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Zulueta Díaz YDLM, Kure JL, Grosso RA, Andersen C, Pandzic E, Sengupta P, Wiseman PW, Arnspang EC. Quantitative image mean squared displacement (iMSD) analysis of the dynamics of Aquaporin 2 within the membrane of live cells. Biochim Biophys Acta Gen Subj 2023; 1867:130449. [PMID: 37748662 DOI: 10.1016/j.bbagen.2023.130449] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/09/2022] [Revised: 08/22/2023] [Accepted: 08/25/2023] [Indexed: 09/27/2023]
Abstract
Nanodomains are a biological membrane phenomenon which have a large impact on various cellular processes. They are often analysed by looking at the lateral dynamics of membrane lipids or proteins. The localization of the plasma membrane protein aquaporin-2 in nanodomains has so far been unknown. In this study, we use total internal reflection fluorescence microscopy to image Madin-Darby Canine Kidney (MDCK) cells expressing aquaporin-2 tagged with mEos 3.2. Then, image mean squared displacement (iMSD) approach was used to analyse the diffusion of aquaporin-2, revealing that aquaporin-2 is confined within membrane nanodomains. Using iMSD analysis, we found that the addition of the drug forskolin increases the diffusion of aquaporin-2 within the confined domains, which is in line with previous studies. Finally, we observed an increase in the size of the membrane domains and the extent of trapping of aquaporin-2 after stimulation with forskolin.
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Affiliation(s)
| | - Jakob Lavrsen Kure
- Department of Green Technology, University of Southern Denmark, 5230 Odense M, Denmark
| | - Rubén Adrián Grosso
- Department of Green Technology, University of Southern Denmark, 5230 Odense M, Denmark
| | - Camilla Andersen
- Department of Green Technology, University of Southern Denmark, 5230 Odense M, Denmark
| | - Elvis Pandzic
- Mark Wainwright Analytical Centre, Lowy Cancer Research Centre C25, University of New South Wales, NSW, 2052, Australia
| | - Prabuddha Sengupta
- The Eunice Kennedy Shriver National Institute of Child Health and Human Development, NIH, Bethesda, MD 20892, USA; Janelia Research Campus, Howard Hughes Medical Institute, Ashburn, VA 20147, USA
| | - Paul W Wiseman
- Department of Chemistry, McGill University, Montreal, Québec, Canada; Department of Physics, McGill University, Montreal, Québec, Canada
| | - Eva C Arnspang
- Department of Green Technology, University of Southern Denmark, 5230 Odense M, Denmark; The Eunice Kennedy Shriver National Institute of Child Health and Human Development, NIH, Bethesda, MD 20892, USA.
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2
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Malik S, Karmakar S, Debnath A. Relaxation time scales of interfacial water upon fluid to ripple to gel phase transitions of bilayers. J Chem Phys 2023; 158:114503. [PMID: 36948835 DOI: 10.1063/5.0138681] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/17/2023] Open
Abstract
The slow relaxation of interface water (IW) across three primary phases of membranes is relevant to understand the influence of IW on membrane functions at supercooled conditions. To this objective, a total of ∼16.26μs all-atom molecular dynamics simulations of 1,2-dimyristoyl-sn-glycerol-3-phosphocholine lipid membranes are carried out. A supercooling-driven drastic slow-down in heterogeneity time scales of the IW is found at the fluid to the ripple to the gel phase transitions of the membranes. At both fluid-to-ripple-to-gel phase transitions, the IW undergoes two dynamic crossovers in Arrhenius behavior with the highest activation energy at the gel phase due to the highest number of hydrogen bonds. Interestingly, the Stokes-Einstein (SE) relation is conserved for the IW near all three phases of the membranes for the time scales derived from the diffusion exponents and the non-Gaussian parameters. However, the SE relation breaks for the time scale obtained from the self-intermediate scattering functions. The behavioral difference in different time scales is universal and found to be an intrinsic property of glass. The first dynamical transition in the α relaxation time of the IW is associated with an increase in the Gibbs energy of activation of hydrogen bond breaking with locally distorted tetrahedral structures, unlike the bulk water. Thus, our analyses unveil the nature of the relaxation time scales of the IW across membrane phase transitions in comparison with the bulk water. The results will be useful to understand the activities and survival of complex biomembranes under supercooled conditions in the future.
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Affiliation(s)
- Sheeba Malik
- Department of Chemistry, IIT Jodhpur, Jodhpur, Rajasthan, India
| | - Smarajit Karmakar
- Centre for Interdisciplinary Sciences, Tata Institute of Fundamental Research, Hyderabad, India
| | - Ananya Debnath
- Department of Chemistry, IIT Jodhpur, Jodhpur, Rajasthan, India
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3
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Shrivastava S, Sarkar P, Preira P, Salomé L, Chattopadhyay A. Cholesterol-Dependent Dynamics of the Serotonin 1A Receptor Utilizing Single Particle Tracking: Analysis of Diffusion Modes. J Phys Chem B 2022; 126:6682-6690. [PMID: 35973070 DOI: 10.1021/acs.jpcb.2c03941] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
G protein-coupled receptors (GPCRs) are signaling hubs in cell membranes that regulate a wide range of physiological processes and are popular drug targets. Serotonin1A receptors are important members of the GPCR family and are implicated in neuropsychiatric disorders. Cholesterol is a key constituent of higher eukaryotic membranes and is believed to contribute to the segregated distribution of membrane constituents into domains. To explore the role of cholesterol in lateral dynamics of GPCRs, we utilized single particle tracking (SPT) to monitor diffusion of serotonin1A receptors under acute and chronic cholesterol-depleted conditions. Our results show that the short-term diffusion coefficient of the receptor decreases upon cholesterol depletion, irrespective of the method of cholesterol depletion. Analysis of SPT trajectories revealed that relative populations of receptors undergoing various modes of diffusion change upon cholesterol depletion. Notably, in cholesterol-depleted cells, we observed an increase in the confined population of the receptor accompanied by a reduction in diffusion coefficient for chronic cholesterol depletion. These results are supported by our recent work and present observations that show polymerization of G-actin in response to chronic cholesterol depletion. Taken together, our results bring out the interdependence of cholesterol and actin cytoskeleton in regulating diffusion of GPCRs in membranes.
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Affiliation(s)
- Sandeep Shrivastava
- CSIR-Centre for Cellular and Molecular Biology, Uppal Road, Hyderabad 500 007, India
| | - Parijat Sarkar
- CSIR-Centre for Cellular and Molecular Biology, Uppal Road, Hyderabad 500 007, India
| | - Pascal Preira
- Institut de Pharmacologie et de Biologie Structurale, CNRS, Université de Toulouse (UPS), 31 077 Toulouse, France
| | - Laurence Salomé
- Institut de Pharmacologie et de Biologie Structurale, CNRS, Université de Toulouse (UPS), 31 077 Toulouse, France
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4
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Taylor RW, Holler C, Mahmoodabadi RG, Küppers M, Dastjerdi HM, Zaburdaev V, Schambony A, Sandoghdar V. High-Precision Protein-Tracking With Interferometric Scattering Microscopy. Front Cell Dev Biol 2020; 8:590158. [PMID: 33224953 PMCID: PMC7669747 DOI: 10.3389/fcell.2020.590158] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2020] [Accepted: 10/05/2020] [Indexed: 01/01/2023] Open
Abstract
The mobility of proteins and lipids within the cell, sculpted oftentimes by the organization of the membrane, reveals a great wealth of information on the function and interaction of these molecules as well as the membrane itself. Single particle tracking has proven to be a vital tool to study the mobility of individual molecules and unravel details of their behavior. Interferometric scattering (iSCAT) microscopy is an emerging technique well-suited for visualizing the diffusion of gold nanoparticle-labeled membrane proteins to a spatial and temporal resolution beyond the means of traditional fluorescent labels. We discuss the applicability of interferometric single particle tracking (iSPT) microscopy to investigate the minutia in the motion of a protein through measurements visualizing the mobility of the epidermal growth factor receptor in various biological scenarios on the live cell.
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Affiliation(s)
- Richard W Taylor
- Max Planck Institute for the Science of Light, Erlangen, Germany.,Max-Planck-Zentrum für Physik und Medizin, Erlangen, Germany
| | - Cornelia Holler
- Max Planck Institute for the Science of Light, Erlangen, Germany.,Max-Planck-Zentrum für Physik und Medizin, Erlangen, Germany
| | - Reza Gholami Mahmoodabadi
- Max Planck Institute for the Science of Light, Erlangen, Germany.,Max-Planck-Zentrum für Physik und Medizin, Erlangen, Germany
| | - Michelle Küppers
- Max Planck Institute for the Science of Light, Erlangen, Germany.,Max-Planck-Zentrum für Physik und Medizin, Erlangen, Germany.,Department of Physics, Friedrich Alexander University Erlangen-Nuremberg, Erlangen, Germany
| | - Houman Mirzaalian Dastjerdi
- Max Planck Institute for the Science of Light, Erlangen, Germany.,Max-Planck-Zentrum für Physik und Medizin, Erlangen, Germany.,Department of Computer Science, Friedrich Alexander University Erlangen-Nuremberg, Erlangen, Germany
| | - Vasily Zaburdaev
- Max-Planck-Zentrum für Physik und Medizin, Erlangen, Germany.,Department of Biology, Friedrich Alexander University Erlangen-Nuremberg, Erlangen, Germany
| | - Alexandra Schambony
- Max Planck Institute for the Science of Light, Erlangen, Germany.,Max-Planck-Zentrum für Physik und Medizin, Erlangen, Germany.,Department of Biology, Friedrich Alexander University Erlangen-Nuremberg, Erlangen, Germany
| | - Vahid Sandoghdar
- Max Planck Institute for the Science of Light, Erlangen, Germany.,Max-Planck-Zentrum für Physik und Medizin, Erlangen, Germany.,Department of Physics, Friedrich Alexander University Erlangen-Nuremberg, Erlangen, Germany
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5
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Peckys DB, Quint C, Jonge ND. Determining the Efficiency of Single Molecule Quantum Dot Labeling of HER2 in Breast Cancer Cells. NANO LETTERS 2020; 20:7948-7955. [PMID: 33034459 DOI: 10.1021/acs.nanolett.0c02644] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
Quantum dots exhibit unique properties compared to other fluorophores, such as bright fluorescence and lack of photobleaching, resulting in their widespread utilization as fluorescent protein labels in the life sciences. However, their application is restricted to relative quantifications due to lacking knowledge about the labeling efficiency. We here present a strategy for determining the labeling efficiency of quantum dot labeling of HER2 in overexpressing breast cancer cells. Correlative light- and liquid-phase electron microscopy of whole cells was used to convert fluorescence intensities into the underlying molecular densities of the quantum dots. The labeling procedure with small affinity proteins was optimized yielding a maximal labeling efficiency of 83%, which was applicable to the high amount of ∼1.5 × 106 HER2 per cell. With the labeling efficiency known, it is now possible to derive the absolute protein expression levels in the plasma membrane and its variation within a cell and between cells.
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Affiliation(s)
- Diana B Peckys
- Molecular Biophysics, Center for Integrative Physiology and Molecular Medicine, Saarland University, 66421 Homburg, Germany
| | - Cedric Quint
- Department of Physics, Saarland University, 66123 Saarbrücken, Germany
| | - Niels de Jonge
- Department of Physics, Saarland University, 66123 Saarbrücken, Germany
- INM - Leibniz Institute for New Materials, 66123 Saarbrücken, Germany
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6
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Revealing Plasma Membrane Nano-Domains with Diffusion Analysis Methods. MEMBRANES 2020; 10:membranes10110314. [PMID: 33138102 PMCID: PMC7693849 DOI: 10.3390/membranes10110314] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/01/2020] [Revised: 10/26/2020] [Accepted: 10/26/2020] [Indexed: 12/18/2022]
Abstract
Nano-domains are sub-light-diffraction-sized heterogeneous areas in the plasma membrane of cells, which are involved in cell signalling and membrane trafficking. Throughout the last thirty years, these nano-domains have been researched extensively and have been the subject of multiple theories and models: the lipid raft theory, the fence model, and the protein oligomerization theory. Strong evidence exists for all of these, and consequently they were combined into a hierarchal model. Measurements of protein and lipid diffusion coefficients and patterns have been instrumental in plasma membrane research and by extension in nano-domain research. This has led to the development of multiple methodologies that can measure diffusion and confinement parameters including single particle tracking, fluorescence correlation spectroscopy, image correlation spectroscopy and fluorescence recovery after photobleaching. Here we review the performance and strengths of these methods in the context of their use in identification and characterization of plasma membrane nano-domains.
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7
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Directed manipulation of membrane proteins by fluorescent magnetic nanoparticles. Nat Commun 2020; 11:4259. [PMID: 32848156 PMCID: PMC7450064 DOI: 10.1038/s41467-020-18087-3] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/14/2020] [Accepted: 08/04/2020] [Indexed: 01/19/2023] Open
Abstract
The plasma membrane is the interface through which cells interact with their environment. Membrane proteins are embedded in the lipid bilayer of the plasma membrane and their function in this context is often linked to their specific location and dynamics within the membrane. However, few methods are available to manipulate membrane protein location at the single-molecule level. Here, we use fluorescent magnetic nanoparticles (FMNPs) to track membrane molecules and to control their movement. FMNPs allow single-particle tracking (SPT) at 10 nm and 5 ms spatiotemporal resolution, and using a magnetic needle, we pull membrane components laterally with femtonewton-range forces. In this way, we drag membrane proteins over the surface of living cells. Doing so, we detect barriers which we could localize to the submembrane actin cytoskeleton by super-resolution microscopy. We present here a versatile approach to probe membrane processes in live cells via the magnetic control of membrane protein motion. Membrane proteins are embedded in the lipid bilayer of the plasma membrane and their function in this context is often linked to their specific location and dynamics within the membrane. Here authors report the use of fluorescent magnetic nanoparticles to track membrane molecules and to manipulate their movement and pull membrane components laterally through the membrane with femtonewton-range forces.
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8
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9
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Liu YL, Horning AM, Lieberman B, Kim M, Lin CK, Hung CN, Chou CW, Wang CM, Lin CL, Kirma NB, Liss MA, Vasisht R, Perillo EP, Blocher K, Horng H, Taverna JA, Ruan J, Yankeelov TE, Dunn AK, Huang THM, Yeh HC, Chen CL. Spatial EGFR Dynamics and Metastatic Phenotypes Modulated by Upregulated EphB2 and Src Pathways in Advanced Prostate Cancer. Cancers (Basel) 2019; 11:cancers11121910. [PMID: 31805710 PMCID: PMC6966510 DOI: 10.3390/cancers11121910] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/04/2019] [Revised: 11/23/2019] [Accepted: 11/26/2019] [Indexed: 12/21/2022] Open
Abstract
Advanced prostate cancer is a very heterogeneous disease reflecting in diverse regulations of oncogenic signaling pathways. Aberrant spatial dynamics of epidermal growth factor receptor (EGFR) promote their dimerization and clustering, leading to constitutive activation in oncogenesis. The EphB2 and Src signaling pathways are associated with the reorganization of the cytoskeleton leading to malignancy, but their roles in regulating EGFR dynamics and activation are scarcely reported. Using single-particle tracking techniques, we found that highly phosphorylated EGFR in the advanced prostate cancer cell line, PC3, was associated with higher EGFR diffusivity, as compared with LNCaP and less aggressive DU145. The increased EGFR activation and biophysical dynamics were consistent with high proliferation, migration, and invasion. After performing single-cell RNA-seq on prostate cancer cell lines and circulating tumor cells from patients, we identified that upregulated gene expression in the EphB2 and Src pathways are associated with advanced malignancy. After dasatinib treatment or siRNA knockdowns of EphB2 or Src, the PC3 cells exhibited significantly lower EGFR dynamics, cell motility, and invasion. Partial inhibitory effects were also found in DU145 cells. The upregulation of parts of the EphB2 and Src pathways also predicts poor prognosis in the prostate cancer patient cohort of The Cancer Genome Atlas. Our results provide evidence that overexpression of the EphB2 and Src signaling pathways regulate EGFR dynamics and cellular aggressiveness in some advanced prostate cancer cells.
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Affiliation(s)
- Yen-Liang Liu
- Graduate Institute of Biomedical Sciences, China Medical University, Taichung 404, Taiwan;
- Department of Biomedical Engineering, University of Texas at Austin, 107 W. Dean Keeton, BME Building, Austin, TX 78712, USA; (M.K.); (R.V.); (E.P.P.); (K.B.); (T.E.Y.); (A.K.D.)
| | - Aaron M. Horning
- Department of Molecular Medicine, Mays Cancer Center, University of Texas Health Science Center, 8210 Floyd Curl Drive, Mail code: 8257, San Antonio, TX 78229, USA; (A.M.H.); (C.-K.L.); (C.-N.H.); (C.-W.C.); (C.-M.W.); (C.-L.L.); (N.B.K.); (T.H.-M.H.)
| | - Brandon Lieberman
- Department of Biology, Trinity University, San Antonio, TX 78212, USA;
| | - Mirae Kim
- Department of Biomedical Engineering, University of Texas at Austin, 107 W. Dean Keeton, BME Building, Austin, TX 78712, USA; (M.K.); (R.V.); (E.P.P.); (K.B.); (T.E.Y.); (A.K.D.)
| | - Che-Kuang Lin
- Department of Molecular Medicine, Mays Cancer Center, University of Texas Health Science Center, 8210 Floyd Curl Drive, Mail code: 8257, San Antonio, TX 78229, USA; (A.M.H.); (C.-K.L.); (C.-N.H.); (C.-W.C.); (C.-M.W.); (C.-L.L.); (N.B.K.); (T.H.-M.H.)
| | - Chia-Nung Hung
- Department of Molecular Medicine, Mays Cancer Center, University of Texas Health Science Center, 8210 Floyd Curl Drive, Mail code: 8257, San Antonio, TX 78229, USA; (A.M.H.); (C.-K.L.); (C.-N.H.); (C.-W.C.); (C.-M.W.); (C.-L.L.); (N.B.K.); (T.H.-M.H.)
| | - Chih-Wei Chou
- Department of Molecular Medicine, Mays Cancer Center, University of Texas Health Science Center, 8210 Floyd Curl Drive, Mail code: 8257, San Antonio, TX 78229, USA; (A.M.H.); (C.-K.L.); (C.-N.H.); (C.-W.C.); (C.-M.W.); (C.-L.L.); (N.B.K.); (T.H.-M.H.)
| | - Chiou-Miin Wang
- Department of Molecular Medicine, Mays Cancer Center, University of Texas Health Science Center, 8210 Floyd Curl Drive, Mail code: 8257, San Antonio, TX 78229, USA; (A.M.H.); (C.-K.L.); (C.-N.H.); (C.-W.C.); (C.-M.W.); (C.-L.L.); (N.B.K.); (T.H.-M.H.)
| | - Chun-Lin Lin
- Department of Molecular Medicine, Mays Cancer Center, University of Texas Health Science Center, 8210 Floyd Curl Drive, Mail code: 8257, San Antonio, TX 78229, USA; (A.M.H.); (C.-K.L.); (C.-N.H.); (C.-W.C.); (C.-M.W.); (C.-L.L.); (N.B.K.); (T.H.-M.H.)
| | - Nameer B. Kirma
- Department of Molecular Medicine, Mays Cancer Center, University of Texas Health Science Center, 8210 Floyd Curl Drive, Mail code: 8257, San Antonio, TX 78229, USA; (A.M.H.); (C.-K.L.); (C.-N.H.); (C.-W.C.); (C.-M.W.); (C.-L.L.); (N.B.K.); (T.H.-M.H.)
| | - Michael A. Liss
- Department of Urology, University of Texas Health Science Center, San Antonio, TX 78229, USA;
| | - Rohan Vasisht
- Department of Biomedical Engineering, University of Texas at Austin, 107 W. Dean Keeton, BME Building, Austin, TX 78712, USA; (M.K.); (R.V.); (E.P.P.); (K.B.); (T.E.Y.); (A.K.D.)
| | - Evan P. Perillo
- Department of Biomedical Engineering, University of Texas at Austin, 107 W. Dean Keeton, BME Building, Austin, TX 78712, USA; (M.K.); (R.V.); (E.P.P.); (K.B.); (T.E.Y.); (A.K.D.)
| | - Katherine Blocher
- Department of Biomedical Engineering, University of Texas at Austin, 107 W. Dean Keeton, BME Building, Austin, TX 78712, USA; (M.K.); (R.V.); (E.P.P.); (K.B.); (T.E.Y.); (A.K.D.)
| | - Hannah Horng
- Department of Bioengineering, the University of Maryland, College Park, MD 20742, USA;
| | - Josephine A. Taverna
- Department of Medicine, Mays Cancer Center, University of Texas Health Science Center, San Antonio, TX 78229, USA;
| | - Jianhua Ruan
- Department of Computer Science, University of Texas at San Antonio, San Antonio, TX 78249, USA;
| | - Thomas E. Yankeelov
- Department of Biomedical Engineering, University of Texas at Austin, 107 W. Dean Keeton, BME Building, Austin, TX 78712, USA; (M.K.); (R.V.); (E.P.P.); (K.B.); (T.E.Y.); (A.K.D.)
- Institute for Computational Engineering and Sciences, University of Texas at Austin, Austin, TX 78712, USA
- Department of Diagnostic Medicine, Dell Medical School, University of Texas at Austin, Austin, TX 78712, USA
- Department of Oncology, Dell Medical School, University of Texas at Austin, Austin, TX 78712, USA
- Livestrong Cancer Institutes, University of Texas at Austin, Austin, TX 78712, USA
| | - Andrew K. Dunn
- Department of Biomedical Engineering, University of Texas at Austin, 107 W. Dean Keeton, BME Building, Austin, TX 78712, USA; (M.K.); (R.V.); (E.P.P.); (K.B.); (T.E.Y.); (A.K.D.)
| | - Tim H.-M. Huang
- Department of Molecular Medicine, Mays Cancer Center, University of Texas Health Science Center, 8210 Floyd Curl Drive, Mail code: 8257, San Antonio, TX 78229, USA; (A.M.H.); (C.-K.L.); (C.-N.H.); (C.-W.C.); (C.-M.W.); (C.-L.L.); (N.B.K.); (T.H.-M.H.)
| | - Hsin-Chih Yeh
- Department of Biomedical Engineering, University of Texas at Austin, 107 W. Dean Keeton, BME Building, Austin, TX 78712, USA; (M.K.); (R.V.); (E.P.P.); (K.B.); (T.E.Y.); (A.K.D.)
- Texas Materials Institute, University of Texas at Austin, Austin, TX 78712, USA
- Correspondence: (H.-C.Y.); (C.-L.C.); Tel.: +1-512-471-7931 (H.-C.Y.); +1-210-562-4143 (C.-L.C.); Fax: +1-512-471-0616 (H.-C.Y.); +1-210-562-4161 (C.-L.C.)
| | - Chun-Liang Chen
- Department of Molecular Medicine, Mays Cancer Center, University of Texas Health Science Center, 8210 Floyd Curl Drive, Mail code: 8257, San Antonio, TX 78229, USA; (A.M.H.); (C.-K.L.); (C.-N.H.); (C.-W.C.); (C.-M.W.); (C.-L.L.); (N.B.K.); (T.H.-M.H.)
- Correspondence: (H.-C.Y.); (C.-L.C.); Tel.: +1-512-471-7931 (H.-C.Y.); +1-210-562-4143 (C.-L.C.); Fax: +1-512-471-0616 (H.-C.Y.); +1-210-562-4161 (C.-L.C.)
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10
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Yu Y, Li M, Yu Y. Tracking Single Molecules in Biomembranes: Is Seeing Always Believing? ACS NANO 2019; 13:10860-10868. [PMID: 31589406 PMCID: PMC7179047 DOI: 10.1021/acsnano.9b07445] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/05/2023]
Abstract
The spatial organization of molecules in cell membranes and their dynamic interactions play a central role in regulating cell functions. Single-particle tracking (SPT), a technique in which single molecules are imaged and tracked in real time, has led to breakthrough discoveries regarding these spatiotemporal complexities of cell membranes. There are, however, emerging concerns about factors that might produce misleading interpretations of SPT results. Here, we briefly review the application of SPT to understanding the nanoscale heterogeneities of plasma membranes, with a focus on the unique challenges, pitfalls, and limitations that confront the use of nanoparticles as imaging probes for tracking the dynamics of single molecules in cell membranes.
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11
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Pinkwart K, Schneider F, Lukoseviciute M, Sauka-Spengler T, Lyman E, Eggeling C, Sezgin E. Nanoscale dynamics of cholesterol in the cell membrane. J Biol Chem 2019; 294:12599-12609. [PMID: 31270209 PMCID: PMC6709632 DOI: 10.1074/jbc.ra119.009683] [Citation(s) in RCA: 32] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/07/2019] [Revised: 06/26/2019] [Indexed: 12/22/2022] Open
Abstract
Cholesterol constitutes ∼30-40% of the mammalian plasma membrane, a larger fraction than of any other single component. It is a major player in numerous signaling processes as well as in shaping molecular membrane architecture. However, our knowledge of the dynamics of cholesterol in the plasma membrane is limited, restricting our understanding of the mechanisms regulating its involvement in cell signaling. Here, we applied advanced fluorescence imaging and spectroscopy approaches on in vitro (model membranes) and in vivo (live cells and embryos) membranes as well as in silico analysis to systematically study the nanoscale dynamics of cholesterol in biological membranes. Our results indicate that cholesterol diffuses faster than phospholipids in live membranes, but not in model membranes. Interestingly, a detailed statistical diffusion analysis suggested two-component diffusion for cholesterol in the plasma membrane of live cells. One of these components was similar to a freely diffusing phospholipid analogue, whereas the other one was significantly faster. When a cholesterol analogue was localized to the outer leaflet only, the fast diffusion of cholesterol disappeared, and it diffused similarly to phospholipids. Overall, our results suggest that cholesterol diffusion in the cell membrane is heterogeneous and that this diffusional heterogeneity is due to cholesterol's nanoscale interactions and localization in the membrane.
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Affiliation(s)
- Kerstin Pinkwart
- MRC Human Immunology Unit, MRC Weatherall Institute of Molecular Medicine, University of Oxford, Oxford OX3 9DS, United Kingdom
| | - Falk Schneider
- MRC Human Immunology Unit, MRC Weatherall Institute of Molecular Medicine, University of Oxford, Oxford OX3 9DS, United Kingdom
| | - Martyna Lukoseviciute
- Radcliffe Department of Medicine, Weatherall Institute of Molecular Medicine, University of Oxford, Oxford OX3 9DS, United Kingdom
| | - Tatjana Sauka-Spengler
- Radcliffe Department of Medicine, Weatherall Institute of Molecular Medicine, University of Oxford, Oxford OX3 9DS, United Kingdom
| | - Edward Lyman
- Departments of Physics and Astronomy and Chemistry and Biochemistry, University of Delaware, Newark, Delaware 19716
| | - Christian Eggeling
- MRC Human Immunology Unit, MRC Weatherall Institute of Molecular Medicine, University of Oxford, Oxford OX3 9DS, United Kingdom.,Institute of Applied Optics and Biophysics, Friedrich-Schiller-University Jena, Max-Wien Platz 4, 07743 Jena, Germany.,Leibniz Institute of Photonic Technology e.V., Albert-Einstein-Straße 9, 07745 Jena, Germany
| | - Erdinc Sezgin
- MRC Human Immunology Unit, MRC Weatherall Institute of Molecular Medicine, University of Oxford, Oxford OX3 9DS, United Kingdom
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12
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Gmachowski L. Biomolecule displacement by Brownian step. Colloids Surf A Physicochem Eng Asp 2019. [DOI: 10.1016/j.colsurfa.2019.02.014] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
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13
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Liu YL, Chou CK, Kim M, Vasisht R, Kuo YA, Ang P, Liu C, Perillo EP, Chen YA, Blocher K, Horng H, Chen YI, Nguyen DT, Yankeelov TE, Hung MC, Dunn AK, Yeh HC. Assessing metastatic potential of breast cancer cells based on EGFR dynamics. Sci Rep 2019; 9:3395. [PMID: 30833579 PMCID: PMC6399327 DOI: 10.1038/s41598-018-37625-0] [Citation(s) in RCA: 35] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/15/2018] [Accepted: 11/22/2018] [Indexed: 01/05/2023] Open
Abstract
Derailed transmembrane receptor trafficking could be a hallmark of tumorigenesis and increased tumor invasiveness, but receptor dynamics have not been used to differentiate metastatic cancer cells from less invasive ones. Using single-particle tracking techniques, we developed a phenotyping asssay named Transmembrane Receptor Dynamics (TReD), studied the dynamics of epidermal growth factor receptor (EGFR) in seven breast epithelial cell lines and developed a phenotyping assay named Transmembrane Receptor Dynamics (TReD). Here we show a clear evidence that increased EGFR diffusivity and enlarged EGFR confinement size in the plasma membrane (PM) are correlated with the enhanced metastatic potential in these cell lines. By comparing the TReD results with the gene expression profiles, we found a clear negative correlation between the EGFR diffusivities and the breast cancer luminal differentiation scores (r = -0.75). Upon the induction of epithelial-mesenchymal transition (EMT), EGFR diffusivity significantly increased for the non-tumorigenic MCF10A (99%) and the non-invasive MCF7 (56%) cells, but not for the highly metastatic MDA-MB-231 cell. We believe that the reorganization of actin filaments during EMT modified the PM structures, causing the receptor dynamics to change. TReD can thus serve as a new biophysical marker to probe the metastatic potential of cancer cells and even to monitor the transition of metastasis.
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Affiliation(s)
- Yen-Liang Liu
- Department of Biomedical Engineering, The University of Texas at Austin, Austin, TX, USA
| | - Chao-Kai Chou
- Department of Molecular and Cellular Oncology, The University of Texas MD Anderson Cancer Center, Houston, TX, USA
| | - Mirae Kim
- Department of Biomedical Engineering, The University of Texas at Austin, Austin, TX, USA
| | - Rohan Vasisht
- Department of Biomedical Engineering, The University of Texas at Austin, Austin, TX, USA
| | - Yu-An Kuo
- Department of Biomedical Engineering, The University of Texas at Austin, Austin, TX, USA
| | - Phyllis Ang
- Department of Electrical and Computer Engineering, The University of Texas at Austin, Austin, TX, USA
| | - Cong Liu
- Department of Biomedical Engineering, The University of Texas at Austin, Austin, TX, USA
| | - Evan P Perillo
- Department of Biomedical Engineering, The University of Texas at Austin, Austin, TX, USA
| | - Yu-An Chen
- Department of Biomedical Engineering, The University of Texas at Austin, Austin, TX, USA
| | - Katherine Blocher
- Department of Biomedical Engineering, The University of Texas at Austin, Austin, TX, USA
| | - Hannah Horng
- Department of Bioengineering, The University of Maryland, College Park, MD, USA
| | - Yuan-I Chen
- Department of Biomedical Engineering, The University of Texas at Austin, Austin, TX, USA
| | - Duc Trung Nguyen
- Department of Biomedical Engineering, The University of Texas at Austin, Austin, TX, USA
| | - Thomas E Yankeelov
- Department of Biomedical Engineering, The University of Texas at Austin, Austin, TX, USA
- Institute for Computational Engineering and Sciences, The University of Texas, Austin, TX, USA
- Department of Diagnostic Medicine, Dell Medical School, The University of Texas at Austin, Austin, TX, USA
- Department of Oncology, Dell Medical School, The University of Texas at Austin, Austin, TX, USA
- Livestrong Cancer Institutes, The University of Texas at Austin, Austin, Texas, USA
| | - Mien-Chie Hung
- Department of Molecular and Cellular Oncology, The University of Texas MD Anderson Cancer Center, Houston, TX, USA
- Center for Molecular Medicine and Graduate Institute of Cancer Biology, China Medical University, Taichung, Taiwan
| | - Andrew K Dunn
- Department of Biomedical Engineering, The University of Texas at Austin, Austin, TX, USA
| | - Hsin-Chih Yeh
- Department of Biomedical Engineering, The University of Texas at Austin, Austin, TX, USA.
- Texas Materials Institute, The University of Texas at Austin, Austin, TX, USA.
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14
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Arnspang EC, Sengupta P, Mortensen KI, Jensen HH, Hahn U, Jensen EBV, Lippincott-Schwartz J, Nejsum LN. Regulation of Plasma Membrane Nanodomains of the Water Channel Aquaporin-3 Revealed by Fixed and Live Photoactivated Localization Microscopy. NANO LETTERS 2019; 19:699-707. [PMID: 30584808 DOI: 10.1021/acs.nanolett.8b03721] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/09/2023]
Abstract
Several aquaporin (AQP) water channels are short-term regulated by the messenger cyclic adenosine monophosphate (cAMP), including AQP3. Bulk measurements show that cAMP can change diffusive properties of AQP3; however, it remains unknown how elevated cAMP affects AQP3 organization at the nanoscale. Here we analyzed AQP3 nano-organization following cAMP stimulation using photoactivated localization microscopy (PALM) of fixed cells combined with pair correlation analysis. Moreover, in live cells, we combined PALM acquisitions of single fluorophores with single-particle tracking (spt-PALM). These analyses revealed that AQP3 tends to cluster and that the diffusive mobility is confined to nanodomains with radii of ∼150 nm. This domain size increases by ∼30% upon elevation of cAMP, which, however, is not accompanied by a significant increase in the confined diffusion coefficient. This regulation of AQP3 organization at the nanoscale may be important for understanding the mechanisms of water AQP3-mediated water transport across plasma membranes.
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Affiliation(s)
- Eva C Arnspang
- Department of Clinical Medicine , Aarhus University Aarhus DK-8000 , Denmark
- Interdisciplinary Nanoscience Center (iNANO) , Aarhus University , Aarhus DK-8000 , Denmark
- The Eunice Kennedy Shriver National Institute of Child Health and Human Development , National Institutes of Health , Bethesda , Maryland 20892 , United States
- Department of Chemical Engineering, Biotechnology and Environmental Technology , University of Southern Denmark , Odense M DK-5230 , Denmark
| | - Prabuddha Sengupta
- The Eunice Kennedy Shriver National Institute of Child Health and Human Development , National Institutes of Health , Bethesda , Maryland 20892 , United States
- Janelia Research Campus , Ashburn , Virginia 20147 , United States
| | - Kim I Mortensen
- Department of Micro- and Nanotechnology , Technical University of Denmark , Kongens Lyngby DK-2800 , Denmark
| | - Helene H Jensen
- Department of Clinical Medicine , Aarhus University Aarhus DK-8000 , Denmark
- Department of Molecular Biology and Genetics , Aarhus University , Aarhus DK-8000 , Denmark
| | - Ute Hahn
- Department of Mathematics , Aarhus University , Aarhus DK-8000 , Denmark
| | - Eva B V Jensen
- Department of Mathematics , Aarhus University , Aarhus DK-8000 , Denmark
| | - Jennifer Lippincott-Schwartz
- The Eunice Kennedy Shriver National Institute of Child Health and Human Development , National Institutes of Health , Bethesda , Maryland 20892 , United States
- Janelia Research Campus , Ashburn , Virginia 20147 , United States
| | - Lene N Nejsum
- Department of Clinical Medicine , Aarhus University Aarhus DK-8000 , Denmark
- Interdisciplinary Nanoscience Center (iNANO) , Aarhus University , Aarhus DK-8000 , Denmark
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15
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Xie J, Mei L, Sun Y, Yong X, Han N, Dai J, Yang X, Ruan G. Direct and Noninvasive Penetration of Bare Hydrophobic Quantum Dots through Live Cell Membranes. ACS Biomater Sci Eng 2019; 5:468-477. [PMID: 33405812 DOI: 10.1021/acsbiomaterials.8b01246] [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] [Indexed: 11/28/2022]
Abstract
Semiconductor quantum dots (QDs) possess outstanding optical properties as fluorescent probes, but their applications in live cell intracellular imaging are hindered by various cellular transport barriers. Inspired by membrane proteins inserting their nanometer-scale hydrophobic surface into biomembranes, the present work aims to investigate the possibility that bare hydrophobic QDs could penetrate through live cell membranes without disrupting the membrane integrity. We utilize live cell spinning disk confocal microscopy to image and track the cellular transport process of bare hydrophobic QDs in the presence of a small percentage of three different organic cosolvents, namely, tetrahydrofuran (THF), chloroform, and hexane. A major finding is that, under certain cosolvent conditions, bare hydrophobic QDs can indeed penetrate through biomembranes in a noninvasive manner. Results of this work offer us guidance to design a new class of nanobioprobes based on combining hydrophobic nanoscale surface and cosolvent, and they provide key new pieces to the emerging complex and sophisticated picture of nanostructure-biosystem interactions.
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Affiliation(s)
- Jinbing Xie
- Department of Biomedical Engineering, College of Engineering and Applied Sciences, Nanjing University, 16 Jinyin Street, Nanjing, Jiangsu 210093, China.,Institute of Materials Engineering, College of Engineering and Applied Sciences, Nanjing University, 16 Jinyin Street, Nanjing, Jiangsu 210093, China.,Collaborative Innovation Center of Chemistry for Life Sciences, Nanjing University, 163 Xianlin Road, Nanjing, Jiangsu, 210023 China
| | - Ling Mei
- Department of Biomedical Engineering, College of Engineering and Applied Sciences, Nanjing University, 16 Jinyin Street, Nanjing, Jiangsu 210093, China.,Institute of Materials Engineering, College of Engineering and Applied Sciences, Nanjing University, 16 Jinyin Street, Nanjing, Jiangsu 210093, China.,Collaborative Innovation Center of Chemistry for Life Sciences, Nanjing University, 163 Xianlin Road, Nanjing, Jiangsu, 210023 China
| | - Yuxiang Sun
- Department of Biomedical Engineering, College of Engineering and Applied Sciences, Nanjing University, 16 Jinyin Street, Nanjing, Jiangsu 210093, China.,Institute of Materials Engineering, College of Engineering and Applied Sciences, Nanjing University, 16 Jinyin Street, Nanjing, Jiangsu 210093, China.,Collaborative Innovation Center of Chemistry for Life Sciences, Nanjing University, 163 Xianlin Road, Nanjing, Jiangsu, 210023 China
| | - Xueqing Yong
- Department of Biomedical Engineering, College of Engineering and Applied Sciences, Nanjing University, 16 Jinyin Street, Nanjing, Jiangsu 210093, China.,Institute of Materials Engineering, College of Engineering and Applied Sciences, Nanjing University, 16 Jinyin Street, Nanjing, Jiangsu 210093, China.,Collaborative Innovation Center of Chemistry for Life Sciences, Nanjing University, 163 Xianlin Road, Nanjing, Jiangsu, 210023 China
| | - Ning Han
- Department of Biomedical Engineering, College of Engineering and Applied Sciences, Nanjing University, 16 Jinyin Street, Nanjing, Jiangsu 210093, China.,Institute of Materials Engineering, College of Engineering and Applied Sciences, Nanjing University, 16 Jinyin Street, Nanjing, Jiangsu 210093, China.,Collaborative Innovation Center of Chemistry for Life Sciences, Nanjing University, 163 Xianlin Road, Nanjing, Jiangsu, 210023 China
| | - Jie Dai
- Department of Biomedical Engineering, College of Engineering and Applied Sciences, Nanjing University, 16 Jinyin Street, Nanjing, Jiangsu 210093, China.,Institute of Materials Engineering, College of Engineering and Applied Sciences, Nanjing University, 16 Jinyin Street, Nanjing, Jiangsu 210093, China.,Collaborative Innovation Center of Chemistry for Life Sciences, Nanjing University, 163 Xianlin Road, Nanjing, Jiangsu, 210023 China
| | - Xuan Yang
- Department of Biomedical Engineering, College of Engineering and Applied Sciences, Nanjing University, 16 Jinyin Street, Nanjing, Jiangsu 210093, China.,Institute of Materials Engineering, College of Engineering and Applied Sciences, Nanjing University, 16 Jinyin Street, Nanjing, Jiangsu 210093, China.,Collaborative Innovation Center of Chemistry for Life Sciences, Nanjing University, 163 Xianlin Road, Nanjing, Jiangsu, 210023 China
| | - Gang Ruan
- Department of Biomedical Engineering, College of Engineering and Applied Sciences, Nanjing University, 16 Jinyin Street, Nanjing, Jiangsu 210093, China.,Institute of Materials Engineering, College of Engineering and Applied Sciences, Nanjing University, 16 Jinyin Street, Nanjing, Jiangsu 210093, China.,Collaborative Innovation Center of Chemistry for Life Sciences, Nanjing University, 163 Xianlin Road, Nanjing, Jiangsu, 210023 China
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16
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Zhang LJ, Xia L, Xie HY, Zhang ZL, Pang DW. Quantum Dot Based Biotracking and Biodetection. Anal Chem 2018; 91:532-547. [DOI: 10.1021/acs.analchem.8b04721] [Citation(s) in RCA: 43] [Impact Index Per Article: 7.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
Affiliation(s)
- Li-Juan Zhang
- Key Laboratory of Analytical Chemistry for Biology and Medicine (Ministry of Education), College of Chemistry and Molecular Sciences, State Key Laboratory of Virology, The Institute for Advanced Studies, and Wuhan Institute of Biotechnology, Wuhan University, Luojia Hill, Wuhan 430072, P.R. China
| | - Li Xia
- Key Laboratory of Analytical Chemistry for Biology and Medicine (Ministry of Education), College of Chemistry and Molecular Sciences, State Key Laboratory of Virology, The Institute for Advanced Studies, and Wuhan Institute of Biotechnology, Wuhan University, Luojia Hill, Wuhan 430072, P.R. China
| | - Hai-Yan Xie
- School of Life Science, Beijing Institute of Technology, Beijing 100081, P.R. China
| | - Zhi-Ling Zhang
- Key Laboratory of Analytical Chemistry for Biology and Medicine (Ministry of Education), College of Chemistry and Molecular Sciences, State Key Laboratory of Virology, The Institute for Advanced Studies, and Wuhan Institute of Biotechnology, Wuhan University, Luojia Hill, Wuhan 430072, P.R. China
| | - Dai-Wen Pang
- Key Laboratory of Analytical Chemistry for Biology and Medicine (Ministry of Education), College of Chemistry and Molecular Sciences, State Key Laboratory of Virology, The Institute for Advanced Studies, and Wuhan Institute of Biotechnology, Wuhan University, Luojia Hill, Wuhan 430072, P.R. China
- College of Chemistry, Nankai University, 94 Weijin Road, Tianjin 300071, P.R. China
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17
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Slator PJ, Burroughs NJ. A Hidden Markov Model for Detecting Confinement in Single-Particle Tracking Trajectories. Biophys J 2018; 115:1741-1754. [PMID: 30274829 PMCID: PMC6226389 DOI: 10.1016/j.bpj.2018.09.005] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/27/2018] [Revised: 07/20/2018] [Accepted: 09/04/2018] [Indexed: 01/08/2023] Open
Abstract
State-of-the-art single-particle tracking (SPT) techniques can generate long trajectories with high temporal and spatial resolution. This offers the possibility of mechanistically interpreting particle movements and behavior in membranes. To this end, a number of statistical techniques have been developed that partition SPT trajectories into states with distinct diffusion signatures, allowing a statistical analysis of diffusion state dynamics and switching behavior. Here, we develop a confinement model, within a hidden Markov framework, that switches between phases of free diffusion and confinement in a harmonic potential well. By using a Markov chain Monte Carlo algorithm to fit this model, automated partitioning of individual SPT trajectories into these two phases is achieved, which allows us to analyze confinement events. We demonstrate the utility of this algorithm on a previously published interferometric scattering microscopy data set, in which gold-nanoparticle-tagged ganglioside GM1 lipids were tracked in model membranes. We performed a comprehensive analysis of confinement events, demonstrating that there is heterogeneity in the lifetime, shape, and size of events, with confinement size and shape being highly conserved within trajectories. Our observations suggest that heterogeneity in confinement events is caused by both individual nanoparticle characteristics and the binding-site environment. The individual nanoparticle heterogeneity ultimately limits the ability of interferometric scattering microscopy to resolve molecule dynamics to the order of the tag size; homogeneous tags could potentially allow the resolution to be taken below this limit by deconvolution methods. In a wider context, the presented harmonic potential well confinement model has the potential to detect and characterize a wide variety of biological phenomena, such as hop diffusion, receptor clustering, and lipid rafts.
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Affiliation(s)
- Paddy J Slator
- Centre for Medical Image Computing and Department of Computer Science, University College London, London, United Kingdom; Systems Biology Doctoral Training Centre, University of Warwick, Coventry, United Kingdom
| | - Nigel J Burroughs
- Mathematics Institute, University of Warwick, Coventry, United Kingdom.
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18
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Kovtun O, Tomlinson ID, Bailey DM, Thal LB, Ross EJ, Harris L, Frankland MP, Ferguson RS, Glaser Z, Greer J, Rosenthal SJ. Single Quantum Dot Tracking Illuminates Neuroscience at the Nanoscale. Chem Phys Lett 2018; 706:741-752. [PMID: 30270931 PMCID: PMC6157616 DOI: 10.1016/j.cplett.2018.06.019] [Citation(s) in RCA: 25] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
Abstract
The use of nanometer-sized semiconductor crystals, known as quantum dots, allows us to directly observe individual biomolecular transactions through a fluorescence microscope. Here, we review the evolution of single quantum dot tracking over the past two decades, highlight key biophysical discoveries facilitated by quantum dots, briefly discuss biochemical and optical implementation strategies for a single quantum dot tracking experiment, and report recent accomplishments of our group at the interface of molecular neuroscience and nanoscience.
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Affiliation(s)
- Oleg Kovtun
- Departments of Chemistry, Chemical Biology, Vanderbilt University
- Departments of Vanderbilt Institute of Nanoscale Science and Engineering
| | - Ian D. Tomlinson
- Departments of Chemistry, Chemical Biology, Vanderbilt University
- Departments of Vanderbilt Institute of Nanoscale Science and Engineering
| | - Danielle M. Bailey
- Departments of Chemistry, Chemical Biology, Vanderbilt University
- Departments of Pharmacology, Chemical Biology, Vanderbilt University
- Departments of Vanderbilt Institute of Nanoscale Science and Engineering
| | - Lucas B. Thal
- Departments of Chemistry, Chemical Biology, Vanderbilt University
- Departments of Vanderbilt Institute of Nanoscale Science and Engineering
- Departments of Vanderbilt Institute of Chemical Biology, Vanderbilt University, Nashville, TN
| | - Emily J. Ross
- Departments of Hudson Alpha Institute for Biotechnology, Huntsville, AL
| | - Lauren Harris
- Departments of Vanderbilt Institute of Chemical Biology, Vanderbilt University, Nashville, TN
| | | | | | - Zachary Glaser
- Departments of Chemistry, Chemical Biology, Vanderbilt University
| | - Jonathan Greer
- Departments of Chemistry, Chemical Biology, Vanderbilt University
| | - Sandra J. Rosenthal
- Departments of Chemistry, Chemical Biology, Vanderbilt University
- Departments of Pharmacology, Chemical Biology, Vanderbilt University
- Departments of Chemical and Biomolecular Engineering, Chemical Biology, Vanderbilt University
- Departments of Physics and Astronomy, Chemical Biology, Vanderbilt University
- Departments of Vanderbilt Institute of Nanoscale Science and Engineering
- Departments of Vanderbilt Institute of Chemical Biology, Vanderbilt University, Nashville, TN
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19
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Compartmentalization of the plasma membrane. Curr Opin Cell Biol 2018; 53:15-21. [PMID: 29656224 DOI: 10.1016/j.ceb.2018.04.002] [Citation(s) in RCA: 46] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/02/2018] [Revised: 04/03/2018] [Accepted: 04/04/2018] [Indexed: 11/23/2022]
Abstract
The compartmentalization of the plasma membrane is essential for cells to perform specialized biochemical functions, in particular those responsible for intracellular and intercellular signaling pathways. Study of membrane compartmentalization requires state-of-the-art imaging tools that can reveal dynamics of individual molecules with high spatial and temporal resolution. In addition, quantitative analyses are employed to identify transient changes in molecule dynamics. In this review, membrane compartments are classified as stable domains, transient compartments, or nanodomains where proteins aggregate. Interestingly, in most cases, the cortical cytoskeleton plays important roles. Recent studies of the membrane-cytoskeleton interface are providing new insights about membrane organization involving a scale-free self-similar fractal structure and cytoskeleton active processes coupled to membrane dynamics.
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20
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Alterations in the properties of the cell membrane due to glycosphingolipid accumulation in a model of Gaucher disease. Sci Rep 2018; 8:157. [PMID: 29317695 PMCID: PMC5760709 DOI: 10.1038/s41598-017-18405-8] [Citation(s) in RCA: 36] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/03/2017] [Accepted: 12/11/2017] [Indexed: 01/07/2023] Open
Abstract
Gaucher disease is a lysosomal storage disease characterized by the malfunction of glucocerebrosidase resulting in the accumulation of glucosylceramide and other sphingolipids in certain cells. Although the disease symptoms are usually attributed to the storage of undigested substrate in lysosomes, here we show that glycosphingolipids accumulating in the plasma membrane cause profound changes in the properties of the membrane. The fluidity of the sphingolipid-enriched membrane decreased accompanied by the enlargement of raft-like ordered membrane domains. The mobility of non-raft proteins and lipids was severely restricted, while raft-resident components were only mildly affected. The rate of endocytosis of transferrin receptor, a non-raft protein, was significantly retarded in Gaucher cells, while the endocytosis of the raft-associated GM1 ganglioside was unaffected. Interferon-γ-induced STAT1 phosphorylation was also significantly inhibited in Gaucher cells. Atomic force microscopy revealed that sphingolipid accumulation was associated with a more compliant membrane capable of producing an increased number of nanotubes. The results imply that glycosphingolipid accumulation in the plasma membrane has significant effects on membrane properties, which may be important in the pathogenesis of Gaucher disease.
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21
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Veerapathiran S, Wohland T. The imaging FCS diffusion law in the presence of multiple diffusive modes. Methods 2017; 140-141:140-150. [PMID: 29203404 DOI: 10.1016/j.ymeth.2017.11.016] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/15/2017] [Revised: 11/24/2017] [Accepted: 11/28/2017] [Indexed: 01/21/2023] Open
Abstract
The cellular plasma membrane is the barrier over which cells exchange materials and communicate with their surroundings, and thus plays the central role in cellular sensing and metabolism. Therefore, the investigation of plasma membrane organization and dynamics is required for understanding of cellular functions. The plasma membrane is a heterogeneous matrix. The presence of structures such as lipid and protein domains and the cytoskeleton meshwork poses a hindrance to the free diffusion of membrane associated biomolecules. However, these domains and the cytoskeleton meshwork barriers are below the optical diffraction limit with potentially short lifetimes and are not easily detected even in super-resolution microscopy. Therefore, dynamic measurements are often used to indirectly prove the existence of domains and barriers by analyzing the mode of diffusion of probe molecules. One of these tools is the Fluorescence Correlation Spectroscopy (FCS) diffusion law. The FCS diffusion law is a plot of diffusion time (τd) versus observation area. For at least three different diffusive modes - free, domain confined, and meshwork hindered hop diffusion - the expected plots have been characterized, typically by its y-intercept (τ0) when fit with a linear model, and have been verified in many cases. However, a description of τ0 has only been given for pure diffusive modes. But in many experimental cases it is not evident that a protein will undergo only one kind of diffusion, and thus the interpretation of the τ0 value is problematic. Here, we therefore address the question about the absolute value of τ0 in the case of complex diffusive modes, i.e. when either one molecule is domain confined and cytoskeleton hindered or when two molecules exhibit different diffusive behavior at the same position in a sample. In addition, we investigate how τ0 changes when the diffusive mode of a probe alters upon disruption of domains or the cytoskeleton by drug treatments. By a combination of experimental studies and simulations, we show that τ0 is not influenced equally by the different diffusive modes as typically found in cellular environments, and that it is the relative change of τ0 rather than its absolute value that provides information on the mode of diffusion.
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Affiliation(s)
- Sapthaswaran Veerapathiran
- Department of Biological Sciences and NUS Centre for Bio-Imaging Sciences, National University of Singapore, 14 Science Drive 4, 117557 Singapore, Singapore
| | - Thorsten Wohland
- Department of Biological Sciences and NUS Centre for Bio-Imaging Sciences, National University of Singapore, 14 Science Drive 4, 117557 Singapore, Singapore; Department of Chemistry, National University of Singapore, 3 Science Drive 3, 117543 Singapore, Singapore.
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22
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Bannai H. Molecular membrane dynamics: Insights into synaptic function and neuropathological disease. Neurosci Res 2017; 129:47-56. [PMID: 28826905 DOI: 10.1016/j.neures.2017.07.007] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/12/2017] [Revised: 07/14/2017] [Accepted: 07/26/2017] [Indexed: 11/19/2022]
Abstract
The fluid mosaic model states that molecules in the plasma membrane can freely undergo lateral diffusion; however, in neurons and glia, specific membrane molecules are concentrated in cellular microdomains to overcome the randomizing effects of free diffusion. This specialized distribution of membrane molecules is crucial for various cell functions; one example is the accumulation of neurotransmitter receptors at the postsynaptic neuronal membrane, which enables efficient synaptic transmission. Quantum dot-single particle tracking (QD-SPT) is a super-resolution imaging technique that uses semiconductor nanocrystal quantum dots as fluorescent probes, and is a powerful tool for analyzing protein and lipid behavior in the plasma membrane. In this article, we review studies implementing QD-SPT in neuroscience research and important data gleaned using this technology. Recent QD-SPT experiments have provided critical insights into the mechanism and physiological relevance of membrane self-organization in neurons and astrocytes in the brain. The mobility of some membrane molecules may become abnormal in cellular models of epilepsy and Alzheimer's disease. Based on these findings, we propose that the behavior of membrane molecules reflects the condition of neurons in pathological disease states.
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Affiliation(s)
- Hiroko Bannai
- Laboratory for Developmental Neurobiology, RIKEN Brain Science Institute (BSI), 2-1 Hirosawa, Wako, Saitama 351-0198, Japan; Japan Science and Technology Agency, PRESTO, 4-1-8 Honcho, Kawaguchi, Saitama 332-0012, Japan.
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23
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Sezgin E. Super-resolution optical microscopy for studying membrane structure and dynamics. JOURNAL OF PHYSICS. CONDENSED MATTER : AN INSTITUTE OF PHYSICS JOURNAL 2017; 29:273001. [PMID: 28481213 PMCID: PMC5952331 DOI: 10.1088/1361-648x/aa7185] [Citation(s) in RCA: 55] [Impact Index Per Article: 7.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/05/2023]
Abstract
Investigation of cell membrane structure and dynamics requires high spatial and temporal resolution. The spatial resolution of conventional light microscopy is limited due to the diffraction of light. However, recent developments in microscopy enabled us to access the nano-scale regime spatially, thus to elucidate the nanoscopic structures in the cellular membranes. In this review, we will explain the resolution limit, address the working principles of the most commonly used super-resolution microscopy techniques and summarise their recent applications in the biomembrane field.
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Affiliation(s)
- Erdinc Sezgin
- MRC Human Immunology Unit, Weatherall Institute of Molecular Medicine, University of Oxford, OX39DS, United Kingdom
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24
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Liu YL, Perillo EP, Liu C, Yu P, Chou CK, Hung MC, Dunn AK, Yeh HC. Segmentation of 3D Trajectories Acquired by TSUNAMI Microscope: An Application to EGFR Trafficking. Biophys J 2017; 111:2214-2227. [PMID: 27851944 DOI: 10.1016/j.bpj.2016.09.041] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2016] [Revised: 09/22/2016] [Accepted: 09/26/2016] [Indexed: 11/30/2022] Open
Abstract
Whereas important discoveries made by single-particle tracking have changed our view of the plasma membrane organization and motor protein dynamics in the past three decades, experimental studies of intracellular processes using single-particle tracking are rather scarce because of the lack of three-dimensional (3D) tracking capacity. In this study we use a newly developed 3D single-particle tracking method termed TSUNAMI (Tracking of Single particles Using Nonlinear And Multiplexed Illumination) to investigate epidermal growth factor receptor (EGFR) trafficking dynamics in live cells at 16/43 nm (xy/z) spatial resolution, with track duration ranging from 2 to 10 min and vertical tracking depth up to tens of microns. To analyze the long 3D trajectories generated by the TSUNAMI microscope, we developed a trajectory analysis algorithm, which reaches 81% segment classification accuracy in control experiments (termed simulated movement experiments). When analyzing 95 EGF-stimulated EGFR trajectories acquired in live skin cancer cells, we find that these trajectories can be separated into three groups-immobilization (24.2%), membrane diffusion only (51.6%), and transport from membrane to cytoplasm (24.2%). When EGFRs are membrane-bound, they show an interchange of Brownian diffusion and confined diffusion. When EGFRs are internalized, transitions from confined diffusion to directed diffusion and from directed diffusion back to confined diffusion are clearly seen. This observation agrees well with the model of clathrin-mediated endocytosis.
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Affiliation(s)
- Yen-Liang Liu
- Department of Biomedical Engineering, University of Texas at Austin, Austin, Texas
| | - Evan P Perillo
- Department of Biomedical Engineering, University of Texas at Austin, Austin, Texas
| | - Cong Liu
- Department of Biomedical Engineering, University of Texas at Austin, Austin, Texas
| | - Peter Yu
- Department of Biomedical Engineering, University of Texas at Austin, Austin, Texas
| | - Chao-Kai Chou
- Department of Molecular and Cellular Oncology, University of Texas MD Anderson Cancer Center, Houston, Texas; Center for Molecular Medicine and Graduate Institute of Cancer Biology, China Medical University, Taichung, Taiwan
| | - Mien-Chie Hung
- Department of Molecular and Cellular Oncology, University of Texas MD Anderson Cancer Center, Houston, Texas; Center for Molecular Medicine and Graduate Institute of Cancer Biology, China Medical University, Taichung, Taiwan
| | - Andrew K Dunn
- Department of Biomedical Engineering, University of Texas at Austin, Austin, Texas
| | - Hsin-Chih Yeh
- Department of Biomedical Engineering, University of Texas at Austin, Austin, Texas.
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25
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Schneider F, Waithe D, Clausen MP, Galiani S, Koller T, Ozhan G, Eggeling C, Sezgin E. Diffusion of lipids and GPI-anchored proteins in actin-free plasma membrane vesicles measured by STED-FCS. Mol Biol Cell 2017; 28:1507-1518. [PMID: 28404749 PMCID: PMC5449149 DOI: 10.1091/mbc.e16-07-0536] [Citation(s) in RCA: 81] [Impact Index Per Article: 11.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/22/2016] [Revised: 03/31/2017] [Accepted: 04/04/2017] [Indexed: 02/04/2023] Open
Abstract
The diffusion dynamics of lipids and GPI-anchored proteins is investigated using superresolution STED microscopy combined with single-molecule fluorescence correlation spectroscopy in the cellular membranes. The actin cytoskeleton is shown to play an essential role in the diffusion characteristics of molecules. Diffusion and interaction dynamics of molecules at the plasma membrane play an important role in cellular signaling and are suggested to be strongly associated with the actin cytoskeleton. Here we use superresolution STED microscopy combined with fluorescence correlation spectroscopy (STED-FCS) to access and compare the diffusion characteristics of fluorescent lipid analogues and GPI-anchored proteins (GPI-APs) in the live-cell plasma membrane and in actin cytoskeleton–free, cell-derived giant plasma membrane vesicles (GPMVs). Hindered diffusion of phospholipids and sphingolipids is abolished in the GPMVs, whereas transient nanodomain incorporation of ganglioside lipid GM1 is apparent in both the live-cell membrane and GPMVs. For GPI-APs, we detect two molecular pools in living cells; one pool shows high mobility with transient incorporation into nanodomains, and the other pool forms immobile clusters, both of which disappear in GPMVs. Our data underline the crucial role of the actin cortex in maintaining hindered diffusion modes of many but not all of the membrane molecules and highlight a powerful experimental approach to decipher specific influences on molecular plasma membrane dynamics.
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Affiliation(s)
- Falk Schneider
- MRC Human Immunology Unit, University of Oxford, Oxford OX39DS, United Kingdom
| | - Dominic Waithe
- Wolfson Imaging Centre Oxford, Weatherall Institute of Molecular Medicine, University of Oxford, Oxford OX39DS, United Kingdom
| | - Mathias P Clausen
- MRC Human Immunology Unit, University of Oxford, Oxford OX39DS, United Kingdom.,MEMPHYS-Center for Biomembrane Physics, Department of Physics, Chemistry, and Pharmacy, University of Southern Denmark, 5230 Odense M, Denmark
| | - Silvia Galiani
- MRC Human Immunology Unit, University of Oxford, Oxford OX39DS, United Kingdom
| | - Thomas Koller
- MRC Human Immunology Unit, University of Oxford, Oxford OX39DS, United Kingdom
| | - Gunes Ozhan
- Izmir International Biomedicine and Genome Institute, Dokuz Eylul University Medical School, Inciralti-Balcova, 35340 Izmir, Turkey.,Department of Medical Biology and Genetics, Dokuz Eylul University Medical School, Inciralti-Balcova, 35340 Izmir, Turkey
| | - Christian Eggeling
- MRC Human Immunology Unit, University of Oxford, Oxford OX39DS, United Kingdom .,Wolfson Imaging Centre Oxford, Weatherall Institute of Molecular Medicine, University of Oxford, Oxford OX39DS, United Kingdom
| | - Erdinc Sezgin
- MRC Human Immunology Unit, University of Oxford, Oxford OX39DS, United Kingdom
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26
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Huang YF, Zhuo GY, Chou CY, Lin CH, Chang W, Hsieh CL. Coherent Brightfield Microscopy Provides the Spatiotemporal Resolution To Study Early Stage Viral Infection in Live Cells. ACS NANO 2017; 11:2575-2585. [PMID: 28067508 DOI: 10.1021/acsnano.6b05601] [Citation(s) in RCA: 43] [Impact Index Per Article: 6.1] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/21/2023]
Affiliation(s)
- Yi-Fan Huang
- Institute
of Atomic and Molecular Sciences, Academia Sinica, Taipei 10617, Taiwan
| | - Guan-Yu Zhuo
- Institute
of Atomic and Molecular Sciences, Academia Sinica, Taipei 10617, Taiwan
| | - Chun-Yu Chou
- Institute
of Atomic and Molecular Sciences, Academia Sinica, Taipei 10617, Taiwan
| | - Cheng-Hao Lin
- Institute
of Atomic and Molecular Sciences, Academia Sinica, Taipei 10617, Taiwan
| | - Wen Chang
- Institute
of Molecular Biology, Academia Sinica, Taipei 11529, Taiwan
| | - Chia-Lung Hsieh
- Institute
of Atomic and Molecular Sciences, Academia Sinica, Taipei 10617, Taiwan
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27
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Clausen MP, Colin-York H, Schneider F, Eggeling C, Fritzsche M. Dissecting the actin cortex density and membrane-cortex distance in living cells by super-resolution microscopy. JOURNAL OF PHYSICS D: APPLIED PHYSICS 2017; 50:064002. [PMID: 28458398 PMCID: PMC5390943 DOI: 10.1088/1361-6463/aa52a1] [Citation(s) in RCA: 46] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/14/2016] [Revised: 11/30/2016] [Accepted: 12/08/2016] [Indexed: 05/30/2023]
Abstract
Nanoscale spacing between the plasma membrane and the underlying cortical actin cytoskeleton profoundly modulates cellular morphology, mechanics, and function. Measuring this distance has been a key challenge in cell biology. Current methods for dissecting the nanoscale spacing either limit themselves to complex survey design using fixed samples or rely on diffraction-limited fluorescence imaging whose spatial resolution is insufficient to quantify distances on the nanoscale. Using dual-color super-resolution STED (stimulated-emission-depletion) microscopy, we here overcome this challenge and accurately measure the density distribution of the cortical actin cytoskeleton and the distance between the actin cortex and the membrane in live Jurkat T-cells. We found an asymmetric cortical actin density distribution with a mean width of 230 (+105/-125) nm. The spatial distances measured between the maximum density peaks of the cortex and the membrane were bi-modally distributed with mean values of 50 ± 15 nm and 120 ± 40 nm, respectively. Taken together with the finite width of the cortex, our results suggest that in some regions the cortical actin is closer than 10 nm to the membrane and a maximum of 20 nm in others.
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Affiliation(s)
- M P Clausen
- MRC Human Immunology Unit, Weatherall Institute of Molecular Medicine, University of Oxford, Headley Way, OX3 9DS Oxford, UK
- Department of Physics, Chemistry, and Pharmacy, MEMPHYS-Center for Biomembrane Physics, University of Southern Denmark, Campusvej 55, 5230 Odense M, Denmark
| | - H Colin-York
- MRC Human Immunology Unit, Weatherall Institute of Molecular Medicine, University of Oxford, Headley Way, OX3 9DS Oxford, UK
| | - F Schneider
- MRC Human Immunology Unit, Weatherall Institute of Molecular Medicine, University of Oxford, Headley Way, OX3 9DS Oxford, UK
| | - C Eggeling
- MRC Human Immunology Unit, Weatherall Institute of Molecular Medicine, University of Oxford, Headley Way, OX3 9DS Oxford, UK
| | - M Fritzsche
- MRC Human Immunology Unit, Weatherall Institute of Molecular Medicine, University of Oxford, Headley Way, OX3 9DS Oxford, UK
- Kennedy Institute for Rheumatology, Roosevelt Drive, University of Oxford, Oxford OX3 7LF Oxford, UK
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28
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Lagerholm BC, Andrade DM, Clausen MP, Eggeling C. Convergence of lateral dynamic measurements in the plasma membrane of live cells from single particle tracking and STED-FCS. JOURNAL OF PHYSICS D: APPLIED PHYSICS 2017; 50:063001. [PMID: 28458397 PMCID: PMC5390782 DOI: 10.1088/1361-6463/aa519e] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/21/2016] [Revised: 11/15/2016] [Accepted: 12/05/2016] [Indexed: 05/06/2023]
Abstract
Fluorescence correlation spectroscopy (FCS) in combination with the super-resolution imaging method STED (STED-FCS), and single-particle tracking (SPT) are able to directly probe the lateral dynamics of lipids and proteins in the plasma membrane of live cells at spatial scales much below the diffraction limit of conventional microscopy. However, a major disparity in interpretation of data from SPT and STED-FCS remains, namely the proposed existence of a very fast (unhindered) lateral diffusion coefficient, ⩾5 µm2 s-1, in the plasma membrane of live cells at very short length scales, ≈⩽ 100 nm, and time scales, ≈1-10 ms. This fast diffusion coefficient has been advocated in several high-speed SPT studies, for lipids and membrane proteins alike, but the equivalent has not been detected in STED-FCS measurements. Resolving this ambiguity is important because the assessment of membrane dynamics currently relies heavily on SPT for the determination of heterogeneous diffusion. A possible systematic error in this approach would thus have vast implications in this field. To address this, we have re-visited the analysis procedure for SPT data with an emphasis on the measurement errors and the effect that these errors have on the measurement outputs. We subsequently demonstrate that STED-FCS and SPT data, following careful consideration of the experimental errors of the SPT data, converge to a common interpretation which for the case of a diffusing phospholipid analogue in the plasma membrane of live mouse embryo fibroblasts results in an unhindered, intra-compartment, diffusion coefficient of ≈0.7-1.0 µm2 s-1, and a compartment size of about 100-150 nm.
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Affiliation(s)
- B Christoffer Lagerholm
- Wolfson Imaging Centre Oxford, Weatherall Institute of Molecular Medicine, University of Oxford, Headley Way, Oxford OX3 9DS, UK
| | - Débora M Andrade
- Centre for Neural Circuits and Behaviour, University of Oxford, Mansfield Road, Oxford OX1 3SR, UK
| | - Mathias P Clausen
- MEMPHYS-Center for Biomembrane Physics, University of Southern Denmark, Campusvej 55, Odense M DK-5230, Denmark
- MRC Human Immunology Unit, Weatherall Institute of Molecular Medicine, University of Oxford, Headley Way, Oxford OX3 9DS, UK
| | - Christian Eggeling
- Wolfson Imaging Centre Oxford, Weatherall Institute of Molecular Medicine, University of Oxford, Headley Way, Oxford OX3 9DS, UK
- MRC Human Immunology Unit, Weatherall Institute of Molecular Medicine, University of Oxford, Headley Way, Oxford OX3 9DS, UK
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29
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Sadegh S, Higgins JL, Mannion PC, Tamkun MM, Krapf D. Plasma Membrane is Compartmentalized by a Self-Similar Cortical Actin Meshwork. PHYSICAL REVIEW. X 2017; 7:011031. [PMID: 28690919 PMCID: PMC5500227 DOI: 10.1103/physrevx.7.011031] [Citation(s) in RCA: 38] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/29/2023]
Abstract
A broad range of membrane proteins display anomalous diffusion on the cell surface. Different methods provide evidence for obstructed subdiffusion and diffusion on a fractal space, but the underlying structure inducing anomalous diffusion has never been visualized because of experimental challenges. We addressed this problem by imaging the cortical actin at high resolution while simultaneously tracking individual membrane proteins in live mammalian cells. Our data confirm that actin introduces barriers leading to compartmentalization of the plasma membrane and that membrane proteins are transiently confined within actin fences. Furthermore, superresolution imaging shows that the cortical actin is organized into a self-similar meshwork. These results present a hierarchical nanoscale picture of the plasma membrane.
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Affiliation(s)
- Sanaz Sadegh
- Department of Electrical and Computer Engineering, Colorado State University, Fort Collins, Colorado 80523, USA
| | - Jenny L. Higgins
- School of Biomedical Engineering, Colorado State University, Fort Collins, Colorado 80523, USA
| | - Patrick C. Mannion
- School of Biomedical Engineering, Colorado State University, Fort Collins, Colorado 80523, USA
| | - Michael M. Tamkun
- Department of Biomedical Sciences, Colorado State University, Fort Collins, Colorado 80523, USA
- Department of Biochemistry and Molecular Biology, Colorado State University, Fort Collins, Colorado 80523, USA
| | - Diego Krapf
- Department of Electrical and Computer Engineering, Colorado State University, Fort Collins, Colorado 80523, USA
- School of Biomedical Engineering, Colorado State University, Fort Collins, Colorado 80523, USA
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30
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You C, Marquez-Lago TT, Richter CP, Wilmes S, Moraga I, Garcia KC, Leier A, Piehler J. Receptor dimer stabilization by hierarchical plasma membrane microcompartments regulates cytokine signaling. SCIENCE ADVANCES 2016; 2:e1600452. [PMID: 27957535 PMCID: PMC5135388 DOI: 10.1126/sciadv.1600452] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/01/2016] [Accepted: 10/26/2016] [Indexed: 06/06/2023]
Abstract
The interaction dynamics of signaling complexes is emerging as a key determinant that regulates the specificity of cellular responses. We present a combined experimental and computational study that quantifies the consequences of plasma membrane microcompartmentalization for the dynamics of type I interferon receptor complexes. By using long-term dual-color quantum dot (QD) tracking, we found that the lifetime of individual ligand-induced receptor heterodimers depends on the integrity of the membrane skeleton (MSK), which also proved important for efficient downstream signaling. By pair correlation tracking and localization microscopy as well as by fast QD tracking, we identified a secondary confinement within ~300-nm-sized zones. A quantitative spatial stochastic diffusion-reaction model, entirely parameterized on the basis of experimental data, predicts that transient receptor confinement by the MSK meshwork allows for rapid reassociation of dissociated receptor dimers. Moreover, the experimentally observed apparent stabilization of receptor dimers in the plasma membrane was reproduced by simulations of a refined, hierarchical compartment model. Our simulations further revealed that the two-dimensional association rate constant is a key parameter for controlling the extent of MSK-mediated stabilization of protein complexes, thus ensuring the specificity of this effect. Together, experimental evidence and simulations support the hypothesis that passive receptor confinement by MSK-based microcompartmentalization promotes maintenance of signaling complexes in the plasma membrane.
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Affiliation(s)
- Changjiang You
- Department of Biology, University of Osnabrück, Barbarastraße 11, 49076 Osnabrück, Germany
| | | | | | - Stephan Wilmes
- Department of Biology, University of Osnabrück, Barbarastraße 11, 49076 Osnabrück, Germany
| | - Ignacio Moraga
- Howard Hughes Medical Institute, Stanford University School of Medicine, Stanford, CA 94305, USA
- Department of Molecular and Cellular Physiology and Department of Structural Biology, Stanford University School of Medicine, Stanford, CA 94305, USA
| | - K. Christopher Garcia
- Howard Hughes Medical Institute, Stanford University School of Medicine, Stanford, CA 94305, USA
- Department of Molecular and Cellular Physiology and Department of Structural Biology, Stanford University School of Medicine, Stanford, CA 94305, USA
| | - André Leier
- Isaac Newton Institute for Mathematical Sciences, University of Cambridge, Cambridge, U.K
- Okinawa Institute of Science and Technology, Onna-son, Kunigami-gun, Okinawa 904-0495, Japan
| | - Jacob Piehler
- Department of Biology, University of Osnabrück, Barbarastraße 11, 49076 Osnabrück, Germany
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31
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Shafique N, Kennedy KE, Douglas JF, Starr FW. Quantifying the Heterogeneous Dynamics of a Simulated Dipalmitoylphosphatidylcholine (DPPC) Membrane. J Phys Chem B 2016; 120:5172-82. [DOI: 10.1021/acs.jpcb.6b02982] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
| | | | - Jack F. Douglas
- Materials
Science and Engineering Division, National Institute of Standards and Technology, Gaithersburg, Maryland 20899, United States
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32
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Guo X, Zhang Y, Liu J, Yang X, Huang J, Li L, Wan L, Wang K. Red blood cell membrane-mediated fusion of hydrophobic quantum dots with living cell membranes for cell imaging. J Mater Chem B 2016; 4:4191-4197. [PMID: 32264621 DOI: 10.1039/c6tb01067a] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Abstract
Nanoparticle fusion with cell membranes is an interesting phenomenon that may have crucial implications for their biomedical applications. Here, we proposed a biomimetic and controlled route to fusion of hydrophobic quantum dots (QDs) with the cell membranes of living cells, while preserving their sensing and optical properties and thus their capability of membrane imaging and single-nanoparticle tracking. Red blood cell (RBC) membrane lipids were extracted to phase transfer hydrophobic QDs and the resulting RBC-encapsulated QDs (RBC-QDs) can be well fused within cell membranes as membrane markers. The fusion was validated through single-nanoparticle imaging and different movement behaviours were reliably discriminated. RBC-QDs possessed some novel features, such as controllable selective membrane staining, no invasion, and high photobleaching resistance, which allowed for long-term imaging, and single-nanoparticle tracking. This approach provides a versatile platform for controlled hydrophobic QD-based fluorescence investigation of living cell membranes.
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Affiliation(s)
- Xi Guo
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Chemistry and Chemical Engineering, Key Laboratory for Bio-Nanotechnology and Molecular Engineering of Hunan Province, Hunan University, Changsha 410082, P. R. China.
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33
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Monserud JH, Schwartz DK. Interfacial Molecular Searching Using Forager Dynamics. PHYSICAL REVIEW LETTERS 2016; 116:098303. [PMID: 26991206 DOI: 10.1103/physrevlett.116.098303] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/17/2015] [Indexed: 06/05/2023]
Abstract
Many biological and technological systems employ efficient non-Brownian intermittent search strategies where localized searches alternate with long flights. Coincidentally, molecular species exhibit intermittent behavior at the solid-liquid interface, where periods of slow motion are punctuated by fast flights through the liquid phase. Single-molecule tracking was used here to observe the interfacial search process of DNA for complementary DNA. Measured search times were qualitatively consistent with an intermittent-flight model, and ∼10 times faster than equivalent Brownian searches, suggesting that molecular searches for reactive sites benefit from similar efficiencies as biological organisms.
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Affiliation(s)
- Jon H Monserud
- Department of Chemical and Biological Engineering University of Colorado Boulder, Boulder, Colorado 80309, USA
| | - Daniel K Schwartz
- Department of Chemical and Biological Engineering University of Colorado Boulder, Boulder, Colorado 80309, USA
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34
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Oh Y, Kim J, Yethiraj A, Sung BJ. Swing motion as a diffusion mechanism of lipid bilayers in a gel phase. Phys Rev E 2016; 93:012409. [PMID: 26871103 DOI: 10.1103/physreve.93.012409] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/27/2015] [Indexed: 06/05/2023]
Abstract
Lipid bilayers are a model system for studying the properties of cell membranes. For lipid bilayers of a single lipid component, there is a phase transition from a fluid phase to a gel phase as the temperature is decreased. The dynamic behavior of lipids in the gel phase is interesting: some models show dynamic heterogeneity with a large disparity in timescales between fast and slow molecules, and a spatial segregation of the slow molecules. In this paper we study the dynamics of coarse-grained models of lipid bilayers using the dry Martini, Lennard-Jones Martini, polarizable Martini, and BMW models. All four models show similar dynamical behaviors in the gel phase although the transition temperature is model-dependent. We find that the primary mode of transport in the gel phase is a hopping of the lipid molecules. Hopping is seen in both the translational and rotational dynamics, which are correlated, i.e., the lipid molecules display a swing-like motion in the gel phase.
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Affiliation(s)
- Younghoon Oh
- Department of Chemistry and Research Institute for Basic Science, Sogang University, Seoul 121-742, Republic of Korea
| | - Jeongmin Kim
- Department of Chemistry and Research Institute for Basic Science, Sogang University, Seoul 121-742, Republic of Korea
| | - Arun Yethiraj
- Department of Chemistry, University of Wisconsin-Madison, Madison, Wisconsin 53706, USA
| | - Bong June Sung
- Department of Chemistry and Research Institute for Basic Science, Sogang University, Seoul 121-742, Republic of Korea
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35
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Wang YY, Nunn KL, Harit D, McKinley SA, Lai SK. Minimizing biases associated with tracking analysis of submicron particles in heterogeneous biological fluids. J Control Release 2015; 220:37-43. [PMID: 26478013 DOI: 10.1016/j.jconrel.2015.10.021] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/16/2015] [Revised: 08/31/2015] [Accepted: 10/13/2015] [Indexed: 10/22/2022]
Abstract
Tracking the dynamic motion of individual nanoparticles or viruses offers quantitative insights into their real-time behavior and fate in different biological environments. Indeed, particle tracking is a powerful tool that has facilitated the development of drug carriers with enhanced penetration of mucus, brain tissues and other extracellular matrices. Nevertheless, heterogeneity is a hallmark of nanoparticle diffusion in such complex environments: identical particles can exhibit strongly hindered or unobstructed diffusion within microns of each other. The common practice in 2D particle tracking, namely analyzing all trackable particle traces with equal weighting, naturally biases towards rapidly diffusing sub-populations at shorter time scales. This in turn results in misrepresentation of particle behavior and a systematic underestimate of the time necessary for a population of nanoparticles to diffuse specific distances. We show here via both computational simulation and experimental data that this bias can be rigorously corrected by weighing the contribution by each particle trace on a 'frame-by-frame' basis. We believe this methodology presents an important step towards objective and accurate assessment of the heterogeneous transport behavior of submicron drug carriers and pathogens in biological environments.
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Affiliation(s)
- Ying-Ying Wang
- Department of Biophysics, Johns Hopkins University, 3400 North Charles St, Baltimore, MD 21218, USA
| | - Kenetta L Nunn
- UNC/NCSU Joint Department of Biomedical Engineering, University of North Carolina - Chapel Hill, 120 Mason Farm Road, Chapel Hill, NC 27599, USA
| | - Dimple Harit
- Division of Molecular Pharmaceutics, Eshelman School of Pharmacy, University of North Carolina - Chapel Hill, 120 Mason Farm Road, Chapel Hill, NC 27599, USA
| | - Scott A McKinley
- Mathematics Department, University of Florida, 1400 Stadium Road, Gainesville, FL 32611, USA
| | - Samuel K Lai
- UNC/NCSU Joint Department of Biomedical Engineering, University of North Carolina - Chapel Hill, 120 Mason Farm Road, Chapel Hill, NC 27599, USA; Division of Molecular Pharmaceutics, Eshelman School of Pharmacy, University of North Carolina - Chapel Hill, 120 Mason Farm Road, Chapel Hill, NC 27599, USA; Department of Microbiology and Immunology, University of North Carolina School of Medicine, 125 Mason Farm Road, Chapel Hill, NC 27599, USA.
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36
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Slator PJ, Cairo CW, Burroughs NJ. Detection of Diffusion Heterogeneity in Single Particle Tracking Trajectories Using a Hidden Markov Model with Measurement Noise Propagation. PLoS One 2015; 10:e0140759. [PMID: 26473352 PMCID: PMC4608688 DOI: 10.1371/journal.pone.0140759] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/06/2015] [Accepted: 09/30/2015] [Indexed: 11/25/2022] Open
Abstract
We develop a Bayesian analysis framework to detect heterogeneity in the diffusive behaviour of single particle trajectories on cells, implementing model selection to classify trajectories as either consistent with Brownian motion or with a two-state (diffusion coefficient) switching model. The incorporation of localisation accuracy is essential, as otherwise false detection of switching within a trajectory was observed and diffusion coefficient estimates were inflated. Since our analysis is on a single trajectory basis, we are able to examine heterogeneity between trajectories in a quantitative manner. Applying our method to the lymphocyte function-associated antigen 1 (LFA-1) receptor tagged with latex beads (4 s trajectories at 1000 frames s−1), both intra- and inter-trajectory heterogeneity were detected; 12–26% of trajectories display clear switching between diffusive states dependent on condition, whilst the inter-trajectory variability is highly structured with the diffusion coefficients being related by D1 = 0.68D0 − 1.5 × 104 nm2 s−1, suggestive that on these time scales we are detecting switching due to a single process. Further, the inter-trajectory variability of the diffusion coefficient estimates (1.6 × 102 − 2.6 × 105 nm2 s−1) is very much larger than the measurement uncertainty within trajectories, suggesting that LFA-1 aggregation and cytoskeletal interactions are significantly affecting mobility, whilst the timescales of these processes are distinctly different giving rise to inter- and intra-trajectory variability. There is also an ‘immobile’ state (defined as D < 3.0 × 103 nm2 s−1) that is rarely involved in switching, immobility occurring with the highest frequency (47%) under T cell activation (phorbol-12-myristate-13-acetate (PMA) treatment) with enhanced cytoskeletal attachment (calpain inhibition). Such ‘immobile’ states frequently display slow linear drift, potentially reflecting binding to a dynamic actin cortex. Our methods allow significantly more information to be extracted from individual trajectories (ultimately limited by time resolution and time-series length), and allow statistical comparisons between trajectories thereby quantifying inter-trajectory heterogeneity. Such methods will be highly informative for the construction and fitting of molecule mobility models within membranes incorporating aggregation, binding to the cytoskeleton, or traversing membrane microdomains.
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Affiliation(s)
- Paddy J. Slator
- Systems Biology Centre, University of Warwick, Coventry, United Kingdom
- Systems Biology Doctoral Training Centre, University of Warwick, Coventry, United Kingdom
| | | | - Nigel J. Burroughs
- Systems Biology Centre, University of Warwick, Coventry, United Kingdom
- * E-mail:
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37
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Clausen MP, Sezgin E, Bernardino de la Serna J, Waithe D, Lagerholm BC, Eggeling C. A straightforward approach for gated STED-FCS to investigate lipid membrane dynamics. Methods 2015; 88:67-75. [PMID: 26123184 PMCID: PMC4641872 DOI: 10.1016/j.ymeth.2015.06.017] [Citation(s) in RCA: 37] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/11/2015] [Revised: 05/29/2015] [Accepted: 06/24/2015] [Indexed: 11/06/2022] Open
Abstract
Recent years have seen the development of multiple technologies to investigate, with great spatial and temporal resolution, the dynamics of lipids in cellular and model membranes. One of these approaches is the combination of far-field super-resolution stimulated-emission-depletion (STED) microscopy with fluorescence correlation spectroscopy (FCS). STED-FCS combines the diffraction-unlimited spatial resolution of STED microscopy with the statistical accuracy of FCS to determine sub-millisecond-fast molecular dynamics with single-molecule sensitivity. A unique advantage of STED-FCS is that the observation spot for the FCS data recordings can be tuned to sub-diffraction scales, i.e. <200 nm in diameter, in a gradual manner to investigate fast diffusion of membrane-incorporated labelled entities. Unfortunately, so far the STED-FCS technology has mostly been applied on a few custom-built setups optimised for far-red fluorescent emitters. Here, we summarise the basics of the STED-FCS technology and highlight how it can give novel details into molecular diffusion modes. Most importantly, we present a straightforward way for performing STED-FCS measurements on an unmodified turnkey commercial system using a time-gated detection scheme. Further, we have evaluated the STED-FCS performance of different commonly used green emitting fluorescent dyes applying freely available, custom-written analysis software.
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Affiliation(s)
- Mathias P Clausen
- MRC Human Immunology Unit, Weatherall Institute of Molecular Medicine, University of Oxford, Headley Way, Oxford OX3 9DS, United Kingdom
| | - Erdinc Sezgin
- MRC Human Immunology Unit, Weatherall Institute of Molecular Medicine, University of Oxford, Headley Way, Oxford OX3 9DS, United Kingdom
| | - Jorge Bernardino de la Serna
- MRC Human Immunology Unit, Weatherall Institute of Molecular Medicine, University of Oxford, Headley Way, Oxford OX3 9DS, United Kingdom
| | - Dominic Waithe
- Wolfson Imaging Centre, Weatherall Institute of Molecular Medicine, University of Oxford, Headley Way, Oxford OX3 9DS, United Kingdom
| | - B Christoffer Lagerholm
- Wolfson Imaging Centre, Weatherall Institute of Molecular Medicine, University of Oxford, Headley Way, Oxford OX3 9DS, United Kingdom
| | - Christian Eggeling
- MRC Human Immunology Unit, Weatherall Institute of Molecular Medicine, University of Oxford, Headley Way, Oxford OX3 9DS, United Kingdom; Wolfson Imaging Centre, Weatherall Institute of Molecular Medicine, University of Oxford, Headley Way, Oxford OX3 9DS, United Kingdom.
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38
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Massey M, Wu M, Conroy EM, Algar WR. Mind your P's and Q's: the coming of age of semiconducting polymer dots and semiconductor quantum dots in biological applications. Curr Opin Biotechnol 2015; 34:30-40. [DOI: 10.1016/j.copbio.2014.11.006] [Citation(s) in RCA: 76] [Impact Index Per Article: 8.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2014] [Accepted: 11/06/2014] [Indexed: 01/15/2023]
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39
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Andrade DM, Clausen MP, Keller J, Mueller V, Wu C, Bear JE, Hell SW, Lagerholm BC, Eggeling C. Cortical actin networks induce spatio-temporal confinement of phospholipids in the plasma membrane--a minimally invasive investigation by STED-FCS. Sci Rep 2015; 5:11454. [PMID: 26118385 PMCID: PMC4484492 DOI: 10.1038/srep11454] [Citation(s) in RCA: 83] [Impact Index Per Article: 9.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/13/2015] [Accepted: 05/20/2015] [Indexed: 11/09/2022] Open
Abstract
Important discoveries in the last decades have changed our view of the plasma membrane organisation. Specifically, the cortical cytoskeleton has emerged as a key modulator of the lateral diffusion of membrane proteins. Cytoskeleton-dependent compartmentalised lipid diffusion has been proposed, but this concept remains controversial because this phenomenon has thus far only been observed with artefact-prone probes in combination with a single technique: single particle tracking. In this paper, we report the first direct observation of compartmentalised phospholipid diffusion in the plasma membrane of living cells using a minimally invasive, fluorescent dye labelled lipid analogue. These observations were made using optical STED nanoscopy in combination with fluorescence correlation spectroscopy (STED-FCS), a technique which allows the study of membrane dynamics on a sub-millisecond time-scale and with a spatial resolution of down to 40 nm. Specifically, we find that compartmentalised phospholipid diffusion depends on the cortical actin cytoskeleton, and that this constrained diffusion is directly dependent on the F-actin branching nucleator Arp2/3. These findings provide solid evidence that the Arp2/3-dependent cortical actin cytoskeleton plays a pivotal role in the dynamic organisation of the plasma membrane, potentially regulating fundamental cellular processes.
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Affiliation(s)
- Débora M Andrade
- 1] Department of Nanobiophotonics, Max Planck Institute for Biophysical Chemistry, Am Fassberg 11, Göttingen 37077, Germany [2] Centre for Neural Circuits and Behaviour, University of Oxford, Mansfield Road, Oxford OX1 3SR, UK
| | - Mathias P Clausen
- 1] Department of Nanobiophotonics, Max Planck Institute for Biophysical Chemistry, Am Fassberg 11, Göttingen 37077, Germany [2] MRC Human Immunology Unit and Wolfson Imaging Centre Oxford, Weatherall Institute of Molecular Medicine, University of Oxford, Headley Way, Oxford OX3 9DS, UK [3] MEMPHYS - Center for Biomembrane Physics, University of Southern Denmark, Campusvej 55, Odense M,DK-5230, Denmark
| | - Jan Keller
- Department of Nanobiophotonics, Max Planck Institute for Biophysical Chemistry, Am Fassberg 11, Göttingen 37077, Germany
| | - Veronika Mueller
- Department of Nanobiophotonics, Max Planck Institute for Biophysical Chemistry, Am Fassberg 11, Göttingen 37077, Germany
| | - Congying Wu
- Department of Cell &Developmental Biology, and Lineberger Comprehensive Cancer Center, University of North Carolina, Chapel Hill NC 27599, USA
| | - James E Bear
- 1] Department of Cell &Developmental Biology, and Lineberger Comprehensive Cancer Center, University of North Carolina, Chapel Hill NC 27599, USA [2] Howard Hughes Medical Institute, University of North Carolina, Chapel Hill NC 27599, USA
| | - Stefan W Hell
- Department of Nanobiophotonics, Max Planck Institute for Biophysical Chemistry, Am Fassberg 11, Göttingen 37077, Germany
| | - B Christoffer Lagerholm
- 1] MRC Human Immunology Unit and Wolfson Imaging Centre Oxford, Weatherall Institute of Molecular Medicine, University of Oxford, Headley Way, Oxford OX3 9DS, UK [2] MEMPHYS - Center for Biomembrane Physics, University of Southern Denmark, Campusvej 55, Odense M,DK-5230, Denmark
| | - Christian Eggeling
- 1] Department of Nanobiophotonics, Max Planck Institute for Biophysical Chemistry, Am Fassberg 11, Göttingen 37077, Germany [2] MRC Human Immunology Unit and Wolfson Imaging Centre Oxford, Weatherall Institute of Molecular Medicine, University of Oxford, Headley Way, Oxford OX3 9DS, UK
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40
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Li H, Dou SX, Liu YR, Li W, Xie P, Wang WC, Wang PY. Mapping intracellular diffusion distribution using single quantum dot tracking: compartmentalized diffusion defined by endoplasmic reticulum. J Am Chem Soc 2015; 137:436-44. [PMID: 25535941 DOI: 10.1021/ja511273c] [Citation(s) in RCA: 48] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
Abstract
The crowded intracellular environment influences the diffusion-mediated cellular processes, such as metabolism, signaling, and transport. The hindered diffusion of macromolecules in heterogeneous cytoplasm has been studied over years, but the detailed diffusion distribution and its origin still remain unclear. Here, we introduce a novel method to map rapidly the diffusion distribution in single cells based on single-particle tracking (SPT) of quantum dots (QDs). The diffusion map reveals the heterogeneous intracellular environment and, more importantly, an unreported compartmentalization of QD diffusions in cytoplasm. Simultaneous observations of QD motion and green fluorescent protein-tagged endoplasmic reticulum (ER) dynamics provide direct evidence that the compartmentalization results from micron-scale domains defined by ER tubules, and ER cisternae form perinuclear areas that restrict QDs to enter. The same phenomenon was observed using fluorescein isothiocyanate-dextrans, further confirming the compartmentalized diffusion. These results shed new light on the diffusive movements of macromolecules in the cell, and the mapping of intracellular diffusion distribution may be used to develop strategies for nanoparticle-based drug deliveries and therapeutics.
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Affiliation(s)
- Hui Li
- Key Laboratory of Soft Matter Physics, Beijing National Laboratory for Condensed Matter Physics, Institute of Physics, Chinese Academy of Sciences , Beijing 100190, China
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41
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Wegner KD, Hildebrandt N. Quantum dots: bright and versatile in vitro and in vivo fluorescence imaging biosensors. Chem Soc Rev 2015; 44:4792-4834. [DOI: 10.1039/c4cs00532e] [Citation(s) in RCA: 546] [Impact Index Per Article: 60.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 08/30/2023]
Abstract
Colourful cells and tissues: semiconductor quantum dots and their versatile applications in multiplexed bioimaging research.
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Affiliation(s)
- K. David Wegner
- NanoBioPhotonics
- Institut d'Electronique Fondamentale
- Université Paris-Sud
- 91405 Orsay Cedex
- France
| | - Niko Hildebrandt
- NanoBioPhotonics
- Institut d'Electronique Fondamentale
- Université Paris-Sud
- 91405 Orsay Cedex
- France
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42
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Lane L, Smith AM, Lian T, Nie S. Compact and blinking-suppressed quantum dots for single-particle tracking in live cells. J Phys Chem B 2014; 118:14140-7. [PMID: 25157589 PMCID: PMC4266335 DOI: 10.1021/jp5064325] [Citation(s) in RCA: 40] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/28/2014] [Revised: 08/25/2014] [Indexed: 02/06/2023]
Abstract
Quantum dots (QDs) offer distinct advantages over organic dyes and fluorescent proteins for biological imaging applications because of their brightness, photostability, and tunability. However, a major limitation is that single QDs emit fluorescent light in an intermittent on-and-off fashion called "blinking". Here we report the development of blinking-suppressed, relatively compact QDs that are able to maintain their favorable optical properties in aqueous solution. Specifically, we show that a linearly graded alloy shell can be grown on a small CdSe core via a precisely controlled layer-by-layer process, and that this graded shell leads to a dramatic suppression of QD blinking in both organic solvents and water. A substantial portion (>25%) of the resulting QDs does not blink (more than 99% of the time in the bright or "on" state). Theoretical modeling studies indicate that this type of linearly graded shell not only can minimize charge carrier access to surface traps but also can reduce lattice defects, both of which are believed to be responsible for carrier trapping and QD blinking. Further, we have evaluated the biological utility of blinking-suppressed QDs coated with polyethylene glycol (PEG)-based ligands and multidentate ligands. The results demonstrate that their optical properties are largely independent of surface coatings and solvating media, and that the blinking-suppressed QDs can provide continuous trajectories in live-cell receptor tracking studies.
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Affiliation(s)
- Lucas
A. Lane
- Departments
of Biomedical Engineering and Chemistry, Emory University and Georgia Institute of Technology, Atlanta, Georgia 30322, United States
| | - Andrew M. Smith
- Department
of Bioengineering, University of Illinois
at Urbana−Champaign, Urbana, Illinois 61801, United States
| | - Tianquan Lian
- Department
of Chemistry, Emory University, Atlanta, Georgia 30322, United States
| | - Shuming Nie
- Departments
of Biomedical Engineering and Chemistry, Emory University and Georgia Institute of Technology, Atlanta, Georgia 30322, United States
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43
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He X, Ma N. An overview of recent advances in quantum dots for biomedical applications. Colloids Surf B Biointerfaces 2014; 124:118-31. [DOI: 10.1016/j.colsurfb.2014.06.002] [Citation(s) in RCA: 65] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/17/2014] [Revised: 05/23/2014] [Accepted: 06/01/2014] [Indexed: 12/23/2022]
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44
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You C, Richter CP, Löchte S, Wilmes S, Piehler J. Dynamic Submicroscopic Signaling Zones Revealed by Pair Correlation Tracking and Localization Microscopy. Anal Chem 2014; 86:8593-602. [DOI: 10.1021/ac501127r] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
Affiliation(s)
- Changjiang You
- Department
of Biology, University of Osnabrück, Barbarastrasse 11, 49076 Osnabrück, Germany
| | - Christian P. Richter
- Department
of Biology, University of Osnabrück, Barbarastrasse 11, 49076 Osnabrück, Germany
| | - Sara Löchte
- Department
of Biology, University of Osnabrück, Barbarastrasse 11, 49076 Osnabrück, Germany
| | - Stephan Wilmes
- Department
of Biology, University of Osnabrück, Barbarastrasse 11, 49076 Osnabrück, Germany
| | - Jacob Piehler
- Department
of Biology, University of Osnabrück, Barbarastrasse 11, 49076 Osnabrück, Germany
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45
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Liang Q, Wu QY, Wang ZY. Effect of hydrophobic mismatch on domain formation and peptide sorting in the multicomponent lipid bilayers in the presence of immobilized peptides. J Chem Phys 2014; 141:074702. [DOI: 10.1063/1.4891931] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- Qing Liang
- Center for Statistical and Theoretical Condensed Matter Physics and Department of Physics, Zhejiang Normal University, Jinhua 321004, People's Republic of China
- Department of Physics, Ningbo University, Ningbo 315211, People's Republic of China
| | - Qing-Yan Wu
- Center for Statistical and Theoretical Condensed Matter Physics and Department of Physics, Zhejiang Normal University, Jinhua 321004, People's Republic of China
| | - Zhi-Yong Wang
- School of Optoelectronic Information, Chongqing University of Technology, Chongqing 400054, People's Republic of China
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46
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Clausen MP, Arnspang EC, Ballou B, Bear JE, Lagerholm BC. Simultaneous multi-species tracking in live cells with quantum dot conjugates. PLoS One 2014; 9:e97671. [PMID: 24892555 PMCID: PMC4043679 DOI: 10.1371/journal.pone.0097671] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/02/2012] [Accepted: 04/23/2014] [Indexed: 11/18/2022] Open
Abstract
Quantum dots are available in a range of spectrally separated emission colors and with a range of water-stabilizing surface coatings that offers great flexibility for enabling bio-specificity. In this study, we have taken advantage of this flexibility to demonstrate that it is possible to perform a simultaneous investigation of the lateral dynamics in the plasma membrane of i) the transmembrane epidermal growth factor receptor, ii) the glucosylphospatidylinositol-anchored protein CD59, and iii) ganglioside GM1-cholera toxin subunit B clusters in a single cell. We show that a large number of the trajectories are longer than 50 steps, which we by simulations show to be sufficient for robust single trajectory analysis. This analysis shows that the populations of the diffusion coefficients are heterogeneously distributed for all three species, but differ between the different species. We further show that the heterogeneity is decreased upon treating the cells with methyl-β-cyclodextrin.
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Affiliation(s)
- Mathias P. Clausen
- MEMPHYS – Center for Biomembrane Physics and Danish Molecular Biomedical Imaging Center (DaMBIC), University of Southern Denmark, Odense M, Denmark
| | - Eva C. Arnspang
- MEMPHYS – Center for Biomembrane Physics and Danish Molecular Biomedical Imaging Center (DaMBIC), University of Southern Denmark, Odense M, Denmark
| | - Byron Ballou
- Molecular Biosensor and Imaging Center (MBIC), Mellon Institute, Carnegie Mellon University, Pittsburgh, Pennsylvania, United States of America
| | - James E. Bear
- Lineberger Comprehensive Cancer Center and Department of Cell and Developmental Biology, Howard Hughes Medical Institute, University of North Carolina, Chapel Hill, North Carolina, United States of America
| | - B. Christoffer Lagerholm
- MEMPHYS – Center for Biomembrane Physics and Danish Molecular Biomedical Imaging Center (DaMBIC), University of Southern Denmark, Odense M, Denmark
- * E-mail:
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47
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Hsieh CL, Spindler S, Ehrig J, Sandoghdar V. Tracking Single Particles on Supported Lipid Membranes: Multimobility Diffusion and Nanoscopic Confinement. J Phys Chem B 2014; 118:1545-54. [DOI: 10.1021/jp412203t] [Citation(s) in RCA: 90] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Affiliation(s)
- Chia-Lung Hsieh
- Max Planck Institute
for the Science of Light and Friedrich Alexander University, 91058 Erlangen, Germany
- Institute
of Atomic and Molecular Sciences, Academia Sinica, Taipei 106, Taiwan
| | - Susann Spindler
- Max Planck Institute
for the Science of Light and Friedrich Alexander University, 91058 Erlangen, Germany
| | - Jens Ehrig
- Max Planck Institute
for the Science of Light and Friedrich Alexander University, 91058 Erlangen, Germany
| | - Vahid Sandoghdar
- Max Planck Institute
for the Science of Light and Friedrich Alexander University, 91058 Erlangen, Germany
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48
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Arnspang EC, Schwartzentruber J, Clausen MP, Wiseman PW, Lagerholm BC. Bridging the gap between single molecule and ensemble methods for measuring lateral dynamics in the plasma membrane. PLoS One 2013; 8:e78096. [PMID: 24324577 PMCID: PMC3850922 DOI: 10.1371/journal.pone.0078096] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/03/2012] [Accepted: 09/17/2013] [Indexed: 11/22/2022] Open
Abstract
The lateral dynamics of proteins and lipids in the mammalian plasma membrane are heterogeneous likely reflecting both a complex molecular organization and interactions with other macromolecules that reside outside the plane of the membrane. Several methods are commonly used for characterizing the lateral dynamics of lipids and proteins. These experimental and data analysis methods differ in equipment requirements, labeling complexities, and further oftentimes give different results. It would therefore be very convenient to have a single method that is flexible in the choice of fluorescent label and labeling densities from single molecules to ensemble measurements, that can be performed on a conventional wide-field microscope, and that is suitable for fast and accurate analysis. In this work we show that k-space image correlation spectroscopy (kICS) analysis, a technique which was originally developed for analyzing lateral dynamics in samples that are labeled at high densities, can also be used for fast and accurate analysis of single molecule density data of lipids and proteins labeled with quantum dots (QDs). We have further used kICS to investigate the effect of the label size and by comparing the results for a biotinylated lipid labeled at high densities with Atto647N-strepatvidin (sAv) or sparse densities with sAv-QDs. In this latter case, we see that the recovered diffusion rate is two-fold greater for the same lipid and in the same cell-type when labeled with Atto647N-sAv as compared to sAv-QDs. This data demonstrates that kICS can be used for analysis of single molecule data and furthermore can bridge between samples with a labeling densities ranging from single molecule to ensemble level measurements.
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Affiliation(s)
- Eva C. Arnspang
- Department of Physics, Chemistry and Pharmacy, MEMPHYS-Center for Biomembrane Physics & DaMBIC – Danish Molecular Biomedical Imaging Center, University of Southern Denmark, Odense, Denmark
| | | | - Mathias P. Clausen
- Department of Physics, Chemistry and Pharmacy, MEMPHYS-Center for Biomembrane Physics & DaMBIC – Danish Molecular Biomedical Imaging Center, University of Southern Denmark, Odense, Denmark
| | - Paul W. Wiseman
- Department of Physics and Department of Chemistry, McGill University, Montreal, Canada
| | - B. Christoffer Lagerholm
- Department of Physics, Chemistry and Pharmacy, MEMPHYS-Center for Biomembrane Physics & DaMBIC – Danish Molecular Biomedical Imaging Center, University of Southern Denmark, Odense, Denmark
- * E-mail:
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49
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Ott D, Bendix PM, Oddershede LB. Revealing hidden dynamics within living soft matter. ACS NANO 2013; 7:8333-8339. [PMID: 24116711 DOI: 10.1021/nn4051002] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/02/2023]
Abstract
In the study of living soft matter, we often seek to understand the mechanisms underlying the motion of a single molecule, an organelle, or some other tracer. The experimentally observed signature of the tracer is masked by its thermal fluctuations, inherent drift of the system, and instrument noise. In addition, the timing or length scales of the events of interest are often unknown. In the current issue of ACS Nano, Chen et al. present a general method for extracting the underlying dynamics from time series. Here, we provide an easily accessible introduction to the method, put it into perspective with the field, and exemplify how it can be used to answer important out-standing questions within soft matter and living systems.
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Affiliation(s)
- Dino Ott
- Niels Bohr Institute, University of Copenhagen , 2100 Copenhagen, Denmark
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50
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Rasmussen TE, Jauffred L, Brewer J, Vogel S, Torbensen ER, Lagerholm BC, Oddershede L, Arnspang EC. Single Molecule Applications of Quantum Dots. ACTA ACUST UNITED AC 2013. [DOI: 10.4236/jmp.2013.411a2002] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
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