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Zhang X, Zhang L, Li H, Xu Y, Meng L, Liang G, Wang B, Liu L, Guan T, Guo C, He Y. Weak Value Amplification Based Optical Sensor for High Throughput Real-Time Immunoassay of SARS-CoV-2 Spike Protein. BIOSENSORS 2024; 14:332. [PMID: 39056608 PMCID: PMC11274545 DOI: 10.3390/bios14070332] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/06/2024] [Revised: 07/01/2024] [Accepted: 07/02/2024] [Indexed: 07/28/2024]
Abstract
The demand for accurate and efficient immunoassays calls for the development of precise, high-throughput analysis methods. This paper introduces a novel approach utilizing a weak measurement interface sensor for immunoassays, offering a solution for high throughput analysis. Weak measurement is a precise quantum measurement method that amplifies the weak value of a system in the weak interaction through appropriate pre- and post-selection states. To facilitate the simultaneous analysis of multiple samples, we have developed a chip with six flow channels capable of conducting six immunoassays concurrently. We can perform real-time immunoassay to determine the binding characteristics of spike protein and antibody through real-time analysis of the flow channel images and calculating the relative intensity. The proposed method boasts a simple structure, eliminating the need for intricate nano processes. The spike protein concentration and relative intensity curve were fitted using the Log-Log fitting regression equation, and R2 was 0.91. Utilizing a pre-transformation approach to account for slight variations in detection sensitivity across different flow channels, the present method achieves an impressive limit of detection(LOD) of 0.85 ng/mL for the SARS-CoV-2 the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) spike protein, with a system standard deviation of 5.61. Furthermore, this method has been successfully verified for monitoring molecular-specific binding processes and differentiating binding capacities.
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Affiliation(s)
- Xiaonan Zhang
- Shenzhen Key Laboratory for Minimal Invasive Medical Technologies, Institute of Optical Imaging and Sensing, Shenzhen International Graduate School, Tsinghua University, Shenzhen 518055, China; (X.Z.); (H.L.); (Y.X.); (L.M.); (G.L.); (B.W.); (T.G.); (Y.H.)
- School of Medicine, Tsinghua University, Beijing 100084, China
| | - Lizhong Zhang
- Shenzhen Key Laboratory for Minimal Invasive Medical Technologies, Institute of Optical Imaging and Sensing, Shenzhen International Graduate School, Tsinghua University, Shenzhen 518055, China; (X.Z.); (H.L.); (Y.X.); (L.M.); (G.L.); (B.W.); (T.G.); (Y.H.)
| | - Han Li
- Shenzhen Key Laboratory for Minimal Invasive Medical Technologies, Institute of Optical Imaging and Sensing, Shenzhen International Graduate School, Tsinghua University, Shenzhen 518055, China; (X.Z.); (H.L.); (Y.X.); (L.M.); (G.L.); (B.W.); (T.G.); (Y.H.)
| | - Yang Xu
- Shenzhen Key Laboratory for Minimal Invasive Medical Technologies, Institute of Optical Imaging and Sensing, Shenzhen International Graduate School, Tsinghua University, Shenzhen 518055, China; (X.Z.); (H.L.); (Y.X.); (L.M.); (G.L.); (B.W.); (T.G.); (Y.H.)
| | - Lingqin Meng
- Shenzhen Key Laboratory for Minimal Invasive Medical Technologies, Institute of Optical Imaging and Sensing, Shenzhen International Graduate School, Tsinghua University, Shenzhen 518055, China; (X.Z.); (H.L.); (Y.X.); (L.M.); (G.L.); (B.W.); (T.G.); (Y.H.)
| | - Gengyu Liang
- Shenzhen Key Laboratory for Minimal Invasive Medical Technologies, Institute of Optical Imaging and Sensing, Shenzhen International Graduate School, Tsinghua University, Shenzhen 518055, China; (X.Z.); (H.L.); (Y.X.); (L.M.); (G.L.); (B.W.); (T.G.); (Y.H.)
| | - Bei Wang
- Shenzhen Key Laboratory for Minimal Invasive Medical Technologies, Institute of Optical Imaging and Sensing, Shenzhen International Graduate School, Tsinghua University, Shenzhen 518055, China; (X.Z.); (H.L.); (Y.X.); (L.M.); (G.L.); (B.W.); (T.G.); (Y.H.)
| | - Le Liu
- Institute of Materials Research, Shenzhen International Graduate School, Tsinghua University, Shenzhen 518055, China;
| | - Tian Guan
- Shenzhen Key Laboratory for Minimal Invasive Medical Technologies, Institute of Optical Imaging and Sensing, Shenzhen International Graduate School, Tsinghua University, Shenzhen 518055, China; (X.Z.); (H.L.); (Y.X.); (L.M.); (G.L.); (B.W.); (T.G.); (Y.H.)
- School of Medicine, Tsinghua University, Beijing 100084, China
| | - Cuixia Guo
- School of Mechanical Engineering and Automation, Fuzhou University, Fuzhou 350108, China
| | - Yonghong He
- Shenzhen Key Laboratory for Minimal Invasive Medical Technologies, Institute of Optical Imaging and Sensing, Shenzhen International Graduate School, Tsinghua University, Shenzhen 518055, China; (X.Z.); (H.L.); (Y.X.); (L.M.); (G.L.); (B.W.); (T.G.); (Y.H.)
- Jilin Fuyuan Guan Food Group Joint Research Center, Shenzhen International Graduate School, Tsinghua University, Shenzhen 518055, China
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D'Agata R, Bellassai N, Spoto G. Exploiting the design of surface plasmon resonance interfaces for better diagnostics: A perspective review. Talanta 2024; 266:125033. [PMID: 37562226 DOI: 10.1016/j.talanta.2023.125033] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/13/2023] [Revised: 08/01/2023] [Accepted: 08/03/2023] [Indexed: 08/12/2023]
Abstract
Surface Plasmon Resonance based-sensors are promising tools for precision diagnostics as they can provide tests useful for early and, whenever possible, non-invasive disease detection and monitoring. The design of novel, robust and effective interfaces enabling the sensing of a variety of molecular interactions in a highly selective and sensitive manner is a necessary step to obtain both accurate and reliable detection by SPR. This review covers the recent research efforts in this area, specifically emphasizing well-designed interfaces and applications in real-life samples. In particular, after a short introduction which identifies some of the critical challenges, the emerging strategies for the integration of the linker, the metal substrate and the recognition element on the sensing interface will be explored and discussed in three sections, as well as the opportunities for building SPR biosensors, easy to use, and with excellent sensitivities. Finally, a summary of some of the more promising and latest diagnostic applications will be provided, presenting a new window into the near-future perspectives.
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Affiliation(s)
- Roberta D'Agata
- Department of Chemical Sciences, University of Catania, Viale Andrea Doria, 6, 95125, Catania, Italy; INBB, Istituto Nazionale di Biostrutture e Biosistemi, Viale Delle Medaglie D'Oro, 305, 00136, Roma, Italy.
| | - Noemi Bellassai
- Department of Chemical Sciences, University of Catania, Viale Andrea Doria, 6, 95125, Catania, Italy; INBB, Istituto Nazionale di Biostrutture e Biosistemi, Viale Delle Medaglie D'Oro, 305, 00136, Roma, Italy
| | - Giuseppe Spoto
- Department of Chemical Sciences, University of Catania, Viale Andrea Doria, 6, 95125, Catania, Italy; INBB, Istituto Nazionale di Biostrutture e Biosistemi, Viale Delle Medaglie D'Oro, 305, 00136, Roma, Italy
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Bhattacharjee N, Alonso-Cotchico L, Lucas MF. Enzyme immobilization studied through molecular dynamic simulations. Front Bioeng Biotechnol 2023; 11:1200293. [PMID: 37362217 PMCID: PMC10285225 DOI: 10.3389/fbioe.2023.1200293] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/04/2023] [Accepted: 05/30/2023] [Indexed: 06/28/2023] Open
Abstract
In recent years, simulations have been used to great advantage to understand the structural and dynamic aspects of distinct enzyme immobilization strategies, as experimental techniques have limitations in establishing their impact at the molecular level. In this review, we discuss how molecular dynamic simulations have been employed to characterize the surface phenomenon in the enzyme immobilization procedure, in an attempt to decipher its impact on the enzyme features, such as activity and stability. In particular, computational studies on the immobilization of enzymes using i) nanoparticles, ii) self-assembled monolayers, iii) graphene and carbon nanotubes, and iv) other surfaces are covered. Importantly, this thorough literature survey reveals that, while simulations have been primarily performed to rationalize the molecular aspects of the immobilization event, their use to predict adequate protocols that can control its impact on the enzyme properties is, up to date, mostly missing.
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Zhang L, Huang Q, Zhang X, Zeng Z, Zhang H, Guan T, Xu Y, Zhou C, Meng L, Liang G, Li Z, Wang B, Liu L, Guo C, He Y. Ultra-precise weak measurement-based interfacial biosensors. Talanta 2023; 257:124217. [PMID: 36801563 DOI: 10.1016/j.talanta.2022.124217] [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: 09/22/2022] [Revised: 12/17/2022] [Accepted: 12/21/2022] [Indexed: 12/24/2022]
Abstract
In this study, an interfacial biosensing scheme with ultra-precision is proposed. The scheme uses weak measurement techniques to ensure ultra-high sensitivity of the sensing system while improving the stability of the system through self-referencing and pixel point averaging, thus achieving ultra-high detection accuracy of biological samples. In specific experiments, we have used the biosensor in this study to perform specific binding reaction experiments for protein A and Mouse IgG with a detection line of 2.71 ng/mL for IgG. In addition, the sensor is non-coated, simple in structure, easy to operate, and low in cost of use.
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Affiliation(s)
- Lizhong Zhang
- Institute of Optical Imaging and Sensing, Shenzhen Key Laboratory for Minimal Invasive Medical Technologies, Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen, 518055, China; Institute of Biopharmaceutical and Health Engineering, Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen, 518055, China
| | - Qiang Huang
- Institute of Optical Imaging and Sensing, Shenzhen Key Laboratory for Minimal Invasive Medical Technologies, Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen, 518055, China; Shenzhen Shengqiang Technology Co., Ltd, China; Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen, 518055, China
| | - Xiaonan Zhang
- Institute of Optical Imaging and Sensing, Shenzhen Key Laboratory for Minimal Invasive Medical Technologies, Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen, 518055, China; School of Medicine, Tsinghua University, Beijing, 100084, China
| | - Zhen Zeng
- Institute of Optical Imaging and Sensing, Shenzhen Key Laboratory for Minimal Invasive Medical Technologies, Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen, 518055, China; Institute of Biopharmaceutical and Health Engineering, Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen, 518055, China
| | - Hailong Zhang
- Key Laboratory of Photonic Control Technology (Tsinghua University), Ministry of Education, Beijing, 100084, China; Department of Precision Instrument, Tsinghua University, Beijing, 100084, China
| | - Tian Guan
- Institute of Optical Imaging and Sensing, Shenzhen Key Laboratory for Minimal Invasive Medical Technologies, Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen, 518055, China; School of Medicine, Tsinghua University, Beijing, 100084, China
| | - Yang Xu
- Institute of Optical Imaging and Sensing, Shenzhen Key Laboratory for Minimal Invasive Medical Technologies, Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen, 518055, China; Institute of Biopharmaceutical and Health Engineering, Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen, 518055, China
| | - Chongqi Zhou
- Institute of Optical Imaging and Sensing, Shenzhen Key Laboratory for Minimal Invasive Medical Technologies, Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen, 518055, China; Department of Physics, Tsinghua University, Beijing, 100084, China
| | - Lingqin Meng
- Institute of Optical Imaging and Sensing, Shenzhen Key Laboratory for Minimal Invasive Medical Technologies, Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen, 518055, China; Institute of Biopharmaceutical and Health Engineering, Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen, 518055, China
| | - Gengyu Liang
- Institute of Optical Imaging and Sensing, Shenzhen Key Laboratory for Minimal Invasive Medical Technologies, Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen, 518055, China; Institute of Biopharmaceutical and Health Engineering, Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen, 518055, China
| | - Zhangyan Li
- Institute of Optical Imaging and Sensing, Shenzhen Key Laboratory for Minimal Invasive Medical Technologies, Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen, 518055, China; Department of Physics, Tsinghua University, Beijing, 100084, China
| | - Bei Wang
- Institute of Optical Imaging and Sensing, Shenzhen Key Laboratory for Minimal Invasive Medical Technologies, Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen, 518055, China; Institute of Biopharmaceutical and Health Engineering, Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen, 518055, China
| | - Le Liu
- Institute of Materials Research, Shenzhen International Graduate School, Tsinghua University, Shenzhen, 518055, China
| | - Cuixia Guo
- School of Mechanical Engineering and Automation, Fuzhou University, Fuzhou, 350108, China.
| | - Yonghong He
- Institute of Optical Imaging and Sensing, Shenzhen Key Laboratory for Minimal Invasive Medical Technologies, Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen, 518055, China; Institute of Biopharmaceutical and Health Engineering, Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen, 518055, China.
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5
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Zaree P, Tomris I, de Vos SD, van der Woude R, Flesch FM, Klein Gebbink RJM, de Vries RP, Pieters RJ. Facile electrochemical affinity measurements of small and large molecules. RSC Adv 2023; 13:9756-9760. [PMID: 36994086 PMCID: PMC10041147 DOI: 10.1039/d3ra01029e] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/14/2023] [Accepted: 03/16/2023] [Indexed: 03/29/2023] Open
Abstract
A novel miniaturized sensor for electrochemical detection that contains graphene- and gold nanoparticles was functionalized with proteins. Using cyclic voltammetry (CV) and differential pulse voltammetry (DPV) it was possible to observe and quantify interactions of molecules with these proteins. The protein binders included carbohydrate ligands as small as carbohydrates up to COVID-19 spike protein variants engaged in protein-protein interactions. The system uses off-the-shelf sensors combined with an affordable potentiostat and yet is sensitive enough for small ligand binding.
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Affiliation(s)
- Pouya Zaree
- Department of Chemical Biology & Drug Discovery, Utrecht Institute for Pharmaceutical Sciences, Utrecht University P. O. Box 80082 NL-3508 TB Utrecht The Netherlands
| | - Ilhan Tomris
- Department of Chemical Biology & Drug Discovery, Utrecht Institute for Pharmaceutical Sciences, Utrecht University P. O. Box 80082 NL-3508 TB Utrecht The Netherlands
| | - Sander D de Vos
- Institute for Sustainable and Circular Chemistry, Debye Institute for Nanomaterials Science, Utrecht University Universiteitsweg 99 3584 CG Utrecht The Netherlands
| | - Roosmarijn van der Woude
- Department of Chemical Biology & Drug Discovery, Utrecht Institute for Pharmaceutical Sciences, Utrecht University P. O. Box 80082 NL-3508 TB Utrecht The Netherlands
| | - Frits M Flesch
- Department of Chemical Biology & Drug Discovery, Utrecht Institute for Pharmaceutical Sciences, Utrecht University P. O. Box 80082 NL-3508 TB Utrecht The Netherlands
| | - Robertus J M Klein Gebbink
- Institute for Sustainable and Circular Chemistry, Debye Institute for Nanomaterials Science, Utrecht University Universiteitsweg 99 3584 CG Utrecht The Netherlands
| | - Robert P de Vries
- Department of Chemical Biology & Drug Discovery, Utrecht Institute for Pharmaceutical Sciences, Utrecht University P. O. Box 80082 NL-3508 TB Utrecht The Netherlands
| | - Roland J Pieters
- Department of Chemical Biology & Drug Discovery, Utrecht Institute for Pharmaceutical Sciences, Utrecht University P. O. Box 80082 NL-3508 TB Utrecht The Netherlands
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O'Connor BF, Monaghan D, Cawley J. Lectin Affinity Chromatography. Methods Mol Biol 2023; 2699:225-236. [PMID: 37647001 DOI: 10.1007/978-1-0716-3362-5_12] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 09/01/2023]
Abstract
Glycosylation is a non-template-driven posttranslational modification during which linked-sugars and glycans are added to the nascent polypeptide. Over 70% of the eukaryotic proteome is thought to be glycosylated. It is now known that correct glycosylation is essential for the correct folding, solubility, stability, and immunogenicity of proteins. In this chapter, we describe the technique of lectin affinity chromatography (LAC), a procedure that has the ability to distinguish different glycans, which are attached to proteins or lipids, termed glycoproteins or glycolipids, respectively. This method utilizes different immobilized lectins that have affinity for specific sugar substrates, to separate a wide range of glycan-attached complexes (Ambrosi et al., Org Biomol Chem 3:1593-1608, 2005). To further enhance the specificity of LAC, a corresponding free sugar may be used to produce a specific elution. In general, the conditions under which lectin affinity chromatography operates are relatively mild resulting in good biological recoveries of the glycoproteins.
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Affiliation(s)
| | - Donal Monaghan
- School of Biotechnology, Dublin City University, Dublin, Ireland
| | - Jonathan Cawley
- School of Biotechnology, Dublin City University, Dublin, Ireland.
- Technical Development, Horizon Therapeutics, Waterford, Ireland.
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7
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Song Q, Li Q, Chao S, Chen X, Li R, Lu Y, Aastrup T, Pei Z. A dynamic reversible phenylboronic acid sensor for real-time determination of protein-carbohydrate interactions on living cancer cells. Chem Commun (Camb) 2022; 58:13731-13734. [PMID: 36444745 DOI: 10.1039/d2cc05788c] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Abstract
Real-time detection of glycosylation on label-free cancer cell surfaces is of significance for the diagnosis and treatment of cancer. In this work, we have successfully developed a novel dynamic reversible sensor based on pH-sensitive phenylboronic esters to determine in real-time the binding kinetics of protein-carbohydrate interactions on suspension cancer cell surfaces using a quartz crystal microbalance (QCM) technique.
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Affiliation(s)
- Quanquan Song
- Shaanxi Key Laboratory of Natural Products & Chemical Biology, College of Chemistry & Pharmacy, Northwest A&F University, Yangling 712100, P. R. China.
| | - Qian Li
- Shaanxi Key Laboratory of Natural Products & Chemical Biology, College of Chemistry & Pharmacy, Northwest A&F University, Yangling 712100, P. R. China.
| | - Shuang Chao
- Shaanxi Key Laboratory of Natural Products & Chemical Biology, College of Chemistry & Pharmacy, Northwest A&F University, Yangling 712100, P. R. China.
| | - Xian Chen
- Shaanxi Key Laboratory of Natural Products & Chemical Biology, College of Chemistry & Pharmacy, Northwest A&F University, Yangling 712100, P. R. China.
| | - Ronghui Li
- Hebei Key Laboratory of Analysis and Control of Zoonotic Pathogenic Microorganism and College of Science & Technology, Hebei Agricultural University, Huanghua, Hebei 061100, China.
| | - Yuchao Lu
- Hebei Key Laboratory of Analysis and Control of Zoonotic Pathogenic Microorganism and College of Science & Technology, Hebei Agricultural University, Huanghua, Hebei 061100, China.
| | | | - Zhichao Pei
- Shaanxi Key Laboratory of Natural Products & Chemical Biology, College of Chemistry & Pharmacy, Northwest A&F University, Yangling 712100, P. R. China.
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Karawdeniya BI, Damry AM, Murugappan K, Manjunath S, Bandara YMNDY, Jackson CJ, Tricoli A, Neshev D. Surface Functionalization and Texturing of Optical Metasurfaces for Sensing Applications. Chem Rev 2022; 122:14990-15030. [PMID: 35536016 DOI: 10.1021/acs.chemrev.1c00990] [Citation(s) in RCA: 10] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Optical metasurfaces are planar metamaterials that can mediate highly precise light-matter interactions. Because of their unique optical properties, both plasmonic and dielectric metasurfaces have found common use in sensing applications, enabling label-free, nondestructive, and miniaturized sensors with ultralow limits of detection. However, because bare metasurfaces inherently lack target specificity, their applications have driven the development of surface modification techniques that provide selectivity. Both chemical functionalization and physical texturing methodologies can modify and enhance metasurface properties by selectively capturing analytes at the surface and altering the transduction of light-matter interactions into optical signals. This review summarizes recent advances in material-specific surface functionalization and texturing as applied to representative optical metasurfaces. We also present an overview of the underlying chemistry driving functionalization and texturing processes, including detailed directions for their broad implementation. Overall, this review provides a concise and centralized guide for the modification of metasurfaces with a focus toward sensing applications.
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Affiliation(s)
- Buddini I Karawdeniya
- ARC Centre of Excellence for Transformative Meta Optical Systems (TMOS), Department of Electronic Materials Engineering, Research School of Physics, The Australian National University, Canberra, ACT 2600, Australia
| | - Adam M Damry
- Research School of Chemistry, College of Science, The Australian National University, Canberra, ACT 2601, Australia
| | - Krishnan Murugappan
- Research School of Chemistry, College of Science, The Australian National University, Canberra, ACT 2601, Australia
| | - Shridhar Manjunath
- ARC Centre of Excellence for Transformative Meta Optical Systems (TMOS), Department of Electronic Materials Engineering, Research School of Physics, The Australian National University, Canberra, ACT 2600, Australia
| | - Y M Nuwan D Y Bandara
- ARC Centre of Excellence for Transformative Meta Optical Systems (TMOS), Department of Electronic Materials Engineering, Research School of Physics, The Australian National University, Canberra, ACT 2600, Australia
| | - Colin J Jackson
- Research School of Chemistry, College of Science, The Australian National University, Canberra, ACT 2601, Australia
| | - Antonio Tricoli
- Research School of Chemistry, College of Science, The Australian National University, Canberra, ACT 2601, Australia
- School of Biomedical Engineering, Faculty of Engineering, The University of Sydney, Camperdown, NSW 2006, Australia
| | - Dragomir Neshev
- ARC Centre of Excellence for Transformative Meta Optical Systems (TMOS), Department of Electronic Materials Engineering, Research School of Physics, The Australian National University, Canberra, ACT 2600, Australia
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Abstract
Through their specific interactions with proteins, cellular glycans play key roles in a wide range of physiological and pathological processes. One of the main goals of research in the areas of glycobiology and glycomedicine is to understand glycan-protein interactions at the molecular level. Over the past two decades, glycan microarrays have become powerful tools for the rapid evaluation of interactions between glycans and proteins. In this review, we briefly describe methods used for the preparation of glycan probes and the construction of glycan microarrays. Next, we highlight applications of glycan microarrays to rapid profiling of glycan-binding patterns of plant, animal and pathogenic lectins, as well as other proteins. Finally, we discuss other important uses of glycan microarrays, including the rapid analysis of substrate specificities of carbohydrate-active enzymes, the quantitative determination of glycan-protein interactions, discovering high-affinity or selective ligands for lectins, and identifying functional glycans within cells. We anticipate that this review will encourage researchers to employ glycan microarrays in diverse glycan-related studies.
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Affiliation(s)
- Yujun Kim
- Department of Chemistry, Yonsei University, 03722 Seoul, Republic of Korea.
| | - Ji Young Hyun
- Department of Drug Discovery, Data Convergence Drug Research Center, Korea Research Institute of Chemical Technology (KRICT), Daejeon 34114, Republic of Korea.
| | - Injae Shin
- Department of Chemistry, Yonsei University, 03722 Seoul, Republic of Korea.
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Myres GJ, Kitt JP, Harris JM. Inter-Leaflet Phospholipid Exchange Impacts the Ligand Density Available for Protein Binding at Supported Lipid Bilayers. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2022; 38:6967-6976. [PMID: 35617691 DOI: 10.1021/acs.langmuir.2c00526] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
Phospholipid bilayers formed at solid-liquid interfaces have garnered interest as mimics of cell membranes to model association reactions of proteins with lipid bilayer-tethered ligands. Despite the importance of understanding how ligand density in a lipid bilayer impacts the protein-ligand association response, relating the ligand-modified lipid fraction to the absolute density of solution-accessible ligands in a lipid bilayer remains a challenge in interfacial quantitative analysis. In this work, confocal Raman microscopy is employed to quantify the association of anti-biotin IgG with a small fraction of biotinylated lipids dispersed in either gel-phase or liquid-crystalline supported lipid bilayers deposited on the interior surfaces of wide-pore silica surfaces. We examine the question of whether inter-leaflet lipid translocation contributes to the population of solution-accessible biotin ligands on the distal leaflet of a supported lipid bilayer by comparing their protein accumulation response with ligands dispersed in lipid monolayers on nitrile-derivatized silica surfaces. The binding of the antibody to biotin ligands dispersed in gel-phase bilayers exhibited an equivalent biotin coverage response as the accumulation of IgG onto gel-phase monolayers, indicating that gel-phase bilayer symmetry was preserved. This result contrasts with the ∼60% greater anti-biotin capture observed at fluid-phase bilayers compared to fluid-phase monolayers prepared at equivalent biotin fractions. This enhanced protein capture is attributed to biotin-capped lipids being transferred from the surface-associated proximal leaflet of the bilayer to the solution-exposed distal leaflet by the inter-leaflet exchange or lipid flip-flop, a facile process in fluid-phase supported lipid bilayers. The results suggest caution in interpreting the results of quantitative studies of protein binding to lipid-tethered ligands dispersed in fluid-phase phospholipid bilayers.
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Affiliation(s)
- Grant J Myres
- Department of Chemistry, University of Utah, 315 South 1400 East, Salt Lake City, Utah 84112-0850, United States
| | - Jay P Kitt
- Department of Chemistry, University of Utah, 315 South 1400 East, Salt Lake City, Utah 84112-0850, United States
| | - Joel M Harris
- Department of Chemistry, University of Utah, 315 South 1400 East, Salt Lake City, Utah 84112-0850, United States
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11
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Sharafeldin M, Davis JJ. Characterising the biosensing interface. Anal Chim Acta 2022; 1216:339759. [DOI: 10.1016/j.aca.2022.339759] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/09/2021] [Revised: 02/08/2022] [Accepted: 03/22/2022] [Indexed: 12/19/2022]
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12
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Bacterial identification and adhesive strength evaluation based on a mannose biosensor with dual-mode detection. Biosens Bioelectron 2022; 203:114044. [PMID: 35123316 DOI: 10.1016/j.bios.2022.114044] [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: 11/10/2021] [Revised: 01/23/2022] [Accepted: 01/25/2022] [Indexed: 11/23/2022]
Abstract
A biosensor integrated with mannose nano-surface was developed for the identification and adhesive strength evaluation of bacteria. Different bacteria were studied on the designed surface by both electrochemical impedance spectroscopy (EIS) and surface enhanced Raman spectroscopy (SERS). S. typhimurium and E. coli JM109 (type 1 pili) were found to be captured by the mannose nano-surface. SERS spectra were used to identify the species of captured bacteria by combing with partial least squares discriminant analysis (PLS-DA). Meanwhile, binding affinities of the two captured bacteria to mannose nano-surface were obtained by EIS measurements and Frumkin isotherm model analysis, which were 6.859 × 1023 M-1 and 2.054 × 1017 M-1 respectively. A higher binding affinity indicates a stronger adhesive strength. Hence the results show the S. typhimurium has a stronger adhesive strength to mannose. Normalized impedance change (NIC) was proved to have a positive relevant relationship with binding affinities, which could be used as an indicator for the adhesive strength of bacteria. It was demonstrated that 100% accuracy of bacteria species discrimination and good consistency of NIC and adhesive strength for blind samples. The developed biosensor can provide both qualitative and quantitative information of selective recognition between bacteria and mannose.
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Xu Y, Zhou C, Shi L, Zhang X, Guan T, Guo C, Li Z, Xing X, Ji Y, Liu L, He Y. Imaging Sensor for the Detection of the Flow Battery Via Weak Value Amplification. Anal Chem 2021; 93:12914-12920. [PMID: 34523343 DOI: 10.1021/acs.analchem.1c02189] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Flow battery electrodes are vital for performing redox reactions, and an in-depth understanding of reaction kinetics and spatial distribution differences in electrodes is very important for improving the efficiency of electrochemical reactions. In this study, a reflection-type phase-sensitive weak measurement imaging system was developed for the detection of flow batteries. The phase difference between two polarization components in total internal reflection caused by electrode redox processes was measured by weak value amplification. The resulting refractive index resolution of the imaging system was estimated to be 2.8-4.2 × 10-6 RIU. The real-time monitoring ability of the system was demonstrated by linear sweep voltammetry tests of vanadium redox batteries. Compared to traditional optical methods, the proposed weak measurement imaging sensor did not require coating, as it can be used in acid electrolytes of vanadium flow batteries. Meanwhile, the weak value amplification effect led to a higher resolution than the total internal reflection system shown in our previous work, thereby resulting in more accurate detection of electrochemical reactions. In sum, the proposed sensor looks very promising for the detection of electrochemical reactions in flow batteries, water splitting, electrochemical corrosion, and electrocatalysis.
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Affiliation(s)
- Yang Xu
- Institute of Optical Imaging and Sensing, Shenzhen Key Laboratory for Minimal Invasive Medical Technologies, Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen 518055, People's Republic of China.,Institute of Biopharmaceutical and Health Engineering, Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen 518055, China
| | - Chongqi Zhou
- Institute of Optical Imaging and Sensing, Shenzhen Key Laboratory for Minimal Invasive Medical Technologies, Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen 518055, People's Republic of China.,Department of Physics, Tsinghua University, Beijing 100084, People's Republic of China
| | - Lixuan Shi
- Institute of Optical Imaging and Sensing, Shenzhen Key Laboratory for Minimal Invasive Medical Technologies, Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen 518055, People's Republic of China.,Department of Physics, Tsinghua University, Beijing 100084, People's Republic of China
| | - Xiaonan Zhang
- Institute of Optical Imaging and Sensing, Shenzhen Key Laboratory for Minimal Invasive Medical Technologies, Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen 518055, People's Republic of China.,Institute of Biopharmaceutical and Health Engineering, Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen 518055, China
| | - Tian Guan
- Institute of Optical Imaging and Sensing, Shenzhen Key Laboratory for Minimal Invasive Medical Technologies, Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen 518055, People's Republic of China.,School of Medicine, Tsinghua University, Beijing 100084, People's Republic of China
| | - Cuixia Guo
- School of Mechanical Engineering and Automation, Fuzhou University, Fuzhou 350108, China
| | - Zhangyan Li
- Institute of Optical Imaging and Sensing, Shenzhen Key Laboratory for Minimal Invasive Medical Technologies, Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen 518055, People's Republic of China.,School of Medicine, Tsinghua University, Beijing 100084, People's Republic of China
| | - Xinhui Xing
- Institute of Biopharmaceutical and Health Engineering, Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen 518055, China
| | - Yanhong Ji
- School of Physics and Telecommunication Engineering, South China Normal University, Guangzhou 510006, China
| | - Le Liu
- Institute of Materials Research, Shenzhen International Graduate School, Tsinghua University, Shenzhen 518055, People's Republic of China
| | - Yonghong He
- Institute of Optical Imaging and Sensing, Shenzhen Key Laboratory for Minimal Invasive Medical Technologies, Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen 518055, People's Republic of China.,Institute of Biopharmaceutical and Health Engineering, Tsinghua Shenzhen International Graduate School, Tsinghua University, Shenzhen 518055, China
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14
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Britt HM, Cragnolini T, Thalassinos K. Integration of Mass Spectrometry Data for Structural Biology. Chem Rev 2021; 122:7952-7986. [PMID: 34506113 DOI: 10.1021/acs.chemrev.1c00356] [Citation(s) in RCA: 30] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
Abstract
Mass spectrometry (MS) is increasingly being used to probe the structure and dynamics of proteins and the complexes they form with other macromolecules. There are now several specialized MS methods, each with unique sample preparation, data acquisition, and data processing protocols. Collectively, these methods are referred to as structural MS and include cross-linking, hydrogen-deuterium exchange, hydroxyl radical footprinting, native, ion mobility, and top-down MS. Each of these provides a unique type of structural information, ranging from composition and stoichiometry through to residue level proximity and solvent accessibility. Structural MS has proved particularly beneficial in studying protein classes for which analysis by classic structural biology techniques proves challenging such as glycosylated or intrinsically disordered proteins. To capture the structural details for a particular system, especially larger multiprotein complexes, more than one structural MS method with other structural and biophysical techniques is often required. Key to integrating these diverse data are computational strategies and software solutions to facilitate this process. We provide a background to the structural MS methods and briefly summarize other structural methods and how these are combined with MS. We then describe current state of the art approaches for the integration of structural MS data for structural biology. We quantify how often these methods are used together and provide examples where such combinations have been fruitful. To illustrate the power of integrative approaches, we discuss progress in solving the structures of the proteasome and the nuclear pore complex. We also discuss how information from structural MS, particularly pertaining to protein dynamics, is not currently utilized in integrative workflows and how such information can provide a more accurate picture of the systems studied. We conclude by discussing new developments in the MS and computational fields that will further enable in-cell structural studies.
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Affiliation(s)
- Hannah M Britt
- Institute of Structural and Molecular Biology, Division of Biosciences, University College London, London WC1E 6BT, United Kingdom
| | - Tristan Cragnolini
- Institute of Structural and Molecular Biology, Division of Biosciences, University College London, London WC1E 6BT, United Kingdom.,Institute of Structural and Molecular Biology, Birkbeck College, University of London, London WC1E 7HX, United Kingdom
| | - Konstantinos Thalassinos
- Institute of Structural and Molecular Biology, Division of Biosciences, University College London, London WC1E 6BT, United Kingdom.,Institute of Structural and Molecular Biology, Birkbeck College, University of London, London WC1E 7HX, United Kingdom
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15
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Terada C, Wada F, Uchida M, Yasutomi Y, Oh K, Kawamoto S, Kayaba Y, Yamayoshi A, Harada-Shiba M, Obika S, Yamamoto T. Programmed Instability of Ligand Conjugation Manifold for Efficient Hepatocyte Delivery of Therapeutic Oligonucleotides. Nucleic Acid Ther 2021; 31:404-416. [PMID: 34468210 DOI: 10.1089/nat.2021.0036] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022] Open
Abstract
Ligand-targeted drug delivery (LTDD) has gained more attention in the field of nucleic acid therapeutics. To further elicit the potential of therapeutic oligonucleotides by means of LTDD, we newly developed (R)- and (S)-3-amino-1,2-propanediol (APD) manifold for ligand conjugation. N-acetylgalactosamine (GalNAc)/asialoglycoprotein receptor (ASGPr) system has been shown to be a powerful and robust paradigm of LTDD. Our novel APD-based GalNAc (GalNAcAPD) was shown to have intrinsic chemical instability that could play a role in better manipulation of active drug release. The APD manifold also enables facile production of conjugates through an on-support ligand cluster synthesis. We showed in a series of in vivo studies that while the knockdown activity of antisense oligonucleotides (ASOs) bearing 5'-GalNAcAPD was comparable to the conventional hydroxy-L-prolinol-linked GalNAc (GalNAcHP), 3'-GalNAcAPD elicited ASO activity by more than twice as much as the conventional 3'-GalNAcHP. This was ascribed partly to the GalNAcAPD's ideal susceptibility to nucleolytic digestion, which is expected to facilitate cytosolic internalization of ASO drugs. Moreover, an in vivo/ex vivo imaging study visualized the enhancement effect of monoantennary GalNAcAPD on liver localization of ASOs. This versatile manifold with chemical and biological instability would benefit therapeutic oligonucleotides that target both the liver and extrahepatic tissues.
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Affiliation(s)
- Chisato Terada
- Graduate School of Biomedical Sciences, Nagasaki University, Nagasaki, Japan
| | - Fumito Wada
- Department of Molecular Innovation in Lipidology, National Cerebral and Cardiovascular Center Research Institute, Suita, Japan.,Graduate School of Pharmaceutical Sciences, Osaka University, Suita, Japan
| | - Mei Uchida
- Graduate School of Biomedical Sciences, Nagasaki University, Nagasaki, Japan
| | - Yukari Yasutomi
- Graduate School of Biomedical Sciences, Nagasaki University, Nagasaki, Japan
| | - Kaho Oh
- Graduate School of Biomedical Sciences, Nagasaki University, Nagasaki, Japan
| | - Seiya Kawamoto
- Graduate School of Biomedical Sciences, Nagasaki University, Nagasaki, Japan
| | - Yukina Kayaba
- Graduate School of Biomedical Sciences, Nagasaki University, Nagasaki, Japan
| | - Asako Yamayoshi
- Graduate School of Biomedical Sciences, Nagasaki University, Nagasaki, Japan
| | - Mariko Harada-Shiba
- Department of Molecular Innovation in Lipidology, National Cerebral and Cardiovascular Center Research Institute, Suita, Japan
| | - Satoshi Obika
- Graduate School of Pharmaceutical Sciences, Osaka University, Suita, Japan
| | - Tsuyoshi Yamamoto
- Graduate School of Biomedical Sciences, Nagasaki University, Nagasaki, Japan
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16
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Zaree P, Torano JS, de Haan CAM, Scheltma RA, Barendregt A, Thijssen V, Yu G, Flesch F, Pieters RJ. The assessment of Pseudomonas aeruginosa lectin LecA binding characteristics of divalent galactosides using multiple techniques. Glycobiology 2021; 31:1490-1499. [PMID: 34255029 PMCID: PMC8684484 DOI: 10.1093/glycob/cwab074] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/07/2021] [Revised: 07/02/2021] [Accepted: 07/09/2021] [Indexed: 11/14/2022] Open
Abstract
Pseudomonas aeruginosa is a widespread opportunistic pathogen that is capable of colonizing various human tissues and is resistant to many antibiotics. LecA is a galactose binding tetrameric lectin involved in adhesion, infection and biofilm formation. This study reports on the binding characteristics of mono- and divalent (chelating) ligands to LecA using different techniques. These techniques include Affinity Capillary Electrophoresis (ACE), Bio Layer Interferometry (BLI), Native Mass Spectrometry and a Thermal Shift Assay. Aspects of focus include: affinity, selectivity, binding kinetics and residence time. The affinity of a divalent ligand was determined to be in the low nanomolar range for all of the used techniques and with a ligand residence time of approximately 7 hours, while no strong binding was seen to related lectin tetramers. Each of the used techniques provides a unique and complementary insight into the chelation based binding mode of the divalent ligand to the LecA tetramer.
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Affiliation(s)
- Pouya Zaree
- Department of Chemical Biology and Drug Discovery, Utrecht Institute for Pharmaceutical Sciences, Utrecht University, Utrecht, The Netherlands
| | - Javier Sastre Torano
- Department of Chemical Biology and Drug Discovery, Utrecht Institute for Pharmaceutical Sciences, Utrecht University, Utrecht, The Netherlands
| | - Cornelis A M de Haan
- Section Virology, Division of Infectious Diseases & Immunology, Department of Biomolecular Health Sciences, Faculty of Veterinary Medicine, Utrecht University, Utrecht, The Netherlands
| | - Richard A Scheltma
- Biomolecular Mass Spectrometry and Proteomics, Bijvoet Center for Biomolecular Research and Utrecht Institute of Pharmaceutical Sciences, Utrecht University, The Netherlands.,Netherlands Proteomics Centre, Padualaan 8, 3584 CH, Utrecht, The Netherlands
| | - Arjan Barendregt
- Biomolecular Mass Spectrometry and Proteomics, Bijvoet Center for Biomolecular Research and Utrecht Institute of Pharmaceutical Sciences, Utrecht University, The Netherlands.,Netherlands Proteomics Centre, Padualaan 8, 3584 CH, Utrecht, The Netherlands
| | - Vito Thijssen
- Department of Chemical Biology and Drug Discovery, Utrecht Institute for Pharmaceutical Sciences, Utrecht University, Utrecht, The Netherlands
| | - Guangyun Yu
- Department of Chemical Biology and Drug Discovery, Utrecht Institute for Pharmaceutical Sciences, Utrecht University, Utrecht, The Netherlands
| | - Frits Flesch
- Department of Chemical Biology and Drug Discovery, Utrecht Institute for Pharmaceutical Sciences, Utrecht University, Utrecht, The Netherlands
| | - Roland J Pieters
- Department of Chemical Biology and Drug Discovery, Utrecht Institute for Pharmaceutical Sciences, Utrecht University, Utrecht, The Netherlands
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17
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Fittolani G, Shanina E, Guberman M, Seeberger PH, Rademacher C, Delbianco M. Automatisierte Glykan‐Assemblierung
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F‐markierter Glykansonden ermöglicht Hochdurchsatz‐NMR‐Untersuchungen von Protein‐Glykan‐Interaktionen. Angew Chem Int Ed Engl 2021. [DOI: 10.1002/ange.202102690] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Affiliation(s)
- Giulio Fittolani
- Department of Biomolecular Systems Max Planck Institute of Colloids and Interfaces Am Mühlenberg 1 14476 Potsdam Deutschland
- Department of Chemistry and Biochemistry Freie Universität Berlin Arnimallee 22 14195 Berlin Deutschland
| | - Elena Shanina
- Department of Biomolecular Systems Max Planck Institute of Colloids and Interfaces Am Mühlenberg 1 14476 Potsdam Deutschland
- Department of Chemistry and Biochemistry Freie Universität Berlin Arnimallee 22 14195 Berlin Deutschland
| | - Mónica Guberman
- Department of Biomolecular Systems Max Planck Institute of Colloids and Interfaces Am Mühlenberg 1 14476 Potsdam Deutschland
- Derzeitige Adresse: Medicinal Chemistry Leibniz-Forschungsinstitut für Molekulare Pharmakologie Robert-Rössle Straße 10 13125 Berlin Deutschland
| | - Peter H. Seeberger
- Department of Biomolecular Systems Max Planck Institute of Colloids and Interfaces Am Mühlenberg 1 14476 Potsdam Deutschland
- Department of Chemistry and Biochemistry Freie Universität Berlin Arnimallee 22 14195 Berlin Deutschland
| | - Christoph Rademacher
- Department of Biomolecular Systems Max Planck Institute of Colloids and Interfaces Am Mühlenberg 1 14476 Potsdam Deutschland
- Department of Chemistry and Biochemistry Freie Universität Berlin Arnimallee 22 14195 Berlin Deutschland
- Derzeitige Adresse: Department of Pharmaceutical Chemistry University of Vienna Althanstraße 14 1080 Wien Österreich
- Derzeitige Adresse: Department of Microbiology, Immunobiology and Genetics Max F. Perutz Labs Campus Vienna Biocenter 5 1030 Wien Österreich
| | - Martina Delbianco
- Department of Biomolecular Systems Max Planck Institute of Colloids and Interfaces Am Mühlenberg 1 14476 Potsdam Deutschland
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18
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Fittolani G, Shanina E, Guberman M, Seeberger PH, Rademacher C, Delbianco M. Automated Glycan Assembly of 19 F-labeled Glycan Probes Enables High-Throughput NMR Studies of Protein-Glycan Interactions. Angew Chem Int Ed Engl 2021; 60:13302-13309. [PMID: 33784430 PMCID: PMC8252726 DOI: 10.1002/anie.202102690] [Citation(s) in RCA: 17] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/22/2021] [Revised: 03/19/2021] [Indexed: 12/23/2022]
Abstract
Protein-glycan interactions mediate important biological processes, including pathogen host invasion and cellular communication. Herein, we showcase an expedite approach that integrates automated glycan assembly (AGA) of 19 F-labeled probes and high-throughput NMR methods, enabling the study of protein-glycan interactions. Synthetic Lewis type 2 antigens were screened against seven glycan binding proteins (GBPs), including DC-SIGN and BambL, respectively involved in HIV-1 and lung infections in immunocompromised patients, confirming the preference for fucosylated glycans (Lex , H type 2, Ley ). Previously unknown glycan-lectin weak interactions were detected, and thermodynamic data were obtained. Enzymatic reactions were monitored in real-time, delivering kinetic parameters. These results demonstrate the utility of AGA combined with 19 F NMR for the discovery and characterization of glycan-protein interactions, opening up new perspectives for 19 F-labeled complex glycans.
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Affiliation(s)
- Giulio Fittolani
- Department of Biomolecular SystemsMax Planck Institute of Colloids and InterfacesAm Mühlenberg 114476PotsdamGermany
- Department of Chemistry and BiochemistryFreie Universität BerlinArnimallee 2214195BerlinGermany
| | - Elena Shanina
- Department of Biomolecular SystemsMax Planck Institute of Colloids and InterfacesAm Mühlenberg 114476PotsdamGermany
- Department of Chemistry and BiochemistryFreie Universität BerlinArnimallee 2214195BerlinGermany
| | - Mónica Guberman
- Department of Biomolecular SystemsMax Planck Institute of Colloids and InterfacesAm Mühlenberg 114476PotsdamGermany
- Current address: Medicinal ChemistryLeibniz-Forschungsinstitut für Molekulare PharmakologieRobert-Rössle Strasse 1013125BerlinGermany
| | - Peter H. Seeberger
- Department of Biomolecular SystemsMax Planck Institute of Colloids and InterfacesAm Mühlenberg 114476PotsdamGermany
- Department of Chemistry and BiochemistryFreie Universität BerlinArnimallee 2214195BerlinGermany
| | - Christoph Rademacher
- Department of Biomolecular SystemsMax Planck Institute of Colloids and InterfacesAm Mühlenberg 114476PotsdamGermany
- Department of Chemistry and BiochemistryFreie Universität BerlinArnimallee 2214195BerlinGermany
- Current address: Department of Pharmaceutical ChemistryUniversity of ViennaAlthanstrasse 141080ViennaAustria
- Current address: Department of Microbiology, Immunobiology and GeneticsMax F. Perutz LabsCampus Vienna Biocenter 51030ViennaAustria
| | - Martina Delbianco
- Department of Biomolecular SystemsMax Planck Institute of Colloids and InterfacesAm Mühlenberg 114476PotsdamGermany
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19
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Salva ML, Rocca M, Niemeyer CM, Delamarche E. Methods for immobilizing receptors in microfluidic devices: A review. MICRO AND NANO ENGINEERING 2021. [DOI: 10.1016/j.mne.2021.100085] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
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20
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Pinzner F, Keller T, Mut J, Bechold J, Seibel J, Groll J. Polyoxazolines with a Vicinally Double-Bioactivated Terminus for Biomacromolecular Affinity Assessment. SENSORS (BASEL, SWITZERLAND) 2021; 21:3153. [PMID: 34062922 PMCID: PMC8125408 DOI: 10.3390/s21093153] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 02/11/2021] [Revised: 03/24/2021] [Accepted: 03/25/2021] [Indexed: 12/25/2022]
Abstract
Interactions between proteins and carbohydrates with larger biomacromolecules, e.g., lectins, are usually examined using self-assembled monolayers on target gold surfaces as a simplified model measuring setup. However, most of those measuring setups are either limited to a single substrate or do not allow for control over ligand distance and spacing. Here, we develop a synthetic strategy, consisting of a cascade of a thioesterification, native chemical ligation (NCL) and thiol-ene reaction, in order to create three-component polymer conjugates with a defined double bioactivation at the chain end. The target architecture is the vicinal attachment of two biomolecule residues to the α telechelic end point of a polymer and a thioether group at the ω chain end for fixating the conjugate to a gold sensor chip surface. As proof-of-principle studies for affinity measurements, we demonstrate the interaction between covalently bound mannose and ConA in surface acoustic wave (SAW) and surface plasmon resonance (SPR) experiments.
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Affiliation(s)
- Florian Pinzner
- Department of Functional Materials in Medicine and Dentistry, Institute of Functional Materials and Biofabrication and Bavarian Polymer Institute, University of Würzburg, Pleicherwall 2, 97070 Würzburg, Germany; (F.P.); (T.K.)
| | - Thorsten Keller
- Department of Functional Materials in Medicine and Dentistry, Institute of Functional Materials and Biofabrication and Bavarian Polymer Institute, University of Würzburg, Pleicherwall 2, 97070 Würzburg, Germany; (F.P.); (T.K.)
| | - Jürgen Mut
- Institute of Organic Chemistry, University of Würzburg, Am Hubland, 97070 Würzburg, Germany; (J.M.); (J.B.); (J.S.)
| | - Julian Bechold
- Institute of Organic Chemistry, University of Würzburg, Am Hubland, 97070 Würzburg, Germany; (J.M.); (J.B.); (J.S.)
| | - Jürgen Seibel
- Institute of Organic Chemistry, University of Würzburg, Am Hubland, 97070 Würzburg, Germany; (J.M.); (J.B.); (J.S.)
| | - Jürgen Groll
- Department of Functional Materials in Medicine and Dentistry, Institute of Functional Materials and Biofabrication and Bavarian Polymer Institute, University of Würzburg, Pleicherwall 2, 97070 Würzburg, Germany; (F.P.); (T.K.)
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21
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Lee HA, Shin M, Kim J, Choi JW, Lee H. Designing Adaptive Binders for Microenvironment Settings of Silicon Anode Particles. ADVANCED MATERIALS (DEERFIELD BEACH, FLA.) 2021; 33:e2007460. [PMID: 33629771 DOI: 10.1002/adma.202007460] [Citation(s) in RCA: 17] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/01/2020] [Revised: 01/01/2021] [Indexed: 06/12/2023]
Abstract
This study reports the concept of an "adaptive binder" to address the silicon anode challenge in Li-ion batteries. Binders exhibit adaptable capabilities upon gradual changes in the microenvironments surrounding silicon particles during anodic expansion-shrinkage cycles. Long, flexible binder chains are repositioned and reoriented upon the gradual formation of Si-micro-environments (Si-μ-env) during the early battery cycles. At this stage, the chemical interactions between the polymeric binders are reversible hydrogen bonds. As the Si-μ-env become stably set by repeated battery cycles, the chemical interactions exhibit reversible-to-irreversible transitions by the formation of covalent linkages between the binder polymers at the later stage of cycles. The binder polymer showing the aforementioned adaptive properties is hyaluronic acid, which has never been explored as a silicon-anode binder material, onto which the plant-inspired adhesive phenolic moiety, gallol (1,2,3-trihydroxybenzene), is conjugated (HA-GA) for stable adhesion to the surfaces of silicon particles. It is confirmed that the HA-GA binder can maintain a charge capacity that is approximately 3.3 times higher (1153 mAh g-1 ) than that of the nonconjugated HA binder (347 mAh g-1 ) after 600 cycles even at a rapid charge/discharge rate of 1 C (3500 mA g-1 ), indicating that adaptive properties are an important factor to consider in designing silicon-anode binders.
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Affiliation(s)
- Haesung A Lee
- Department of Chemistry, Korea Advanced Institute of Science and Technology (KAIST), 291 University Rd., Daejeon, 34141, Republic of Korea
| | - Mikyung Shin
- Department of Intelligent Precision Healthcare Convergence, SKKU Institute for Convergence, Sungkyunkwan University (SKKU), 2066 Seobu-ro, Suwon, 16419, Republic of Korea
| | - Jaemin Kim
- School of Chemical and Biological Engineering and Institute of Chemical Processes, Seoul National University (SNU), 1 Gwanak-ro, Seoul, 08826, Republic of Korea
| | - Jang Wook Choi
- School of Chemical and Biological Engineering and Institute of Chemical Processes, Seoul National University (SNU), 1 Gwanak-ro, Seoul, 08826, Republic of Korea
| | - Haeshin Lee
- Department of Chemistry, Korea Advanced Institute of Science and Technology (KAIST), 291 University Rd., Daejeon, 34141, Republic of Korea
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22
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Abstract
The extraordinary sensitivity of plasmonic sensors is well-known in the optics and photonics community. These sensors exploit simultaneously the enhancement and the localization of electromagnetic fields close to the interface between a metal and a dielectric. This enables, for example, the design of integrated biochemical sensors at scales far below the diffraction limit. Despite their practical realization and successful commercialization, the sensitivity and associated precision of plasmonic sensors are starting to reach their fundamental classical limit given by quantum fluctuations of light-known as the shot-noise limit. To improve the sensing performance of these sensors beyond the classical limit, quantum resources are increasingly being employed. This area of research has become known as "quantum plasmonic sensing", and it has experienced substantial activity in recent years for applications in chemical and biological sensing. This review aims to cover both plasmonic and quantum techniques for sensing, and it shows how they have been merged to enhance the performance of plasmonic sensors beyond traditional methods. We discuss the general framework developed for quantum plasmonic sensing in recent years, covering the basic theory behind the advancements made, and describe the important works that made these advancements. We also describe several key works in detail, highlighting their motivation, the working principles behind them, and their future impact. The intention of the review is to set a foundation for a burgeoning field of research that is currently being explored out of intellectual curiosity and for a wide range of practical applications in biochemistry, medicine, and pharmaceutical research.
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Affiliation(s)
- Changhyoup Lee
- Institute of Theoretical Solid State Physics, Karlsruhe Institute of Technology, 76131 Karlsruhe, Germany.,Quantum Universe Center, Korea Institute for Advanced Study, Seoul 02455, Republic of Korea
| | - Benjamin Lawrie
- Materials Science and Technology Division, Oak Ridge National Laboratory, Oak Ridge, Tennessee 37831, United States
| | - Raphael Pooser
- Quantum Information Science Group, Oak Ridge National Laboratory, Oak Ridge, Tennessee 37831, United States
| | - Kwang-Geol Lee
- Department of Physics, Hanyang University, Seoul 04763, Republic of Korea
| | - Carsten Rockstuhl
- Institute of Theoretical Solid State Physics, Karlsruhe Institute of Technology, 76131 Karlsruhe, Germany.,Institute of Nanotechnology, Karlsruhe Institute of Technology, 76021Karlsruhe, Germany.,Max Planck School of Photonics, 07745 Jena, Germany
| | - Mark Tame
- Department of Physics, Stellenbosch University, Stellenbosch 7602, South Africa
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23
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Delannoy López DM, Tran DT, Viault G, Dairi S, Peixoto PA, Capello Y, Minder L, Pouységu L, Génot E, Di Primo C, Deffieux D, Quideau S. Real-Time Analysis of Polyphenol-Protein Interactions by Surface Plasmon Resonance Using Surface-Bound Polyphenols. Chemistry 2021; 27:5498-5508. [PMID: 33443311 DOI: 10.1002/chem.202005187] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/03/2020] [Indexed: 11/11/2022]
Abstract
A selection of bioactive polyphenols of different structural classes, such as the ellagitannins vescalagin and vescalin, the flavanoids catechin, epicatechin, epigallocatechin gallate (EGCG), and procyanidin B2, and the stilbenoids resveratrol and piceatannol, were chemically modified to bear a biotin unit for enabling their immobilization on streptavidin-coated sensor chips. These sensor chips were used to evaluate in real time by surface plasmon resonance (SPR) the interactions of three different surface-bound polyphenolic ligands per sensor chip with various protein analytes, including human DNA topoisomerase IIα, flavonoid leucoanthocyanidin dioxygenase, B-cell lymphoma 2 apoptosis regulator protein, and bovine serum albumin. The types and levels of SPR responses unveiled major differences in the association, or lack thereof, and dissociation between a given protein analyte and different polyphenolic ligands. Thus, this multi-analysis SPR technique is a valuable methodology to rapidly screen and qualitatively compare various polyphenol-protein interactions.
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Affiliation(s)
| | - Dong Tien Tran
- Univ. Bordeaux, ISM (CNRS-UMR 5255), 351 cours de la Libération, 33405, Talence Cedex, France
| | - Guillaume Viault
- Univ. Bordeaux, ISM (CNRS-UMR 5255), 351 cours de la Libération, 33405, Talence Cedex, France
| | - Sofiane Dairi
- Univ. Bordeaux, ISM (CNRS-UMR 5255), 351 cours de la Libération, 33405, Talence Cedex, France
| | | | - Yoan Capello
- Univ. Bordeaux, ISM (CNRS-UMR 5255), 351 cours de la Libération, 33405, Talence Cedex, France
| | - Laëtitia Minder
- INSERM, CNRS, IECB (US001, UMS 3033), Univ. Bordeaux, 2 rue Robert Escarpit, 33607, Pessac Cedex, France
| | - Laurent Pouységu
- Univ. Bordeaux, ISM (CNRS-UMR 5255), 351 cours de la Libération, 33405, Talence Cedex, France
| | - Elisabeth Génot
- Centre de Recherche Cardio-Thoracique de Bordeaux (INSERM U1045), Univ. Bordeaux, 2 rue Robert Escarpit, 33607, Pessac Cedex, France
| | - Carmelo Di Primo
- INSERM, CNRS (U1212, UMR 5320), IECB, Univ. Bordeaux, 2 rue Robert Escarpit, 33607, Pessac Cedex, France
| | - Denis Deffieux
- Univ. Bordeaux, ISM (CNRS-UMR 5255), 351 cours de la Libération, 33405, Talence Cedex, France
| | - Stéphane Quideau
- Univ. Bordeaux, ISM (CNRS-UMR 5255), 351 cours de la Libération, 33405, Talence Cedex, France.,Institut Universitaire de France, 1 rue Descartes, 75231, Paris Cedex 05, France
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24
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Abstract
The importance of post-translational glycosylation in protein structure and function has gained significant clinical relevance recently. The latest developments in glycobiology, glycochemistry, and glycoproteomics have made the field more manageable and relevant to disease progression and immune-response signaling. Here, we summarize the current progress in glycoscience, including the new methodologies that have led to the introduction of programmable and automatic as well as large-scale enzymatic synthesis, and the development of glycan array, glycosylation probes, and inhibitors of carbohydrate-associated enzymes or receptors. These novel methodologies and tools have facilitated our understanding of the significance of glycosylation and development of carbohydrate-derived medicines that bring the field to the next level of scientific and medical significance.
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Affiliation(s)
- Sachin S Shivatare
- Department of Chemistry, The Scripps Research Institute, 10550 N. Torrey Pines Road, La Jolla, California 92037, USA
| | - Chi-Huey Wong
- Department of Chemistry, The Scripps Research Institute, 10550 N. Torrey Pines Road, La Jolla, California 92037, USA
- Genomics Research Center, Academia Sinica, Taipei 115, Taiwan
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25
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Li T, Zhang H, Guo Y, Zhu T, Yu P, Meng X. Efficient chemoenzymatic synthesis of fluorinated sialyl Thomsen-Friedenreich antigens and investigation of their characteristics. Eur J Med Chem 2020; 208:112776. [PMID: 32896759 DOI: 10.1016/j.ejmech.2020.112776] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/25/2020] [Revised: 08/17/2020] [Accepted: 08/19/2020] [Indexed: 02/06/2023]
Abstract
A set of fluorinated sialyl-T derivatives were efficiently synthesized using one-pot multi-enzyme (OPME) chemoenzymatic approach. The P. multocida α2-3-sialyltransferase (PmST1) involved in the synthesis showed extremely flexible donor and acceptor substrate specificities. These sialosides have been successfully investigated with stability towards Clostridium perfringens sialidase substrate specificity assay using 1H NMR spectroscopy. Hydrolysis studies monitored by 1H NMR clearly demonstrated that the fluorine substitution obviously reduced hydrolysis rate of Clostridium perfringens sialidase. To further investigate the fluorine influence, structure-dependent variation of sialoside-lectin binding was observed for MAL and different sialoside-immobilized surfaces. Subtle changes on the ligand of carbohydrate-binding protein were distinguished by SPR. These fluorinated sialyl-T derivatives obtained are valuable probes for further biological studies or antitumor drug design.
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Affiliation(s)
- Tingshen Li
- China International Science and Technology Cooperation Base of Food Nutrition/Safety and Medicinal Chemistry, Sino-French Joint Lab of Food Nutrition/Safety and Medicinal Chemistry, Key Laboratory of Industrial Fermentation Microbiology of Ministry of Education, Tianjin Key Laboratory of Industry Microbiology, College of Biotechnology, Tianjin University of Science and Technology, Tianjin, 300457, China
| | - Huiming Zhang
- China International Science and Technology Cooperation Base of Food Nutrition/Safety and Medicinal Chemistry, Sino-French Joint Lab of Food Nutrition/Safety and Medicinal Chemistry, Key Laboratory of Industrial Fermentation Microbiology of Ministry of Education, Tianjin Key Laboratory of Industry Microbiology, College of Biotechnology, Tianjin University of Science and Technology, Tianjin, 300457, China
| | - Ying Guo
- China International Science and Technology Cooperation Base of Food Nutrition/Safety and Medicinal Chemistry, Sino-French Joint Lab of Food Nutrition/Safety and Medicinal Chemistry, Key Laboratory of Industrial Fermentation Microbiology of Ministry of Education, Tianjin Key Laboratory of Industry Microbiology, College of Biotechnology, Tianjin University of Science and Technology, Tianjin, 300457, China
| | - Tao Zhu
- China International Science and Technology Cooperation Base of Food Nutrition/Safety and Medicinal Chemistry, Sino-French Joint Lab of Food Nutrition/Safety and Medicinal Chemistry, Key Laboratory of Industrial Fermentation Microbiology of Ministry of Education, Tianjin Key Laboratory of Industry Microbiology, College of Biotechnology, Tianjin University of Science and Technology, Tianjin, 300457, China; CanSino Biologics Inc., Tianjin Enterprise Key Laboratory of Respiratory Bacterial Recombination and Conjugated Vaccine, Tianjin, 300457, China
| | - Peng Yu
- China International Science and Technology Cooperation Base of Food Nutrition/Safety and Medicinal Chemistry, Sino-French Joint Lab of Food Nutrition/Safety and Medicinal Chemistry, Key Laboratory of Industrial Fermentation Microbiology of Ministry of Education, Tianjin Key Laboratory of Industry Microbiology, College of Biotechnology, Tianjin University of Science and Technology, Tianjin, 300457, China
| | - Xin Meng
- China International Science and Technology Cooperation Base of Food Nutrition/Safety and Medicinal Chemistry, Sino-French Joint Lab of Food Nutrition/Safety and Medicinal Chemistry, Key Laboratory of Industrial Fermentation Microbiology of Ministry of Education, Tianjin Key Laboratory of Industry Microbiology, College of Biotechnology, Tianjin University of Science and Technology, Tianjin, 300457, China.
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26
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Mende M, Tsouka A, Heidepriem J, Paris G, Mattes DS, Eickelmann S, Bordoni V, Wawrzinek R, Fuchsberger FF, Seeberger PH, Rademacher C, Delbianco M, Mallagaray A, Loeffler FF. On-Chip Neo-Glycopeptide Synthesis for Multivalent Glycan Presentation. Chemistry 2020; 26:9954-9963. [PMID: 32315099 PMCID: PMC7496964 DOI: 10.1002/chem.202001291] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/15/2020] [Revised: 04/17/2020] [Indexed: 11/11/2022]
Abstract
Single glycan-protein interactions are often weak, such that glycan binding partners commonly utilize multiple, spatially defined binding sites to enhance binding avidity and specificity. Current array technologies usually neglect defined multivalent display. Laser-based array synthesis technology allows for flexible and rapid on-surface synthesis of different peptides. By combining this technique with click chemistry, neo-glycopeptides were produced directly on a functionalized glass slide in the microarray format. Density and spatial distribution of carbohydrates can be tuned, resulting in well-defined glycan structures for multivalent display. The two lectins concanavalin A and langerin were probed with different glycans on multivalent scaffolds, revealing strong spacing-, density-, and ligand-dependent binding. In addition, we could also measure the surface dissociation constant. This approach allows for a rapid generation, screening, and optimization of a multitude of multivalent scaffolds for glycan binding.
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Affiliation(s)
- Marco Mende
- Department of Biomolecular SystemsMax Planck Institute of Colloids and InterfacesAm Muehlenberg 114476PotsdamGermany
| | - Alexandra Tsouka
- Department of Biomolecular SystemsMax Planck Institute of Colloids and InterfacesAm Muehlenberg 114476PotsdamGermany
- Department of Chemistry and BiochemistryFreie Universität BerlinArnimalle 2214195BerlinGermany
| | - Jasmin Heidepriem
- Department of Biomolecular SystemsMax Planck Institute of Colloids and InterfacesAm Muehlenberg 114476PotsdamGermany
- Department of Chemistry and BiochemistryFreie Universität BerlinArnimalle 2214195BerlinGermany
| | - Grigori Paris
- Department of Biomolecular SystemsMax Planck Institute of Colloids and InterfacesAm Muehlenberg 114476PotsdamGermany
| | - Daniela S. Mattes
- Institute of Microstructure TechnologyKarlsruhe Institute of TechnologyHermann-von-Helmholtz-Platz 176344Eggenstein-LeopoldshafenGermany
| | - Stephan Eickelmann
- Department of Biomolecular SystemsMax Planck Institute of Colloids and InterfacesAm Muehlenberg 114476PotsdamGermany
| | - Vittorio Bordoni
- Department of Biomolecular SystemsMax Planck Institute of Colloids and InterfacesAm Muehlenberg 114476PotsdamGermany
| | - Robert Wawrzinek
- Department of Biomolecular SystemsMax Planck Institute of Colloids and InterfacesAm Muehlenberg 114476PotsdamGermany
| | - Felix F. Fuchsberger
- Department of Biomolecular SystemsMax Planck Institute of Colloids and InterfacesAm Muehlenberg 114476PotsdamGermany
| | - Peter H. Seeberger
- Department of Biomolecular SystemsMax Planck Institute of Colloids and InterfacesAm Muehlenberg 114476PotsdamGermany
- Department of Chemistry and BiochemistryFreie Universität BerlinArnimalle 2214195BerlinGermany
| | - Christoph Rademacher
- Department of Biomolecular SystemsMax Planck Institute of Colloids and InterfacesAm Muehlenberg 114476PotsdamGermany
| | - Martina Delbianco
- Department of Biomolecular SystemsMax Planck Institute of Colloids and InterfacesAm Muehlenberg 114476PotsdamGermany
| | - Alvaro Mallagaray
- Institut für Chemie und MetabolomicsUniversität zu LübeckRatzeburger Allee 16023562LübeckGermany
| | - Felix F. Loeffler
- Department of Biomolecular SystemsMax Planck Institute of Colloids and InterfacesAm Muehlenberg 114476PotsdamGermany
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27
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Strzelczyk AK, Paul TJ, Schmidt S. Quantifying Thermoswitchable Carbohydrate‐Mediated Interactions via Soft Colloidal Probe Adhesion Studies. Macromol Biosci 2020; 20:e2000186. [DOI: 10.1002/mabi.202000186] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/27/2020] [Revised: 07/07/2020] [Indexed: 12/30/2022]
Affiliation(s)
- Alexander Klaus Strzelczyk
- Institute of Organic and Macromolecular Chemistry Heinrich‐Heine‐University Düsseldorf Universitatsstraße 1 Dusseldorf 40225 Germany
| | - Tanja Janine Paul
- Institute of Organic and Macromolecular Chemistry Heinrich‐Heine‐University Düsseldorf Universitatsstraße 1 Dusseldorf 40225 Germany
| | - Stephan Schmidt
- Institute of Organic and Macromolecular Chemistry Heinrich‐Heine‐University Düsseldorf Universitatsstraße 1 Dusseldorf 40225 Germany
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28
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D’Ambrosio EA, Bersch KL, Lauro ML, Grimes CL. Differential Peptidoglycan Recognition Assay Using Varied Surface Presentations. J Am Chem Soc 2020; 142:10926-10930. [PMID: 32520538 PMCID: PMC7601999 DOI: 10.1021/jacs.0c03933] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Abstract
Bacterial peptidoglycan (PG) is recognized by the human innate immune system to generate an appropriate response. To gain an appreciation of how this essential polymer is sensed, a surface plasmon resonance (SPR) assay using varied PG surface presentation was developed. PG derivatives were synthesized and immobilized on the surface at different positions on the molecule to assess effects of ligand orientation on the binding affinities of NOD-like receptors (NLRs). NLRP1 and NOD2 are cytosolic innate immune proteins known to generate an immune response to PG. Both possess conserved leucine rich repeat domains (LRR) as proposed sites of molecular recognition, though limited biochemical evidence exists regarding the mechanisms of PG recognition. Here direct biochemical evidence for the association of PG fragments to NOD2 and NLRP1 with nanomolar affinity is shown. The orientations in which the fragments were presented on the SPR surface influenced the strength of PG recognition by both NLRs. This assay displays fundamental differences in binding preferences for PG by innate immune receptors and reveals unique recognition mechanisms between the LRRs. Each receptor uses specific ligand structural features to achieve optimal binding, which will be critical information to manipulate these responses and combat diseases.
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Affiliation(s)
| | - Klare L. Bersch
- Department of Chemistry and Biochemistry, University of Delaware, Newark, DE 19716
| | - Mackenzie L. Lauro
- Department of Chemistry and Biochemistry, University of Delaware, Newark, DE 19716
| | - Catherine L. Grimes
- Department of Chemistry and Biochemistry, University of Delaware, Newark, DE 19716
- Department of Biological Sciences, University of Delaware, Newark, DE 19716
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29
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Ribeiro JPM, Mendonça PV, Coelho JFJ, Matyjaszewski K, Serra AC. Glycopolymer Brushes by Reversible Deactivation Radical Polymerization: Preparation, Applications, and Future Challenges. Polymers (Basel) 2020; 12:E1268. [PMID: 32492977 PMCID: PMC7362234 DOI: 10.3390/polym12061268] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2020] [Revised: 05/26/2020] [Accepted: 05/29/2020] [Indexed: 12/27/2022] Open
Abstract
The cellular surface contains specific proteins, also known as lectins, that are carbohydrates receptors involved in different biological events, such as cell-cell adhesion, cell recognition and cell differentiation. The synthesis of well-defined polymers containing carbohydrate units, known as glycopolymers, by reversible deactivation radical polymerization (RDRP) methods allows the development of tailor-made materials with high affinity for lectins because of their multivalent interaction. These polymers are promising candidates for the biomedical field, namely as novel diagnostic disease markers, biosensors, or carriers for tumor-targeted therapy. Although linear glycopolymers are extensively studied for lectin recognition, branched glycopolymeric structures, such as polymer brushes can establish stronger interactions with lectins. This specific glycopolymer topology can be synthesized in a bottlebrush form or grafted to/from surfaces by using RDRP methods, allowing a precise control over molecular weight, grafting density, and brush thickness. Here, the preparation and application of glycopolymer brushes is critically discussed and future research directions on this topic are suggested.
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Affiliation(s)
- Jessica P. M. Ribeiro
- Department of Chemical Engineering, Centre for Mechanical Engineering, Materials and Processes, University of Coimbra, Rua Sílvio Lima-Polo II, 3030-790 Coimbra, Portugal; (J.P.M.R.); (J.F.J.C.)
| | - Patrícia V. Mendonça
- Department of Chemical Engineering, Centre for Mechanical Engineering, Materials and Processes, University of Coimbra, Rua Sílvio Lima-Polo II, 3030-790 Coimbra, Portugal; (J.P.M.R.); (J.F.J.C.)
| | - Jorge F. J. Coelho
- Department of Chemical Engineering, Centre for Mechanical Engineering, Materials and Processes, University of Coimbra, Rua Sílvio Lima-Polo II, 3030-790 Coimbra, Portugal; (J.P.M.R.); (J.F.J.C.)
| | - Krzysztof Matyjaszewski
- Department of Materials Science & Engineering, Carnegie Mellon University, 5000 Forbes Avenue, Pittsburgh, PA 15213, USA;
| | - Arménio C. Serra
- Department of Chemical Engineering, Centre for Mechanical Engineering, Materials and Processes, University of Coimbra, Rua Sílvio Lima-Polo II, 3030-790 Coimbra, Portugal; (J.P.M.R.); (J.F.J.C.)
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30
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Alfaro-Viquez E, Esquivel-Alvarado D, Madrigal-Carballo S, Krueger CG, Reed JD. Characterization of proanthocyanidin-chitosan interactions in the formulation of composite nanoparticles using surface plasmon resonance. Int J Biol Macromol 2020; 152:1068-1076. [DOI: 10.1016/j.ijbiomac.2019.10.194] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/16/2019] [Revised: 10/15/2019] [Accepted: 10/19/2019] [Indexed: 12/20/2022]
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31
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Liu XR, Zhang MM, Gross ML. Mass Spectrometry-Based Protein Footprinting for Higher-Order Structure Analysis: Fundamentals and Applications. Chem Rev 2020; 120:4355-4454. [PMID: 32319757 PMCID: PMC7531764 DOI: 10.1021/acs.chemrev.9b00815] [Citation(s) in RCA: 130] [Impact Index Per Article: 32.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
Abstract
Proteins adopt different higher-order structures (HOS) to enable their unique biological functions. Understanding the complexities of protein higher-order structures and dynamics requires integrated approaches, where mass spectrometry (MS) is now positioned to play a key role. One of those approaches is protein footprinting. Although the initial demonstration of footprinting was for the HOS determination of protein/nucleic acid binding, the concept was later adapted to MS-based protein HOS analysis, through which different covalent labeling approaches "mark" the solvent accessible surface area (SASA) of proteins to reflect protein HOS. Hydrogen-deuterium exchange (HDX), where deuterium in D2O replaces hydrogen of the backbone amides, is the most common example of footprinting. Its advantage is that the footprint reflects SASA and hydrogen bonding, whereas one drawback is the labeling is reversible. Another example of footprinting is slow irreversible labeling of functional groups on amino acid side chains by targeted reagents with high specificity, probing structural changes at selected sites. A third footprinting approach is by reactions with fast, irreversible labeling species that are highly reactive and footprint broadly several amino acid residue side chains on the time scale of submilliseconds. All of these covalent labeling approaches combine to constitute a problem-solving toolbox that enables mass spectrometry as a valuable tool for HOS elucidation. As there has been a growing need for MS-based protein footprinting in both academia and industry owing to its high throughput capability, prompt availability, and high spatial resolution, we present a summary of the history, descriptions, principles, mechanisms, and applications of these covalent labeling approaches. Moreover, their applications are highlighted according to the biological questions they can answer. This review is intended as a tutorial for MS-based protein HOS elucidation and as a reference for investigators seeking a MS-based tool to address structural questions in protein science.
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Affiliation(s)
| | | | - Michael L. Gross
- Department of Chemistry, Washington University in St. Louis, St. Louis, MO, USA, 63130
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32
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Mende M, Bordoni V, Tsouka A, Loeffler FF, Delbianco M, Seeberger PH. Multivalent glycan arrays. Faraday Discuss 2020; 219:9-32. [PMID: 31298252 DOI: 10.1039/c9fd00080a] [Citation(s) in RCA: 21] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Abstract
Glycan microarrays have become a powerful technology to study biological processes, such as cell-cell interaction, inflammation, and infections. Yet, several challenges, especially in multivalent display, remain. In this introductory lecture we discuss the state-of-the-art glycan microarray technology, with emphasis on novel approaches to access collections of pure glycans and their immobilization on surfaces. Future directions to mimic the natural glycan presentation on an array format, as well as in situ generation of combinatorial glycan collections, are discussed.
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Affiliation(s)
- Marco Mende
- Department of Biomolecular Systems, Max Planck Institute of Colloids and Interfaces, Am Mühlenberg 1, 14476 Potsdam, Germany.
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33
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Pourjavadi A, Bagherifard M, Doroudian M. Synthesis of micelles based on chitosan functionalized with gold nanorods as a light sensitive drug delivery vehicle. Int J Biol Macromol 2020; 149:809-818. [DOI: 10.1016/j.ijbiomac.2020.01.162] [Citation(s) in RCA: 16] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/28/2019] [Revised: 12/24/2019] [Accepted: 01/16/2020] [Indexed: 01/23/2023]
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34
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Di Iorio D, Huskens J. Surface Modification with Control over Ligand Density for the Study of Multivalent Biological Systems. ChemistryOpen 2020; 9:53-66. [PMID: 31921546 PMCID: PMC6948118 DOI: 10.1002/open.201900290] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/24/2019] [Revised: 11/11/2019] [Indexed: 12/30/2022] Open
Abstract
In the study of multivalent interactions at interfaces, as occur for example at cell membranes, the density of the ligands or receptors displayed at the interface plays a pivotal role, affecting both the overall binding affinities and the valencies involved in the interactions. In order to control the ligand density at the interface, several approaches have been developed, and they concern the functionalization of a wide range of materials. Here, different methods employed in the modification of surfaces with controlled densities of ligands are being reviewed. Examples of such methods encompass the formation of self-assembled monolayers (SAMs), supported lipid bilayers (SLBs) and polymeric layers on surfaces. Particular emphasis is given to the methods employed in the study of different types of multivalent biological interactions occurring at the functionalized surfaces and their working principles.
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Affiliation(s)
- Daniele Di Iorio
- Molecular NanoFabrication group MESA+ Institute for NanotechnologyUniversity of TwenteEnschedeThe Netherlands
| | - Jurriaan Huskens
- Molecular NanoFabrication group MESA+ Institute for NanotechnologyUniversity of TwenteEnschedeThe Netherlands
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35
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Jeong D, Lee WY. Highly sensitive impedimetric glycosensor for the determination of a ricin surrogate, Ricinus communis agglutinin I (RCA120). J Electroanal Chem (Lausanne) 2020. [DOI: 10.1016/j.jelechem.2019.113735] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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36
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Abstract
Carbohydrates or glycans and their conjugates are involved in a wide range of biological processes and play an important role in various diseases, including inflammation, viral and bacterial infections, and tumor progression and metastasis. Studying the biological significances of carbohydrates has been challenging due in part to their structural diversity and the limited access to complex carbohydrate-containing molecules. Conventional methods such as isothermal titration calorimetry and enzyme-linked lectin assay can be laborious and require significant amounts of time and materials. The emerging of glycan microarrays as high-throughput technology for studying carbohydrate interactions has overcome some of these challenges, and has greatly contributed to our understanding of the biological roles of carbohydrates and their glycoconjugates. In addition, glycan microarrays offer new applications in biomedical research, drug discovery and development. This chapter will focus on the biomedical applications of glycan microarrays and their potential role in drug discovery and development.
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37
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Temme JS, Campbell CT, Gildersleeve JC. Factors contributing to variability of glycan microarray binding profiles. Faraday Discuss 2019; 219:90-111. [PMID: 31338503 PMCID: PMC9335900 DOI: 10.1039/c9fd00021f] [Citation(s) in RCA: 26] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/15/2024]
Abstract
Protein-carbohydrate interactions play significant roles in a wide variety of biological systems. Glycan microarrays are commonly utilized to interrogate the selectivity, sensitivity, and breadth of these complex protein-carbohydrate interactions. During the past two decades, numerous distinct glycan microarray platforms have been developed, each assembled from a variety of slide-surface chemistries, glycan-attachment chemistries, glycan presentations, linkers, and glycan densities. Comparative analyses of glycan microarray data have shown that while many protein-carbohydrate interactions behave predictably across microarrays, there are instances when various array formats produce different results. For optimal construction and use of this technology, it is important to understand sources of variances across array platforms. In this study, we performed a systematic comparison of microarray data from 8 lectins across a range of concentrations on the CFG and neoglycoprotein array platforms. While there was good general agreement on the binding specificity of the lectins on the two arrays, there were some cases of large discrepancies. Differences in glycan density and linker composition contributed significantly to variability. The results provide insights for interpreting microarray data and designing future glycan microarrays.
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Affiliation(s)
- J Sebastian Temme
- Chemical Biology Laboratory, Center for Cancer Research, National Cancer Institute, Frederick, MD 21702, USA.
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38
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Shen J, Zhang L, Liu L, Wang B, Bai J, Shen C, Chen Y, Fan Q, Chen S, Wu W, Feng X, Wang L, Huang W. Revealing Lectin-Sugar Interactions with a Single Au@Ag Nanocube. ACS APPLIED MATERIALS & INTERFACES 2019; 11:40944-40950. [PMID: 31597422 DOI: 10.1021/acsami.9b15349] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
An individual nanoparticle-based plasmonic nanotechnology was used for real-time monitoring of lectin-sugar interactions, which could be designed as novel plasmonic nanobiosensors for the detection of trace concanavalin A (ConA) with high sensitivity and selectivity. The localized surface plasmon resonance (LSPR) spectra of Au@Ag nanocubes (NCs) are linearly shifted to a long wavelength with an increasing concentration of ConA. In fact, each Au@Ag NC can act as a nanobiosensor for the quantified detection of trace ConA, which enables the miniaturization of the biosensor system to nanoscale. Furthermore, the results demonstrated the perfect biosensing ability with the dual channel of dark-field microscopy images and LSPR spectra. We expect that this nanobiosensor system can provide an alternative important method for monitoring the specific binding of lectin-sugar at a single nanoparticle surface.
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Affiliation(s)
- Jingjing Shen
- Key Laboratory for Organic Electronics and Information Displays & Institute of Advanced Materials (IAM), National Synergistic Innovation Center for Advanced Materials (SICAM) , Nanjing University of Posts & Telecommunications , 9 Wenyuan Road , Nanjing 210023 , China
| | - Lei Zhang
- Key Laboratory for Organic Electronics and Information Displays & Institute of Advanced Materials (IAM), National Synergistic Innovation Center for Advanced Materials (SICAM) , Nanjing University of Posts & Telecommunications , 9 Wenyuan Road , Nanjing 210023 , China
| | - Li Liu
- Key Laboratory for Organic Electronics and Information Displays & Institute of Advanced Materials (IAM), National Synergistic Innovation Center for Advanced Materials (SICAM) , Nanjing University of Posts & Telecommunications , 9 Wenyuan Road , Nanjing 210023 , China
| | - Bin Wang
- Key Laboratory for Organic Electronics and Information Displays & Institute of Advanced Materials (IAM), National Synergistic Innovation Center for Advanced Materials (SICAM) , Nanjing University of Posts & Telecommunications , 9 Wenyuan Road , Nanjing 210023 , China
| | - Jieqiong Bai
- Key Laboratory for Organic Electronics and Information Displays & Institute of Advanced Materials (IAM), National Synergistic Innovation Center for Advanced Materials (SICAM) , Nanjing University of Posts & Telecommunications , 9 Wenyuan Road , Nanjing 210023 , China
| | - Chao Shen
- Key Laboratory for Organic Electronics and Information Displays & Institute of Advanced Materials (IAM), National Synergistic Innovation Center for Advanced Materials (SICAM) , Nanjing University of Posts & Telecommunications , 9 Wenyuan Road , Nanjing 210023 , China
| | - Yu Chen
- Key Laboratory for Organic Electronics and Information Displays & Institute of Advanced Materials (IAM), National Synergistic Innovation Center for Advanced Materials (SICAM) , Nanjing University of Posts & Telecommunications , 9 Wenyuan Road , Nanjing 210023 , China
| | - Quli Fan
- Key Laboratory for Organic Electronics and Information Displays & Institute of Advanced Materials (IAM), National Synergistic Innovation Center for Advanced Materials (SICAM) , Nanjing University of Posts & Telecommunications , 9 Wenyuan Road , Nanjing 210023 , China
| | - Shufen Chen
- Key Laboratory for Organic Electronics and Information Displays & Institute of Advanced Materials (IAM), National Synergistic Innovation Center for Advanced Materials (SICAM) , Nanjing University of Posts & Telecommunications , 9 Wenyuan Road , Nanjing 210023 , China
| | - Weibing Wu
- Jiangsu Provincial Key Lab of Pulp & Paper Science & Technology , Nanjing Forestry University , Nanjing 210037 , P. R. China
| | - Xiaomiao Feng
- Key Laboratory for Organic Electronics and Information Displays & Institute of Advanced Materials (IAM), National Synergistic Innovation Center for Advanced Materials (SICAM) , Nanjing University of Posts & Telecommunications , 9 Wenyuan Road , Nanjing 210023 , China
| | - Lianhui Wang
- Key Laboratory for Organic Electronics and Information Displays & Institute of Advanced Materials (IAM), National Synergistic Innovation Center for Advanced Materials (SICAM) , Nanjing University of Posts & Telecommunications , 9 Wenyuan Road , Nanjing 210023 , China
| | - Wei Huang
- Key Laboratory for Organic Electronics and Information Displays & Institute of Advanced Materials (IAM), National Synergistic Innovation Center for Advanced Materials (SICAM) , Nanjing University of Posts & Telecommunications , 9 Wenyuan Road , Nanjing 210023 , China
- Shaanxi Institute of Flexible Electronics (SIFE) , Northwestern Polytechnical University (NPU) , Xi'an 710072 , China
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39
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Valles DJ, Naeem Y, Rozenfeld AY, Aldasooky RW, Wong AM, Carbonell C, Mootoo DR, Braunschweig AB. Multivalent binding of concanavalin A on variable-density mannoside microarrays. Faraday Discuss 2019; 219:77-89. [PMID: 31364656 PMCID: PMC6824935 DOI: 10.1039/c9fd00028c] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
Interactions between cell surface glycans and glycan binding proteins (GBPs) have a central role in the immune response, pathogen-host recognition, cell-cell communication, and a myriad other biological processes. Because of the weak association between GBPs and glycans in solution, multivalent and cooperative interactions in the dense glycocalyx have an outsized role in directing binding affinity and selectivity. However, a major challenge in glycobiology is that few experimental approaches exist for examining and understanding quantitatively how glycan density affects avidity with GBPs, and there is a need for new tools that can fabricate glycan arrays with the ability to vary their density controllably and systematically in each feature. Here, we use thiol-ene reactions to fabricate glycan arrays using a recently developed photochemical printer that leverages a digital micromirror device and microfluidics to create multiplexed patterns of immobilized mannosides, where the density of mannosides in each feature was varied by dilution with an inert spacer allyl alcohol. The association between these immobilized glycans and FITC-labeled concanavalin A (ConA) - a tetrameric GBP that binds to mannosides multivalently - was measured by fluorescence microscopy. We observed that the fluorescence decreased nonlinearly with increasing spacer concentration in the features, and we present a model that relates the average mannoside-mannoside spacing to the abrupt drop-off in ConA binding. Applying these recent advances in microscale photolithography to the challenge of mimicking the architecture of the glycocalyx could lead to a rapid understanding of how information is trafficked on the cell surface.
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Affiliation(s)
- Daniel J Valles
- The PhD Program in Chemistry, Graduate Center of the City University of New York, 365 5th Ave, New York, NY 10016, USA.
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40
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Chimisso V, Maffeis V, Hürlimann D, Palivan CG, Meier W. Self-Assembled Polymeric Membranes and Nanoassemblies on Surfaces: Preparation, Characterization, and Current Applications. Macromol Biosci 2019; 20:e1900257. [PMID: 31549783 DOI: 10.1002/mabi.201900257] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/17/2019] [Revised: 08/30/2019] [Indexed: 01/11/2023]
Abstract
Biomembranes play a crucial role in a multitude of biological processes, where high selectivity and efficiency are key points in the reaction course. The outstanding performance of biological membranes is based on the coupling between the membrane and biomolecules, such as membrane proteins. Polymer-based membranes and assemblies represent a great alternative to lipid ones, as their presence not only dramatically increases the mechanical stability of such systems, but also opens the scope to a broad range of chemical functionalities, which can be fine-tuned to selectively combine with a specific biomolecule. Tethering the membranes or nanoassemblies on a solid support opens the way to a class of functional surfaces finding application as sensors, biocomputing systems, molecular recognition, and filtration membranes. Herein, the design, physical assembly, and biomolecule attachment/insertion on/within solid-supported polymeric membranes and nanoassemblies are presented in detail with relevant examples. Furthermore, the models and applications for these materials are highlighted with the recent advances in each field.
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Affiliation(s)
- Vittoria Chimisso
- Department of Chemistry, University of Basel, Mattenstrasse 24a, 4056, Basel, Switzerland
| | - Viviana Maffeis
- Department of Chemistry, University of Basel, Mattenstrasse 24a, 4056, Basel, Switzerland
| | - Dimitri Hürlimann
- Department of Chemistry, University of Basel, Mattenstrasse 24a, 4056, Basel, Switzerland
| | - Cornelia G Palivan
- Department of Chemistry, University of Basel, Mattenstrasse 24a, 4056, Basel, Switzerland
| | - Wolfgang Meier
- Department of Chemistry, University of Basel, Mattenstrasse 24a, 4056, Basel, Switzerland
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41
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Ren B, Zhang L, Zhang M. Progress on Selective Acylation of Carbohydrate Hydroxyl Groups. ASIAN J ORG CHEM 2019. [DOI: 10.1002/ajoc.201900400] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Affiliation(s)
- Bo Ren
- College of Chemistry & Chemical EngineeringXinyang Normal University Nanhu Road 237 Xinyang, Henan 464000 P. R. China
| | - Li Zhang
- College of Chemistry & Chemical EngineeringXinyang Normal University Nanhu Road 237 Xinyang, Henan 464000 P. R. China
| | - Mengyao Zhang
- College of Chemistry & Chemical EngineeringXinyang Normal University Nanhu Road 237 Xinyang, Henan 464000 P. R. China
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42
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D'Ambrosio EA, Drake WR, Mashayekh S, Ukaegbu OI, Brown AR, Grimes CL. Modulation of the NOD-like receptors NOD1 and NOD2: A chemist's perspective. Bioorg Med Chem Lett 2019; 29:1153-1161. [PMID: 30890292 PMCID: PMC7679954 DOI: 10.1016/j.bmcl.2019.03.010] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/13/2018] [Revised: 03/05/2019] [Accepted: 03/07/2019] [Indexed: 12/13/2022]
Abstract
The innate immune system is the body's first defense against invading microorganisms, relying on the recognition of bacterial-derived small molecules by host protein receptors. This recognition event and downstream immune response rely heavily on the specific chemical features of both the innate immune receptors and their bacterial derived ligands. This review presents a chemist's perspective on some of the most crucial and complex components of two receptors (NOD1 and NOD2): starting from the structural and chemical characteristics of bacterial-derived small molecules, to the specific proposed models of molecular recognition of these molecules by immune receptors, to the subsequent post-translational modifications that ultimately dictate downstream immune signaling. Recent advances in the field are discussed, as well as the potential for the development of targeted therapeutics.
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Affiliation(s)
| | - Walter R Drake
- Department of Chemistry and Biochemistry, University of Delaware, Newark, DE 19716, USA
| | - Siavash Mashayekh
- Department of Chemistry and Biochemistry, University of Delaware, Newark, DE 19716, USA
| | - Ophelia I Ukaegbu
- Department of Chemistry and Biochemistry, University of Delaware, Newark, DE 19716, USA
| | - Ashley R Brown
- Department of Chemistry and Biochemistry, University of Delaware, Newark, DE 19716, USA
| | - Catherine L Grimes
- Department of Chemistry and Biochemistry, University of Delaware, Newark, DE 19716, USA.
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43
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Terada Y, Hoshino Y, Miura Y. Glycopolymers Mimicking GM1 Gangliosides: Cooperativity of Galactose and Neuraminic Acid for Cholera Toxin Recognition. Chem Asian J 2019; 14:1021-1027. [DOI: 10.1002/asia.201900053] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/11/2019] [Revised: 02/21/2019] [Indexed: 01/17/2023]
Affiliation(s)
- Yuhei Terada
- Department of Chemical Systems and EngineeringKyushu University 744 Motooka Nishi-ku Fukuoka 819-0395 Japan
| | - Yu Hoshino
- Department of Chemical Systems and EngineeringKyushu University 744 Motooka Nishi-ku Fukuoka 819-0395 Japan
| | - Yoshiko Miura
- Department of Chemical Systems and EngineeringKyushu University 744 Motooka Nishi-ku Fukuoka 819-0395 Japan
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44
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Kuan SL, Bergamini FRG, Weil T. Functional protein nanostructures: a chemical toolbox. Chem Soc Rev 2018; 47:9069-9105. [PMID: 30452046 PMCID: PMC6289173 DOI: 10.1039/c8cs00590g] [Citation(s) in RCA: 69] [Impact Index Per Article: 11.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/21/2018] [Indexed: 01/08/2023]
Abstract
Nature has evolved an optimal synthetic factory in the form of translational and posttranslational processes by which millions of proteins with defined primary sequences and 3D structures can be built. Nature's toolkit gives rise to protein building blocks, which dictates their spatial arrangement to form functional protein nanostructures that serve a myriad of functions in cells, ranging from biocatalysis, formation of structural networks, and regulation of biochemical processes, to sensing. With the advent of chemical tools for site-selective protein modifications and recombinant engineering, there is a rapid development to develop and apply synthetic methods for creating structurally defined, functional protein nanostructures for a broad range of applications in the fields of catalysis, materials and biomedical sciences. In this review, design principles and structural features for achieving and characterizing functional protein nanostructures by synthetic approaches are summarized. The synthetic customization of protein building blocks, the design and introduction of recognition units and linkers and subsequent assembly into structurally defined protein architectures are discussed herein. Key examples of these supramolecular protein nanostructures, their unique functions and resultant impact for biomedical applications are highlighted.
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Affiliation(s)
- Seah Ling Kuan
- Max-Planck Institute for Polymer Research
,
Ackermannweg 10
, 55128 Mainz
, Germany
.
;
- Institute of Inorganic Chemistry I – Ulm University
,
Albert-Einstein-Allee 11
, 89081 Ulm
, Germany
| | - Fernando R. G. Bergamini
- Institute of Chemistry
, Federal University of Uberlândia – UFU
,
38400-902 Uberlândia
, MG
, Brazil
| | - Tanja Weil
- Max-Planck Institute for Polymer Research
,
Ackermannweg 10
, 55128 Mainz
, Germany
.
;
- Institute of Inorganic Chemistry I – Ulm University
,
Albert-Einstein-Allee 11
, 89081 Ulm
, Germany
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45
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Screening of a Library of Oligosaccharides Targeting Lectin LecB of Pseudomonas Aeruginosa and Synthesis of High Affinity Oligoglycoclusters. Molecules 2018; 23:molecules23123073. [PMID: 30477231 PMCID: PMC6321166 DOI: 10.3390/molecules23123073] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/29/2018] [Revised: 11/15/2018] [Accepted: 11/21/2018] [Indexed: 12/04/2022] Open
Abstract
The Gram negative bacterium Pseudomonas aeruginosa (PA) is an opportunistic bacterium that causes severe and chronic infection of immune-depressed patients. It has the ability to form a biofilm that gives a selective advantage to the bacteria with respect to antibiotherapy and host defenses. Herein, we have focused on the tetrameric soluble lectin which is involved in bacterium adherence to host cells, biofilm formation, and cytotoxicity. It binds to l-fucose, d-mannose and glycan exposing terminal fucose or mannose. Using a competitive assay on microarray, 156 oligosaccharides and polysaccharides issued from fermentation or from the biomass were screened toward their affinity to LecB. Next, the five best ligands (Lewisa, Lewisb, Lewisx, siayl-Lewisx and 3-fucosyllactose) were derivatized with a propargyl aglycon allowing the synthesis of 25 trivalent, 25 tetravalent and 5 monovalent constructions thanks to copper catalyzed azide alkyne cycloaddition. The 55 clusters were immobilized by DNA Directed immobilization leading to the fabrication of a glycocluster microarray. Their binding to LecB was studied. Multivalency improved the binding to LecB. The binding structure relationship of the clusters is mainly influenced by the carbohydrate residues. Molecular simulations indicated that the simultaneous contact of both binding sites of monomer A and D seems to be energetically possible.
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46
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Golden J, Yates MD, Halsted M, Tender L. Application of electrochemical surface plasmon resonance (ESPR) to the study of electroactive microbial biofilms. Phys Chem Chem Phys 2018; 20:25648-25656. [PMID: 30289415 DOI: 10.1039/c8cp03898h] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
Abstract
Electrochemical surface plasmon resonance (ESPR) monitors faradaic processes optically by the change in refractive index that occurs with a change in redox state at the electrode surface. Here we apply ESPR to investigate the anode-grown Geobacter sulfurreducens biofilm (GSB), a model system used to study electroactive microbial biofilms (EABFs) which perform electrochemical reactions using electrodes as metabolic electron acceptors or donors. A substantial body of evidence indicates that electron transfer reactions among hemes of c-type cytochromes (c-Cyt) play major roles in the extracellular electron transfer (EET) pathways that connect intracellular metabolic processes of cells in an EABF to the electrode surface. The results reported here reveal that when the potential of the electrode is changed from relatively oxidizing (0.40 V vs. SHE) to reducing (-0.55 V vs. SHE) and then back to oxidizing, 70% of c-Cyt residing closest to the biofilm/electrode (within hundreds of nm from the electrode surface) appear to remain trapped in the reduced state, requiring as long as 12 hours to be re-oxidized. c-Cyt storing electrons cannot contribute to EET, yet turnover current resulting from cellular oxidation of acetate coupled with EET to the electrode surface is unaffected. This suggests that a relatively small fraction of c-Cyt residing closest to the biofilm/electrode interface is involved in EET while the majority store electrons. The results also reveal that biomass density at the biofilm/electrode interface increases rapidly during lag phase, reaching its maximum value at the onset of exponential biofilm growth when turnover current begins to rapidly increase.
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Affiliation(s)
- Joel Golden
- Center for Bio/Molecular Science and Engineering, Naval Research Laboratory, Washington DC, 20375, USA.
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47
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Fathi F, Rashidi MR, Omidi Y. Ultra-sensitive detection by metal nanoparticles-mediated enhanced SPR biosensors. Talanta 2018; 192:118-127. [PMID: 30348366 DOI: 10.1016/j.talanta.2018.09.023] [Citation(s) in RCA: 72] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/06/2018] [Revised: 09/07/2018] [Accepted: 09/08/2018] [Indexed: 10/28/2022]
Abstract
Surface plasmon resonance (SPR), as an optical technique, has widely been used for the detection of biomarkers. Various investigations have been conducted to address the impacts of SPR on the kinetics of biological interactions between the ligand and its cognate bio-element. Up until now, different biofunctionalized metal nanoparticles (NPs) have been used for the ultrasensitive detection of biomarkers in the enhanced SPR. The enhancement of plasmonic properties and refractive index by means of metal NPs in SPR-based biosensors have significantly improved the diagnosis and monitoring of molecular markers in different disesaes including malignancies. In all the enhanced SPR systems utilized for the direct/sandwich assay, each NP is covalently modified with the analyte molecules like antibody (Ab) or a nucleic acid such as DNA/RNA aptamer (Ap) capable of interaction with the related biomarker(s). The increasing of density near the gold surface and plasmonic coupling of gold film and NPs can provide a large shift in the refractive index enhancing the plasmonic resonance because the SPR response unit is sensitive to alteration of the refractive index and the mass shifting onto the chip surface. In this study, we review the potential applications of two major NPs for enhancing the SPR signals for the detection of molecular biomarkers, including gold and magnetic NPs.
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Affiliation(s)
- Farzaneh Fathi
- Research Center for Pharmaceutical Nanotechnology, Biomedicine Institute, Tabriz University of Medical Sciences, Tabriz, Iran
| | - Mohammad-Reza Rashidi
- Research Center for Pharmaceutical Nanotechnology, Biomedicine Institute, Tabriz University of Medical Sciences, Tabriz, Iran
| | - Yadollah Omidi
- Research Center for Pharmaceutical Nanotechnology, Biomedicine Institute, Tabriz University of Medical Sciences, Tabriz, Iran; Department of Pharmaceutics, Faculty of Pharmacy, Tabriz University of Medical Sciences, Tabriz, Iran.
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48
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Bryce DA, Kitt JP, Harris JM. Confocal Raman Microscopy for Label-Free Detection of Protein–Ligand Binding at Nanopore-Supported Phospholipid Bilayers. Anal Chem 2018; 90:11509-11516. [DOI: 10.1021/acs.analchem.8b02791] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
Affiliation(s)
- David A. Bryce
- Department of Chemistry, University of Utah, 315 South 1400 East, Salt Lake City, Utah 84112-0850, United States
| | - Jay P. Kitt
- Department of Chemistry, University of Utah, 315 South 1400 East, Salt Lake City, Utah 84112-0850, United States
| | - Joel M. Harris
- Department of Chemistry, University of Utah, 315 South 1400 East, Salt Lake City, Utah 84112-0850, United States
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49
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Label-free microarray-based detection of autoantibodies in human serum. J Immunol Methods 2018; 459:44-49. [DOI: 10.1016/j.jim.2018.05.011] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/02/2018] [Revised: 04/16/2018] [Accepted: 05/10/2018] [Indexed: 12/23/2022]
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50
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Nyamekye CKA, Weibel SC, Bobbitt JM, Smith EA. Combined measurement of directional Raman scattering and surface-plasmon-polariton cone from adsorbates on smooth planar gold surfaces. Analyst 2018; 143:400-408. [PMID: 28944395 DOI: 10.1039/c7an01299c] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
Abstract
Directional-surface-plasmon-coupled Raman scattering (directional RS) has the combined benefits of surface plasmon resonance and Raman spectroscopy, and provides the ability to measure adsorption and monolayer-sensitive chemical information. Directional RS is performed by optically coupling a 50 nm gold film to a Weierstrass prism in the Kretschmann configuration and scanning the angle of the incident laser under total internal reflection. The collected parameters on the prism side of the interface include a full surface-plasmon-polariton cone and the full Raman signal radiating from the cone as a function of incident angle. An instrument for performing directional RS and a quantitative study of the instrumental parameters are herein reported. To test the sensitivity and quantify the instrument parameters, self-assembled monolayers and 10 to 100 nm polymer films are studied. The signals are found to be well-modeled by two calculated angle-dependent parameters: three-dimensional finite-difference time-domain calculations of the electric field generated in the sample layer and projected to the far-field, and Fresnel calculations of the reflected light intensity. This is the first report of the quantitative study of the full surface-plasmon-polariton cone intensity, cone diameter, and directional Raman signal as a function of incident angle. We propose that directional RS is a viable alternative to surface plasmon resonance when added chemical information is beneficial.
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