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Liu Y, Qin Z, Zhou J, Jia X, Li H, Wang X, Chen Y, Sun Z, He X, Li H, Wang G, Chang H. Nano-biosensor for SARS-CoV-2/COVID-19 detection: methods, mechanism and interface design. RSC Adv 2023; 13:17883-17906. [PMID: 37323463 PMCID: PMC10262965 DOI: 10.1039/d3ra02560h] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/18/2023] [Accepted: 05/26/2023] [Indexed: 06/17/2023] Open
Abstract
The epidemic of coronavirus disease 2019 (COVID-19) was a huge disaster to human society. The severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), which led to COVID-19, has resulted in a large number of deaths. Even though the reverse transcription-polymerase chain reaction (RT-PCR) is the most efficient method for the detection of SARS-CoV-2, the disadvantages (such as long detection time, professional operators, expensive instruments, and laboratory equipment) limit its application. In this review, the different kinds of nano-biosensors based on surface-enhanced Raman scattering (SERS), surface plasmon resonance (SPR), field-effect transistor (FET), fluorescence methods, and electrochemical methods are summarized, starting with a concise description of their sensing mechanism. The different bioprobes (such as ACE2, S protein-antibody, IgG antibody, IgM antibody, and SARS-CoV-2 DNA probes) with different bio-principles are introduced. The key structural components of the biosensors are briefly introduced to give readers an understanding of the principles behind the testing methods. In particular, SARS-CoV-2-related RNA mutation detection and its challenges are also briefly described. We hope that this review will encourage readers with different research backgrounds to design SARS-CoV-2 nano-biosensors with high selectivity and sensitivity.
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Affiliation(s)
- Yansheng Liu
- School of Electronic Engineering, Guangxi University of Science and Technology Liuzhou 545616 Guangxi China
- Quantum-Nano Matter and Device Lab, State Key Laboratory of Material Processing and Die and Mould Technology, School of Materials Science and Engineering, Huazhong University of Science and Technology Wuhan 430074 Hubei China
| | - Zhenle Qin
- School of Electronic Engineering, Guangxi University of Science and Technology Liuzhou 545616 Guangxi China
| | - Jin Zhou
- School of Electronic Engineering, Guangxi University of Science and Technology Liuzhou 545616 Guangxi China
| | - Xiaobo Jia
- School of Electronic Engineering, Guangxi University of Science and Technology Liuzhou 545616 Guangxi China
| | - Hongli Li
- School of Electronic Engineering, Guangxi University of Science and Technology Liuzhou 545616 Guangxi China
| | - Xiaohong Wang
- School of Electronic Engineering, Guangxi University of Science and Technology Liuzhou 545616 Guangxi China
| | - Yating Chen
- School of Electronic Engineering, Guangxi University of Science and Technology Liuzhou 545616 Guangxi China
| | - Zijun Sun
- School of Electronic Engineering, Guangxi University of Science and Technology Liuzhou 545616 Guangxi China
| | - Xiong He
- School of Electronic Engineering, Guangxi University of Science and Technology Liuzhou 545616 Guangxi China
| | - Hongda Li
- School of Electronic Engineering, Guangxi University of Science and Technology Liuzhou 545616 Guangxi China
- Quantum-Nano Matter and Device Lab, State Key Laboratory of Material Processing and Die and Mould Technology, School of Materials Science and Engineering, Huazhong University of Science and Technology Wuhan 430074 Hubei China
| | - Guofu Wang
- School of Electronic Engineering, Guangxi University of Science and Technology Liuzhou 545616 Guangxi China
| | - Haixin Chang
- Quantum-Nano Matter and Device Lab, State Key Laboratory of Material Processing and Die and Mould Technology, School of Materials Science and Engineering, Huazhong University of Science and Technology Wuhan 430074 Hubei China
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Aliqab K, Dave K, Sorathiya V, Alsharari M, Armghan A. Numerical analysis of Phase change material and graphene-based tunable refractive index sensor for infrared frequency spectrum. Sci Rep 2023; 13:7653. [PMID: 37169848 PMCID: PMC10175499 DOI: 10.1038/s41598-023-34859-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/05/2023] [Accepted: 05/09/2023] [Indexed: 05/13/2023] Open
Abstract
Here, we present the findings of parametric analysis into a phase transition material Ge2Sb2Te5(GST)-based, graphene-based, with a wide dynamic range in the infrared and visible electromagnetic spectrum. The suggested structure is studied in multi-layered configurations, built up with layers of GST, graphene, silicon, and silver materials. These multilayer structures' reflectance behavior has been described for refractive indices between 1.3 and 2.5. The complete design is simulated using a computational process called the finite element method. Additionally, we have investigated the impact of material heights on the structure's performance in general. We have presented several resonating tracing curves in polynomial equations to determine the sensing behavior across a specific wavelength range and refractive index values. The proposed design is also investigated at various inclined angles of incidence to ascertain its wide-angle stability. A computational study of the proposed structure can assist in the evolution of biosensors to identify a wide range of biomolecules, including malignant, hemoglobin urine, saliva-cortisol, and glucose.
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Affiliation(s)
- Khaled Aliqab
- Department of Electrical Engineering. College of Engineering, Jouf University, Sakaka, 72388, Saudi Arabia.
| | - Kavan Dave
- Department of Information and Communication Technology, Marwadi University, Rajkot, India
| | - Vishal Sorathiya
- Faculty of Engineering and Technology, Parul Institute of Engineering and Technology, Parul University, Waghodia Road, Vadodara, 391 760, Gujarat, India
| | - Meshari Alsharari
- Department of Electrical Engineering. College of Engineering, Jouf University, Sakaka, 72388, Saudi Arabia
| | - Ammar Armghan
- Department of Electrical Engineering. College of Engineering, Jouf University, Sakaka, 72388, Saudi Arabia.
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Jobin ML, De Smedt-Peyrusse V, Ducrocq F, Baccouch R, Oummadi A, Pedersen MH, Medel-Lacruz B, Angelo MF, Villette S, Van Delft P, Fouillen L, Mongrand S, Selent J, Tolentino-Cortez T, Barreda-Gómez G, Grégoire S, Masson E, Durroux T, Javitch JA, Guixà-González R, Alves ID, Trifilieff P. Impact of membrane lipid polyunsaturation on dopamine D2 receptor ligand binding and signaling. Mol Psychiatry 2023; 28:1960-1969. [PMID: 36604603 DOI: 10.1038/s41380-022-01928-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 02/08/2022] [Revised: 12/05/2022] [Accepted: 12/14/2022] [Indexed: 01/07/2023]
Abstract
Increasing evidence supports a relationship between lipid metabolism and mental health. In particular, the biostatus of polyunsaturated fatty acids (PUFAs) correlates with some symptoms of psychiatric disorders, as well as the efficacy of pharmacological treatments. Recent findings highlight a direct association between brain PUFA levels and dopamine transmission, a major neuromodulatory system implicated in the etiology of psychiatric symptoms. However, the mechanisms underlying this relationship are still unknown. Here we demonstrate that membrane enrichment in the n-3 PUFA docosahexaenoic acid (DHA), potentiates ligand binding to the dopamine D2 receptor (D2R), suggesting that DHA acts as an allosteric modulator of this receptor. Molecular dynamics simulations confirm that DHA has a high preference for interaction with the D2R and show that membrane unsaturation selectively enhances the conformational dynamics of the receptor around its second intracellular loop. We find that membrane unsaturation spares G protein activity but potentiates the recruitment of β-arrestin in cells. Furthermore, in vivo n-3 PUFA deficiency blunts the behavioral effects of two D2R ligands, quinpirole and aripiprazole. These results highlight the importance of membrane unsaturation for D2R activity and provide a putative mechanism for the ability of PUFAs to enhance antipsychotic efficacy.
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Affiliation(s)
- Marie-Lise Jobin
- Université de Bordeaux, INRAE, Bordeaux INP, NutriNeuro, 33000, Bordeaux, France
| | | | - Fabien Ducrocq
- Université de Bordeaux, INRAE, Bordeaux INP, NutriNeuro, 33000, Bordeaux, France
| | - Rim Baccouch
- Institute of Chemistry & Biology of Membranes & Nanoobjects, CNRS UMR 5248, Université de Bordeaux, Bordeaux INP, 33600, Pessac, France
| | - Asma Oummadi
- Université de Bordeaux, INRAE, Bordeaux INP, NutriNeuro, 33000, Bordeaux, France
| | - Maria Hauge Pedersen
- Department of Psychiatry, Columbia University Vagelos College of Physicians and Surgeons, New York, NY, 10032, USA
- Division of Molecular Therapeutics, New York State Psychiatric Institute, New York, NY, 10032, USA
| | - Brian Medel-Lacruz
- Research Programme on Biomedical Informatics (GRIB), Hospital del Mar Medical Research Institute (IMIM)-Department of Experimental and Health Sciences, Pompeu Fabra University (UPF), 08003, Barcelona, Spain
| | | | - Sandrine Villette
- Institute of Chemistry & Biology of Membranes & Nanoobjects, CNRS UMR 5248, Université de Bordeaux, Bordeaux INP, 33600, Pessac, France
| | - Pierre Van Delft
- Laboratory of Membrane Biogenesis (LBM), Research Mix Unity (UMR) 5200, National Scientific Research Center (CNRS), University of Bordeaux, Bordeaux, France
| | - Laetitia Fouillen
- Laboratory of Membrane Biogenesis (LBM), Research Mix Unity (UMR) 5200, National Scientific Research Center (CNRS), University of Bordeaux, Bordeaux, France
| | - Sébastien Mongrand
- Laboratory of Membrane Biogenesis (LBM), Research Mix Unity (UMR) 5200, National Scientific Research Center (CNRS), University of Bordeaux, Bordeaux, France
| | - Jana Selent
- Research Programme on Biomedical Informatics (GRIB), Hospital del Mar Medical Research Institute (IMIM)-Department of Experimental and Health Sciences, Pompeu Fabra University (UPF), 08003, Barcelona, Spain
| | | | - Gabriel Barreda-Gómez
- Research Department, IMG Pharma Biotech S.L., BIC Bizkaia (612), 48160, Derio, Spain
| | - Stéphane Grégoire
- Centre des Sciences du Goût et de l'Alimentation, AgroSup Dijon, CNRS, INRAE, Université Bourgogne Franche-Comté, 21000, Dijon, France
| | - Elodie Masson
- Centre des Sciences du Goût et de l'Alimentation, AgroSup Dijon, CNRS, INRAE, Université Bourgogne Franche-Comté, 21000, Dijon, France
| | - Thierry Durroux
- Institut de Génomique Fonctionnelle, Université de Montpellier, CNRS, INSERM, Montpellier, France
| | - Jonathan A Javitch
- Department of Psychiatry, Columbia University Vagelos College of Physicians and Surgeons, New York, NY, 10032, USA
- Division of Molecular Therapeutics, New York State Psychiatric Institute, New York, NY, 10032, USA
- Department of Molecular Pharmacology and Therapeutics, Columbia University Vagelos College of Physicians and Surgeons, New York, NY, 10032, USA
| | - Ramon Guixà-González
- Condensed Matter Theory Group, Paul Scherrer Institute (PSI), 5232, Villigen, PSI, Switzerland.
| | - Isabel D Alves
- Institute of Chemistry & Biology of Membranes & Nanoobjects, CNRS UMR 5248, Université de Bordeaux, Bordeaux INP, 33600, Pessac, France.
| | - Pierre Trifilieff
- Université de Bordeaux, INRAE, Bordeaux INP, NutriNeuro, 33000, Bordeaux, France.
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Calmet P, Cullin C, Cortès S, Vang M, Caudy N, Baccouch R, Dessolin J, Maamar NT, Lecomte S, Tillier B, Alves ID. Cholesterol impacts chemokine CCR5 receptor ligand-binding activity. FEBS J 2019; 287:2367-2385. [PMID: 31738467 DOI: 10.1111/febs.15145] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/16/2019] [Revised: 09/27/2019] [Accepted: 11/16/2019] [Indexed: 01/03/2023]
Abstract
The chemokine CCR5 receptor is target of maraviroc, a negative allosteric modulator of CCR5 that blocks the HIV protein gp120 from associating with the receptor, thereby inhibiting virus cellular entry. As noted with other G-protein-coupled receptor family members, the role of the lipid environment in CCR5 signaling remains obscure and very modestly investigated. Controversial literature on the impact of cholesterol (Chol) depletion in HIV infection and CCR5 signaling, including the hypothesis that Chol depletion could inhibit HIV infection, lead us to focus on the understanding of Chol impact in the first stages of receptor activation. To address this aim, the approach chosen was to employ reconstituted model lipid systems of controlled lipid composition containing CCR5 from two distinct expression systems: Pichia pastoris and cell-free expression. The characterization of receptor/ligand interaction in terms of total binding or competition binding assays was independently performed by plasmon waveguide resonance and fluorescence anisotropy, respectively. Maraviroc, a potent receptor antagonist, was the ligand investigated. Additionally, coarse-grained molecular dynamics simulation was employed to investigate Chol impact in the receptor-conformational flexibility and dynamics. Results obtained with receptor produced by different expression systems and using different biophysical approaches clearly demonstrate a considerable impact of Chol in the binding affinity of maraviroc to the receptor and receptor-conformational dynamics. Chol considerably decreases maraviroc binding affinity to the CCR5 receptor. The mechanisms by which this effect occurs seem to involve the adoption of distinct receptor-conformational states with restrained structural dynamics and helical motions in the presence of Chol.
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Affiliation(s)
- Pierre Calmet
- CBMN, UMR 5248 CNRS, University of Bordeaux, Pessac, France
| | | | | | - Maylou Vang
- CBMN, UMR 5248 CNRS, University of Bordeaux, Pessac, France
| | - Nada Caudy
- CBMN, UMR 5248 CNRS, University of Bordeaux, Pessac, France
| | - Rim Baccouch
- CBMN, UMR 5248 CNRS, University of Bordeaux, Pessac, France
| | - Jean Dessolin
- CBMN, UMR 5248 CNRS, University of Bordeaux, Pessac, France
| | | | - Sophie Lecomte
- CBMN, UMR 5248 CNRS, University of Bordeaux, Pessac, France
| | | | - Isabel D Alves
- CBMN, UMR 5248 CNRS, University of Bordeaux, Pessac, France
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Structural insights into the AapA1 toxin of Helicobacter pylori. Biochim Biophys Acta Gen Subj 2019; 1864:129423. [PMID: 31476357 DOI: 10.1016/j.bbagen.2019.129423] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/03/2019] [Revised: 08/12/2019] [Accepted: 08/28/2019] [Indexed: 02/06/2023]
Abstract
BACKGROUND We previously reported the identification of the aapA1/IsoA1 locus as part of a new family of toxin-antitoxin (TA) systems in the human pathogen Helicobacter pylori. AapA1 belongs to type I TA bacterial toxins, and both its mechanism of action towards the membrane and toxicity features are still unclear. METHODS The biochemical characterization of the AapA1 toxic peptide was carried out using plasmid-borne expression and mutational approaches to follow its toxicity and localization. Biophysical properties of the AapA1 interaction with lipid membranes were studied by solution and solid-state NMR spectroscopy, plasmon waveguide resonance (PWR) and molecular modeling. RESULTS We show that despite a low hydrophobic index, this toxin has a nanomolar affinity to the prokaryotic membrane. NMR spectroscopy reveals that the AapA1 toxin is structurally organized into three distinct domains: a positively charged disordered N-terminal domain (D), a single α-helix (H), and a basic C-terminal domain (R). The R domain interacts and destabilizes the membrane, while the H domain adopts a transmembrane conformation. These results were confirmed by alanine scanning of the minimal sequence required for toxicity. CONCLUSION Our results have shown that specific amino acid residues along the H domain, as well as the R domain, are essential for the toxicity of the AapA1 toxin. GENERAL SIGNIFICANCE Untangling and understanding the mechanism of action of small membrane-targeting toxins are difficult, but nevertheless contributes to a promising search and development of new antimicrobial drugs.
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Macikova L, Sinica V, Kadkova A, Villette S, Ciaccafava A, Faherty J, Lecomte S, Alves ID, Vlachova V. Putative interaction site for membrane phospholipids controls activation of TRPA1 channel at physiological membrane potentials. FEBS J 2019; 286:3664-3683. [PMID: 31116904 DOI: 10.1111/febs.14931] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2019] [Revised: 04/09/2019] [Accepted: 05/20/2019] [Indexed: 12/16/2022]
Abstract
The transient receptor potential ankyrin 1 (TRPA1) channel is a polymodal sensor of environmental irritant compounds, endogenous proalgesic agents, and cold. Upon activation, TRPA1 channels increase cellular calcium levels via direct permeation and trigger signaling pathways that hydrolyze phosphatidylinositol-4,5-bisphosphate (PIP2 ) in the inner membrane leaflet. Our objective was to determine the extent to which a putative PIP2 -interaction site (Y1006-Q1031) is involved in TRPA1 regulation. The interactions of two specific peptides (L992-N1008 and T1003-P1034) with model lipid membranes were characterized by biophysical approaches to obtain information about affinity, peptide secondary structure, and peptide effect in the lipid organization. The results indicate that the two peptides interact with lipid membranes only if PIP2 is present and their affinities depend on the presence of calcium. Using whole-cell electrophysiology, we demonstrate that mutation at F1020 produced channels with faster activation kinetics and with a rightward shifted voltage-dependent activation curve by altering the allosteric constant that couples voltage sensing to pore opening. We assert that the presence of PIP2 is essential for the interaction of the two peptide sequences with the lipid membrane. The putative phosphoinositide-interacting domain comprising the highly conserved F1020 contributes to the stabilization of the TRPA1 channel gate.
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Affiliation(s)
- Lucie Macikova
- CBMN-UMR 5248 CNRS, IPB, University of Bordeaux, Pessac, France.,Department of Cellular Neurophysiology, Institute of Physiology, Academy of Sciences of the Czech Republic, Prague, Czech Republic.,Department of Physiology, Faculty of Science, Charles University in Prague, Czech Republic
| | - Viktor Sinica
- Department of Cellular Neurophysiology, Institute of Physiology, Academy of Sciences of the Czech Republic, Prague, Czech Republic
| | - Anna Kadkova
- Department of Cellular Neurophysiology, Institute of Physiology, Academy of Sciences of the Czech Republic, Prague, Czech Republic
| | | | | | | | - Sophie Lecomte
- CBMN-UMR 5248 CNRS, IPB, University of Bordeaux, Pessac, France
| | - Isabel D Alves
- CBMN-UMR 5248 CNRS, IPB, University of Bordeaux, Pessac, France
| | - Viktorie Vlachova
- Department of Cellular Neurophysiology, Institute of Physiology, Academy of Sciences of the Czech Republic, Prague, Czech Republic
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Rodríguez-Frade JM, Martínez-Muñoz L, Villares R, Cascio G, Lucas P, Gomariz RP, Mellado M. Chemokine Detection Using Receptors Immobilized on an SPR Sensor Surface. Methods Enzymol 2015; 570:1-18. [PMID: 26921939 DOI: 10.1016/bs.mie.2015.09.013] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/10/2022]
Abstract
Chemokines and their receptors take part in many physiological and pathological processes, and their dysregulated expression is linked to chronic inflammatory and autoimmune diseases, immunodeficiencies, and cancer. The chemokine receptors, members of the G protein-coupled receptor family, are integral membrane proteins, with seven-transmembrane domains that bind the chemokines and transmit signals through GTP-binding proteins. Many assays used to study the structure, conformation, or activation mechanism of these receptors are based on ligand-binding measurement, as are techniques to detect new agonists and antagonists that modulate chemokine function. Such methods require labeling of the chemokine and/or its receptor, which can alter their binding characteristics. Surface plasmon resonance (SPR) is a powerful technique for analysis of the interaction between immobilized receptors and ligands in solution, in real time, and without labeling. SPR measurements nonetheless require expression and purification steps that can alter the conformation, stability, and function of the chemokine and/or the chemokine receptor. In this review, we focus on distinct methods to immobilize chemokine receptors on the surface of an optical biosensor. We expose the advantages and disadvantages of different protocols used and describe in detail the method to retain viral particles as receptor carriers that can be used for SPR determinations.
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Affiliation(s)
| | - Laura Martínez-Muñoz
- Department of Immunology and Oncology, Centro Nacional de Biotecnología (CNB/CSIC), Madrid, Spain
| | - Ricardo Villares
- Department of Immunology and Oncology, Centro Nacional de Biotecnología (CNB/CSIC), Madrid, Spain
| | - Graciela Cascio
- Department of Immunology and Oncology, Centro Nacional de Biotecnología (CNB/CSIC), Madrid, Spain
| | - Pilar Lucas
- Department of Immunology and Oncology, Centro Nacional de Biotecnología (CNB/CSIC), Madrid, Spain
| | - Rosa P Gomariz
- Department of Cell Biology, Universidad Complutense de Madrid, Madrid, Spain
| | - Mario Mellado
- Department of Immunology and Oncology, Centro Nacional de Biotecnología (CNB/CSIC), Madrid, Spain.
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Lee TH, Hirst DJ, Aguilar MI. New insights into the molecular mechanisms of biomembrane structural changes and interactions by optical biosensor technology. BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES 2015; 1848:1868-85. [PMID: 26009270 DOI: 10.1016/j.bbamem.2015.05.012] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/19/2014] [Revised: 05/15/2015] [Accepted: 05/17/2015] [Indexed: 12/31/2022]
Abstract
Biomolecular-membrane interactions play a critical role in the regulation of many important biological processes such as protein trafficking, cellular signalling and ion channel formation. Peptide/protein-membrane interactions can also destabilise and damage the membrane which can lead to cell death. Characterisation of the molecular details of these binding-mediated membrane destabilisation processes is therefore central to understanding cellular events such as antimicrobial action, membrane-mediated amyloid aggregation, and apoptotic protein induced mitochondrial membrane permeabilisation. Optical biosensors have provided a unique approach to characterising membrane interactions allowing quantitation of binding events and new insight into the kinetic mechanism of these interactions. One of the most commonly used optical biosensor technologies is surface plasmon resonance (SPR) and there have been an increasing number of studies reporting the use of this technique for investigating biophysical analysis of membrane-mediated events. More recently, a number of new optical biosensors based on waveguide techniques have been developed, allowing membrane structure changes to be measured simultaneously with mass binding measurements. These techniques include dual polarisation interferometry (DPI), plasmon waveguide resonance spectroscopy (PWR) and optical waveguide light mode spectroscopy (OWLS). These techniques have expanded the application of optical biosensors to allow the analysis of membrane structure changes during peptide and protein binding. This review provides a theoretical and practical overview of the application of biosensor technology with a specific focus on DPI, PWR and OWLS to study biomembrane-mediated events and the mechanism of biomembrane disruption. This article is part of a Special Issue entitled: Lipid-protein interactions.
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Affiliation(s)
- Tzong-Hsien Lee
- Department of Biochemistry and Molecular Biology, Monash University, Wellington Rd, Clayton, VIC 3800, Australia
| | - Daniel J Hirst
- Department of Biochemistry and Molecular Biology, Monash University, Wellington Rd, Clayton, VIC 3800, Australia
| | - Marie-Isabel Aguilar
- Department of Biochemistry and Molecular Biology, Monash University, Wellington Rd, Clayton, VIC 3800, Australia.
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Witschas K, Jobin ML, Korkut DN, Vladan MM, Salgado G, Lecomte S, Vlachova V, Alves ID. Interaction of a peptide derived from C-terminus of human TRPA1 channel with model membranes mimicking the inner leaflet of the plasma membrane. BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES 2015; 1848:1147-56. [PMID: 25687973 DOI: 10.1016/j.bbamem.2015.02.003] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/10/2014] [Revised: 01/21/2015] [Accepted: 02/04/2015] [Indexed: 11/29/2022]
Abstract
The transient receptor potential ankyrin 1 channel (TRPA1) belongs to the TRP cation channel superfamily that responds to a panoply of stimuli such as changes in temperature, calcium levels, reactive oxygen and nitrogen species and lipid mediators among others. The TRP superfamily has been implicated in diverse pathological states including neurodegenerative disorders, kidney diseases, inflammation, pain and cancer. The intracellular C-terminus is an important regulator of TRP channel activity. Studies with this and other TRP superfamily members have shown that the C-terminus association with lipid bilayer alters channel sensitivity and activation, especially interactions occurring through basic residues. Nevertheless, it is not yet clear how this process takes place and which regions in the C-terminus would be responsible for such membrane recognition. With that in mind, herein the first putative membrane interacting region of the C-terminus of human TRPA1, (corresponding to a 29 residue peptide, IAEVQKHASLKRIAMQVELHTSLEKKLPL) named H1 due to its potential helical character was chosen for studies of membrane interaction. The affinity of H1 to lipid membranes, H1 structural changes occurring upon this interaction as well as effects of this interaction in lipid organization and integrity were investigated using a biophysical approach. Lipid models systems composed of zwitterionic and anionic lipids, namely those present in the lipid membrane inner leaflet, where H1 is prone to interact, where used. The study reveals a strong interaction and affinity of H1 as well as peptide structuration especially with membranes containing anionic lipids. Moreover, the interactions and peptide structure adoption are headgroup specific.
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Affiliation(s)
- Katja Witschas
- CBMN-UMR 5248 CNRS, University of Bordeaux, IPB, Allée Geoffroy St. Hilaire, 33600 Pessac, France; Department of Cellular Neurophysiology, Institute of Physiology, Academy of Sciences of the Czech Republic, Videnska 1083, 142 20 Prague 4, Czech Republic
| | - Marie-Lise Jobin
- CBMN-UMR 5248 CNRS, University of Bordeaux, IPB, Allée Geoffroy St. Hilaire, 33600 Pessac, France
| | - Dursun Nizam Korkut
- INSERM, U869, ARNA Laboratory, University of Bordeaux, 2 rue Robert Escarpit, 33607 Pessac, France
| | - Maria Magdalena Vladan
- CBMN-UMR 5248 CNRS, University of Bordeaux, IPB, Allée Geoffroy St. Hilaire, 33600 Pessac, France
| | - Gilmar Salgado
- INSERM, U869, ARNA Laboratory, University of Bordeaux, 2 rue Robert Escarpit, 33607 Pessac, France
| | - Sophie Lecomte
- CBMN-UMR 5248 CNRS, University of Bordeaux, IPB, Allée Geoffroy St. Hilaire, 33600 Pessac, France
| | - Viktorie Vlachova
- Department of Cellular Neurophysiology, Institute of Physiology, Academy of Sciences of the Czech Republic, Videnska 1083, 142 20 Prague 4, Czech Republic
| | - Isabel D Alves
- CBMN-UMR 5248 CNRS, University of Bordeaux, IPB, Allée Geoffroy St. Hilaire, 33600 Pessac, France.
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10
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Martínez-Muñoz L, Barroso R, Paredes AG, Mellado M, Rodríguez-Frade JM. Methods to immobilize GPCR on the surface of SPR sensors. Methods Mol Biol 2015; 1272:173-188. [PMID: 25563184 DOI: 10.1007/978-1-4939-2336-6_12] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
The G protein-coupled receptors (GPCRs) form one of the largest membrane receptor families. The nature of the ligands that interact with these receptors is highly diverse; they include light, peptides and hormones, neurotransmitters, and small molecular weight compounds. The GPCRs are involved in a wide variety of physiological processes and thus hold considerable therapeutic potential.GPCR function is usually determined in cell-based assays, whose complexity nonetheless limits their use. The use of alternative, cell-free assays is hampered by the difficulties in purifying these seven-transmembrane domain receptors without altering their functional properties. Several methods have been proposed to immobilize GPCR on biosensor surfaces which use antibodies or avidin-/biotin-based capture procedures, alone or with reconstitution of the GPCR physiological microenvironment. Here we propose a method for GPCR immobilization in their native membrane microenvironment that requires no manipulation of the target receptor and maintains the many conformations GPCR can adopt in the cell membrane.
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Affiliation(s)
- Laura Martínez-Muñoz
- Department of Immunology and Oncology, Centro Nacional de Biotecnología (CNB/CSIC), Darwin 3, Campus de Cantoblanco, Madrid, 28049, Spain
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Bobbitt JM, Weibel SC, Elshobaki M, Chaudhary S, Smith EA. Fourier transform-plasmon waveguide spectroscopy: a nondestructive multifrequency method for simultaneously determining polymer thickness and apparent index of refraction. Anal Chem 2014; 86:11957-61. [PMID: 25413025 DOI: 10.1021/ac504103g] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/02/2023]
Abstract
Fourier transform (FT)-plasmon waveguide resonance (PWR) spectroscopy measures light reflectivity at a waveguide interface as the incident frequency and angle are scanned. Under conditions of total internal reflection, the reflected light intensity is attenuated when the incident frequency and angle satisfy conditions for exciting surface plasmon modes in the metal as well as guided modes within the waveguide. Expanding upon the concept of two-frequency surface plasmon resonance developed by Peterlinz and Georgiadis [Opt. Commun. 1996, 130, 260], the apparent index of refraction and the thickness of a waveguide can be measured precisely and simultaneously by FT-PWR with an average percent relative error of 0.4%. Measuring reflectivity for a range of frequencies extends the analysis to a wide variety of sample compositions and thicknesses since frequencies with the maximum attenuation can be selected to optimize the analysis. Additionally, the ability to measure reflectivity curves with both p- and s-polarized light provides anisotropic indices of refraction. FT-PWR is demonstrated using polystyrene waveguides of varying thickness, and the validity of FT-PWR measurements are verified by comparing the results to data from profilometry and atomic force microscopy (AFM).
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Affiliation(s)
- Jonathan M Bobbitt
- The Ames Laboratory, U.S. Department of Energy , Ames, Iowa 50011, United States
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12
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Adamson RJ, Watts A. Kinetics of the early events of GPCR signalling. FEBS Lett 2014; 588:4701-7. [PMID: 25447525 PMCID: PMC4266533 DOI: 10.1016/j.febslet.2014.10.043] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/14/2014] [Revised: 10/10/2014] [Accepted: 10/27/2014] [Indexed: 11/28/2022]
Abstract
Little is known of the kinetics of interactions between GPCRs and their signalling partners. NTS1 binds Gαi1 and Gαs with affinities of 15 ± 6 nM and 31 ± 18 nM (SE), respectively. This SPR assay may be applicable to multiple partners in the signalling cascade. We provide the first direct evidence for GPCR-G protein coupling in nanodiscs.
Neurotensin receptor type 1 (NTS1) is a G protein-coupled receptor (GPCR) that affects cellular responses by initiating a cascade of interactions through G proteins. The kinetic details for these interactions are not well-known. Here, NTS1-nanodisc-Gαs and Gαi1 interactions were studied. The binding affinities of Gαi1 and Gαs to NTS1 were directly measured by surface plasmon resonance (SPR) and determined to be 15 ± 6 nM and 31 ± 18 nM, respectively. This SPR configuration permits the kinetics of early events in signalling pathways to be explored and can be used to initiate descriptions of the GPCR interactome.
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Affiliation(s)
- Roslin J Adamson
- Biomembrane Structure Unit, Biochemistry Department, University of Oxford, South Parks Road, Oxford OX1 3QU, UK
| | - Anthony Watts
- Biomembrane Structure Unit, Biochemistry Department, University of Oxford, South Parks Road, Oxford OX1 3QU, UK.
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Abstract
OBJECTIVE Monocyte inflammatory processes are fundamental events in AIDS pathogenesis. HIV-1 matrix protein p17, released from infected cells, was found to exert an interleukin (IL)-8 chemokine-like activity on human monocytes, promoting their trafficking and sustaining inflammatory processes, after binding to CXCR1. A haplotype of the CXCR1 gene (CXCR1_300_142) has been associated with slow HIV disease progression. Here, we determine how CXCR1 genetic variations impact on p17 biological activity. DESIGN/METHODS/RESULTS Our results show that Jurkat cells overexpressing CXCR1 or the receptor carrying single polymorphism CXCR1_300 or CXCR1_142 are able to adhere and migrate in response to both IL-8 and p17. On the contrary, Jurkat cells overexpressing CXCR1_300_142 and monocytes of individuals with such CXCR1 polymorphisms lose the capacity to adhere and migrate in response to p17, but not to their physiological ligand IL-8. Surface plasmon resonance (SPR) and multispectral imaging flow cytometry showed that p17 bound with similar affinity to CXCR1 and CXCR1_300_142. Moreover, whereas p17 was able to activate CXCR1, it was incapable of functionally interacting with CXCR1_300_142 by phosphorylating extracellular signal-regulated kinase 1/2, which regulates chemokine-induced cellular responses. Finally, mutagenesis studies showed that, unlike IL-8, p17 does not use Glu-Leu-Arg-like motifs to activate CXCR1. CONCLUSIONS Our results, showing the inability of p17 to activate CXCR1_300_142, a receptor found to be expressed on immune cells of patients with a low progression of HIV disease, point to a crucial role of p17 in AIDS pathogenesis. Our findings herein call for an exploration of the therapeutic potential of blocking the p17/CXCR1 axis in HIV infection.
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Haiech J, Gendrault Y, Kilhoffer MC, Ranjeva R, Madec M, Lallement C. A general framework improving teaching ligand binding to a macromolecule. BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH 2014; 1843:2348-55. [PMID: 24657812 DOI: 10.1016/j.bbamcr.2014.03.013] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/09/2014] [Revised: 03/10/2014] [Accepted: 03/13/2014] [Indexed: 10/25/2022]
Abstract
The interaction of a ligand with a macromolecule has been modeled following different theories. The tenants of the induced fit model consider that upon ligand binding, the protein-ligand complex undergoes a conformational change. In contrast, the allosteric model assumes that only one among different coexisting conformers of a given protein is suitable to bind the ligand optimally. In the present paper, we propose a general framework to model the binding of ligands to a macromolecule. Such framework built on the binding polynomial allows opening new ways to teach in a unified manner ligand binding, enzymology and receptor binding in pharmacology. Moreover, we have developed simple software that allows building the binding polynomial from the schematic description of the biological system under study. Taking calmodulin as a canonical example, we show here that the proposed tool allows the easy retrieval of previously experimental and computational reports. This article is part of a Special Issue entitled: Calcium Signaling in Health and Disease. Guest Editors: Geert Bultynck, Jacques Haiech, Claus W. Heizmann, Joachim Krebs, and Marc Moreau.
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Affiliation(s)
- Jacques Haiech
- LIT, Therapeutic Innovation Laboratory, UMR7200 CNRS, University of Strasbourg, Faculty of Pharmacy, Illkirch, France.
| | - Yves Gendrault
- ICube, Engineering, Computer and Imaging Science Laboratory, UMR7357 CNRS, University of Strasbourg, Telecom - Strasbourg, France
| | - Marie-Claude Kilhoffer
- LIT, Therapeutic Innovation Laboratory, UMR7200 CNRS, University of Strasbourg, Faculty of Pharmacy, Illkirch, France
| | - Raoul Ranjeva
- LIT, Therapeutic Innovation Laboratory, UMR7200 CNRS, University of Strasbourg, Faculty of Pharmacy, Illkirch, France
| | - Morgan Madec
- ICube, Engineering, Computer and Imaging Science Laboratory, UMR7357 CNRS, University of Strasbourg, Telecom - Strasbourg, France
| | - Christophe Lallement
- ICube, Engineering, Computer and Imaging Science Laboratory, UMR7357 CNRS, University of Strasbourg, Telecom - Strasbourg, France
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Walrant A, Bechara C, Alves ID, Sagan S. Molecular partners for interaction and cell internalization of cell-penetrating peptides: how identical are they? Nanomedicine (Lond) 2012; 7:133-43. [DOI: 10.2217/nnm.11.165] [Citation(s) in RCA: 44] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022] Open
Abstract
Cell-penetrating peptides are short basic peptide sequences that might display amphipathic properties. These positively charged peptides internalize into all cell types, albeit with different efficiency. Cell-penetrating peptides use all routes of pinocytosis to internalize, in addition to direct membrane translocation that requires interaction with lipid membrane domains. These differences in internalization efficiency according to the peptide sequence and cell type suggest that the cell-penetrating peptides interact with different molecular partners at the cell surface. This review will first report on data that describe the molecular interaction of the most popular cell-penetrating peptides (penetratin, Tat and oligoarginine) with carbohydrates and lipids. The second part of the review will be dedicated to cell studies that have reported how cell surface composition influences cell internalization. Discussion will focus on the gap between in vitro and in cellulo studies, and more specifically to which extent the interaction with molecules found in membranes reflect the internalization efficiency of the peptides.
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Affiliation(s)
- Astrid Walrant
- UPMC Univ Paris 06, UMR 7203, LBM, 75005 Paris, France
- CNRS, UMR 7203, LBM, 75005 Paris, France
- ENS, UMR 7203, LBM, 75005 Paris, France
| | - Chérine Bechara
- UPMC Univ Paris 06, UMR 7203, LBM, 75005 Paris, France
- CNRS, UMR 7203, LBM, 75005 Paris, France
- ENS, UMR 7203, LBM, 75005 Paris, France
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Kool J, Jonker N, Irth H, Niessen WMA. Studying protein-protein affinity and immobilized ligand-protein affinity interactions using MS-based methods. Anal Bioanal Chem 2011; 401:1109-25. [PMID: 21755271 PMCID: PMC3151372 DOI: 10.1007/s00216-011-5207-9] [Citation(s) in RCA: 34] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/07/2011] [Revised: 06/12/2011] [Accepted: 06/24/2011] [Indexed: 12/31/2022]
Abstract
This review discusses the most important current methods employing mass spectrometry (MS) analysis for the study of protein affinity interactions. The methods are discussed in depth with particular reference to MS-based approaches for analyzing protein-protein and protein-immobilized ligand interactions, analyzed either directly or indirectly. First, we introduce MS methods for the study of intact protein complexes in the gas phase. Next, pull-down methods for affinity-based analysis of protein-protein and protein-immobilized ligand interactions are discussed. Presently, this field of research is often called interactomics or interaction proteomics. A slightly different approach that will be discussed, chemical proteomics, allows one to analyze selectivity profiles of ligands for multiple drug targets and off-targets. Additionally, of particular interest is the use of surface plasmon resonance technologies coupled with MS for the study of protein interactions. The review addresses the principle of each of the methods with a focus on recent developments and the applicability to lead compound generation in drug discovery as well as the elucidation of protein interactions involved in cellular processes. The review focuses on the analysis of bioaffinity interactions of proteins with other proteins and with ligands, where the proteins are considered as the bioactives analyzed by MS.
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Affiliation(s)
- Jeroen Kool
- BioMolecular Analysis, Department of Chemistry and Pharmaceutical Sciences, Faculty of Sciences, VU University Amsterdam, Amsterdam, The Netherlands.
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18
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Horii M, Shinohara H, Iribe Y, Suzuki M. Living cell-based allergen sensing using a high resolution two-dimensional surface plasmon resonance imager. Analyst 2011; 136:2706-11. [DOI: 10.1039/c0an00874e] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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Glück JM, Koenig BW, Willbold D. Nanodiscs allow the use of integral membrane proteins as analytes in surface plasmon resonance studies. Anal Biochem 2011; 408:46-52. [DOI: 10.1016/j.ab.2010.08.028] [Citation(s) in RCA: 35] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/13/2010] [Revised: 07/22/2010] [Accepted: 08/23/2010] [Indexed: 01/16/2023]
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20
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Alves ID, Jiao CY, Aubry S, Aussedat B, Burlina F, Chassaing G, Sagan S. Cell biology meets biophysics to unveil the different mechanisms of penetratin internalization in cells. BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES 2010; 1798:2231-9. [DOI: 10.1016/j.bbamem.2010.02.009] [Citation(s) in RCA: 53] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/05/2009] [Revised: 02/03/2010] [Accepted: 02/04/2010] [Indexed: 02/05/2023]
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21
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Salgado GF, Vogel A, Marquant R, Feller SE, Bouaziz S, Alves ID. The role of membranes in the organization of HIV-1 Gag p6 and Vpr: p6 shows high affinity for membrane bilayers which substantially increases the interaction between p6 and Vpr. J Med Chem 2009; 52:7157-62. [PMID: 19883084 DOI: 10.1021/jm901106t] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
The molecular mechanism by which HIV-1 Gag proteins are targeted and transported to the plasma membrane after ribosomal synthesis is unknown. In this work, we investigated the potential interaction of p6 and Vpr with model membranes and have determined their binding constants. Plasmon waveguide resonance (PWR) experiments showed that p6 strongly interacts with membranes (K(d) approximately 40 nM), which may help explaining in part why Gag is targeted to and assembles into membranes by coating itself with lipids. Moreover, a substantial increased affinity of Vpr for p6 was observed while in a membrane environment. In order to further investigate the molecular properties behind the high affinity to model membranes, molecular dynamics simulations were carried out for p6 with a dodecylphosphocholine (DPC) micelle. The results indicate an integration route model for Vpr into virions and may help explain why previous reports failed to detect p6 in virion core preparations.
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Affiliation(s)
- Gilmar F Salgado
- Departement de Chimie, Ecole Normale Superieure, CNRS, UMR 8642, 24 rue Lhomond, 75231 Paris cedex 05, France
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22
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Maynard JA, Lindquist NC, Sutherland JN, Lesuffleur A, Warrington AE, Rodriguez M, Oh SH. Surface plasmon resonance for high-throughput ligand screening of membrane-bound proteins. Biotechnol J 2009; 4:1542-58. [PMID: 19918786 PMCID: PMC2790208 DOI: 10.1002/biot.200900195] [Citation(s) in RCA: 77] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Abstract
Technologies based on surface plasmon resonance (SPR) have allowed rapid, label-free characterization of protein-protein and protein-small molecule interactions. SPR has become the gold standard in industrial and academic settings, in which the interaction between a pair of soluble binding partners is characterized in detail or a library of molecules is screened for binding against a single soluble protein. In spite of these successes, SPR is only beginning to be adapted to the needs of membrane-bound proteins which are difficult to study in situ but represent promising targets for drug and biomarker development. Existing technologies, such as BIAcoreTM, have been adapted for membrane protein analysis by building supported lipid layers or capturing lipid vesicles on existing chips. Newer technologies, still in development, will allow membrane proteins to be presented in native or near-native formats. These include SPR nanopore arrays, in which lipid bilayers containing membrane proteins stably span small pores that are addressable from both sides of the bilayer. Here, we discuss current SPR instrumentation and the potential for SPR nanopore arrays to enable quantitative, high-throughput screening of G protein coupled receptor ligands and applications in basic cellular biology.
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Affiliation(s)
- Jennifer A. Maynard
- Department of Chemical Engineering, University of Texas at Austin, Austin, Texas, 78705
| | - Nathan C. Lindquist
- Department of Electrical and Computer Engineering, University of Minnesota, Twin Cities, Minneapolis, MN 55455
| | - Jamie N. Sutherland
- Department of Chemical Engineering, University of Texas at Austin, Austin, Texas, 78705
| | - Antoine Lesuffleur
- Department of Electrical and Computer Engineering, University of Minnesota, Twin Cities, Minneapolis, MN 55455
| | | | - Moses Rodriguez
- Departments of Neurology, Mayo Clinic College of Medicine, Rochester, MN 55905
| | - Sang-Hyun Oh
- Department of Electrical and Computer Engineering, University of Minnesota, Twin Cities, Minneapolis, MN 55455
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Nanoplasmonic biosensing with focus on short-range ordered nanoholes in thin metal films (Review). Biointerphases 2008; 3:FD30-40. [DOI: 10.1116/1.3027483] [Citation(s) in RCA: 63] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022] Open
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Velarde TRC, Wirth MJ. Silica colloidal crystals as porous substrates for total internal reflection fluorescence microscopy of live cells. APPLIED SPECTROSCOPY 2008; 62:611-616. [PMID: 18559147 DOI: 10.1366/000370208784657986] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/26/2023]
Abstract
Total internal reflection fluorescence (TIRF) microscopy is a powerful means of probing biological cells because it reduces autofluorescence, but the need for direct contact between the cell surface and the microscope slide hinders chemical access to the cell surface. In this work, a submicrometer crystalline layer of colloidal silica on the microscope coverslip is shown to allow TIRF microscopy while also allowing chemical access to the cell surface. A 750 nm layer of 165 nm silica colloidal crystals was sintered onto a fused silica coverslip, and Chinese hamster ovary cells were successfully grown on this surface. This cell line over-expresses the human delta-opioid receptor, which enabled probing of the binding of a labeled ligand to the receptors on the cell surface. Total internal reflection and chemical access to the cell surface are demonstrated. The range of angles for total internal reflection is reduced only by 1/3 due to the lower index of refraction of the colloidal multilayer relative to fused silica.
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Affiliation(s)
- Tomika R C Velarde
- Department of Chemistry, University of Arizona, 1306 E. University Blvd., Tucson, AZ 85721, USA
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Ohara K, Ikehata A, Hirano Y, Ozaki Y. Determination of surface selection rule of surface plasmon resonance near-infrared spectroscopy by using a Langmuir-Blodgett film. Anal Chem 2007; 79:8406-10. [PMID: 17915939 DOI: 10.1021/ac071467w] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Near-infrared (NIR) absorption spectra of a cadmium arachidate Langmuir-Blodgett (LB) film were measured by surface plasmon resonance near-infrared spectroscopy (SPR-NIRS) based on the Kretschmann configuration with a 18.8-nm gold film. An NIR spectrum enhanced severalfold was obtained as a top ridge of the SPR-NIR spectra measured at different incident angles by using the principle of absorption-sensitive SPR. In order to determine the surface selection rule of SPR-NIRS, the enhanced NIR absorption spectrum of the LB film was compared to an unenhanced one without the gold film and to a normal incidence transmission spectrum. Moreover, a pair of out-of-plane (OP) and in-plane (IP) spectra were obtained by multiangle infrared spectroscopy analysis from a series of oblique incidence transmission measurements in the NIR region. It became obvious that the salient feature of the enhanced NIR absorption spectrum, i.e., the top ridge of the SPR-NIR spectra is almost equivalent to that of the OP spectrum. On the other hand, the unenhanced spectrum showed IP modes. These experimental results were well explained by calculation of the mean-square electric field based on the Fresnel formula.
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Affiliation(s)
- Kazuaki Ohara
- Department of Chemistry and Research Center for Near Infrared Spectroscopy, School of Science and Technology, Kwansei Gakuin University, 2-1 Gakuen, Sanda 669-1337, Japan
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Abstract
The speed of the human genome project (Lander, E. S., Linton, L. M., Birren, B., Nusbaum, C. et al., Nature 2001, 409, 860-921) was made possible, in part, by developments in automation of sequencing technologies. Before these technologies, sequencing was a laborious, expensive, and personnel-intensive task. Similarly, automation and robotics are changing the field of proteomics today. Proteomics is defined as the effort to understand and characterize proteins in the categories of structure, function and interaction (Englbrecht, C. C., Facius, A., Comb. Chem. High Throughput Screen. 2005, 8, 705-715). As such, this field nicely lends itself to automation technologies since these methods often require large economies of scale in order to achieve cost and time-saving benefits. This article describes some of the technologies and methods being applied in proteomics in order to facilitate automation within the field as well as in linking proteomics-based information with other related research areas.
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Affiliation(s)
- Gil Alterovitz
- Division of Health Sciences and Technology, HST, Harvard Medical School and Massachusetts Institute of Technology, Boston, MA 02115, USA.
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Abstract
We identified 1113 articles (103 reviews, 1010 primary research articles) published in 2005 that describe experiments performed using commercially available optical biosensors. While this number of publications is impressive, we find that the quality of the biosensor work in these articles is often pretty poor. It is a little disappointing that there appears to be only a small set of researchers who know how to properly perform, analyze, and present biosensor data. To help focus the field, we spotlight work published by 10 research groups that exemplify the quality of data one should expect to see from a biosensor experiment. Also, in an effort to raise awareness of the common problems in the biosensor field, we provide side-by-side examples of good and bad data sets from the 2005 literature.
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Affiliation(s)
- Rebecca L Rich
- Center for Biomolecular Interaction Analysis, University of Utah, Salt Lake City, UT 84132, USA
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