1
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Fan D, Bajgiran SR, Samghabadi FS, Dutta C, Gillett E, Rossky PJ, Conrad JC, Marciel AB, Landes CF. Imaging Heterogeneous 3D Dynamics of Individual Solutes in a Polyelectrolyte Brush. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2023. [PMID: 37290000 DOI: 10.1021/acs.langmuir.3c00868] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
Understanding molecular transport in polyelectrolyte brushes (PEBs) is crucial for applications such as separations, drug delivery, anti-fouling, and biosensors, where structural features of the polymer control intermolecular interactions. The complex structure and local heterogeneity of PEBs, while theoretically predicted, are not easily accessed with conventional experimental methods. In this work, we use 3D single-molecule tracking to understand transport behavior within a cationic poly(2-(N,N-dimethylamino)ethyl acrylate) (PDMAEA) brush using an anionic dye, Alexa Fluor 546, as the probe. The analysis is done by a parallelized, unbiased 3D tracking algorithm. Our results explicitly demonstrate that spatial heterogeneity within the brush manifests as heterogeneity of single-molecule displacements. Two distinct populations of probe motion are identified, with anticorrelated axial and lateral transport confinement, which we believe to correspond to intra- vs inter-chain probe motion.
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Affiliation(s)
- Dongyu Fan
- Department of Chemical and Biomolecular Engineering, Rice University, Houston, Texas 77005, United States
| | - Shahryar Ramezani Bajgiran
- Department of Chemical and Biomolecular Engineering, Rice University, Houston, Texas 77005, United States
| | - Farshad Safi Samghabadi
- Department of Chemical and Biomolecular Engineering, University of Houston, Houston, Texas 77204, United States
| | - Chayan Dutta
- Department of Chemistry, Georgia State University, Atlanta, Georgia 30302, United States
| | - Emil Gillett
- Department of Chemistry, Rice University, Houston, Texas 77005, United States
| | - Peter J Rossky
- Department of Chemical and Biomolecular Engineering, Rice University, Houston, Texas 77005, United States
- Department of Chemistry, Rice University, Houston, Texas 77005, United States
- Smalley Curl Institute, Rice University, Houston, Texas 77005, United States
| | - Jacinta C Conrad
- Department of Chemical and Biomolecular Engineering, University of Houston, Houston, Texas 77204, United States
| | - Amanda B Marciel
- Department of Chemical and Biomolecular Engineering, Rice University, Houston, Texas 77005, United States
| | - Christy F Landes
- Department of Chemical and Biomolecular Engineering, Rice University, Houston, Texas 77005, United States
- Department of Chemistry, Rice University, Houston, Texas 77005, United States
- Department of Electrical and Computer Engineering, Rice University, Houston, Texas 77005, United States
- Smalley Curl Institute, Rice University, Houston, Texas 77005, United States
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2
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Simon F, Tinevez JY, van Teeffelen S. ExTrack characterizes transition kinetics and diffusion in noisy single-particle tracks. J Cell Biol 2023; 222:e202208059. [PMID: 36880553 PMCID: PMC9997658 DOI: 10.1083/jcb.202208059] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/14/2022] [Revised: 12/01/2022] [Accepted: 01/27/2023] [Indexed: 03/08/2023] Open
Abstract
Single-particle tracking microscopy is a powerful technique to investigate how proteins dynamically interact with their environment in live cells. However, the analysis of tracks is confounded by noisy molecule localization, short tracks, and rapid transitions between different motion states, notably between immobile and diffusive states. Here, we propose a probabilistic method termed ExTrack that uses the full spatio-temporal information of tracks to extract global model parameters, to calculate state probabilities at every time point, to reveal distributions of state durations, and to refine the positions of bound molecules. ExTrack works for a wide range of diffusion coefficients and transition rates, even if experimental data deviate from model assumptions. We demonstrate its capacity by applying it to slowly diffusing and rapidly transitioning bacterial envelope proteins. ExTrack greatly increases the regime of computationally analyzable noisy single-particle tracks. The ExTrack package is available in ImageJ and Python.
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Affiliation(s)
- François Simon
- Département de Microbiologie, Infectiologie, et Immunologie, Faculté de Médecine, Université de Montréal, Montréal, Quebec, Canada
- Microbial Morphogenesis and Growth Lab, Institut Pasteur, Université de Paris Cité, Paris, France
| | - Jean-Yves Tinevez
- Image Analysis Hub, Institut Pasteur, Université de Paris Cité, Paris, France
| | - Sven van Teeffelen
- Département de Microbiologie, Infectiologie, et Immunologie, Faculté de Médecine, Université de Montréal, Montréal, Quebec, Canada
- Microbial Morphogenesis and Growth Lab, Institut Pasteur, Université de Paris Cité, Paris, France
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3
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Simon F, Tinevez JY, van Teeffelen S. ExTrack characterizes transition kinetics and diffusion in noisy single-particle tracks. J Cell Biol 2023; 222:e202208059. [PMID: 36880553 PMCID: PMC9997658 DOI: 10.1083/jcb.202208059 10.1101/2022.07.13.499913] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/14/2022] [Revised: 12/01/2022] [Accepted: 01/27/2023] [Indexed: 03/23/2024] Open
Abstract
Single-particle tracking microscopy is a powerful technique to investigate how proteins dynamically interact with their environment in live cells. However, the analysis of tracks is confounded by noisy molecule localization, short tracks, and rapid transitions between different motion states, notably between immobile and diffusive states. Here, we propose a probabilistic method termed ExTrack that uses the full spatio-temporal information of tracks to extract global model parameters, to calculate state probabilities at every time point, to reveal distributions of state durations, and to refine the positions of bound molecules. ExTrack works for a wide range of diffusion coefficients and transition rates, even if experimental data deviate from model assumptions. We demonstrate its capacity by applying it to slowly diffusing and rapidly transitioning bacterial envelope proteins. ExTrack greatly increases the regime of computationally analyzable noisy single-particle tracks. The ExTrack package is available in ImageJ and Python.
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Affiliation(s)
- François Simon
- Département de Microbiologie, Infectiologie, et Immunologie, Faculté de Médecine, Université de Montréal, Montréal, Quebec, Canada
- Microbial Morphogenesis and Growth Lab, Institut Pasteur, Université de Paris Cité, Paris, France
| | - Jean-Yves Tinevez
- Image Analysis Hub, Institut Pasteur, Université de Paris Cité, Paris, France
| | - Sven van Teeffelen
- Département de Microbiologie, Infectiologie, et Immunologie, Faculté de Médecine, Université de Montréal, Montréal, Quebec, Canada
- Microbial Morphogenesis and Growth Lab, Institut Pasteur, Université de Paris Cité, Paris, France
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4
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Geonzon LC, Santoya AM, Jung H, Yuson H, Bacabac RG, Matsukawa S. Study on the heterogeneity in mixture carrageenan gels viewed by long time particle tracking. Food Hydrocoll 2022. [DOI: 10.1016/j.foodhyd.2021.107095] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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5
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Real-time visualization of morphology-dependent self-motion of hyaluronic acid nanomaterials in water. Int J Pharm 2021; 609:121172. [PMID: 34627996 DOI: 10.1016/j.ijpharm.2021.121172] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/09/2021] [Revised: 09/15/2021] [Accepted: 10/04/2021] [Indexed: 12/24/2022]
Abstract
Drug delivery to target sites is often limited by inefficient particle transport through biological media. Herein, motion behaviors of spherical and nonspherical nanomaterials composed of hyaluronic acid were studied in water using real-time multiple particle tracking technology. The two types of nanomaterials have comparable surface compositions and surface potentials, and they have equivalent diameters. The analysis of nanomaterial trajectories revealed that particles with flattened morphology and a high aspect ratio, designated nanoplatelets, exhibited more linear trajectories and faster diffusion in water than nanospheres. Fitting the plots of mean square displacement vs. time scale suggests that nanoplatelets exhibited hyperdiffusive behavior, which is similar to the motion of living microorganisms. Furthermore, at 37 °C, the surface explored by a nanoplatelet was up to 33-fold higher than that explored by a nanosphere. This investigation on morphology-dependent self-motion of nanomaterials could have a significant impact on drug delivery applications by increasing particle transport through biological media.
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6
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Yoshida S, Kisley L. Super-resolution fluorescence imaging of extracellular environments. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2021; 257:119767. [PMID: 33862370 DOI: 10.1016/j.saa.2021.119767] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/30/2020] [Revised: 03/24/2021] [Accepted: 03/28/2021] [Indexed: 06/12/2023]
Abstract
The extracellular matrix (ECM) is an important biophysical environment that plays a role in a number of physiological processes. The ECM is highly dynamic, with changes occurring as local, nanoscale, physicochemical variations in physical confinement and chemistry from the perspective of biological molecules. The length and time scale of ECM dynamics are challenging to measure with current spectroscopic techniques. Super-resolution fluorescence microscopy has the potential to probe local, nanoscale, physicochemical variations in the ECM. Here, we review super-resolution imaging and analysis methods and their application to study model nanoparticles and biomolecules within synthetic ECM hydrogels and the brain extracellular space (ECS). We provide a perspective of future directions for the field that can move super-resolution imaging of the ECM towards more biomedically-relevant samples. Overall, super-resolution imaging is a powerful tool that can increase our understanding of extracellular environments at new spatiotemporal scales to reveal ECM processes at the molecular-level.
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Affiliation(s)
- Shawn Yoshida
- Department of Physics, Case Western Reserve University, Cleveland, OH 44106, USA
| | - Lydia Kisley
- Department of Physics, Case Western Reserve University, Cleveland, OH 44106, USA; Department of Chemistry, Case Western Reserve University, Cleveland, OH 44106, USA.
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7
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Mahato J, Bhattacharya S, Sharma DK, Chowdhury A. Polarization-resolved single-molecule tracking reveals strange dynamics of fluorescent tracers through a deep rubbery polymer network. Phys Chem Chem Phys 2021; 23:10835-10844. [PMID: 33908423 DOI: 10.1039/d0cp05864e] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
Abstract
Tracking the movement of fluorescent single-molecule (SM) tracers has provided several new insights into the local structure and dynamics in complex environments such as soft materials and biological systems. However, SM tracking (SMT) remains unreliable at molecular length scales, as the localization error (LE) of SM trajectories (∼30-50 nm) is considerably larger than the size of molecular tracers (∼1-2 nm). Thus, instances of tracer (im)mobility in heterogeneous media, which provide indicators for underlying anomalous-transport mechanisms, remain obscured within the realms of SMT. Since the translation of passive tracers in an isotropic media is associated with fast dipolar rotation, we propose that authentic pauses within the LE can be revealed by probing the hindrance of SM reorientational dynamics. Here, we demonstrate how polarization-resolved SMT (PR-SMT) can provide emission anisotropy at each super-localized position, thereby revealing the tumbling propensity of SMs during random walks. For rhodamine 6G tracers undergoing heterogeneous transport in a hydrated polyvinylpyrrolidone (PVP) network, analysis of PR-SMT trajectories enabled us to discern instances of genuine immobility and localized motion within the LE. Our investigations on 100 SMs in (plasticized) PVP films reveal a wide distribution of dwell times and pause frequencies, demonstrating that most probes intermittently experience complete translational and rotational immobilization. This indicates that tracers serendipitously encounter compact, rigid polymer cavities during transport, implying the existence of nanoscale glass-like domains sparsely distributed in a predominantly deep-rubbery polymer network far above the glass transition.
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Affiliation(s)
- Jaladhar Mahato
- Department of Chemistry, Indian Institute of Technology Bombay, Powai, Mumbai 400076, India.
| | - Sukanya Bhattacharya
- Department of Chemistry, Indian Institute of Technology Bombay, Powai, Mumbai 400076, India.
| | - Dharmendar K Sharma
- Department of Chemistry, Indian Institute of Technology Bombay, Powai, Mumbai 400076, India.
| | - Arindam Chowdhury
- Department of Chemistry, Indian Institute of Technology Bombay, Powai, Mumbai 400076, India.
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8
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Carlini L, Brittingham GP, Holt LJ, Kapoor TM. Microtubules Enhance Mesoscale Effective Diffusivity in the Crowded Metaphase Cytoplasm. Dev Cell 2020; 54:574-582.e4. [PMID: 32818469 PMCID: PMC7685229 DOI: 10.1016/j.devcel.2020.07.020] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/29/2020] [Revised: 06/10/2020] [Accepted: 07/24/2020] [Indexed: 12/12/2022]
Abstract
Mesoscale macromolecular complexes and organelles, tens to hundreds of nanometers in size, crowd the eukaryotic cytoplasm. It is therefore unclear how mesoscale particles remain sufficiently mobile to regulate dynamic processes such as cell division. Here, we study mobility across dividing cells that contain densely packed, dynamic microtubules, comprising the metaphase spindle. In dividing human cells, we tracked 40 nm genetically encoded multimeric nanoparticles (GEMs), whose sizes are commensurate with the inter-filament spacing in metaphase spindles. Unexpectedly, the effective diffusivity of GEMs was similar inside the dense metaphase spindle and the surrounding cytoplasm. Eliminating microtubules or perturbing their polymerization dynamics decreased diffusivity by ~30%, suggesting that microtubule polymerization enhances random displacements to amplify diffusive-like motion. Our results suggest that microtubules effectively fluidize the mitotic cytoplasm to equalize mesoscale mobility across a densely packed, dynamic, non-uniform environment, thus spatially maintaining a key biophysical parameter that impacts biochemistry, ranging from metabolism to the nucleation of cytoskeletal filaments.
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Affiliation(s)
- Lina Carlini
- Laboratory of Chemistry and Cell Biology, The Rockefeller University, New York, NY 10065, USA
| | - Gregory P Brittingham
- Institute for Systems Genetics, New York University Langone Health, New York, NY 10016, USA
| | - Liam J Holt
- Institute for Systems Genetics, New York University Langone Health, New York, NY 10016, USA
| | - Tarun M Kapoor
- Laboratory of Chemistry and Cell Biology, The Rockefeller University, New York, NY 10065, USA.
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9
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Wetzler SP, Miller KA, Kisley L, Stanton ALD, Braun PV, Bailey RC. Real-Time Measurement of Polymer Brush Dynamics Using Silicon Photonic Microring Resonators: Analyte Partitioning and Interior Brush Kinetics. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2020; 36:10351-10360. [PMID: 32852216 DOI: 10.1021/acs.langmuir.0c01336] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
Polymer brushes are found in biomedical and industrial technologies, where they exhibit functionalities considerably dependent on polymer brush-solvent-analyte interactions. It remains a difficult challenge to quickly analyze solvent-swollen polymer brushes, both at the solvent-polymer brush interface and in the brush interior, as well as to monitor the kinetics of interaction of solvent-swollen brushes with key analytes. Here, we demonstrate the novel use of silicon photonic microring resonators to characterize in situ swollen polymer brush-analyte interactions. By monitoring resonant wavelength shifts, we find that brush-solvent-analyte interaction parameters can be extracted from a single set of data or from successive analyte introductions using a single brush-coated sensor. The partition coefficient of three industrially relevant plasticizers into hydrophobic and hydrophilic brushes was determined and found to be in agreement with known solubility trends. We found that the diffusion coefficient of the plasticizer into the brush decreases as brush thickness increases, supporting a model of a dense inner brush layer and diffuse outer layer. pKa's of pH-sensitive brushes were determined on the microring resonator platform; upon increasing the dry brush thickness, the pKa for poly(2-dimethylamino ethyl methacrylate) decreased from 8.5 to approach the bulk material pKa of 7.3 and showed dependence on the presence and concentration of salt. These proof-of-concept experiments show how the surface-sensitive nature of the microring resonator detection platform provides valuable information about the interaction of the polymer brushes with the solvents and analytes, not easily accessed by other techniques.
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Affiliation(s)
- Shannon P Wetzler
- Department of Chemistry, University of Michigan, Ann Arbor, Michigan 48109, United States
| | - Kali A Miller
- Department of Chemistry, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, United States
- Beckman Institute, University of Illinois Urbana-Champaign, Urbana, Illinois 61801, United States
| | - Lydia Kisley
- Beckman Institute, University of Illinois Urbana-Champaign, Urbana, Illinois 61801, United States
- Department of Physics, Case Western Reserve University, Cleveland, Ohio 44106, United States
| | - Alexandra L D Stanton
- Department of Chemistry, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, United States
| | - Paul V Braun
- Department of Chemistry, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, United States
- Department of Materials Science and Engineering, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, United States
- Materials Research Laboratory, University of Illinois at Urbana-Champaign, Urbana, Illinois 61801, United States
- Beckman Institute, University of Illinois Urbana-Champaign, Urbana, Illinois 61801, United States
| | - Ryan C Bailey
- Department of Chemistry, University of Michigan, Ann Arbor, Michigan 48109, United States
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10
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Bishop LD, Misiura A, Moringo NA, Landes CF. Unraveling peak asymmetry in chromatography through stochastic theory powered Monte Carlo simulations. J Chromatogr A 2020; 1625:461323. [DOI: 10.1016/j.chroma.2020.461323] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/18/2020] [Revised: 06/03/2020] [Accepted: 06/05/2020] [Indexed: 12/29/2022]
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11
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Dutta C, Bishop LDC, Zepeda O J, Chatterjee S, Flatebo C, Landes CF. Imaging Switchable Protein Interactions with an Active Porous Polymer Support. J Phys Chem B 2020; 124:4412-4420. [PMID: 32441098 DOI: 10.1021/acs.jpcb.0c01807] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Abstract
Mechanistic details about how local physicochemistry of porous interfaces drives protein transport mechanisms are necessary to optimize biomaterial applications. Cross-linked hydrogels made of stimuli-responsive polymers have potential for active protein capture and release through tunable steric and chemical transformations. Simultaneous monitoring of dynamic changes in both protein transport and interfacial polymer structure is an experimental challenge. We use single-particle tracking (SPT) and fluorescence correlation spectroscopy Super-resolution Optical Fluctuation Imaging (fcsSOFI) to relate the switchable changes in size and structure of a pH-responsive hydrogel to the interfacial transport properties of a model protein, lysozyme. SPT analysis reveals the reversible switching of protein transport dynamics in and at the hydrogel polymer in response to pH changes. fcsSOFI allows us to relate tunable heterogeneity of the hydrogels and pores to reversible changes in the distribution of confined diffusion and adsorption/desorption. We find that physicochemical heterogeneity of the hydrogels dictates protein confinement and desorption dynamics, particularly at pH conditions in which the hydrogels are swollen.
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Affiliation(s)
- Chayan Dutta
- Department of Chemistry, Rice University, Houston, Texas 77005, United States
| | - Logan D. C. Bishop
- Department of Chemistry, Rice University, Houston, Texas 77005, United States
| | - Jorge Zepeda O
- Department of Electrical and Computer Engineering, Rice University, Houston, Texas 77005, United States
| | - Sudeshna Chatterjee
- Department of Chemistry, Rice University, Houston, Texas 77005, United States
| | - Charlotte Flatebo
- Department of Chemistry, Rice University, Houston, Texas 77005, United States
- Applied Physics Program, Rice University, Houston, Texas 77005, United States
| | - Christy F. Landes
- Department of Chemistry, Rice University, Houston, Texas 77005, United States
- Department of Electrical and Computer Engineering, Rice University, Houston, Texas 77005, United States
- Department of Chemical and Biomolecular Engineering, Rice University, HoustonTexas 77005, United States
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12
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Dutta C, Bishop LDC, Zepeda O J, Chatterjee S, Flatebo C, Landes CF. Imaging Switchable Protein Interactions With an Active Porous Polymer Support. J Phys Chem A 2020. [DOI: 10.1021/acs.jpca.0c01807] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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13
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Kumarasinghe R, Ito T, Higgins DA. Nanoconfinement and Mass Transport in Silica Mesopores: the Role of Charge at the Single Molecule and Single Pore Levels. Anal Chem 2019; 92:1416-1423. [DOI: 10.1021/acs.analchem.9b04589] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Ruwandi Kumarasinghe
- Department of Chemistry, Kansas State University, 213 CBC Building, Manhattan, Kansas 66506-0401, United States
| | - Takashi Ito
- Department of Chemistry, Kansas State University, 213 CBC Building, Manhattan, Kansas 66506-0401, United States
| | - Daniel A. Higgins
- Department of Chemistry, Kansas State University, 213 CBC Building, Manhattan, Kansas 66506-0401, United States
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14
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Brasch ME, Passucci G, Gulvady AC, Turner CE, Manning ML, Henderson JH. Nuclear position relative to the Golgi body and nuclear orientation are differentially responsive indicators of cell polarized motility. PLoS One 2019; 14:e0211408. [PMID: 30759123 PMCID: PMC6373915 DOI: 10.1371/journal.pone.0211408] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/27/2018] [Accepted: 01/14/2019] [Indexed: 01/08/2023] Open
Abstract
Cell motility is critical to biological processes from wound healing to cancer metastasis to embryonic development. The involvement of organelles in cell motility is well established, but the role of organelle positional reorganization in cell motility remains poorly understood. Here we present an automated image analysis technique for tracking the shape and motion of Golgi bodies and cell nuclei. We quantify the relationship between nuclear orientation and the orientation of the Golgi body relative to the nucleus before, during, and after exposure of mouse fibroblasts to a controlled change in cell substrate topography, from flat to wrinkles, designed to trigger polarized motility. We find that the cells alter their mean nuclei orientation, in terms of the nuclear major axis, to increasingly align with the wrinkle direction once the wrinkles form on the substrate surface. This change in alignment occurs within 8 hours of completion of the topographical transition. In contrast, the position of the Golgi body relative to the nucleus remains aligned with the pre-programmed wrinkle direction, regardless of whether it has been fully established. These findings indicate that intracellular positioning of the Golgi body precedes nuclear reorientation during mouse fibroblast directed migration on patterned substrates. We further show that both processes are Rho-associated kinase (ROCK) mediated as they are abolished by pharmacologic ROCK inhibition whereas mouse fibroblast motility is unaffected. The automated image analysis technique introduced could be broadly employed in the study of polarization and other cellular processes in diverse cell types and micro-environments. In addition, having found that the nuclei Golgi vector may be a more sensitive indicator of substrate features than the nuclei orientation, we anticipate the nuclei Golgi vector to be a useful metric for researchers studying the dynamics of cell polarity in response to different micro-environments.
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Affiliation(s)
- Megan E. Brasch
- Department of Biomedical and Chemical Engineering, Syracuse University, Syracuse, NY, United States of America
- Syracuse Biomaterials Institute, Syracuse University, Syracuse, NY, United States of America
| | - Giuseppe Passucci
- Department of Physics, Syracuse University, Syracuse, NY, United States of America
| | - Anushree C. Gulvady
- Department of Cell and Developmental Biology, SUNY Upstate Medical University, Syracuse, NY, United States of America
| | - Christopher E. Turner
- Department of Cell and Developmental Biology, SUNY Upstate Medical University, Syracuse, NY, United States of America
| | - M. Lisa Manning
- Syracuse Biomaterials Institute, Syracuse University, Syracuse, NY, United States of America
- Department of Physics, Syracuse University, Syracuse, NY, United States of America
| | - James H. Henderson
- Department of Biomedical and Chemical Engineering, Syracuse University, Syracuse, NY, United States of America
- Syracuse Biomaterials Institute, Syracuse University, Syracuse, NY, United States of America
- * E-mail:
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15
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Matsuda Y, Hanasaki I, Iwao R, Yamaguchi H, Niimi T. Estimation of diffusive states from single-particle trajectory in heterogeneous medium using machine-learning methods. Phys Chem Chem Phys 2018; 20:24099-24108. [PMID: 30204178 DOI: 10.1039/c8cp02566e] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/04/2023]
Abstract
We propose a novel approach to analyze random walks in heterogeneous medium using a hybrid machine-learning method based on a gamma mixture and a hidden Markov model. A gamma mixture and a hidden Markov model respectively provide the number and the most probable sequence of diffusive states from the time series position data of particles/molecules obtained by single-particle/molecule tracking (SPT/SMT) method. We evaluate the performance of our proposed method for numerically generated trajectories. It is shown that our proposed method can correctly extract the number of diffusive states when each trajectory is long enough to be frame averaged. We also indicate that our method can provide an indicator whether the assumption of a medium consisting of discrete diffusive states is appropriate or not based on the available amount of trajectory data. Then, we demonstrate an application of our method to the analysis of experimentally obtained SPT data.
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Affiliation(s)
- Yu Matsuda
- Department of Modern Mechanical Engineering, Waseda University, 3-4-1 Ookubo, Shinjuku-ku, Tokyo 169-8555, Japan.
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16
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Renner M, Wang L, Levi S, Hennekinne L, Triller A. A Simple and Powerful Analysis of Lateral Subdiffusion Using Single Particle Tracking. Biophys J 2018; 113:2452-2463. [PMID: 29211999 DOI: 10.1016/j.bpj.2017.09.017] [Citation(s) in RCA: 25] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/14/2017] [Revised: 09/01/2017] [Accepted: 09/11/2017] [Indexed: 11/29/2022] Open
Abstract
In biological membranes, many factors such as cytoskeleton, lipid composition, crowding, and molecular interactions deviate lateral diffusion from the expected random walks. These factors have different effects on diffusion but act simultaneously, so the observed diffusion is a complex mixture of diffusive behaviors (directed, Brownian, anomalous, or confined). Therefore, commonly used approaches to quantify diffusion based on averaging of the displacements such as the mean square displacement, are not adapted to the analysis of this heterogeneity. We introduce a parameter-the packing coefficient Pc, which gives an estimate of the degree of free movement that a molecule displays in a period of time independently of its global diffusivity. Applying this approach to two different situations (diffusion of a lipid probe and trapping of receptors at synapses), we show that Pc detected and localized temporary changes of diffusive behavior both in time and in space. More importantly, it allowed the detection of periods with very high confinement as well as their frequency and duration, and thus it can be used to calculate the effective kon and koff of scaffolding interactions such as those that immobilize receptors at synapses.
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Affiliation(s)
- Marianne Renner
- École Normale Supérieure, PSL Research University, CNRS, INSERM, Institute of Biology (IBENS), Paris, France; INSERM UMR-S 839, Université Pierre et Marie Curie, Institut du Fer à Moulin, Paris, France.
| | - Lili Wang
- École Normale Supérieure, PSL Research University, CNRS, INSERM, Institute of Biology (IBENS), Paris, France
| | - Sabine Levi
- INSERM UMR-S 839, Université Pierre et Marie Curie, Institut du Fer à Moulin, Paris, France
| | - Laetitia Hennekinne
- École Normale Supérieure, PSL Research University, CNRS, INSERM, Institute of Biology (IBENS), Paris, France
| | - Antoine Triller
- École Normale Supérieure, PSL Research University, CNRS, INSERM, Institute of Biology (IBENS), Paris, France.
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17
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Tavakoli M, Taylor JN, Li CB, Komatsuzaki T, Pressé S. Single Molecule Data Analysis: An Introduction. ADVANCES IN CHEMICAL PHYSICS 2017. [DOI: 10.1002/9781119324560.ch4] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Affiliation(s)
- Meysam Tavakoli
- Physics Department; Indiana University-Purdue University Indianapolis; Indianapolis IN 46202 USA
| | - J. Nicholas Taylor
- Research Institute for Electronic Science; Hokkaido University; Kita 20 Nishi 10 Kita-Ku Sapporo 001-0020 Japan
| | - Chun-Biu Li
- Research Institute for Electronic Science; Hokkaido University; Kita 20 Nishi 10 Kita-Ku Sapporo 001-0020 Japan
- Department of Mathematics; Stockholm University; 106 91 Stockholm Sweden
| | - Tamiki Komatsuzaki
- Research Institute for Electronic Science; Hokkaido University; Kita 20 Nishi 10 Kita-Ku Sapporo 001-0020 Japan
| | - Steve Pressé
- Physics Department; Indiana University-Purdue University Indianapolis; Indianapolis IN 46202 USA
- Department of Chemistry and Chemical Biology; Indiana University-Purdue University Indianapolis; Indianapolis IN 46202 USA
- Department of Cell and Integrative Physiology; Indiana University School of Medicine; Indianapolis IN 46202 USA
- Department of Physics and School of Molecular Sciences; Arizona State University; Tempe AZ 85287 USA
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18
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Moringo NA, Shen H, Tauzin LJ, Wang W, Bishop LDC, Landes CF. Variable Lysozyme Transport Dynamics on Oxidatively Functionalized Polystyrene Films. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2017; 33:10818-10828. [PMID: 28937222 DOI: 10.1021/acs.langmuir.7b02641] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Abstract
Tuning protein adsorption dynamics at polymeric interfaces is of great interest to many biomedical and material applications. Functionalization of polymer surfaces is a common method to introduce application-specific surface chemistries to a polymer interface. In this work, single-molecule fluorescence microscopy is utilized to determine the adsorption dynamics of lysozyme, a well-studied antibacterial protein, at the interface of polystyrene oxidized via UV exposure and oxygen plasma and functionalized by ligand grafting to produce varying degrees of surface hydrophilicity, surface roughness, and induced oxygen content. Single-molecule tracking indicates lysozyme loading capacities, and surface mobility at the polymer interface is hindered as a result of all functionalization techniques. Adsorption dynamics of lysozyme depend on the extent and the specificity of the oxygen functionalities introduced to the polystyrene surface. Hindered adsorption and mobility are dominated by hydrophobic effects attributed to water hydration layer formation at the functionalized polystyrene surfaces.
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Affiliation(s)
- Nicholas A Moringo
- Department of Chemistry, ‡Department of Electrical and Computer Engineering, and §Smalley-Curl Institute, Rice University , Houston, Texas 77251, United States
| | - Hao Shen
- Department of Chemistry, ‡Department of Electrical and Computer Engineering, and §Smalley-Curl Institute, Rice University , Houston, Texas 77251, United States
| | - Lawrence J Tauzin
- Department of Chemistry, ‡Department of Electrical and Computer Engineering, and §Smalley-Curl Institute, Rice University , Houston, Texas 77251, United States
| | - Wenxiao Wang
- Department of Chemistry, ‡Department of Electrical and Computer Engineering, and §Smalley-Curl Institute, Rice University , Houston, Texas 77251, United States
| | - Logan D C Bishop
- Department of Chemistry, ‡Department of Electrical and Computer Engineering, and §Smalley-Curl Institute, Rice University , Houston, Texas 77251, United States
| | - Christy F Landes
- Department of Chemistry, ‡Department of Electrical and Computer Engineering, and §Smalley-Curl Institute, Rice University , Houston, Texas 77251, United States
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19
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Bitter JL, Yang Y, Duncan G, Fairbrother H, Bevan MA. Interfacial and Confined Colloidal Rod Diffusion. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2017; 33:9034-9042. [PMID: 28793187 DOI: 10.1021/acs.langmuir.7b01704] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Abstract
Optical microscopy is used to measure translational and rotational diffusion of colloidal rods near a single wall, confined between parallel walls, and within quasi-2D porous media as a function of rod aspect ratio and aqueous solution ionic strength. Translational and rotational diffusivities are obtained as rod particles experience positions closer to boundaries and for larger aspect ratios. Models based on position dependent hydrodynamic interactions quantitatively capture diffusivities in all geometries and indicate particle-wall separations in agreement with independent estimates based on electrostatic interactions. Short-time translational diffusion in quasi-2D porous media is insensitive to porous media area fraction, which appears to arise from a balance of hydrodynamic hindrance and enhanced translation due to parallel alignment along surfaces. Findings in this work provide a basis to interpret and predict interfacial and confined colloidal rod transport relevant to biological, environmental, and synthetic material systems.
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Affiliation(s)
- Julie L Bitter
- Chemistry and ‡Chemical & Biomolecular Engineering, Johns Hopkins University , Baltimore, Maryland 21218, United States
| | - Yuguang Yang
- Chemistry and ‡Chemical & Biomolecular Engineering, Johns Hopkins University , Baltimore, Maryland 21218, United States
| | - Gregg Duncan
- Chemistry and ‡Chemical & Biomolecular Engineering, Johns Hopkins University , Baltimore, Maryland 21218, United States
| | - Howard Fairbrother
- Chemistry and ‡Chemical & Biomolecular Engineering, Johns Hopkins University , Baltimore, Maryland 21218, United States
| | - Michael A Bevan
- Chemistry and ‡Chemical & Biomolecular Engineering, Johns Hopkins University , Baltimore, Maryland 21218, United States
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20
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Shen H, Tauzin LJ, Baiyasi R, Wang W, Moringo N, Shuang B, Landes CF. Single Particle Tracking: From Theory to Biophysical Applications. Chem Rev 2017; 117:7331-7376. [PMID: 28520419 DOI: 10.1021/acs.chemrev.6b00815] [Citation(s) in RCA: 275] [Impact Index Per Article: 39.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Abstract
After three decades of developments, single particle tracking (SPT) has become a powerful tool to interrogate dynamics in a range of materials including live cells and novel catalytic supports because of its ability to reveal dynamics in the structure-function relationships underlying the heterogeneous nature of such systems. In this review, we summarize the algorithms behind, and practical applications of, SPT. We first cover the theoretical background including particle identification, localization, and trajectory reconstruction. General instrumentation and recent developments to achieve two- and three-dimensional subdiffraction localization and SPT are discussed. We then highlight some applications of SPT to study various biological and synthetic materials systems. Finally, we provide our perspective regarding several directions for future advancements in the theory and application of SPT.
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Affiliation(s)
- Hao Shen
- Department of Chemistry and ‡Department of Electrical and Computer Engineering, §Smalley-Curl Institute, Rice University , Houston, Texas 77251, United States
| | - Lawrence J Tauzin
- Department of Chemistry and ‡Department of Electrical and Computer Engineering, §Smalley-Curl Institute, Rice University , Houston, Texas 77251, United States
| | - Rashad Baiyasi
- Department of Chemistry and ‡Department of Electrical and Computer Engineering, §Smalley-Curl Institute, Rice University , Houston, Texas 77251, United States
| | - Wenxiao Wang
- Department of Chemistry and ‡Department of Electrical and Computer Engineering, §Smalley-Curl Institute, Rice University , Houston, Texas 77251, United States
| | - Nicholas Moringo
- Department of Chemistry and ‡Department of Electrical and Computer Engineering, §Smalley-Curl Institute, Rice University , Houston, Texas 77251, United States
| | - Bo Shuang
- Department of Chemistry and ‡Department of Electrical and Computer Engineering, §Smalley-Curl Institute, Rice University , Houston, Texas 77251, United States
| | - Christy F Landes
- Department of Chemistry and ‡Department of Electrical and Computer Engineering, §Smalley-Curl Institute, Rice University , Houston, Texas 77251, United States
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21
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Bernstein J, Fricks J. Analysis of single particle diffusion with transient binding using particle filtering. J Theor Biol 2016; 401:109-21. [PMID: 27107737 DOI: 10.1016/j.jtbi.2016.04.013] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/21/2015] [Revised: 10/27/2015] [Accepted: 04/11/2016] [Indexed: 12/27/2022]
Abstract
Diffusion with transient binding occurs in a variety of biophysical processes, including movement of transmembrane proteins, T cell adhesion, and caging in colloidal fluids. We model diffusion with transient binding as a Brownian particle undergoing Markovian switching between free diffusion when unbound and diffusion in a quadratic potential centered around a binding site when bound. Assuming the binding site is the last position of the particle in the unbound state and Gaussian observational error obscures the true position of the particle, we use particle filtering to predict when the particle is bound and to locate the binding sites. Maximum likelihood estimators of diffusion coefficients, state transition probabilities, and the spring constant in the bound state are computed with a stochastic Expectation-Maximization (EM) algorithm.
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Affiliation(s)
- Jason Bernstein
- Department of Statistics, Pennsylvania State University, University Park, PA 16802, United States
| | - John Fricks
- Department of Statistics, Pennsylvania State University, University Park, PA 16802, United States.
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22
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Tauzin LJ, Shen H, Moringo NA, Roddy MH, Bothof CA, Griesgraber GW, McNulty AK, Rasmussen JK, Landes CF. Variable surface transport modalities on functionalized nylon films revealed with single molecule spectroscopy. RSC Adv 2016. [DOI: 10.1039/c5ra25592a] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
Functionalization of separation membranes with ion-exchange ligands allows control of the surface mobility of protein molecules facilitating optimized membrane design.
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Affiliation(s)
| | - Hao Shen
- Department of Chemistry
- Rice University
- Houston
- USA
| | | | | | - Cathy A. Bothof
- 3M Corporate Research Laboratories
- 3M Center 201-3E-03
- St. Paul
- USA
| | | | - Amy K. McNulty
- 3M Corporate Research Laboratories
- 3M Center 201-3E-03
- St. Paul
- USA
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23
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Wang H, Cheng L, Sáez AE, Pemberton JE. Flow Field Penetration in Thin Nanoporous Polymer Films under Laminar Flow by Förster Resonance Energy Transfer Coupled with Total Internal Reflectance Fluorescence Microscopy. Anal Chem 2015; 87:11746-54. [DOI: 10.1021/acs.analchem.5b03751] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
Affiliation(s)
- Huan Wang
- Department of Chemistry and Biochemistry and ‡Department of
Chemical and Environmental
Engineering, University of Arizona, Tucson, Arizona 85721, United States
| | - Long Cheng
- Department of Chemistry and Biochemistry and ‡Department of
Chemical and Environmental
Engineering, University of Arizona, Tucson, Arizona 85721, United States
| | - A. Eduardo Sáez
- Department of Chemistry and Biochemistry and ‡Department of
Chemical and Environmental
Engineering, University of Arizona, Tucson, Arizona 85721, United States
| | - Jeanne E. Pemberton
- Department of Chemistry and Biochemistry and ‡Department of
Chemical and Environmental
Engineering, University of Arizona, Tucson, Arizona 85721, United States
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24
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Kisley L, Brunetti R, Tauzin LJ, Shuang B, Yi X, Kirkeminde AW, Higgins DA, Weiss S, Landes CF. Characterization of Porous Materials by Fluorescence Correlation Spectroscopy Super-resolution Optical Fluctuation Imaging. ACS NANO 2015; 9:9158-66. [PMID: 26235127 PMCID: PMC10706734 DOI: 10.1021/acsnano.5b03430] [Citation(s) in RCA: 36] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/26/2023]
Abstract
Porous materials such as cellular cytosol, hydrogels, and block copolymers have nanoscale features that determine macroscale properties. Characterizing the structure of nanopores is difficult with current techniques due to imaging, sample preparation, and computational challenges. We produce a super-resolution optical image that simultaneously characterizes the nanometer dimensions of and diffusion dynamics within porous structures by correlating stochastic fluctuations from diffusing fluorescent probes in the pores of the sample, dubbed here as "fluorescence correlation spectroscopy super-resolution optical fluctuation imaging" or "fcsSOFI". Simulations demonstrate that structural features and diffusion properties can be accurately obtained at sub-diffraction-limited resolution. We apply our technique to image agarose hydrogels and aqueous lyotropic liquid crystal gels. The heterogeneous pore resolution is improved by up to a factor of 2, and diffusion coefficients are accurately obtained through our method compared to diffraction-limited fluorescence imaging and single-particle tracking. Moreover, fcsSOFI allows for rapid and high-throughput characterization of porous materials. fcsSOFI could be applied to soft porous environments such hydrogels, polymers, and membranes in addition to hard materials such as zeolites and mesoporous silica.
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Affiliation(s)
- Lydia Kisley
- Department of Chemistry and Rice University, Houston, Texas 77251, United States
| | - Rachel Brunetti
- Department of Physics, Scripps College, Claremont, California 91711, United States
| | - Lawrence J. Tauzin
- Department of Chemistry and Rice University, Houston, Texas 77251, United States
| | - Bo Shuang
- Department of Chemistry and Rice University, Houston, Texas 77251, United States
| | - Xiyu Yi
- Department of Chemistry and Biochemistry, University of California, Los Angeles, California 90095, United States
| | - Alec W. Kirkeminde
- Department of Chemistry, Kansas State University, 213 CBC Building, Manhattan, Kansas 66506-0401, United States
| | - Daniel A. Higgins
- Department of Chemistry, Kansas State University, 213 CBC Building, Manhattan, Kansas 66506-0401, United States
| | - Shimon Weiss
- Department of Chemistry and Biochemistry, University of California, Los Angeles, California 90095, United States
- Department of Physiology, and University of California, Los Angeles, California 90095, United States
- California NanoSystems Institute, University of California, Los Angeles, California 90095, United States
| | - Christy F. Landes
- Department of Chemistry and Rice University, Houston, Texas 77251, United States
- Department of Electrical and Computer Engineering, Rice University, Houston, Texas 77251, United States
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25
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Langdon BB, Kastantin M, Schwartz DK. Surface Chemistry Influences Interfacial Fibrinogen Self-Association. Biomacromolecules 2015; 16:3201-8. [DOI: 10.1021/acs.biomac.5b00869] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Blake B. Langdon
- Department of Chemical and
Biological Engineering, University of Colorado Boulder, Boulder, Colorado 80309, United States
| | - Mark Kastantin
- Department of Chemical and
Biological Engineering, University of Colorado Boulder, Boulder, Colorado 80309, United States
| | - Daniel K. Schwartz
- Department of Chemical and
Biological Engineering, University of Colorado Boulder, Boulder, Colorado 80309, United States
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26
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Bosch PJ, Kanger JS, Subramaniam V. Classification of dynamical diffusion states in single molecule tracking microscopy. Biophys J 2015; 107:588-598. [PMID: 25099798 DOI: 10.1016/j.bpj.2014.05.049] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/04/2014] [Revised: 05/04/2014] [Accepted: 05/29/2014] [Indexed: 12/21/2022] Open
Abstract
Single molecule tracking of membrane proteins by fluorescence microscopy is a promising method to investigate dynamic processes in live cells. Translating the trajectories of proteins to biological implications, such as protein interactions, requires the classification of protein motion within the trajectories. Spatial information of protein motion may reveal where the protein interacts with cellular structures, because binding of proteins to such structures often alters their diffusion speed. For dynamic diffusion systems, we provide an analytical framework to determine in which diffusion state a molecule is residing during the course of its trajectory. We compare different methods for the quantification of motion to utilize this framework for the classification of two diffusion states (two populations with different diffusion speed). We found that a gyration quantification method and a Bayesian statistics-based method are the most accurate in diffusion-state classification for realistic experimentally obtained datasets, of which the gyration method is much less computationally demanding. After classification of the diffusion, the lifetime of the states can be determined, and images of the diffusion states can be reconstructed at high resolution. Simulations validate these applications. We apply the classification and its applications to experimental data to demonstrate the potential of this approach to obtain further insights into the dynamics of cell membrane proteins.
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Affiliation(s)
- Peter J Bosch
- Nanobiophysics, MESA+ Institute for Nanotechnology, University of Twente, The Netherlands
| | - Johannes S Kanger
- MIRA Institute for Biomedical Technology and Technical Medicine, University of Twente, The Netherlands
| | - Vinod Subramaniam
- Nanobiophysics, MESA+ Institute for Nanotechnology, University of Twente, The Netherlands; MIRA Institute for Biomedical Technology and Technical Medicine, University of Twente, The Netherlands.
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27
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Chin HY, Wang D, Schwartz DK. Dynamic Molecular Behavior on Thermoresponsive Polymer Brushes. Macromolecules 2015. [DOI: 10.1021/acs.macromol.5b00729] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/29/2023]
Affiliation(s)
- Huai-Ying Chin
- Department of Chemical and
Biological Engineering, University of Colorado Boulder, Boulder, Colorado 80309, United States
| | - Dapeng Wang
- Department of Chemical and
Biological Engineering, University of Colorado Boulder, Boulder, Colorado 80309, United States
| | - Daniel K. Schwartz
- Department of Chemical and
Biological Engineering, University of Colorado Boulder, Boulder, Colorado 80309, United States
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28
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Higgins DA, Park SC, Tran-Ba KH, Ito T. Single-Molecule Investigations of Morphology and Mass Transport Dynamics in Nanostructured Materials. ANNUAL REVIEW OF ANALYTICAL CHEMISTRY (PALO ALTO, CALIF.) 2015; 8:193-216. [PMID: 26132347 DOI: 10.1146/annurev-anchem-071114-040153] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
Nanostructured materials such as mesoporous metal oxides and phase-separated block copolymers form the basis for new monolith, membrane, and thin film technologies having applications in energy storage, chemical catalysis, and separations. Mass transport plays an integral role in governing the application-specific performance characteristics of many such materials. The majority of methods employed in their characterization provide only ensemble data, often masking the nanoscale, molecular-level details of materials morphology and mass transport. Single-molecule fluorescence methods offer direct routes to probing these characteristics on a single-molecule/single-nanostructure basis. This article provides a review of single-molecule studies focused on measurements of anisotropic diffusion, adsorption, partitioning, and confinement in nanostructured materials. Experimental methods covered include confocal and wide-field fluorescence microscopy. The results obtained promise to deepen our understanding of mass transport mechanisms in nanostructures, thus aiding in the realization of advanced materials systems.
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Affiliation(s)
- Daniel A Higgins
- Department of Chemistry, Kansas State University, Manhattan, Kansas 66506-0401; ,
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29
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Barden AO, Goler AS, Humphreys SC, Tabatabaei S, Lochner M, Ruepp MD, Jack T, Simonin J, Thompson AJ, Jones JP, Brozik JA. Tracking individual membrane proteins and their biochemistry: The power of direct observation. Neuropharmacology 2015; 98:22-30. [PMID: 25998277 DOI: 10.1016/j.neuropharm.2015.05.003] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/31/2014] [Revised: 04/13/2015] [Accepted: 05/06/2015] [Indexed: 10/23/2022]
Abstract
The advent of single molecule fluorescence microscopy has allowed experimental molecular biophysics and biochemistry to transcend traditional ensemble measurements, where the behavior of individual proteins could not be precisely sampled. The recent explosion in popularity of new super-resolution and super-localization techniques coupled with technical advances in optical designs and fast highly sensitive cameras with single photon sensitivity and millisecond time resolution have made it possible to track key motions, reactions, and interactions of individual proteins with high temporal resolution and spatial resolution well beyond the diffraction limit. Within the purview of membrane proteins and ligand gated ion channels (LGICs), these outstanding advances in single molecule microscopy allow for the direct observation of discrete biochemical states and their fluctuation dynamics. Such observations are fundamentally important for understanding molecular-level mechanisms governing these systems. Examples reviewed here include the effects of allostery on the stoichiometry of ligand binding in the presence of fluorescent ligands; the observation of subdomain partitioning of membrane proteins due to microenvironment effects; and the use of single particle tracking experiments to elucidate characteristics of membrane protein diffusion and the direct measurement of thermodynamic properties, which govern the free energy landscape of protein dimerization. The review of such characteristic topics represents a snapshot of efforts to push the boundaries of fluorescence microscopy of membrane proteins to the absolute limit. This article is part of the Special Issue entitled 'Fluorescent Tools in Neuropharmacology'.
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Affiliation(s)
- Adam O Barden
- Department of Chemistry, Washington State University, PO Box 644630, Pullman, WA, 99164-4630, United States
| | - Adam S Goler
- Department of Chemistry, Washington State University, PO Box 644630, Pullman, WA, 99164-4630, United States
| | - Sara C Humphreys
- Department of Chemistry, Washington State University, PO Box 644630, Pullman, WA, 99164-4630, United States
| | - Samaneh Tabatabaei
- Department of Chemistry, Washington State University, PO Box 644630, Pullman, WA, 99164-4630, United States
| | - Martin Lochner
- Department of Chemistry and Biochemistry, University of Bern, Freiestrasse 3, CH-3012, Bern, Switzerland
| | - Marc-David Ruepp
- Department of Chemistry and Biochemistry, University of Bern, Freiestrasse 3, CH-3012, Bern, Switzerland
| | - Thomas Jack
- Department of Chemistry and Biochemistry, University of Bern, Freiestrasse 3, CH-3012, Bern, Switzerland
| | - Jonathan Simonin
- Department of Chemistry and Biochemistry, University of Bern, Freiestrasse 3, CH-3012, Bern, Switzerland
| | - Andrew J Thompson
- Pharmacology Department, Cambridge University, Tennis Court Road, Cambridge, CB2 1PD, United Kingdom
| | - Jeffrey P Jones
- Department of Chemistry, Washington State University, PO Box 644630, Pullman, WA, 99164-4630, United States
| | - James A Brozik
- Department of Chemistry, Washington State University, PO Box 644630, Pullman, WA, 99164-4630, United States.
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30
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Affiliation(s)
- Lydia Kisley
- Department of Chemistry and Department of Electrical and Computer
Engineering,
Rice Quantum Institute, Rice University, 6100 Main Street, MS-60, Houston, Texas 77005, United States
| | - Christy F. Landes
- Department of Chemistry and Department of Electrical and Computer
Engineering,
Rice Quantum Institute, Rice University, 6100 Main Street, MS-60, Houston, Texas 77005, United States
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31
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Robben KC, Tran-Ba KH, Ito T, Higgins DA. Trajectory-Profile-Guided Single Molecule Tracking for Assignment of One-Dimensional Diffusion Trajectories. Anal Chem 2014; 86:10820-7. [DOI: 10.1021/ac502881u] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Affiliation(s)
- Kevin C. Robben
- Department of Chemistry, Kansas State University, 213
CBC Building, Manhattan, Kansas 66506-0401, United States
| | - Khanh-Hoa Tran-Ba
- Department of Chemistry, Kansas State University, 213
CBC Building, Manhattan, Kansas 66506-0401, United States
| | - Takashi Ito
- Department of Chemistry, Kansas State University, 213
CBC Building, Manhattan, Kansas 66506-0401, United States
| | - Daniel A. Higgins
- Department of Chemistry, Kansas State University, 213
CBC Building, Manhattan, Kansas 66506-0401, United States
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32
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Shuang B, Cooper D, Taylor JN, Kisley L, Chen J, Wang W, Li CB, Komatsuzaki T, Landes CF. Fast Step Transition and State Identification (STaSI) for Discrete Single-Molecule Data Analysis. J Phys Chem Lett 2014; 5:3157-3161. [PMID: 25247055 PMCID: PMC4167035 DOI: 10.1021/jz501435p] [Citation(s) in RCA: 70] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/10/2014] [Accepted: 08/28/2014] [Indexed: 05/26/2023]
Abstract
We introduce a step transition and state identification (STaSI) method for piecewise constant single-molecule data with a newly derived minimum description length equation as the objective function. We detect the step transitions using the Student's t test and group the segments into states by hierarchical clustering. The optimum number of states is determined based on the minimum description length equation. This method provides comprehensive, objective analysis of multiple traces requiring few user inputs about the underlying physical models and is faster and more precise in determining the number of states than established and cutting-edge methods for single-molecule data analysis. Perhaps most importantly, the method does not require either time-tagged photon counting or photon counting in general and thus can be applied to a broad range of experimental setups and analytes.
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Affiliation(s)
- Bo Shuang
- Department
of Chemistry, Rice University, MS 60, Houston, Texas 77251-1892, United States
| | - David Cooper
- Department
of Chemistry, Rice University, MS 60, Houston, Texas 77251-1892, United States
| | - J. Nick Taylor
- Molecule
& Life Nonlinear Sciences Laboratory, Research Institute for Electronic
Science, Hokkaido University, Sapporo 001-0020, Japan
| | - Lydia Kisley
- Department
of Chemistry, Rice University, MS 60, Houston, Texas 77251-1892, United States
| | - Jixin Chen
- Department
of Chemistry, Rice University, MS 60, Houston, Texas 77251-1892, United States
| | - Wenxiao Wang
- Department
of Electrical and Computer Engineering, Rice Quantum Institute, Rice University, MS 60, Houston, Texas 77251-1892, United States
| | - Chun Biu Li
- Molecule
& Life Nonlinear Sciences Laboratory, Research Institute for Electronic
Science, Hokkaido University, Sapporo 001-0020, Japan
| | - Tamiki Komatsuzaki
- Molecule
& Life Nonlinear Sciences Laboratory, Research Institute for Electronic
Science, Hokkaido University, Sapporo 001-0020, Japan
| | - Christy F. Landes
- Department
of Chemistry, Rice University, MS 60, Houston, Texas 77251-1892, United States
- Department
of Electrical and Computer Engineering, Rice Quantum Institute, Rice University, MS 60, Houston, Texas 77251-1892, United States
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33
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Tauzin L, Shuang B, Kisley L, Mansur AP, Chen J, de Leon A, Advincula RC, Landes CF. Charge-dependent transport switching of single molecular ions in a weak polyelectrolyte multilayer. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2014; 30:8391-9. [PMID: 24960617 PMCID: PMC4216201 DOI: 10.1021/la5012007] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/15/2023]
Abstract
The tunable nature of weak polyelectrolyte multilayers makes them ideal candidates for drug loading and delivery, water filtration, and separations, yet the lateral transport of charged molecules in these systems remains largely unexplored at the single molecule level. We report the direct measurement of the charge-dependent, pH-tunable, multimodal interaction of single charged molecules with a weak polyelectrolyte multilayer thin film, a 10 bilayer film of poly(acrylic acid) and poly(allylamine hydrochloride) PAA/PAH. Using fluorescence microscopy and single-molecule tracking, two modes of interaction were detected: (1) adsorption, characterized by the molecule remaining immobilized in a subresolution region and (2) diffusion trajectories characteristic of hopping (D ∼ 10(-9) cm(2)/s). Radius of gyration evolution analysis and comparison with simulated trajectories confirmed the coexistence of the two transport modes in the same single molecule trajectories. A mechanistic explanation for the probe and condition mediated dynamics is proposed based on a combination of electrostatics and a reversible, pH-induced alteration of the nanoscopic structure of the film. Our results are in good agreement with ensemble studies conducted on similar films, confirm a previously-unobserved hopping mechanism for charged molecules in polyelectrolyte multilayers, and demonstrate that single molecule spectroscopy can offer mechanistic insight into the role of electrostatics and nanoscale tunability of transport in weak polyelectrolyte multilayers.
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Affiliation(s)
- Lawrence
J. Tauzin
- Department
of Chemistry and Department of Electrical and Chemical Engineering, Rice University, Houston, Texas 77251, United States
| | - Bo Shuang
- Department
of Chemistry and Department of Electrical and Chemical Engineering, Rice University, Houston, Texas 77251, United States
| | - Lydia Kisley
- Department
of Chemistry and Department of Electrical and Chemical Engineering, Rice University, Houston, Texas 77251, United States
| | - Andrea P. Mansur
- Department
of Chemistry and Department of Electrical and Chemical Engineering, Rice University, Houston, Texas 77251, United States
| | - Jixin Chen
- Department
of Chemistry and Department of Electrical and Chemical Engineering, Rice University, Houston, Texas 77251, United States
| | - Al de Leon
- Department
of Macromolecular Science and Engineering, Case Western Reserve University, Cleveland, Ohio 44106, United States
| | - Rigoberto C. Advincula
- Department
of Macromolecular Science and Engineering, Case Western Reserve University, Cleveland, Ohio 44106, United States
| | - Christy F. Landes
- Department
of Chemistry and Department of Electrical and Chemical Engineering, Rice University, Houston, Texas 77251, United States
- E-mail:
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34
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Cooper JT, Harris JM. Imaging Fluorescence-Correlation Spectroscopy for Measuring Fast Surface Diffusion at Liquid/Solid Interfaces. Anal Chem 2014; 86:7618-26. [DOI: 10.1021/ac5014354] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Justin T. Cooper
- Department
of Chemistry, University of Utah, 315 South 1400 East, Salt Lake City, Utah 84112-0805, United States
| | - Joel M. Harris
- Department
of Chemistry, University of Utah, 315 South 1400 East, Salt Lake City, Utah 84112-0805, United States
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35
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Analysis of α3 GlyR single particle tracking in the cell membrane. BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH 2014; 1843:544-53. [DOI: 10.1016/j.bbamcr.2013.11.019] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/30/2013] [Revised: 11/22/2013] [Accepted: 11/25/2013] [Indexed: 11/23/2022]
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36
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Lee CH, Crosby AJ, Emrick T, Hayward RC. Characterization of Heterogeneous Polyacrylamide Hydrogels by Tracking of Single Quantum Dots. Macromolecules 2014. [DOI: 10.1021/ma402373s] [Citation(s) in RCA: 52] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Cheol Hee Lee
- Department of Polymer Science
and Engineering, University of Massachusetts, Amherst, Massachusetts 01003, United States
| | - Alfred J. Crosby
- Department of Polymer Science
and Engineering, University of Massachusetts, Amherst, Massachusetts 01003, United States
| | - Todd Emrick
- Department of Polymer Science
and Engineering, University of Massachusetts, Amherst, Massachusetts 01003, United States
| | - Ryan C. Hayward
- Department of Polymer Science
and Engineering, University of Massachusetts, Amherst, Massachusetts 01003, United States
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37
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Wang S, Jing B, Zhu Y. Molecule motion at polymer brush interfaces from single-molecule experimental perspectives. ACTA ACUST UNITED AC 2013. [DOI: 10.1002/polb.23414] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
Affiliation(s)
- Shengqin Wang
- Institute of Materials Research and Engineering; A*STAR (Agency for Science, Technology and Research); 3 Research Link Singapore 117602 Singapore
| | - Benxin Jing
- Department of Chemical and Biomolecular Engineering; University of Notre Dame; Notre Dame Indiana 46556
| | - Yingxi Zhu
- Department of Chemical and Biomolecular Engineering; University of Notre Dame; Notre Dame Indiana 46556
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38
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Wöll D, Kölbl C, Stempfle B, Karrenbauer A. A novel method for automatic single molecule tracking of blinking molecules at low intensities. Phys Chem Chem Phys 2013; 15:6196-205. [PMID: 23429424 DOI: 10.1039/c3cp44693j] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Single molecule tracking provides unprecedented insights into diffusional processes of systems in life and material sciences. Determination of molecule positions with high accuracy and correct connection of the determined positions to tracks is a challenging task with, so far, no universal solution for single fluorescing molecules tackling the challenge of low signal-to-noise ratios, frequent blinking and photo bleaching. Thus, the development of novel algorithms for automatic single molecule fluorescence tracking is essential to analyse the huge amount of diffusional data obtained with single molecule widefield fluorescence microscopy. Here, we present a novel tracking model using a top-down polyhedral approach which can be implemented effectively using standard linear programming solvers. The results of our tracking approach are compared to the ground truth of simulated data with different diffusion coefficients, signal-to-noise ratios and particle densities. We also determine the dependency of blinking on the analysed distribution of diffusion coefficients. To confirm the functionality of our tracking method, the results of automatic tracking and manual tracking by a human expert are compared and discussed.
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Affiliation(s)
- Dominik Wöll
- Zukunftskolleg, University of Konstanz, Konstanz, Germany.
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39
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Cooper JT, Peterson EM, Harris JM. Fluorescence Imaging of Single-Molecule Retention Trajectories in Reversed-Phase Chromatographic Particles. Anal Chem 2013; 85:9363-70. [DOI: 10.1021/ac402251r] [Citation(s) in RCA: 40] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Justin T. Cooper
- Department
of Chemistry, University of Utah, 315 South 1400 East, Salt Lake City, Utah 84112-0805, United States
| | - Eric M. Peterson
- Department
of Chemistry, University of Utah, 315 South 1400 East, Salt Lake City, Utah 84112-0805, United States
| | - Joel M. Harris
- Department
of Chemistry, University of Utah, 315 South 1400 East, Salt Lake City, Utah 84112-0805, United States
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40
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Ott M, Shai Y, Haran G. Single-particle tracking reveals switching of the HIV fusion peptide between two diffusive modes in membranes. J Phys Chem B 2013; 117:13308-21. [PMID: 23915358 DOI: 10.1021/jp4039418] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Abstract
Fusion of the HIV membrane with that of a target T cell is an essential first step in the viral infection process. Here we describe single-particle tracking (SPT) studies of a 16-amino-acid peptide derived from the HIV fusion protein (FP16), as it interacts with a supported lipid bilayer. FP16 was found to spontaneously insert into and move within the bilayer with two different modes of diffusion, a fast mode with a diffusion coefficient typical of protein motion in membranes and a much slower one. We observed transitions between the two modes: slow peptides were found to speed up, and fast peptides could slow down. Hidden Markov model analysis was employed as a method for the identification of the two modes in single-molecule trajectories and analysis of their interconversion rates. Surprisingly, the diffusion coefficients of the two modes were found to depend differently on solution viscosity. Thus, whereas the fast diffusive mode behaved as predicted by the Saffman-Delbrück theory, the slow mode behaved according to the Stokes-Einstein relation. To further characterize the two diffusive modes, FP16 molecules were studied in bilayers cooled through their liquid crystalline-to-gel phase transition. Our analysis suggested that the slow diffusive mode might originate from the formation of large objects, such as lipid domains or local protrusions, which are induced by the peptides and move together with them.
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Affiliation(s)
- Maria Ott
- Departments of Chemical Physics and ‡Biological Chemistry, Weizmann Institute of Science , Rehovot 76100, Israel
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41
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Elliott LCC, Jing B, Akgun B, Zhu Y, Bohn PW, Fullerton-Shirey SK. Loading and distribution of a model small molecule drug in poly(N-isopropylacrylamide) brushes: a neutron reflectometry and AFM study. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2013; 29:3259-3268. [PMID: 23441753 DOI: 10.1021/la305088k] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/01/2023]
Abstract
The structure of a hydrated poly(N-isopropylacrylamide) brush loaded with 5 vol % Isoniazid is studied as a function of temperature using neutron reflectometry (NR) and atomic force microscopy (AFM). NR measurements show that Isoniazid increases the thickness of the brush before, during and after the polymer collapse, and it is retained inside the brush at all measured temperatures. The Isoniazid concentration in the expanded brush is ~14% higher than in the bulk solution, and the concentration nearly doubles in the collapsed polymer, suggesting stronger binding between Isoniazid and the polymer compared to water, even at temperatures below the lower critical solution temperature (LCST) where the polymer is hydrophilic. Typically, additives that bind strongly to the polymer backbone and increase the hydrophilicity of the polymer will delay the onset of the LCST, which is suggested by AFM and NR measurements. The extent of small-molecule loading and distribution throughout a thermo-responsive polymer brush, such as pNIPAAm, will have important consequences for applications such as drug delivery and gating.
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Affiliation(s)
- Lindsay C C Elliott
- Department of Chemistry and Biochemistry, Notre Dame Center for Nano Science and Technology, University of Notre Dame, Notre Dame, Indiana 46556, United States
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42
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Menchón SA, Martín MG, Dotti CG. APM_GUI: analyzing particle movement on the cell membrane and determining confinement. BMC BIOPHYSICS 2012; 5:4. [PMID: 22348508 PMCID: PMC3337278 DOI: 10.1186/2046-1682-5-4] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 08/30/2011] [Accepted: 02/20/2012] [Indexed: 01/19/2023]
Abstract
Background Single-particle tracking is a powerful tool for tracking individual particles with high precision. It provides useful information that allows the study of diffusion properties as well as the dynamics of movement. Changes in particle movement behavior, such as transitions between Brownian motion and temporary confinement, can reveal interesting biophysical interactions. Although useful applications exist to determine the paths of individual particles, only a few software implementations are available to analyze these data, and these implementations are generally not user-friendly and do not have a graphical interface,. Results Here, we present APM_GUI (Analyzing Particle Movement), which is a MatLab-implemented application with a Graphical User Interface. This user-friendly application detects confined movement considering non-random confinement when a particle remains in a region longer than a Brownian diffusant would remain. In addition, APM_GUI exports the results, which allows users to analyze this information using software that they are familiar with. Conclusions APM_GUI provides an open-source tool that quantifies diffusion coefficients and determines whether trajectories have non-random confinements. It also offers a simple and user-friendly tool that can be used by individuals without programming skills.
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Affiliation(s)
- Silvia A Menchón
- Department of Molecular and Developmental Genetics, VIB Center for the Biology of Disease and Center for Human Genetics, KULeuven, Campus Gasthuisberg, Herestraat 49 - bus 602, 3000 Leuven, Belgium.
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43
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Stempfle B, Dill M, Winterhalder MJ, Müllen K, Wöll D. Single molecule diffusion and its heterogeneity during the bulk radical polymerization of styrene and methyl methacrylate. Polym Chem 2012. [DOI: 10.1039/c2py20268a] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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44
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Flier BMI, Baier MC, Huber J, Müllen K, Mecking S, Zumbusch A, Wöll D. Heterogeneous diffusion in thin polymer films as observed by high-temperature single-molecule fluorescence microscopy. J Am Chem Soc 2011; 134:480-8. [PMID: 22088172 DOI: 10.1021/ja208581r] [Citation(s) in RCA: 68] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Single-molecule fluorescence microscopy was used to investigate the dynamics of perylene diimide (PDI) molecules in thin supported polystyrene (PS) films at temperatures up to 135 °C. Such high temperatures, so far unreached in single-molecule spectroscopy studies, were achieved using a custom-built setup which allows for restricting the heated mass to a minimum. This enables temperature-dependent single-molecule fluorescence studies of structural dynamics in the temperature range most relevant to the processing and to applications of thermoplastic materials. In order to ensure that polymer chains were relaxed, a molecular weight of 3000 g/mol, clearly below the entanglement length of PS, was chosen. We found significant heterogeneities in the motion of single PDI probe molecules near T(g). An analysis of the track radius of the recorded single-probe molecule tracks allowed for a distinction between mobile and immobile molecules. Up to the glass transition temperature in bulk, T(g,bulk), probe molecules were immobile; at temperatures higher than T(g,bulk) + 40 K, all probe molecules were mobile. In the range between 0 and 40 K above T(g,bulk) the fraction of mobile probe molecules strongly depends on film thickness. In 30-nm thin films mobility is observed at lower temperatures than in thick films. The fractions of mobile probe molecules were compared and rationalized using Monte Carlo random walk simulations. Results of these simulations indicate that the observed heterogeneities can be explained by a model which assumes a T(g) profile and an increased probability of probe molecules remaining at the surface, both effects caused by a density profile with decreasing polymer density at the polymer-air interface.
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Affiliation(s)
- Bente M I Flier
- Fachbereich Chemie, Universität Konstanz, Universitätsstrasse 10, 78464 Konstanz, Germany
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45
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Elliott LCC, Barhoum M, Harris JM, Bohn PW. Single molecule tracking studies of lower critical solution temperature transition behavior in poly(N-isopropylacrylamide). LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2011; 27:11037-11043. [PMID: 21770465 DOI: 10.1021/la201753v] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/31/2023]
Abstract
Spatial and temporal heterogeneities in expanded and collapsed surface bound poly(N-isopropylacrylamide), pNIPAAm, films are studied by single molecule tracking (SMT) experiments. Tracking data are analyzed using both radius of gyration (R(g)) evolution and confinement level calculations to elucidate the range of behaviors displayed by single Rhodamine6G (R6G) molecules. Confined diffusion that is dictated by the free volume within surface tethered chains is observed with considerable dispersion among individual R6G molecules. Thus, the distribution of probe behavior reflects nanometer-scale information about the behavior of the probe-polymer system at temperatures above (T > T(LCST)) and below (T < T(LCST)) the lower critical solution temperature (LCST). In this context, confinement-level analysis and R(g) evolution both show a larger degree of confinement of the probe in pNIPAAm at T > T(LCST). Temperature-dependent changes in confinement are evidenced at T > T(LCST) by a higher percentage of confined steps, longer periods of confined events, and smaller area of confined zones, as well as a shift in the overall distribution of R(g) evolution paths and final R(g) distributions.
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Affiliation(s)
- Lindsay C C Elliott
- Department of Chemistry, University of Illinois at Urbana-Champaign, 600 S. Mathews Avenue, Urbana, Illinois 61801, USA
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46
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Do TT, Tang VJ, Aguilera JA, Perry CC, Milligan JR. Characterization of a Lipophilic Plasmid DNA Condensate Formed with a Cationic Peptide Fatty Acid Conjugate. Biomacromolecules 2011; 12:1731-7. [DOI: 10.1021/bm200127u] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Affiliation(s)
- Trinh T. Do
- Department of Radiology, University of California at San Diego, 9500 Gilman Drive, La Jolla, California 92093-0610, United States
| | - Vicky J. Tang
- Department of Radiology, University of California at San Diego, 9500 Gilman Drive, La Jolla, California 92093-0610, United States
| | - Joe A. Aguilera
- Department of Radiology, University of California at San Diego, 9500 Gilman Drive, La Jolla, California 92093-0610, United States
| | - Christopher C. Perry
- Department of Biochemistry, Loma Linda University, 11085 Campus Street, Loma Linda, California 92350, United States
| | - Jamie R. Milligan
- Department of Radiology, University of California at San Diego, 9500 Gilman Drive, La Jolla, California 92093-0610, United States
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