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Bergmann AM, Donau C, Späth F, Jahnke K, Göpfrich K, Boekhoven J. Evolution and Single‐Droplet Analysis of Fuel‐Driven Compartments by Droplet‐Based Microfluidics. Angew Chem Int Ed Engl 2022; 61:e202203928. [PMID: 35657164 PMCID: PMC9400878 DOI: 10.1002/anie.202203928] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/16/2022] [Indexed: 11/10/2022]
Affiliation(s)
- Alexander M. Bergmann
- Department of Chemistry Technical University of Munich Lichtenbergstrasse 4 85748 Garching Germany
| | - Carsten Donau
- Department of Chemistry Technical University of Munich Lichtenbergstrasse 4 85748 Garching Germany
| | - Fabian Späth
- Department of Chemistry Technical University of Munich Lichtenbergstrasse 4 85748 Garching Germany
| | - Kevin Jahnke
- Biophysical Engineering Group Max Planck Institute for Medical Research Jahnstraße 29 69120 Heidelberg Germany
- Department of Physics and Astronomy Heidelberg University 69120 Heidelberg Germany
| | - Kerstin Göpfrich
- Biophysical Engineering Group Max Planck Institute for Medical Research Jahnstraße 29 69120 Heidelberg Germany
- Department of Physics and Astronomy Heidelberg University 69120 Heidelberg Germany
| | - Job Boekhoven
- Department of Chemistry Technical University of Munich Lichtenbergstrasse 4 85748 Garching Germany
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2
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Li J, Jamieson WD, Dimitriou P, Xu W, Rohde P, Martinac B, Baker M, Drinkwater BW, Castell OK, Barrow DA. Building programmable multicompartment artificial cells incorporating remotely activated protein channels using microfluidics and acoustic levitation. Nat Commun 2022; 13:4125. [PMID: 35840619 PMCID: PMC9287423 DOI: 10.1038/s41467-022-31898-w] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/05/2022] [Accepted: 07/06/2022] [Indexed: 01/25/2023] Open
Abstract
Intracellular compartments are functional units that support the metabolism within living cells, through spatiotemporal regulation of chemical reactions and biological processes. Consequently, as a step forward in the bottom-up creation of artificial cells, building analogous intracellular architectures is essential for the expansion of cell-mimicking functionality. Herein, we report the development of a droplet laboratory platform to engineer complex emulsion-based, multicompartment artificial cells, using microfluidics and acoustic levitation. Such levitated models provide free-standing, dynamic, definable droplet networks for the compartmentalisation of chemical species. Equally, they can be remotely operated with pneumatic, heating, and magnetic elements for post-processing, including the incorporation of membrane proteins; alpha-hemolysin; and mechanosensitive channel of large-conductance. The assembly of droplet networks is three-dimensionally patterned with fluidic input configurations determining droplet contents and connectivity, whilst acoustic manipulation can be harnessed to reconfigure the droplet network in situ. The mechanosensitive channel can be repeatedly activated and deactivated in the levitated artificial cell by the application of acoustic and magnetic fields to modulate membrane tension on demand. This offers possibilities beyond one-time chemically mediated activation to provide repeated, non-contact, control of membrane protein function. Collectively, this expands our growing capability to program and operate increasingly sophisticated artificial cells as life-like materials.
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Affiliation(s)
- Jin Li
- School of Engineering, Cardiff University, The Parade, Cardiff, CF24 3AA, UK.
| | - William D Jamieson
- School of Pharmacy and Pharmaceutical Sciences, Cardiff University, King Edward VII Ave, Cardiff, CF10 3NB, UK
| | | | - Wen Xu
- Cardiff Business School, Cardiff University, Aberconway Building, Colum Dr, Cardiff, CF10 3EU, UK
| | - Paul Rohde
- Victor Chang Cardiac Research Institute, Lowy Packer Building, 405 Liverpool St, Darlinhurst, NSW, 2010, Australia
| | - Boris Martinac
- Victor Chang Cardiac Research Institute, Lowy Packer Building, 405 Liverpool St, Darlinhurst, NSW, 2010, Australia.,School of Clinical Medicine, UNSW, Sydney, NSW, 2052, Australia
| | - Matthew Baker
- School of Biotechnology and Biomolecular Science, UNSW, Sydney, NSW, 2052, Australia
| | - Bruce W Drinkwater
- Department of Mechanical Engineering, University of Bristol, University Walk, Bristol, BS8 1TR, UK.
| | - Oliver K Castell
- School of Pharmacy and Pharmaceutical Sciences, Cardiff University, King Edward VII Ave, Cardiff, CF10 3NB, UK.
| | - David A Barrow
- School of Engineering, Cardiff University, The Parade, Cardiff, CF24 3AA, UK.
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Bergmann AM, Donau C, Späth F, Jahnke K, Göpfrich K, Boekhoven J. Evolution and Single‐Droplet Analysis of Fuel‐Driven Compartments by Droplet‐Based Microfluidics. Angew Chem Int Ed Engl 2022. [DOI: 10.1002/ange.202203928] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
Affiliation(s)
| | - Carsten Donau
- Technische Universität München: Technische Universitat Munchen Chemistry GERMANY
| | - Fabian Späth
- TU München: Technische Universitat Munchen Chemistry GERMANY
| | - Kevin Jahnke
- Max-Planck-Institute for Medical Research: Max-Planck-Institut fur medizinische Forschung Medical Research GERMANY
| | - Kerstin Göpfrich
- Max-Planck-Institute for Medical Research: Max-Planck-Institut fur medizinische Forschung Medical Research GERMANY
| | - Job Boekhoven
- Technical University of Munchen Chemistry Lichtenbergstrasse 485748Germany 85748 Garching GERMANY
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4
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Li L, Casalini T, Arosio P, Salvalaglio M. Modeling the Structure and Interactions of Intrinsically Disordered Peptides with Multiple Replica, Metadynamics-Based Sampling Methods and Force-Field Combinations. J Chem Theory Comput 2022; 18:1915-1928. [PMID: 35174713 PMCID: PMC9097291 DOI: 10.1021/acs.jctc.1c00889] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/02/2021] [Indexed: 01/08/2023]
Abstract
Intrinsically disordered proteins play a key role in many biological processes, including the formation of biomolecular condensates within cells. A detailed characterization of their configurational ensemble and structure-function paradigm is crucial for understanding their biological activity and for exploiting them as building blocks in material sciences. In this work, we incorporate bias-exchange metadynamics and parallel-tempering well-tempered metadynamics with CHARMM36m and CHARMM22* to explore the structural and thermodynamic characteristics of a short archetypal disordered sequence derived from a DEAD-box protein. The conformational landscapes emerging from our simulations are largely congruent across methods and force fields. Nevertheless, differences in fine details emerge from varying combinations of force-fields and sampling methods. For this protein, our analysis identifies features that help to explain the low propensity of this sequence to undergo self-association in vitro, which are common to all force-field/sampling method combinations. Overall, our work demonstrates the importance of using multiple force-field and sampling method combinations for accurate structural and thermodynamic information in the study of disordered proteins.
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Affiliation(s)
- Lunna Li
- Thomas
Young Centre and Department of Chemical Engineering, University College London, London WC1E 7JE, U.K.
| | - Tommaso Casalini
- Department
of Chemistry and Applied Biosciences, ETH
Zurich, Zurich 8093, Switzerland
| | - Paolo Arosio
- Department
of Chemistry and Applied Biosciences, ETH
Zurich, Zurich 8093, Switzerland
| | - Matteo Salvalaglio
- Thomas
Young Centre and Department of Chemical Engineering, University College London, London WC1E 7JE, U.K.
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Chen H, Li W, Lin Y, Wang L, Liu X, Huang X. Fusion‐Induced Structural and Functional Evolution in Binary Emulsion Communities. Angew Chem Int Ed Engl 2020; 59:16953-16960. [DOI: 10.1002/anie.202004617] [Citation(s) in RCA: 16] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/30/2020] [Revised: 06/04/2020] [Indexed: 02/05/2023]
Affiliation(s)
- Haixu Chen
- MIIT Key Laboratory of Critical Materials Technology for New Energy Conversion and Storage School of Chemistry and Chemical Engineering Harbin Institute of Technology Harbin 150001 China
| | - Weiran Li
- MIIT Key Laboratory of Critical Materials Technology for New Energy Conversion and Storage School of Chemistry and Chemical Engineering Harbin Institute of Technology Harbin 150001 China
| | - Youping Lin
- MIIT Key Laboratory of Critical Materials Technology for New Energy Conversion and Storage School of Chemistry and Chemical Engineering Harbin Institute of Technology Harbin 150001 China
| | - Lei Wang
- MIIT Key Laboratory of Critical Materials Technology for New Energy Conversion and Storage School of Chemistry and Chemical Engineering Harbin Institute of Technology Harbin 150001 China
| | - Xiaoman Liu
- MIIT Key Laboratory of Critical Materials Technology for New Energy Conversion and Storage School of Chemistry and Chemical Engineering Harbin Institute of Technology Harbin 150001 China
| | - Xin Huang
- MIIT Key Laboratory of Critical Materials Technology for New Energy Conversion and Storage School of Chemistry and Chemical Engineering Harbin Institute of Technology Harbin 150001 China
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6
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Chen H, Li W, Lin Y, Wang L, Liu X, Huang X. Fusion‐Induced Structural and Functional Evolution in Binary Emulsion Communities. Angew Chem Int Ed Engl 2020. [DOI: 10.1002/ange.202004617] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
Affiliation(s)
- Haixu Chen
- MIIT Key Laboratory of Critical Materials Technology for New Energy Conversion and Storage School of Chemistry and Chemical Engineering Harbin Institute of Technology Harbin 150001 China
| | - Weiran Li
- MIIT Key Laboratory of Critical Materials Technology for New Energy Conversion and Storage School of Chemistry and Chemical Engineering Harbin Institute of Technology Harbin 150001 China
| | - Youping Lin
- MIIT Key Laboratory of Critical Materials Technology for New Energy Conversion and Storage School of Chemistry and Chemical Engineering Harbin Institute of Technology Harbin 150001 China
| | - Lei Wang
- MIIT Key Laboratory of Critical Materials Technology for New Energy Conversion and Storage School of Chemistry and Chemical Engineering Harbin Institute of Technology Harbin 150001 China
| | - Xiaoman Liu
- MIIT Key Laboratory of Critical Materials Technology for New Energy Conversion and Storage School of Chemistry and Chemical Engineering Harbin Institute of Technology Harbin 150001 China
| | - Xin Huang
- MIIT Key Laboratory of Critical Materials Technology for New Energy Conversion and Storage School of Chemistry and Chemical Engineering Harbin Institute of Technology Harbin 150001 China
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Capasso Palmiero U, Küffner AM, Krumeich F, Faltova L, Arosio P. Adaptive Chemoenzymatic Microreactors Composed of Inorganic Nanoparticles and Bioinspired Intrinsically Disordered Proteins. Angew Chem Int Ed Engl 2020. [DOI: 10.1002/ange.202000835] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Affiliation(s)
- Umberto Capasso Palmiero
- Department of Chemistry and Applied BiosciencesInstitute for Chemical and BioengineeringETH Zurich 8093 Zurich Switzerland
| | - Andreas M. Küffner
- Department of Chemistry and Applied BiosciencesInstitute for Chemical and BioengineeringETH Zurich 8093 Zurich Switzerland
| | - Frank Krumeich
- Department of Chemistry and Applied BiosciencesInstitute for Chemical and BioengineeringETH Zurich 8093 Zurich Switzerland
| | - Lenka Faltova
- Department of Chemistry and Applied BiosciencesInstitute for Chemical and BioengineeringETH Zurich 8093 Zurich Switzerland
| | - Paolo Arosio
- Department of Chemistry and Applied BiosciencesInstitute for Chemical and BioengineeringETH Zurich 8093 Zurich Switzerland
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Capasso Palmiero U, Küffner AM, Krumeich F, Faltova L, Arosio P. Adaptive Chemoenzymatic Microreactors Composed of Inorganic Nanoparticles and Bioinspired Intrinsically Disordered Proteins. Angew Chem Int Ed Engl 2020; 59:8138-8142. [DOI: 10.1002/anie.202000835] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/16/2020] [Revised: 02/28/2020] [Indexed: 02/03/2023]
Affiliation(s)
- Umberto Capasso Palmiero
- Department of Chemistry and Applied BiosciencesInstitute for Chemical and BioengineeringETH Zurich 8093 Zurich Switzerland
| | - Andreas M. Küffner
- Department of Chemistry and Applied BiosciencesInstitute for Chemical and BioengineeringETH Zurich 8093 Zurich Switzerland
| | - Frank Krumeich
- Department of Chemistry and Applied BiosciencesInstitute for Chemical and BioengineeringETH Zurich 8093 Zurich Switzerland
| | - Lenka Faltova
- Department of Chemistry and Applied BiosciencesInstitute for Chemical and BioengineeringETH Zurich 8093 Zurich Switzerland
| | - Paolo Arosio
- Department of Chemistry and Applied BiosciencesInstitute for Chemical and BioengineeringETH Zurich 8093 Zurich Switzerland
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