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Determination of protein-protein interactions at the single-molecule level using optical tweezers. Q Rev Biophys 2022; 55:e8. [PMID: 35946323 DOI: 10.1017/s0033583522000075] [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: 11/06/2022]
Abstract
Biomolecular interactions are at the base of all physical processes within living organisms; the study of these interactions has led to the development of a plethora of different methods. Among these, single-molecule (in singulo) experiments have become relevant in recent years because these studies can give insight into mechanisms and interactions that are hidden for ensemble-based (in multiplo) methods. The focus of this review is on optical tweezer (OT) experiments, which can be used to apply and measure mechanical forces in molecular systems. OTs are based on optical trapping, where a laser is used to exert a force on a dielectric bead; and optically trap the bead at a controllable position in all three dimensions. Different experimental approaches have been developed to study protein–protein interactions using OTs, such as: (1) refolding and unfolding in trans interaction where one protein is tethered between the beads and the other protein is in the solution; (2) constant force in cis interaction where each protein is bound to a bead, and the tension is suddenly increased. The interaction may break after some time, giving information about the lifetime of the binding at that tension. And (3) force ramp in cis interaction where each protein is attached to a bead and a ramp force is applied until the interaction breaks. With these experiments, parameters such as kinetic constants (koff, kon), affinity values (KD), energy to the transition state ΔG≠, distance to the transition state Δx≠ can be obtained. These parameters characterize the energy landscape of the interaction. Some parameters such as distance to the transition state can only be obtained from force spectroscopy experiments such as those described here.
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2
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Li L, Ding Q, Zhou J, Wu Y, Zhang M, Guo X, Long M, Lü S. Distinct binding kinetics of E-, P- and L-selectins to CD44. FEBS J 2021; 289:2877-2894. [PMID: 34839587 DOI: 10.1111/febs.16303] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/17/2021] [Revised: 10/22/2021] [Accepted: 11/26/2021] [Indexed: 01/02/2023]
Abstract
Molecular-level selectin-cluster of differentiation 44 (CD44) interactions are far from clear because of the complexity and diversity of CD44 glycosylation and isoforms expressed on various types of cells. By combining experimental measurements and simulation predictions, the binding kinetics of three selectin members to the recombinant CD44 were quantified and the corresponding microstructural mechanisms were explored, respectively. Experimental results showed that the E-selectin-CD44 interactions mainly mediated the firm adhesion of microbeads under shear flow with the strongest rupture force. P- and L-selectins had similar interaction strength but different association and dissociation rates by mediating stable rolling and transient adhesions of microbeads, respectively. Molecular docking and molecular dynamics (MD) simulations predicted that the binding epitopes of CD44 to selectins are all located at the side face of each selectin, although the interfaces denoted as the hinge region are between lectin and epidermal growth factor domains of E-selectin, Lectin domain side of P-selectin and epidermal growth factor domain side of L-selectin, respectively. The lowest binding free energy, the largest rupture force and the longest lifetime for E-selectin, as well as the comparable values for P- and L-selectins, demonstrated in both equilibration and steered MD simulations, supported the above experimental results. These results offer basic data for understanding the functional differences of selectin-CD44 interactions.
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Affiliation(s)
- Linda Li
- Key Laboratory of Biorheology Science and Technology, Ministry of Education, College of Bioengineering, Chongqing University, Chongqing, China.,Center of Biomechanics and Bioengineering, Key Laboratory of Microgravity (National Microgravity Laboratory), Beijing Key Laboratory of Engineered Construction and Mechanobiology, and CAS Center for Excellence in Complex System Mechanics, Institute of Mechanics, Chinese Academy of Sciences, Beijing, China
| | - Qihan Ding
- Center of Biomechanics and Bioengineering, Key Laboratory of Microgravity (National Microgravity Laboratory), Beijing Key Laboratory of Engineered Construction and Mechanobiology, and CAS Center for Excellence in Complex System Mechanics, Institute of Mechanics, Chinese Academy of Sciences, Beijing, China.,School of Engineering Science, University of Chinese Academy of Sciences, Beijing, China
| | - Jin Zhou
- Center of Biomechanics and Bioengineering, Key Laboratory of Microgravity (National Microgravity Laboratory), Beijing Key Laboratory of Engineered Construction and Mechanobiology, and CAS Center for Excellence in Complex System Mechanics, Institute of Mechanics, Chinese Academy of Sciences, Beijing, China.,School of Engineering Science, University of Chinese Academy of Sciences, Beijing, China
| | - Yi Wu
- Center of Biomechanics and Bioengineering, Key Laboratory of Microgravity (National Microgravity Laboratory), Beijing Key Laboratory of Engineered Construction and Mechanobiology, and CAS Center for Excellence in Complex System Mechanics, Institute of Mechanics, Chinese Academy of Sciences, Beijing, China.,School of Engineering Science, University of Chinese Academy of Sciences, Beijing, China
| | - Mingkun Zhang
- Center of Biomechanics and Bioengineering, Key Laboratory of Microgravity (National Microgravity Laboratory), Beijing Key Laboratory of Engineered Construction and Mechanobiology, and CAS Center for Excellence in Complex System Mechanics, Institute of Mechanics, Chinese Academy of Sciences, Beijing, China.,School of Engineering Science, University of Chinese Academy of Sciences, Beijing, China
| | - Xingming Guo
- Key Laboratory of Biorheology Science and Technology, Ministry of Education, College of Bioengineering, Chongqing University, Chongqing, China
| | - Mian Long
- Center of Biomechanics and Bioengineering, Key Laboratory of Microgravity (National Microgravity Laboratory), Beijing Key Laboratory of Engineered Construction and Mechanobiology, and CAS Center for Excellence in Complex System Mechanics, Institute of Mechanics, Chinese Academy of Sciences, Beijing, China.,School of Engineering Science, University of Chinese Academy of Sciences, Beijing, China
| | - Shouqin Lü
- Center of Biomechanics and Bioengineering, Key Laboratory of Microgravity (National Microgravity Laboratory), Beijing Key Laboratory of Engineered Construction and Mechanobiology, and CAS Center for Excellence in Complex System Mechanics, Institute of Mechanics, Chinese Academy of Sciences, Beijing, China.,School of Engineering Science, University of Chinese Academy of Sciences, Beijing, China
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3
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Lucci G, Giverso C, Preziosi L. Cell orientation under stretch: Stability of a linear viscoelastic model. Math Biosci 2021; 337:108630. [PMID: 34015301 DOI: 10.1016/j.mbs.2021.108630] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/18/2021] [Revised: 05/13/2021] [Accepted: 05/13/2021] [Indexed: 10/21/2022]
Abstract
The sensitivity of cells to alterations in the microenvironment and in particular to external mechanical stimuli is significant in many biological and physiological circumstances. In this regard, experimental assays demonstrated that, when a monolayer of cells cultured on an elastic substrate is subject to an external cyclic stretch with a sufficiently high frequency, a reorganization of actin stress fibres and focal adhesions happens in order to reach a stable equilibrium orientation, characterized by a precise angle between the cell major axis and the largest strain direction. To examine the frequency effect on the orientation dynamics, we propose a linear viscoelastic model that describes the coupled evolution of the cellular stress and the orientation angle. We find that cell orientation oscillates tending to an angle that is predicted by the minimization of a very general orthotropic elastic energy, as confirmed by a bifurcation analysis. Moreover, simulations show that the speed of convergence towards the predicted equilibrium orientation presents a changeover related to the viscous-elastic transition for viscoelastic materials. In particular, when the imposed oscillation period is lower than the characteristic turnover rate of the cytoskeleton and of adhesion molecules such as integrins, reorientation is significantly faster.
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Affiliation(s)
- Giulio Lucci
- Department of Mathematical Sciences "G.L. Lagrange" Dipartimento di Eccellenza 2018-2022, Politecnico di Torino, Corso Duca degli Abruzzi 24, 10129 Turin, Italy; Department of Mathematics "G. Peano", Università degli Studi di Torino, Via Carlo Alberto 10, 10123 Turin, Italy.
| | - Chiara Giverso
- Department of Mathematical Sciences "G.L. Lagrange" Dipartimento di Eccellenza 2018-2022, Politecnico di Torino, Corso Duca degli Abruzzi 24, 10129 Turin, Italy.
| | - Luigi Preziosi
- Department of Mathematical Sciences "G.L. Lagrange" Dipartimento di Eccellenza 2018-2022, Politecnico di Torino, Corso Duca degli Abruzzi 24, 10129 Turin, Italy.
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4
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Burgos-Bravo F, Martínez-Meza S, Quest AFG, Wilson CAM, Leyton L. Application of Force to a Syndecan-4 Containing Complex With Thy-1-α Vβ 3 Integrin Accelerates Neurite Retraction. Front Mol Biosci 2020; 7:582257. [PMID: 33134319 PMCID: PMC7550751 DOI: 10.3389/fmolb.2020.582257] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/11/2020] [Accepted: 08/25/2020] [Indexed: 12/23/2022] Open
Abstract
Inflammation contributes to the genesis and progression of chronic diseases, such as cancer and neurodegeneration. Upregulation of integrins in astrocytes during inflammation induces neurite retraction by binding to the neuronal protein Thy-1, also known as CD90. Additionally, Thy-1 alters astrocyte contractility and movement by binding to the mechano-sensors αVβ3 integrin and Syndecan-4. However, the contribution of Syndecan-4 to neurite shortening following Thy-1-αVβ3 integrin interaction remains unknown. To further characterize the contribution of Syndecan-4 in Thy-1-dependent neurite outgrowth inhibition and neurite retraction, cell-based assays under pro-inflammatory conditions were performed. In addition, using Optical Tweezers, we studied single-molecule binding properties between these proteins, and their mechanical responses. Syndecan-4 increased the lifetime of Thy-1-αVβ3 integrin binding by interacting directly with Thy-1 and forming a ternary complex (Thy-1-αVβ3 integrin + Syndecan-4). Under in vitro-generated pro-inflammatory conditions, Syndecan-4 accelerated the effect of integrin-engaged Thy-1 by forming this ternary complex, leading to faster neurite retraction and the inhibition of neurite outgrowth. Thus, Syndecan-4 controls neurite cytoskeleton contractility by modulating αVβ3 integrin mechano-receptor function. These results suggest that mechano-transduction, cell-matrix and cell-cell interactions are likely critical events in inflammation-related disease development.
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Affiliation(s)
- Francesca Burgos-Bravo
- Laboratory of Cellular Communication, Center for Studies on Exercise, Metabolism and Cancer, Institute of Biomedical Sciences, Santiago, Chile.,Advanced Center for Chronic Diseases, Facultad de Medicina, Universidad de Chile, Santiago, Chile.,Single Molecule Biochemistry and Mechanobiology Laboratory, Department of Biochemistry and Molecular Biology, Facultad de Ciencias Químicas y Farmacéuticas, Universidad de Chile, Santiago, Chile
| | - Samuel Martínez-Meza
- Laboratory of Cellular Communication, Center for Studies on Exercise, Metabolism and Cancer, Institute of Biomedical Sciences, Santiago, Chile.,Advanced Center for Chronic Diseases, Facultad de Medicina, Universidad de Chile, Santiago, Chile
| | - Andrew F G Quest
- Laboratory of Cellular Communication, Center for Studies on Exercise, Metabolism and Cancer, Institute of Biomedical Sciences, Santiago, Chile.,Advanced Center for Chronic Diseases, Facultad de Medicina, Universidad de Chile, Santiago, Chile
| | - Christian A M Wilson
- Single Molecule Biochemistry and Mechanobiology Laboratory, Department of Biochemistry and Molecular Biology, Facultad de Ciencias Químicas y Farmacéuticas, Universidad de Chile, Santiago, Chile
| | - Lisette Leyton
- Laboratory of Cellular Communication, Center for Studies on Exercise, Metabolism and Cancer, Institute of Biomedical Sciences, Santiago, Chile.,Advanced Center for Chronic Diseases, Facultad de Medicina, Universidad de Chile, Santiago, Chile
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5
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Zhao J, Su H, Vansuch GE, Liu Z, Salaita K, Dyer RB. Localized Nanoscale Heating Leads to Ultrafast Hydrogel Volume-Phase Transition. ACS NANO 2019; 13:515-525. [PMID: 30574782 PMCID: PMC6467806 DOI: 10.1021/acsnano.8b07150] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/21/2023]
Abstract
The rate of the volume-phase transition for stimuli-responsive hydrogel particles ranging in size from millimeters to nanometers is limited by the rate of water transport, which is proportional to the surface area of the particle. Here, we hypothesized that the rate of volume-phase transition could be accelerated if the stimulus is geometrically controlled from the inside out, thus facilitating outward water ejection. To test this concept, we applied transient absorption spectroscopy, laser temperature-jump spectroscopy, and finite-element analysis modeling to characterize the dynamics of the volume-phase transition of hydrogel particles with a gold nanorod core. Our results demonstrate that the nanoscale heating of the hydrogel particle core led to an ultrafast, 60 ns particle collapse, which is 2-3 orders of magnitude faster than the response generated from conventional heating. This is the fastest recorded response time of a hydrogel material, thus opening potential applications for such stimuli-responsive materials.
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Affiliation(s)
- Jing Zhao
- Department of Chemistry, Emory University, Atlanta, Georgia 30322, United States
| | - Hanquan Su
- Department of Chemistry, Emory University, Atlanta, Georgia 30322, United States
| | - Gregory E. Vansuch
- Department of Chemistry, Emory University, Atlanta, Georgia 30322, United States
| | - Zheng Liu
- Institute for Advanced Studies, Wuhan University, Wuhan, PR China
| | - Khalid Salaita
- Department of Chemistry, Emory University, Atlanta, Georgia 30322, United States
- Corresponding Authors
| | - R. Brian Dyer
- Department of Chemistry, Emory University, Atlanta, Georgia 30322, United States
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6
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Hudnut AW, Trasolini NA, Hatch GFR, Armani AM. Biomechanical Analysis of Porcine Cartilage Elasticity. Ann Biomed Eng 2018; 47:202-212. [PMID: 30251031 DOI: 10.1007/s10439-018-02133-9] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/03/2018] [Accepted: 09/14/2018] [Indexed: 01/02/2023]
Abstract
Grafting of tissue-engineered cartilage to joints with osteoarthritis has the potential to supersede arthroplasty as the standard of care. However, in order to support the development of functional tissue engineering methods, the subfailure biomechanics of the individual cartilage types that comprise joints must be determined. Current methods for analyzing tissues are based on imaging and are therefore unable to profile the strain dependence of mechanical behaviors within different cartilage types. Recently, an analysis technique based on Optical Fiber Polarimetric Elastography (OFPE) has overcome these challenges. OFPE has been used to characterize the different mechanical behaviors of a range of unprocessed biomaterials and tissues. In the present work, this technique is used to characterize the biomechanics of both articular cartilage and meniscal fibrocartilage within a porcine knee. OFPE testing of the tissue is conducted over a range of physiological loading and unloading values. These results demonstrate the distinctive mechanics of each cartilage type. Due to their different locations within the knee, each cartilage type exhibits distinctly unique biomechanical behavior. Based on the results of OFPE, we correlate the specific buckling, delamination, and bridging events to maxima and minima along the loading and unloading curves. This provides unprecedented detail with regard to the subfailure biomechanics. This information is integral to the design of the next generation of tissue-engineered constructs. Therefore, OFPE will be used across multiple disciplines to rapidly determine the mechanical behavior of tissue-engineered constructs to support functional tissue engineering efforts.
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Affiliation(s)
- Alexa W Hudnut
- Department of Biomedical Engineering, University of Southern California, Los Angeles, CA, USA
| | - Nicholas A Trasolini
- Department of Orthopedic Surgery, University of Southern California, Los Angeles, CA, USA
| | - George F Rick Hatch
- Department of Orthopedic Surgery, University of Southern California, Los Angeles, CA, USA
| | - Andrea M Armani
- Department of Biomedical Engineering, University of Southern California, Los Angeles, CA, USA. .,Mork Family Department of Chemical Engineering and Material Science, University of Southern California, Los Angeles, CA, USA.
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7
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Burgos-Bravo F, Figueroa NL, Casanova-Morales N, Quest AFG, Wilson CAM, Leyton L. Single-molecule measurements of the effect of force on Thy-1/αvβ3-integrin interaction using nonpurified proteins. Mol Biol Cell 2017; 29:326-338. [PMID: 29212879 PMCID: PMC5996956 DOI: 10.1091/mbc.e17-03-0133] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/03/2017] [Revised: 10/10/2017] [Accepted: 12/01/2017] [Indexed: 12/11/2022] Open
Abstract
Single-molecule measurements combined with a novel mathematical strategy were applied to accurately characterize how bimolecular interactions respond to mechanical force, especially when protein purification is not possible. Specifically, we studied the effect of force on Thy-1/αvβ3 integrin interaction, a mediator of neuron-astrocyte communication. Thy-1 and αvβ3 integrin mediate bidirectional cell-to-cell communication between neurons and astrocytes. Thy-1/αvβ3 interactions stimulate astrocyte migration and the retraction of neuronal prolongations, both processes in which internal forces are generated affecting the bimolecular interactions that maintain cell–cell adhesion. Nonetheless, how the Thy-1/αvβ3 interactions respond to mechanical cues is an unresolved issue. In this study, optical tweezers were used as a single-molecule force transducer, and the Dudko-Hummer-Szabo model was applied to calculate the kinetic parameters of Thy-1/αvβ3 dissociation. A novel experimental strategy was implemented to analyze the interaction of Thy-1-Fc with nonpurified αvβ3-Fc integrin, whereby nonspecific rupture events were corrected by using a new mathematical approach. This methodology permitted accurately estimating specific rupture forces for Thy-1-Fc/αvβ3-Fc dissociation and calculating the kinetic and transition state parameters. Force exponentially accelerated Thy-1/αvβ3 dissociation, indicating slip bond behavior. Importantly, nonspecific interactions were detected even for purified proteins, highlighting the importance of correcting for such interactions. In conclusion, we describe a new strategy to characterize the response of bimolecular interactions to forces even in the presence of nonspecific binding events. By defining how force regulates Thy-1/αvβ3 integrin binding, we provide an initial step towards understanding how the neuron–astrocyte pair senses and responds to mechanical cues.
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Affiliation(s)
- Francesca Burgos-Bravo
- Cellular Communication Laboratory, Programa de Biología Celular y Molecular, Instituto de Ciencias Biomédicas, Facultad de Medicina, Universidad de Chile, 838-0453 Santiago, Chile.,Advanced Center for Chronic Diseases (ACCDiS), Center for Studies of Exercise, Metabolism and Cancer, Instituto de Ciencias Biomédicas, Facultad de Medicina, Universidad de Chile, 838-0453 Santiago, Chile
| | - Nataniel L Figueroa
- Physics Department, Pontificia Universidad Católica de Chile, 782-0436 Santiago, Chile
| | - Nathalie Casanova-Morales
- Biochemistry and Molecular Biology Department, Facultad de Ciencias Químicas y Farmacéuticas, Universidad de Chile, 838-0494 Santiago, Chile
| | - Andrew F G Quest
- Cellular Communication Laboratory, Programa de Biología Celular y Molecular, Instituto de Ciencias Biomédicas, Facultad de Medicina, Universidad de Chile, 838-0453 Santiago, Chile.,Advanced Center for Chronic Diseases (ACCDiS), Center for Studies of Exercise, Metabolism and Cancer, Instituto de Ciencias Biomédicas, Facultad de Medicina, Universidad de Chile, 838-0453 Santiago, Chile
| | - Christian A M Wilson
- Biochemistry and Molecular Biology Department, Facultad de Ciencias Químicas y Farmacéuticas, Universidad de Chile, 838-0494 Santiago, Chile
| | - Lisette Leyton
- Cellular Communication Laboratory, Programa de Biología Celular y Molecular, Instituto de Ciencias Biomédicas, Facultad de Medicina, Universidad de Chile, 838-0453 Santiago, Chile .,Advanced Center for Chronic Diseases (ACCDiS), Center for Studies of Exercise, Metabolism and Cancer, Instituto de Ciencias Biomédicas, Facultad de Medicina, Universidad de Chile, 838-0453 Santiago, Chile
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8
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Zhang T, Mbanga BL, Yashin VV, Balazs AC. Tailoring the mechanical properties of nanoparticle networks that encompass biomimetic catch bonds. ACTA ACUST UNITED AC 2017. [DOI: 10.1002/polb.24542] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Affiliation(s)
- Tao Zhang
- Department of Chemical EngineeringUniversity of PittsburghPittsburgh Pennsylvania 15261
| | - Badel L. Mbanga
- Department of Chemical EngineeringUniversity of PittsburghPittsburgh Pennsylvania 15261
| | - Victor V. Yashin
- Department of Chemical EngineeringUniversity of PittsburghPittsburgh Pennsylvania 15261
| | - Anna C. Balazs
- Department of Chemical EngineeringUniversity of PittsburghPittsburgh Pennsylvania 15261
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9
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Cell Surface Mechanochemistry and the Determinants of Bleb Formation, Healing, and Travel Velocity. Biophys J 2016; 110:1636-1647. [PMID: 27074688 DOI: 10.1016/j.bpj.2016.03.008] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/01/2015] [Revised: 02/07/2016] [Accepted: 03/07/2016] [Indexed: 11/21/2022] Open
Abstract
Blebs are pressure-driven cell protrusions implicated in cellular functions such as cell division, apoptosis, and cell motility, including motility of protease-inhibited cancer cells. Because of their mechanical nature, blebs inform us about general cell-surface mechanics, including membrane dynamics, pressure propagation throughout the cytoplasm, and the architecture and dynamics of the actin cortex. Mathematical models including detailed fluid dynamics have previously been used to understand bleb expansion. Here, we develop mathematical models in two and three dimensions on longer timescales that recapitulate the full bleb life cycle, including both expansion and healing by cortex reformation, in terms of experimentally accessible biophysical parameters such as myosin contractility, osmotic pressure, and turnover of actin and ezrin. The model provides conditions under which blebbing occurs, and naturally gives rise to traveling blebs. The model predicts conditions under which blebs travel or remain stationary, as well as the bleb traveling velocity, a quantity that has remained elusive in previous models. As previous studies have used blebs as reporters of membrane tension and pressure dynamics within the cell, we have used our system to investigate various pressure equilibration models and dynamic, nonuniform membrane tension to account for the shape of a traveling bleb. We also find that traveling blebs tend to expand in all directions unless otherwise constrained. One possible constraint could be provided by spatial heterogeneity in, for example, adhesion density.
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10
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Bryant D, Clemens L, Allard J. Computational simulation of formin-mediated actin polymerization predicts homologue-dependent mechanosensitivity. Cytoskeleton (Hoboken) 2016; 74:29-39. [PMID: 27792274 DOI: 10.1002/cm.21344] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/18/2016] [Revised: 10/27/2016] [Accepted: 10/27/2016] [Indexed: 01/10/2023]
Abstract
Many actin structures are nucleated and assembled by the barbed-end tracking polymerase formin family, including filopodia, focal adhesions, the cytokinetic ring and cell cortex. These structures respond to forces in distinct ways. Formins typically have profilin-actin binding sites embedded in highly flexible disordered FH1 domains, hypothesized to diffusively explore space to rapidly capture actin monomers for delivery to the barbed end. Recent experiments demonstrate that formin-mediated polymerization accelerates when under tension. The acceleration has been attributed to modifying the state of the FH2 domain of formin. Intriguingly, the same acceleration is reported when tension is applied to the FH1 domains, ostensibly pulling monomers away from the barbed end. Here we develop a mesoscale coarse-grain model of formin-mediated actin polymerization, including monomer capture and delivery by FH1, which sterically interacts with actin along its entire length. The binding of actin monomers to their specific sites on FH1 is entropically disfavored by the high disorder. We find that this penalty is attenuated when force is applied to the FH1 domain by revealing the binding site, increasing monomer capture efficiency. Overall polymerization rates can decrease or increase with increasing force, depending on the length of FH1 domain and location of binding site. Our results suggest that the widely varying FH1 lengths and binding site locations found in known formins could be used to differentially respond to force, depending on the actin structure being assembled. © 2016 Wiley Periodicals, Inc.
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Affiliation(s)
- Derek Bryant
- Department of Physics and Astronomy, University of California, Irvine, California
| | - Lara Clemens
- Center for Complex Biological Systems, University of California, Irvine, California
| | - Jun Allard
- Department of Physics and Astronomy, University of California, Irvine, California.,Center for Complex Biological Systems, University of California, Irvine, California.,Department of Mathematics, University of California, Irvine, California
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11
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Manibog K, Yen CF, Sivasankar S. Measuring Force-Induced Dissociation Kinetics of Protein Complexes Using Single-Molecule Atomic Force Microscopy. Methods Enzymol 2016; 582:297-320. [PMID: 28062039 DOI: 10.1016/bs.mie.2016.08.009] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
Abstract
Proteins respond to mechanical force by undergoing conformational changes and altering the kinetics of their interactions. However, the biophysical relationship between mechanical force and the lifetime of protein complexes is not completely understood. In this chapter, we provide a step-by-step tutorial on characterizing the force-dependent regulation of protein interactions using in vitro and in vivo single-molecule force clamp measurements with an atomic force microscope (AFM). While we focus on the force-induced dissociation of E-cadherins, a critical cell-cell adhesion protein, the approaches described here can be readily adapted to study other protein complexes. We begin this chapter by providing a brief overview of theoretical models that describe force-dependent kinetics of biomolecular interactions. Next, we present step-by-step methods for measuring the response of single receptor-ligand bonds to tensile force in vitro. Finally, we describe methods for quantifying the mechanical response of single protein complexes on the surface of living cells. We describe general protocols for conducting such measurements, including sample preparation, AFM force clamp measurements, and data analysis. We also highlight critical limitations in current technologies and discuss solutions to these challenges.
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Affiliation(s)
- K Manibog
- Iowa State University, Ames, IA, United States; Ames Laboratory, U.S. Department of Energy, Ames, IA, United States
| | - C F Yen
- Iowa State University, Ames, IA, United States; Ames Laboratory, U.S. Department of Energy, Ames, IA, United States
| | - S Sivasankar
- Iowa State University, Ames, IA, United States; Ames Laboratory, U.S. Department of Energy, Ames, IA, United States.
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12
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Mbanga BL, Iyer BVS, Yashin VV, Balazs AC. Tuning the Mechanical Properties of Polymer-Grafted Nanoparticle Networks through the Use of Biomimetic Catch Bonds. Macromolecules 2016. [DOI: 10.1021/acs.macromol.5b02455] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/29/2023]
Affiliation(s)
- Badel L. Mbanga
- Chemical
Engineering Department, University of Pittsburgh, Pittsburgh, Pennsylvania 15261, United States
| | - Balaji V. S. Iyer
- Department
of Chemical Engineering, Indian Institute of Technology, Hyderabad, India
| | - Victor V. Yashin
- Chemical
Engineering Department, University of Pittsburgh, Pittsburgh, Pennsylvania 15261, United States
| | - Anna C. Balazs
- Chemical
Engineering Department, University of Pittsburgh, Pittsburgh, Pennsylvania 15261, United States
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13
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Przekwas A, Somayaji MR, Gupta RK. Synaptic Mechanisms of Blast-Induced Brain Injury. Front Neurol 2016; 7:2. [PMID: 26834697 PMCID: PMC4720734 DOI: 10.3389/fneur.2016.00002] [Citation(s) in RCA: 34] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/20/2015] [Accepted: 01/04/2016] [Indexed: 01/08/2023] Open
Abstract
Blast wave-induced traumatic brain injury (TBI) is one of the most common injuries to military personnel. Brain tissue compression/tension due to blast-induced cranial deformations and shear waves due to head rotation may generate diffuse micro-damage to neuro-axonal structures and trigger a cascade of neurobiological events culminating in cognitive and neurodegenerative disorders. Although diffuse axonal injury is regarded as a signature wound of mild TBI (mTBI), blast loads may also cause synaptic injury wherein neuronal synapses are stretched and sheared. This synaptic injury may result in temporary disconnect of the neural circuitry and transient loss in neuronal communication. We hypothesize that mTBI symptoms such as loss of consciousness or dizziness, which start immediately after the insult, could be attributed to synaptic injury. Although empirical evidence is beginning to emerge; the detailed mechanisms underlying synaptic injury are still elusive. Coordinated in vitro-in vivo experiments and mathematical modeling studies can shed light into the synaptic injury mechanisms and their role in the potentiation of mTBI symptoms.
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Affiliation(s)
- Andrzej Przekwas
- Computational Medicine and Biology Division, CFD Research Corporation, Huntsville, AL, USA
| | | | - Raj K. Gupta
- Department of Defense Blast Injury Research Program Coordinating Office, U.S. Army Medical Research and Materiel Command, Fort Detrick, MD, USA
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14
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Moreno-Arotzena O, Borau C, Movilla N, Vicente-Manzanares M, García-Aznar JM. Fibroblast Migration in 3D is Controlled by Haptotaxis in a Non-muscle Myosin II-Dependent Manner. Ann Biomed Eng 2015; 43:3025-39. [PMID: 26014363 PMCID: PMC4623072 DOI: 10.1007/s10439-015-1343-2] [Citation(s) in RCA: 36] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/08/2015] [Accepted: 05/16/2015] [Indexed: 01/24/2023]
Abstract
Cell migration in 3D is a key process in many physiological and pathological processes. Although valuable knowledge has been accumulated through analysis of various 2D models, some of these insights are not directly applicable to migration in 3D. In this study, we have confined biomimetic hydrogels within microfluidic platforms in the presence of a chemoattractant (platelet-derived growth factor-BB). We have characterized the migratory responses of human fibroblasts within them, particularly focusing on the role of non-muscle myosin II. Our results indicate a prominent role for myosin II in the integration of chemotactic and haptotactic migratory responses of fibroblasts in 3D confined environments.
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Affiliation(s)
- O Moreno-Arotzena
- Multiscale in Mechanical and Biological Engineering (M2BE), Department of Mechanical Engineering, Aragon Institute of Engineering Research (I3A), University of Zaragoza, 50018, Saragossa, Spain
| | - C Borau
- Multiscale in Mechanical and Biological Engineering (M2BE), Department of Mechanical Engineering, Aragon Institute of Engineering Research (I3A), University of Zaragoza, 50018, Saragossa, Spain
| | - N Movilla
- Multiscale in Mechanical and Biological Engineering (M2BE), Department of Mechanical Engineering, Aragon Institute of Engineering Research (I3A), University of Zaragoza, 50018, Saragossa, Spain
| | - M Vicente-Manzanares
- Department of Medicine, Hospital Universitario de la Princesa, Universidad Autonoma de Madrid School of Medicine, 28006, Madrid, Spain
| | - J M García-Aznar
- Multiscale in Mechanical and Biological Engineering (M2BE), Department of Mechanical Engineering, Aragon Institute of Engineering Research (I3A), University of Zaragoza, 50018, Saragossa, Spain.
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15
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Abstract
Molecular force spectroscopy has become a powerful tool to study how mechanics regulates biology, especially the mechanical regulation of molecular interactions and its impact on cellular functions. This force-driven methodology has uncovered a wealth of new information of the physical chemistry of molecular bonds for various biological systems. The new concepts, qualitative and quantitative measures describing bond behavior under force, and structural bases underlying these phenomena have substantially advanced our fundamental understanding of the inner workings of biological systems from the nanoscale (molecule) to the microscale (cell), elucidated basic molecular mechanisms of a wide range of important biological processes, and provided opportunities for engineering applications. Here, we review major force spectroscopic assays, conceptual developments of mechanically regulated kinetics of molecular interactions, and their biological relevance. We also present current challenges and highlight future directions.
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Affiliation(s)
- Baoyu Liu
- Coulter Department of Biomedical Engineering
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16
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McGrail DJ, Kieu QMN, Iandoli JA, Dawson MR. Actomyosin tension as a determinant of metastatic cancer mechanical tropism. Phys Biol 2015; 12:026001. [PMID: 25706686 DOI: 10.1088/1478-3975/12/2/026001] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
Despite major advances in the characterization of molecular regulators of cancer growth and metastasis, patient survival rates have largely stagnated. Recent studies have shown that mechanical cues from the extracellular matrix can drive the transition to a malignant phenotype. Moreover, it is also known that the metastatic process, which results in over 90% of cancer-related deaths, is governed by intracellular mechanical forces. To better understand these processes, we identified metastatic tumor cells originating from different locations which undergo inverse responses to altered matrix elasticity: MDA-MB-231 breast cancer cells that prefer rigid matrices and SKOV-3 ovarian cancer cells that prefer compliant matrices as characterized by parameters such as tumor cell proliferation, chemoresistance, and migration. Transcriptomic analysis revealed higher expression of genes associated with cytoskeletal tension and contractility in cells that prefer stiff environments, both when comparing MDA-MB-231 to SKOV-3 cells as well as when comparing bone-metastatic to lung-metastatic MDA-MB-231 subclones. Using small molecule inhibitors, we found that blocking the activity of these pathways mitigated rigidity-dependent behavior in both cell lines. Probing the physical forces exerted by cells on the underlying substrates revealed that though force magnitude may not directly correlate with functional outcomes, other parameters such as force polarization do correlate directly with cell motility. Finally, this biophysical analysis demonstrates that intrinsic levels of cell contractility determine the matrix rigidity for maximal cell function, possibly influencing tissue sites for metastatic cancer cell engraftment during dissemination. By increasing our understanding of the physical interactions of cancer cells with their microenvironment, these studies may help develop novel therapeutic strategies.
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Affiliation(s)
- Daniel J McGrail
- School of Chemical & Biomolecular Engineering, Georgia Institute of Technology, 311 Ferst Dr, Atlanta, GA 30332, USA
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17
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Lü S, Chen S, Mao D, Zhang Y, Long M. Contribution of the CR domain to P-selectin lectin domain allostery by regulating the orientation of the EGF domain. PLoS One 2015; 10:e0118083. [PMID: 25675100 PMCID: PMC4326174 DOI: 10.1371/journal.pone.0118083] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/08/2014] [Accepted: 01/04/2015] [Indexed: 12/01/2022] Open
Abstract
The allostery of P-selectin has been studied extensively with a focus on the Lec and EGF domains, whereas the contribution of the CR domain remains unclear. Here, molecular dynamics simulations (MDS) combined with homology modeling were preformed to investigate the impact of the CR domain on P-selectin allostery. The results indicated that the CR domain plays a role in the allosteric dynamics of P-selectin in two ways. First, the CR1 domain tends to stabilize the low affinity of P-selectin during the equilibration processes with the transition inhibition from the S1 to S1’ state by restraining the extension of the bent EGF orientation, or with the relaxation acceleration of the S2 state by promoting the bending of the extended EGF orientation. Second, the existence of CR domain increases intramolecular extension prior to complex separation, increasing the time available for the allosteric shift during forced dissociation with a prolonged bond duration. These findings further our understanding of the structure-function relationship of P-selectin with the enriched micro-structural bases of the CR domain.
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Affiliation(s)
- Shouqin Lü
- Key Laboratory of Microgravity (National Microgravity Laboratory), Institute of Mechanics, Chinese Academy of Sciences, Beijing, China
- Center of Biomechanics and Bioengineering, Institute of Mechanics, Chinese Academy of Sciences, Beijing, China
- Beijing Key Laboratory of Engineered Construction and Mechanobiology, Institute of Mechanics, Chinese Academy of Sciences, Beijing, China
- * E-mail: (SQL); (ML)
| | - Shenbao Chen
- Key Laboratory of Microgravity (National Microgravity Laboratory), Institute of Mechanics, Chinese Academy of Sciences, Beijing, China
- Center of Biomechanics and Bioengineering, Institute of Mechanics, Chinese Academy of Sciences, Beijing, China
- Beijing Key Laboratory of Engineered Construction and Mechanobiology, Institute of Mechanics, Chinese Academy of Sciences, Beijing, China
| | - Debin Mao
- Key Laboratory of Microgravity (National Microgravity Laboratory), Institute of Mechanics, Chinese Academy of Sciences, Beijing, China
- Center of Biomechanics and Bioengineering, Institute of Mechanics, Chinese Academy of Sciences, Beijing, China
- Beijing Key Laboratory of Engineered Construction and Mechanobiology, Institute of Mechanics, Chinese Academy of Sciences, Beijing, China
| | - Yan Zhang
- Key Laboratory of Microgravity (National Microgravity Laboratory), Institute of Mechanics, Chinese Academy of Sciences, Beijing, China
- Center of Biomechanics and Bioengineering, Institute of Mechanics, Chinese Academy of Sciences, Beijing, China
- Beijing Key Laboratory of Engineered Construction and Mechanobiology, Institute of Mechanics, Chinese Academy of Sciences, Beijing, China
| | - Mian Long
- Key Laboratory of Microgravity (National Microgravity Laboratory), Institute of Mechanics, Chinese Academy of Sciences, Beijing, China
- Center of Biomechanics and Bioengineering, Institute of Mechanics, Chinese Academy of Sciences, Beijing, China
- Beijing Key Laboratory of Engineered Construction and Mechanobiology, Institute of Mechanics, Chinese Academy of Sciences, Beijing, China
- * E-mail: (SQL); (ML)
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18
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Chen X, Mao Z, Chen B. Probing time-dependent mechanical behaviors of catch bonds based on two-state models. Sci Rep 2015; 5:7868. [PMID: 25598078 PMCID: PMC4297987 DOI: 10.1038/srep07868] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/26/2014] [Accepted: 12/11/2014] [Indexed: 01/13/2023] Open
Abstract
With lifetime counter-intuitively being prolonged under forces, catch bonds can play critical roles in various sub-cellular processes. By adopting different “catching” strategies within the framework of two-state models, we construct two types of catch bonds that have a similar force-lifetime profile upon a constant force-clamp load. However, when a single catch bond of either type is subjected to varied forces, we find that they can behave very differently in both force history dependence and bond strength. We further find that a cluster of catch bonds of either type generally becomes unstable when subjected to a periodically oscillating force, which is consistent with experimental results. These results provide important insights into versatile time-dependent mechanical behaviors of catch bonds. We suggest that it is necessary to further differentiate those bonds that are all phenomenologically referred to as “Catch bonds”.
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Affiliation(s)
- Xiaofeng Chen
- Department of Engineering Mechanics, Zhejiang University, Hangzhou 310027, P. R. China
| | - Zhixiu Mao
- Department of Engineering Mechanics, Zhejiang University, Hangzhou 310027, P. R. China
| | - Bin Chen
- Department of Engineering Mechanics, Zhejiang University, Hangzhou 310027, P. R. China
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19
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Fiore VF, Ju L, Chen Y, Zhu C, Barker TH. Dynamic catch of a Thy-1–α5β1+syndecan-4 trimolecular complex. Nat Commun 2014; 5:4886. [DOI: 10.1038/ncomms5886] [Citation(s) in RCA: 74] [Impact Index Per Article: 7.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/24/2014] [Accepted: 08/01/2014] [Indexed: 01/09/2023] Open
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20
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Pryshchep S, Zarnitsyna VI, Hong J, Evavold BD, Zhu C. Accumulation of serial forces on TCR and CD8 frequently applied by agonist antigenic peptides embedded in MHC molecules triggers calcium in T cells. THE JOURNAL OF IMMUNOLOGY 2014; 193:68-76. [PMID: 24890718 DOI: 10.4049/jimmunol.1303436] [Citation(s) in RCA: 51] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/19/2023]
Abstract
T cell activation by Ag is one of the key events in adaptive immunity. It is triggered by interactions of the TCR and coreceptor (CD8 or CD4) with antigenic peptides embedded in MHC (pMHC) molecules expressed on APCs. The mechanism of how signal is initiated remains unclear. In this article, we complement our two-dimensional kinetic analysis of TCR-pMHC-CD8 interaction with concurrent calcium imaging to examine how ligand engagement of TCR with and without the coengagement of CD8 initiates signaling. We found that accumulation of frequently applied forces on the TCR via agonist pMHC triggered calcium, which was further enhanced by CD8 cooperative binding. Prolonging the intermission between sequential force applications impaired calcium signals. Our data support a model where rapid accumulation of serial forces on TCR-pMHC-CD8 bonds triggers calcium in T cells.
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Affiliation(s)
- Sergey Pryshchep
- Coulter Department of Biomedical Engineering, Georgia Institute of Technology, Atlanta, GA 30332
| | - Veronika I Zarnitsyna
- Coulter Department of Biomedical Engineering, Georgia Institute of Technology, Atlanta, GA 30332
| | - Jinsung Hong
- Woodruff School of Mechanical Engineering, Georgia Institute of Technology, Atlanta, GA 30332; and
| | - Brian D Evavold
- Department of Microbiology and Immunology, Emory University School of Medicine, Atlanta, GA 30322
| | - Cheng Zhu
- Coulter Department of Biomedical Engineering, Georgia Institute of Technology, Atlanta, GA 30332; Woodruff School of Mechanical Engineering, Georgia Institute of Technology, Atlanta, GA 30332; and
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