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Sun J, Huang Z, Du Y, Lv P, Fan X, Dai P, Chen X. Metabolic Glycan Labeling in Primary Neurons Enabled by Unnatural Sugars with No S-Glyco-Modification. ACS Chem Biol 2023; 18:1416-1424. [PMID: 37253229 DOI: 10.1021/acschembio.3c00152] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/01/2023]
Abstract
It is of great interest to probe glycosylation in primary neuron cultures. However, per-O-acetylated clickable unnatural sugars, which have been routinely utilized in metabolic glycan labeling (MGL) for analyzing glycans, showed cytotoxicity to cultured primary neurons and thus led to the speculation that MGL was not compatible with primary neuron cell cultures. Here, we uncovered that neuron cytotoxicity of per-O-acetylated unnatural sugars was related to their reactions with protein cysteines via non-enzymatic S-glyco-modification. The modified proteins were enriched in biological functions related to microtubule cytoskeleton organization, positive regulation of axon extension, neuron projection development, and axonogenesis. We thus established MGL in cultured primary neurons without cytotoxicity using S-glyco-modification-free unnatural sugars including ManNAz, 1,3-Pr2ManNAz, and 1,6-Pr2ManNAz, which allowed for visualization of cell-surface sialylated glycans, probing the dynamics of sialylation, and large-scale identification of sialylated N-linked glycoproteins and the modification sites in primary neurons. Particularly, a total of 505 sialylated N-glycosylation sites distributed on 345 glycoproteins were identified by 1,6-Pr2ManNAz.
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Affiliation(s)
- Jiayu Sun
- College of Chemistry and Molecular Engineering, Peking University, Beijing 100871, China
- Beijing National Laboratory for Molecular Sciences, Peking University, Beijing 100871, China
| | - Zhimin Huang
- College of Chemistry and Molecular Engineering, Peking University, Beijing 100871, China
- Peking-Tsinghua Center for Life Sciences, Peking University, Beijing 100871, China
| | - Yifei Du
- College of Chemistry and Molecular Engineering, Peking University, Beijing 100871, China
- Peking-Tsinghua Center for Life Sciences, Peking University, Beijing 100871, China
| | - Pinou Lv
- College of Chemistry and Molecular Engineering, Peking University, Beijing 100871, China
- Peking-Tsinghua Center for Life Sciences, Peking University, Beijing 100871, China
| | - Xinqi Fan
- College of Chemistry and Molecular Engineering, Peking University, Beijing 100871, China
- Peking-Tsinghua Center for Life Sciences, Peking University, Beijing 100871, China
| | - Peng Dai
- College of Chemistry and Molecular Engineering, Peking University, Beijing 100871, China
- Beijing National Laboratory for Molecular Sciences, Peking University, Beijing 100871, China
- Synthetic and Functional Biomolecules Center, Peking University, Beijing 100871, China
- Key Laboratory of Bioorganic Chemistry and Molecular Engineering of Ministry of Education, Peking University, Beijing 100871, China
| | - Xing Chen
- College of Chemistry and Molecular Engineering, Peking University, Beijing 100871, China
- Beijing National Laboratory for Molecular Sciences, Peking University, Beijing 100871, China
- Peking-Tsinghua Center for Life Sciences, Peking University, Beijing 100871, China
- Synthetic and Functional Biomolecules Center, Peking University, Beijing 100871, China
- Key Laboratory of Bioorganic Chemistry and Molecular Engineering of Ministry of Education, Peking University, Beijing 100871, China
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2
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Mani KS, Rajamanikandan R, Ilanchelian M, Muralidharan N, Jothi M, Rajendran SP. Smart phone assisted quinoline-hemicyanine based fluorescent probe for the selective detection of glutathione and the application in living cells. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2020; 243:118809. [PMID: 32810776 DOI: 10.1016/j.saa.2020.118809] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/25/2020] [Revised: 07/22/2020] [Accepted: 08/02/2020] [Indexed: 06/11/2023]
Abstract
Quinoline appended hemicyanine 6MIM with strong ICT character was successfully synthesized through simple condensation reaction of 6-methoxy-2-chloro-3-formyl quinoline with 2-benzothiazolinium iodide. The photophysical characteristics of synthesized probe revealed that it would selectively detect glutathione (GSH) when it compared with different amino acids including biothiols and the detection limit is found to be 100 nM. The turn off sensor is due to thiol-halogen SNAr nucleophilic substitution between 6MIM and thiol group in glutathione. More importantly, the biosensor 6MIM was effectively applied in the fluorescence bioimaging of GSH in living cells with low cell toxicity. The colorimetric detectable color change of 6MIM-GSH has been effectively integrated with smartphone assisted RGB color value application with lowest detection value of 120 nM.
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Affiliation(s)
- Kailasam Saravana Mani
- Department of Chemistry, Bharathiar University, Coimbatore, Tamil Nadu, India; Department of Chemistry, Karpagam Academy of Higher Education, Coimbatore, Tamil Nadu, India.
| | | | | | - Narenkumar Muralidharan
- Department of Human Genetics, National Institute of Mental Health and Neurosciences (NIMHANS), Bengaluru, India
| | - Mathivanan Jothi
- Department of Human Genetics, National Institute of Mental Health and Neurosciences (NIMHANS), Bengaluru, India.
| | - Subramaniam Parameswaran Rajendran
- Department of Chemistry, Bharathiar University, Coimbatore, Tamil Nadu, India; Department of Chemistry, Karpagam Academy of Higher Education, Coimbatore, Tamil Nadu, India
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3
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Ganz D, Harijan D, Wagenknecht HA. Labelling of DNA and RNA in the cellular environment by means of bioorthogonal cycloaddition chemistry. RSC Chem Biol 2020; 1:86-97. [PMID: 34458750 PMCID: PMC8341813 DOI: 10.1039/d0cb00047g] [Citation(s) in RCA: 41] [Impact Index Per Article: 10.3] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/16/2020] [Accepted: 05/27/2020] [Indexed: 12/18/2022] Open
Abstract
Labelling of nucleic acids as biologically important cellular components is a crucial prerequisite for the visualization and understanding of biological processes. Efficient bioorthogonal chemistry and in particular cycloadditions fullfill the requirements for cellular applications. The broadly applied Cu(i)-catalyzed azide-alkyne cycloaddition (CuAAC), however, is limited to labellings in vitro and in fixed cells due to the cytotoxicity of copper salts. Currently, there are three types of copper-free cycloadditions used for nucleic acid labelling in the cellular environment: (i) the ring-strain promoted azide-alkyne cycloaddition (SPAAC), (ii) the "photoclick" 1,3-dipolar cycloadditions, and (iii) the Diels-Alder reactions with inverse electron demand (iEDDA). We review only those building blocks for chemical synthesis on solid phase of DNA and RNA and for enzymatic DNA and RNA preparation, which were applied for labelling of DNA and RNA in situ or in vivo, i.e. in the cellular environment, in fixed or in living cells, by the use of bioorthogonal cycloaddition chemistry. Additionally, we review the current status of orthogonal dual and triple labelling of DNA and RNA in vitro to demonstrate their potential for future applications in situ or in vivo.
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Affiliation(s)
- Dorothée Ganz
- Institute of Organic Chemistry, Karlsruhe Institute of Technology (KIT) Fritz-Haber-Weg 6 76131 Karlsruhe Germany
| | - Dennis Harijan
- Institute of Organic Chemistry, Karlsruhe Institute of Technology (KIT) Fritz-Haber-Weg 6 76131 Karlsruhe Germany
| | - Hans-Achim Wagenknecht
- Institute of Organic Chemistry, Karlsruhe Institute of Technology (KIT) Fritz-Haber-Weg 6 76131 Karlsruhe Germany
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4
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Krell K, Harijan D, Ganz D, Doll L, Wagenknecht HA. Postsynthetic Modifications of DNA and RNA by Means of Copper-Free Cycloadditions as Bioorthogonal Reactions. Bioconjug Chem 2020; 31:990-1011. [DOI: 10.1021/acs.bioconjchem.0c00072] [Citation(s) in RCA: 29] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Affiliation(s)
- Katja Krell
- Karlsruhe Institute of Technology (KIT), Institute for Organic Chemistry, Fritz-Haber-Weg 6, 76131 Karlsruhe, Germany
| | - Dennis Harijan
- Karlsruhe Institute of Technology (KIT), Institute for Organic Chemistry, Fritz-Haber-Weg 6, 76131 Karlsruhe, Germany
| | - Dorothée Ganz
- Karlsruhe Institute of Technology (KIT), Institute for Organic Chemistry, Fritz-Haber-Weg 6, 76131 Karlsruhe, Germany
| | - Larissa Doll
- Karlsruhe Institute of Technology (KIT), Institute for Organic Chemistry, Fritz-Haber-Weg 6, 76131 Karlsruhe, Germany
| | - Hans-Achim Wagenknecht
- Karlsruhe Institute of Technology (KIT), Institute for Organic Chemistry, Fritz-Haber-Weg 6, 76131 Karlsruhe, Germany
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5
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Sulfur and nitrogen doped carbon quantum dots for detection of glutathione and reduction of cellular nitric oxide in microglial cells. JOURNAL OF PHARMACEUTICAL INVESTIGATION 2020. [DOI: 10.1007/s40005-019-00466-8] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
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6
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Ranieri AM, Caporale C, Fiorini V, Hubbard A, Rigby P, Stagni S, Watkin E, Ogden MI, Hackett MJ, Massi M. Complementary Approaches to Imaging Subcellular Lipid Architectures in Live Bacteria Using Phosphorescent Iridium Complexes and Raman Spectroscopy. Chemistry 2019; 25:10566-10570. [DOI: 10.1002/chem.201902023] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/03/2019] [Revised: 06/11/2019] [Indexed: 01/23/2023]
Affiliation(s)
- Anna Maria Ranieri
- Curtin Institute for Functional Molecules and Interfaces, and School of Molecular and Life SciencesCurtin University Bentley 6102 WA Australia
| | - Chiara Caporale
- Curtin Institute for Functional Molecules and Interfaces, and School of Molecular and Life SciencesCurtin University Bentley 6102 WA Australia
| | - Valentina Fiorini
- Department of Industrial Chemistry “Toso Montanari”University of Bologna, viale del Risorgimento4 40136 Bologna Italy
| | - Alysia Hubbard
- Centre for Microscopy, Characterisation and AnalysisThe University of Western Australia Perth 6009 WA Australia
| | - Paul Rigby
- Centre for Microscopy, Characterisation and AnalysisThe University of Western Australia Perth 6009 WA Australia
| | - Stefano Stagni
- Department of Industrial Chemistry “Toso Montanari”University of Bologna, viale del Risorgimento4 40136 Bologna Italy
| | - Elizabeth Watkin
- School of Pharmacy and Biomedical Sciences, Curtin Health Innovation Research InstituteCurtin University Kent Street Bentley 6102 Australia
| | - Mark I. Ogden
- Curtin Institute for Functional Molecules and Interfaces, and School of Molecular and Life SciencesCurtin University Bentley 6102 WA Australia
| | - Mark J. Hackett
- Curtin Institute for Functional Molecules and Interfaces, and School of Molecular and Life SciencesCurtin University Bentley 6102 WA Australia
| | - Massimiliano Massi
- Curtin Institute for Functional Molecules and Interfaces, and School of Molecular and Life SciencesCurtin University Bentley 6102 WA Australia
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7
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Nonaka H, Nakanishi Y, Kuno S, Ota T, Mochidome K, Saito Y, Sugihara F, Takakusagi Y, Aoki I, Nagatoishi S, Tsumoto K, Sando S. Design strategy for serine hydroxymethyltransferase probes based on retro-aldol-type reaction. Nat Commun 2019; 10:876. [PMID: 30787298 PMCID: PMC6382819 DOI: 10.1038/s41467-019-08833-7] [Citation(s) in RCA: 26] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/27/2018] [Accepted: 01/25/2019] [Indexed: 01/17/2023] Open
Abstract
Serine hydroxymethyltransferase (SHMT) is an enzyme that catalyzes the reaction that converts serine to glycine. It plays an important role in one-carbon metabolism. Recently, SHMT has been shown to be associated with various diseases. Therefore, SHMT has attracted attention as a biomarker and drug target. However, the development of molecular probes responsive to SHMT has not yet been realized. This is because SHMT catalyzes an essential yet simple reaction; thus, the substrates that can be accepted into the active site of SHMT are limited. Here, we focus on the SHMT-catalyzed retro-aldol reaction rather than the canonical serine-glycine conversion and succeed in developing fluorescent and 19F NMR molecular probes. Taking advantage of the facile and direct detection of SHMT, the developed fluorescent probe is used in the high-throughput screening for human SHMT inhibitors, and two hit compounds are obtained.
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Affiliation(s)
- Hiroshi Nonaka
- Department of Chemistry and Biotechnology, Graduate School of Engineering, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo, 113-8656, Japan.
| | - Yuki Nakanishi
- Department of Chemistry and Biotechnology, Graduate School of Engineering, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo, 113-8656, Japan
| | - Satoshi Kuno
- Department of Chemistry and Biotechnology, Graduate School of Engineering, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo, 113-8656, Japan
| | - Tomoki Ota
- Department of Chemistry and Biotechnology, Graduate School of Engineering, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo, 113-8656, Japan
| | - Kentaro Mochidome
- Department of Chemistry and Biotechnology, Graduate School of Engineering, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo, 113-8656, Japan
| | - Yutaro Saito
- Department of Chemistry and Biotechnology, Graduate School of Engineering, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo, 113-8656, Japan
| | - Fuminori Sugihara
- Core Instrumentation Facility, Immunology Frontier Research Center and Research Institute for Microbial Diseases, Osaka University, Osaka, 565-0871, Japan
| | - Yoichi Takakusagi
- National Institute of Radiological Sciences (NIRS), National Institutes for Quantum and Radiological Science and Technology (QST), Anagawa 4-9-1, Inage, Chiba-city, 263-8555, Japan
- Group of Quantum-state Controlled MRI, National Institutes for Quantum and Radiological Science and Technology (QST), Anagawa 4-9-1, Inage, Chiba-city, 263-8555, Japan
| | - Ichio Aoki
- National Institute of Radiological Sciences (NIRS), National Institutes for Quantum and Radiological Science and Technology (QST), Anagawa 4-9-1, Inage, Chiba-city, 263-8555, Japan
- Group of Quantum-state Controlled MRI, National Institutes for Quantum and Radiological Science and Technology (QST), Anagawa 4-9-1, Inage, Chiba-city, 263-8555, Japan
| | - Satoru Nagatoishi
- Medical Proteomics Laboratory, Institute of Medical Science, The University of Tokyo, 4-6-1, Shiroganedai, Minato-ku, Tokyo, 108-8639, Japan
- Department of Bioengineering, Graduate School of Engineering, The University of Tokyo, 7-3-1, Hongo, Bunkyo-ku, Tokyo, 113-8656, Japan
| | - Kouhei Tsumoto
- Medical Proteomics Laboratory, Institute of Medical Science, The University of Tokyo, 4-6-1, Shiroganedai, Minato-ku, Tokyo, 108-8639, Japan
- Department of Bioengineering, Graduate School of Engineering, The University of Tokyo, 7-3-1, Hongo, Bunkyo-ku, Tokyo, 113-8656, Japan
| | - Shinsuke Sando
- Department of Chemistry and Biotechnology, Graduate School of Engineering, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo, 113-8656, Japan.
- Department of Bioengineering, Graduate School of Engineering, The University of Tokyo, 7-3-1, Hongo, Bunkyo-ku, Tokyo, 113-8656, Japan.
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8
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Schwechheimer C, Doll L, Wagenknecht HA. Synthesis of Dye-Modified Oligonucleotides via Copper(I)-Catalyzed Alkyne Azide Cycloaddition Using On- and Off-Bead Approaches. ACTA ACUST UNITED AC 2019; 72:4.80.1-4.80.13. [PMID: 29927126 DOI: 10.1002/cpnc.47] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
Abstract
Fluorescence molecular imaging is widely used to visualize and observe different biomolecules, in particular DNA and RNA, in vivo and in real time. Typically, DNA strands are tagged with only one fluorophore, and, in the case of molecular beacons, an additional quencher is conjugated, which bears the risk of false-positive or false-negative results because only fluorescence intensities at one fluorescence wavelength (color) are compared. To address this drawback, the concept of "DNA/RNA traffic lights," which is characterized by a fluorescence color change due to energy transfer between two dyes, was developed by our working group. For these DNA and RNA systems, the oligonucleotides are post-synthetically labeled, specifically after solid-phase synthesis by chemical means, with a fluorescent dye using copper(I)-catalyzed cycloaddition at the 2' position of single uridines. In order to functionalize oligonucleotides with several different labels, an on-resin method is required to ensure the necessary selectivity. This unit describes two different CuAAC ("click") approaches-in solution (post-synthetic) and on solid phase (during synthesis)-for the attachment of fluorophores to the 2' position of DNA. © 2018 by John Wiley & Sons, Inc.
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Affiliation(s)
| | - Larissa Doll
- Institute of Organic Chemistry, Karlsruhe Institute of Technology, Karlsruhe, Germany
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9
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De Acha N, Elosúa C, Corres JM, Arregui FJ. Fluorescent Sensors for the Detection of Heavy Metal Ions in Aqueous Media. SENSORS 2019; 19:s19030599. [PMID: 30708989 PMCID: PMC6386841 DOI: 10.3390/s19030599] [Citation(s) in RCA: 112] [Impact Index Per Article: 22.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 12/21/2018] [Revised: 01/17/2019] [Accepted: 01/23/2019] [Indexed: 12/17/2022]
Abstract
Due to the risks that water contamination implies for human health and environmental protection, monitoring the quality of water is a major concern of the present era. Therefore, in recent years several efforts have been dedicated to the development of fast, sensitive, and selective sensors for the detection of heavy metal ions. In particular, fluorescent sensors have gained in popularity due to their interesting features, such as high specificity, sensitivity, and reversibility. Thus, this review is devoted to the recent advances in fluorescent sensors for the monitoring of these contaminants, and special focus is placed on those devices based on fluorescent aptasensors, quantum dots, and organic dyes.
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Affiliation(s)
- Nerea De Acha
- Department of Electric, Electronic and Communications Engineering, Public University of Navarra, E-31006 Pamplona, Spain.
| | - César Elosúa
- Department of Electric, Electronic and Communications Engineering, Public University of Navarra, E-31006 Pamplona, Spain.
- Institute of Smart Cities (ISC), Public University of Navarra, E-31006 Pamplona, Spain.
| | - Jesús M Corres
- Department of Electric, Electronic and Communications Engineering, Public University of Navarra, E-31006 Pamplona, Spain.
- Institute of Smart Cities (ISC), Public University of Navarra, E-31006 Pamplona, Spain.
| | - Francisco J Arregui
- Department of Electric, Electronic and Communications Engineering, Public University of Navarra, E-31006 Pamplona, Spain.
- Institute of Smart Cities (ISC), Public University of Navarra, E-31006 Pamplona, Spain.
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10
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Kardos J, Héja L, Simon Á, Jablonkai I, Kovács R, Jemnitz K. Copper signalling: causes and consequences. Cell Commun Signal 2018; 16:71. [PMID: 30348177 PMCID: PMC6198518 DOI: 10.1186/s12964-018-0277-3] [Citation(s) in RCA: 101] [Impact Index Per Article: 16.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/08/2018] [Accepted: 09/24/2018] [Indexed: 12/18/2022] Open
Abstract
Copper-containing enzymes perform fundamental functions by activating dioxygen (O2) and therefore allowing chemical energy-transfer for aerobic metabolism. The copper-dependence of O2 transport, metabolism and production of signalling molecules are supported by molecular systems that regulate and preserve tightly-bound static and weakly-bound dynamic cellular copper pools. Disruption of the reducing intracellular environment, characterized by glutathione shortage and ambient Cu(II) abundance drives oxidative stress and interferes with the bidirectional, copper-dependent communication between neurons and astrocytes, eventually leading to various brain disease forms. A deeper understanding of of the regulatory effects of copper on neuro-glia coupling via polyamine metabolism may reveal novel copper signalling functions and new directions for therapeutic intervention in brain disorders associated with aberrant copper metabolism.
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Affiliation(s)
- Julianna Kardos
- Functional Pharmacology Research Group, Institute of Organic Chemistry, Research Centre for Natural Sciences, Hungarian Academy of Sciences, Magyar Tudósok körútja 2, Budapest, 1117 Hungary
| | - László Héja
- Functional Pharmacology Research Group, Institute of Organic Chemistry, Research Centre for Natural Sciences, Hungarian Academy of Sciences, Magyar Tudósok körútja 2, Budapest, 1117 Hungary
| | - Ágnes Simon
- Functional Pharmacology Research Group, Institute of Organic Chemistry, Research Centre for Natural Sciences, Hungarian Academy of Sciences, Magyar Tudósok körútja 2, Budapest, 1117 Hungary
| | - István Jablonkai
- Functional Pharmacology Research Group, Institute of Organic Chemistry, Research Centre for Natural Sciences, Hungarian Academy of Sciences, Magyar Tudósok körútja 2, Budapest, 1117 Hungary
| | - Richard Kovács
- Institute of Neurophysiology, Charité-Universitätsmedizin, Berlin, Germany
| | - Katalin Jemnitz
- Functional Pharmacology Research Group, Institute of Organic Chemistry, Research Centre for Natural Sciences, Hungarian Academy of Sciences, Magyar Tudósok körútja 2, Budapest, 1117 Hungary
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11
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Schwechheimer C, Rönicke F, Schepers U, Wagenknecht HA. A new structure-activity relationship for cyanine dyes to improve photostability and fluorescence properties for live cell imaging. Chem Sci 2018; 9:6557-6563. [PMID: 30310587 PMCID: PMC6115680 DOI: 10.1039/c8sc01574k] [Citation(s) in RCA: 25] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/06/2018] [Accepted: 06/29/2018] [Indexed: 12/18/2022] Open
Abstract
A new set of cyanine-indole dyes was synthesized, characterized by optical and cytotoxic properties and subsequently applied for live cell imaging. Furthermore, these dyes were postsynthetically linked covalently to the 2'-position of uridine anchors in presynthesized oligonucleotides using the copper(i)-catalyzed azide-alkyne cycloaddition in order to evaluate their photostability and imaging properties in living cells. The nucleophilicity at position C-2 of the indole part of the dyes was elucidated as key for a new structure-activity relationship that served as a rational guide to improve the photostability and optical properties of these green-emitting dyes for live cell imaging of nucleic acids. While the photostability rises exponentially with decreasing nucleophilicity, thermal bleaching experiments confirmed an opposite trend supposing that the superoxide radical anion is mainly responsible for the photobleaching of the dyes. Furthermore, the cytotoxicities of the dyes were tested in HeLa cells and moderate to low LD50 values were obtained. This interdisciplinary strategy allowed us to identify one dye with excellent optical properties and even better photostability and decreased cytotoxicity compared to a cyanine-indole dye that bears an additional cyclooctatetraene group as a triplet state quencher.
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Affiliation(s)
- Christian Schwechheimer
- Institute of Organic Chemistry , Karlsruhe Institute of Technology (KIT) , Fritz-Haber-Weg 6 , 76131 Karlsruhe , Germany .
| | - Franziska Rönicke
- Institute of Organic Chemistry , Karlsruhe Institute of Technology (KIT) , Fritz-Haber-Weg 6 , 76131 Karlsruhe , Germany .
| | - Ute Schepers
- Institute of Toxicology and Genetics , Karlsruhe Institute of Technology (KIT) , Hermann-von-Helmholtz-Platz 1, 76344 Eggenstein-Leopoldshafen , Germany
| | - Hans-Achim Wagenknecht
- Institute of Organic Chemistry , Karlsruhe Institute of Technology (KIT) , Fritz-Haber-Weg 6 , 76131 Karlsruhe , Germany .
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12
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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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13
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Larsen D, Kietrys AM, Clark SA, Park HS, Ekebergh A, Kool ET. Exceptionally rapid oxime and hydrazone formation promoted by catalytic amine buffers with low toxicity. Chem Sci 2018; 9:5252-5259. [PMID: 29997880 PMCID: PMC6001384 DOI: 10.1039/c8sc01082j] [Citation(s) in RCA: 51] [Impact Index Per Article: 8.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/06/2018] [Accepted: 05/18/2018] [Indexed: 12/30/2022] Open
Abstract
Hydrazone and oxime bond formation between α-nucleophiles (e.g. hydrazines, alkoxy-amines) and carbonyl compounds (aldehydes and ketones) is convenient and is widely applied in multiple fields of research. While the reactants are simple, a substantial drawback is the relatively slow reaction at neutral pH. Here we describe a novel molecular strategy for accelerating these reactions, using bifunctional buffer compounds that not only control pH but also catalyze the reaction. The buffers can be employed at pH 5-9 (5-50 mM) and accelerate reactions by several orders of magnitude, yielding second-order rate constants of >10 M-1 s-1. Effective bifunctional amines include 2-(aminomethyl)imidazoles and N,N-dimethylethylenediamine. Unlike previous diaminobenzene catalysts, the new buffer amines are found to have low toxicity to human cells, and can be used to promote reactions in cellular applications.
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Affiliation(s)
- Dennis Larsen
- Department of Chemistry , Stanford University , Stanford , CA 94305 , USA .
| | - Anna M Kietrys
- Department of Chemistry , Stanford University , Stanford , CA 94305 , USA .
| | - Spencer A Clark
- Department of Chemistry , Stanford University , Stanford , CA 94305 , USA .
| | - Hyun Shin Park
- Department of Chemistry , Stanford University , Stanford , CA 94305 , USA .
| | - Andreas Ekebergh
- Department of Chemistry , Stanford University , Stanford , CA 94305 , USA .
| | - Eric T Kool
- Department of Chemistry , Stanford University , Stanford , CA 94305 , USA .
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14
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Lehmann B, Wagenknecht HA. Fluorogenic “photoclick” labelling of DNA using a Cy3 dye. Org Biomol Chem 2018; 16:7579-7582. [DOI: 10.1039/c8ob02068j] [Citation(s) in RCA: 20] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
Two 2′-deoxyuridines as new building blocks for automated DNA synthesis carry a small aryltetrazole as a “photoclickable” group at their 5-positions.
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Affiliation(s)
- Benjamin Lehmann
- Institute of Organic Chemistry
- Karlsruhe Institute of Technology (KIT)
- 76131 Karlsruhe
- Germany
| | - Hans-Achim Wagenknecht
- Institute of Organic Chemistry
- Karlsruhe Institute of Technology (KIT)
- 76131 Karlsruhe
- Germany
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15
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Oliveira E, Bértolo E, Núñez C, Pilla V, Santos HM, Fernández‐Lodeiro J, Fernández‐Lodeiro A, Djafari J, Capelo JL, Lodeiro C. Green and Red Fluorescent Dyes for Translational Applications in Imaging and Sensing Analytes: A Dual-Color Flag. ChemistryOpen 2018; 7:9-52. [PMID: 29318095 PMCID: PMC5754553 DOI: 10.1002/open.201700135] [Citation(s) in RCA: 40] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/28/2017] [Indexed: 01/17/2023] Open
Abstract
Red and green are two of the most-preferred colors from the entire chromatic spectrum, and red and green dyes are widely used in biochemistry, immunohistochemistry, immune-staining, and nanochemistry applications. Selective dyes with green and red excitable chromophores can be used in biological environments, such as tissues and cells, and can be irradiated with visible light without cell damage. This critical review, covering a period of five years, provides an overview of the most-relevant results on the use of red and green fluorescent dyes in the fields of bio-, chemo- and nanoscience. The review focuses on fluorescent dyes containing chromophores such as fluorescein, rhodamine, cyanine, boron-dipyrromethene (BODIPY), 7-nitobenz-2-oxa-1,3-diazole-4-yl, naphthalimide, acridine orange, perylene diimides, coumarins, rosamine, Nile red, naphthalene diimide, distyrylpyridinium, benzophosphole P-oxide, benzoresorufins, and tetrapyrrolic macrocycles. Metal complexes and nanomaterials with these dyes are also discussed.
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Affiliation(s)
- Elisabete Oliveira
- BIOSCOPE GroupUCIBIO-LAQV-REQUIMTEDepartamento de Química, Faculdade de Ciências e TecnologiaUniversidade NOVA de Lisboa2829-516LisboaPortugal
- Proteomass Scientific SocietyRua dos Inventores, Madan Park2829-516CaparicaPortugal
| | - Emilia Bértolo
- Biomolecular Research GroupSchool of Human and Life SciencesCanterbury Christ Church UniversityCanterburyCT1 1QUUK
| | - Cristina Núñez
- Research UnitHospital Universitario Lucus Augusti (HULA), Servizo Galego de Saúde (SERGAS)27003LugoSpain
| | - Viviane Pilla
- Instituto de FísicaUniversidade Federal de Uberlândia-UFUAv. João Naves de Ávila 2121Uberlândia, MG38400-902Brazil
| | - Hugo M. Santos
- BIOSCOPE GroupUCIBIO-LAQV-REQUIMTEDepartamento de Química, Faculdade de Ciências e TecnologiaUniversidade NOVA de Lisboa2829-516LisboaPortugal
- Proteomass Scientific SocietyRua dos Inventores, Madan Park2829-516CaparicaPortugal
| | - Javier Fernández‐Lodeiro
- BIOSCOPE GroupUCIBIO-LAQV-REQUIMTEDepartamento de Química, Faculdade de Ciências e TecnologiaUniversidade NOVA de Lisboa2829-516LisboaPortugal
- Proteomass Scientific SocietyRua dos Inventores, Madan Park2829-516CaparicaPortugal
| | - Adrian Fernández‐Lodeiro
- BIOSCOPE GroupUCIBIO-LAQV-REQUIMTEDepartamento de Química, Faculdade de Ciências e TecnologiaUniversidade NOVA de Lisboa2829-516LisboaPortugal
- Proteomass Scientific SocietyRua dos Inventores, Madan Park2829-516CaparicaPortugal
| | - Jamila Djafari
- BIOSCOPE GroupUCIBIO-LAQV-REQUIMTEDepartamento de Química, Faculdade de Ciências e TecnologiaUniversidade NOVA de Lisboa2829-516LisboaPortugal
- Proteomass Scientific SocietyRua dos Inventores, Madan Park2829-516CaparicaPortugal
| | - José Luis Capelo
- BIOSCOPE GroupUCIBIO-LAQV-REQUIMTEDepartamento de Química, Faculdade de Ciências e TecnologiaUniversidade NOVA de Lisboa2829-516LisboaPortugal
- Proteomass Scientific SocietyRua dos Inventores, Madan Park2829-516CaparicaPortugal
| | - Carlos Lodeiro
- BIOSCOPE GroupUCIBIO-LAQV-REQUIMTEDepartamento de Química, Faculdade de Ciências e TecnologiaUniversidade NOVA de Lisboa2829-516LisboaPortugal
- Proteomass Scientific SocietyRua dos Inventores, Madan Park2829-516CaparicaPortugal
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16
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Light-induced functions in DNA. Curr Opin Chem Biol 2017; 40:119-126. [DOI: 10.1016/j.cbpa.2017.07.011] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/20/2017] [Revised: 06/13/2017] [Accepted: 07/20/2017] [Indexed: 12/30/2022]
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17
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Munneke S, Dangerfield EM, Stocker BL, Timmer MSM. The versatility of N-alkyl-methoxyamine bi-functional linkers for the preparation of glycoconjugates. Glycoconj J 2017; 34:633-642. [PMID: 28725972 DOI: 10.1007/s10719-017-9785-4] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/12/2017] [Revised: 07/05/2017] [Accepted: 07/06/2017] [Indexed: 11/25/2022]
Abstract
The application of N-glycosyl-N-alkyl-methoxyamine bi-functional linkers for the synthesis of a variety of glycoconjugates is described. The linker contains a specific functional group, such as an amine, azide, thiol, or carboxylic acid, which can be used for conjugation methodologies that include amide ligation, sulfonylation, copper-mediated Huisgen cycloaddition or thiol-maleimide coupling. In this way, glycoconjugates equipped with biotin, a fluorescent reporter, or a protein were efficiently synthesised, thus demonstrating the versatility of this type of oxyamine linker for the construction of glycoconjugate probes.
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Affiliation(s)
- Stefan Munneke
- School of Chemical and Physical Sciences, PO Box 600, Wellington, New Zealand
| | - Emma M Dangerfield
- School of Chemical and Physical Sciences, PO Box 600, Wellington, New Zealand
| | - Bridget L Stocker
- School of Chemical and Physical Sciences, PO Box 600, Wellington, New Zealand.
| | - Mattie S M Timmer
- School of Chemical and Physical Sciences, PO Box 600, Wellington, New Zealand.
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18
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Steinmeyer J, Rönicke F, Schepers U, Wagenknecht HA. Synthesis of Wavelength-Shifting Fluorescent DNA and RNA with Two Photostable Cyanine-Styryl Dyes as the Base Surrogate Pair. ChemistryOpen 2017; 6:514-518. [PMID: 28794946 PMCID: PMC5542753 DOI: 10.1002/open.201700059] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/22/2017] [Indexed: 01/19/2023] Open
Abstract
Two nucleic acid building blocks were synthesized, consisting of two photostable green‐ and red‐emitting cyanine–styryl dyes and (S)‐3‐amino‐1,2‐propanediol as a substitute for the ribofuranoside, and incorporated as base‐pair surrogates by using automated phosphoramidte chemistry in the solid phase. The optical properties and, in particular, the energy‐transfer properties were screened in a range of DNA duplexes, in which the “counter bases” of the two dyes were varied and the distance between the two dyes was enlarged to up to three intervening adenosine–thymidine pairs. The DNA duplex with the best optical properties and the best red/green emission ratio as the readout bore adenosine and thymidine opposite to the dyes, and the two dyes directly adjacent to each other as the base surrogate pair. This structural arrangement can be transferred to RNA to obtain similarly fluorescent RNA probes. Representatively, the positively evaluated DNA duplex was applied to verify the fluorescence readout in living HeLa cells by using fluorescence confocal microscopy.
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Affiliation(s)
- Jeannine Steinmeyer
- Institute of Organic Chemistry Karlsruhe Institute of Technology (KIT) Fritz-Haber-Weg 6 76131 Karlsruhe Germany
| | - Franziska Rönicke
- Institute of Organic Chemistry Karlsruhe Institute of Technology (KIT) Fritz-Haber-Weg 6 76131 Karlsruhe Germany
| | - Ute Schepers
- Institute of Toxicology and Genetics Karlsruhe Institute of Technology (KIT) Hermann-von-Helmholtz-Platz 1 76344 Eggenstein-Leopoldshafen Germany
| | - Hans-Achim Wagenknecht
- Institute of Organic Chemistry Karlsruhe Institute of Technology (KIT) Fritz-Haber-Weg 6 76131 Karlsruhe Germany
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19
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Progress and prospects for small-molecule probes of bacterial imaging. Nat Chem Biol 2017; 12:472-8. [PMID: 27315537 DOI: 10.1038/nchembio.2109] [Citation(s) in RCA: 69] [Impact Index Per Article: 9.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/12/2015] [Accepted: 05/13/2016] [Indexed: 11/09/2022]
Abstract
Fluorescence microscopy is an essential tool for the exploration of cell growth, division, transcription and translation in eukaryotes and prokaryotes alike. Despite the rapid development of techniques to study bacteria, the size of these organisms (1-10 μm) and their robust and largely impenetrable cell envelope present major challenges in imaging experiments. Fusion-based strategies, such as attachment of the protein of interest to a fluorescent protein or epitope tag, are by far the most common means for examining protein localization and expression in prokaryotes. While valuable, the use of genetically encoded tags can result in mislocalization or altered activity of the desired protein, does not provide a readout of the catalytic state of enzymes and cannot enable visualization of many other important cellular components, such as peptidoglycan, lipids, nucleic acids or glycans. Here, we highlight the use of biomolecule-specific small-molecule probes for imaging in bacteria.
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20
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Meng X, Yang Y, Zhou L, Zhang L, Lv Y, Li S, Wu Y, Zheng M, Li W, Gao G, Deng G, Jiang T, Ni D, Gong P, Cai L. Dual-Responsive Molecular Probe for Tumor Targeted Imaging and Photodynamic Therapy. Am J Cancer Res 2017. [PMID: 28638467 PMCID: PMC5479268 DOI: 10.7150/thno.18437] [Citation(s) in RCA: 46] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/05/2023] Open
Abstract
The precision oncology significantly relies on the development of multifunctional agents to integrate tumor targeting, imaging and therapeutics. In this study, a first small-molecule theranostic probe, RhoSSCy is constructed by conjugating 5'-carboxyrhodamines (Rho) and heptamethine cyanine IR765 (Cy) using a reducible disulfide linker and pH tunable amino-group to realize thiols/pH dual sensing. In vitro experiments verify that RhoSSCy is highly sensitive for quantitative analysis and imaging intracellular pH gradient and biothiols. Furthermore, RhoSSCy shows superb tumor targeted dual-modal imaging via near-infrared fluorescence (NIRF) and photoacoustic (PA). Importantly, RhoSSCy also induces strongly reactive oxygen species for tumor photodynamic therapy (PDT) with robust antitumor activity both in vitro and in vivo. Such versatile small-molecule theranostic probe may be promising for tumor targeted imaging and precision therapy.
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21
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Kalia D, Pawar SP, Thopate JS. Stable and Rapid Thiol Bioconjugation by Light-Triggered Thiomaleimide Ring Hydrolysis. Angew Chem Int Ed Engl 2017; 56:1885-1889. [DOI: 10.1002/anie.201609733] [Citation(s) in RCA: 34] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/04/2016] [Revised: 12/06/2016] [Indexed: 11/10/2022]
Affiliation(s)
- Dimpy Kalia
- Department of Chemistry; Savitribai Phule Pune University (SPPU); Pune Maharashtra 411007 India
| | - Sharad P. Pawar
- Department of Chemistry; Savitribai Phule Pune University (SPPU); Pune Maharashtra 411007 India
| | - Jyoti S. Thopate
- Department of Chemistry; Savitribai Phule Pune University (SPPU); Pune Maharashtra 411007 India
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22
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Kalia D, Pawar SP, Thopate JS. Stable and Rapid Thiol Bioconjugation by Light-Triggered Thiomaleimide Ring Hydrolysis. Angew Chem Int Ed Engl 2017. [DOI: 10.1002/ange.201609733] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Affiliation(s)
- Dimpy Kalia
- Department of Chemistry; Savitribai Phule Pune University (SPPU); Pune Maharashtra 411007 India
| | - Sharad P. Pawar
- Department of Chemistry; Savitribai Phule Pune University (SPPU); Pune Maharashtra 411007 India
| | - Jyoti S. Thopate
- Department of Chemistry; Savitribai Phule Pune University (SPPU); Pune Maharashtra 411007 India
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23
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Shajahan A, Parashar S, Goswami S, Ahmed SM, Nagarajan P, Sampathkumar SG. Carbohydrate–Neuroactive Hybrid Strategy for Metabolic Glycan Engineering of the Central Nervous System in Vivo. J Am Chem Soc 2017; 139:693-700. [DOI: 10.1021/jacs.6b08894] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Affiliation(s)
- Asif Shajahan
- Laboratory
of Chemical Glycobiology and ‡Experimental Animal Facility, National Institute of Immunology, Aruna Asaf Ali Marg, New
Delhi 110067, India
| | - Shubham Parashar
- Laboratory
of Chemical Glycobiology and ‡Experimental Animal Facility, National Institute of Immunology, Aruna Asaf Ali Marg, New
Delhi 110067, India
| | - Surbhi Goswami
- Laboratory
of Chemical Glycobiology and ‡Experimental Animal Facility, National Institute of Immunology, Aruna Asaf Ali Marg, New
Delhi 110067, India
| | - Syed Meheboob Ahmed
- Laboratory
of Chemical Glycobiology and ‡Experimental Animal Facility, National Institute of Immunology, Aruna Asaf Ali Marg, New
Delhi 110067, India
| | - Perumal Nagarajan
- Laboratory
of Chemical Glycobiology and ‡Experimental Animal Facility, National Institute of Immunology, Aruna Asaf Ali Marg, New
Delhi 110067, India
| | - Srinivasa-Gopalan Sampathkumar
- Laboratory
of Chemical Glycobiology and ‡Experimental Animal Facility, National Institute of Immunology, Aruna Asaf Ali Marg, New
Delhi 110067, India
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24
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Ravasco JMJM, Monteiro CM, Trindade AF. Cyclopropenes: a new tool for the study of biological systems. Org Chem Front 2017. [DOI: 10.1039/c7qo00054e] [Citation(s) in RCA: 38] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
Cyclopropenes have become an important mini-tag tool in chemical biology, participating in fast inverse electron demand Diels–Alder and photoclick reactions in biological settings.
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Affiliation(s)
- João M. J. M. Ravasco
- Instituto de Investigação do Medicamento (iMed.ULisboa)
- Faculdade de Farmácia
- Universidade de Lisboa
- 1649-003 Lisboa
- Portugal
| | - Carlos M. Monteiro
- Instituto de Investigação do Medicamento (iMed.ULisboa)
- Faculdade de Farmácia
- Universidade de Lisboa
- 1649-003 Lisboa
- Portugal
| | - Alexandre F. Trindade
- Instituto de Investigação do Medicamento (iMed.ULisboa)
- Faculdade de Farmácia
- Universidade de Lisboa
- 1649-003 Lisboa
- Portugal
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25
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Cao M, Chen H, Chen D, Xu Z, Liu SH, Chen X, Yin J. Naphthalimide-based fluorescent probe for selectively and specifically detecting glutathione in the lysosomes of living cells. Chem Commun (Camb) 2016; 52:721-4. [PMID: 26576682 DOI: 10.1039/c5cc08328a] [Citation(s) in RCA: 128] [Impact Index Per Article: 16.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Abstract
A novel naphthalimide-based fluorescent probe employing a sulfonamide unit as a thiol-responsive group is reported. It is capable of efficiently distinguishing GSH from cysteine and homocysteine. Bioimaging shows that it has high selectivity in living cells and can visualize the level of GSH in lysosomes. It is worth mentioning that different groups on the imide unit can affect the selectivity and reaction dynamics of the probe towards thiols.
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Affiliation(s)
- Meijiao Cao
- Key Laboratory of Pesticide and Chemical Biology, Ministry of Education, College of Chemistry, Central China Normal University, Wuhan 430079, P. R. China.
| | - Haiyan Chen
- Department of Biomedical Engineering, School of Engineering, China Pharmaceutical University, 24 Tongjia Lane, Gulou District, Nanjing 210009, P. R. China.
| | - Dan Chen
- Department of Biomedical Engineering, School of Engineering, China Pharmaceutical University, 24 Tongjia Lane, Gulou District, Nanjing 210009, P. R. China.
| | - Zhiqiang Xu
- Key Laboratory of Pesticide and Chemical Biology, Ministry of Education, College of Chemistry, Central China Normal University, Wuhan 430079, P. R. China.
| | - Sheng Hua Liu
- Key Laboratory of Pesticide and Chemical Biology, Ministry of Education, College of Chemistry, Central China Normal University, Wuhan 430079, P. R. China.
| | - Xiaoqiang Chen
- State Key Laboratory of Materials-Oriented Chemical Engineering, College of Chemistry and Chemical Engineering, Nanjing Tech University, Nanjing 210009, P. R. China.
| | - Jun Yin
- Key Laboratory of Pesticide and Chemical Biology, Ministry of Education, College of Chemistry, Central China Normal University, Wuhan 430079, P. R. China.
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26
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Exploring human glycosylation for better therapies. Mol Aspects Med 2016; 51:125-43. [DOI: 10.1016/j.mam.2016.05.003] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/01/2016] [Revised: 04/28/2016] [Accepted: 05/06/2016] [Indexed: 01/19/2023]
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27
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Merkel M, Arndt S, Ploschik D, Cserép GB, Wenge U, Kele P, Wagenknecht HA. Scope and Limitations of Typical Copper-Free Bioorthogonal Reactions with DNA: Reactive 2′-Deoxyuridine Triphosphates for Postsynthetic Labeling. J Org Chem 2016; 81:7527-38. [DOI: 10.1021/acs.joc.6b01205] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
Affiliation(s)
- Marcus Merkel
- Institute
of Organic Chemistry, Karlsruhe Institute of Technology (KIT), Fritz-Haber-Weg 6, 76131 Karlsruhe, Germany
| | - Stefanie Arndt
- Institute
of Organic Chemistry, Karlsruhe Institute of Technology (KIT), Fritz-Haber-Weg 6, 76131 Karlsruhe, Germany
| | - Damian Ploschik
- Institute
of Organic Chemistry, Karlsruhe Institute of Technology (KIT), Fritz-Haber-Weg 6, 76131 Karlsruhe, Germany
| | - Gergely B. Cserép
- Chemical
Biology Research Group, Institute of Organic Chemistry, Research Centre
for Natural Sciences, Hungarian Academy of Sciences, Magyar tudósok
krt. 2, H-1117 Budapest, Hungary
| | - Ulrike Wenge
- Institute
of Organic Chemistry, Karlsruhe Institute of Technology (KIT), Fritz-Haber-Weg 6, 76131 Karlsruhe, Germany
| | - Péter Kele
- Chemical
Biology Research Group, Institute of Organic Chemistry, Research Centre
for Natural Sciences, Hungarian Academy of Sciences, Magyar tudósok
krt. 2, H-1117 Budapest, Hungary
| | - Hans-Achim Wagenknecht
- Institute
of Organic Chemistry, Karlsruhe Institute of Technology (KIT), Fritz-Haber-Weg 6, 76131 Karlsruhe, Germany
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28
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Bohländer PR, Abba ML, Bestvater F, Allgayer H, Wagenknecht HA. Two wavelength-shifting molecular beacons for simultaneous and selective imaging of vesicular miRNA-21 and miRNA-31 in living cancer cells. Org Biomol Chem 2016; 14:5001-6. [PMID: 27114268 DOI: 10.1039/c6ob00691d] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
Two molecular beacons were designed as complementary fluorescent imaging probes for miRNA-21 and miRNA-31. Both beacons were prepared by a combination of solid-phase protocol and Cu(i)-catalyzed cycloaddition chemistry. The four photostable and bright fluorophores were attached to 2'-positions in the stem part of the two beacons. One beacon was labeled by a green-to-red emitting and the other by a blue-to-yellow emitting energy transfer pair. This two by two combination yields the four color emission readout. In vitro experiments demonstrate rapid and highly selective opening of both molecular beacons upon addition of the complementary target RNA and excellent green : red and blue : yellow emission color contrasts. Confocal microscopy of selected cancer cell lines provides evidence that a four color imaging of versicular miRNA-21 and miRNA-31 can be achieved both selectively and simultaneously upon transfection by the beacons, and that the fluorescent readouts track well with miRNA levels determined by PCR.
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Affiliation(s)
- Peggy R Bohländer
- Institute of Organic Chemistry, Karlsruhe Institute of Technology (KIT), Fritz-Haber-Weg 6, 76131 Karlsruhe, Germany.
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29
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Piller F, Mongis A, Piller V. Metabolic Glyco-Engineering in Eukaryotic Cells and Selected Applications. Methods Mol Biol 2016; 1321:335-59. [PMID: 26082233 DOI: 10.1007/978-1-4939-2760-9_23] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/04/2023]
Abstract
By metabolic glyco-engineering cellular glycoconjugates are modified through the incorporation of synthetic monosaccharides which are usually analogues of naturally present sugars. In order to get incorporated, the monosaccharides need to enter the cytoplasm and to be substrates for the enzymes necessary for their transformation into activated sugars, most often nucleotide sugars. These have to be substrates for glycosyltransferases which finally catalyze their incorporation into glycans. Such pathways are difficult to reconstitute in vitro and therefore new monosaccharide analogues have to be tested in tissue culture for their suitability in metabolic glyco-engineering. For this, glycosylation mutants are the most appropriate since they are unable to synthesize specific glycans but through the introduction of the monosaccharide analogues they may express some glycans at the cell surface with the unnatural sugar incorporated. The presence of those glycans can be easily and quantitatively detected by lectin binding or by chemical methods identifying specific sugars. Monosaccharide analogues can also block the pathways leading to sugar incorporation, thus inhibiting the synthesis of glycan structures which is also easily detectable at the cell surface by lectin labeling. The most useful and most frequently employed application of metabolic glyco-engineering is the introduction of reactive groups which can undergo bio-orthogonal click reactions for the efficient labeling of glycans at the surface of live cells.
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Affiliation(s)
- Friedrich Piller
- Synthetic Protein Chemistry and Glyco-engineering Group, Centre de Biophysique Moléculaire (CNRS UPR 4301), Orléans, France
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30
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Berndl S, Dimitrov SD, Menacher F, Fiebig T, Wagenknecht HA. Thiazole Orange Dimers in DNA: Fluorescent Base Substitutions with Hybridization Readout. Chemistry 2016; 22:2386-95. [DOI: 10.1002/chem.201503849] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/25/2015] [Indexed: 01/03/2023]
Affiliation(s)
- Sina Berndl
- Institute of Organic Chemistry; Karlsruhe Institute of Technology (KIT); Fritz-Haber-Weg 6 76131 Karlsruhe Germany
- Institute of Organic Chemistry; University of Regensburg; 93040 Regensburg Germany
| | - Stoichko D. Dimitrov
- Centre for Plastic Electronics; Department of Chemistry; Imperial College London; Exhibition Road London SW7 2AZ UK
| | - Florian Menacher
- Institute of Organic Chemistry; Karlsruhe Institute of Technology (KIT); Fritz-Haber-Weg 6 76131 Karlsruhe Germany
- Institute of Organic Chemistry; University of Regensburg; 93040 Regensburg Germany
| | - Torsten Fiebig
- Feinberg School of Medicine; Department of Otolaryngology; Northwestern University; 420 East Superior Street Chicago IL 60611 USA
| | - Hans-Achim Wagenknecht
- Institute of Organic Chemistry; Karlsruhe Institute of Technology (KIT); Fritz-Haber-Weg 6 76131 Karlsruhe Germany
- Institute of Organic Chemistry; University of Regensburg; 93040 Regensburg Germany
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31
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Cheng X, Liu J, Wang L, Wang R, Liu Z, Zhuo R. An enzyme-mediated in situ hydrogel based on polyaspartamide derivatives for localized drug delivery and 3D scaffolds. RSC Adv 2016. [DOI: 10.1039/c6ra18479k] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022] Open
Abstract
An enzyme-mediated in situ hydrogel based on polyaspartamide derivatives is prepared for localized drug delivery and 3D scaffolds.
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Affiliation(s)
- Xu Cheng
- Key Laboratory of Biomedical Polymers
- Ministry of Education
- College of Chemistry and Molecular Sciences
- Wuhan University
- Wuhan 430072
| | - Jia Liu
- Key Laboratory of Biomedical Polymers
- Ministry of Education
- College of Chemistry and Molecular Sciences
- Wuhan University
- Wuhan 430072
| | - Lei Wang
- Key Laboratory of Biomedical Polymers
- Ministry of Education
- College of Chemistry and Molecular Sciences
- Wuhan University
- Wuhan 430072
| | - Ruoli Wang
- Key Laboratory of Biomedical Polymers
- Ministry of Education
- College of Chemistry and Molecular Sciences
- Wuhan University
- Wuhan 430072
| | - Zhilan Liu
- Key Laboratory of Biomedical Polymers
- Ministry of Education
- College of Chemistry and Molecular Sciences
- Wuhan University
- Wuhan 430072
| | - Renxi Zhuo
- Key Laboratory of Biomedical Polymers
- Ministry of Education
- College of Chemistry and Molecular Sciences
- Wuhan University
- Wuhan 430072
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32
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Xu S, Gao T, Feng X, Mao Y, Liu P, Yu X, Luo X. Dual ligand co-functionalized fluorescent gold nanoclusters for the “turn on” sensing of glutathione in tumor cells. J Mater Chem B 2016; 4:1270-1275. [DOI: 10.1039/c5tb02195b] [Citation(s) in RCA: 29] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/02/2023]
Abstract
A “turn on” approach was established for GSH sensing in tumor cells based on dual ligand co-functionalized fluorescent Au NCs.
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Affiliation(s)
- Shenghao Xu
- 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
| | - Teng Gao
- 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
| | - Xiuying Feng
- 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
| | - Yaning Mao
- 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
| | - Pingping Liu
- Zhengzhou Tobacco Research Institute
- CNTC
- Zhengzhou 450000
- P. R. China
| | - Xijuan Yu
- 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
| | - Xiliang Luo
- 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
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33
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Xiong DC, Zhu J, Han MJ, Luo HX, Wang C, Yu Y, Ye Y, Tai G, Ye XS. Rapid probing of sialylated glycoproteins in vitro and in vivo via metabolic oligosaccharide engineering of a minimal cyclopropene reporter. Org Biomol Chem 2015; 13:3911-7. [PMID: 25735895 DOI: 10.1039/c5ob00069f] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Abstract
ManNAc analogues are important chemical tools for probing sialylation dynamically via metabolic oligosaccharide engineering (MOE). The size of N-acyl and the nature of the chemical handle are two determinants of metabolic incorporation efficiency. We demonstrated a minimal, stable, bioorthogonal, and reactive N-Cp (N-(cycloprop-2-ene-1-ylcarbonyl)) group and the imaging of sialylated glycans using Ac4ManNCp in vitro and in vivo. The results revealed that the Cp group can efficiently be incorporated into the cellular sialic acid and detected rapidly by the reaction with FITC-Tz in different cells. The metabolic incorporation efficiency of non-cytotoxic Ac4ManNCp is not only superior to Ac4ManNMCp, but also superior to the widely-used Ac4ManNAz in some cell lines. Moreover, when Ac4ManNCp was administered to mice, a rapid and intense labelling of splenocytes as well as glycoproteins of sera and organs was observed. This is the first reported metabolic labelling of cyclopropene-modified sugars in vivo. Therefore, Ac4ManNCp is a powerful probe for efficient and rapid MOE and it may find wide applications in the labelling of glycans.
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Affiliation(s)
- De-Cai Xiong
- State Key Laboratory of Natural and Biomimetic Drugs, School of Pharmaceutical Sciences, and Center for Molecular and Translational Medicine, Peking University, Xue Yuan Road No. 38, Beijing 100191, China.
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34
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Elshahawi SI, Shaaban KA, Kharel MK, Thorson JS. A comprehensive review of glycosylated bacterial natural products. Chem Soc Rev 2015; 44:7591-697. [PMID: 25735878 PMCID: PMC4560691 DOI: 10.1039/c4cs00426d] [Citation(s) in RCA: 299] [Impact Index Per Article: 33.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
A systematic analysis of all naturally-occurring glycosylated bacterial secondary metabolites reported in the scientific literature up through early 2013 is presented. This comprehensive analysis of 15 940 bacterial natural products revealed 3426 glycosides containing 344 distinct appended carbohydrates and highlights a range of unique opportunities for future biosynthetic study and glycodiversification efforts.
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Affiliation(s)
- Sherif I Elshahawi
- Department of Pharmaceutical Sciences, College of Pharmacy, University of Kentucky, Lexington, KY, USA. and Center for Pharmaceutical Research and Innovation, College of Pharmacy, University of Kentucky, Lexington, KY, USA
| | - Khaled A Shaaban
- Department of Pharmaceutical Sciences, College of Pharmacy, University of Kentucky, Lexington, KY, USA. and Center for Pharmaceutical Research and Innovation, College of Pharmacy, University of Kentucky, Lexington, KY, USA
| | - Madan K Kharel
- School of Pharmacy, University of Maryland Eastern Shore, Princess Anne, Maryland, USA
| | - Jon S Thorson
- Department of Pharmaceutical Sciences, College of Pharmacy, University of Kentucky, Lexington, KY, USA. and Center for Pharmaceutical Research and Innovation, College of Pharmacy, University of Kentucky, Lexington, KY, USA
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35
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Protein-specific imaging of posttranslational modifications. Curr Opin Chem Biol 2015; 28:156-63. [DOI: 10.1016/j.cbpa.2015.07.020] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/24/2015] [Revised: 07/23/2015] [Accepted: 07/27/2015] [Indexed: 11/18/2022]
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36
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Agarwal P, Beahm BJ, Shieh P, Bertozzi CR. Systemic Fluorescence Imaging of Zebrafish Glycans with Bioorthogonal Chemistry. Angew Chem Int Ed Engl 2015; 54:11504-10. [PMID: 26230529 PMCID: PMC4694582 DOI: 10.1002/anie.201504249] [Citation(s) in RCA: 101] [Impact Index Per Article: 11.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/09/2015] [Revised: 06/15/2015] [Indexed: 01/01/2023]
Abstract
Vertebrate glycans constitute a large, important, and dynamic set of post-translational modifications that are notoriously difficult to manipulate and image. Although the chemical reporter strategy has been used in conjunction with bioorthogonal chemistry to image the external glycosylation state of live zebrafish and detect tumor-associated glycans in mice, the ability to image glycans systemically within a live organism has remained elusive. Here, we report a method that combines the metabolic incorporation of a cyclooctyne-functionalized sialic acid derivative with a ligation reaction of a fluorogenic tetrazine, allowing for the imaging of sialylated glycoconjugates within live zebrafish embryos.
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Affiliation(s)
- Paresh Agarwal
- Departments of Chemistry and Molecular and Cell Biology and Howard Hughes Medical Institute, University of California, Berkeley, B84 Hildebrand Hall, Berkeley, CA 94720 (USA)
| | - Brendan J Beahm
- Departments of Chemistry and Molecular and Cell Biology and Howard Hughes Medical Institute, University of California, Berkeley, B84 Hildebrand Hall, Berkeley, CA 94720 (USA)
| | - Peyton Shieh
- Departments of Chemistry and Molecular and Cell Biology and Howard Hughes Medical Institute, University of California, Berkeley, B84 Hildebrand Hall, Berkeley, CA 94720 (USA)
| | - Carolyn R Bertozzi
- Department of Chemistry and Howard Hughes Medical Institute, Stanford University, 333 Campus Drive, Stanford, CA 94305.
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37
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Bohländer PR, Wagenknecht HA. Bright and photostable cyanine-styryl chromophores with green and red fluorescence colour for DNA staining. Methods Appl Fluoresc 2015; 3:044003. [PMID: 29148508 DOI: 10.1088/2050-6120/3/4/044003] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
Abstract
The synthesis and optical characterisation of a series of green- and red-emitting cyanine and cyanine-styryl dyes is presented that were developed based on the cyanine-indole-quinolinium and based on the thiazole red type structure. For the green emitting fluorophores the quinolinium part was replaced by a pyridinium group. The bridge to the indole group was attached either to the 2-position or to the 4-position of the pyridinium moiety. For the red-emitting dyes the connection to the indole moiety is at the 4-position of the quinolinium part. In each set of dyes a methyl group at the indole-NH and/or a phenyl group at the 2-position of the indole part were introduced to tune the optical properties and photostability. Additionally, two dyes were modified with a cyano group to tune the photophysical properties and to enhance the photostabilities. The developed dyes show good photostabilities and bright green or red fluorescence intensities in the presence of DNA. Thus, these dyes represent important and promising candidates for fluorescent molecular imaging of nucleic acids inside living cells.
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Affiliation(s)
- Peggy R Bohländer
- Institute of Organic Chemistry, Karlsruhe Institute of Technology (KIT), Fritz-Haber-Weg 6, 76131 Karlsruhe, Germany
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38
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Jiang H, Qin S, Dong H, Lei Q, Su X, Zhuo R, Zhong Z. An injectable and fast-degradable poly(ethylene glycol) hydrogel fabricated via bioorthogonal strain-promoted azide-alkyne cycloaddition click chemistry. SOFT MATTER 2015; 11:6029-6036. [PMID: 26132425 DOI: 10.1039/c5sm00508f] [Citation(s) in RCA: 39] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
Biocompatible and degradable injectable materials prepared via bioorthogonal reactions are highly promising for biomedical applications because they can be formed in situ and administered in a minimally invasive way. In this work, a PEG-based injectable hydrogel was fabricated via a copper-free, strain-promoted azide-alkyne cycloaddition (SPAAC) click chemistry. Azide and cyclooctyne moieties on the PEG backbones underwent a rapid click reaction to trigger the formation of the hydrogel within several minutes. Resulting from the introduction of ester groups into the cross-linked network, the hydrogel presented pH-dependent hydrolysis and biological fast degradability. Good biocompatibility of the hydrogel was verified by in vitro cytotoxicity assay and in vivo studies. The hydrogel formed in situ after subcutaneously injecting the gel precursors into Kungming (KM) mice. The implanted hydrogel caused a mild inflammatory response in vivo, and the surrounding tissues fully recovered a week after the injection. The injectable and fast-degradable hydrogel fabricated by the bioorthogonal click reaction may be useful as biomaterials such as embolic agents for interventional therapy.
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Affiliation(s)
- Huafang Jiang
- Key Laboratory of Biomedical Polymers of Ministry of Education & Department of Chemistry, Wuhan University, Wuhan 430072, P. R. China.
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39
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Agarwal P, Beahm BJ, Shieh P, Bertozzi CR. Systemic Fluorescence Imaging of Zebrafish Glycans with Bioorthogonal Chemistry. Angew Chem Int Ed Engl 2015. [DOI: 10.1002/ange.201504249] [Citation(s) in RCA: 28] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
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40
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Bohländer PR, Vilaivan T, Wagenknecht HA. Strand displacement and duplex invasion into double-stranded DNA by pyrrolidinyl peptide nucleic acids. Org Biomol Chem 2015. [PMID: 26223770 DOI: 10.1039/c5ob01273b] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
The so-called acpcPNA system bears a peptide backbone consisting of 4'-substituted proline units with (2'R,4'R) configuration in an alternating combination with (2S)-amino-cyclopentane-(1S)-carboxylic acids. acpcPNA forms exceptionally stable hybrids with complementary DNA. We demonstrate herein (i) strand displacements by single-stranded DNA from acpcPNA-DNA hybrids, and by acpcPNA strands from DNA duplexes, and (ii) strand invasions by acpcPNA into double-stranded DNA. These processes were studied in vitro using synthetic oligonucleotides and by means of our concept of wavelength-shifting fluorescent nucleic acid probes, including fluorescence lifetime measurements that allow quantifying energy transfer efficiencies. The strand displacements of preannealed 14mer acpcPNA-7mer DNA hybrids consecutively by 10mer and 14mer DNA strands occur with rather slow kinetics but yield high fluorescence color ratios (blue : yellow or blue : red), fluorescence intensity enhancements, and energy transfer efficiencies. Furthermore, 14mer acpcPNA strands are able to invade into 30mer double-stranded DNA, remarkably with quantitative efficiency in all studied cases. These processes can also be quantified by means of fluorescence. This remarkable behavior corroborates the extraordinary versatile properties of acpcPNA. In contrast to conventional PNA systems which require 3 or more equivalents PNA, only 1.5 equivalents acpcPNA are sufficient to get efficient double duplex invasion. Invasions also take place even in the presence of 250 mM NaCl which represents an ionic strength nearly twice as high as the physiological ion concentration. These remarkable results corroborate the extraordinary properties of acpcPNA, and thus acpcPNA represents an eligible tool for biological analytics and antigene applications.
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Affiliation(s)
- Peggy R Bohländer
- Institute of Organic Chemistry, Karlsruhe Institute of Technology (KIT), Fritz-Haber-Weg 6, 76131 Karlsruhe, Germany.
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41
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Barrois S, Wörner S, Wagenknecht HA. The role of duplex stability for wavelength-shifting fluorescent DNA probes: energy transfer vs. exciton interactions in DNA "traffic lights". Photochem Photobiol Sci 2015; 13:1126-9. [PMID: 25000916 DOI: 10.1039/c4pp00153b] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Abstract
Exciton interactions between thiazole orange and thiazole red as nucleotide substitutes in DNA hairpins interfere with efficient energy transfer and fluorescence color change as readout. This interference can be tuned by two structural parameters that control the hairpin duplex stability.
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Affiliation(s)
- Sebastian Barrois
- Institute of Organic Chemistry, Karlsruhe Institute of Technology (KIT), Fritz-Haber-Weg 6, 76131 Karlsruhe, Germany.
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42
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Challenges and opportunities toward enabling phenotypic screening of complex and 3D cell models. Future Med Chem 2015; 7:513-25. [DOI: 10.4155/fmc.14.163] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022] Open
Abstract
Increasingly, organotypic cellular platforms are being recognized as useful tools in drug discovery. This review offers an industry-centric perspective on the benefits of emerging complex cell models over conventional 2D systems, as well as the challenges and opportunities for incorporating these multidimensional platforms into high-density formats. We particularly highlight the need for novel chemical sensors to noninvasively quantitate 3D structures in real time, and we contend that the use of more focused chemical and genomics libraries will enable screening of complex cell models derived from primary and induced pluripotent stem cells. Finally, we offer outlooks on several emerging technologies that show great potential for future integration of complex cell systems into contemporary drug screening.
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43
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Swee LK, Lourido S, Bell GW, Ingram JR, Ploegh HL. One-step enzymatic modification of the cell surface redirects cellular cytotoxicity and parasite tropism. ACS Chem Biol 2015; 10:460-5. [PMID: 25360987 PMCID: PMC4478597 DOI: 10.1021/cb500462t] [Citation(s) in RCA: 46] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Abstract
![]()
Surface display of engineered proteins
has many useful applications.
The expression of a synthetic chimeric antigen receptor composed of
an extracellular tumor-specific antibody fragment linked to a cytosolic
activating motif in engineered T cells is now considered a viable
approach for the treatment of leukemias. The risk of de novo tumor development, inherent in the transfer of genetically engineered
cells, calls for alternative approaches for the functionalization
of the lymphocyte plasma membrane. We demonstrate the conjugation
of LPXTG-tagged probes and LPXTG-bearing proteins to endogenous acceptors
at the plasma membrane in a single step using sortase A. We successfully
conjugated biotin probes not only to mouse hematopoietic cells but
also to yeast cells, 293T cells, and Toxoplasma gondii. Installation of single domain antibodies on activated CD8 T cell
redirects cell-specific cytotoxicity to cells that bear the relevant
antigen. Likewise, conjugation of Toxoplasma gondii with single domain antibodies targets the pathogen to cells that
express the antigen recognized by these single domain antibodies.
This simple and robust enzymatic approach enables engineering of the
plasma membrane for research or therapy under physiological reaction
conditions that ensure the viability of the modified cells.
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Affiliation(s)
- Lee Kim Swee
- Whitehead Institute
for Biomedical Research, 9 Cambridge
Center, Cambridge, Massachusetts 02142, United States
| | - Sebastian Lourido
- Whitehead Institute
for Biomedical Research, 9 Cambridge
Center, Cambridge, Massachusetts 02142, United States
| | - George W. Bell
- Whitehead Institute
for Biomedical Research, 9 Cambridge
Center, Cambridge, Massachusetts 02142, United States
| | - Jessica R. Ingram
- Whitehead Institute
for Biomedical Research, 9 Cambridge
Center, Cambridge, Massachusetts 02142, United States
| | - Hidde L. Ploegh
- Whitehead Institute
for Biomedical Research, 9 Cambridge
Center, Cambridge, Massachusetts 02142, United States
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44
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A Near-Infrared Fluorescence Probe for Thiols Based on Analyte-Specific Cleavage of Carbamate and Its Application in Bioimaging. European J Org Chem 2015. [DOI: 10.1002/ejoc.201403398] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
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45
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Hu XL, Jin HY, He XP, James TD, Chen GR, Long YT. Colorimetric and plasmonic detection of lectins using core-shell gold glyconanoparticles prepared by copper-free click chemistry. ACS APPLIED MATERIALS & INTERFACES 2015; 7:1874-1878. [PMID: 25531131 DOI: 10.1021/am5076293] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
This study describes the simple preparation of core-shell glycosyl gold nanoparticles (AuNPs) using stepwise, copper-free click chemistry-promoted self-assembly. The as-formed glyco-AuNPs can be used for the selective detection of sugar-lectin interactions, which are vital to many important physiological and pathological processes. The approach uses AuNPs as bioprobes since they produce, sensitively, changes in both color visible to the naked eye and surface plasmon resonance (SPR), on aggregation. Strain-promoted click reaction of an azido galactoside with a lipid cyclooctyne affords a galactolipid that can be embedded into polyethylene glycol (PEG)-coated AuNP via self-assembly. Subsequently, using naked-eye and plasmon resonance scattering spectroscopy, we were able to observe the colorimetric and plasmonic variations of the glyco-AuNPs, respectively, in the presence of a selective lectin over other proteins.
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Affiliation(s)
- Xi-Le Hu
- Key Laboratory for Advanced Materials & Institute of Fine Chemicals, East China University of Science and Technology , Shanghai 200237, PR China
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46
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Larsen D, Pittelkow M, Karmakar S, Kool ET. New organocatalyst scaffolds with high activity in promoting hydrazone and oxime formation at neutral pH. Org Lett 2014; 17:274-7. [PMID: 25545888 PMCID: PMC4301078 DOI: 10.1021/ol503372j] [Citation(s) in RCA: 72] [Impact Index Per Article: 7.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Abstract
![]()
The discovery of
two new classes of catalysts for hydrazone and
oxime formation in water at neutral pH, namely 2-aminophenols and
2-(aminomethyl)benzimidazoles, is reported. Kinetics
studies in aqueous solutions at pH 7.4 revealed rate enhancements
up to 7-fold greater than with classic aniline catalysis. 2-(Aminomethyl)benzimidazoles
were found to be effective catalysts with otherwise challenging aryl
ketone substrates.
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Affiliation(s)
- Dennis Larsen
- Department of Chemistry, Stanford University , Stanford, California 94305-5017, United States
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47
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Radford RJ, Chyan W, Lippard SJ. Peptide Targeting of Fluorescein-Based Sensors to Discrete Intracellular Locales. Chem Sci 2014; 5:4512-4516. [PMID: 25512838 PMCID: PMC4264632 DOI: 10.1039/c4sc01280a] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
Fluorescein-based sensors are the most widely applied class of zinc probes but display adventitious localization in live cells. We present here a peptide-based localization strategy that affords precision in targeting of fluorescein-based zinc sensors. By appending the zinc-selective, reaction-based probe Zinpyr-1 diacetate (DA-ZP1) to the N-terminus of two different targeting peptides we achieve programmable localization and avoid unwanted sequestration within acidic vesicles. Furthermore, this approach can be generalized to other fluorescein-based sensors. When appended to a mitochondrial targeting peptide, the esterase-activated profluorophore 2',7'-dichlorofluorescein diacetate can be used effectively at concentrations four-times lower than previously reported for analogous, non-acetylated derivatives. These results demonstrate on-resin or in-solution esterification of fluorescein to be an effective strategy to facilitate peptide-based targeting in live cells.
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48
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Bohländer PR, Wagenknecht HA. Synthesis of a Photostable Energy-Transfer Pair for “DNA Traffic Lights”. European J Org Chem 2014. [DOI: 10.1002/ejoc.201403119] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
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49
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MacGregor BJ. Click-chemistry tagging of proteins in living cells: new possibilities for microbial (meta) proteomics. Environ Microbiol 2014; 16:2353-6. [PMID: 25040824 DOI: 10.1111/1462-2920.12540] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Barbara J MacGregor
- Department of Marine Sciences, University of North Carolina, Chapel Hill, NC, 27599, USA
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50
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Syal K, Wang W, Shan X, Wang S, Chen HY, Tao N. Plasmonic imaging of protein interactions with single bacterial cells. Biosens Bioelectron 2014; 63:131-137. [PMID: 25064821 DOI: 10.1016/j.bios.2014.06.069] [Citation(s) in RCA: 41] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/28/2014] [Revised: 06/25/2014] [Accepted: 06/26/2014] [Indexed: 11/30/2022]
Abstract
Quantifying the interactions of bacteria with external ligands is fundamental to the understanding of pathogenesis, antibiotic resistance, immune evasion, and mechanism of antimicrobial action. Due to inherent cell-to-cell heterogeneity in a microbial population, each bacterium interacts differently with its environment. This large variability is washed out in bulk assays, and there is a need of techniques that can quantify interactions of bacteria with ligands at the single bacterium level. In this work, we present a label-free and real-time plasmonic imaging technique to measure the binding kinetics of ligand interactions with single bacteria, and perform statistical analysis of the heterogeneity. Using the technique, we have studied interactions of antibodies with single Escherichia coli O157:H7 cells and demonstrated a capability of determining the binding kinetic constants of single live bacteria with ligands, and quantify heterogeneity in a microbial population.
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Affiliation(s)
- Karan Syal
- Center for Biosensors and Bioelectronics, Biodesign Institute, Arizona State University, Tempe, AZ 85287, USA
| | - Wei Wang
- State Key Laboratory of Analytical Chemistry for Life Science, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210093, China
| | - Xiaonan Shan
- Center for Biosensors and Bioelectronics, Biodesign Institute, Arizona State University, Tempe, AZ 85287, USA; School of Electrical, Computer and Energy Engineering, Arizona State University, Tempe, AZ 85287, USA
| | - Shaopeng Wang
- Center for Biosensors and Bioelectronics, Biodesign Institute, Arizona State University, Tempe, AZ 85287, USA; State Key Laboratory of Analytical Chemistry for Life Science, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210093, China
| | - Hong-Yuan Chen
- State Key Laboratory of Analytical Chemistry for Life Science, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210093, China.
| | - Nongjian Tao
- Center for Biosensors and Bioelectronics, Biodesign Institute, Arizona State University, Tempe, AZ 85287, USA; State Key Laboratory of Analytical Chemistry for Life Science, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210093, China; School of Electrical, Computer and Energy Engineering, Arizona State University, Tempe, AZ 85287, USA.
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