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Abstract
The bioorthogonal reaction toolbox contains approximately two-dozen unique chemistries that permit selective tagging and probing of biomolecules. Over the past two decades, significant effort has been devoted to optimizing and discovering bioorthogonal reagents that are faster, fluorogenic, and orthogonal to the already existing bioorthogonal repertoire. Conversely, efforts to explore bioorthogonal reagents whose reactivity can be controlled in space and/or time are limited. The "activatable" bioorthogonal reagents that do exist are often unimodal, meaning that their reagent's activation method cannot be easily modified to enable activation with red-shifted wavelengths, enzymes, or metabolic-byproducts and ions like H2O2 or Fe3+. Here, we summarize the available activatable bioorthogonal reagents with a focus on our recent addition: modular caged cyclopropenes. We designed caged cyclopropenes to be unreactive to their bioorthogonal partner until they are activated through the removal of the cage by light, an enzyme, or another reaction partner. To accomplish this, their structure includes a nitrogen atom at the cyclopropene C3 position that is decorated with the desired caging group through a carbamate linkage. This 3-N cyclopropene system can allow control of cyclopropene reactivity using a multitude of already available photo- and enzyme-caging groups. Additionally, this cyclopropene scaffold can enable metabolic-byproduct or ion activation of bioorthogonal reactions.
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Affiliation(s)
- Pratik Kumar
- Department of Chemistry, Stony Brook University, Stony Brook, NY, United States
| | - Scott T Laughlin
- Department of Chemistry, Stony Brook University, Stony Brook, NY, United States; Institute of Chemical Biology and Drug Discovery, Stony Brook University, Stony Brook, NY, United States.
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52
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Mao W, Shi W, Li J, Su D, Wang X, Zhang L, Pan L, Wu X, Wu H. Organocatalytic and Scalable Syntheses of Unsymmetrical 1,2,4,5-Tetrazines by Thiol-Containing Promotors. Angew Chem Int Ed Engl 2018; 58:1106-1109. [PMID: 30488591 DOI: 10.1002/anie.201812550] [Citation(s) in RCA: 31] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/01/2018] [Revised: 11/27/2018] [Indexed: 02/05/2023]
Abstract
Despite the growing application of tetrazine bioorthogonal chemistry, it is still challenging to access tetrazines conveniently from easily available materials. Described here is the de novo formation of tetrazine from nitriles and hydrazine hydrate using a broad array of thiol-containing catalysts, including peptides. Using this facile methodology, the syntheses of 14 unsymmetric tetrazines, containing a range of reactive functional groups, on the gram scale were achieved with satisfactory yields. Using tetrazine methylphosphonate as a building block, a highly efficient Horner-Wadsworth-Emmons reaction was developed for further derivatization under mild reaction conditions. Tetrazine probes with diverse functions can be scalably produced in yields of 87-93 %. This methodology may facilitate the widespread application of tetrazine bioorthogonal chemistry.
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Affiliation(s)
- Wuyu Mao
- Huaxi MR Research Center, Department of Radiology, West China Hospital and West China School of Medicine, Sichuan University, Chengdu, 610041, China
| | - Wei Shi
- Huaxi MR Research Center, Department of Radiology, West China Hospital and West China School of Medicine, Sichuan University, Chengdu, 610041, China
| | - Jie Li
- Huaxi MR Research Center, Department of Radiology, West China Hospital and West China School of Medicine, Sichuan University, Chengdu, 610041, China
| | - Dunyan Su
- Huaxi MR Research Center, Department of Radiology, West China Hospital and West China School of Medicine, Sichuan University, Chengdu, 610041, China
| | - Xiaomeng Wang
- Huaxi MR Research Center, Department of Radiology, West China Hospital and West China School of Medicine, Sichuan University, Chengdu, 610041, China
| | - Lyuye Zhang
- Huaxi MR Research Center, Department of Radiology, West China Hospital and West China School of Medicine, Sichuan University, Chengdu, 610041, China
| | - Lili Pan
- Department of Nuclear Medicine, West China Hospital, Sichuan University, Chengdu, 610041, China
| | - Xiaoai Wu
- Department of Nuclear Medicine, West China Hospital, Sichuan University, Chengdu, 610041, China
| | - Haoxing Wu
- Huaxi MR Research Center, Department of Radiology, West China Hospital and West China School of Medicine, Sichuan University, Chengdu, 610041, China
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53
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Mao W, Shi W, Li J, Su D, Wang X, Zhang L, Pan L, Wu X, Wu H. Organocatalytic and Scalable Syntheses of Unsymmetrical 1,2,4,5‐Tetrazines by Thiol‐Containing Promotors. Angew Chem Int Ed Engl 2018. [DOI: 10.1002/ange.201812550] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- Wuyu Mao
- Huaxi MR Research CenterDepartment of RadiologyWest China Hospital and West China School of MedicineSichuan University Chengdu 610041 China
| | - Wei Shi
- Huaxi MR Research CenterDepartment of RadiologyWest China Hospital and West China School of MedicineSichuan University Chengdu 610041 China
| | - Jie Li
- Huaxi MR Research CenterDepartment of RadiologyWest China Hospital and West China School of MedicineSichuan University Chengdu 610041 China
| | - Dunyan Su
- Huaxi MR Research CenterDepartment of RadiologyWest China Hospital and West China School of MedicineSichuan University Chengdu 610041 China
| | - Xiaomeng Wang
- Huaxi MR Research CenterDepartment of RadiologyWest China Hospital and West China School of MedicineSichuan University Chengdu 610041 China
| | - Lyuye Zhang
- Huaxi MR Research CenterDepartment of RadiologyWest China Hospital and West China School of MedicineSichuan University Chengdu 610041 China
| | - Lili Pan
- Department of Nuclear MedicineWest China HospitalSichuan University Chengdu 610041 China
| | - Xiaoai Wu
- Department of Nuclear MedicineWest China HospitalSichuan University Chengdu 610041 China
| | - Haoxing Wu
- Huaxi MR Research CenterDepartment of RadiologyWest China Hospital and West China School of MedicineSichuan University Chengdu 610041 China
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54
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Chandrasekaran KS, Rentmeister A. Clicking a Fish: Click Chemistry of Different Biomolecules in Danio rerio. Biochemistry 2018; 58:24-30. [DOI: 10.1021/acs.biochem.8b00934] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Affiliation(s)
- Karthik Subramanian Chandrasekaran
- Department of Chemistry, Institute of Biochemistry, University of Münster, Wilhelm-Klemm-Strasse 2, 48149 Münster, Germany
- Cells-in-Motion Cluster of Excellence, University of Münster, 48149 Münster, Germany
| | - Andrea Rentmeister
- Department of Chemistry, Institute of Biochemistry, University of Münster, Wilhelm-Klemm-Strasse 2, 48149 Münster, Germany
- Cells-in-Motion Cluster of Excellence, University of Münster, 48149 Münster, Germany
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55
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Gutmann M, Bechold J, Seibel J, Meinel L, Lühmann T. Metabolic Glycoengineering of Cell-Derived Matrices and Cell Surfaces: A Combination of Key Principles and Step-by-Step Procedures. ACS Biomater Sci Eng 2018; 5:215-233. [DOI: 10.1021/acsbiomaterials.8b00865] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/03/2023]
Affiliation(s)
- Marcus Gutmann
- Institute of Pharmacy and Food Chemistry, University of Wuerzburg, Am Hubland, 97074 Wuerzburg, Germany
| | - Julian Bechold
- Institute of Organic Chemistry, University of Würzburg, Am Hubland, 97074 Wuerzburg, Germany
| | - Jürgen Seibel
- Institute of Organic Chemistry, University of Würzburg, Am Hubland, 97074 Wuerzburg, Germany
| | - Lorenz Meinel
- Institute of Pharmacy and Food Chemistry, University of Wuerzburg, Am Hubland, 97074 Wuerzburg, Germany
| | - Tessa Lühmann
- Institute of Pharmacy and Food Chemistry, University of Wuerzburg, Am Hubland, 97074 Wuerzburg, Germany
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56
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Zhang P, Dong B, Zeng E, Wang F, Jiang Y, Li D, Liu D. In Vivo Tracking of Multiple Tumor Exosomes Labeled by Phospholipid-Based Bioorthogonal Conjugation. Anal Chem 2018; 90:11273-11279. [PMID: 30178994 DOI: 10.1021/acs.analchem.8b01506] [Citation(s) in RCA: 36] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
Exosomes are cell-secreted nanoscale membrane vesicles that play critical roles in many pathophysiological processes. The clinical value of exosomes is under intense investigation, yet current knowledge regarding their in vivo properties is very limited because of the lack of efficient labeling techniques. Here, we report a phospholipid-based bioorthogonal labeling strategy to endow exosomes with optical probes without influencing their native biological functions. We investigated the dynamic in vivo biodistribution and organotropic uptake of multiple tumor exosomes in a single mouse. The results indicate that the exosomes derived from different cell lines show specific organotropic uptake. This phospholipid-based labeling strategy opens a new window to directly visualize and monitor exosome trafficking in living systems and holds great promise for exploring exosome-involved biological events such as cancer metastasis.
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Affiliation(s)
- Pengjuan Zhang
- College of Chemistry, Research Center for Analytical Sciences, State Key Laboratory of Medicinal Chemical Biology, and Tianjin Key Laboratory of Molecular Recognition and Biosensing , Nankai University , Tianjin 300071 , China
| | - Bo Dong
- College of Chemistry, Research Center for Analytical Sciences, State Key Laboratory of Medicinal Chemical Biology, and Tianjin Key Laboratory of Molecular Recognition and Biosensing , Nankai University , Tianjin 300071 , China
| | - Erzao Zeng
- College of Chemistry, Research Center for Analytical Sciences, State Key Laboratory of Medicinal Chemical Biology, and Tianjin Key Laboratory of Molecular Recognition and Biosensing , Nankai University , Tianjin 300071 , China
| | - Fengchao Wang
- College of Chemistry, Research Center for Analytical Sciences, State Key Laboratory of Medicinal Chemical Biology, and Tianjin Key Laboratory of Molecular Recognition and Biosensing , Nankai University , Tianjin 300071 , China
| | - Ying Jiang
- College of Chemistry, Research Center for Analytical Sciences, State Key Laboratory of Medicinal Chemical Biology, and Tianjin Key Laboratory of Molecular Recognition and Biosensing , Nankai University , Tianjin 300071 , China
| | - Dianqi Li
- College of Chemistry, Research Center for Analytical Sciences, State Key Laboratory of Medicinal Chemical Biology, and Tianjin Key Laboratory of Molecular Recognition and Biosensing , Nankai University , Tianjin 300071 , China
| | - Dingbin Liu
- College of Chemistry, Research Center for Analytical Sciences, State Key Laboratory of Medicinal Chemical Biology, and Tianjin Key Laboratory of Molecular Recognition and Biosensing , Nankai University , Tianjin 300071 , China.,Collaborative Innovation Center of Chemical Science and Engineering , Tianjin 300071 , China
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57
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Devaraj NK. The Future of Bioorthogonal Chemistry. ACS CENTRAL SCIENCE 2018; 4:952-959. [PMID: 30159392 PMCID: PMC6107859 DOI: 10.1021/acscentsci.8b00251] [Citation(s) in RCA: 325] [Impact Index Per Article: 54.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/25/2018] [Indexed: 05/18/2023]
Abstract
Bioorthogonal reactions have found widespread use in applications ranging from glycan engineering to in vivo imaging. Researchers have devised numerous reactions that can be predictably performed in a biological setting. Depending on the requirements of the intended application, one or more reactions from the available toolkit can be readily deployed. As an increasing number of investigators explore and apply chemical reactions in living systems, it is clear that there are a myriad of ways in which the field may advance. This article presents an outlook on the future of bioorthogonal chemistry. I discuss currently emerging opportunities and speculate on how bioorthogonal reactions might be applied in research and translational settings. I also outline hurdles that must be cleared if progress toward these goals is to be made. Given the incredible past successes of bioorthogonal chemistry and the rapid pace of innovations in the field, the future is undoubtedly very bright.
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58
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Yoshida S. Controlled Reactive Intermediates Enabling Facile Molecular Conjugation. BULLETIN OF THE CHEMICAL SOCIETY OF JAPAN 2018. [DOI: 10.1246/bcsj.20180104] [Citation(s) in RCA: 26] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
Affiliation(s)
- Suguru Yoshida
- Laboratory of Chemical Bioscience, Institute of Biomaterials and Bioengineering, Tokyo Medical and Dental University (TMDU), 2-3-10 Kanda-Surugadai, Chiyoda-ku, Tokyo 101-0062, Japan
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59
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Qu Y, Sauvage FX, Clavier G, Miomandre F, Audebert P. Metal-Free Synthetic Approach to 3-Monosubstituted Unsymmetrical 1,2,4,5-Tetrazines Useful for Bioorthogonal Reactions. Angew Chem Int Ed Engl 2018. [DOI: 10.1002/ange.201804878] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- Yangyang Qu
- PPSM- CNRS- ENS Paris-Saclay; 61 Avenue Président Wilson 94235 Cachan France
| | | | - Gilles Clavier
- PPSM- CNRS- ENS Paris-Saclay; 61 Avenue Président Wilson 94235 Cachan France
| | - Fabien Miomandre
- PPSM- CNRS- ENS Paris-Saclay; 61 Avenue Président Wilson 94235 Cachan France
| | - Pierre Audebert
- PPSM- CNRS- ENS Paris-Saclay; 61 Avenue Président Wilson 94235 Cachan France
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60
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Qu Y, Sauvage FX, Clavier G, Miomandre F, Audebert P. Metal-Free Synthetic Approach to 3-Monosubstituted Unsymmetrical 1,2,4,5-Tetrazines Useful for Bioorthogonal Reactions. Angew Chem Int Ed Engl 2018; 57:12057-12061. [PMID: 30015385 DOI: 10.1002/anie.201804878] [Citation(s) in RCA: 44] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/26/2018] [Revised: 07/13/2018] [Indexed: 11/06/2022]
Abstract
A facile, efficient and metal-free synthetic approach to 3-monosubstituted unsymmetrical 1,2,4,5-tetrazines is presented. Dichloromethane (DCM) is for the first time recognized as a novel reagent in the synthetic chemistry of tetrazines. Using this novel approach 11 3-aryl/alkyl 1,2,4,5-tetrazines were prepared in excellent yields (up to 75 %). The mechanism of this new reaction, including the role of DCM in the tetrazine ring formation, has been investigated by 13 C labeling of DCM, and is also presented and discussed as well as the photophysical and electrochemical properties.
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Affiliation(s)
- Yangyang Qu
- PPSM- CNRS- ENS Paris-Saclay, 61 Avenue Président Wilson, 94235, Cachan, France
| | | | - Gilles Clavier
- PPSM- CNRS- ENS Paris-Saclay, 61 Avenue Président Wilson, 94235, Cachan, France
| | - Fabien Miomandre
- PPSM- CNRS- ENS Paris-Saclay, 61 Avenue Président Wilson, 94235, Cachan, France
| | - Pierre Audebert
- PPSM- CNRS- ENS Paris-Saclay, 61 Avenue Président Wilson, 94235, Cachan, France
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61
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Wu Y, Hu J, Sun C, Cao Y, Li Y, Xie F, Zeng T, Zhou B, Du J, Tang Y. Nature-Inspired Bioorthogonal Reaction: Development of β-Caryophyllene as a Chemical Reporter in Tetrazine Ligation. Bioconjug Chem 2018; 29:2287-2295. [PMID: 29851464 DOI: 10.1021/acs.bioconjchem.8b00283] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023]
Abstract
A nature-inspired bioorthogonal reaction has been developed, hinging on an inverse-electron-demand Diels-Alder reaction of tetrazine with β-caryophyllene. Readily accessible from the cheap starting material through a scalable synthesis, the newly developed β-caryophyllene chemical reporter displays appealing reaction kinetics and excellent biocompatibility, which renders it applicable to both in vitro protein labeling and live cell imaging. Moreover, it can be used orthogonally to the strain-promoted alkyne-azide cycloaddition for dual protein labeling. This work not only provides an alternative to the existing bioorthogonal reaction toolbox, but also opens a new avenue to utilize naturally occurring scaffolds as bioorthogonal chemical reporters.
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Affiliation(s)
- Yunfei Wu
- School of Pharmaceutical Sciences, MOE Key Laboratory of Bioorganic Phosphorus Chemistry & Chemical Biology , Tsinghua University , Beijing 100084 , China.,Collaborative Innovation Center for Biotherapy, State Key Laboratory of Biotherapy and Cancer Center, West China Medical School , Sichuan University , Chengdu 610041 , China
| | - Jiulong Hu
- School of Pharmaceutical Sciences, MOE Key Laboratory of Bioorganic Phosphorus Chemistry & Chemical Biology , Tsinghua University , Beijing 100084 , China.,State Key Laboratory of Membrane Biology, School of Life Sciences , Tsinghua University , Beijing 100084 , China
| | - Chen Sun
- State Key Laboratory of Membrane Biology, School of Life Sciences , Tsinghua University , Beijing 100084 , China
| | - Yu Cao
- State Key Laboratory of Membrane Biology, School of Life Sciences , Tsinghua University , Beijing 100084 , China
| | - Yuanhe Li
- School of Pharmaceutical Sciences, MOE Key Laboratory of Bioorganic Phosphorus Chemistry & Chemical Biology , Tsinghua University , Beijing 100084 , China
| | - Fayang Xie
- School of Pharmaceutical Sciences, MOE Key Laboratory of Bioorganic Phosphorus Chemistry & Chemical Biology , Tsinghua University , Beijing 100084 , China
| | - Tianyin Zeng
- School of Pharmaceutical Sciences, MOE Key Laboratory of Bioorganic Phosphorus Chemistry & Chemical Biology , Tsinghua University , Beijing 100084 , China
| | - Bing Zhou
- State Key Laboratory of Membrane Biology, School of Life Sciences , Tsinghua University , Beijing 100084 , China
| | - Juanjuan Du
- School of Pharmaceutical Sciences, MOE Key Laboratory of Bioorganic Phosphorus Chemistry & Chemical Biology , Tsinghua University , Beijing 100084 , China
| | - Yefeng Tang
- School of Pharmaceutical Sciences, MOE Key Laboratory of Bioorganic Phosphorus Chemistry & Chemical Biology , Tsinghua University , Beijing 100084 , China.,Collaborative Innovation Center for Biotherapy, State Key Laboratory of Biotherapy and Cancer Center, West China Medical School , Sichuan University , Chengdu 610041 , China
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62
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Favre C, Friscourt F. Fluorogenic Sydnone-Modified Coumarins Switched-On by Copper-Free Click Chemistry. Org Lett 2018; 20:4213-4217. [PMID: 29995429 DOI: 10.1021/acs.orglett.8b01587] [Citation(s) in RCA: 37] [Impact Index Per Article: 6.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
The synthesis, photophysical characterization, and biochemical application of sydnone-modified coumarins, a novel class of fluorogenic clickable reagents, are reported. The sydnone moiety, a stable aromatic 1,3-dipole, efficiently quenched the fluorescence of coumarin, which could be restored, with a 132-fold enhancement, upon cycloadditions with cyclooctynes, thereby expanding the fluorogenic click toolbox. TD-DFT calculations suggest that the fluorescence quenching of the sydnone-modified coumarins is likely due to the presence of an energetically low-lying nonemissive charge-separated state.
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Affiliation(s)
- Camille Favre
- Institut Européen de Chimie et Biologie , Université de Bordeaux , 2 rue Robert Escarpit , 33607 Pessac , France.,Institut de Neurosciences Cognitives et Intégratives d'Aquitaine , CNRS UMR5287 , Bordeaux , France
| | - Frédéric Friscourt
- Institut Européen de Chimie et Biologie , Université de Bordeaux , 2 rue Robert Escarpit , 33607 Pessac , France.,Institut de Neurosciences Cognitives et Intégratives d'Aquitaine , CNRS UMR5287 , Bordeaux , France
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63
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Chupakhin EG, Krasavin MY. Achievements in the synthesis of cyclooctynes for ring strain-promoted [3+2] azide-alkyne cycloaddition. Chem Heterocycl Compd (N Y) 2018. [DOI: 10.1007/s10593-018-2295-x] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
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64
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Gao X, Sun JZ, Tang BZ. Reaction-based AIE-active Fluorescent Probes for Selective Detection and Imaging. Isr J Chem 2018. [DOI: 10.1002/ijch.201800035] [Citation(s) in RCA: 26] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Affiliation(s)
- Xiaoying Gao
- MOE Key Laboratory of Macromolecule Synthesis and Functionalization, Department of Polymer Science and Engineering; Zhejiang University; Hangzhou 310027 China
| | - Jing Zhi Sun
- MOE Key Laboratory of Macromolecule Synthesis and Functionalization, Department of Polymer Science and Engineering; Zhejiang University; Hangzhou 310027 China
| | - Ben Zhong Tang
- MOE Key Laboratory of Macromolecule Synthesis and Functionalization, Department of Polymer Science and Engineering; Zhejiang University; Hangzhou 310027 China
- Department of Chemistry, Division of Biomedical Engineering, Hong Kong Branch of Chinese National Engineering Research Center for Tissue Restoration and Reconstruction, State Key Laboratory of Molecular Neuroscience, Institute of Molecular Functional Materials, Division of Life Science; Hong Kong University of Science and Technology; Clear Water Bay Kowloon, Hong Kong China
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65
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Nagahama K, Kimura Y, Takemoto A. Living functional hydrogels generated by bioorthogonal cross-linking reactions of azide-modified cells with alkyne-modified polymers. Nat Commun 2018; 9:2195. [PMID: 29875358 PMCID: PMC5989231 DOI: 10.1038/s41467-018-04699-3] [Citation(s) in RCA: 37] [Impact Index Per Article: 6.2] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/22/2016] [Accepted: 05/01/2018] [Indexed: 01/08/2023] Open
Abstract
To date, many scientists have thoroughly investigated both cells and cellular functions, resulting in the identification of numerous molecular mechanisms underlying the cellular functions. Based on these findings, medical scientists and pharmacologists have developed many technological applications for cells and cellular functions in medicine. How can material scientists utilize cells and cellular functions? Here, we show a concept for utilizing cells and their functions from the viewpoint of materials science. In particular, we develop cell cross-linked living bulk hydrogels by bioorthogonal click cross-linking reactions of azide-modified mammalian cells with alkyne-modified biocompatible polymers. Importantly, we demonstrate the unique functionalities of the living hydrogels, originating from the basic functions of the cells incorporated in the living hydrogels as active cross-linking points. The findings of this study provide a promising route to generating living cell-based next-generation innovative materials, technologies, and medicines.
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Affiliation(s)
- Koji Nagahama
- Department of Nanobiochemistry, Frontiers of Innovative Research in Science and Technology (FIRST), Konan University, 7-1-20 Minatojima-Minamimachi, Chuo-ku, Kobe, 650-0047, Japan.
| | - Yuuka Kimura
- Department of Nanobiochemistry, Frontiers of Innovative Research in Science and Technology (FIRST), Konan University, 7-1-20 Minatojima-Minamimachi, Chuo-ku, Kobe, 650-0047, Japan
| | - Ayaka Takemoto
- Department of Nanobiochemistry, Frontiers of Innovative Research in Science and Technology (FIRST), Konan University, 7-1-20 Minatojima-Minamimachi, Chuo-ku, Kobe, 650-0047, Japan
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66
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Wu H. Advances in Tetrazine Bioorthogonal Chemistry Driven by the Synthesis of Novel Tetrazines and Dienophiles. Acc Chem Res 2018; 51:1249-1259. [PMID: 29638113 PMCID: PMC6225996 DOI: 10.1021/acs.accounts.8b00062] [Citation(s) in RCA: 150] [Impact Index Per Article: 25.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
Abstract
Bioorthogonal chemistry has found increased application in living systems over the past decade. In particular, tetrazine bioorthogonal chemistry has become a powerful tool for imaging, detection, and diagnostic purposes, as reflected in the increased number of examples reported in the literature. The popularity of tetrazine ligations are likely due to rapid and tunable kinetics, the existence of high quality fluorogenic probes, and the selectivity of reaction. In this Account, we summarize our recent efforts to advance tetrazine bioorthogonal chemistry through improvements in synthetic methodology, with an emphasis on developing new routes to tetrazines and expanding the range of useful dienophiles. These efforts have removed specific barriers that previously limited tetrazine ligations and have broadened their potential applications. Among other advances, this Account describes how our group discovered new methodology for tetrazine synthesis by developing a Lewis acid-promoted, one-pot method for generating diverse symmetric and asymmetric alkyl tetrazines with functional substituents in satisfactory yields. We attached these tetrazines to microelectrodes and succeeded in controlling tetrazine ligation by changing the redox state of the reactants. Using this electrochemical control process, we were able to modify an electrode surface with redox probes and enzymes in a site-selective fashion. This Account also describes how our group improved the ability of tetrazines to act as fluorogenic probes by developing a novel elimination-Heck cascade reaction to synthesize alkenyl tetrazine derivatives. In this approach, tetrazine was conjugated to fluorophores to produce strongly quenched probes that, after bioorthogonal reaction, are "turned on" to enhance fluorescence, in many cases by >100-fold. These probes have allowed no-wash fluorescence imaging in living cells and intact animals. Finally, this Account reviews our efforts to expand the range of dienophile substrates to make tetrazine bioorthogonal chemistry compatible with specific biochemical and biomedical applications. We found that methylcyclopropene is sufficiently stable and reactive in the biological milieu to act as an efficient dienophile. The small size of the reactive tag minimizes steric hindrance, allowing cyclopropene to serve as a metabolic reporter group to reveal biological dynamics and function. We also used norbornadiene derivatives as strained dienophiles to undergo tetrazine-mediated transfer (TMT) reactions involving tetrazine ligation followed by a retro-Diels-Alder process. This TMT reaction generates a pair of nonligating products. Using nucleic acid-templated chemistry, we have combined the TMT reaction with our fluorogenic tetrazine probes to detect endogenous oncogenic microRNA at picomolar concentrations. In a further display of dienophile versatility, we used a novel vinyl ether to cage a near-infrared fluorophore in a nonfluorescent form. Then we opened the cage in a "click to release" tetrazine bioorthogonal reaction, restoring the fluorescent form of the fluorophore. Combining this label with a corresponding nucleic acid probe allowed fluorogenic detection of target mRNA. In summary, this Account describes improvements in tetrazine and dienophile synthesis and application to advance tetrazine bioorthogonal chemistry. These advances have further enabled application of tetrazine ligation chemistry, not only in fundamental research but also in diagnostic studies.
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Affiliation(s)
- Haoxing Wu
- Huaxi MR Research Center, Department of Radiology, West China Hospital and West China School of Medicine, Sichuan University, Chengdu 610041, China
| | - 0000-0002-8033-9973
- Department of Chemistry and Biochemistry, University of California, San Diego, La Jolla, California 92093, United States
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67
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Yuan B, Chen Y, Sun Y, Guo Q, Huang J, Liu J, Meng X, Yang X, Wen X, Li Z, Li L, Wang K. Enhanced Imaging of Specific Cell-Surface Glycosylation Based on Multi-FRET. Anal Chem 2018; 90:6131-6137. [PMID: 29696967 DOI: 10.1021/acs.analchem.8b00424] [Citation(s) in RCA: 31] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
Cell-surface glycosylation contains abundant biological information that reflects cell physiological state, and it is of great value to image cell-surface glycosylation to elucidate its functions. Here we present a hybridization chain reaction (HCR)-based multifluorescence resonance energy transfer (multi-FRET) method for specific imaging of cell-surface glycosylation. By installing donors through metabolic glycan labeling and acceptors through aptamer-tethered nanoassemblies on the same glycoconjugate, intramolecular multi-FRET occurs due to near donor-acceptor distance. Benefiting from amplified effect and spatial flexibility of the HCR nanoassemblies, enhanced multi-FRET imaging of specific cell-surface glycosylation can be obtained. With this HCR-based multi-FRET method, we achieved obvious contrast in imaging of protein-specific GalNAcylation on 7211 cell surfaces. In addition, we demonstrated the general applicability of this method by visualizing the protein-specific sialylation on CEM cell surfaces. Furthermore, the expression changes of CEM cell-surface protein-specific sialylation under drug treatment was accurately monitored. This developed imaging method may provide a powerful tool in researching glycosylation functions, discovering biomarkers, and screening drugs.
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Affiliation(s)
- Baoyin Yuan
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, College of Chemistry and Chemical Engineering , Hunan University, Key Laboratory for Bio-Nanotechnology and Molecular Engineering of Hunan Province , Changsha 410082 , China
| | - Yuanyuan Chen
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, College of Chemistry and Chemical Engineering , Hunan University, Key Laboratory for Bio-Nanotechnology and Molecular Engineering of Hunan Province , Changsha 410082 , China
| | - Yuqiong Sun
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, College of Chemistry and Chemical Engineering , Hunan University, Key Laboratory for Bio-Nanotechnology and Molecular Engineering of Hunan Province , Changsha 410082 , China
| | - Qiuping Guo
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, College of Chemistry and Chemical Engineering , Hunan University, Key Laboratory for Bio-Nanotechnology and Molecular Engineering of Hunan Province , Changsha 410082 , China
| | - Jin Huang
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, College of Chemistry and Chemical Engineering , Hunan University, Key Laboratory for Bio-Nanotechnology and Molecular Engineering of Hunan Province , Changsha 410082 , China
| | - Jianbo Liu
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, College of Chemistry and Chemical Engineering , Hunan University, Key Laboratory for Bio-Nanotechnology and Molecular Engineering of Hunan Province , Changsha 410082 , China
| | - Xiangxian Meng
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, College of Chemistry and Chemical Engineering , Hunan University, Key Laboratory for Bio-Nanotechnology and Molecular Engineering of Hunan Province , Changsha 410082 , China
| | - Xiaohai Yang
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, College of Chemistry and Chemical Engineering , Hunan University, Key Laboratory for Bio-Nanotechnology and Molecular Engineering of Hunan Province , Changsha 410082 , China
| | - Xiaohong Wen
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, College of Chemistry and Chemical Engineering , Hunan University, Key Laboratory for Bio-Nanotechnology and Molecular Engineering of Hunan Province , Changsha 410082 , China
| | - Zenghui Li
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, College of Chemistry and Chemical Engineering , Hunan University, Key Laboratory for Bio-Nanotechnology and Molecular Engineering of Hunan Province , Changsha 410082 , China
| | - Lie Li
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, College of Chemistry and Chemical Engineering , Hunan University, Key Laboratory for Bio-Nanotechnology and Molecular Engineering of Hunan Province , Changsha 410082 , China
| | - Kemin Wang
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Biology, College of Chemistry and Chemical Engineering , Hunan University, Key Laboratory for Bio-Nanotechnology and Molecular Engineering of Hunan Province , Changsha 410082 , China
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68
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Oliveira BL, Guo Z, Bernardes GJL. Inverse electron demand Diels-Alder reactions in chemical biology. Chem Soc Rev 2018; 46:4895-4950. [PMID: 28660957 DOI: 10.1039/c7cs00184c] [Citation(s) in RCA: 644] [Impact Index Per Article: 107.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Abstract
The emerging inverse electron demand Diels-Alder (IEDDA) reaction stands out from other bioorthogonal reactions by virtue of its unmatchable kinetics, excellent orthogonality and biocompatibility. With the recent discovery of novel dienophiles and optimal tetrazine coupling partners, attention has now been turned to the use of IEDDA approaches in basic biology, imaging and therapeutics. Here we review this bioorthogonal reaction and its promising applications for live cell and animal studies. We first discuss the key factors that contribute to the fast IEDDA kinetics and describe the most recent advances in the synthesis of tetrazine and dienophile coupling partners. Both coupling partners have been incorporated into proteins for tracking and imaging by use of fluorogenic tetrazines that become strongly fluorescent upon reaction. Selected notable examples of such applications are presented. The exceptional fast kinetics of this catalyst-free reaction, even using low concentrations of coupling partners, make it amenable for in vivo radiolabelling using pretargeting methodologies, which are also discussed. Finally, IEDDA reactions have recently found use in bioorthogonal decaging to activate proteins or drugs in gain-of-function strategies. We conclude by showing applications of the IEDDA reaction in the construction of biomaterials that are used for drug delivery and multimodal imaging, among others. The use and utility of the IEDDA reaction is interdisciplinary and promises to revolutionize chemical biology, radiochemistry and materials science.
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Affiliation(s)
- B L Oliveira
- Department of Chemistry, University of Cambridge, Lensfield Road, Cambridge, CB2 1EW, UK.
| | - Z Guo
- Department of Chemistry, University of Cambridge, Lensfield Road, Cambridge, CB2 1EW, UK.
| | - G J L Bernardes
- Department of Chemistry, University of Cambridge, Lensfield Road, Cambridge, CB2 1EW, UK. and Instituto de Medicina Molecular, Faculdade de Medicina, Universidade de Lisboa, Avenida Professor Egas Moniz, Lisboa, 1649-028, Portugal.
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69
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Kozma E, Estrada Girona G, Paci G, Lemke EA, Kele P. Bioorthogonal double-fluorogenic siliconrhodamine probes for intracellular super-resolution microscopy. Chem Commun (Camb) 2018; 53:6696-6699. [PMID: 28530747 DOI: 10.1039/c7cc02212c] [Citation(s) in RCA: 65] [Impact Index Per Article: 10.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/05/2023]
Abstract
A series of double-fluorogenic siliconrhodamine probes were synthesized. These tetrazine-functionalized, membrane-permeable labels allowed site-specific bioorthogonal tagging of genetically manipulated intracellular proteins and subsequent imaging using super-resolution microscopy.
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Affiliation(s)
- E Kozma
- "Lendület" Chemical Biology Research Group, Institute of Organic Chemistry, Research Centre for Natural Sciences, Hungarian Academy of Sciences, Magyar tudósok krt. 2, 1117 Budapest, Hungary.
| | - G Estrada Girona
- Structural and Computational Biology Unit, Cell Biology and Biophysics Unit, European Molecular Biology Laboratory, Meyerhofstrasse 1, Heidelberg, D-69117, Germany
| | - G Paci
- Structural and Computational Biology Unit, Cell Biology and Biophysics Unit, European Molecular Biology Laboratory, Meyerhofstrasse 1, Heidelberg, D-69117, Germany
| | - E A Lemke
- Structural and Computational Biology Unit, Cell Biology and Biophysics Unit, European Molecular Biology Laboratory, Meyerhofstrasse 1, Heidelberg, D-69117, Germany
| | - P Kele
- "Lendület" Chemical Biology Research Group, Institute of Organic Chemistry, Research Centre for Natural Sciences, Hungarian Academy of Sciences, Magyar tudósok krt. 2, 1117 Budapest, Hungary.
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70
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Kozma E, Paci G, Estrada Girona G, Lemke EA, Kele P. Fluorogenic Tetrazine-Siliconrhodamine Probe for the Labeling of Noncanonical Amino Acid Tagged Proteins. Methods Mol Biol 2018; 1728:337-363. [PMID: 29405009 DOI: 10.1007/978-1-4939-7574-7_22] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Abstract
Tetrazine-bearing fluorescent labels enable site-specific tagging of proteins that are genetically manipulated with dienophile modified noncanonical amino acids. The inverse electron demand Diels-Alder reaction between the tetrazine and the dienophile fulfills the criteria of bioorthogonality allowing fluorescent labeling schemes of live cells. Here, we describe the detailed synthetic and labeling protocols of a near infrared emitting siliconrhodamine-tetrazine probe suitable for super-resolution imaging of residue-specifically engineered proteins in mammalian cells.
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Affiliation(s)
- Eszter Kozma
- Chemical Biology Research Group, Research Centre for Natural Sciences, Institute of Organic Chemistry, Hungarian Academy of Sciences, Magyar tudósok krt 2, Budapest, 1117, Hungary
| | - Giulia Paci
- Structural and Computational Biology Unit & Cell Biology and Biophysics Unit, European Molecular Biology Laboratory, Meyerhofstrasse 1, Heidelberg, 69117, Germany
| | - Gemma Estrada Girona
- Structural and Computational Biology Unit & Cell Biology and Biophysics Unit, European Molecular Biology Laboratory, Meyerhofstrasse 1, Heidelberg, 69117, Germany
| | - Edward A Lemke
- Structural and Computational Biology Unit & Cell Biology and Biophysics Unit, European Molecular Biology Laboratory, Meyerhofstrasse 1, Heidelberg, 69117, Germany
- Departments of Biology and Chemistry, Pharmacy and Geosciences, Johannes Gutenberg-University, Johannes-von-Mullerweg 6, Mainz, Germany
- Institute of Molecular Biology (IMB), Mainz, 55128, Germany
| | - Péter Kele
- Chemical Biology Research Group, Research Centre for Natural Sciences, Institute of Organic Chemistry, Hungarian Academy of Sciences, Magyar tudósok krt 2, Budapest, 1117, Hungary.
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71
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Sakamoto T, Hasegawa D, Fujimoto K. Disassembly-driven signal turn-on probes for bimodal detection of DNA with 19F NMR and fluorescence. Org Biomol Chem 2018; 16:7157-7162. [DOI: 10.1039/c8ob02218f] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Self-assembling molecular probes that can detect DNA in a 19F NMR and fluorescence signal turn-on manner were successfully developed.
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Affiliation(s)
- Takashi Sakamoto
- Faculty of Systems Engineering
- Wakayama University
- Wakayama 640-8510
- Japan
| | - Daisaku Hasegawa
- School of Materials Science
- Japan Advanced Institute of Science and Technology
- Nomi
- Japan
| | - Kenzo Fujimoto
- School of Materials Science
- Japan Advanced Institute of Science and Technology
- Nomi
- Japan
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72
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Abstract
Genetic code expansion is commonly used to introduce bioorthogonal reactive functional groups onto proteins for labeling. In recent years, the inverse electron demand Diels-Alder reaction between tetrazines and strained trans-cyclooctenes has increased in popularity as a bioorthogonal ligation for protein labeling due to its fast reaction rate and high in vivo stability. We provide methods for the facile synthesis of a tetrazine containing amino acid, Tet-v2.0, and the site-specific incorporation of Tet-v2.0 into proteins via genetic code expansion. Furthermore, we demonstrate that proteins containing Tet-v2.0 can be quickly and efficiently reacted with strained alkene labels at low concentrations. This chemistry has enabled the labeling of protein surfaces with fluorophores, inhibitors, or common posttranslational modifications such as glycosylation or lipidation.
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73
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Burk M, Rothstein S, Dubé P. Enabling the Multigram Synthesis of (2-Cyclooctyn-1-yloxy)acetic Acid. Org Process Res Dev 2017. [DOI: 10.1021/acs.oprd.7b00275] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
Affiliation(s)
- Matthew Burk
- Nalas Engineering Services, 85 Westbrook Road, Centerbrook, Connecticut 06409, United States
| | - Sarah Rothstein
- Metals and Additives
Corp., 10665 North State Road 59, Brazil, Indiana 47834, United States
| | - Pascal Dubé
- Matsys, Inc., 45490 Ruritan Circle, Sterling, Virginia 20164, United States
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74
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Alcaraz N, Liu Q, Hanssen E, Johnston A, Boyd BJ. Clickable Cubosomes for Antibody-Free Drug Targeting and Imaging Applications. Bioconjug Chem 2017; 29:149-157. [PMID: 29182866 DOI: 10.1021/acs.bioconjchem.7b00659] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Abstract
The combination of copper-free click chemistry with metabolic labeling offers new opportunities in drug delivery. The objective of this study was to determine whether cubosomes functionalized with azide or dibenzocyclooctyne (DBCO) groups are able to undergo copper-free click chemistry with a strained cyclooctyne or azide, respectively. Phytantriol-based cubosomes were functionalized using phospholipids bearing an azide or DBCO group. The modified cubosome dispersions were characterized using dynamic light scattering, cryo-TEM, and small-angle X-ray scattering. The efficiency of "clickability" was assessed by reacting the cubosomes with a complementary dye and determining bound and unbound dye via size exclusion chromatography. The clickable cubosomes reacted specifically and efficiently with a click-Cy5 dye with minor changes to the size, shape, and structure of the cubosomes. This indicates that cubosomes can retain their unique internal structure while participating in copper-free click chemistry. This proof of concept study paves the way for the use of copper-free click chemistry and metabolic labeling with cubosomes for targeted drug delivery and imaging.
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Affiliation(s)
- Nicolas Alcaraz
- Drug Delivery, Disposition and Dynamics, Monash Institute of Pharmaceutical Science, Monash University , Parkville, VIC 3052, Australia.,ARC Centre of Excellence in Convergent Bio-Nano Science and Technology, Monash Institute of Pharmaceutical Sciences , Parkville, VIC 3052, Australia
| | - Qingtao Liu
- Drug Delivery, Disposition and Dynamics, Monash Institute of Pharmaceutical Science, Monash University , Parkville, VIC 3052, Australia.,ARC Centre of Excellence in Convergent Bio-Nano Science and Technology, Monash Institute of Pharmaceutical Sciences , Parkville, VIC 3052, Australia
| | - Eric Hanssen
- Advanced Microscopy Unit, Bio21 Molecular Science and Biotechnology Institute, University of Melbourne , Parkville, VIC 3052, Australia
| | - Angus Johnston
- Drug Delivery, Disposition and Dynamics, Monash Institute of Pharmaceutical Science, Monash University , Parkville, VIC 3052, Australia.,ARC Centre of Excellence in Convergent Bio-Nano Science and Technology, Monash Institute of Pharmaceutical Sciences , Parkville, VIC 3052, Australia
| | - Ben J Boyd
- Drug Delivery, Disposition and Dynamics, Monash Institute of Pharmaceutical Science, Monash University , Parkville, VIC 3052, Australia.,ARC Centre of Excellence in Convergent Bio-Nano Science and Technology, Monash Institute of Pharmaceutical Sciences , Parkville, VIC 3052, Australia
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75
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Elliott TS, Bianco A, Townsley FM, Fried SD, Chin JW. Tagging and Enriching Proteins Enables Cell-Specific Proteomics. Cell Chem Biol 2017; 23:805-815. [PMID: 27447048 PMCID: PMC4959846 DOI: 10.1016/j.chembiol.2016.05.018] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/23/2016] [Revised: 05/13/2016] [Accepted: 05/23/2016] [Indexed: 01/01/2023]
Abstract
Cell-specific proteomics in multicellular systems and whole animals is a promising approach to understand the differentiated functions of cells and tissues. Here, we extend our stochastic orthogonal recoding of translation (SORT) approach for the co-translational tagging of proteomes with a cyclopropene-containing amino acid in response to diverse codons in genetically targeted cells, and create a tetrazine-biotin probe containing a cleavable linker that offers a way to enrich and identify tagged proteins. We demonstrate that SORT with enrichment, SORT-E, efficiently recovers and enriches SORT tagged proteins and enables specific identification of enriched proteins via mass spectrometry, including low-abundance proteins. We show that tagging at distinct codons enriches overlapping, but distinct sets of proteins, suggesting that tagging at more than one codon enhances proteome coverage. Using SORT-E, we accomplish cell-specific proteomics in the fly. These results suggest that SORT-E will enable the definition of cell-specific proteomes in animals during development, disease progression, and learning and memory. A tetrazine-biotin probe containing a cleavable linker was created Proteomes labeled with cyclopropene amino acids were enriched and identified Proteome coverage is increased by targeting the amino acids to multiple codons Cell-specific proteomics was accomplished in the fly
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Affiliation(s)
- Thomas S Elliott
- Medical Research Council Laboratory of Molecular Biology, Francis Crick Avenue, Cambridge CB2 0QH, UK
| | - Ambra Bianco
- Medical Research Council Laboratory of Molecular Biology, Francis Crick Avenue, Cambridge CB2 0QH, UK
| | - Fiona M Townsley
- Medical Research Council Laboratory of Molecular Biology, Francis Crick Avenue, Cambridge CB2 0QH, UK
| | - Stephen D Fried
- Medical Research Council Laboratory of Molecular Biology, Francis Crick Avenue, Cambridge CB2 0QH, UK
| | - Jason W Chin
- Medical Research Council Laboratory of Molecular Biology, Francis Crick Avenue, Cambridge CB2 0QH, UK.
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76
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Ovryn B, Li J, Hong S, Wu P. Visualizing glycans on single cells and tissues-Visualizing glycans on single cells and tissues. Curr Opin Chem Biol 2017; 39:39-45. [PMID: 28578260 PMCID: PMC5791903 DOI: 10.1016/j.cbpa.2017.04.018] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/31/2017] [Revised: 04/16/2017] [Accepted: 04/25/2017] [Indexed: 10/19/2022]
Abstract
Metabolic oligosaccharide engineering and chemoenzymatic glycan labeling have provided powerful tools to study glycans in living systems and tissue samples. In this review article, we summarize recent advances in this field with a focus on innovative approaches for glycan imaging. The presented applications demonstrate that several of the leading imaging methods, which have revolutionized quantitative cell biology, can be adapted to imaging glycans on single cells and tissues.
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Affiliation(s)
- Ben Ovryn
- Department of Molecular Medicine, The Scripps Research Institute, 10550 N Torrey Pines Rd, La Jolla, CA 92037, United States.
| | - Jie Li
- Department of Molecular Medicine, The Scripps Research Institute, 10550 N Torrey Pines Rd, La Jolla, CA 92037, United States
| | - Senlian Hong
- Department of Molecular Medicine, The Scripps Research Institute, 10550 N Torrey Pines Rd, La Jolla, CA 92037, United States
| | - Peng Wu
- Department of Molecular Medicine, The Scripps Research Institute, 10550 N Torrey Pines Rd, La Jolla, CA 92037, United States.
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77
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Stuhr‐Hansen N, Vagianou C, Blixt O. Synthesis of BODIPY‐Labeled Cholesterylated Glycopeptides by Tandem Click Chemistry for Glycocalyxification of Giant Unilamellar Vesicles (GUVs). Chemistry 2017; 23:9472-9476. [DOI: 10.1002/chem.201702104] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/11/2017] [Indexed: 11/06/2022]
Affiliation(s)
- Nicolai Stuhr‐Hansen
- Department of Chemistry, Chemical BiologyUniversity of Copenhagen Thorvaldsensvej 40 1871 Frederiksberg C Denmark
| | - Charikleia‐Despoina Vagianou
- Department of Chemistry, Chemical BiologyUniversity of Copenhagen Thorvaldsensvej 40 1871 Frederiksberg C Denmark
| | - Ola Blixt
- Department of Chemistry, Chemical BiologyUniversity of Copenhagen Thorvaldsensvej 40 1871 Frederiksberg C Denmark
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78
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Abstract
The formation of well-defined protein bioconjugates is critical for many studies and technologies in chemical biology. Tried-and-true methods for accomplishing this typically involve the targeting of cysteine residues, but the rapid growth of contemporary bioconjugate applications has required an expanded repertoire of modification techniques. One very powerful set of strategies involves the modification of proteins at their N termini, as these positions are typically solvent exposed and provide chemically distinct sites for many protein targets. Several chemical techniques can be used to modify N-terminal amino acids directly or convert them into unique functional groups for further ligations. A growing number of N-terminus-specific enzymatic ligation strategies have provided additional possibilities. This Perspective provides an overview of N-terminal modification techniques and the chemical rationale governing each. Examples of specific N-terminal protein conjugates are provided, along with their uses in a number of diverse biological applications.
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79
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Khajuria DK, Kumar VB, Karasik D, Gedanken A. Fluorescent Nanoparticles with Tissue-Dependent Affinity for Live Zebrafish Imaging. ACS APPLIED MATERIALS & INTERFACES 2017; 9:18557-18565. [PMID: 28503921 DOI: 10.1021/acsami.7b04668] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Abstract
Carbon quantum dots (CDs) are widely investigated because of their low toxicity, outstanding water solubility, and high biocompatibility. Specifically, fluorescent CDs have attracted ever-increasing interest. However, so far, only a few studies have focused on assessing the fluorescence of nitrogen-doped CDs (N@CDs) during in vivo exposure. Here, we describe a strategy for low-cost, one-pot synthesis of N@CDs. The low toxicity and suitability of the N@CDs for fluorescence imaging are validated using zebrafish (ZF) as a model. Strong fluorescence emission from ZF embryos and larvae confirms the distribution of N@CDs in ZF. The retention of N@CDs is very stable, long lasting, and with no detectable toxicity. The presence of a strong fluorescence at the yolk sac, especially in the vicinity of the intestine, suggests that a high content of N@CDs entered the digestive system. This indicates that N@CDs may have potential imaging applications in elucidating different aspects of lipoprotein and nutritional biology, in a ZF yolk lipid transport and metabolism model. On the other hand, the presence of a strong selective fluorescence at the eyes and melanophore strips at the trunk and tail region of ZF larvae suggests that N@CDs has a high melanin-binding affinity. These observations support a novel and revolutionary use of N@CDs as highly specific bioagents for eye and skin imaging and diagnosis of defects in them. N@CDs are known for their multifunctional applications as highly specific bioagents for various biomedical applications because of their exceptional biocompatibility, photostability, and selective affinity. These characteristics were validated in the developmental ZF model.
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Affiliation(s)
- Deepak Kumar Khajuria
- The Musculoskeletal Genetics Laboratory, Faculty of Medicine in the Galilee, The Musculoskeletal Genetics Laboratory, Bar-Ilan University , Safed 1311502, Israel
| | - Vijay Bhooshan Kumar
- Department of Chemistry, Bar-Ilan Institute for Nanotechnology and Advanced Materials, Bar-Ilan University , Ramat-Gan 5290002, Israel
| | - David Karasik
- The Musculoskeletal Genetics Laboratory, Faculty of Medicine in the Galilee, The Musculoskeletal Genetics Laboratory, Bar-Ilan University , Safed 1311502, Israel
| | - Aharon Gedanken
- Department of Chemistry, Bar-Ilan Institute for Nanotechnology and Advanced Materials, Bar-Ilan University , Ramat-Gan 5290002, Israel
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80
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Preston GM. Profiling the extended phenotype of plant pathogens: Challenges in Bacterial Molecular Plant Pathology. MOLECULAR PLANT PATHOLOGY 2017; 18:443-456. [PMID: 28026146 PMCID: PMC6638297 DOI: 10.1111/mpp.12530] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/28/2016] [Revised: 12/20/2016] [Accepted: 12/21/2016] [Indexed: 05/18/2023]
Abstract
One of the most fundamental questions in plant pathology is what determines whether a pathogen grows within a plant? This question is frequently studied in terms of the role of elicitors and pathogenicity factors in the triggering or overcoming of host defences. However, this focus fails to address the basic question of how the environment in host tissues acts to support or restrict pathogen growth. Efforts to understand this aspect of host-pathogen interactions are commonly confounded by several issues, including the complexity of the plant environment, the artificial nature of many experimental infection systems and the fact that the physiological properties of a pathogen growing in association with a plant can be very different from the properties of the pathogen in culture. It is also important to recognize that the phenotype and evolution of pathogen and host are inextricably linked through their interactions, such that the environment experienced by a pathogen within a host, and its phenotype within the host, is a product of both its interaction with its host and its evolutionary history, including its co-evolution with host plants. As the phenotypic properties of a pathogen within a host cannot be defined in isolation from the host, it may be appropriate to think of pathogens as having an 'extended phenotype' that is the product of their genotype, host interactions and population structure within the host environment. This article reflects on the challenge of defining and studying this extended phenotype, in relation to the questions posed below, and considers how knowledge of the phenotype of pathogens in the host environment could be used to improve disease control. What determines whether a pathogen grows within a plant? What aspects of pathogen biology should be considered in describing the extended phenotype of a pathogen within a host? How can we study the extended phenotype in ways that provide insights into the phenotypic properties of pathogens during natural infections?
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Affiliation(s)
- Gail M. Preston
- Department of Plant SciencesUniversity of OxfordSouth Parks RoadOxfordOX1 3RBUK
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81
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A two-photon fluorescent probe for biological Cu (Ⅱ) and PPi detection in aqueous solution and in vivo. Biosens Bioelectron 2017; 90:276-282. [DOI: 10.1016/j.bios.2016.11.069] [Citation(s) in RCA: 50] [Impact Index Per Article: 7.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/22/2016] [Revised: 11/17/2016] [Accepted: 11/29/2016] [Indexed: 01/09/2023]
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82
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Kozma E, Demeter O, Kele P. Bio-orthogonal Fluorescent Labelling of Biopolymers through Inverse-Electron-Demand Diels-Alder Reactions. Chembiochem 2017; 18:486-501. [PMID: 28070925 PMCID: PMC5363342 DOI: 10.1002/cbic.201600607] [Citation(s) in RCA: 43] [Impact Index Per Article: 6.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/11/2016] [Indexed: 02/06/2023]
Abstract
Bio-orthogonal labelling schemes based on inverse-electron-demand Diels-Alder (IEDDA) cycloaddition have attracted much attention in chemical biology recently. The appealing features of this reaction, such as the fast reaction kinetics, fully bio-orthogonal nature and high selectivity, have helped chemical biologists gain deeper understanding of biochemical processes at the molecular level. Listing the components and discussing the possibilities and limitations of these reagents, we provide a recent snapshot of the field of IEDDA-based biomolecular manipulation with special focus on fluorescent modulation approaches through the use of bio-orthogonalized building blocks. At the end, we discuss challenges that need to be addressed for further developments in order to overcome recent limitations and to enable researchers to answer biomolecular questions in more detail.
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Affiliation(s)
- Eszter Kozma
- Chemical Biology Research GroupInstitute of Organic ChemistryResearch Centre for Natural SciencesHungarian Academy of Sciences1117 Magyar tudósok krt. 2BudapestHungary
| | - Orsolya Demeter
- Chemical Biology Research GroupInstitute of Organic ChemistryResearch Centre for Natural SciencesHungarian Academy of Sciences1117 Magyar tudósok krt. 2BudapestHungary
| | - Péter Kele
- Chemical Biology Research GroupInstitute of Organic ChemistryResearch Centre for Natural SciencesHungarian Academy of Sciences1117 Magyar tudósok krt. 2BudapestHungary
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83
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Xu AM, Wang DS, Shieh P, Cao Y, Melosh NA. Direct Intracellular Delivery of Cell-Impermeable Probes of Protein Glycosylation by Using Nanostraws. Chembiochem 2017; 18:623-628. [PMID: 28130882 DOI: 10.1002/cbic.201600689] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/21/2016] [Indexed: 12/24/2022]
Abstract
Bioorthogonal chemistry is an effective tool for elucidating metabolic pathways and measuring cellular activity, yet its use is currently limited by the difficulty of getting probes past the cell membrane and into the cytoplasm, especially if more complex probes are desired. Here we present a simple and minimally perturbative technique to deliver functional probes of glycosylation into cells by using a nanostructured "nanostraw" delivery system. Nanostraws provide direct intracellular access to cells through fluid conduits that remain small enough to minimize cell perturbation. First, we demonstrate that our platform can deliver an unmodified azidosugar, N-azidoacetylmannosamine, into cells with similar effectiveness to a chemical modification strategy (peracetylation). We then show that the nanostraw platform enables direct delivery of an azidosugar modified with a charged uridine diphosphate group (UDP) that prevents intracellular penetration, thereby bypassing multiple enzymatic processing steps. By effectively removing the requirement for cell permeability from the probe, the nanostraws expand the toolbox of bioorthogonal probes that can be used to study biological processes on a single, easy-to-use platform.
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Affiliation(s)
- Alexander M Xu
- Department of Materials Science and Engineering, Stanford University, 476 Lomita Mall, Stanford, CA, 94305, USA.,Present address: Chemistry and Chemical Engineering Division, California Institute of Technology, 1200 E California Boulevard, Pasadena, CA, 91106, USA
| | - Derek S Wang
- Department of Materials Science and Engineering, Stanford University, 476 Lomita Mall, Stanford, CA, 94305, USA
| | - Peyton Shieh
- Department of Chemistry, Stanford University, 333 Campus Drive, Stanford, CA, 94305, USA
| | - Yuhong Cao
- Department of Materials Science and Engineering, Stanford University, 476 Lomita Mall, Stanford, CA, 94305, USA
| | - Nicholas A Melosh
- Department of Materials Science and Engineering, Stanford University, 476 Lomita Mall, Stanford, CA, 94305, USA
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84
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Xiao H, Wu R. Global and Site-Specific Analysis Revealing Unexpected and Extensive Protein S-GlcNAcylation in Human Cells. Anal Chem 2017; 89:3656-3663. [PMID: 28234450 DOI: 10.1021/acs.analchem.6b05064] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Abstract
Protein glycosylation is highly diverse and essential for mammalian cell survival. Heterogeneous glycans may be bound to different amino acid residues, forming multiple types of protein glycosylation. In this work, unexpected protein S-GlcNAcylation on cysteine residues was observed to extensively exist in human cells through global and site-specific analysis of protein GlcNAcylation by mass spectrometry. Three independent experiments produced similar results of many cysteine residues bound to N-acetylglucosamine (GlcNAc). Among well-localized S-GlcNAcylation sites, several motifs with an acidic amino acid around the sites were identified, which strongly suggests that a particular type of enzyme is responsible for this modification. Clustering results show that glycoproteins modified with S-GlcNAc are mainly involved in cell-cell adhesion and gene expression. For the first time, we found that proteins were extensively bound to GlcNAc through the side chains of cysteine residues in human cells, and the current discovery further advances our understanding of protein glycosylation.
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Affiliation(s)
- Haopeng Xiao
- School of Chemistry and Biochemistry and the Petit Institute for Bioengineering and Bioscience, Georgia Institute of Technology , Atlanta, Georgia 30332, United States
| | - Ronghu Wu
- School of Chemistry and Biochemistry and the Petit Institute for Bioengineering and Bioscience, Georgia Institute of Technology , Atlanta, Georgia 30332, United States
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85
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Li S, Wang L, Yu F, Zhu Z, Shobaki D, Chen H, Wang M, Wang J, Qin G, Erasquin UJ, Ren L, Wang Y, Cai C. Copper-Catalyzed Click Reaction on/in Live Cells. Chem Sci 2017; 8:2107-2114. [PMID: 28348729 PMCID: PMC5365239 DOI: 10.1039/c6sc02297a] [Citation(s) in RCA: 94] [Impact Index Per Article: 13.4] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/24/2016] [Accepted: 11/21/2016] [Indexed: 12/30/2022] Open
Abstract
We demonstrated that copper-catalyzed azide-alkyne cycloaddition (CuAAC) reaction could be performed inside live mammalian cells without using a chelating azide. Under optimized conditions, the reaction was performed in human ovary cancer cell line OVCAR5 in which newly synthesized proteins were metabolically modified with homopropargylglycine (HPG). This model system allowed us to estimate the efficiency of the reaction on the cell membranes and in the cytosol using mass spectrometry. We found that the reaction was greatly promoted by a tris(triazolylmethyl)amine CuI ligand tethering a cell-penetrating peptide. Uptake of the ligand, copper, and a biotin-tagged azide in the cells was determined to be 69 ± 2, 163 ± 3 and 1.3 ± 0.1 µM, respectively. After 10 minutes of reaction, the product yields on the membrane and cytosolic proteins were higher than 18% and 0.8%, respectively, while 75% cells remained viable. By reducing the biothiols in the system by scraping or treatment with N-ethylmalemide, the reaction yield on the cytosolic proteins was greatly improved to ~9% and ~14%, respectively, while the yield on the membrane proteins remained unchanged. The results indicate that out of many possibilities, deactivation of the current copper catalysts by biothiols is the major reason for the low yield of CuAAC reaction in the cytosol. Overall, we have improved the efficiency for CuAAC reaction on live cells by 3-fold. Despite the low yielding inside live cells, the products that strongly bind to the intracellular targets can be detected by mass spectrometry. Hence, the in situ CuAAC reaction can be potentially used for screening of cell-specific enzyme inhibitors or biomarkers containing 1,4-substituted 1,2,3-triazoles.
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Affiliation(s)
- Siheng Li
- Department of Chemistry , University of Houston , 4800 Calhoun Rd. , Houston , TX 77204 , USA .
| | - Lin Wang
- Department of Chemistry , University of Houston , 4800 Calhoun Rd. , Houston , TX 77204 , USA .
- College of Materials Science and Engineering , South China University of Technology , Guangzhou , 510640 , China
| | - Fei Yu
- Department of Chemistry , University of Houston , 4800 Calhoun Rd. , Houston , TX 77204 , USA .
| | - Zhiling Zhu
- Department of Chemistry , University of Houston , 4800 Calhoun Rd. , Houston , TX 77204 , USA .
| | - Dema Shobaki
- Department of Chemistry , University of Houston , 4800 Calhoun Rd. , Houston , TX 77204 , USA .
| | - Haoqing Chen
- Department of Chemistry , University of Houston , 4800 Calhoun Rd. , Houston , TX 77204 , USA .
| | - Mu Wang
- Department of Chemistry , University of Houston , 4800 Calhoun Rd. , Houston , TX 77204 , USA .
| | - Jun Wang
- Department of Chemistry , University of Houston , 4800 Calhoun Rd. , Houston , TX 77204 , USA .
| | - Guoting Qin
- Department of Chemistry , University of Houston , 4800 Calhoun Rd. , Houston , TX 77204 , USA .
| | - Uriel J. Erasquin
- Department of Chemistry , University of Houston , 4800 Calhoun Rd. , Houston , TX 77204 , USA .
| | - Li Ren
- College of Materials Science and Engineering , South China University of Technology , Guangzhou , 510640 , China
| | - Yingjun Wang
- College of Materials Science and Engineering , South China University of Technology , Guangzhou , 510640 , China
| | - Chengzhi Cai
- Department of Chemistry , University of Houston , 4800 Calhoun Rd. , Houston , TX 77204 , USA .
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86
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Wang J, Sheng L, Zhao H, Zhang X, Zhang S. Spatiotemporal fluorescence imaging of newly synthesized proteins in normal and cancerous cells with anticarcinogen modulation. Talanta 2017; 162:641-647. [DOI: 10.1016/j.talanta.2016.10.017] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/25/2016] [Revised: 09/26/2016] [Accepted: 10/02/2016] [Indexed: 11/25/2022]
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87
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Clavadetscher J, Hoffmann S, Lilienkampf A, Mackay L, Yusop RM, Rider SA, Mullins JJ, Bradley M. Copper Catalysis in Living Systems and In Situ Drug Synthesis. Angew Chem Int Ed Engl 2016. [DOI: 10.1002/ange.201609837] [Citation(s) in RCA: 38] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
Affiliation(s)
- Jessica Clavadetscher
- EaStCHEM School of Chemistry; University of Edinburgh; David Brewster Road EH9 3FJ Edinburgh UK
| | - Scott Hoffmann
- University of Edinburgh/BHF Centre for Cardiovascular Science; Queen's Medical Research Institute; 47 Little France Crescent EH16 4TJ Edinburgh UK
| | - Annamaria Lilienkampf
- EaStCHEM School of Chemistry; University of Edinburgh; David Brewster Road EH9 3FJ Edinburgh UK
| | - Logan Mackay
- EaStCHEM School of Chemistry; University of Edinburgh; David Brewster Road EH9 3FJ Edinburgh UK
| | - Rahimi M. Yusop
- School of Chemical Sciences and Food Technology; Faculty of Science and Technology; Universiti Kebangsaan Malaysia; 43600 Bangi Selangor Malaysia
| | - Sebastien A. Rider
- University of Edinburgh/BHF Centre for Cardiovascular Science; Queen's Medical Research Institute; 47 Little France Crescent EH16 4TJ Edinburgh UK
| | - John J. Mullins
- University of Edinburgh/BHF Centre for Cardiovascular Science; Queen's Medical Research Institute; 47 Little France Crescent EH16 4TJ Edinburgh UK
| | - Mark Bradley
- EaStCHEM School of Chemistry; University of Edinburgh; David Brewster Road EH9 3FJ Edinburgh UK
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88
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Clavadetscher J, Hoffmann S, Lilienkampf A, Mackay L, Yusop RM, Rider SA, Mullins JJ, Bradley M. Copper Catalysis in Living Systems and In Situ Drug Synthesis. Angew Chem Int Ed Engl 2016; 55:15662-15666. [PMID: 27860120 DOI: 10.1002/anie.201609837] [Citation(s) in RCA: 121] [Impact Index Per Article: 15.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/07/2016] [Revised: 10/20/2016] [Indexed: 01/23/2023]
Abstract
The copper-catalyzed azide-alkyne cycloaddition (CuAAC) reaction has proven to be a pivotal advance in chemical ligation strategies with applications ranging from polymer fabrication to bioconjugation. However, application in vivo has been limited by the inherent toxicity of the copper catalyst. Herein, we report the application of heterogeneous copper catalysts in azide-alkyne cycloaddition processes in biological systems ranging from cells to zebrafish, with reactions spanning from fluorophore activation to the first reported in situ generation of a triazole-containing anticancer agent from two benign components, opening up many new avenues of exploration for CuAAC chemistry.
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Affiliation(s)
- Jessica Clavadetscher
- EaStCHEM School of Chemistry, University of Edinburgh, David Brewster Road, EH9 3FJ, Edinburgh, UK
| | - Scott Hoffmann
- University of Edinburgh/BHF Centre for Cardiovascular Science, Queen's Medical Research Institute, 47 Little France Crescent, EH16 4TJ, Edinburgh, UK
| | - Annamaria Lilienkampf
- EaStCHEM School of Chemistry, University of Edinburgh, David Brewster Road, EH9 3FJ, Edinburgh, UK
| | - Logan Mackay
- EaStCHEM School of Chemistry, University of Edinburgh, David Brewster Road, EH9 3FJ, Edinburgh, UK
| | - Rahimi M Yusop
- School of Chemical Sciences and Food Technology, Faculty of Science and Technology, Universiti Kebangsaan Malaysia, 43600, Bangi, Selangor, Malaysia
| | - Sebastien A Rider
- University of Edinburgh/BHF Centre for Cardiovascular Science, Queen's Medical Research Institute, 47 Little France Crescent, EH16 4TJ, Edinburgh, UK
| | - John J Mullins
- University of Edinburgh/BHF Centre for Cardiovascular Science, Queen's Medical Research Institute, 47 Little France Crescent, EH16 4TJ, Edinburgh, UK
| | - Mark Bradley
- EaStCHEM School of Chemistry, University of Edinburgh, David Brewster Road, EH9 3FJ, Edinburgh, UK
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89
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Shim MK, Yoon HY, Ryu JH, Koo H, Lee S, Park JH, Kim JH, Lee S, Pomper MG, Kwon IC, Kim K. Cathepsin B-Specific Metabolic Precursor for In Vivo Tumor-Specific Fluorescence Imaging. Angew Chem Int Ed Engl 2016. [DOI: 10.1002/ange.201608504] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Affiliation(s)
- Man Kyu Shim
- Center for Theragnosis, Biomedical Research Institute; Korea Institute of Science and Technology; 5, Hwarang-ro 14-gil Seongbuk-gu Seoul 02792 Republic of Korea
- Department of Pharmacy, Graduate School; Kyung Hee University; 26, Kyungheedae-ro Dongdaemun-gu Seoul 02447 Republic of Korea
| | - Hong Yeol Yoon
- Center for Theragnosis, Biomedical Research Institute; Korea Institute of Science and Technology; 5, Hwarang-ro 14-gil Seongbuk-gu Seoul 02792 Republic of Korea
- School of Chemical Engineering; Sungkyunkwan University; 2066, Seobu-ro Jangan-gu Suwon 16419 Republic of Korea
| | - Ju Hee Ryu
- Center for Theragnosis, Biomedical Research Institute; Korea Institute of Science and Technology; 5, Hwarang-ro 14-gil Seongbuk-gu Seoul 02792 Republic of Korea
| | - Heebeom Koo
- Department of Medical Life Science, College of Medicine; The Catholic University of Korea; 222, Banpo-daero Seocho-gu Seoul 06591 Republic of Korea
| | - Sangmin Lee
- Center for Theragnosis, Biomedical Research Institute; Korea Institute of Science and Technology; 5, Hwarang-ro 14-gil Seongbuk-gu Seoul 02792 Republic of Korea
- The Russell H. Morgan Department of Radiology and Radiological Science; Johns Hopkins University School of Medicine; 601 N. Caroline Street Baltimore MD 21287 USA
| | - Jae Hyung Park
- School of Chemical Engineering; Sungkyunkwan University; 2066, Seobu-ro Jangan-gu Suwon 16419 Republic of Korea
| | - Jong-Ho Kim
- Department of Pharmacy, Graduate School; Kyung Hee University; 26, Kyungheedae-ro Dongdaemun-gu Seoul 02447 Republic of Korea
| | - Seulki Lee
- The Russell H. Morgan Department of Radiology and Radiological Science; Johns Hopkins University School of Medicine; 601 N. Caroline Street Baltimore MD 21287 USA
| | - Martin G. Pomper
- The Russell H. Morgan Department of Radiology and Radiological Science; Johns Hopkins University School of Medicine; 601 N. Caroline Street Baltimore MD 21287 USA
| | - Ick Chan Kwon
- Center for Theragnosis, Biomedical Research Institute; Korea Institute of Science and Technology; 5, Hwarang-ro 14-gil Seongbuk-gu Seoul 02792 Republic of Korea
- KU-KIST Graduate School of Converging Science and Technology; Korea University; 145 Anam-ro Seongbuk-gu Seoul 02841 Republic of Korea
| | - Kwangmeyung Kim
- Center for Theragnosis, Biomedical Research Institute; Korea Institute of Science and Technology; 5, Hwarang-ro 14-gil Seongbuk-gu Seoul 02792 Republic of Korea
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90
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Shim MK, Yoon HY, Ryu JH, Koo H, Lee S, Park JH, Kim J, Lee S, Pomper MG, Kwon IC, Kim K. Cathepsin B‐Specific Metabolic Precursor for In Vivo Tumor‐Specific Fluorescence Imaging. Angew Chem Int Ed Engl 2016; 55:14698-14703. [DOI: 10.1002/anie.201608504] [Citation(s) in RCA: 67] [Impact Index Per Article: 8.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2016] [Indexed: 01/08/2023]
Affiliation(s)
- Man Kyu Shim
- Center for Theragnosis, Biomedical Research Institute Korea Institute of Science and Technology 5, Hwarang-ro 14-gil Seongbuk-gu Seoul 02792 Republic of Korea
- Department of Pharmacy, Graduate School Kyung Hee University 26, Kyungheedae-ro Dongdaemun-gu Seoul 02447 Republic of Korea
| | - Hong Yeol Yoon
- Center for Theragnosis, Biomedical Research Institute Korea Institute of Science and Technology 5, Hwarang-ro 14-gil Seongbuk-gu Seoul 02792 Republic of Korea
- School of Chemical Engineering Sungkyunkwan University 2066, Seobu-ro Jangan-gu Suwon 16419 Republic of Korea
| | - Ju Hee Ryu
- Center for Theragnosis, Biomedical Research Institute Korea Institute of Science and Technology 5, Hwarang-ro 14-gil Seongbuk-gu Seoul 02792 Republic of Korea
| | - Heebeom Koo
- Department of Medical Life Science, College of Medicine The Catholic University of Korea 222, Banpo-daero Seocho-gu Seoul 06591 Republic of Korea
| | - Sangmin Lee
- Center for Theragnosis, Biomedical Research Institute Korea Institute of Science and Technology 5, Hwarang-ro 14-gil Seongbuk-gu Seoul 02792 Republic of Korea
- The Russell H. Morgan Department of Radiology and Radiological Science Johns Hopkins University School of Medicine 601 N. Caroline Street Baltimore MD 21287 USA
| | - Jae Hyung Park
- School of Chemical Engineering Sungkyunkwan University 2066, Seobu-ro Jangan-gu Suwon 16419 Republic of Korea
| | - Jong‐Ho Kim
- Department of Pharmacy, Graduate School Kyung Hee University 26, Kyungheedae-ro Dongdaemun-gu Seoul 02447 Republic of Korea
| | - Seulki Lee
- The Russell H. Morgan Department of Radiology and Radiological Science Johns Hopkins University School of Medicine 601 N. Caroline Street Baltimore MD 21287 USA
| | - Martin G. Pomper
- The Russell H. Morgan Department of Radiology and Radiological Science Johns Hopkins University School of Medicine 601 N. Caroline Street Baltimore MD 21287 USA
| | - Ick Chan Kwon
- Center for Theragnosis, Biomedical Research Institute Korea Institute of Science and Technology 5, Hwarang-ro 14-gil Seongbuk-gu Seoul 02792 Republic of Korea
- KU-KIST Graduate School of Converging Science and Technology Korea University 145 Anam-ro Seongbuk-gu Seoul 02841 Republic of Korea
| | - Kwangmeyung Kim
- Center for Theragnosis, Biomedical Research Institute Korea Institute of Science and Technology 5, Hwarang-ro 14-gil Seongbuk-gu Seoul 02792 Republic of Korea
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91
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Saliba RC, Pohl NL. Designing sugar mimetics: non-natural pyranosides as innovative chemical tools. Curr Opin Chem Biol 2016; 34:127-134. [PMID: 27621102 DOI: 10.1016/j.cbpa.2016.08.027] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/03/2016] [Revised: 08/25/2016] [Accepted: 08/29/2016] [Indexed: 12/15/2022]
Abstract
The importance of oligosaccharides in myriad biological processes is becoming increasingly clear. However, these carbohydrate-mediated processes are often challenging to dissect due to the often poor affinity, stability and selectivity of the oligosaccharides involved. To circumvent these issues, non-natural carbohydrates-carbohydrate mimics-are being designed as innovative tools to modify biomolecules of interest or to understand biological pathways using fluorescence microscopy, X-ray or nuclear magnetic resonance spectroscopy (NMR). This review focuses on key examples of recently developed non-natural sugars to answer specific biological needs.
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Affiliation(s)
- Regis C Saliba
- Department of Chemistry, Indiana University, Bloomington, IN 47401, United States.
| | - Nicola Lb Pohl
- Department of Chemistry, Indiana University, Bloomington, IN 47401, United States.
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92
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Wu H, Alexander SC, Jin S, Devaraj NK. A Bioorthogonal Near-Infrared Fluorogenic Probe for mRNA Detection. J Am Chem Soc 2016; 138:11429-32. [PMID: 27510580 DOI: 10.1021/jacs.6b01625] [Citation(s) in RCA: 149] [Impact Index Per Article: 18.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Abstract
There is significant interest in developing methods that visualize and detect RNA. Bioorthogonal template-driven tetrazine ligations could be a powerful route to visualizing nucleic acids in native cells, yet past work has been limited with respect to the diversity of fluorogens that can be activated via a tetrazine reaction. Herein we report a novel bioorthogonal tetrazine uncaging reaction that harnesses tetrazine reactivity to unmask vinyl ether caged fluorophores spanning the visible spectrum, including a near-infrared (NIR)-emitting cyanine dye. Vinyl ether caged fluorophores and tetrazine partners are conjugated to high-affinity antisense nucleic acid probes, which show highly selective fluorogenic reactivity when annealed to their respective target RNA sequences. A target sequence in the 3' untranslated region of an expressed mRNA was detected in live cells employing appropriate nucleic acid probes bearing a tetrazine-reactive NIR fluorogen. Given the expansion of tetrazine fluorogenic chemistry to NIR dyes, we believe highly selective proximity-induced fluorogenic tetrazine reactions could find broad uses in illuminating endogenous biomolecules in cells and tissues.
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Affiliation(s)
- Haoxing Wu
- Department of Chemistry and Biochemistry, University of California, San Diego , La Jolla, California 92093, United States
| | - Seth C Alexander
- Department of Chemistry and Biochemistry, University of California, San Diego , La Jolla, California 92093, United States
| | - Shuaijiang Jin
- Department of Chemistry and Biochemistry, University of California, San Diego , La Jolla, California 92093, United States
| | - Neal K Devaraj
- Department of Chemistry and Biochemistry, University of California, San Diego , La Jolla, California 92093, United States
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93
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Zhang X, Li R, Chen Y, Zhang S, Wang W, Li F. Applying DNA rolling circle amplification in fluorescence imaging of cell surface glycans labeled by a metabolic method. Chem Sci 2016; 7:6182-6189. [PMID: 30034758 PMCID: PMC6024553 DOI: 10.1039/c6sc02089e] [Citation(s) in RCA: 43] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/12/2016] [Accepted: 06/08/2016] [Indexed: 12/16/2022] Open
Abstract
Glycans on the cell surfaces are essential for cellular communication. Metabolically labeling glycans can introduce unnatural sugars into cellular glycans, which can facilitate further labeling. We report herein imaging cell surface glycosylation by using click chemistry and DNA rolling circle amplification (RCA) to improve detection sensitivity. Through the RCA amplification, the image resolution of a cell was significantly improved and much fewer unnatural sugars were used than required previously. The advantage of this method is that it avoids introducing too much unnatural sugar, which can interfere with normal, physiological cell function. Simultaneously, the enhanced fluorescence intensity conveniently facilitates the detection of cells' own biosynthetic glycans by simply using a microplate reader. The results indicate that the metabolically labelling ability is different for different carbohydrates and different cells. Next, the RCA technique was adopted in a fluorescence resonance energy transfer (FRET)-based methodology that facilitated the glycan imaging of specific proteins on the cell surface. This method is broadly applicable to imaging the glycosylation of cellular proteins. Our results highlight the applications of RCA in metabolic glycan labeling, which can be used to monitor the glycosylation status on cells, and study the means by which glycosylation regulates cell function.
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Affiliation(s)
- Xiaoru Zhang
- Key Laboratory of Sensor Analysis of Tumor Marker , Ministry of Education , College of Chemistry and Molecular Engineering , Qingdao University of Science and Technology , Qingdao 266042 , P. R. China
| | - Ruijuan Li
- Key Laboratory of Sensor Analysis of Tumor Marker , Ministry of Education , College of Chemistry and Molecular Engineering , Qingdao University of Science and Technology , Qingdao 266042 , P. R. China
| | - Yuanyuan Chen
- Key Laboratory of Sensor Analysis of Tumor Marker , Ministry of Education , College of Chemistry and Molecular Engineering , Qingdao University of Science and Technology , Qingdao 266042 , P. R. China
| | - Shusheng Zhang
- Shandong Province Key Laboratory of Detection Technology for Tumor Makers , College of Chemistry and Chemical Engineering , Linyi University , Linyi 276000 , P. R. China .
| | - Wenshuang Wang
- National Glycoengineering Research Center and State Key Laboratory of Microbial Technology , Shandong University , Jinan 250100 , P. R. China .
| | - Fuchuan Li
- National Glycoengineering Research Center and State Key Laboratory of Microbial Technology , Shandong University , Jinan 250100 , P. R. China .
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94
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Yuan Y, Xu S, Cheng X, Cai X, Liu B. Bioorthogonal Turn-On Probe Based on Aggregation-Induced Emission Characteristics for Cancer Cell Imaging and Ablation. Angew Chem Int Ed Engl 2016; 55:6457-61. [DOI: 10.1002/anie.201601744] [Citation(s) in RCA: 146] [Impact Index Per Article: 18.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/18/2016] [Indexed: 11/12/2022]
Affiliation(s)
- Youyong Yuan
- Department of Chemical and Biomolecular Engineering; National University of Singapore; 4 Engineering Drive 4 Singapore 117585 Singapore
| | - Shidang Xu
- Department of Chemical and Biomolecular Engineering; National University of Singapore; 4 Engineering Drive 4 Singapore 117585 Singapore
| | - Xiamin Cheng
- Department of Chemical and Biomolecular Engineering; National University of Singapore; 4 Engineering Drive 4 Singapore 117585 Singapore
| | - Xiaolei Cai
- Department of Chemical and Biomolecular Engineering; National University of Singapore; 4 Engineering Drive 4 Singapore 117585 Singapore
| | - Bin Liu
- Department of Chemical and Biomolecular Engineering; National University of Singapore; 4 Engineering Drive 4 Singapore 117585 Singapore
- Institute of Materials Research and Engineering; Agency for Science, Technology and Research (A*STAR); 3 Research Link Singapore 117602 Singapore
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95
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Yuan Y, Xu S, Cheng X, Cai X, Liu B. Bioorthogonal Turn-On Probe Based on Aggregation-Induced Emission Characteristics for Cancer Cell Imaging and Ablation. Angew Chem Int Ed Engl 2016. [DOI: 10.1002/ange.201601744] [Citation(s) in RCA: 36] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Affiliation(s)
- Youyong Yuan
- Department of Chemical and Biomolecular Engineering; National University of Singapore; 4 Engineering Drive 4 Singapore 117585 Singapore
| | - Shidang Xu
- Department of Chemical and Biomolecular Engineering; National University of Singapore; 4 Engineering Drive 4 Singapore 117585 Singapore
| | - Xiamin Cheng
- Department of Chemical and Biomolecular Engineering; National University of Singapore; 4 Engineering Drive 4 Singapore 117585 Singapore
| | - Xiaolei Cai
- Department of Chemical and Biomolecular Engineering; National University of Singapore; 4 Engineering Drive 4 Singapore 117585 Singapore
| | - Bin Liu
- Department of Chemical and Biomolecular Engineering; National University of Singapore; 4 Engineering Drive 4 Singapore 117585 Singapore
- Institute of Materials Research and Engineering; Agency for Science, Technology and Research (A*STAR); 3 Research Link Singapore 117602 Singapore
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96
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Hapuarachchige S, Kato Y, Artemov D. Bioorthogonal two-component drug delivery in HER2(+) breast cancer mouse models. Sci Rep 2016; 6:24298. [PMID: 27068794 PMCID: PMC4828666 DOI: 10.1038/srep24298] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/18/2016] [Accepted: 03/24/2016] [Indexed: 12/20/2022] Open
Abstract
The HER2 receptor is overexpressed in approximately 20% of breast cancers and is associated with tumorigenesis, metastasis, and a poor prognosis. Trastuzumab is a first-line targeted drug used against HER2(+) breast cancers; however, at least 50% of HER2(+) tumors develop resistance to trastuzumab. To treat these patients, trastuzumab-based antibody-drug conjugates (ACDs) have been developed and are currently used in the clinic. Despite their high efficacy, the long circulation half-life and non-specific binding of cytotoxic ADCs can result in systemic toxicity. In addition, standard ADCs do not provide an image-guided mode of administration. Here, we have developed a two-component, two-step, pre-targeting drug delivery system integrated with image guidance to circumvent these issues. In this strategy, HER2 receptors are pre-labeled with a functionalized trastuzumab antibody followed by the delivery of drug-loaded nanocarriers. Both components are cross-linked by multiple bioorthogonal click reactions in situ on the surface of the target cell and internalized as nanoclusters. We have explored the efficacy of this delivery strategy in HER2(+) human breast cancer models. Our therapeutic study confirms the high therapeutic efficacy of the new delivery system, with no significant toxicity.
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Affiliation(s)
- Sudath Hapuarachchige
- Division of Cancer Imaging Research, Department of Radiology and Radiological Science, The Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA
| | - Yoshinori Kato
- Division of Cancer Imaging Research, Department of Radiology and Radiological Science, The Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA.,Department of Oncology, The Sidney Kimmel Comprehensive Cancer Center, The Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA.,Hoshi University School of Pharmacy and Pharmaceutical Sciences, Life Science Tokyo Advanced Research Center (L-StaR), Shinagawa-ku, Tokyo 142-8501, JAPAN
| | - Dmitri Artemov
- Division of Cancer Imaging Research, Department of Radiology and Radiological Science, The Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA.,Department of Oncology, The Sidney Kimmel Comprehensive Cancer Center, The Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA
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97
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Nischan N, Kohler JJ. Advances in cell surface glycoengineering reveal biological function. Glycobiology 2016; 26:789-96. [PMID: 27066802 DOI: 10.1093/glycob/cww045] [Citation(s) in RCA: 32] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/20/2016] [Accepted: 04/04/2016] [Indexed: 12/31/2022] Open
Abstract
Cell surface glycans are critical mediators of cell-cell, cell-ligand, and cell-pathogen interactions. By controlling the set of glycans displayed on the surface of a cell, it is possible to gain insight into the biological functions of glycans. Moreover, control of glycan expression can be used to direct cellular behavior. While genetic approaches to manipulate glycosyltransferase gene expression are available, their utility in glycan engineering has limitations due to the combinatorial nature of glycan biosynthesis and the functional redundancy of glycosyltransferase genes. Biochemical and chemical strategies offer valuable complements to these genetic approaches, notably by enabling introduction of unnatural functionalities, such as fluorophores, into cell surface glycans. Here, we describe some of the most recent developments in glycoengineering of cell surfaces, with an emphasis on strategies that employ novel chemical reagents. We highlight key examples of how these advances in cell surface glycan engineering enable study of cell surface glycans and their function. Exciting new technologies include synthetic lipid-glycans, new chemical reporters for metabolic oligosaccharide engineering to allow tandem and in vivo labeling of glycans, improved chemical and enzymatic methods for glycoproteomics, and metabolic glycosyltransferase inhibitors. Many chemical and biochemical reagents for glycan engineering are commercially available, facilitating their adoption by the biological community.
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Affiliation(s)
- Nicole Nischan
- Department of Biochemistry, University of Texas Southwestern Medical Center, Dallas, TX 75390, USA
| | - Jennifer J Kohler
- Department of Biochemistry, University of Texas Southwestern Medical Center, Dallas, TX 75390, USA
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98
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Spears RJ, Fascione MA. Site-selective incorporation and ligation of protein aldehydes. Org Biomol Chem 2016; 14:7622-38. [DOI: 10.1039/c6ob00778c] [Citation(s) in RCA: 69] [Impact Index Per Article: 8.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Abstract
The incorporation of aldehyde handles into proteins, and subsequent chemical reactions thereof, is rapidly proving to be an effective way of generating homogeneous, covalently linked protein constructs that can display a vast array of functionality.
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99
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Nagatsugi F. Development of the Strategy for Chemical Modifications to Nucleic Acids. J SYN ORG CHEM JPN 2016. [DOI: 10.5059/yukigoseikyokaishi.74.494] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- Fumi Nagatsugi
- Institute of Multidisciplinary Research for Advanced Materials, Tohoku University
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100
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Lai S, Mao W, Song H, Xia L, Xie H. A biocompatible inverse electron demand Diels–Alder reaction of aldehyde and tetrazine promoted by proline. NEW J CHEM 2016. [DOI: 10.1039/c6nj01567k] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A biocompatible inverse electron demand Diels–Alder reaction of aldehyde and tetrazine mediated by l-proline is disclosed, with apparent k2 up to 13.8 M−1 s−1.
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Affiliation(s)
- Shuiqin Lai
- State Key Laboratory of Bioreactor Engineering
- Shanghai Key Laboratory of New Drug Design
- School of Pharmacy
- East China University of Science and Technology
- Shanghai 200237
| | - Wuyu Mao
- State Key Laboratory of Bioreactor Engineering
- Shanghai Key Laboratory of New Drug Design
- School of Pharmacy
- East China University of Science and Technology
- Shanghai 200237
| | - Heng Song
- State Key Laboratory of Bioreactor Engineering
- Shanghai Key Laboratory of New Drug Design
- School of Pharmacy
- East China University of Science and Technology
- Shanghai 200237
| | - Lingying Xia
- State Key Laboratory of Bioreactor Engineering
- Shanghai Key Laboratory of New Drug Design
- School of Pharmacy
- East China University of Science and Technology
- Shanghai 200237
| | - Hexin Xie
- State Key Laboratory of Bioreactor Engineering
- Shanghai Key Laboratory of New Drug Design
- School of Pharmacy
- East China University of Science and Technology
- Shanghai 200237
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