041 Grenoble
- France
| | - B. Legeret
- Université Clermont Auvergne
- Université Blaise Pascal
- Institut de Chimie de Clermont-Ferrand
- F-63000 Clermont-Ferrand
- France
| | - C. Taillefumier
- Université Clermont Auvergne
- Université Blaise Pascal
- Institut de Chimie de Clermont-Ferrand
- F-63000 Clermont-Ferrand
- France
| | - A. Imberty
- CERMAV
- UPR5301
- CNRS and Université Grenoble Alpes
- 38041 Grenoble
- France
| | - S. Faure
- Université Clermont Auvergne
- Université Blaise Pascal
- Institut de Chimie de Clermont-Ferrand
- F-63000 Clermont-Ferrand
- France
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72
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Pukin AV, Brouwer AJ, Koomen L, Quarles van Ufford HC, Kemmink J, de Mol NJ, Pieters RJ. Thiourea-based spacers in potent divalent inhibitors of Pseudomonas aeruginosa virulence lectin LecA. Org Biomol Chem 2015; 13:10923-8. [DOI: 10.1039/c5ob01452b] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A thiourea spacer adopts an extended conformation and forms the basis of a potent bivalent ligand for Pseudomonas aeruginosa lectin LecA.
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Affiliation(s)
- Aliaksei V. Pukin
- Department of Medicinal Chemistry & Chemical Biology
- Utrecht Institute for Pharmaceutical Sciences
- Utrecht University
- Utrecht
- The Netherlands
| | - Arwin J. Brouwer
- Department of Medicinal Chemistry & Chemical Biology
- Utrecht Institute for Pharmaceutical Sciences
- Utrecht University
- Utrecht
- The Netherlands
| | - Leonie Koomen
- Department of Medicinal Chemistry & Chemical Biology
- Utrecht Institute for Pharmaceutical Sciences
- Utrecht University
- Utrecht
- The Netherlands
| | - H. C. Quarles van Ufford
- Department of Medicinal Chemistry & Chemical Biology
- Utrecht Institute for Pharmaceutical Sciences
- Utrecht University
- Utrecht
- The Netherlands
| | - Johan Kemmink
- Department of Medicinal Chemistry & Chemical Biology
- Utrecht Institute for Pharmaceutical Sciences
- Utrecht University
- Utrecht
- The Netherlands
| | - Nico J. de Mol
- Department of Medicinal Chemistry & Chemical Biology
- Utrecht Institute for Pharmaceutical Sciences
- Utrecht University
- Utrecht
- The Netherlands
| | - Roland J. Pieters
- Department of Medicinal Chemistry & Chemical Biology
- Utrecht Institute for Pharmaceutical Sciences
- Utrecht University
- Utrecht
- The Netherlands
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73
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Boukerb AM, Rousset A, Galanos N, Méar JB, Thépaut M, Grandjean T, Gillon E, Cecioni S, Abderrahmen C, Faure K, Redelberger D, Kipnis E, Dessein R, Havet S, Darblade B, Matthews SE, de Bentzmann S, Guéry B, Cournoyer B, Imberty A, Vidal S. Antiadhesive properties of glycoclusters against Pseudomonas aeruginosa lung infection. J Med Chem 2014; 57:10275-89. [PMID: 25419855 DOI: 10.1021/jm500038p] [Citation(s) in RCA: 107] [Impact Index Per Article: 10.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
Pseudomonas aeruginosa lung infections are a major cause of death in cystic fibrosis and hospitalized patients. Treating these infections is becoming difficult due to the emergence of conventional antimicrobial multiresistance. While monosaccharides have proved beneficial against such bacterial lung infection, the design of several multivalent glycosylated macromolecules has been shown to be also beneficial on biofilm dispersion. In this study, calix[4]arene-based glycoclusters functionalized with galactosides or fucosides have been synthesized. The characterization of their inhibitory properties on Pseudomonas aeruginosa aggregation, biofilm formation, adhesion on epithelial cells, and destruction of alveolar tissues were performed. The antiadhesive properties of the designed glycoclusters were demonstrated through several in vitro bioassays. An in vivo mouse model of lung infection provided an almost complete protection against Pseudomonas aeruginosa with the designed glycoclusters.
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Affiliation(s)
- Amine M Boukerb
- Equipe de Recherche, Bactéries Pathogènes Opportunistes et Environnement, UMR CNRS 5557 Ecologie Microbienne, Université Lyon 1 & VetAgro Sup , 43 Boulevard du 11 Novembre 1918, F-69622 Villeurbanne, France
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74
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Huang YC, Cao C, Tan XL, Li X, Liu L. Facile solid-phase synthesis of PNA–peptide conjugates using pNZ-protected PNA monomers. Org Chem Front 2014. [DOI: 10.1039/c4qo00217b] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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75
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Novoa A, Machida T, Barluenga S, Imberty A, Winssinger N. PNA-encoded synthesis (PES) of a 10 000-member hetero-glycoconjugate library and microarray analysis of diverse lectins. Chembiochem 2014; 15:2058-65. [PMID: 25158314 DOI: 10.1002/cbic.201402280] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/04/2014] [Indexed: 11/07/2022]
Abstract
Identification of selective and synthetically tractable ligands to glycan-binding proteins is important in glycoscience. Carbohydrate arrays have had a tremendous impact on profiling glycan-binding proteins and as analytical tools. We report a highly miniaturized synthetic format to access nucleic-acid-encoded hetero-glycoconjugate libraries with an unprecedented diversity in the combinations of glycans, linkers, and capping groups. Novel information about plant and bacterial lectin specificity was obtained by microarray profiling, and we show that a ligand identified on the array can be converted to a high-affinity soluble ligand by straightforward chemistry.
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Affiliation(s)
- Alexandre Novoa
- Department of Organic Chemistry, University of Geneva, Quai Ernest Ansermet 30, 1211 Geneva 4 (Switzerland)
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