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Kloos M, Sharma A, Enderlein J, Diederichsen U. Transmembrane β-peptide helices as molecular rulers at the membrane surface. J Pept Sci 2021; 27:e3355. [PMID: 34077994 DOI: 10.1002/psc.3355] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/07/2021] [Revised: 05/17/2021] [Accepted: 05/17/2021] [Indexed: 11/08/2022]
Abstract
β-Peptides are known to form 14-helices with high conformational rigidity, helical persistence length, and well-defined spacing and orientation regularity of amino acid side chains. Therefore, β-peptides are well suited to serve as backbone structures for molecular rulers. On the one hand, they can be functionalized in a site-specific manner with molecular probes or fluorophores, and on the other hand, the β-peptide helices can be recognized and anchored in a biological environment of interest. In this study, the β-peptide helices were anchored in lipid bilayer membranes, and the helices were elongated in the outer membrane environment. The distances of the covalently bound probes to the membrane surface were determined using graphene-induced energy transfer (GIET) spectroscopy, a method based on the distance-dependent quenching of a fluorescent molecule by a nearby single graphene sheet. As a proof of principle, the predicted distances were determined for two fluorophores bound to the membrane-anchored β-peptide molecular ruler.
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Affiliation(s)
- Martin Kloos
- Institut für Organische und Biomolekulare Chemie, Georg-August-Universität Göttingen, Göttingen, Germany
| | - Akshita Sharma
- III. Physikalisches Institut-Biophysik, Georg-August-Universität Göttingen, Göttingen, Germany
| | - Jörg Enderlein
- III. Physikalisches Institut-Biophysik, Georg-August-Universität Göttingen, Göttingen, Germany.,Cluster of Excellence "Multiscale Bioimaging: from Molecular Machines to Networks of Excitable Cells" (MBExC), Georg-August-Universität Göttingen, Göttingen, Germany
| | - Ulf Diederichsen
- Institut für Organische und Biomolekulare Chemie, Georg-August-Universität Göttingen, Göttingen, Germany
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2
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Xie X, Zheng T, Li W. Recent Progress in Ionic Coassembly of Cationic Peptides and Anionic Species. Macromol Rapid Commun 2020; 41:e2000534. [PMID: 33225490 DOI: 10.1002/marc.202000534] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/14/2020] [Revised: 10/10/2020] [Indexed: 12/25/2022]
Abstract
Peptide assembly has been extensively exploited as a promising platform for the creation of hierarchical nanostructures and tailor-made bioactive materials. Ionic coassembly of cationic peptides and anionic species is paving the way to provide particularly important contribution to this topic. In this review, the recent progress of ionic coassembly soft materials derived from the electrostatic coupling between cationic peptides and anionic species in aqueous solution is systematically summarized. The presentation of this review starts from a brief background on the general importance and advantages of peptide-based ionic coassembly. After that, diverse combinations of cationic peptides with small anions, macro- and/or oligo-anions, anionic polymers, and inorganic polyoxometalates are described. Emphasis is placed on the hierarchical structures, value-added properties, and applications. The molecular design of cationic peptides and the general principles behind the ionic coassembled structures are discussed. It is summarized that the combination of interesting and unique characteristics that arise both from the chemical diversity of peptides and the wide range of anionic species may contribute in a variety of output, including drug delivery, tissue engineering, gene transfection, and antibacterial activity. The emergent new phenomena and findings are illustrated. Finally, the outlook for the peptide-based ionic coassembly systems is also presented.
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Affiliation(s)
- Xiaoming Xie
- State Key Laboratory of Supramolecular Structure and Materials, College of Chemistry, Jilin University, Qianjing Avenue 2699, Changchun, 130012, China.,Department of Chemistry, Xinzhou Teachers' University, Xinzhou, Shanxi, 034000, China
| | - Tingting Zheng
- State Key Laboratory of Supramolecular Structure and Materials, College of Chemistry, Jilin University, Qianjing Avenue 2699, Changchun, 130012, China
| | - Wen Li
- State Key Laboratory of Supramolecular Structure and Materials, College of Chemistry, Jilin University, Qianjing Avenue 2699, Changchun, 130012, China
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3
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Interaction of synthetic antimicrobial peptides of the Hylin a1 family with models of eukaryotic structures: Zwitterionic membranes and DNA. Biochem Biophys Rep 2020; 24:100827. [PMID: 33195825 PMCID: PMC7644857 DOI: 10.1016/j.bbrep.2020.100827] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/17/2020] [Revised: 09/26/2020] [Accepted: 09/27/2020] [Indexed: 11/22/2022] Open
Abstract
Antimicrobial peptides (AMPs) have been appointed as a possible alternative to traditional antibiotics in face of pathogens increasing resistance to conventional drugs. Hylin a1 (IFGAILPLALGALKNLIK), an AMP extracted from the skin secretion of a South American frog, Hypsiboas albopunctatus, was found to show a strong cytotoxicity against bacteria and fungus, but also a considerable hemolytic action. Considering the toxicity of the peptide in eukaryotic cells, this work focuses on investigating the effects of the interaction of the Hylin a1 analogues W6Hya1, D0W6Hya1 and K0W6Hya1 with models of eukaryotic structures, namely zwitterionic liposomes of dipalmitoyl phosphatidylcholine (DPPC) and calf-thymus DNA (CT DNA). Through intrinsic Trp fluorescence we determined that the peptide affinity for fluid DPPC bilayers follows the decreasing order: D0W6Hya1 (+2) > W6Hya1 (+3) » K0W6Hya1 (+4). Fluorescence data also indicate that the Trp residue in the more positively charged peptide, K0W6Hya1, is less deep in the bilayer than the residue in the other two peptides. This finding is supported by differential scanning calorimetry (DSC) data, which shows that both D0W6Hya1 and W6Hya1 disturb DPPC gel-fluid transition slightly more effectively than K0W6Hya1. DPPC DSC profiles are homogeneously disturbed by the three peptides, probably related to peptide-membrane diffusion. Surprisingly, the peptide that displays the lowest affinity for PC membranes and is located at the more superficial position in the bilayer, K0W6Hya1, is the most efficient in causing formation of pores on the membrane, as attested by carboxyfluorescein leakage assays. The three peptides were found to interact with CT DNA, with a deep penetration of the Trp residue into hydrophobic pockets of the double helix, as indicated by the significant blue shift on the Trp fluorescence, and the displacement of DNA-bound ethidium bromide by the peptides. The experiments of DNA electrophoresis confirm that Hylin peptides bind DNA in a concentration-dependent manner, inducing complete DNA retardation at the relative AMP/plasmid DNA weight ratio of ~17. These findings could help to better understand the AMPs toxic effects on eukaryotic cells, thus contributing to the design of healthier therapeutic agents. AMP Hylin a1 analogues bind to both a model of eukaryotic membrane and DNA. The most cationic peptide has lowest affinity to PC vesicle and shallower binding. Peptide lower bilayer affinity is related to greater vesicle disruption and leakage. •AMP hylin a1 analogues deep penetrate into hydrophobic pockets of CT-DNA double helix.
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Höger GA, Wiegand M, Worbs B, Diederichsen U. Membrane-Associated Nucleobase-Functionalized β-Peptides (β-PNAs) Affecting Membrane Support and Lipid Composition. Chembiochem 2020; 21:2599-2603. [PMID: 32346953 PMCID: PMC7540700 DOI: 10.1002/cbic.202000172] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/17/2020] [Revised: 04/26/2020] [Indexed: 11/18/2022]
Abstract
Protein-membrane interactions are essential to maintain membrane integrity and control membrane morphology and composition. Cytoskeletal proteins in particular are known to interact to a high degree with lipid bilayers and to line the cytoplasmic side of the plasma membrane with an extensive network structure. In order to gain a better mechanistical understanding of the protein-membrane interplay and possible membrane signaling, we started to develop a model system based on β-peptide nucleic acids (β-PNAs). These β-peptides are known to form stable hydrogen-bonded aggregates due to their helical secondary structure, which serve to pre-organize the attached nucleobases. After optimization of the β-PNA solid-phase peptide synthesis and validation of helix formation, the ability of the novel β-PNAs to dimerize and interact with lipid bilayers was investigated by both fluorescence and circular dichroism spectroscopy. It was shown that duplex formation occurs rapidly and with high specificity and could also be detected on the surfaces of the lipid bilayers. Hereby, the potential of a β-PNA-based peptide system to mimic membrane-associated protein networks could be demonstrated.
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Affiliation(s)
- Geralin A. Höger
- Institut für Organische und Biomolekulare ChemieGeorg-August-Universität GöttingenTammannstraße 237077GöttingenGermany
| | - Markus Wiegand
- Institut für Organische und Biomolekulare ChemieGeorg-August-Universität GöttingenTammannstraße 237077GöttingenGermany
| | - Brigitte Worbs
- Institut für Organische und Biomolekulare ChemieGeorg-August-Universität GöttingenTammannstraße 237077GöttingenGermany
| | - Ulf Diederichsen
- Institut für Organische und Biomolekulare ChemieGeorg-August-Universität GöttingenTammannstraße 237077GöttingenGermany
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5
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Szigyártó IC, Mihály J, Wacha A, Bogdán D, Juhász T, Kohut G, Schlosser G, Zsila F, Urlacher V, Varga Z, Fülöp F, Bóta A, Mándity I, Beke-Somfai T. Membrane active Janus-oligomers of β 3-peptides. Chem Sci 2020; 11:6868-6881. [PMID: 33042513 PMCID: PMC7504880 DOI: 10.1039/d0sc01344g] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/05/2020] [Accepted: 06/12/2020] [Indexed: 11/21/2022] Open
Abstract
Self-assembly of an acyclic β3-hexapeptide with alternating side chain chirality, into nanometer size oligomeric bundles showing membrane activity and hosting capacity for hydrophobic small molecules.
Self-assembling peptides offer a versatile set of tools for bottom-up construction of supramolecular biomaterials. Among these compounds, non-natural peptidic foldamers experience increased focus due to their structural variability and lower sensitivity to enzymatic degradation. However, very little is known about their membrane properties and complex oligomeric assemblies – key areas for biomedical and technological applications. Here we designed short, acyclic β3-peptide sequences with alternating amino acid stereoisomers to obtain non-helical molecules having hydrophilic charged residues on one side, and hydrophobic residues on the other side, with the N-terminus preventing formation of infinite fibrils. Our results indicate that these β-peptides form small oligomers both in water and in lipid bilayers and are stabilized by intermolecular hydrogen bonds. In the presence of model membranes, they either prefer the headgroup regions or they insert between the lipid chains. Molecular dynamics (MD) simulations suggest the formation of two-layered bundles with their side chains facing opposite directions when compared in water and in model membranes. Analysis of the MD calculations showed hydrogen bonds inside each layer, however, not between the layers, indicating a dynamic assembly. Moreover, the aqueous form of these oligomers can host fluorescent probes as well as a hydrophobic molecule similarly to e.g. lipid transfer proteins. For the tested, peptides the mixed chirality pattern resulted in similar assemblies despite sequential differences. Based on this, it is hoped that the presented molecular framework will inspire similar oligomers with diverse functionality.
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Affiliation(s)
- Imola Cs Szigyártó
- Institute of Materials and Environmental Chemistry , Research Centre for Natural Sciences , H-1117 Budapest , Hungary . ;
| | - Judith Mihály
- Institute of Materials and Environmental Chemistry , Research Centre for Natural Sciences , H-1117 Budapest , Hungary . ;
| | - András Wacha
- Institute of Materials and Environmental Chemistry , Research Centre for Natural Sciences , H-1117 Budapest , Hungary . ;
| | - Dóra Bogdán
- Institute of Materials and Environmental Chemistry , Research Centre for Natural Sciences , H-1117 Budapest , Hungary . ; .,Department of Organic Chemistry , Faculty of Pharmacy , Semmelweis University , H-1092 Budapest , Hungary
| | - Tünde Juhász
- Institute of Materials and Environmental Chemistry , Research Centre for Natural Sciences , H-1117 Budapest , Hungary . ;
| | - Gergely Kohut
- Institute of Materials and Environmental Chemistry , Research Centre for Natural Sciences , H-1117 Budapest , Hungary . ; .,Institute of Chemistry , Eötvös Loránd University , H-1117 Budapest , Hungary
| | - Gitta Schlosser
- Institute of Chemistry , Eötvös Loránd University , H-1117 Budapest , Hungary
| | - Ferenc Zsila
- Institute of Materials and Environmental Chemistry , Research Centre for Natural Sciences , H-1117 Budapest , Hungary . ;
| | - Vlada Urlacher
- Institute of Biochemistry , Heinrich-Heine University , 40225 Düsseldorf , Germany
| | - Zoltán Varga
- Institute of Materials and Environmental Chemistry , Research Centre for Natural Sciences , H-1117 Budapest , Hungary . ;
| | - Ferenc Fülöp
- MTA-SZTE Stereochemistry Research Group , Institute of Pharmaceutical Chemistry , University of Szeged , H-6720 Szeged , Hungary
| | - Attila Bóta
- Institute of Materials and Environmental Chemistry , Research Centre for Natural Sciences , H-1117 Budapest , Hungary . ;
| | - István Mándity
- Institute of Materials and Environmental Chemistry , Research Centre for Natural Sciences , H-1117 Budapest , Hungary . ; .,Department of Organic Chemistry , Faculty of Pharmacy , Semmelweis University , H-1092 Budapest , Hungary
| | - Tamás Beke-Somfai
- Institute of Materials and Environmental Chemistry , Research Centre for Natural Sciences , H-1117 Budapest , Hungary . ; .,Department of Chemistry and Chemical Engineering , Physical Chemistry , Chalmers University of Technology , SE-41296 Göteborg , Sweden
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6
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Liu Z, Li X, Zeng T, Engle KM. Directed, Palladium(II)-Catalyzed Enantioselective anti-Carboboration of Alkenyl Carbonyl Compounds. ACS Catal 2019; 9:3260-3265. [PMID: 31799023 DOI: 10.1021/acscatal.9b00181] [Citation(s) in RCA: 69] [Impact Index Per Article: 13.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Abstract
A substrate-directed enantioselective anti-carboboration reaction of alkenes has been developed, wherein a carbon-based nucleophile and a boron moiety are installed across the C=C bond through a 5-membered palladacycle intermediate. A preliminary result also shows it is possible to extend this reaction to alkenes that are more distal from the directing group and react via a 6-membered palladacycle. The reaction is promoted by a palladium(II) catalyst and a monodentate oxazoline ligand. A range of enantioenriched secondary alkylboronate products were obtained with moderate to high enantioselectivity that could be further upgraded by recrystallization. This work represents an efficient method to synthesize versatile and valuable alkylboronate building blocks. Building on an earlier mechanistic proposal by Peng, He, and Chen, a revised model is proposed to account for the stereoconvergent nature of this transformation.
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Affiliation(s)
- Zhen Liu
- Department of Chemistry, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, California 92037, United States
| | - Xiaohan Li
- Department of Chemistry, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, California 92037, United States
| | - Tian Zeng
- Department of Chemistry, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, California 92037, United States
| | - Keary M. Engle
- Department of Chemistry, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, California 92037, United States
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7
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Le Foll Devaux A, Deau E, Corrot E, Bischoff L, Levacher V, Brière JF. A Meldrum's Acid Based Multicomponent Synthesis of N
-Fmoc-isoxazolidin-5-ones: Entry to N
-Fmoc-β-amino Acids. European J Org Chem 2017. [DOI: 10.1002/ejoc.201700472] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- Alexandra Le Foll Devaux
- Normandie Université; INSA Rouen, Université de Rouen; CNRS; COBRA (UMR 6014); 76000 Rouen France
| | - Emmanuel Deau
- Normandie Université; INSA Rouen, Université de Rouen; CNRS; COBRA (UMR 6014); 76000 Rouen France
| | - Emilie Corrot
- Normandie Université; INSA Rouen, Université de Rouen; CNRS; COBRA (UMR 6014); 76000 Rouen France
| | - Laurent Bischoff
- Normandie Université; INSA Rouen, Université de Rouen; CNRS; COBRA (UMR 6014); 76000 Rouen France
| | - Vincent Levacher
- Normandie Université; INSA Rouen, Université de Rouen; CNRS; COBRA (UMR 6014); 76000 Rouen France
| | - Jean-François Brière
- Normandie Université; INSA Rouen, Université de Rouen; CNRS; COBRA (UMR 6014); 76000 Rouen France
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Bartesaghi S, Herrera D, Martinez DM, Petruk A, Demicheli V, Trujillo M, Martí MA, Estrín DA, Radi R. Tyrosine oxidation and nitration in transmembrane peptides is connected to lipid peroxidation. Arch Biochem Biophys 2017; 622:9-25. [PMID: 28412156 DOI: 10.1016/j.abb.2017.04.006] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2016] [Revised: 04/07/2017] [Accepted: 04/11/2017] [Indexed: 12/30/2022]
Abstract
Tyrosine nitration is an oxidative post-translational modification that can occur in proteins associated to hydrophobic bio-structures such as membranes and lipoproteins. In this work, we have studied tyrosine nitration in membranes using a model system consisting of phosphatidylcholine liposomes with pre-incorporated tyrosine-containing 23 amino acid transmembrane peptides. Tyrosine residues were located at positions 4, 8 or 12 of the amino terminal, resulting in different depths in the bilayer. Tyrosine nitration was accomplished by exposure to peroxynitrite and a peroxyl radical donor or hemin in the presence of nitrite. In egg yolk phosphatidylcholine liposomes, nitration was highest for the peptide with tyrosine at position 8 and dramatically increased as a function of oxygen levels. Molecular dynamics studies support that the proximity of the tyrosine phenolic ring to the linoleic acid peroxyl radicals contributes to the efficiency of tyrosine oxidation. In turn, α-tocopherol inhibited both lipid peroxidation and tyrosine nitration. The mechanism of tyrosine nitration involves a "connecting reaction" by which lipid peroxyl radicals oxidize tyrosine to tyrosyl radical and was fully recapitulated by computer-assisted kinetic simulations. Altogether, this work underscores unique characteristics of the tyrosine oxidation and nitration process in lipid-rich milieu that is fueled via the lipid peroxidation process.
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Affiliation(s)
- Silvina Bartesaghi
- Departamento de Bioquímica, Facultad de Medicina, Universidad de la República, Avda. Gral. Flores 2125, Montevideo 11800, Uruguay; Departamento de Educación Médica, Facultad de Medicina, Universidad de la República, Avda. Gral. Flores 2125, Montevideo 11800, Uruguay; Center for Free Radical and Biomedical Research, Facultad de Medicina, Universidad de la República, Avda. Gral. Flores 2125, Montevideo 11800, Uruguay.
| | - Daniel Herrera
- Departamento de Bioquímica, Facultad de Medicina, Universidad de la República, Avda. Gral. Flores 2125, Montevideo 11800, Uruguay; Center for Free Radical and Biomedical Research, Facultad de Medicina, Universidad de la República, Avda. Gral. Flores 2125, Montevideo 11800, Uruguay
| | - Débora M Martinez
- Departamento de Bioquímica, Facultad de Medicina, Universidad de la República, Avda. Gral. Flores 2125, Montevideo 11800, Uruguay; Center for Free Radical and Biomedical Research, Facultad de Medicina, Universidad de la República, Avda. Gral. Flores 2125, Montevideo 11800, Uruguay
| | - Ariel Petruk
- Departamento de Química Inorgánica, Analítica y Química-Física and INQUIMAE-CONICET, Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires, Cuidad Universitaria, Pab 2, C1428EHA, Buenos Aires, Argentina
| | - Verónica Demicheli
- Departamento de Bioquímica, Facultad de Medicina, Universidad de la República, Avda. Gral. Flores 2125, Montevideo 11800, Uruguay; Center for Free Radical and Biomedical Research, Facultad de Medicina, Universidad de la República, Avda. Gral. Flores 2125, Montevideo 11800, Uruguay
| | - Madia Trujillo
- Departamento de Bioquímica, Facultad de Medicina, Universidad de la República, Avda. Gral. Flores 2125, Montevideo 11800, Uruguay; Center for Free Radical and Biomedical Research, Facultad de Medicina, Universidad de la República, Avda. Gral. Flores 2125, Montevideo 11800, Uruguay
| | - Marcelo A Martí
- Departamento de Química Biológica and IQUIBICEN-CONICET, Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires, Cuidad Universitaria, Pab 2, C1428EHA, Buenos Aires, Argentina
| | - Darío A Estrín
- Departamento de Química Inorgánica, Analítica y Química-Física and INQUIMAE-CONICET, Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires, Cuidad Universitaria, Pab 2, C1428EHA, Buenos Aires, Argentina
| | - Rafael Radi
- Departamento de Bioquímica, Facultad de Medicina, Universidad de la República, Avda. Gral. Flores 2125, Montevideo 11800, Uruguay; Center for Free Radical and Biomedical Research, Facultad de Medicina, Universidad de la República, Avda. Gral. Flores 2125, Montevideo 11800, Uruguay.
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