1
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Rosa-Gastaldo D, Dalla Valle A, Marchetti T, Gabrielli L. Sequence-selective duplex formation and template effect in recognition-encoded oligoanilines. Chem Sci 2023; 14:8878-8888. [PMID: 37621420 PMCID: PMC10445429 DOI: 10.1039/d3sc00880k] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/16/2023] [Accepted: 07/25/2023] [Indexed: 08/26/2023] Open
Abstract
A new family of duplex-forming recognition encoded oligomers, capable of sequence selective duplex formation and template directed synthesis, was developed. Monomers equipped with both amine and aldehyde groups were functionalized with 2-trifluoromethylphenol or phosphine oxide as H-bond recognition units. Duplex formation and assembly properties of homo- and hetero-oligomers were studied by 19F and 1H NMR experiments in chloroform. The designed backbone prevents the undesired 1,2-folding allowing sequence-selective duplex formation, and the stability of the antiparallel duplex is 3-fold higher than the parallel arrangement. Dynamic combinatorial chemistry was exploited for the templated synthesis of complementary oligomers, showing that an aniline dimer can template the formation of the complementary imine. The key role of the H-bond recognition confers to the system the ability to discriminate a mutated donor monomer incapable of H-bonding. Sequence selective duplex formation combined with the template effect makes this system an attractive target for further studies.
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Affiliation(s)
- Daniele Rosa-Gastaldo
- Dipartimento di Scienze Chimiche, Università degli studi di Padova via Marzolo 1 35131 Padova Italy
| | - Andrea Dalla Valle
- Dipartimento di Scienze Chimiche, Università degli studi di Padova via Marzolo 1 35131 Padova Italy
| | - Tommaso Marchetti
- Dipartimento di Scienze Chimiche, Università degli studi di Padova via Marzolo 1 35131 Padova Italy
| | - Luca Gabrielli
- Dipartimento di Scienze Chimiche, Università degli studi di Padova via Marzolo 1 35131 Padova Italy
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2
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Das K, Kar H, Chen R, Fortunati I, Ferrante C, Scrimin P, Gabrielli L, Prins LJ. Formation of Catalytic Hotspots in ATP-Templated Assemblies. J Am Chem Soc 2022; 145:898-904. [PMID: 36576874 PMCID: PMC9853849 DOI: 10.1021/jacs.2c09343] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
Abstract
The self-assembly of surfactant-based structures that rely for their formation on the combination of a thermodynamically controlled and a dissipative pathway is described. Adenosine triphosphate (ATP) acts as a high-affinity template and triggers assembly formation at low surfactant concentrations. The presence of these assemblies creates the conditions for the activation of a dissipative self-assembly process by a weak-affinity substrate. The substrate-induced recruitment of additional surfactants leads to the spontaneous formation of catalytic hotspots in the ATP-stabilized assemblies that cleave the substrate. As a result of the two self-assembly processes, catalysis can be observed at a surfactant concentration at which low catalytic activity is observed in the absence of ATP.
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3
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Mahato RR, Shandilya E, Maiti S. Perpetuating enzymatically-induced spatiotemporal pH and catalytic heterogeneity of a hydrogel by nanoparticles. Chem Sci 2022; 13:8557-8566. [PMID: 35974757 PMCID: PMC9337733 DOI: 10.1039/d2sc02317b] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/25/2022] [Accepted: 06/20/2022] [Indexed: 11/22/2022] Open
Abstract
The attainment of spatiotemporally inhomogeneous chemical and physical properties within a system is gaining attention across disciplines due to the resemblance to environmental and biological heterogeneity. Notably, the origin of natural pH gradients and how they have been incorporated in cellular systems is one of the most important questions in understanding the prebiotic origin of life. Herein, we have demonstrated a spatiotemporal pH gradient formation pattern on a hydrogel surface by employing two different enzymatic reactions, namely, the reactions of glucose oxidase (pH decreasing) and urease (pH increasing). We found here a generic pattern of spatiotemporal change in pH and proton transfer catalytic activity that was completely altered in a cationic gold nanoparticle containing hydrogel. In the absence of nanoparticles, the gradually generated macroscopic pH gradient slowly diminished with time, whereas the presence of nanoparticles helped to perpetuate the generated gradient effect. This behavior is due to the differential responsiveness of the interface of the cationic nanoparticle in temporally changing surroundings with increasing or decreasing pH or ionic contents. Moreover, the catalytic proton transfer ability of the nanoparticle showed a concerted kinetic response following the spatiotemporal pH dynamics in the gel matrix. Notably, this nanoparticle-driven spatiotemporally resolved gel matrix will find applicability in the area of the membrane-free generation and control of spatially segregated chemistry at the macroscopic scale. This work reports perpetuating effect in enzymatically generated spatiotemporal pH gradient across a hydrogel in presence of cationic gold nanoparticle; showing a new route in spatially resolved chemistry in a membrane-free environment.![]()
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Affiliation(s)
- Rishi Ram Mahato
- Department of Chemical Sciences, Indian Institute of Science Education and Research (IISER) Mohali Knowledge City, Manauli 140306 India
| | - Ekta Shandilya
- Department of Chemical Sciences, Indian Institute of Science Education and Research (IISER) Mohali Knowledge City, Manauli 140306 India
| | - Subhabrata Maiti
- Department of Chemical Sciences, Indian Institute of Science Education and Research (IISER) Mohali Knowledge City, Manauli 140306 India
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4
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Chen R, Neri S, Prins LJ. Enhanced catalytic activity under non-equilibrium conditions. NATURE NANOTECHNOLOGY 2020; 15:868-874. [PMID: 32690887 DOI: 10.1038/s41565-020-0734-1] [Citation(s) in RCA: 47] [Impact Index Per Article: 11.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/21/2020] [Accepted: 06/12/2020] [Indexed: 06/11/2023]
Abstract
The development of non-equilibrium synthetic systems provides access to innovative materials with life-like properties. Non-equilibrium systems require a continuous input of energy to retain their functional state, which makes for a fundamental difference to systems that operate at thermodynamic equilibrium. Kinetic asymmetry in the energy consumption pathway is required to drive systems out of equilibrium. This understanding has permitted chemists to design dissipative synthetic molecular machines and high-energy materials. Here we show that kinetic asymmetry also emerges at the macroscopic level by demonstrating that local energy delivery in the form of light to a hydrogel containing gold nanoparticles installs a non-equilibrium steady state. The instalment and maintenance of the macroscopic non-equilibrium state is facilitated by the gel matrix in which motion is governed by diffusion rather than convection. The non-equilibrium state is characterized by a persistent gradient in the surface composition of the nanoparticles embedded in the gel, which affects the fluorescent and catalytic properties of the system. We show that the overall catalytic performance of the system is enhanced under these non-equilibrium conditions. In perspective it will be possible to develop out-of-equilibrium matrices in which functional properties emerge as a result of spatially controlled energy delivery and spatially controlled chemistries.
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Affiliation(s)
- Rui Chen
- Department of Chemical Sciences, University of Padova, Padova, Italy
| | - Simona Neri
- Department of Chemical Sciences, University of Padova, Padova, Italy
| | - Leonard J Prins
- Department of Chemical Sciences, University of Padova, Padova, Italy.
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5
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Chandrabhas S, Maiti S, Fortunati I, Ferrante C, Gabrielli L, Prins LJ. Nucleotide-Selective Templated Self-Assembly of Nanoreactors under Dissipative Conditions. Angew Chem Int Ed Engl 2020; 59:22223-22229. [PMID: 32833254 DOI: 10.1002/anie.202010199] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/25/2020] [Indexed: 02/06/2023]
Abstract
Nature adopts complex chemical networks to finely tune biochemical processes. Indeed, small biomolecules play a key role in regulating the flux of metabolic pathways. Chemistry, which was traditionally focused on reactions in simple mixtures, is dedicating increasing attention to the network reactivity of highly complex synthetic systems, able to display new kinetic phenomena. Herein, we show that the addition of monophosphate nucleosides to a mixture of amphiphiles and reagents leads to the selective templated formation of self-assembled structures, which can accelerate a reaction between two hydrophobic reactants. The correct matching between nucleotide and the amphiphile head group is fundamental for the selective formation of the assemblies and for the consequent up-regulation of the chemical reaction. Transient stability of the nanoreactors is obtained under dissipative conditions, driven by enzymatic dephosphorylation of the templating nucleotides. These results show that small molecules can play a key role in modulating network reactivity, by selectively templating self-assembled structures that are able to up-regulate chemical reaction pathways.
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Affiliation(s)
- Sushmitha Chandrabhas
- Department of Chemical Sciences, University of Padova, Via Marzolo 1, 35131, Padova, Italy
| | - Subhabrata Maiti
- Department of Chemical Sciences, Indian Institute of Science Education and Research (IISER), Mohali Knowledge City, Manauli, 140306, India
| | - Ilaria Fortunati
- Department of Chemical Sciences, University of Padova, Via Marzolo 1, 35131, Padova, Italy
| | - Camilla Ferrante
- Department of Chemical Sciences, University of Padova, Via Marzolo 1, 35131, Padova, Italy
| | - Luca Gabrielli
- Department of Chemical Sciences, University of Padova, Via Marzolo 1, 35131, Padova, Italy
| | - Leonard J Prins
- Department of Chemical Sciences, University of Padova, Via Marzolo 1, 35131, Padova, Italy
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6
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Chandrabhas S, Maiti S, Fortunati I, Ferrante C, Gabrielli L, Prins LJ. Nucleotide‐Selective Templated Self‐Assembly of Nanoreactors under Dissipative Conditions. Angew Chem Int Ed Engl 2020. [DOI: 10.1002/ange.202010199] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
Affiliation(s)
- Sushmitha Chandrabhas
- Department of Chemical Sciences University of Padova Via Marzolo 1 35131 Padova Italy
| | - Subhabrata Maiti
- Department of Chemical Sciences Indian Institute of Science Education and Research (IISER) Mohali Knowledge City, Manauli 140306 India
| | - Ilaria Fortunati
- Department of Chemical Sciences University of Padova Via Marzolo 1 35131 Padova Italy
| | - Camilla Ferrante
- Department of Chemical Sciences University of Padova Via Marzolo 1 35131 Padova Italy
| | - Luca Gabrielli
- Department of Chemical Sciences University of Padova Via Marzolo 1 35131 Padova Italy
| | - Leonard J. Prins
- Department of Chemical Sciences University of Padova Via Marzolo 1 35131 Padova Italy
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7
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Factors Influencing the Activity of Nanozymes in the Cleavage of an RNA Model Substrate. Molecules 2019; 24:molecules24152814. [PMID: 31374998 PMCID: PMC6696475 DOI: 10.3390/molecules24152814] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/01/2019] [Revised: 07/25/2019] [Accepted: 07/30/2019] [Indexed: 11/16/2022] Open
Abstract
A series of 2-nm gold nanoparticles passivated with different thiols all featuring at least one triazacyclonanone-Zn(II) complex and different flanking units (a second Zn(II) complex, a triethyleneoxymethyl derivative or a guanidinium of arginine of a peptide) were prepared and studied for their efficiency in the cleavage of the RNA-model substrate 2-hydroxypropyl-p-nitrophenyl phosphate. The source of catalysis for each of them was elucidated from the kinetic analysis (Michaelis–Menten profiles, pH dependence and kinetic isotope effect). The data indicated that two different mechanisms were operative: One involving two Zn(II) complexes and the other one involving a single Zn(II) complex and a flanking guanidinium cation. The mechanism based on a dinuclear catalytic site appeared more efficient than the one based on the cooperativity between a metal complex and a guanidinium.
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8
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Solís Muñana P, Ragazzon G, Dupont J, Ren CZ, Prins LJ, Chen JL. Substrate-Induced Self-Assembly of Cooperative Catalysts. Angew Chem Int Ed Engl 2018; 57:16469-16474. [PMID: 30302870 PMCID: PMC7159596 DOI: 10.1002/anie.201810891] [Citation(s) in RCA: 64] [Impact Index Per Article: 10.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/21/2018] [Indexed: 12/12/2022]
Abstract
Dissipative self-assembly processes in nature rely on chemical fuels that activate proteins for assembly through the formation of a noncovalent complex. The catalytic activity of the assemblies causes fuel degradation, resulting in the formation of an assembly in a high-energy, out-of-equilibrium state. Herein, we apply this concept to a synthetic system and demonstrate that a substrate can induce the formation of vesicular assemblies, which act as cooperative catalysts for cleavage of the same substrate.
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Affiliation(s)
- Pablo Solís Muñana
- School of SciencesAuckland University of TechnologyPrivate Bag 92006Auckland1142New Zealand
| | - Giulio Ragazzon
- Department of Chemical SciencesUniversity of PadovaVia Marzolo 135131PadovaItaly
| | - Julien Dupont
- School of SciencesAuckland University of TechnologyPrivate Bag 92006Auckland1142New Zealand
| | - Chloe Z.‐J. Ren
- School of SciencesAuckland University of TechnologyPrivate Bag 92006Auckland1142New Zealand
| | - Leonard J. Prins
- Department of Chemical SciencesUniversity of PadovaVia Marzolo 135131PadovaItaly
| | - Jack L.‐Y. Chen
- School of SciencesAuckland University of TechnologyPrivate Bag 92006Auckland1142New Zealand
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9
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Solís Muñana P, Ragazzon G, Dupont J, Ren CZJ, Prins LJ, Chen JLY. Substrate-Induced Self-Assembly of Cooperative Catalysts. ANGEWANDTE CHEMIE (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2018; 130:16707-16712. [PMID: 32313321 PMCID: PMC7159549 DOI: 10.1002/ange.201810891] [Citation(s) in RCA: 32] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/21/2018] [Indexed: 11/22/2022]
Abstract
Dissipative self-assembly processes in nature rely on chemical fuels that activate proteins for assembly through the formation of a noncovalent complex. The catalytic activity of the assemblies causes fuel degradation, resulting in the formation of an assembly in a high-energy, out-of-equilibrium state. Herein, we apply this concept to a synthetic system and demonstrate that a substrate can induce the formation of vesicular assemblies, which act as cooperative catalysts for cleavage of the same substrate.
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Affiliation(s)
- Pablo Solís Muñana
- School of Sciences Auckland University of Technology Private Bag 92006 Auckland 1142 New Zealand
| | - Giulio Ragazzon
- Department of Chemical Sciences University of Padova Via Marzolo 1 35131 Padova Italy
| | - Julien Dupont
- School of Sciences Auckland University of Technology Private Bag 92006 Auckland 1142 New Zealand
| | - Chloe Z-J Ren
- School of Sciences Auckland University of Technology Private Bag 92006 Auckland 1142 New Zealand
| | - Leonard J Prins
- Department of Chemical Sciences University of Padova Via Marzolo 1 35131 Padova Italy
| | - Jack L-Y Chen
- School of Sciences Auckland University of Technology Private Bag 92006 Auckland 1142 New Zealand
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10
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Pezzato C, Chen JLY, Galzerano P, Salvi M, Prins LJ. Catalytic signal amplification for the discrimination of ATP and ADP using functionalised gold nanoparticles. Org Biomol Chem 2018; 14:6811-20. [PMID: 27336846 DOI: 10.1039/c6ob00993j] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Diagnostic assays that incorporate a signal amplification mechanism permit the detection of analytes with enhanced selectivity. Herein, we report a gold nanoparticle-based chemical system able to differentiate ATP from ADP by means of catalytic signal amplification. The discrimination between ATP and ADP is of relevance for the development of universal assays for the detection of enzymes which consume ATP. For example, protein kinases are a class of enzymes critical for the regulation of cellular functions, and act to modulate the activity of other proteins by transphosphorylation, transferring a phosphate group from ATP to give ADP as a byproduct. The system described here exploits the ability of cooperative catalytic head groups on gold nanoparticles to very efficiently catalyze chromogenic reactions such as the transphosphorylation of 2-hydroxypropyl-4-nitrophenyl phosphate (HPNPP). A series of chromogenic substrates have been synthesized and evaluated by means of Michaelis-Menten kinetics (compounds 2, 4-6). 2-Hydroxypropyl-(3-trifluoromethyl-4-nitro)phenyl phosphate (5) was found to display higher reactivity (kcat) and higher binding affinity (KM) when compared to HPNPP. This higher binding affinity allows phosphate 5 to compete with ATP and ADP to different extents for binding on the monolayer surface, thus enabling a catalytically amplified signal only when ATP is absent. Overall, this represents a viable new approach for monitoring the conversion of ATP into ADP with high sensitivity.
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Affiliation(s)
- Cristian Pezzato
- Department of Chemical Sciences, University of Padova, Via Marzolo 1, 35131 Padova, Italy.
| | - Jack L-Y Chen
- Department of Chemical Sciences, University of Padova, Via Marzolo 1, 35131 Padova, Italy.
| | - Patrizia Galzerano
- Department of Chemical Sciences, University of Padova, Via Marzolo 1, 35131 Padova, Italy.
| | - Michela Salvi
- Department of Chemical Sciences, University of Padova, Via Marzolo 1, 35131 Padova, Italy.
| | - Leonard J Prins
- Department of Chemical Sciences, University of Padova, Via Marzolo 1, 35131 Padova, Italy.
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11
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della Sala F, Maiti S, Bonanni A, Scrimin P, Prins LJ. Fuel-Selective Transient Activation of Nanosystems for Signal Generation. Angew Chem Int Ed Engl 2018; 57:1611-1615. [DOI: 10.1002/anie.201711964] [Citation(s) in RCA: 45] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/21/2017] [Revised: 12/18/2017] [Indexed: 11/06/2022]
Affiliation(s)
- Flavio della Sala
- Department of Chemical Sciences; University of Padova; Via Marzolo 1 35131 Padova Italy
| | - Subhabrata Maiti
- Current address: Department of Chemistry; The Pennsylvania State University; University Park PA USA
| | - Andrea Bonanni
- Department of Chemical Sciences; University of Padova; Via Marzolo 1 35131 Padova Italy
| | - Paolo Scrimin
- Department of Chemical Sciences; University of Padova; Via Marzolo 1 35131 Padova Italy
| | - Leonard J. Prins
- Department of Chemical Sciences; University of Padova; Via Marzolo 1 35131 Padova Italy
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12
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della Sala F, Maiti S, Bonanni A, Scrimin P, Prins LJ. Fuel-Selective Transient Activation of Nanosystems for Signal Generation. Angew Chem Int Ed Engl 2018. [DOI: 10.1002/ange.201711964] [Citation(s) in RCA: 29] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- Flavio della Sala
- Department of Chemical Sciences; University of Padova; Via Marzolo 1 35131 Padova Italy
| | - Subhabrata Maiti
- Current address: Department of Chemistry; The Pennsylvania State University; University Park PA USA
| | - Andrea Bonanni
- Department of Chemical Sciences; University of Padova; Via Marzolo 1 35131 Padova Italy
| | - Paolo Scrimin
- Department of Chemical Sciences; University of Padova; Via Marzolo 1 35131 Padova Italy
| | - Leonard J. Prins
- Department of Chemical Sciences; University of Padova; Via Marzolo 1 35131 Padova Italy
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13
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Chen JLY, Maiti S, Fortunati I, Ferrante C, Prins LJ. Temporal Control over Transient Chemical Systems using Structurally Diverse Chemical Fuels. Chemistry 2017; 23:11549-11559. [DOI: 10.1002/chem.201701533] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/06/2017] [Indexed: 01/28/2023]
Affiliation(s)
- Jack L.-Y. Chen
- School of Science; Auckland University of Technology; 34 St Paul St Auckland 1010 New Zealand
| | - Subhabrata Maiti
- Department of Chemical Sciences; University of Padova; Via Marzolo 1 35131 Padova Italy
| | - Ilaria Fortunati
- Department of Chemical Sciences; University of Padova; Via Marzolo 1 35131 Padova Italy
| | - Camilla Ferrante
- Department of Chemical Sciences; University of Padova; Via Marzolo 1 35131 Padova Italy
| | - Leonard J. Prins
- Department of Chemical Sciences; University of Padova; Via Marzolo 1 35131 Padova Italy
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14
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Wang F, Ju E, Guan Y, Ren J, Qu X. Light-Mediated Reversible Modulation of ROS Level in Living Cells by Using an Activity-Controllable Nanozyme. SMALL (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2017; 13:1603051. [PMID: 28508454 DOI: 10.1002/smll.201603051] [Citation(s) in RCA: 51] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/12/2016] [Revised: 03/24/2017] [Indexed: 05/18/2023]
Abstract
Nanozymes have shown great potential in bioapplications owing to their low cost, high stability, multiple activity, and biocompatibility. However, most of the known nanozymes are always at turn-on state, hindering their further applications. Herein, a simple and versatile method for constructing activity-controllable nanozymes is presented. To the best of our knowledge, this is the first report to utilize the light-driven isomerization of azobenzene (Azo) and host-guest interaction to reversibly photoregulating the activity of nanozyme. Gold nanoparticles as a typical catalase-mimic nanozyme are used in this design. The expanded Azo-modified mesoporous silica is employed as supported material to encapsulate and disperse Au nanoparticles, which further combines with cyclodextrin (CD). The catalytic activity of the nanozyme is blocked by CD and can be activated or inhibited reversibly by UV or visible light. The results indicated that the nanozyme can reversibly regulate reactive oxygen species (ROS) level in extracellular and intracellular environment for multiple cycles and change cell viability by simply changing the irradiated light. This is a general method and can be adapted to construct various smart nanozymes with highly spatiotemporal resolution.
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Affiliation(s)
- Faming Wang
- Laboratory of Chemical Biology and State Key Laboratory of Rare Earth Resource Utilization, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun, Jilin, 130022, China
- University of Chinese Academy of Sciences, Beijing, 100039, China
| | - Enguo Ju
- Laboratory of Chemical Biology and State Key Laboratory of Rare Earth Resource Utilization, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun, Jilin, 130022, China
- University of Chinese Academy of Sciences, Beijing, 100039, China
| | - Yijia Guan
- Laboratory of Chemical Biology and State Key Laboratory of Rare Earth Resource Utilization, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun, Jilin, 130022, China
- University of Chinese Academy of Sciences, Beijing, 100039, China
| | - Jinsong Ren
- Laboratory of Chemical Biology and State Key Laboratory of Rare Earth Resource Utilization, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun, Jilin, 130022, China
| | - Xiaogang Qu
- Laboratory of Chemical Biology and State Key Laboratory of Rare Earth Resource Utilization, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun, Jilin, 130022, China
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15
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Diez-Castellnou M, Salvia MV, Springhetti S, Rastrelli F, Mancin F. Nanoparticle-Assisted Affinity NMR Spectroscopy: High Sensitivity Detection and Identification of Organic Molecules. Chemistry 2016; 22:16957-16963. [DOI: 10.1002/chem.201603578] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/28/2016] [Indexed: 11/06/2022]
Affiliation(s)
- Marta Diez-Castellnou
- Dipartimento di Scienze Chimiche; Università degli Studi di Padova; via Marzolo 1 35131 Padova Italy
| | - Marie-Virginie Salvia
- Dipartimento di Scienze Chimiche; Università degli Studi di Padova; via Marzolo 1 35131 Padova Italy
- Laboratoire d'Excellence “CORAIL”; Université de Perpignan; 58 Avenue Paul Alduy 66860 Perpignan Cedex France
| | - Sara Springhetti
- Dipartimento di Scienze Chimiche; Università degli Studi di Padova; via Marzolo 1 35131 Padova Italy
| | - Federico Rastrelli
- Dipartimento di Scienze Chimiche; Università degli Studi di Padova; via Marzolo 1 35131 Padova Italy
| | - Fabrizio Mancin
- Dipartimento di Scienze Chimiche; Università degli Studi di Padova; via Marzolo 1 35131 Padova Italy
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16
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Chen Z, Ji H, Liu C, Bing W, Wang Z, Qu X. A Multinuclear Metal Complex Based DNase-Mimetic Artificial Enzyme: Matrix Cleavage for Combating Bacterial Biofilms. Angew Chem Int Ed Engl 2016; 55:10732-6. [PMID: 27484616 DOI: 10.1002/anie.201605296] [Citation(s) in RCA: 150] [Impact Index Per Article: 18.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2016] [Revised: 07/04/2016] [Indexed: 12/18/2022]
Abstract
Extracellular DNA (eDNA) is an essential structural component during biofilm formation, including initial bacterial adhesion, subsequent development, and final maturation. Herein, the construction of a DNase-mimetic artificial enzyme (DMAE) for anti-biofilm applications is described. By confining passivated gold nanoparticles with multiple cerium(IV) complexes on the surface of colloidal magnetic Fe3 O4 /SiO2 core/shell particles, a robust and recoverable artificial enzyme with DNase-like activity was obtained, which exhibited high cleavage ability towards both model substrates and eDNA. Compared to the high environmental sensitivity of natural DNase in anti-biofilm applications, DMAE exhibited a much better operational stability and easier recoverability. When DMAE was coated on substratum surfaces, biofilm formation was inhibited for prolonged periods of time, and the DMAE excelled in the dispersion of established biofilms of various ages. Finally, the presence of DMAE remarkably potentiated the efficiency of traditional antibiotics to kill biofilm-encased bacteria and eradiate biofilms.
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Affiliation(s)
- Zhaowei Chen
- Laboratory of Chemical Biology and State Key Laboratory of Rare Earth Resources Utilization, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun, Jilin, 130022, China.,University of Chinese Academy of Sciences, Beijing, 100039, China.,Joint Department of Biomedical Engineering, University of North Carolina at Chapel Hill and North Carolina State University, Raleigh, NC, 27695, USA
| | - Haiwei Ji
- Laboratory of Chemical Biology and State Key Laboratory of Rare Earth Resources Utilization, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun, Jilin, 130022, China.,University of Chinese Academy of Sciences, Beijing, 100039, China
| | - Chaoqun Liu
- Laboratory of Chemical Biology and State Key Laboratory of Rare Earth Resources Utilization, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun, Jilin, 130022, China.,University of Chinese Academy of Sciences, Beijing, 100039, China
| | - Wei Bing
- Laboratory of Chemical Biology and State Key Laboratory of Rare Earth Resources Utilization, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun, Jilin, 130022, China.,University of Chinese Academy of Sciences, Beijing, 100039, China
| | - Zhenzhen Wang
- Laboratory of Chemical Biology and State Key Laboratory of Rare Earth Resources Utilization, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun, Jilin, 130022, China.,University of Chinese Academy of Sciences, Beijing, 100039, China
| | - Xiaogang Qu
- Laboratory of Chemical Biology and State Key Laboratory of Rare Earth Resources Utilization, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun, Jilin, 130022, China.
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17
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Chen Z, Ji H, Liu C, Bing W, Wang Z, Qu X. A Multinuclear Metal Complex Based DNase-Mimetic Artificial Enzyme: Matrix Cleavage for Combating Bacterial Biofilms. Angew Chem Int Ed Engl 2016. [DOI: 10.1002/ange.201605296] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
Affiliation(s)
- Zhaowei Chen
- Laboratory of Chemical Biology and State Key Laboratory of Rare Earth Resources Utilization; Changchun Institute of Applied Chemistry; Chinese Academy of Sciences; Changchun Jilin 130022 China
- University of Chinese Academy of Sciences; Beijing 100039 China
- Joint Department of Biomedical Engineering; University of North Carolina at Chapel Hill and North Carolina State University; Raleigh NC 27695 USA
| | - Haiwei Ji
- Laboratory of Chemical Biology and State Key Laboratory of Rare Earth Resources Utilization; Changchun Institute of Applied Chemistry; Chinese Academy of Sciences; Changchun Jilin 130022 China
- University of Chinese Academy of Sciences; Beijing 100039 China
| | - Chaoqun Liu
- Laboratory of Chemical Biology and State Key Laboratory of Rare Earth Resources Utilization; Changchun Institute of Applied Chemistry; Chinese Academy of Sciences; Changchun Jilin 130022 China
- University of Chinese Academy of Sciences; Beijing 100039 China
| | - Wei Bing
- Laboratory of Chemical Biology and State Key Laboratory of Rare Earth Resources Utilization; Changchun Institute of Applied Chemistry; Chinese Academy of Sciences; Changchun Jilin 130022 China
- University of Chinese Academy of Sciences; Beijing 100039 China
| | - Zhenzhen Wang
- Laboratory of Chemical Biology and State Key Laboratory of Rare Earth Resources Utilization; Changchun Institute of Applied Chemistry; Chinese Academy of Sciences; Changchun Jilin 130022 China
- University of Chinese Academy of Sciences; Beijing 100039 China
| | - Xiaogang Qu
- Laboratory of Chemical Biology and State Key Laboratory of Rare Earth Resources Utilization; Changchun Institute of Applied Chemistry; Chinese Academy of Sciences; Changchun Jilin 130022 China
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18
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Abstract
Complexation-to-deaggregation effect of cyclodextrin was applied to achieve ordered functional monolayers on a gold surface.
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Affiliation(s)
- Ruyi Sun
- School of Chemistry and Molecular Engineering
- East China Normal University
- Shanghai 200241
- China
| | - Liangliang Zhu
- State Key Laboratory of Molecular Engineering of Polymers
- Department of Macromolecular Science
- Fudan University
- Shanghai 200433
- China
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19
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Rawat KA, Majithiya RP, Rohit JV, Basu H, Singhal RK, Kailasa SK. Mg2+ ion as a tuner for colorimetric sensing of glyphosate with improved sensitivity via the aggregation of 2-mercapto-5-nitrobenzimidazole capped silver nanoparticles. RSC Adv 2016. [DOI: 10.1039/c6ra06450g] [Citation(s) in RCA: 33] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
The sensitivity of MNBZ-Ag NPs was greatly improved by integrating Mg2+ ion as trigger that can capture the glyphosate at nanomolar concentration with high selectivity.
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Affiliation(s)
- Karuna A. Rawat
- Department of Applied Chemistry
- S. V. National Institute of Technology
- Surat-395 007
- India
| | - Rutuben P. Majithiya
- Department of Applied Chemistry
- S. V. National Institute of Technology
- Surat-395 007
- India
| | - Jigneshkumar V. Rohit
- Department of Applied Chemistry
- S. V. National Institute of Technology
- Surat-395 007
- India
| | - Hirakendu Basu
- Analytical Chemistry Division
- Bhabha Atomic Research Center
- Mumbai 400085
- India
| | | | - Suresh Kumar Kailasa
- Department of Applied Chemistry
- S. V. National Institute of Technology
- Surat-395 007
- India
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20
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Shemesh Y, Yavin E. Postsynthetic conjugation of RNA to carboxylate and dicarboxylate molecules. NUCLEOSIDES NUCLEOTIDES & NUCLEIC ACIDS 2015; 34:753-62. [PMID: 26422297 DOI: 10.1080/15257770.2015.1073299] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Key Words] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
Abstract
Carboxylates and dicarboxylates are important phosphate mimics. Herein, we present a simple synthetic route for the preparation of RNA carboxylate/dicarboxylate conjugates, starting from suitably protected NH2- and COOH-containing molecules that are coupled to the RNA on the solid support. The key point in our method was the use of trimethylsilylethanol (TMSE-OH) protecting group, which is removed simultaneously with the silyl protecting group on the 2'-OH of the RNA ribose (e.g. t-Butyldimethylsilyl) during the final RNA cleavage/deprotection steps. The usefulness of this method was demonstrated by preparing different RNA-phosphate mimics oligos.
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Affiliation(s)
- Yossi Shemesh
- a School of Pharmacy, The Hebrew University of Jerusalem , Hadassah Ein-Kerem , Jerusalem , Israel
| | - Eylon Yavin
- a School of Pharmacy, The Hebrew University of Jerusalem , Hadassah Ein-Kerem , Jerusalem , Israel
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21
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Abstract
In many origin-of-life scenarios, inorganic materials, such as FeS or mineral clays, play an important role owing to their ability to concentrate and select small organic molecules on their surface and facilitate their chemical transformations into new molecules. However, considering that life is made up of organic matter, at a certain stage during the evolution the role of the inorganic material must have been taken over by organic molecules. How this exactly happened is unclear, and, indeed, a big gap separates the rudimentary level of organization involving inorganic materials and the complex organization of cells, which are the building blocks of life. Over the past years, we have extensively studied the interaction of small molecules with monolayer-protected gold nanoparticles (Au NPs) for the purpose of developing innovative sensing and catalytic systems. During the course of these studies, we realized that the functional role of this system is very similar to that typically attributed to inorganic surfaces in the early stages of life, with the important being difference that the functional properties (molecular recognition, catalysis, signaling, adaptation) originate entirely from the organic monolayer rather than the inorganic support. This led us to the proposition that this system may serve as a model that illustrates how the important role of inorganic surfaces in dictating chemical processes in the early stages of life may have been taken over by organic matter. Here, we reframe our previously obtained results in the context of the origin-of-life question. The following functional roles of Au NPs will be discussed: the ability to concentrate small molecules and create different local populations, the ability to catalyze the chemical transformation of bound molecules, and, finally, the ability to install rudimentary signaling pathways and display primitive adaptive behavior. In particular, we will show that many of the functional properties of the system originate from two features: the presence of metal ions that are complexed in the organic monolayer and the multivalent nature of the system. Complexed metal ions play an important role in determining the affinity and selectivity of the interaction with small molecules, but serve also as regulatory elements for determining how many molecules are bound simultaneously. Importantly, neighboring metal ion complexes also create catalytic pockets in which two metal ions cooperatively catalyze the cleavage of an RNA-model compound. The multivalent nature of the system permits multiple noncovalent interactions with small molecules that enhances the affinity, but is also at the basis of simple signal transduction pathways and adaptive behavior.
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Affiliation(s)
- Leonard J. Prins
- Department of Chemical Sciences, University of Padova, Via Marzolo 1, 35131 Padova, Italy
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22
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della Sala F, Kay ER. Reversible Control of Nanoparticle Functionalization and Physicochemical Properties by Dynamic Covalent Exchange. ANGEWANDTE CHEMIE (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2015; 127:4261-4265. [PMID: 27346895 PMCID: PMC4902120 DOI: 10.1002/ange.201409602] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/01/2014] [Revised: 11/28/2014] [Indexed: 12/21/2022]
Abstract
Existing methods for the covalent functionalization of nanoparticles rely on kinetically controlled reactions, and largely lack the sophistication of the preeminent oligonucleotide-based noncovalent strategies. Here we report the application of dynamic covalent chemistry for the reversible modification of nanoparticle (NP) surface functionality, combining the benefits of non-biomolecular covalent chemistry with the favorable features of equilibrium processes. A homogeneous monolayer of nanoparticle-bound hydrazones can undergo quantitative dynamic covalent exchange. The pseudomolecular nature of the NP system allows for the in situ characterization of surface-bound species, and real-time tracking of the exchange reactions. Furthermore, dynamic covalent exchange offers a simple approach for reversibly switching-and subtly tuning-NP properties such as solvophilicity.
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Affiliation(s)
- Flavio della Sala
- EaStCHEM School of Chemistry, University of St Andrews, North Haugh, St Andrews KY16 9ST (UK)
| | - Euan R. Kay
- EaStCHEM School of Chemistry, University of St Andrews, North Haugh, St Andrews KY16 9ST (UK)
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23
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della Sala F, Kay ER. Reversible control of nanoparticle functionalization and physicochemical properties by dynamic covalent exchange. Angew Chem Int Ed Engl 2015; 54:4187-91. [PMID: 25973468 PMCID: PMC4409818 DOI: 10.1002/anie.201409602] [Citation(s) in RCA: 51] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/01/2014] [Accepted: 11/28/2014] [Indexed: 01/18/2023]
Abstract
Existing methods for the covalent functionalization of nanoparticles rely on kinetically controlled reactions, and largely lack the sophistication of the preeminent oligonucleotide-based noncovalent strategies. Here we report the application of dynamic covalent chemistry for the reversible modification of nanoparticle (NP) surface functionality, combining the benefits of non-biomolecular covalent chemistry with the favorable features of equilibrium processes. A homogeneous monolayer of nanoparticle-bound hydrazones can undergo quantitative dynamic covalent exchange. The pseudomolecular nature of the NP system allows for the in situ characterization of surface-bound species, and real-time tracking of the exchange reactions. Furthermore, dynamic covalent exchange offers a simple approach for reversibly switching—and subtly tuning—NP properties such as solvophilicity.
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Affiliation(s)
- Flavio della Sala
- EaStCHEM School of Chemistry, University of St Andrews
North HaughSt Andrews KY16 9ST (UK)
| | - Euan R Kay
- EaStCHEM School of Chemistry, University of St Andrews
North HaughSt Andrews KY16 9ST (UK)
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24
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Nowak P, Saggiomo V, Salehian F, Colomb-Delsuc M, Han Y, Otto S. Localized Template-Driven Functionalization of Nanoparticles by Dynamic Combinatorial Chemistry. Angew Chem Int Ed Engl 2015; 54:4192-7. [DOI: 10.1002/anie.201409667] [Citation(s) in RCA: 39] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/01/2014] [Revised: 01/21/2015] [Indexed: 12/18/2022]
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25
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Nowak P, Saggiomo V, Salehian F, Colomb-Delsuc M, Han Y, Otto S. Localized Template-Driven Functionalization of Nanoparticles by Dynamic Combinatorial Chemistry. Angew Chem Int Ed Engl 2015. [DOI: 10.1002/ange.201409667] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
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26
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Salvia MV, Ramadori F, Springhetti S, Diez-Castellnou M, Perrone B, Rastrelli F, Mancin F. Nanoparticle-Assisted NMR Detection of Organic Anions: From Chemosensing to Chromatography. J Am Chem Soc 2015; 137:886-92. [DOI: 10.1021/ja511205e] [Citation(s) in RCA: 48] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Marie-Virginie Salvia
- Università di Padova, Dipartimento di Scienze Chimiche, via Marzolo 1, Padova, Italy
| | - Federico Ramadori
- Università di Padova, Dipartimento di Scienze Chimiche, via Marzolo 1, Padova, Italy
| | - Sara Springhetti
- Università di Padova, Dipartimento di Scienze Chimiche, via Marzolo 1, Padova, Italy
| | - Marta Diez-Castellnou
- Università di Padova, Dipartimento di Scienze Chimiche, via Marzolo 1, Padova, Italy
| | - Barbara Perrone
- Università di Padova, Dipartimento di Scienze Chimiche, via Marzolo 1, Padova, Italy
| | - Federico Rastrelli
- Università di Padova, Dipartimento di Scienze Chimiche, via Marzolo 1, Padova, Italy
| | - Fabrizio Mancin
- Università di Padova, Dipartimento di Scienze Chimiche, via Marzolo 1, Padova, Italy
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27
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Pezzato C, Maiti S, Chen JLY, Cazzolaro A, Gobbo C, Prins LJ. Monolayer protected gold nanoparticles with metal-ion binding sites: functional systems for chemosensing applications. Chem Commun (Camb) 2015; 51:9922-31. [DOI: 10.1039/c5cc00814j] [Citation(s) in RCA: 54] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Abstract
Au NPs containing binding sites for metal ions in the monolayer are attractive components of sensing assays.
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Affiliation(s)
- C. Pezzato
- Department of Chemical Sciences
- University of Padova
- 35131 Padova
- Italy
| | - S. Maiti
- Department of Chemical Sciences
- University of Padova
- 35131 Padova
- Italy
| | - J. L.-Y. Chen
- Department of Chemical Sciences
- University of Padova
- 35131 Padova
- Italy
| | - A. Cazzolaro
- Department of Chemical Sciences
- University of Padova
- 35131 Padova
- Italy
| | - C. Gobbo
- Department of Chemical Sciences
- University of Padova
- 35131 Padova
- Italy
| | - L. J. Prins
- Department of Chemical Sciences
- University of Padova
- 35131 Padova
- Italy
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