1
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Ranganath VA, Maity I. Artificial Homeostasis Systems Based on Feedback Reaction Networks: Design Principles and Future Promises. Angew Chem Int Ed Engl 2024; 63:e202318134. [PMID: 38226567 DOI: 10.1002/anie.202318134] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/28/2023] [Revised: 01/15/2024] [Accepted: 01/16/2024] [Indexed: 01/17/2024]
Abstract
Feedback-controlled chemical reaction networks (FCRNs) are indispensable for various biological processes, such as cellular mechanisms, patterns, and signaling pathways. Through the intricate interplay of many feedback loops (FLs), FCRNs maintain a stable internal cellular environment. Currently, creating minimalistic synthetic cells is the long-term objective of systems chemistry, which is motivated by such natural integrity. The design, kinetic optimization, and analysis of FCRNs to exhibit functions akin to those of a cell still pose significant challenges. Indeed, reaching synthetic homeostasis is essential for engineering synthetic cell components. However, maintaining homeostasis in artificial systems against various agitations is a difficult task. Several biological events can provide us with guidelines for a conceptual understanding of homeostasis, which can be further applicable in designing artificial synthetic systems. In this regard, we organize our review with artificial homeostasis systems driven by FCRNs at different length scales, including homogeneous, compartmentalized, and soft material systems. First, we stretch a quick overview of FCRNs in different molecular and supramolecular systems, which are the essential toolbox for engineering different nonlinear functions and homeostatic systems. Moreover, the existing history of synthetic homeostasis in chemical and material systems and their advanced functions with self-correcting, and regulating properties are also emphasized.
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Affiliation(s)
- Vinay Ambekar Ranganath
- Centre for Nano and Material Sciences, Jain (Deemed-to-be University), Jain Global Campus, Bangalore, 562112, Karnataka, India
| | - Indrajit Maity
- Centre for Nano and Material Sciences, Jain (Deemed-to-be University), Jain Global Campus, Bangalore, 562112, Karnataka, India
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2
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Buzzaccaro S, Ruzzi V, Gelain F, Piazza R. A Light Scattering Investigation of Enzymatic Gelation in Self-Assembling Peptides. Gels 2023; 9:gels9040347. [PMID: 37102959 PMCID: PMC10137429 DOI: 10.3390/gels9040347] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/14/2023] [Revised: 04/08/2023] [Accepted: 04/13/2023] [Indexed: 04/28/2023] Open
Abstract
Self-assembling peptides (SAPs) have been increasingly studied as hydrogel-former gelators because they can create biocompatible environments. A common strategy to trigger gelation, is to use a pH variation, but most methods result in a change in pH that is too rapid, leading to gels with hardly reproducible properties. Here, we use the urea-urease reaction to tune gel properties, by a slow and uniform pH increase. We were able to produce very homogeneous and transparent gels at several SAP concentrations, ranging from c=1g/L to c=10g/L. In addition, by exploiting such a pH control strategy, and combining photon correlation imaging with dynamic light scattering measurements, we managed to unravel the mechanism by which gelation occurs in solutions of (LDLK)3-based SAPs. We found that, in diluted and concentrated solutions, gelation follows different pathways. This leads to gels with different microscopic dynamics and capability of trapping nanoparticles. At high concentrations, a strong gel is formed, made of relatively thick and rigid branches that firmly entrap nanoparticles. By contrast, the gel formed in dilute conditions is weaker, characterized by entanglements and crosslinks of very thin and flexible filaments. The gel is still able to entrap nanoparticles, but their motion is not completely arrested. These different gel morphologies can potentially be exploited for controlled multiple drug release.
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Affiliation(s)
- Stefano Buzzaccaro
- Department of Chemistry, Materials Science, and Chemical Engineering (CMIC), Politecnico di Milano, Edificio 6, Piazza Leonardo da Vinci 32, 20133 Milano, Italy
| | - Vincenzo Ruzzi
- Department of Chemistry, Materials Science, and Chemical Engineering (CMIC), Politecnico di Milano, Edificio 6, Piazza Leonardo da Vinci 32, 20133 Milano, Italy
| | - Fabrizio Gelain
- Unità di Ingegneria Tissutale, Fondazione IRCCS Casa Sollievo della Sofferenza, 71013 San Giovanni Rotondo, Italy
- Center for Nanomedicine and Tissue Engineering, ASST GOM Niguarda, 20162 Milano, Italy
| | - Roberto Piazza
- Department of Chemistry, Materials Science, and Chemical Engineering (CMIC), Politecnico di Milano, Edificio 6, Piazza Leonardo da Vinci 32, 20133 Milano, Italy
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3
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Sharma C, Maity I, Walther A. pH-feedback systems to program autonomous self-assembly and material lifecycles. Chem Commun (Camb) 2023; 59:1125-1144. [PMID: 36629372 DOI: 10.1039/d2cc06402b] [Citation(s) in RCA: 14] [Impact Index Per Article: 14.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
Abstract
pH-responsive systems have gained importance for the development of smart materials and for biomedical applications because they can switch between different states by simple acid/base triggers. However, such equilibrium systems lack the autonomous behaviour that is so ubiquitous in living systems that self-regulate out of equilibrium. As a contribution to the emerging field of autonomous chemical systems, we have developed pH-feedback systems (pH-FS) based on the coupling of acid- and base-producing steps in chemical reaction networks. The resulting autonomous nonlinear pH curves can be coupled with a variety of pH-sensitive building blocks to program the lifecycles of the associated transient state at the level of self-assemblies and material systems. In this article, we discuss the different generations of such pH-feedback systems, the principles of their coupling to self-assemblies with lifecycles and highlight emerging concepts for the design of autonomous functional materials. The specificity, robustness, and flexible operation of such pH-FS can also be used to realize chemo-structural and chemo-mechanical feedbacks that extend the behaviour of such materials systems toward complex and functional life-like systems.
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Affiliation(s)
- Charu Sharma
- Life-Like Materials and Systems, Department of Chemistry, University of Mainz, Duesbergweg 10-14, 55128 Mainz, Germany.
| | - Indrajit Maity
- Life-Like Materials and Systems, Department of Chemistry, University of Mainz, Duesbergweg 10-14, 55128 Mainz, Germany.
| | - Andreas Walther
- Life-Like Materials and Systems, Department of Chemistry, University of Mainz, Duesbergweg 10-14, 55128 Mainz, Germany.
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4
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Rifaie-Graham O, Yeow J, Najer A, Wang R, Sun R, Zhou K, Dell TN, Adrianus C, Thanapongpibul C, Chami M, Mann S, de Alaniz JR, Stevens MM. Photoswitchable gating of non-equilibrium enzymatic feedback in chemically communicating polymersome nanoreactors. Nat Chem 2023; 15:110-118. [PMID: 36344820 PMCID: PMC9836937 DOI: 10.1038/s41557-022-01062-4] [Citation(s) in RCA: 20] [Impact Index Per Article: 20.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/09/2021] [Accepted: 09/14/2022] [Indexed: 11/09/2022]
Abstract
The circadian rhythm generates out-of-equilibrium metabolite oscillations that are controlled by feedback loops under light/dark cycles. Here we describe a non-equilibrium nanosystem comprising a binary population of enzyme-containing polymersomes capable of light-gated chemical communication, controllable feedback and coupling to macroscopic oscillations. The populations consist of esterase-containing polymersomes functionalized with photo-responsive donor-acceptor Stenhouse adducts (DASA) and light-insensitive semipermeable urease-loaded polymersomes. The DASA-polymersome membrane becomes permeable under green light, switching on esterase activity and decreasing the pH, which in turn initiates the production of alkali in the urease-containing population. A pH-sensitive pigment that absorbs green light when protonated provides a negative feedback loop for deactivating the DASA-polymersomes. Simultaneously, increased alkali production deprotonates the pigment, reactivating esterase activity by opening the membrane gate. We utilize light-mediated fluctuations of pH to perform non-equilibrium communication between the nanoreactors and use the feedback loops to induce work as chemomechanical swelling/deswelling oscillations in a crosslinked hydrogel. We envision possible applications in artificial organelles, protocells and soft robotics.
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Affiliation(s)
- Omar Rifaie-Graham
- grid.7445.20000 0001 2113 8111Department of Materials, Department of Bioengineering and Institute of Biomedical Engineering, Imperial College London, London, UK
| | - Jonathan Yeow
- grid.7445.20000 0001 2113 8111Department of Materials, Department of Bioengineering and Institute of Biomedical Engineering, Imperial College London, London, UK
| | - Adrian Najer
- grid.7445.20000 0001 2113 8111Department of Materials, Department of Bioengineering and Institute of Biomedical Engineering, Imperial College London, London, UK
| | - Richard Wang
- grid.7445.20000 0001 2113 8111Department of Materials, Department of Bioengineering and Institute of Biomedical Engineering, Imperial College London, London, UK
| | - Rujie Sun
- grid.7445.20000 0001 2113 8111Department of Materials, Department of Bioengineering and Institute of Biomedical Engineering, Imperial College London, London, UK
| | - Kun Zhou
- grid.7445.20000 0001 2113 8111Department of Materials, Department of Bioengineering and Institute of Biomedical Engineering, Imperial College London, London, UK
| | - Tristan N. Dell
- grid.7445.20000 0001 2113 8111Department of Materials, Department of Bioengineering and Institute of Biomedical Engineering, Imperial College London, London, UK
| | - Christopher Adrianus
- grid.7445.20000 0001 2113 8111Department of Materials, Department of Bioengineering and Institute of Biomedical Engineering, Imperial College London, London, UK
| | - Chalaisorn Thanapongpibul
- grid.7445.20000 0001 2113 8111Department of Materials, Department of Bioengineering and Institute of Biomedical Engineering, Imperial College London, London, UK
| | - Mohamed Chami
- grid.6612.30000 0004 1937 0642BioEM lab, Biozentrum, University of Basel, Basel, Switzerland
| | - Stephen Mann
- grid.5337.20000 0004 1936 7603Centre for Protolife Research and Centre for Organized Matter Chemistry, School of Chemistry, University of Bristol, Bristol, UK ,grid.16821.3c0000 0004 0368 8293School of Materials Science and Engineering, Shanghai Jiao Tong University, Shanghai, China ,grid.5337.20000 0004 1936 7603Max Planck-Bristol Centre for Minimal Biology, School of Chemistry, University of Bristol, Bristol, UK
| | - Javier Read de Alaniz
- grid.133342.40000 0004 1936 9676Department of Chemistry and Biochemistry, University of California, Santa Barbara, CA USA
| | - Molly M. Stevens
- grid.7445.20000 0001 2113 8111Department of Materials, Department of Bioengineering and Institute of Biomedical Engineering, Imperial College London, London, UK
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5
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Zhao T, E Y, Cui J, Hao J, Wang X. Nonequilibrium regulation of interfacial chemistry for transient macroscopic supramolecular assembly. J Colloid Interface Sci 2022. [DOI: 10.1016/j.jcis.2022.05.066] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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6
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Del Giudice D, Frateloreto F, Sappino C, Di Stefano S. Chemical Tools for the Temporal Control of Water Solution pH and Applications in Dissipative Systems. European J Org Chem 2022. [DOI: 10.1002/ejoc.202200407] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Affiliation(s)
- Daniele Del Giudice
- University of Rome La Sapienza: Universita degli Studi di Roma La Sapienza Chemistry ITALY
| | - Federico Frateloreto
- University of Rome La Sapienza: Universita degli Studi di Roma La Sapienza Chemistry ITALY
| | - Carla Sappino
- University of Rome La Sapienza: Universita degli Studi di Roma La Sapienza Chemistry ITALY
| | - Stefano Di Stefano
- University of Rome La Sapienza: Universita degli Studi di Roma La Sapienza Chemistry Department Piazzale Aldo Moro 5 00185 Rome ITALY
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7
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Li P, Song A, Hao J, Wang X. Feedback-controlled topological reconfiguration of molecular assemblies for programming supramolecular structures. SOFT MATTER 2022; 18:3856-3866. [PMID: 35531597 DOI: 10.1039/d2sm00325b] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/14/2023]
Abstract
In biology, nonequilibrium assembly is characterized by fuel-driven switching between associating and nonassociating states of biomolecules. This dynamic assembly model has been used routinely to describe the nonequilibrium processes in synthetic systems. Here, we present a G-quartet-based nonequilibrium system based on fuel-driven co-assembly of guanosine 5'-monophosphate disodium salt hydrate and urease. Addition of lanthanum(III) ions to the system caused macroscopic dynamic switching between precipitates and hydrogels. Interestingly, combined analyses of the nonequilibrium systems demonstrated that molecules could switch between two distinct associating states without undergoing a nonassociating state. This finding suggested a nonequilibrium assembly mechanism of topological reconfiguration of molecular assemblies. We detailed quantitatively the nonequilibrium assembly mechanism to precisely control the phase behaviors of the active materials; thus, we were able to use the materials for transient-gel-templated polymerization and transient circuit connection. This work presents a new nonequilibrium system with unusual phase behaviors, and the resultant active hydrogels hold promise in applications such as fluid confinements and transient electronics.
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Affiliation(s)
- Panpan Li
- National Engineering Research Center for Colloidal Materials, School of Chemistry and Chemical Engineering, Shandong University, Jinan, Shandong, 250100, China.
| | - Aixin Song
- Key Laboratory of Colloid and Interface Chemistry of the Ministry of Education, School of Chemistry and Chemical Engineering, Shandong University, Jinan, Shandong, 250100, China
| | - Jingcheng Hao
- Key Laboratory of Colloid and Interface Chemistry of the Ministry of Education, School of Chemistry and Chemical Engineering, Shandong University, Jinan, Shandong, 250100, China
| | - Xu Wang
- National Engineering Research Center for Colloidal Materials, School of Chemistry and Chemical Engineering, Shandong University, Jinan, Shandong, 250100, China.
- Key Laboratory of Colloid and Interface Chemistry of the Ministry of Education, School of Chemistry and Chemical Engineering, Shandong University, Jinan, Shandong, 250100, China
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8
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Paikar A, Novichkov AI, Hanopolskyi AI, Smaliak VA, Sui X, Kampf N, Skorb EV, Semenov SN. Spatiotemporal Regulation of Hydrogel Actuators by Autocatalytic Reaction Networks. ADVANCED MATERIALS (DEERFIELD BEACH, FLA.) 2022; 34:e2106816. [PMID: 34910837 DOI: 10.1002/adma.202106816] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/29/2021] [Revised: 11/26/2021] [Indexed: 06/14/2023]
Abstract
Regulating hydrogel actuators with chemical reaction networks is instrumental for constructing life-inspired smart materials. Herein, hydrogel actuators are engineered that are regulated by the autocatalytic front of thiols. The actuators consist of two layers. The first layer, which is regular polyacrylamide hydrogel, is in a strained conformation. The second layer, which is polyacrylamide hydrogel with disulfide crosslinks, maintains strain in the first layer. When thiols released by the autocatalytic front reduce disulfide crosslinks, the hydrogel actuates by releasing the mechanical strain in the first layer. The autocatalytic front is sustained by the reaction network, which uses thiouronium salts, disulfides of β-aminothiols, and maleimide as starting components. The gradual actuation by the autocatalytic front enables movements such as gradual unrolling, screwing, and sequential closing of "fingers." This actuation also allows the transmission of chemical signals in a relay fashion and the conversion of a chemical signal to an electrical signal. Locations and times of spontaneous initiation of autocatalytic fronts can be preprogrammed in the spatial distribution of the reactants in the hydrogel. To approach the functionality of living matter, the actuators triggered by an autocatalytic front can be integrated into smart materials regulated by chemical circuits.
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Affiliation(s)
- Arpita Paikar
- Department of Molecular Chemistry and Materials Science, Weizmann Institute of Science, Rehovot, 7610001, Israel
| | - Alexander I Novichkov
- Department of Molecular Chemistry and Materials Science, Weizmann Institute of Science, Rehovot, 7610001, Israel
| | - Anton I Hanopolskyi
- Department of Molecular Chemistry and Materials Science, Weizmann Institute of Science, Rehovot, 7610001, Israel
| | - Viktoryia A Smaliak
- Department of Molecular Chemistry and Materials Science, Weizmann Institute of Science, Rehovot, 7610001, Israel
| | - Xiaomeng Sui
- Department of Molecular Chemistry and Materials Science, Weizmann Institute of Science, Rehovot, 7610001, Israel
- Department of Chemical Research Support, Weizmann Institute of Science, Rehovot, 7610001, Israel
| | - Nir Kampf
- Department of Molecular Chemistry and Materials Science, Weizmann Institute of Science, Rehovot, 7610001, Israel
| | - Ekaterina V Skorb
- Infochemistry Scientific Center, ITMO University, Saint Petersburg, 191002, Russia
| | - Sergey N Semenov
- Department of Molecular Chemistry and Materials Science, Weizmann Institute of Science, Rehovot, 7610001, Israel
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9
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Maćešić S, Tóth Á, Horváth D. Origins of oscillatory dynamics in the model of reactive oxygen species in the rhizosphere. J Chem Phys 2021; 155:175102. [PMID: 34742207 DOI: 10.1063/5.0062139] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
Oscillatory processes are essential for normal functioning and survival of biological systems, and reactive oxygen species have a prominent role in many of them. A mechanism representing the dynamics of these species in the rhizosphere is analyzed using stoichiometric network analysis with the aim to determine its capabilities to simulate various dynamical states, including oscillations. A detailed analysis has shown that unstable steady states result from four destabilizing feedback cycles, among which the cycle involving hydroquinone, an electron acceptor, and its semi-reduced form is the dominant one responsible for the existence of saddle-node and Andronov-Hopf bifurcations. This requires a higher steady-state concentration for the reduced electron acceptor compared to that of the remaining species, where the level of oxygen steady-state concentration determines whether the Andronov-Hopf or saddle-node bifurcation will occur.
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Affiliation(s)
- Stevan Maćešić
- Department of Physical Chemistry and Materials Science, University of Szeged, Rerrich Béla tér 1, 6720 Szeged, Hungary
| | - Ágota Tóth
- Department of Physical Chemistry and Materials Science, University of Szeged, Rerrich Béla tér 1, 6720 Szeged, Hungary
| | - Dezső Horváth
- Department of Applied and Environmental Chemistry, University of Szeged, Rerrich Béla tér 1, 6720 Szeged, Hungary
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10
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Maity I, Sharma C, Lossada F, Walther A. Feedback and Communication in Active Hydrogel Spheres with pH Fronts: Facile Approaches to Grow Soft Hydrogel Structures. Angew Chem Int Ed Engl 2021. [DOI: 10.1002/ange.202109735] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/16/2023]
Affiliation(s)
- Indrajit Maity
- A3BMS Lab Department of Chemistry University of Mainz Duesbergweg 10–14 55128 Mainz Germany
- Freiburg Institute for Advanced Studies University of Freiburg Freiburg Germany
| | - Charu Sharma
- A3BMS Lab Department of Chemistry University of Mainz Duesbergweg 10–14 55128 Mainz Germany
| | - Francisco Lossada
- A3BMS Lab Department of Chemistry University of Mainz Duesbergweg 10–14 55128 Mainz Germany
| | - Andreas Walther
- A3BMS Lab Department of Chemistry University of Mainz Duesbergweg 10–14 55128 Mainz Germany
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11
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Maity I, Sharma C, Lossada F, Walther A. Feedback and Communication in Active Hydrogel Spheres with pH Fronts: Facile Approaches to Grow Soft Hydrogel Structures. Angew Chem Int Ed Engl 2021; 60:22537-22546. [PMID: 34347941 PMCID: PMC8518392 DOI: 10.1002/anie.202109735] [Citation(s) in RCA: 27] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/21/2021] [Indexed: 12/12/2022]
Abstract
Compartmentalized reaction networks regulating signal processing, communication and pattern formation are central to living systems. Towards achieving life-like materials, we compartmentalized urea-urease and more complex urea-urease/ester-esterase pH-feedback reaction networks into hydrogel spheres and investigate how fuel-driven pH fronts can be sent out from these spheres and regulated by internal reaction networks. Membrane characteristics are installed by covering urease spheres with responsive hydrogel shells. We then encapsulate the two networks (urea-urease and ester-esterase) separately into different hydrogel spheres to devise communication, pattern formation and attraction. Moreover, these pH fronts and patterns can be used for self-growing hydrogels, and for developing complex geometries from non-injectable hydrogels without 3D printing tools. This study opens possibilities for compartmentalized feedback reactions and their use in next generation materials fabrication.
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Affiliation(s)
- Indrajit Maity
- A3BMS LabDepartment of ChemistryUniversity of MainzDuesbergweg 10–1455128MainzGermany
- Freiburg Institute for Advanced StudiesUniversity of FreiburgFreiburgGermany
| | - Charu Sharma
- A3BMS LabDepartment of ChemistryUniversity of MainzDuesbergweg 10–1455128MainzGermany
| | - Francisco Lossada
- A3BMS LabDepartment of ChemistryUniversity of MainzDuesbergweg 10–1455128MainzGermany
| | - Andreas Walther
- A3BMS LabDepartment of ChemistryUniversity of MainzDuesbergweg 10–1455128MainzGermany
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12
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Mai AQ, Bánsági T, Taylor AF, Pojman JA. Reaction-diffusion hydrogels from urease enzyme particles for patterned coatings. Commun Chem 2021; 4:101. [PMID: 36697546 PMCID: PMC9814597 DOI: 10.1038/s42004-021-00538-7] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/11/2021] [Accepted: 06/07/2021] [Indexed: 01/28/2023] Open
Abstract
The reaction and diffusion of small molecules is used to initiate the formation of protective polymeric layers, or biofilms, that attach cells to surfaces. Here, inspired by biofilm formation, we present a general method for the growth of hydrogels from urease enzyme-particles by combining production of ammonia with a pH-regulated polymerization reaction in solution. We show through experiments and simulations how the propagating basic front and thiol-acrylate polymerization were continuously maintained by the localized urease reaction in the presence of urea, resulting in hydrogel layers around the enzyme particles at surfaces, interfaces or in motion. The hydrogels adhere the enzyme-particles to surfaces and have a tunable growth rate of the order of 10 µm min-1 that depends on the size and spatial distribution of particles. This approach can be exploited to create enzyme-hydrogels or chemically patterned coatings for applications in biocatalytic flow reactors.
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Affiliation(s)
- Anthony Q. Mai
- grid.64337.350000 0001 0662 7451Department of Chemistry & The Macromolecular Studies Group, Louisiana State University, Baton Rouge, LA USA
| | - Tamás Bánsági
- grid.11835.3e0000 0004 1936 9262Chemical and Biological Engineering, University of Sheffield, Sheffield, UK ,grid.6572.60000 0004 1936 7486Department of Chemistry, University of Birmingham, Birmingham, UK
| | - Annette F. Taylor
- grid.11835.3e0000 0004 1936 9262Chemical and Biological Engineering, University of Sheffield, Sheffield, UK
| | - John A. Pojman
- grid.64337.350000 0001 0662 7451Department of Chemistry & The Macromolecular Studies Group, Louisiana State University, Baton Rouge, LA USA
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13
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Panja S, Adams DJ. Urea-Urease Reaction in Controlling Properties of Supramolecular Hydrogels: Pros and Cons. Chemistry 2021; 27:8928-8939. [PMID: 33861488 PMCID: PMC8360084 DOI: 10.1002/chem.202100490] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/08/2021] [Indexed: 12/18/2022]
Abstract
Supramolecular hydrogels are useful in many areas such as cell culturing, catalysis, sensing, tissue engineering, drug delivery, environmental remediation and optoelectronics. The gels need specific properties for each application. The properties arise from a fibrous network that forms the matrix. A common method to prepare hydrogels is to use a pH change. Most methods result in a sudden pH jump and often lead to gels that are hard to reproduce and control. The urease-urea reaction can be used to control hydrogel properties by a uniform and controlled pH increase as well as to set up pH cycles. The reaction involves hydrolysis of urea by urease and production of ammonia which increases the pH. The rate of ammonia production can be controlled which can be used to prepare gels with differing properties. Herein, we show how the urease-urea reaction can be used for the construction of next generation functional materials.
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Affiliation(s)
- Santanu Panja
- School of ChemistryUniversity of GlasgowGlasgowG12 8QQUK
| | - Dave J. Adams
- School of ChemistryUniversity of GlasgowGlasgowG12 8QQUK
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14
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Modelling the diffusion and exchange of ammoniacal nitrogen following deep placement of urea supergranules in wetland rice cultivation. SN APPLIED SCIENCES 2020. [DOI: 10.1007/s42452-020-03624-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022] Open
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15
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Korevaar PA, Kaplan CN, Grinthal A, Rust RM, Aizenberg J. Non-equilibrium signal integration in hydrogels. Nat Commun 2020; 11:386. [PMID: 31959819 PMCID: PMC6971035 DOI: 10.1038/s41467-019-14114-0] [Citation(s) in RCA: 25] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/07/2019] [Accepted: 12/12/2019] [Indexed: 12/21/2022] Open
Abstract
Materials that perform complex chemical signal processing are ubiquitous in living systems. Their synthetic analogs would transform developments in biomedicine, catalysis, and many other areas. By drawing inspiration from biological signaling dynamics, we show how simple hydrogels have a previously untapped capacity for non-equilibrium chemical signal processing and integration. Using a common polyacrylic acid hydrogel, with divalent cations and acid as representative stimuli, we demonstrate the emergence of non-monotonic osmosis-driven spikes and waves of expansion/contraction, as well as traveling color waves. These distinct responses emerge from different combinations of rates and sequences of arriving stimuli. A non-equilibrium continuum theory we developed quantitatively captures the non-monotonic osmosis-driven deformation waves and determines the onset of their emergence in terms of the input parameters. These results suggest that simple hydrogels, already built into numerous systems, have a much larger sensing space than currently employed.
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Affiliation(s)
- Peter A Korevaar
- John A. Paulson School of Engineering and Applied Sciences, Harvard University, Cambridge, MA, 02138, USA. .,Institute for Molecules and Materials, Radboud University, Heyendaalseweg 135, 6525 AJ, Nijmegen, The Netherlands.
| | - C Nadir Kaplan
- John A. Paulson School of Engineering and Applied Sciences, Harvard University, Cambridge, MA, 02138, USA. .,Kavli Institute for Bionano Science and Technology, Harvard University, Cambridge, MA, 02138, USA. .,Department of Physics, Virginia Polytechnic Institute and State University, Blacksburg, VA, 24061, USA.
| | - Alison Grinthal
- John A. Paulson School of Engineering and Applied Sciences, Harvard University, Cambridge, MA, 02138, USA
| | - Reanne M Rust
- Wyss Institute for Biologically Inspired Engineering, Harvard University, Cambridge, MA, 02138, USA
| | - Joanna Aizenberg
- John A. Paulson School of Engineering and Applied Sciences, Harvard University, Cambridge, MA, 02138, USA. .,Kavli Institute for Bionano Science and Technology, Harvard University, Cambridge, MA, 02138, USA. .,Wyss Institute for Biologically Inspired Engineering, Harvard University, Cambridge, MA, 02138, USA. .,Department of Chemistry and Chemical Biology, Harvard University, Cambridge, MA, 02138, USA.
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16
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Yang D, Fan J, Cao F, Deng Z, Pojman JA, Ji L. Immobilization adjusted clock reaction in the urea–urease–H+ reaction system. RSC Adv 2019; 9:3514-3519. [PMID: 35518065 PMCID: PMC9060300 DOI: 10.1039/c8ra09244c] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/08/2018] [Accepted: 01/18/2019] [Indexed: 12/21/2022] Open
Abstract
The bell-shaped reactivity-pH curve is the fundamental reason that the temporal programmable kinetic switch in clock reactions can be obtained in bio-competitive enzymatic reactions. In this work, urease was loaded on small resin particles through ionic binding. Experimental results reveal that the immobilization not only increased the stability of the enzyme and the reproducibility of the clock reaction, but also shifted the bell-shaped activity curve to lower pHs. The latter change enables the clock reaction to occur from an initial pH of 2.3, where the free enzyme had already lost its activity. Two mechanisms explain the influence of the immobilization on the clock reaction. Immobilization modified the pH sensitive functional groups on the enzyme, shifting the activity curve to a more acidic region, and reduced diffusion alters the enzyme dynamics. The reported immobilization shifts the bell-shaped reactivity-pH curve to lower pHs and enables the clock reaction to occur from a very low initial pH, where the free enzyme had already lost its activity.![]()
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Affiliation(s)
- Dan Yang
- Department of Chemistry
- Capital Normal University
- Beijing 100048
- China
| | - Junhe Fan
- Department of Chemistry
- Capital Normal University
- Beijing 100048
- China
| | - Fengyi Cao
- Department of Chemistry
- Capital Normal University
- Beijing 100048
- China
| | - Zuojun Deng
- Department of Chemistry
- Capital Normal University
- Beijing 100048
- China
| | - John A. Pojman
- Department of Chemistry
- Louisiana State University
- Baton Rouge
- USA
| | - Lin Ji
- Department of Chemistry
- Capital Normal University
- Beijing 100048
- China
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17
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Muzika F, Růžička M, Schreiberová L, Schreiber I. Oscillations of pH in the urea–urease system in a membrane reactor. Phys Chem Chem Phys 2019; 21:8619-8622. [DOI: 10.1039/c9cp00630c] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023]
Abstract
Urea–urease reaction in an open reservoir–membrane–reactor system displays regular spontaneous oscillations of pH.
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Affiliation(s)
- František Muzika
- Department of Chemical Engineering, University of Chemistry and Technology, Prague
- 166 28 Praha 6
- Czech Republic
| | - Matěj Růžička
- Department of Chemical Engineering, University of Chemistry and Technology, Prague
- 166 28 Praha 6
- Czech Republic
| | - Lenka Schreiberová
- Department of Chemical Engineering, University of Chemistry and Technology, Prague
- 166 28 Praha 6
- Czech Republic
| | - Igor Schreiber
- Department of Chemical Engineering, University of Chemistry and Technology, Prague
- 166 28 Praha 6
- Czech Republic
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18
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Affiliation(s)
- Támás Bánsági
- Department of Chemistry; University of Birmingham; Edgbaston, Birmingham B15 2TT UK
- Department of Chemical and Biological Engineering; University of Sheffield; Sheffield S1 3JD UK
| | - Annette F. Taylor
- Department of Chemical and Biological Engineering; University of Sheffield; Sheffield S1 3JD UK
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19
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Gyevi-Nagy L, Lantos E, Gehér-Herczegh T, Tóth Á, Bagyinka C, Horváth D. Reaction fronts of the autocatalytic hydrogenase reaction. J Chem Phys 2018; 148:165103. [PMID: 29716212 DOI: 10.1063/1.5022359] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
We have built a model to describe the hydrogenase catalyzed, autocatalytic, reversible hydrogen oxidation reaction where one of the enzyme forms is the autocatalyst. The model not only reproduces the experimentally observed front properties, but also explains the found hydrogen ion dependence. Furthermore, by linear stability analysis, two different front types are found in good agreement with the experiments.
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Affiliation(s)
- László Gyevi-Nagy
- Department of Physical Chemistry and Materials Science, University of Szeged, Aradi vértanúk tere 1, Szeged H-6720, Hungary
| | - Emese Lantos
- Department of Physical Chemistry and Materials Science, University of Szeged, Aradi vértanúk tere 1, Szeged H-6720, Hungary
| | - Tünde Gehér-Herczegh
- Department of Physical Chemistry and Materials Science, University of Szeged, Aradi vértanúk tere 1, Szeged H-6720, Hungary
| | - Ágota Tóth
- Department of Physical Chemistry and Materials Science, University of Szeged, Aradi vértanúk tere 1, Szeged H-6720, Hungary
| | - Csaba Bagyinka
- Institute of Biophysics, Biological Research Center, Temesvári krt. 62, Szeged H-6726, Hungary
| | - Dezső Horváth
- Department of Applied and Environmental Chemistry, University of Szeged, Rerrich Béla tér 1, Szeged H-6720, Hungary
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20
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Bánsági T, Taylor AF. Switches induced by quorum sensing in a model of enzyme-loaded microparticles. J R Soc Interface 2018. [PMID: 29514986 DOI: 10.1098/rsif.2017.0945] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022] Open
Abstract
Quorum sensing refers to the ability of bacteria and other single-celled organisms to respond to changes in cell density or number with population-wide changes in behaviour. Here, simulations were performed to investigate quorum sensing in groups of diffusively coupled enzyme microparticles using a well-characterized autocatalytic reaction which raises the pH of the medium: hydrolysis of urea by urease. The enzyme urease is found in both plants and microorganisms, and has been widely exploited in engineering processes. We demonstrate how increases in group size can be used to achieve a sigmoidal switch in pH at high enzyme loading, oscillations in pH at intermediate enzyme loading and a bistable, hysteretic switch at low enzyme loading. Thus, quorum sensing can be exploited to obtain different types of response in the same system, depending on the enzyme concentration. The implications for microorganisms in colonies are discussed, and the results could help in the design of synthetic quorum sensing for biotechnology applications such as drug delivery.
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Affiliation(s)
- Tamás Bánsági
- Department of Chemical and Biological Engineering, University of Sheffield, Sheffield S1 3JD, UK
| | - Annette F Taylor
- Department of Chemical and Biological Engineering, University of Sheffield, Sheffield S1 3JD, UK
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21
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Kinetics of the urea–urease clock reaction with urease immobilized in hydrogel beads. REACTION KINETICS MECHANISMS AND CATALYSIS 2017. [DOI: 10.1007/s11144-017-1296-6] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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22
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Heuser T, Merindol R, Loescher S, Klaus A, Walther A. Photonic Devices Out of Equilibrium: Transient Memory, Signal Propagation, and Sensing. ADVANCED MATERIALS (DEERFIELD BEACH, FLA.) 2017; 29:1606842. [PMID: 28221714 DOI: 10.1002/adma.201606842] [Citation(s) in RCA: 65] [Impact Index Per Article: 9.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/19/2016] [Revised: 01/23/2017] [Indexed: 06/06/2023]
Abstract
Soft photonic materials are important for sensors, displays, or energy management and have become switchable under static equilibrium conditions by integration of responsive polymer features. The next step is to equip such materials with the ability for autonomously dynamic and self-regulating behavior, which would advance their functionality and application possibilities to new levels. Here, this study shows the system integration of a nonlinear, biocatalytic pH-feedback system with a pH-responsive block copolymer photonic gel, and demonstrates autonomous transient memories, remotely controlled signal propagation, and sensing. This study utilizes an enzymatic switch to program the lifetime of the reflective state of a photonic gel, and induces propagation of pH-waves extinguishable by illumination with UV-light. The described combination of nonlinear chemistry and responsive photonic gels opens pathways toward out-of-equilibrium photonic devices with active and autonomous behavior useful for sensing, computation, and communication.
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Affiliation(s)
- Thomas Heuser
- DWI-Leibniz Institute for Interactive Materials, Forckenbeckstr. 50, 52074, Aachen, Germany
| | - Rémi Merindol
- Institute for Macromolecular Chemistry, Albert-Ludwigs-University Freiburg, Stefan-Meier-Str. 31, 79104, Freiburg, Germany
- Freiburg Materials Research Center, Albert-Ludwigs-University Freiburg, Stefan-Meier-Str. 21, 79104, Freiburg, Germany
- Freiburg Center for Interactive Materials and Bioinspired Technologies, Albert-Ludwigs-University Freiburg, Georges-Köhler-Allee 105, 79110, Freiburg, Germany
| | - Sebastian Loescher
- Institute for Macromolecular Chemistry, Albert-Ludwigs-University Freiburg, Stefan-Meier-Str. 31, 79104, Freiburg, Germany
- Freiburg Materials Research Center, Albert-Ludwigs-University Freiburg, Stefan-Meier-Str. 21, 79104, Freiburg, Germany
- Freiburg Center for Interactive Materials and Bioinspired Technologies, Albert-Ludwigs-University Freiburg, Georges-Köhler-Allee 105, 79110, Freiburg, Germany
| | - Aileen Klaus
- DWI-Leibniz Institute for Interactive Materials, Forckenbeckstr. 50, 52074, Aachen, Germany
| | - Andreas Walther
- Institute for Macromolecular Chemistry, Albert-Ludwigs-University Freiburg, Stefan-Meier-Str. 31, 79104, Freiburg, Germany
- Freiburg Materials Research Center, Albert-Ludwigs-University Freiburg, Stefan-Meier-Str. 21, 79104, Freiburg, Germany
- Freiburg Center for Interactive Materials and Bioinspired Technologies, Albert-Ludwigs-University Freiburg, Georges-Köhler-Allee 105, 79110, Freiburg, Germany
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23
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Merindol R, Walther A. Materials learning from life: concepts for active, adaptive and autonomous molecular systems. Chem Soc Rev 2017; 46:5588-5619. [DOI: 10.1039/c6cs00738d] [Citation(s) in RCA: 288] [Impact Index Per Article: 41.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
A broad overview of functional aspects in biological and synthetic out-of-equilibrium systems.
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Affiliation(s)
- Rémi Merindol
- Institute for Macromolecular Chemistry
- Albert-Ludwigs-University Freiburg
- 79106 Freiburg
- Germany
| | - Andreas Walther
- Institute for Macromolecular Chemistry
- Albert-Ludwigs-University Freiburg
- 79106 Freiburg
- Germany
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24
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Jędrusiak M, Orlik M. The Formation and Spatiotemporal Progress of the pH Wave Induced by the Temperature Gradient in the Thin-Layer H2O2-Na2S2O3-H2SO4-CuSO4 Dynamical System. J Phys Chem B 2016; 120:3169-77. [PMID: 26938427 DOI: 10.1021/acs.jpcb.5b11274] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
The H2O2-S2O3(2-)-H(+)-Cu(2+) dynamical system exhibits sustained oscillations under flow conditions but reveals only a single initial peak of the indicator electrode potential and pH variation under batch isothermal conditions. Thus, in the latter case, there is no possibility of the coupling of the oscillations and diffusion which could lead to formation of sustained spatiotemporal patterns in this process. However, in the inhomogeneous temperature field, due to dependence of the local reaction kinetics on temperature, spatial inhomogeneities of pH distribution can develop which, in the presence of an appropriate indicator, thymol blue, manifest themselves as the color front traveling along the quasi-one-dimensional reactor. In this work, we describe the experimental conditions under which the above-mentioned phenomena can be observed and present their numerical model based on thermokinetic coupling and spatial coordinate introduced to earlier isothermal homogeneous kinetic mechanism.
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Affiliation(s)
- Mikołaj Jędrusiak
- Laboratory of Electroanalytical Chemistry, Faculty of Chemistry, University of Warsaw , Ul. Pasteura 1, 02-093 Warsaw, Poland
| | - Marek Orlik
- Laboratory of Electroanalytical Chemistry, Faculty of Chemistry, University of Warsaw , Ul. Pasteura 1, 02-093 Warsaw, Poland
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25
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Jee E, Bánsági T, Taylor AF, Pojman JA. Temporal Control of Gelation and Polymerization Fronts Driven by an Autocatalytic Enzyme Reaction. Angew Chem Int Ed Engl 2016; 55:2127-31. [PMID: 26732469 PMCID: PMC4755207 DOI: 10.1002/anie.201510604] [Citation(s) in RCA: 90] [Impact Index Per Article: 11.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/16/2015] [Indexed: 12/15/2022]
Abstract
Chemical systems that remain kinetically dormant until activated have numerous applications in materials science. Herein we present a method for the control of gelation that exploits an inbuilt switch: the increase in pH after an induction period in the urease-catalyzed hydrolysis of urea was used to trigger the base-catalyzed Michael addition of a water-soluble trithiol to a polyethylene glycol diacrylate. The time to gelation (minutes to hours) was either preset through the initial concentrations or the reaction was initiated locally by a base, thus resulting in polymerization fronts that converted the mixture from a liquid into a gel (ca. 0.1 mm min(-1)). The rate of hydrolytic degradation of the hydrogel depended on the initial concentrations, thus resulting in a gel lifetime of hours to months. In this way, temporal programming of gelation was possible under mild conditions by using the output of an autocatalytic enzyme reaction to drive both the polymerization and subsequent degradation of a hydrogel.
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Affiliation(s)
- Elizabeth Jee
- Department of Chemistry, Louisiana State University, Louisiana, LA, 70803, USA
| | - Tamás Bánsági
- Chemical and Biological Engineering, University of Sheffield, Sheffield, S1 3JD, UK
| | - Annette F Taylor
- Chemical and Biological Engineering, University of Sheffield, Sheffield, S1 3JD, UK.
| | - John A Pojman
- Department of Chemistry, Louisiana State University, Louisiana, LA, 70803, USA.
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26
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Jee E, Bánsági T, Taylor AF, Pojman JA. Temporal Control of Gelation and Polymerization Fronts Driven by an Autocatalytic Enzyme Reaction. ANGEWANDTE CHEMIE (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2016; 128:2167-2171. [PMID: 27478280 PMCID: PMC4950125 DOI: 10.1002/ange.201510604] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 11/16/2015] [Indexed: 01/19/2023]
Abstract
Chemical systems that remain kinetically dormant until activated have numerous applications in materials science. Herein we present a method for the control of gelation that exploits an inbuilt switch: the increase in pH after an induction period in the urease-catalyzed hydrolysis of urea was used to trigger the base-catalyzed Michael addition of a water-soluble trithiol to a polyethylene glycol diacrylate. The time to gelation (minutes to hours) was either preset through the initial concentrations or the reaction was initiated locally by a base, thus resulting in polymerization fronts that converted the mixture from a liquid into a gel (ca. 0.1 mm min-1). The rate of hydrolytic degradation of the hydrogel depended on the initial concentrations, thus resulting in a gel lifetime of hours to months. In this way, temporal programming of gelation was possible under mild conditions by using the output of an autocatalytic enzyme reaction to drive both the polymerization and subsequent degradation of a hydrogel.
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Affiliation(s)
- Elizabeth Jee
- Department of ChemistryLouisiana State UniversityLouisianaLA70803USA
| | - Tamás Bánsági
- Chemical and Biological EngineeringUniversity of SheffieldSheffieldS1 3JDUK
| | - Annette F. Taylor
- Chemical and Biological EngineeringUniversity of SheffieldSheffieldS1 3JDUK
| | - John A. Pojman
- Department of ChemistryLouisiana State UniversityLouisianaLA70803USA
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27
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Muzika F, Bánsági T, Schreiber I, Schreiberová L, Taylor AF. A bistable switch in pH in urease-loaded alginate beads. Chem Commun (Camb) 2015; 50:11107-9. [PMID: 25111059 DOI: 10.1039/c4cc03936j] [Citation(s) in RCA: 35] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A bistable switch from a low pH (unreacted "off") state to a high pH (reacted "on") state was obtained in enzyme-loaded gel beads in response to supra-threshold substrate concentrations.
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Affiliation(s)
- F Muzika
- Department of Chemical Engineering, Institute of Chemical Technology, Prague, 16628 Prague 6, Czech Republic
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28
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van Roekel HWH, Rosier BJHM, Meijer LHH, Hilbers PAJ, Markvoort AJ, Huck WTS, de Greef TFA. Programmable chemical reaction networks: emulating regulatory functions in living cells using a bottom-up approach. Chem Soc Rev 2015. [DOI: 10.1039/c5cs00361j] [Citation(s) in RCA: 103] [Impact Index Per Article: 11.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Abstract
Living cells are able to produce a wide variety of biological responses when subjected to biochemical stimuli.
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Affiliation(s)
- Hendrik W. H. van Roekel
- Institute for Complex Molecular Systems
- Eindhoven University of Technology
- 5600 MB Eindhoven
- The Netherlands
- Computational Biology Group
| | - Bas J. H. M. Rosier
- Institute for Complex Molecular Systems
- Eindhoven University of Technology
- 5600 MB Eindhoven
- The Netherlands
- Computational Biology Group
| | - Lenny H. H. Meijer
- Institute for Complex Molecular Systems
- Eindhoven University of Technology
- 5600 MB Eindhoven
- The Netherlands
- Computational Biology Group
| | - Peter A. J. Hilbers
- Institute for Complex Molecular Systems
- Eindhoven University of Technology
- 5600 MB Eindhoven
- The Netherlands
- Computational Biology Group
| | - Albert J. Markvoort
- Institute for Complex Molecular Systems
- Eindhoven University of Technology
- 5600 MB Eindhoven
- The Netherlands
- Computational Biology Group
| | - Wilhelm T. S. Huck
- Institute for Molecules and Materials
- Radboud University
- 6525 AJ Nijmegen
- The Netherlands
| | - Tom F. A. de Greef
- Institute for Complex Molecular Systems
- Eindhoven University of Technology
- 5600 MB Eindhoven
- The Netherlands
- Computational Biology Group
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29
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Horváth J. Sustained large-amplitude chemomechanical oscillations induced by the Landolt clock reaction. J Phys Chem B 2014; 118:8891-900. [PMID: 24988549 DOI: 10.1021/jp5050964] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Synergetic chemomechanical oscillators represent a fundamentally new class of oscillators, where a clock reaction, owning no oscillatory chemical kinetics, generates shrinking-swelling cycles in a chemoresponsive gel under appropriate fixed nonequilibrium boundary conditions. Sufficiently large size-changes are a condition for continually switching between a reacted and an unreacted chemical state in the gel through sufficiently large differences in the diffusion time between the environment and the core of the gel. Two former experimental demonstrations with acid autocatalytic reactions were frustrated either by complex behaviors (chlorite-tetrathionate system) or by side reactions with the gel matrix (bromate-sulfite system). With the Landolt (iodate-sulfite) reaction, regular large-amplitude chemomechanical oscillations can be sustained for more than a week. This enabled a fine study of the temperature and stoichiometry range of operation. I have identified several key steps that are experimentally essential to the systematic design of further synergetic oscillators. The robust realization of this type of self-organization in artificial systems is currently unique.
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Affiliation(s)
- Judit Horváth
- Centre de Recherche Paul Pascal, CNRS , 115 avenue Dr. A. Schweitzer, F-33600 Pessac, France
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30
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Bánsági T, Taylor AF. Role of Differential Transport in an Oscillatory Enzyme Reaction. J Phys Chem B 2014; 118:6092-7. [DOI: 10.1021/jp5019795] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
Affiliation(s)
- Tamás Bánsági
- School of Chemistry, University of Leeds, Leeds, LS2 9JT, U.K
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31
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Semenov SN, Markvoort AJ, de Greef TFA, Huck WTS. Threshold sensing through a synthetic enzymatic reaction-diffusion network. Angew Chem Int Ed Engl 2014; 53:8066-9. [PMID: 24700482 DOI: 10.1002/anie.201402327] [Citation(s) in RCA: 40] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/12/2014] [Indexed: 11/09/2022]
Abstract
A wet stamping method to precisely control concentrations of enzymes and inhibitors in place and time inside layered gels is reported. By combining enzymatic reactions such as autocatalysis and inhibition with spatial delivery of components through soft lithographic techniques, a biochemical reaction network capable of recognizing the spatial distribution of an enzyme was constructed. The experimental method can be used to assess fundamental principles of spatiotemporal order formation in chemical reaction networks.
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Affiliation(s)
- Sergey N Semenov
- Department of Physical Organic Chemistry, Radboud University Nijmegen, Institute for Molecules and Materials, Heyendaalseweg 135, 6525 AJ Nijmegen (The Netherlands) http://www.ru.nl/physicalorganicchemistry/
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32
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Semenov SN, Markvoort AJ, de Greef TFA, Huck WTS. Threshold Sensing through a Synthetic Enzymatic Reaction-Diffusion Network. Angew Chem Int Ed Engl 2014. [DOI: 10.1002/ange.201402327] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
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33
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McDonald AG, Tipton KF. Effects of tyramine and 4-aminophenol on the oscillating peroxidase-oxidase reaction. J Phys Chem B 2014; 118:18-25. [PMID: 24351130 DOI: 10.1021/jp406707s] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
The peroxidase-oxidase oscillator, a model of biological oscillations, is usually studied in conjunction with the effector molecule, 2,4-dichlorophenol. In this account, we present evidence of the effects of a naturally occurring phenol, tyramine, on the reaction, and also those of the structurally similar 4-aminophenol. Whereas 2,4-dichlorophenol gives rise to sustained oscillations at 40 μM, it was discovered that tyramine promotes damped oscillations at a concentration of 120 μM. Oxidation of NADH was completely inhibited by 4-aminophenol and ascorbate. In separate experiments, the peroxidase-catalyzed ring coupling of tyramine and 4-aminophenol was observed, which in the case of tyramine, may provide an explanation for the damping of oscillations.
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Affiliation(s)
- Andrew G McDonald
- School of Biochemistry and Immunology, Trinity College , Dublin 2, Ireland
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34
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Wiśniewski A, Gorzkowski MT, Pekala K, Orlik M. Thermokinetic origin of luminescent traveling fronts in the H2O2-NaOH-SCN(-)-Cu2+ homogeneous oscillator: experiments and model. J Phys Chem A 2013; 117:11155-66. [PMID: 24111827 DOI: 10.1021/jp408713u] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
According to our original discovery, the oscillatory course of the Cu(2+)-catalyzed oxidation of thiocyanate ions with hydrogen peroxide, in nonstirred medium and upon the addition of luminol as an indicator, can be a source of a novel type of dissipative patterns--luminescent traveling waves. The formation of these fronts, contrary to the patterns associated with the Belousov-Zhabotinsky reaction, cannot be explained in terms of coupled homogeneous kinetics and diffusion, and under isothermal conditions. Both experimental studies and numerical simulations of the kinetic mechanism suggest that the spatial progress of these waves requires mainly the temperature gradient in the solution, which affects the local chemical reaction rate (and thus the oscillation period), with practically negligible contribution from diffusion of reagents. As a consequence of this thermokinetic coupling, the observed traveling patterns are thus essentially the phase (or kinematic) waves, formed due to the spatial phase shift of the oscillations caused by differences in chemical reaction rates. The temperature gradient, caused by the significant heat effect of exothermic oxidation of thiocyanate by hydrogen peroxide, can emerge spontaneously as a local fluctuation or can be forced externally, if the control of progress of the luminescent waves is to be achieved.
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Affiliation(s)
- Albin Wiśniewski
- Laboratory of Electroanalytical Chemistry, Faculty of Chemistry, University of Warsaw , Ul. Pasteura 1, 02-093 Warsaw, Poland
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