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Hussain M, He X, Wang C, Wang Y, Wang J, Chen M, Kang H, Yang N, Ni X, Li J, Zhou X, Liu B. Recent advances in microfluidic-based spectroscopic approaches for pathogen detection. BIOMICROFLUIDICS 2024; 18:031505. [PMID: 38855476 PMCID: PMC11162289 DOI: 10.1063/5.0204987] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/23/2024] [Accepted: 05/30/2024] [Indexed: 06/11/2024]
Abstract
Rapid identification of pathogens with higher sensitivity and specificity plays a significant role in maintaining public health, environmental monitoring, controlling food quality, and clinical diagnostics. Different methods have been widely used in food testing laboratories, quality control departments in food companies, hospitals, and clinical settings to identify pathogens. Some limitations in current pathogens detection methods are time-consuming, expensive, and laborious sample preparation, making it unsuitable for rapid detection. Microfluidics has emerged as a promising technology for biosensing applications due to its ability to precisely manipulate small volumes of fluids. Microfluidics platforms combined with spectroscopic techniques are capable of developing miniaturized devices that can detect and quantify pathogenic samples. The review focuses on the advancements in microfluidic devices integrated with spectroscopic methods for detecting bacterial microbes over the past five years. The review is based on several spectroscopic techniques, including fluorescence detection, surface-enhanced Raman scattering, and dynamic light scattering methods coupled with microfluidic platforms. The key detection principles of different approaches were discussed and summarized. Finally, the future possible directions and challenges in microfluidic-based spectroscopy for isolating and detecting pathogens using the latest innovations were also discussed.
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Affiliation(s)
| | - Xu He
- Engineering Research Center of Intelligent Theranostics Technology and Instruments, Ministry of Education, School of Biomedical Engineering and Informatics, Nanjing Medical University, Nanjing 211166, China
| | - Chao Wang
- Engineering Research Center of Intelligent Theranostics Technology and Instruments, Ministry of Education, School of Biomedical Engineering and Informatics, Nanjing Medical University, Nanjing 211166, China
| | - Yichuan Wang
- Engineering Research Center of Intelligent Theranostics Technology and Instruments, Ministry of Education, School of Biomedical Engineering and Informatics, Nanjing Medical University, Nanjing 211166, China
| | - Jingjing Wang
- Engineering Research Center of Intelligent Theranostics Technology and Instruments, Ministry of Education, School of Biomedical Engineering and Informatics, Nanjing Medical University, Nanjing 211166, China
| | - Mingyue Chen
- Engineering Research Center of Intelligent Theranostics Technology and Instruments, Ministry of Education, School of Biomedical Engineering and Informatics, Nanjing Medical University, Nanjing 211166, China
| | - Haiquan Kang
- Department of Laboratory Medicine, Affiliated Hospital of Xuzhou Medical University, Xuzhou 221002, China
| | | | - Xinye Ni
- The Affiliated Changzhou Second People’s Hospital of Nanjing Medical University, Changzhou Second People's Hospital, Changzhou Medical Center, Nanjing Medical University, Changzhou 213161, China
| | | | - Xiuping Zhou
- Department of Laboratory Medicine, The Peoples Hospital of Rugao, Rugao Hospital Affiliated to Nantong University, Nantong 226500, China
| | - Bin Liu
- Author to whom correspondence should be addressed:
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2
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Ibrahim KA, Naidu AS, Miljkovic H, Radenovic A, Yang W. Label-Free Techniques for Probing Biomolecular Condensates. ACS NANO 2024; 18:10738-10757. [PMID: 38609349 DOI: 10.1021/acsnano.4c01534] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 04/14/2024]
Abstract
Biomolecular condensates play important roles in a wide array of fundamental biological processes, such as cellular compartmentalization, cellular regulation, and other biochemical reactions. Since their discovery and first observations, an extensive and expansive library of tools has been developed to investigate various aspects and properties, encompassing structural and compositional information, material properties, and their evolution throughout the life cycle from formation to eventual dissolution. This Review presents an overview of the expanded set of tools and methods that researchers use to probe the properties of biomolecular condensates across diverse scales of length, concentration, stiffness, and time. In particular, we review recent years' exciting development of label-free techniques and methodologies. We broadly organize the set of tools into 3 categories: (1) imaging-based techniques, such as transmitted-light microscopy (TLM) and Brillouin microscopy (BM), (2) force spectroscopy techniques, such as atomic force microscopy (AFM) and the optical tweezer (OT), and (3) microfluidic platforms and emerging technologies. We point out the tools' key opportunities, challenges, and future perspectives and analyze their correlative potential as well as compatibility with other techniques. Additionally, we review emerging techniques, namely, differential dynamic microscopy (DDM) and interferometric scattering microscopy (iSCAT), that have huge potential for future applications in studying biomolecular condensates. Finally, we highlight how some of these techniques can be translated for diagnostics and therapy purposes. We hope this Review serves as a useful guide for new researchers in this field and aids in advancing the development of new biophysical tools to study biomolecular condensates.
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3
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Castellini S, Brizioli M, Giraudet C, Carpineti M, Croccolo F, Giavazzi F, Vailati A. Modeling and correction of image drift in dynamic shadowgraphy experiments. THE EUROPEAN PHYSICAL JOURNAL. E, SOFT MATTER 2024; 47:25. [PMID: 38587607 DOI: 10.1140/epje/s10189-024-00413-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/02/2023] [Accepted: 03/03/2024] [Indexed: 04/09/2024]
Abstract
The study of phoretic transport phenomena under non-stationary conditions presents several challenges, mostly related to the stability of the experimental apparatus. This is particularly true when investigating with optical means the subtle temperature and concentration fluctuations that arise during diffusion processes, superimposed to the macroscopic state of the system. Under these conditions, the tenuous signal from fluctuations is easily altered by the presence of artifacts. Here, we address an experimental issue frequently reported in the investigation by means of dynamic shadowgraphy of the non-equilibrium fluctuations arising in liquid mixtures under non-stationary conditions, such as those arising after the imposition or removal of a thermal stress, where experiments show systematically the presence of a spurious contribution in the reconstructed structure function of the fluctuations, which depends quadratically from the time delay. We clarify the mechanisms responsible for this artifact, showing that it is caused by the imperfect alignment of the sample cell with respect to gravity, which couples the temporal evolution of the concentration profile within the sample with the optical signal collected by the shadowgraph diagnostics. We propose a data analysis protocol that enables disentangling the spurious contributions and the genuine dynamics of the fluctuations, which can be thus reliably reconstructed.
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Affiliation(s)
- Stefano Castellini
- Dipartimento di Fisica"A. Pontremoli", Università degli Studi di Milano, Milan, Italy
| | - Matteo Brizioli
- Dipartimento di Biotecnologie Mediche e Medicina Traslazionale, Università degli Studi di Milano, Segrate, Italy
| | - Cédric Giraudet
- LFCR UMR5150, E2S UPPA, CNRS, Universite de Pau et des Pays de l'Adour, Anglet, France
| | - Marina Carpineti
- Dipartimento di Fisica"A. Pontremoli", Università degli Studi di Milano, Milan, Italy
| | - Fabrizio Croccolo
- LFCR UMR5150, E2S UPPA, CNRS, Universite de Pau et des Pays de l'Adour, Anglet, France
| | - Fabio Giavazzi
- Dipartimento di Biotecnologie Mediche e Medicina Traslazionale, Università degli Studi di Milano, Segrate, Italy.
| | - Alberto Vailati
- Dipartimento di Fisica"A. Pontremoli", Università degli Studi di Milano, Milan, Italy
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4
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Neill P, Crist N, McGorty R, Robertson-Anderson R. Enzymatic cleaving of entangled DNA rings drives scale-dependent rheological trajectories. SOFT MATTER 2024; 20:2750-2766. [PMID: 38440846 DOI: 10.1039/d3sm01641b] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 03/06/2024]
Abstract
DNA, which naturally occurs in linear, ring, and supercoiled topologies, frequently undergoes enzyme-driven topological conversion and fragmentation in vivo, enabling it to perform a variety of functions within the cell. In vitro, highly concentrated DNA polymers form entanglements that yield viscoelastic properties dependent on the topologies and lengths of the DNA. Enzyme-driven alterations of DNA size and shape therefore offer a means of designing active materials with programmable viscoelastic properties. Here, we incorporate multi-site restriction endonucleases into dense DNA solutions to linearize and fragment circular DNA molecules. We pair optical tweezers microrheology with differential dynamic microscopy and single-molecule tracking to measure the linear and nonlinear viscoelastic response and transport properties of entangled DNA solutions over a wide range of spatiotemporal scales throughout the course of enzymatic digestion. We show that, at short timescales, relative to the relaxation timescales of the polymers, digestion of these 'topologically-active' fluids initially causes an increase in elasticity and relaxation times followed by a gradual decrease. Conversely, for long timescales, linear viscoelastic moduli exhibit signatures of increasing elasticity. DNA diffusion, likewise, becomes increasingly slowed, in direct opposition to the short-time behavior. We hypothesize that this scale-dependent rheology arises from the population of small DNA fragments, which increases as digestion proceeds, driving self-association of larger fragments via depletion interactions, giving rise to slow relaxation modes of clusters of entangled chains, interspersed among shorter unentangled fragments. While these slow modes likely dominate at long times, they are presumably frozen out in the short-time limit, which instead probes the faster relaxation modes of the unentangled population.
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Affiliation(s)
- Philip Neill
- Department of Physics and Biophysics, University of San Diego, San Diego, CA 92104, USA.
| | - Natalie Crist
- Department of Physics and Biophysics, University of San Diego, San Diego, CA 92104, USA.
| | - Ryan McGorty
- Department of Physics and Biophysics, University of San Diego, San Diego, CA 92104, USA.
| | - Rae Robertson-Anderson
- Department of Physics and Biophysics, University of San Diego, San Diego, CA 92104, USA.
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5
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Höfling F, Dietrich S. Structure of liquid-vapor interfaces: Perspectives from liquid state theory, large-scale simulations, and potential grazing-incidence x-ray diffraction. J Chem Phys 2024; 160:104107. [PMID: 38469908 DOI: 10.1063/5.0186955] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/09/2023] [Accepted: 02/15/2024] [Indexed: 03/13/2024] Open
Abstract
Grazing-incidence x-ray diffraction (GIXRD) is a scattering technique that allows one to characterize the structure of fluid interfaces down to the molecular scale, including the measurement of surface tension and interface roughness. However, the corresponding standard data analysis at nonzero wave numbers has been criticized as to be inconclusive because the scattering intensity is polluted by the unavoidable scattering from the bulk. Here, we overcome this ambiguity by proposing a physically consistent model of the bulk contribution based on a minimal set of assumptions of experimental relevance. To this end, we derive an explicit integral expression for the background scattering, which can be determined numerically from the static structure factors of the coexisting bulk phases as independent input. Concerning the interpretation of GIXRD data inferred from computer simulations, we extend the model to account also for the finite sizes of the bulk phases, which are unavoidable in simulations. The corresponding leading-order correction beyond the dominant contribution to the scattered intensity is revealed by asymptotic analysis, which is characterized by the competition between the linear system size and the x-ray penetration depth in the case of simulations. Specifically, we have calculated the expected GIXRD intensity for scattering at the planar liquid-vapor interface of Lennard-Jones fluids with truncated pair interactions via extensive, high-precision computer simulations. The reported data cover interfacial and bulk properties of fluid states along the whole liquid-vapor coexistence line. A sensitivity analysis shows that our findings are robust with respect to the detailed definition of the mean interface position. We conclude that previous claims of an enhanced surface tension at mesoscopic scales are amenable to unambiguous tests via scattering experiments.
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Affiliation(s)
- F Höfling
- Freie Universität Berlin, Fachbereich Mathematik und Informatik, Arnimallee 6, 14195 Berlin, Germany
- Zuse Institut Berlin, Takustr. 7, 14195 Berlin, Germany
| | - S Dietrich
- Max-Planck-Institut für Intelligente Systeme, Heisenbergstraße 3, 70569 Stuttgart, Germany
- IV. Institut für Theoretische Physik, Universität Stuttgart, Pfaffenwaldring 57, 70569 Stuttgart, Germany
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6
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Li H, Wang J, Warr GG, Atkin R. Effect of Potential on the Nanostructure Dynamics of Ethylammonium Nitrate at a Graphite Electrode. SMALL (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2024; 20:e2306011. [PMID: 37806754 DOI: 10.1002/smll.202306011] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/17/2023] [Revised: 09/20/2023] [Indexed: 10/10/2023]
Abstract
Video-rate atomic force microscopy (AFM) is used to study the near-surface nanostructure dynamics of the ionic liquid ethylammonium nitrate (EAN) at a highly oriented pyrolytic graphite (HOPG) electrode as a function of potential in real-time for the first time. The effects of varying the surface potential and adding 10 wt% water on the nanostructure diffusion coefficient are probed. For both EAN and the 90 wt% EAN-water mixture, disk-like features ≈9 nm in diameter and 1 nm in height form above the Stern layer at all potentials. The nanostructure diffusion coefficient increases with potential (from OCP -0.5 V to OCP +0.5 V) and with added water. Nanostructure dynamics depends on both the magnitude and direction of the potential change. Upon switching the potential from OCP -0.5 V to OCP +0.5 V, a substantial increase in the diffusion coefficients is observed, likely due to the absence of solvophobic interactions between the nitrate (NO3 - ) anions and the ethylammonium (EA+ ) cations in the near-surface region. When the potential is reversed, EA+ is attracted to the Stern layer to replace NO3 - , but its movement is hindered by solvophobic attractions. The outcomes will aid applications, including electrochemical devices, catalysts, and lubricants.
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Affiliation(s)
- Hua Li
- School of Molecular Sciences, The University of Western Australia, Perth, Western Australia, 6009, Australia
- Centre for Microscopy, Characterisation and Analysis, The University of Western Australia, Perth, Western Australia, 6009, Australia
| | - Jianan Wang
- School of Molecular Sciences, The University of Western Australia, Perth, Western Australia, 6009, Australia
| | - Gregory G Warr
- School of Chemistry and Sydney Nano Institute, The University of Sydney, Sydney, New South Wales, 2006, Australia
| | - Rob Atkin
- School of Molecular Sciences, The University of Western Australia, Perth, Western Australia, 6009, Australia
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7
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Hanio S, Möllmert S, Möckel C, Choudhury S, Höpfel AI, Zorn T, Endres S, Schlauersbach J, Scheller L, Keßler C, Scherf-Clavel O, Bellstedt P, Schubert US, Pöppler AC, Heinze KG, Guck J, Meinel L. Bile Is a Selective Elevator for Mucosal Mechanics and Transport. Mol Pharm 2023; 20:6151-6161. [PMID: 37906224 DOI: 10.1021/acs.molpharmaceut.3c00550] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/02/2023]
Abstract
Mucus mechanically protects the intestinal epithelium and impacts the absorption of drugs, with a largely unknown role for bile. We explored the impacts of bile on mucosal biomechanics and drug transport within mucus. Bile diffused with square-root-of-time kinetics and interplayed with mucus, leading to transient stiffening captured in Brillouin images and a concentration-dependent change from subdiffusive to Brownian-like diffusion kinetics within the mucus demonstrated by differential dynamic microscopy. Bile-interacting drugs, Fluphenazine and Perphenazine, diffused faster through mucus in the presence of bile, while Metoprolol, a drug with no bile interaction, displayed consistent diffusion. Our findings were corroborated by rat studies, where co-dosing of a bile acid sequestrant substantially reduced the bioavailability of Perphenazine but not Metoprolol. We clustered over 50 drugs based on their interactions with bile and mucin. Drugs that interacted with bile also interacted with mucin but not vice versa. This study detailed the dynamics of mucus biomechanics under bile exposure and linked the ability of a drug to interact with bile to its abbility to interact with mucus.
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Affiliation(s)
- Simon Hanio
- Institute for Pharmacy and Food Chemistry, University of Wuerzburg, Am Hubland, 97074 Wuerzburg, Germany
| | - Stephanie Möllmert
- Max Planck Institute for the Science of Light and Max-Planck-Zentrum für Physik und Medizin, Staudtstrasse 2, 91058 Erlangen, Germany
| | - Conrad Möckel
- Max Planck Institute for the Science of Light and Max-Planck-Zentrum für Physik und Medizin, Staudtstrasse 2, 91058 Erlangen, Germany
| | - Susobhan Choudhury
- Rudolf Virchow Center for Integrative and Translational Bioimaging, University of Würzburg, Josef-Schneider-Str. 2, 97080 Wuerzburg, Germany
| | - Andreas I Höpfel
- Rudolf Virchow Center for Integrative and Translational Bioimaging, University of Würzburg, Josef-Schneider-Str. 2, 97080 Wuerzburg, Germany
| | - Theresa Zorn
- Institute of Organic Chemistry, University of Würzburg, Am Hubland, 97074 Wuerzburg, Germany
| | - Sebastian Endres
- Institute of Organic Chemistry, University of Würzburg, Am Hubland, 97074 Wuerzburg, Germany
| | - Jonas Schlauersbach
- Institute for Pharmacy and Food Chemistry, University of Wuerzburg, Am Hubland, 97074 Wuerzburg, Germany
| | - Lena Scheller
- Institute for Pharmacy and Food Chemistry, University of Wuerzburg, Am Hubland, 97074 Wuerzburg, Germany
| | - Christoph Keßler
- Institute for Pharmacy and Food Chemistry, University of Wuerzburg, Am Hubland, 97074 Wuerzburg, Germany
| | - Oliver Scherf-Clavel
- Institute for Pharmacy and Food Chemistry, University of Wuerzburg, Am Hubland, 97074 Wuerzburg, Germany
| | - Peter Bellstedt
- Institute of Organic Chemistry, University of Jena, Humboldtstrasse 10, 07743 Jena, Germany
- Institute for Clinical Chemistry, University of Zürich,Rämistrasse 100, 8091 Zurich, Switzerland
| | - Ulrich S Schubert
- Institute of Organic Chemistry, University of Jena, Humboldtstrasse 10, 07743 Jena, Germany
- Jena Center for Soft Matter (JCSM), University of Jena, Philosophenweg 7, 07743 Jena, Germany
| | - Ann-Christin Pöppler
- Institute of Organic Chemistry, University of Würzburg, Am Hubland, 97074 Wuerzburg, Germany
| | - Katrin G Heinze
- Rudolf Virchow Center for Integrative and Translational Bioimaging, University of Würzburg, Josef-Schneider-Str. 2, 97080 Wuerzburg, Germany
| | - Jochen Guck
- Max Planck Institute for the Science of Light and Max-Planck-Zentrum für Physik und Medizin, Staudtstrasse 2, 91058 Erlangen, Germany
| | - Lorenz Meinel
- Institute for Pharmacy and Food Chemistry, University of Wuerzburg, Am Hubland, 97074 Wuerzburg, Germany
- Helmholtz Institute for RNA-based Infection Research (HIRI), Josef-Schneider-Strasse 2, 97080 Wuerzburg, Germany
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8
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Bradley JJ, Martinez VA, Arlt J, Royer JR, Poon WCK. Sizing multimodal suspensions with differential dynamic microscopy. SOFT MATTER 2023; 19:8179-8192. [PMID: 37850499 PMCID: PMC10619199 DOI: 10.1039/d3sm00593c] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/06/2023] [Accepted: 10/10/2023] [Indexed: 10/19/2023]
Abstract
Differential dynamic microscopy (DDM) can be used to extract the mean particle size from videos of suspensions. However, many suspensions have multimodal particle size distributions, for which a single 'mean' is not a sufficient description. After clarifying how different particle sizes contribute to the signal in DDM, we show that standard DDM analysis can extract the mean sizes of two populations in a bimodal suspension given prior knowledge of the sample's bimodality. Further, the use of the CONTIN algorithm obviates the need for such prior knowledge. Finally, we show that by selectively analysing portions of the DDM images, we can size a trimodal suspension where the large particles would otherwise dominate the signal, again without prior knowledge of the trimodality.
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Affiliation(s)
- Joe J Bradley
- School of Physics & Astronomy, The University of Edinburgh, Peter Guthrie Tait Road, Edinburgh EH9 3FD, UK.
| | - Vincent A Martinez
- School of Physics & Astronomy, The University of Edinburgh, Peter Guthrie Tait Road, Edinburgh EH9 3FD, UK.
| | - Jochen Arlt
- School of Physics & Astronomy, The University of Edinburgh, Peter Guthrie Tait Road, Edinburgh EH9 3FD, UK.
| | - John R Royer
- School of Physics & Astronomy, The University of Edinburgh, Peter Guthrie Tait Road, Edinburgh EH9 3FD, UK.
| | - Wilson C K Poon
- School of Physics & Astronomy, The University of Edinburgh, Peter Guthrie Tait Road, Edinburgh EH9 3FD, UK.
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9
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McGorty RJ, Currie CJ, Michel J, Sasanpour M, Gunter C, Lindsay KA, Rust MJ, Katira P, Das M, Ross JL, Robertson-Anderson RM. Kinesin and myosin motors compete to drive rich multiphase dynamics in programmable cytoskeletal composites. PNAS NEXUS 2023; 2:pgad245. [PMID: 37575673 PMCID: PMC10416814 DOI: 10.1093/pnasnexus/pgad245] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/03/2023] [Revised: 07/07/2023] [Accepted: 07/17/2023] [Indexed: 08/15/2023]
Abstract
The cellular cytoskeleton relies on diverse populations of motors, filaments, and binding proteins acting in concert to enable nonequilibrium processes ranging from mitosis to chemotaxis. The cytoskeleton's versatile reconfigurability, programmed by interactions between its constituents, makes it a foundational active matter platform. However, current active matter endeavors are limited largely to single force-generating components acting on a single substrate-far from the composite cytoskeleton in cells. Here, we engineer actin-microtubule (MT) composites, driven by kinesin and myosin motors and tuned by crosslinkers, to ballistically restructure and flow with speeds that span three orders of magnitude depending on the composite formulation and time relative to the onset of motor activity. Differential dynamic microscopy analyses reveal that kinesin and myosin compete to delay the onset of acceleration and suppress discrete restructuring events, while passive crosslinking of either actin or MTs has an opposite effect. Our minimal advection-diffusion model and spatial correlation analyses correlate these dynamics to structure, with motor antagonism suppressing reconfiguration and demixing, while crosslinking enhances clustering. Despite the rich formulation space and emergent formulation-dependent structures, the nonequilibrium dynamics across all composites and timescales can be organized into three classes-slow isotropic reorientation, fast directional flow, and multimode restructuring. Moreover, our mathematical model demonstrates that diverse structural motifs can arise simply from the interplay between motor-driven advection and frictional drag. These general features of our platform facilitate applicability to other active matter systems and shed light on diverse ways that cytoskeletal components can cooperate or compete to enable wide-ranging cellular processes.
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Affiliation(s)
- Ryan J McGorty
- Department of Physics and Biophysics, University of San Diego, San Diego, CA 92110, USA
| | - Christopher J Currie
- Department of Physics and Biophysics, University of San Diego, San Diego, CA 92110, USA
| | - Jonathan Michel
- School of Physics and Astronomy, Rochester Institute of Technology, Rochester, NY 14623, USA
| | - Mehrzad Sasanpour
- Department of Physics and Biophysics, University of San Diego, San Diego, CA 92110, USA
| | - Christopher Gunter
- Department of Mechanical Engineering, San Diego State University, San Diego, CA 92182, USA
| | - K Alice Lindsay
- Department of Physics, Syracuse University, Syracuse, NY 13244, USA
| | - Michael J Rust
- Department of Molecular Genetics and Cell Biology, University of Chicago, Chicago, IL 60637, USA
| | - Parag Katira
- Department of Mechanical Engineering, San Diego State University, San Diego, CA 92182, USA
| | - Moumita Das
- School of Physics and Astronomy, Rochester Institute of Technology, Rochester, NY 14623, USA
| | - Jennifer L Ross
- Department of Physics, Syracuse University, Syracuse, NY 13244, USA
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10
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Roopnarine B, Schmidt SC, Maxwell KJ, Morozova S. Effects of Molecular Weight and Surface Interactions on Polymer Diffusion in Confinement. ACS Macro Lett 2023; 12:221-226. [PMID: 36705547 PMCID: PMC9948537 DOI: 10.1021/acsmacrolett.3c00015] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/28/2023]
Abstract
Understanding the transport and thermodynamics of polymers in confined spaces is helpful for many separation processes like water purification, drug delivery, and oil recovery. Specifically, for water purification, dextran has been used as a "model" foulant. Uncovering how these polymers interact in confinement can reduce the fouling of organic membranes and will lead to better separation processes overall. We have determined the diffusion coefficient, D, of dextran and sodium polyacrylate in convex lens-induced confinement using differential dynamic microscopy. In this setup, the gap height ranges continuously from 0.077-21.8 μm. It was found that polymer diffusion becomes slower in higher confinement, which is consistent with a change in the increase of the hydrodynamic resistance to macromolecule motion and depends on the surface properties. These findings indicate that dextran diffusion changes in confinement and can lead to a better understanding of separation processes.
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Affiliation(s)
- Brittany
K. Roopnarine
- Department
of Macromolecular Science and Engineering, Case Western Reserve University, Cleveland, Ohio44106, United States
| | - Spencer C. Schmidt
- Department
of Macromolecular Science and Engineering, Case Western Reserve University, Cleveland, Ohio44106, United States
| | - Kevin J. Maxwell
- Department
of Macromolecular Science and Engineering, Case Western Reserve University, Cleveland, Ohio44106, United States
| | - Svetlana Morozova
- Department
of Macromolecular Science and Engineering, Case Western Reserve University, Cleveland, Ohio44106, United States,Phone: 5088159802.
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11
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Peddireddy KR, Clairmont R, Neill P, McGorty R, Robertson-Anderson RM. Optical-Tweezers-integrating-Differential-Dynamic-Microscopy maps the spatiotemporal propagation of nonlinear strains in polymer blends and composites. Nat Commun 2022; 13:5180. [PMID: 36056012 PMCID: PMC9440072 DOI: 10.1038/s41467-022-32876-y] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/08/2022] [Accepted: 08/15/2022] [Indexed: 11/08/2022] Open
Abstract
How local stresses propagate through polymeric fluids, and, more generally, how macromolecular dynamics give rise to viscoelasticity are open questions vital to wide-ranging scientific and industrial fields. Here, to unambiguously connect polymer dynamics to force response, and map the deformation fields that arise in macromolecular materials, we present Optical-Tweezers-integrating-Differential -Dynamic-Microscopy (OpTiDMM) that simultaneously imposes local strains, measures resistive forces, and analyzes the motion of the surrounding polymers. Our measurements with blends of ring and linear polymers (DNA) and their composites with stiff polymers (microtubules) uncover an unexpected resonant response, in which strain alignment, superdiffusivity, and elasticity are maximized when the strain rate is comparable to the entanglement rate. Microtubules suppress this resonance, while substantially increasing elastic storage, due to varying degrees to which the polymers buildup, stretch and flow along the strain path, and configurationally relax induced stress. More broadly, the rich multi-scale coupling of mechanics and dynamics afforded by OpTiDDM, empowers its interdisciplinary use to elucidate non-trivial phenomena that sculpt stress propagation dynamics-critical to commercial applications and cell mechanics alike.
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Affiliation(s)
- Karthik R Peddireddy
- Department of Physics and Biophysics, University of San Diego, San Diego, CA, 92110, USA
| | - Ryan Clairmont
- Department of Physics and Biophysics, University of San Diego, San Diego, CA, 92110, USA
| | - Philip Neill
- Department of Physics and Biophysics, University of San Diego, San Diego, CA, 92110, USA
| | - Ryan McGorty
- Department of Physics and Biophysics, University of San Diego, San Diego, CA, 92110, USA
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12
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Al-Shahrani M, Bryant G. Differential dynamic microscopy for the characterisation of motility in biological systems. Phys Chem Chem Phys 2022; 24:20616-20623. [PMID: 36048134 DOI: 10.1039/d2cp02034c] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Differential Dynamic Microscopy (DDM) is a relatively new technique which measures the dynamics of suspended particles using a dynamic light scattering formalism. Videos are recorded using standard light microscopy at moderate frame rates, and fluctuations in pixel intensity are measured as a function of time. As only pixel intensity is analysed, it is not necessary to resolve individual particles. This allows for low magnifications and wide fields of view, and therefore dynamics can be measured on tens of thousands of scattering objects, providing robust statistics. A decade ago the technique was successfully applied to measure bacterial motility. Since then, it has been applied to a range of motile systems, but has not yet reached the wider biological community. This perspective reviews the work done so far, and provides the basic background to enable the broader application of this promising technique.
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Affiliation(s)
- Monerh Al-Shahrani
- Physics, School of Science, RMIT University, Melbourne, Australia. .,Department of Physics, College of Science, University of Bisha, Bisha, Saudi Arabia
| | - Gary Bryant
- Physics, School of Science, RMIT University, Melbourne, Australia.
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Usuelli M, Ruzzi V, Buzzaccaro S, Nyström G, Piazza R, Mezzenga R. Unraveling gelation kinetics, arrested dynamics and relaxation phenomena in filamentous colloids by photon correlation imaging. SOFT MATTER 2022; 18:5632-5644. [PMID: 35861104 DOI: 10.1039/d1sm01578h] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
The fundamental understanding of the gelation kinetics, stress relaxation and temporal evolution in colloidal filamentous gels is central to many aspects of soft and biological matter, yet a complete description of the inherent complex dynamics of these systems is still missing. By means of photon correlation imaging (PCI), we studied the gelation of amyloid fibril solutions, chosen as a model filamentous colloid with immediate significance to biology and nanotechnology, upon passage of ions through a semi-permeable membrane. We observed a linear-in-time evolution of the gelation front and rich rearrangement dynamics of the gels, the magnitude and the spatial propagation of which depend on how effectively electrostatic interactions are screened by different ionic strengths. Our analysis confirms the pivotal role of salt concentration in tuning the properties of amyloid gels, and suggests potential routes for explaining the physical mechanisms behind the linear advance of the salt ions.
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Affiliation(s)
- Mattia Usuelli
- ETH Zürich, Department of Health Sciences and Technology, Schmelzbergstrasse 9, 8092 Zürich, Switzerland.
| | - Vincenzo Ruzzi
- Department of Chemistry, Materials Science, and Chemical Engineering (CMIC), Politecnico di Milano, Edificio 6, Piazza Leonardo da Vinci 32, 20133 Milano, Italy.
| | - Stefano Buzzaccaro
- Department of Chemistry, Materials Science, and Chemical Engineering (CMIC), Politecnico di Milano, Edificio 6, Piazza Leonardo da Vinci 32, 20133 Milano, Italy.
| | - Gustav Nyström
- ETH Zürich, Department of Health Sciences and Technology, Schmelzbergstrasse 9, 8092 Zürich, Switzerland.
- EMPA, Laboratory for Cellulose & Wood Materials, Überlandstrasse 129, 8600 Dübendorf, Switzerland
| | - Roberto Piazza
- Department of Chemistry, Materials Science, and Chemical Engineering (CMIC), Politecnico di Milano, Edificio 6, Piazza Leonardo da Vinci 32, 20133 Milano, Italy.
| | - Raffaele Mezzenga
- ETH Zürich, Department of Health Sciences and Technology, Schmelzbergstrasse 9, 8092 Zürich, Switzerland.
- ETH Zürich, Department of Materials, Wolfgang-Pauli-Strasse 10, 8093 Zürich, Switzerland
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Meleties M, Martineau RL, Gupta MK, Montclare JK. Particle-Based Microrheology As a Tool for Characterizing Protein-Based Materials. ACS Biomater Sci Eng 2022; 8:2747-2763. [PMID: 35678203 DOI: 10.1021/acsbiomaterials.2c00035] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Microrheology based on video microscopy of embedded tracer particles has the potential to be used for high-throughput protein-based materials characterization. This potential is due to a number of characteristics of the techniques, including the suitability for measurement of low sample volumes, noninvasive and noncontact measurements, and the ability to set up a large number of samples for facile, sequential measurement. In addition to characterization of the bulk rheological properties of proteins in solution, for example, viscosity, microrheology can provide insight into the dynamics and self-assembly of protein-based materials as well as heterogeneities in the microenvironment being probed. Specifically, passive microrheology in the form of multiple particle tracking and differential dynamic microscopy holds promise for applications in high-throughput characterization because of the lack of user interaction required while making measurements. Herein, recent developments in the use of multiple particle tracking and differential dynamic microscopy are reviewed for protein characterization and their potential to be applied in a high-throughput, automatable setting.
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Affiliation(s)
- Michael Meleties
- Department of Chemical and Biomolecular Engineering, Tandon School of Engineering, New York University, New York, New York 11201, United States
| | - Rhett L Martineau
- Materials and Manufacturing Directorate, Air Force Research Laboratory, Wright-Patterson AFB, Ohio 45433, United States.,Biological and Nanoscale Technologies Division, UES Inc., Dayton, Ohio 45432, United States
| | - Maneesh K Gupta
- Materials and Manufacturing Directorate, Air Force Research Laboratory, Wright-Patterson AFB, Ohio 45433, United States
| | - Jin Kim Montclare
- Department of Chemical and Biomolecular Engineering, Tandon School of Engineering, New York University, New York, New York 11201, United States.,Department of Radiology, New York University Langone Health, New York, New York 10016, United States.,Department of Biomaterials, College of Dentistry, New York University, New York, New York 10010, United States.,Department of Chemistry, New York University, New York, New York 10003, United States
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Pastore R, Giavazzi F, Greco F, Cerbino R. Multiscale heterogeneous dynamics in two-dimensional glassy colloids. J Chem Phys 2022; 156:164906. [DOI: 10.1063/5.0087590] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
Abstract
On approaching the glass transition, a dense colloid exhibits a dramatic slowdown with minute structural changes. Most microscopy experiments directly follow the motion of individual particles in real space, whereas scattering experiments typically probe the collective dynamics in reciprocal space, at variable wavevector q. Multiscale studies of glassy dynamics are experimentally demanding and thus seldom performed. By using two-dimensional hard-sphere colloids at various area fractions φ, we show here that Differential Dynamic Microscopy (DDM) can be effectively used to measure the collective dynamics of a glassy colloid in a range of q within a single experiment. As φ is increased, the single decay of the intermediate scattering functions is progressively replaced by a more complex relaxation that we fit to a sum of two stretched-exponential decays. The slowest process, corresponding to the long-time particle escapes from caging, has a characteristic time τs = 1/(DLq2 ) with diffusion coefficient DL ∼ (φc −φ)2.8 , and φc ≈ 0.81. The fast process exhibits, instead, a non-Brownian scaling of the characteristic time τf(q) and a relative amplitude a(q) that monotonically increases with q. Despite the non-Brownian nature of τf(q), we succeed in estimating the short-time diffusion coefficient Dcage, whose φ-dependence is practically negligible compared to the one of DL. Finally, we extend DDM to measure the q-dependent dynamical susceptibility χ4(q,t), a powerful yet hard-to-access multiscale indicator of dynamical heterogeneities. Our results show that DDM is a convenient tool to study the dynamics of colloidal glasses over a broad range of time and length-scales.
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Affiliation(s)
- Raffaele Pastore
- Università degli Studi di Napoli Federico II Dipartimento di Ingegneria Chimica dei Materiali e della Produzione Industriale, Italy
| | | | | | - Roberto Cerbino
- Physics, Universität Wien Computergestützte Physik und Physik der Weichen Materie, Austria
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Meleties M, Britton D, Katyal P, Lin B, Martineau RL, Gupta MK, Montclare JK. High-Throughput Microrheology for the Assessment of Protein Gelation Kinetics. Macromolecules 2022. [DOI: 10.1021/acs.macromol.1c02281] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Michael Meleties
- Department of Chemical and Biomolecular Engineering, New York University Tandon School of Engineering, Brooklyn, New York 11201, United States
| | - Dustin Britton
- Department of Chemical and Biomolecular Engineering, New York University Tandon School of Engineering, Brooklyn, New York 11201, United States
| | - Priya Katyal
- Department of Chemical and Biomolecular Engineering, New York University Tandon School of Engineering, Brooklyn, New York 11201, United States
| | - Bonnie Lin
- Department of Chemical and Biomolecular Engineering, New York University Tandon School of Engineering, Brooklyn, New York 11201, United States
| | - Rhett L. Martineau
- Materials and Manufacturing Directorate, Air Force Research Laboratory, Wright-Patterson Air Force Base, Ohio 45433, United States
| | - Maneesh K. Gupta
- Materials and Manufacturing Directorate, Air Force Research Laboratory, Wright-Patterson Air Force Base, Ohio 45433, United States
| | - Jin Kim Montclare
- Department of Chemical and Biomolecular Engineering, New York University Tandon School of Engineering, Brooklyn, New York 11201, United States
- Department of Radiology, New York University Langone Health, New York, New York 10016, United States
- Department of Biomaterials, New York University College of Dentistry, New York, New York 10010, United States
- Department of Chemistry, New York University, New York, New York 10003, United States
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Edera P, Brizioli M, Zanchetta G, Petekidis G, Giavazzi F, Cerbino R. Deformation profiles and microscopic dynamics of complex fluids during oscillatory shear experiments. SOFT MATTER 2021; 17:8553-8566. [PMID: 34515281 DOI: 10.1039/d1sm01068a] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/13/2023]
Abstract
Oscillatory shear tests are widely used in rheology to characterize the linear and non-linear mechanical response of complex fluids, including the yielding transition. There is an increasing urge to acquire detailed knowledge of the deformation field that is effectively present across the sample during these tests; at the same time, there is mounting evidence that the macroscopic rheological response depends on the elusive microscopic behavior of the material constituents. Here we employ a strain-controlled shear-cell with transparent walls to visualize and quantify the dynamics of tracers embedded in various cyclically sheared complex fluids, ranging from almost-ideal elastic to yield stress fluids. For each sample, we use image correlation processing to measure the macroscopic deformation field, and echo-differential dynamic microscopy to probe the microscopic irreversible sample dynamics in reciprocal space; finally, we devise a simple scheme to spatially map the rearrangements in the sheared sample, once again without tracking the tracers. For the yield stress sample, we obtain a wave-vector dependent characterization of shear-induced diffusion across the yielding transition, which is accompanied by a three-order-of-magnitude speed-up of the dynamics and by a transition from localized, intermittent rearrangements to a more spatially homogeneous and temporally uniform activity. Our tracking free approach is intrinsically multi-scale, can successfully discriminate between different types of dynamics, and can be automated to minimize user intervention. Applications are many, as it can be translated to other imaging modes, including fluorescence, and can be used with sub-resolution tracers and even without tracers, for samples that provide intrinsic optical contrast.
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Affiliation(s)
- Paolo Edera
- Dipartimento di Biotecnologie Mediche e Medicina Traslazionale, Università degli Studi di Milano, via F.lli Cervi 93, 20090 Segrate, Italy.
| | - Matteo Brizioli
- Dipartimento di Biotecnologie Mediche e Medicina Traslazionale, Università degli Studi di Milano, via F.lli Cervi 93, 20090 Segrate, Italy.
| | - Giuliano Zanchetta
- Dipartimento di Biotecnologie Mediche e Medicina Traslazionale, Università degli Studi di Milano, via F.lli Cervi 93, 20090 Segrate, Italy.
| | - George Petekidis
- FORTH/IESL and Department of Materials Science and Technology, University of Crete, 71110 Heraklion, Greece
| | - Fabio Giavazzi
- Dipartimento di Biotecnologie Mediche e Medicina Traslazionale, Università degli Studi di Milano, via F.lli Cervi 93, 20090 Segrate, Italy.
| | - Roberto Cerbino
- Dipartimento di Biotecnologie Mediche e Medicina Traslazionale, Università degli Studi di Milano, via F.lli Cervi 93, 20090 Segrate, Italy.
- University of Vienna, Faculty of Physics, Boltzmanngasse 5, 1090 Vienna, Austria
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