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Maddeshiya T, Jaiswal MK, Tamrakar A, Mishra G, Awasthi C, Pandey MD. Pyrene Appendant Triazole-based Chemosensors for Sensing Applications. Curr Org Synth 2024; 21:421-435. [PMID: 37345247 DOI: 10.2174/1570179420666230621124119] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/14/2022] [Revised: 03/20/2023] [Accepted: 03/31/2023] [Indexed: 06/23/2023]
Abstract
Over the last two decades, the design and development of fluorescent chemosensors for the targeted detection of Heavy Transition-metal (HTM) ions, anions, and biological analytes, have drawn much interest. Since the introduction of click chemistry in 2001, triazole moieties have become an increasingly prominent theme in chemosensors. Triazoles generated via click reactions are crucial for sensing various ions and biological analytes. Recently, the number of studies in the field of pyrene appendant triazole moieties has risen dramatically, with more sophisticated and reliable triazole-containing chemosensors for various analytes of interest described. This tutorial review provides a general overview of pyrene appendant-triazole-based chemosensors that can detect a variety of metal cations, anions, and neutral analytes by using modular click-derived triazoles.
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Affiliation(s)
- Tarkeshwar Maddeshiya
- Department of Chemistry, Institute of Science, Banaras Hindu University, Varanasi, 221005, India
| | - Manoj K Jaiswal
- Department of Chemistry, Institute of Science, Banaras Hindu University, Varanasi, 221005, India
| | - Arpna Tamrakar
- Department of Chemistry, Institute of Science, Banaras Hindu University, Varanasi, 221005, India
| | - Gargi Mishra
- Department of Chemistry, Institute of Science, Banaras Hindu University, Varanasi, 221005, India
| | - Chhama Awasthi
- Department of Science and Technology, Technology Bhavan, New Mehrauli Road, New Delhi, 110016, India
| | - Mrituanjay D Pandey
- Department of Chemistry, Institute of Science, Banaras Hindu University, Varanasi, 221005, India
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2
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Zeng Y, Wang Z, Zeng L, Xiong H. Enhancing or Quenching of a Mitochondria-Targeted AIEgens-Floxuridine Sensor by the Regulation of pH-Dependent Self-assembly, Efficient Recognition of Hg 2+, and Stimulated Response of GSH. Anal Chem 2023; 95:18880-18888. [PMID: 38088834 DOI: 10.1021/acs.analchem.3c04415] [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: 12/27/2023]
Abstract
Biocompatible fluorescent probes have emerged as essential tools in life sciences for visualizing subcellular structures and detecting specific analytes. Herein, we report the synthesis and characterization of a novel fluorescent probe (TPE-FdU), incorporated with hydrophilic 2'-fluoro-substituted deoxyuridine and hydrophobic ethynyl tetraphenylethene moieties, which possessed typical aggregation-induced emission (AIE) behavior. In comparison to the TPE-FdU (pKa 7.68) treated in neutral conditions, it performed well at pH 4, exhibiting an enhanced 450 nm emission signal of approximately four times stronger. As the pH value was increased to 10, the fluorescence intensity was completely quenched. The TEM images of TPE-FdU in an acidic environment (nanospherical morphology, AIE enhance, pH = 4) and in a basic environment (microrods, fluorescence quenching, pH = 9) revealed that it was a pH-dependent self-assembled probe, which was also illustrated by the interpretation of the NMR spectrum. Furthermore, the TPE-FdU probe exhibited a specific response to trace Hg2+ ions. Interestingly, the quenched fluorescence of the TPE-FdU probe caused by Hg2+ can be recovered by the addition of GSH due to the formation of the Hg-S bond being released away. MTT assay and CLSM images demonstrated that TPE-FdU was nontoxic and selectively visualized in the intracellular mitochondria. These results contributed to the development of advanced fluorescent probes with diverse applications in cell imaging, environment protection, and biomedical research.
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Affiliation(s)
- Yating Zeng
- Institute of Advanced Study, Shenzhen University, Shenzhen 518060, P. R. China
| | - Ziyan Wang
- Institute of Advanced Study, Shenzhen University, Shenzhen 518060, P. R. China
| | - Linyu Zeng
- Institute of Advanced Study, Shenzhen University, Shenzhen 518060, P. R. China
| | - Hai Xiong
- Institute of Advanced Study, Shenzhen University, Shenzhen 518060, P. R. China
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3
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Zhao L, Ahmed F, Xiong H. An excimer ‘ON OFF’ switch based on telomeric G-quadruplex and rGO for trace thrombin detection. CHINESE CHEM LETT 2022. [DOI: 10.1016/j.cclet.2022.02.048] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
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4
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Kondhare D, Leonard P, Seela F. Isoguanine (2-Hydroxyadenine) and 2-Aminoadenine Nucleosides with an 8-Aza-7-deazapurine Skeleton: Synthesis, Functionalization with Fluorescent and Clickable Side Chains, and Impact of 7-Substituents on Physical Properties. J Org Chem 2021; 86:14461-14475. [PMID: 34661407 DOI: 10.1021/acs.joc.1c01283] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023]
Abstract
7-Functionalized 8-aza-7-deaza-2'-deoxyisoguanine and 8-aza-7-deaza-2-aminoadenine 2'-deoxyribonucleosides decorated with fluorescent pyrene or benzofuran sensor tags or clickable side chains with terminal triple bonds were synthesized. 8-Aza-7-deaza-7-iodo-2-amino-2'-deoxyadenosine was used as the central intermediate and was accessible by an improved two-step glycosylation/amination protocol. Functionalization of position-7 was performed either on 8-aza-7-deaza-7-iodo-2-amino-2'-deoxyadenosine followed by selective deamination of the 2-amino group or on 7-iodinated 8-aza-7-deaza-2'-deoxyisoguanosine. Sonogashira and Suzuki-Miyaura cross-coupling reactions were employed for this purpose. Octadiynyl side chains were selected as linkers for click reactions with azido pyrenes. KTaut values calculated from H2O/dioxane mixtures revealed that side chains have a significant influence on the tautomeric equilibrium. Photophysical properties (fluorescence, solvatochromism, and quantum yields) of the new 8-aza-7-deazapurine nucleosides with fluorescent side chains were determined. Remarkably, a strong excimer fluorescence in H2O was observed for pyrene dye conjugates of 8-aza-7-deazaisoguanine and 2-aminoadenine nucleosides with a long linker. In other solvents including methanol, excimer fluorescence was negligible. The 2-aminoadenine and isoguanine nucleosides with the 8-aza-7-deazapurine skeleton expand the class of nucleosides applicable to fluorescence detection with respect to diagnostic and therapeutic purposes.
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Affiliation(s)
- Dasharath Kondhare
- Laboratory of Bioorganic Chemistry and Chemical Biology, Center for Nanotechnology, Heisenbergstrasse 11, 48149 Münster, Germany
| | - Peter Leonard
- Laboratory of Bioorganic Chemistry and Chemical Biology, Center for Nanotechnology, Heisenbergstrasse 11, 48149 Münster, Germany
| | - Frank Seela
- Laboratory of Bioorganic Chemistry and Chemical Biology, Center for Nanotechnology, Heisenbergstrasse 11, 48149 Münster, Germany.,Laboratorium für Organische und Bioorganische Chemie, Institut für Chemie Neuer Materialien, Universität Osnabrück, Barbarastrasse 7, 49069 Osnabrück, Germany
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5
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Augustine R, Uthaman S, Kalva N, Eom KH, Huh KM, Pillarisetti S, Park IK, Kim I. Two-tailed tadpole-shaped synthetic polymer polypeptide bioconjugate nanomicelles for enhanced chemo-photothermal therapy. POLYMER 2021. [DOI: 10.1016/j.polymer.2021.124061] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
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6
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Zhang A, Kondhare D, Leonard P, Seela F. 5-Aza-7-deazaguanine-Isoguanine and Guanine-Isoguanine Base Pairs in Watson-Crick DNA: The Impact of Purine Tracts, Clickable Dendritic Side Chains, and Pyrene Adducts. Chemistry 2021; 27:7453-7466. [PMID: 33443814 PMCID: PMC8251886 DOI: 10.1002/chem.202005199] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/04/2020] [Indexed: 12/19/2022]
Abstract
The Watson-Crick coding system depends on the molecular recognition of complementary purine and pyrimidine bases. Now, the construction of hybrid DNAs with Watson-Crick and purine-purine base pairs decorated with dendritic side chains was performed. Oligonucleotides with single and multiple incorporations of 5-aza-7-deaza-2'-deoxyguanosine, its tripropargylamine derivative, and 2'-deoxyisoguanosine were synthesized. Duplex stability decreased if single modified purine-purine base pairs were inserted, but increased if pyrene residues were introduced by click chemistry. A growing number of consecutive 5-aza-7-deazaguanine-isoguanine base pairs led to strong stepwise duplex stabilization, a phenomenon not observed for the guanine-isoguanine base pair. Spacious residues are well accommodated in the large groove of purine-purine DNA tracts. Changes to the global helical structure monitored by circular dichroism spectroscopy show the impact of functionalization to the global double-helix structure. This study explores new areas of molecular recognition realized by purine base pairs that are complementary in hydrogen bonding, but not in size, relative to canonical pairs.
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Affiliation(s)
- Aigui Zhang
- Laboratory of Bioorganic Chemistry and Chemical Biology, Center for Nanotechnology, University of Münster, Heisenbergstrasse 11, 48149, Münster, Germany
| | - Dasharath Kondhare
- Laboratory of Bioorganic Chemistry and Chemical Biology, Center for Nanotechnology, University of Münster, Heisenbergstrasse 11, 48149, Münster, Germany
| | - Peter Leonard
- Laboratory of Bioorganic Chemistry and Chemical Biology, Center for Nanotechnology, University of Münster, Heisenbergstrasse 11, 48149, Münster, Germany
| | - Frank Seela
- Laboratory of Bioorganic Chemistry and Chemical Biology, Center for Nanotechnology, University of Münster, Heisenbergstrasse 11, 48149, Münster, Germany.,Laboratorium für Organische und Bioorganische Chemie, Institut für Chemie neuer Materialien, Universität Osnabrück, Barbarastrasse 7, 49069, Osnabrück, Germany
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7
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Zhao X, Zhao L, Xiao Q, Xiong H. Intermolecular hydrogen-bond interaction to promote thermoreversible 2'-deoxyuridine-based AIE-organogels. CHINESE CHEM LETT 2021. [DOI: 10.1016/j.cclet.2020.10.008] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
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8
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Wang Y, Cheng J, Zhao D, Liu Y, Luo T, Zhong YF, Mo F, Kong XY, Song J. Designed DNA nanostructure grafted with erlotinib for non-small-cell lung cancer therapy. NANOSCALE 2020; 12:23953-23958. [PMID: 33244548 DOI: 10.1039/d0nr06945k] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
Chemotherapy for non-small-cell lung cancer (NSCLC) treatment has been employed over the past 20 years. However, poor water-solubility, low bioavailability and less drug accumulation of chemotherapeutic drugs restrict its antitumor activities in clinic. DNA nanostructures are proposed as drug carriers due to their intrinsic biocompatibility and programmability. In this work, we demonstrate a novel DNA nanocarrier grafted with erlotinib as an effective drug delivery system (DDS) for anti-cancer treatment. Specifically, erlotinib (Er), a hydrophobic small molecule drug targeting the epidermal growth factor receptor (EGFR), is covalently conjugated with azide (N3) modified DNA strands and subsequently self-assembled on spatially programmable erlotinib-grafted 6 × 6 × 64 nt DNA nanostructures. Thus, Er was successfully grafted on DNA carriers and transformed into a hydrophilic formulation. The antitumor efficacy was evaluated both in vitro and in vivo, and enhanced cytotoxicity toward A549 cells and the marked inhibition of tumor growth for non-small-cell lung cancer (NSCLC) were observed.
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Affiliation(s)
- Yuqi Wang
- School of Materials Science and Engineering, Shanghai Jiao Tong University, 800 Dongchuan Road, Shanghai 200240, China
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Dong Y, Yao C, Zhu Y, Yang L, Luo D, Yang D. DNA Functional Materials Assembled from Branched DNA: Design, Synthesis, and Applications. Chem Rev 2020; 120:9420-9481. [DOI: 10.1021/acs.chemrev.0c00294] [Citation(s) in RCA: 168] [Impact Index Per Article: 42.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
Affiliation(s)
- Yuhang Dong
- Frontiers Science Center for Synthetic Biology, Key Laboratory of Systems Bioengineering (MOE), School of Chemical Engineering and Technology, Tianjin University, Tianjin 300350, P. R. China
| | - Chi Yao
- Frontiers Science Center for Synthetic Biology, Key Laboratory of Systems Bioengineering (MOE), School of Chemical Engineering and Technology, Tianjin University, Tianjin 300350, P. R. China
| | - Yi Zhu
- Frontiers Science Center for Synthetic Biology, Key Laboratory of Systems Bioengineering (MOE), School of Chemical Engineering and Technology, Tianjin University, Tianjin 300350, P. R. China
| | - Lu Yang
- Frontiers Science Center for Synthetic Biology, Key Laboratory of Systems Bioengineering (MOE), School of Chemical Engineering and Technology, Tianjin University, Tianjin 300350, P. R. China
| | - Dan Luo
- Department of Biological & Environmental Engineering, Cornell University, Ithaca, New York 14853, United States
| | - Dayong Yang
- Frontiers Science Center for Synthetic Biology, Key Laboratory of Systems Bioengineering (MOE), School of Chemical Engineering and Technology, Tianjin University, Tianjin 300350, P. R. China
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10
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Augustine R, Kim DK, Kalva N, Eom KH, Kim JH, Kim I. Multi-stimuli-responsive nanomicelles fabricated using synthetic polymer polylysine conjugates for tumor microenvironment dependent drug delivery. J Mater Chem B 2020; 8:5745-5755. [DOI: 10.1039/d0tb00721h] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
A poly(lysine)-synthetic polymer hybrid nanomicelles were fabricated as promising platform for efficient tumor targeting and glutathione/pH/temperature-responsive anticancer drug delivery.
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Affiliation(s)
- Rimesh Augustine
- BK21 PLUS Center for Advanced Chemical Technology
- Department of Chemical Engineering & Polymer Science and Engineering
- Pusan National University
- Busan 609-735
- Republic of Korea
| | - Dae-Kyoung Kim
- Department of Physiology
- School of Medicine
- Pusan National University
- Yangsan 626-870
- Republic of Korea
| | - Nagendra Kalva
- BK21 PLUS Center for Advanced Chemical Technology
- Department of Chemical Engineering & Polymer Science and Engineering
- Pusan National University
- Busan 609-735
- Republic of Korea
| | - Kuen Hee Eom
- BK21 PLUS Center for Advanced Chemical Technology
- Department of Chemical Engineering & Polymer Science and Engineering
- Pusan National University
- Busan 609-735
- Republic of Korea
| | - Jae Ho Kim
- Department of Physiology
- School of Medicine
- Pusan National University
- Yangsan 626-870
- Republic of Korea
| | - Il Kim
- BK21 PLUS Center for Advanced Chemical Technology
- Department of Chemical Engineering & Polymer Science and Engineering
- Pusan National University
- Busan 609-735
- Republic of Korea
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11
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Chawla M, Minenkov Y, Vu KB, Oliva R, Cavallo L. Structural and Energetic Impact of Non-natural 7-Deaza-8-azaguanine, 7-Deaza-8-azaisoguanine, and Their 7-Substituted Derivatives on Hydrogen-Bond Pairing with Cytosine and Isocytosine. Chembiochem 2019; 20:2262-2270. [PMID: 30983115 DOI: 10.1002/cbic.201900245] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/13/2019] [Indexed: 12/12/2022]
Abstract
The impact of 7-deaza-8-azaguanine (DAG) and 7-deaza-8-azaisoguanine (DAiG) modifications on the geometry and stability of the G:C Watson-Crick (cWW) base pair and the G:iC and iG:C reverse Watson-Crick (tWW) base pairs has been characterized theoretically. In addition, the effect on the same base pairs of seven C7-substituted DAG and DAiG derivatives, some of which have been previously experimentally characterized, has been investigated. Calculations indicate that all of these modifications have a negligible impact on the geometry of the above base pairs, and that modification of the heterocycle skeleton has a small impact on the base-pair interaction energies. Instead, base-pair interaction energies are dependent on the nature of the C7 substituent. For the 7-substituted DAG-C cWW systems, a linear correlation between the base-pair interaction energy and the Hammett constant of the 7-substituent is found, with higher interaction energies corresponding to more electron-withdrawing substituents. Therefore, the explored modifications are expected to be accommodated in both parallel and antiparallel nucleic acid duplexes without perturbing their geometry, while the strength of a base pair (and duplex) featuring a DAG modification can, in principle, be tuned by incorporating different substituents at the C7 position.
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Affiliation(s)
- Mohit Chawla
- King Abdullah University of Science and Technology (KAUST), Physical Sciences and Engineering Division, Kaust Catalysis Center, Thuwal, 23955-6900, Saudi Arabia
| | - Yury Minenkov
- Moscow Institute of Physics and Technology, Institutskiy Pereulok 9, Dolgoprudny, Moscow Region, 141700, Russia
| | - Khanh B Vu
- NTT Hi-Tech Institute, Nguyen Tat Thanh University, 298-300A Nguyen Tat Thanh Street, Ho Chi Minh City, Vietnam
| | - Romina Oliva
- Department of Sciences and Technologies, University Parthenope of Naples, Centro Direzionale Isola C4, 80143, Naples, Italy
| | - Luigi Cavallo
- King Abdullah University of Science and Technology (KAUST), Physical Sciences and Engineering Division, Kaust Catalysis Center, Thuwal, 23955-6900, Saudi Arabia
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Triazolyl C-nucleosides via the intermediacy of β-1′-ethynyl-2′-deoxyribose derived from a Nicholas reaction: Synthesis, photophysical properties and interaction with BSA. Tetrahedron 2019. [DOI: 10.1016/j.tet.2019.04.038] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
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13
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Astakhova K, Ray R, Taskova M, Uhd J, Carstens A, Morris K. "Clicking" Gene Therapeutics: A Successful Union of Chemistry and Biomedicine for New Solutions. Mol Pharm 2018; 15:2892-2899. [PMID: 29300491 PMCID: PMC6078818 DOI: 10.1021/acs.molpharmaceut.7b00765] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Abstract
The use of nucleic acid, DNA and RNA, based strategies to disrupt gene expression as a therapeutic is quickly emerging. Indeed, synthetic oligonucleotides represent a major component of modern gene therapeutics. However, the efficiency and specificity of intracellular uptake for nonmodified oligonucleotides is rather poor. Utilizing RNA based oligonucleotides as therapeutics is even more challenging to deliver, due to extremely fast enzymatic degradation of the RNAs. RNAs get rapidly degraded in vivo and demonstrate large off-target binding events when they can reach and enter the desired target cells. One approach that holds much promise is the utilization of "click chemistry" to conjugate receptor or cell specific targeting molecules directly to the effector oligonucleotides. We discuss here the applications of the breakthrough technology of CuAAC click chemistry and the immense potential in utilizing "click chemistry" in the development of new age targeted oligonucleotide therapeutics.
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Affiliation(s)
- Kira Astakhova
- Department of Chemistry, Technical University of Denmark, 206 Kemitorvet, 2800 Kgs Lyngby, Denmark
| | - Roslyn Ray
- Center for Gene Therapy, City of Hope – Beckman Research Institute and Hematological Malignancy and Stem Cell Transplantation Institute at the City of Hope. 1500 E. Duarte Rd., Duarte, CA, 91010, USA
| | - Maria Taskova
- Department of Chemistry, Technical University of Denmark, 206 Kemitorvet, 2800 Kgs Lyngby, Denmark
| | - Jesper Uhd
- Department of Chemistry, Technical University of Denmark, 206 Kemitorvet, 2800 Kgs Lyngby, Denmark
| | - Annika Carstens
- Department of Chemistry, Technical University of Denmark, 206 Kemitorvet, 2800 Kgs Lyngby, Denmark
| | - Kevin Morris
- Center for Gene Therapy, City of Hope – Beckman Research Institute and Hematological Malignancy and Stem Cell Transplantation Institute at the City of Hope. 1500 E. Duarte Rd., Duarte, CA, 91010, USA
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Wang X, Wang X, Wang X, Zhang J, Liu C, Hu Y. In‐situ
Generated and Premade 1‐Copper(I) Alkynes in Cycloadditions. CHEM REC 2017. [DOI: 10.1002/tcr.201700011] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
Affiliation(s)
- Xinyan Wang
- Key Laboratory of Bioorganic Phosphorus Chemistry and Chemical Biology (Ministry of Education), Department of ChemistryTsinghua University Beijing 100084 P. R. China
| | - Xingyong Wang
- Key Laboratory of Bioorganic Phosphorus Chemistry and Chemical Biology (Ministry of Education), Department of ChemistryTsinghua University Beijing 100084 P. R. China
| | - Xuesong Wang
- Key Laboratory of Bioorganic Phosphorus Chemistry and Chemical Biology (Ministry of Education), Department of ChemistryTsinghua University Beijing 100084 P. R. China
| | - Jianlan Zhang
- Key Laboratory of Bioorganic Phosphorus Chemistry and Chemical Biology (Ministry of Education), Department of ChemistryTsinghua University Beijing 100084 P. R. China
| | - Chulong Liu
- Key Laboratory of Bioorganic Phosphorus Chemistry and Chemical Biology (Ministry of Education), Department of ChemistryTsinghua University Beijing 100084 P. R. China
| | - Yuefei Hu
- Key Laboratory of Bioorganic Phosphorus Chemistry and Chemical Biology (Ministry of Education), Department of ChemistryTsinghua University Beijing 100084 P. R. China
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Kavoosi S, Rayala R, Walsh B, Barrios M, Gonzalez WG, Miksovska J, Mathivathanan L, Raptis RG, Wnuk SF. Synthesis of 8-(1,2,3-triazol-1-yl)-7-deazapurine nucleosides by azide-alkyne click reactions and direct C-H bond functionalization. Tetrahedron Lett 2016; 57:4364-4367. [PMID: 28239199 DOI: 10.1016/j.tetlet.2016.08.053] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
Abstract
Treatment of toyocamycin or sangivamycin with 1,3-dibromo-5,5-dimethylhydantoin in MeOH (r.t./30 min) gave 8-bromotoyocamycin and 8-bromosangivamycin in good yields. Nucleophilic aromatic substitution of 8-bromotoyocamycin with sodium azide provided novel 8-azidotoyocamycin. Strain promoted click reactions of the latter with cyclooctynes resulted in the formation of the 1,2,3-triazole products. Iodine-mediated direct C8-H bond functionalization of tubercidin with benzotriazoles in the presence of tert-butyl hydroperoxide gave the corresponding 8-benzotriazolyltubercidin derivatives. The 8-(1,2,3-triazol-1-yl)-7-deazapurine derivatives showed moderate quantum yields and a large Stokes shifts of ~ 100 nm.
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Affiliation(s)
- Sam Kavoosi
- Florida International University, Department of Chemistry and Biochemistry, Miami, Florida, 33199, United States
| | - Ramanjaneyulu Rayala
- Florida International University, Department of Chemistry and Biochemistry, Miami, Florida, 33199, United States
| | - Brenna Walsh
- Florida International University, Department of Chemistry and Biochemistry, Miami, Florida, 33199, United States
| | - Maria Barrios
- Florida International University, Department of Chemistry and Biochemistry, Miami, Florida, 33199, United States
| | - Walter G Gonzalez
- Florida International University, Department of Chemistry and Biochemistry, Miami, Florida, 33199, United States
| | - Jaroslava Miksovska
- Florida International University, Department of Chemistry and Biochemistry, Miami, Florida, 33199, United States
| | - Logesh Mathivathanan
- Florida International University, Department of Chemistry and Biochemistry, Miami, Florida, 33199, United States
| | - Raphael G Raptis
- Florida International University, Department of Chemistry and Biochemistry, Miami, Florida, 33199, United States
| | - Stanislaw F Wnuk
- Florida International University, Department of Chemistry and Biochemistry, Miami, Florida, 33199, United States
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16
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Ponomarenko AI, Brylev VA, Sapozhnikova KA, Ustinov AV, Prokhorenko IA, Zatsepin TS, Korshun VA. Tetrahedral DNA conjugates from pentaerythritol-based polyazides. Tetrahedron 2016. [DOI: 10.1016/j.tet.2016.03.051] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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17
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Kath-Schorr S. Cycloadditions for Studying Nucleic Acids. Top Curr Chem (Cham) 2015; 374:4. [PMID: 27572987 DOI: 10.1007/s41061-015-0004-0] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/28/2015] [Accepted: 11/30/2015] [Indexed: 12/13/2022]
Abstract
Cycloaddition reactions for site-specific or global modification of nucleic acids have enabled the preparation of a plethora of previously inaccessible DNA and RNA constructs for structural and functional studies on naturally occurring nucleic acids, the assembly of nucleic acid nanostructures, therapeutic applications, and recently, the development of novel aptamers. In this chapter, recent progress in nucleic acid functionalization via a range of different cycloaddition (click) chemistries is presented. At first, cycloaddition/click chemistries already used for modifying nucleic acids are summarized, ranging from the well-established copper(I)-catalyzed alkyne-azide cycloaddition reaction to copper free methods, such as the strain-promoted azide-alkyne cycloaddition, tetrazole-based photoclick chemistry and the inverse electron demand Diels-Alder cycloaddition reaction between strained alkenes and tetrazine derivatives. The subsequent sections contain selected applications of nucleic acid functionalization via click chemistry; in particular, site-specific enzymatic labeling in vitro, either via DNA and RNA recognizing enzymes or by introducing unnatural base pairs modified for click reactions. Further sections report recent progress in metabolic labeling and fluorescent detection of DNA and RNA synthesis in vivo, click nucleic acid ligation, click chemistry in nanostructure assembly and click-SELEX as a novel method for the selection of aptamers.
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Affiliation(s)
- Stephanie Kath-Schorr
- LIMES Institute, Chemical Biology and Medicinal Chemistry Unit, University of Bonn, Bonn, Germany.
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18
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Photocontrolled micellar aggregation of amphiphilic DNA-azobenzene conjugates. Colloids Surf B Biointerfaces 2015; 135:126-132. [DOI: 10.1016/j.colsurfb.2015.07.010] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/15/2015] [Accepted: 07/05/2015] [Indexed: 11/16/2022]
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19
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Asare-Okai PN, Agustin E, Fabris D, Royzen M. Site-specific fluorescence labelling of RNA using bio-orthogonal reaction of trans-cyclooctene and tetrazine. Chem Commun (Camb) 2015; 50:7844-7. [PMID: 24909672 DOI: 10.1039/c4cc02435d] [Citation(s) in RCA: 38] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Abstract
This communication describes a general approach for site-specific fluorescence labelling of RNA using a cytidine triphosphate (CTP) analogue derivatized with a trans-cyclooctene group. The analogue was efficiently incorporated into a model RNA strand using in vitro transcription. Bio-orthogonal reaction with fluorescein-labelled tetrazine was utilized to fluorescently tag the synthetic RNA strand.
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Affiliation(s)
- P N Asare-Okai
- Department of Chemistry, University at Albany, SUNY, 1400 Washington Avenue, Albany, NY 12222, USA.
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20
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Zayas J, Annoual M, Das JK, Felty Q, Gonzalez WG, Miksovska J, Sharifai N, Chiba A, Wnuk SF. Strain Promoted Click Chemistry of 2- or 8-Azidopurine and 5-Azidopyrimidine Nucleosides and 8-Azidoadenosine Triphosphate with Cyclooctynes. Application to Living Cell Fluorescent Imaging. Bioconjug Chem 2015; 26:1519-32. [PMID: 26086070 DOI: 10.1021/acs.bioconjchem.5b00300] [Citation(s) in RCA: 36] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
Abstract
Strain-promoted click chemistry of nucleosides and nucleotides with an azido group directly attached to the purine and pyrimidine rings with various cyclooctynes in aqueous solution at ambient temperature resulted in efficient formation (3 min to 3 h) of fluorescent, light-up, triazole products. The 2- and 8-azidoadenine nucleosides reacted with fused cyclopropyl cyclooctyne, dibenzylcyclooctyne, or monofluorocyclooctyne to produce click products functionalized with hydroxyl, amino, N-hydroxysuccinimide, or biotin moieties. The 5-azidouridine and 5-azido-2'-deoxyuridine were similarly converted to the analogous triazole products in quantitative yields in less than 5 min. The 8-azido-ATP quantitatively afforded the triazole product with fused cyclopropyl cyclooctyne in aqueous acetonitrile (3 h). The novel triazole adducts at the 2- or 8-position of adenine or 5-position of uracil rings induce fluorescence properties which were used for direct imaging in MCF-7 cancer cells without the need for traditional fluorogenic reporters. FLIM of the triazole click adducts demonstrated their potential utility for dynamic measuring and tracking of signaling events inside single living cancer cells.
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Affiliation(s)
| | | | | | | | | | | | - Nima Sharifai
- §Department of Biology, University of Miami, Coral Gables, Florida 33146, United States
| | - Akira Chiba
- §Department of Biology, University of Miami, Coral Gables, Florida 33146, United States
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21
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Manna S, Senapati S, Lindsay S, Zhang P. A three-arm scaffold carrying affinity molecules for multiplex recognition imaging by atomic force microscopy: the synthesis, attachment to silicon tips, and detection of proteins. J Am Chem Soc 2015; 137:7415-23. [PMID: 25996033 DOI: 10.1021/jacs.5b03079] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
We have developed a multiplex imaging method for detection of proteins using atomic force microscopy (AFM), which we call multiplex recognition imaging (mRI). AFM has been harnessed to identify protein using a tip functionalized with an affinity molecule at a single molecule level. However, many events in biochemistry require identification of colocated factors simultaneously, and this is not possible with only one type of affinity molecule on an AFM tip. To enable AFM detection of multiple analytes, we designed a recognition head made from conjugating two different affinity molecules to a three-arm linker. When it is attached to an AFM tip, the recognition head would allow the affinity molecules to function in concert. In the present study, we synthesized two recognition heads: one was composed of two nucleic acid aptamers, and the other one composed of an aptamer and a cyclic peptide. They were attached to AFM tips through a catalyst-free click reaction. Our imaging results show that each affinity unit in the recognition head can recognize its respective cognate in an AFM scanning process independently and specifically. The AFM method was sensitive, only requiring 2 to 3 μL of protein solution with a concentration of ∼2 ng/mL for the detection with our current setup. When a mixed sample was deposited on a surface, the ratio of proteins could be determined by counting numbers of the analytes. Thus, this mRI approach has the potential to be used as a label-free system for detection of low-abundance protein biomarkers.
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Affiliation(s)
- Saikat Manna
- †Biodesign Institute, ‡Department of Chemistry and Biochemistry, and §Department of Physics, Arizona State University, Tempe, Arizona 85287, United States
| | - Subhadip Senapati
- †Biodesign Institute, ‡Department of Chemistry and Biochemistry, and §Department of Physics, Arizona State University, Tempe, Arizona 85287, United States
| | - Stuart Lindsay
- †Biodesign Institute, ‡Department of Chemistry and Biochemistry, and §Department of Physics, Arizona State University, Tempe, Arizona 85287, United States
| | - Peiming Zhang
- †Biodesign Institute, ‡Department of Chemistry and Biochemistry, and §Department of Physics, Arizona State University, Tempe, Arizona 85287, United States
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22
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Gorbunov A, Cheshkov D, Kovalev V, Vatsouro I. Copper(I)-Catalyzed Cycloaddition of Azides to Multiple Alkynes: A Selectivity Study Using a Calixarene Framework. Chemistry 2015; 21:9528-34. [DOI: 10.1002/chem.201500946] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/09/2015] [Indexed: 12/20/2022]
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23
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John JV, Jeong YI, Johnson RP, Chung CW, Park H, Kang DH, Cho JK, Kim Y, Kim I. Folic acid-tethered poly(N-isopropylacrylamide)–phospholipid hybrid nanocarriers for targeted drug delivery. J Mater Chem B 2015; 3:8268-8278. [DOI: 10.1039/c5tb01063b] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
Abstract
Folic acid-tethered poly(N-isopropylacrylamide)–phospholipid nanocarriers exhibit tumour targetability and temperature responsive Doxorubicin releasing behaviour under physiological conditions.
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Affiliation(s)
- Johnson V. John
- BK21 PLUS Center for Advanced Chemical Technology
- Department Polymer Science and Engineering
- Pusan National University
- Busan 609-735
- Republic of Korea
| | - Young-Il Jeong
- Biomedical Research Institute
- Pusan National University Hospital
- Busan 602-739
- Republic of Korea
| | - Renjith P. Johnson
- BK21 PLUS Center for Advanced Chemical Technology
- Department Polymer Science and Engineering
- Pusan National University
- Busan 609-735
- Republic of Korea
| | - Chung-Wook Chung
- Biomedical Research Institute
- Pusan National University Hospital
- Busan 602-739
- Republic of Korea
| | - Huiju Park
- BK21 PLUS Center for Advanced Chemical Technology
- Department Polymer Science and Engineering
- Pusan National University
- Busan 609-735
- Republic of Korea
| | - Dae Hwan Kang
- Biomedical Research Institute
- Pusan National University Hospital
- Busan 602-739
- Republic of Korea
| | - Jin Ku Cho
- Green Process and Materials R&D Group
- Korea Institution of Industrial Technology
- Cheonan 331-822
- Republic of Korea
| | - Yongjin Kim
- Green Process and Materials R&D Group
- Korea Institution of Industrial Technology
- Cheonan 331-822
- Republic of Korea
| | - Il Kim
- BK21 PLUS Center for Advanced Chemical Technology
- Department Polymer Science and Engineering
- Pusan National University
- Busan 609-735
- Republic of Korea
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24
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Yao H, Tian W, Liu Y, Bai Y, Liu D, Liu T, Qi M, Wang M, Liu Y. Cyclodextrin-tunable reversible self-assembly of a thermoresponsive Y-shaped polymer. RSC Adv 2015. [DOI: 10.1039/c5ra03064a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
The reversible self-assembly behavior of thermoresponsive γ-shaped polymer can be effectively tuned based on the inclusion complexation, intermolecular hydrogen bonding and steric hindrance of β-CD.
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Affiliation(s)
- Hao Yao
- The Key Laboratory of Space Applied Physics and Chemistry
- Ministry of Education and Shaanxi Key Laboratory of Macromolecular Science and Technology
- School of Science
- Northwestern Polytechnical University
- Xi'an
| | - Wei Tian
- The Key Laboratory of Space Applied Physics and Chemistry
- Ministry of Education and Shaanxi Key Laboratory of Macromolecular Science and Technology
- School of Science
- Northwestern Polytechnical University
- Xi'an
| | - Yuezhou Liu
- The Key Laboratory of Space Applied Physics and Chemistry
- Ministry of Education and Shaanxi Key Laboratory of Macromolecular Science and Technology
- School of Science
- Northwestern Polytechnical University
- Xi'an
| | - Yang Bai
- Xi'an Mordern Chemistry Research Institute
- Xi'an
- P. R. China
| | - Dizheng Liu
- The Key Laboratory of Space Applied Physics and Chemistry
- Ministry of Education and Shaanxi Key Laboratory of Macromolecular Science and Technology
- School of Science
- Northwestern Polytechnical University
- Xi'an
| | - Tingting Liu
- The Key Laboratory of Space Applied Physics and Chemistry
- Ministry of Education and Shaanxi Key Laboratory of Macromolecular Science and Technology
- School of Science
- Northwestern Polytechnical University
- Xi'an
| | - Miao Qi
- The Key Laboratory of Space Applied Physics and Chemistry
- Ministry of Education and Shaanxi Key Laboratory of Macromolecular Science and Technology
- School of Science
- Northwestern Polytechnical University
- Xi'an
| | - Min Wang
- The Key Laboratory of Space Applied Physics and Chemistry
- Ministry of Education and Shaanxi Key Laboratory of Macromolecular Science and Technology
- School of Science
- Northwestern Polytechnical University
- Xi'an
| | - Yuyang Liu
- The Key Laboratory of Space Applied Physics and Chemistry
- Ministry of Education and Shaanxi Key Laboratory of Macromolecular Science and Technology
- School of Science
- Northwestern Polytechnical University
- Xi'an
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25
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Probst M, Langenegger SM, Häner R. A modular LHC built on the DNA three-way junction. Chem Commun (Camb) 2014; 50:159-61. [PMID: 24177922 DOI: 10.1039/c3cc47490a] [Citation(s) in RCA: 39] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
A light-harvesting complex composed of a π-stacked multichromophoric array in a DNA three-way junction is described. The modular design allows for a ready exchange of non-covalently attached energy acceptors.
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Affiliation(s)
- Markus Probst
- Department of Chemistry and Biochemistry, University of Bern, Freiestrasse 3, CH-3012 Bern, Switzerland.
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O'Donovan L, De Bank PA. A hydrazide-anchored dendron scaffold for chemoselective ligation strategies. Org Biomol Chem 2014; 12:7290-6. [DOI: 10.1039/c4ob00870g] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Abstract
We report the design and synthesis of a dendron scaffold, enabling the chemoselective decoration of target molecules with multiple copies of functional species, such as peptides, via a hydrazone bond.
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Affiliation(s)
- Liz O'Donovan
- Department of Pharmacy and Pharmacology and Centre for Regenerative Medicine
- University of Bath
- Bath, UK
| | - Paul A. De Bank
- Department of Pharmacy and Pharmacology and Centre for Regenerative Medicine
- University of Bath
- Bath, UK
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27
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28
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Sun H, Peng X. Template-directed fluorogenic oligonucleotide ligation using "click" chemistry: detection of single nucleotide polymorphism in the human p53 tumor suppressor gene. Bioconjug Chem 2013; 24:1226-34. [PMID: 23806001 DOI: 10.1021/bc4001678] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
A novel nonfluorescent alkyne-modified coumarin phosphoramidite was synthesized and successfully incorporated into oligonucleotides, which were then used in highly efficient DNA interstrand cross-linking and ligation reactions via "click" chemistry. The template-directed fluorogenic ligation "click" chemistry reaction was used for single nucleotide polymorphism analysis, where the target DNA catalyzes the ligation of two nonfluorescent probes to generate a fluorescent product. The upstream oligonucleotide probe is a nonfluorescent alkyne-modified coumarin and the downstream probe is an azide-modified oligonucleotide. When bound to a fully complementary template, the oligonucleotides ligated to produce a fluorescent product with a fluorophore at the ligation point. Wild-type and mutant p53 alleles were used to demonstrate that template-directed fluorogenic oligonucleotide ligation is sequence-specific and is capable of single nucleotide discrimination under mild conditions, even without the removal of unreacted probes.
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Affiliation(s)
- Huabing Sun
- Department of Chemistry and Biochemistry, University of Wisconsin-Milwaukee, 3210 North Cramer Street, Milwaukee, WI 53211, USA
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29
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Ingale SA, Seela F. Stepwise Click Functionalization of DNA through a Bifunctional Azide with a Chelating and a Nonchelating Azido Group. J Org Chem 2013; 78:3394-9. [DOI: 10.1021/jo400059b] [Citation(s) in RCA: 41] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Affiliation(s)
- Sachin A. Ingale
- Laboratory of Bioorganic Chemistry
and Chemical Biology, Center for Nanotechnology, Heisenbergstraße 11,
48149 Münster, Germany
- Laboratorium für
Organische und Bioorganische
Chemie, Institut für Chemie, Universität Osnabrück, Barbarastraße 7, 49069 Osnabrück,
Germany
| | - Frank Seela
- Laboratory of Bioorganic Chemistry
and Chemical Biology, Center for Nanotechnology, Heisenbergstraße 11,
48149 Münster, Germany
- Laboratorium für
Organische und Bioorganische
Chemie, Institut für Chemie, Universität Osnabrück, Barbarastraße 7, 49069 Osnabrück,
Germany
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30
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Bag SS, Talukdar S, Matsumoto K, Kundu R. Triazolyl donor/acceptor chromophore decorated unnatural nucleosides and oligonucleotides with duplex stability comparable to that of a natural adenine/thymine pair. J Org Chem 2012; 78:278-91. [PMID: 23171090 DOI: 10.1021/jo302033f] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Abstract
We report the design and synthesis of triazolyl donor/acceptor unnatural nucleosides via click chemistry and studies on the duplex stabilization of DNA containing two such new nucleosides. The observed duplex stabilization among the self-pair/heteropair has been found to be comparable to that of a natural A/T pair. Our observations on the comparable duplex stabilization has been explained on the basis of possible π-π stacking and/or charge transfer interactions between the pairing partners. The evidence of ground-state charge transfer complexation came from the UV-vis spectra and the static quenching of fluorescence in a heteropair. We have also exploited one of our unnatural DNAs in stabilizing abasic DNA.
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Affiliation(s)
- Subhendu Sekhar Bag
- Bio-organic Chemistry Laboratory, Department of Chemistry, Indian Institute of Technology, Guwahati-781039, India.
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31
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Ingale SA, Seela F. A ratiometric fluorescent on-off Zn2+ chemosensor based on a tripropargylamine pyrene azide click adduct. J Org Chem 2012; 77:9352-6. [PMID: 23030804 DOI: 10.1021/jo3014319] [Citation(s) in RCA: 99] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Abstract
A new, easy-to-prepare and highly selective pyrene-linked tris-triazole amine fluorescent chemosensor has been designed from tripropargylamine and pyrene azide using Cu(I)-catalyzed click chemistry. The fluorescence on-off sensor 1 is highly selective for Zn(2+) displaying a ratiometric change in emission. The relative intensity ratio of monomer to excimer fluorescence (M(376)/E(465)) of the sensor increases 80-fold upon the addition of 10 equiv of Zn(2+) ions (with a detection limit of 0.2 μM).
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Affiliation(s)
- Sachin A Ingale
- Laboratory of Bioorganic Chemistry and Chemical Biology, Center for Nanotechnology, Heisenbergstraße 11, 48149 Münster, Germany
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32
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Adeyemi OO, Malinovskii VL, Biner SM, Calzaferri G, Häner R. Photon harvesting by excimer-forming multichromophores. Chem Commun (Camb) 2012; 48:9589-91. [DOI: 10.1039/c2cc34183b] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
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