Literature DB >> 23481518

Anomalous transport in the crowded world of biological cells.

Felix Höfling1, Thomas Franosch.   

Abstract

A ubiquitous observation in cell biology is that the diffusive motion of macromolecules and organelles is anomalous, and a description simply based on the conventional diffusion equation with diffusion constants measured in dilute solution fails. This is commonly attributed to macromolecular crowding in the interior of cells and in cellular membranes, summarizing their densely packed and heterogeneous structures. The most familiar phenomenon is a sublinear, power-law increase of the mean-square displacement (MSD) as a function of the lag time, but there are other manifestations like strongly reduced and time-dependent diffusion coefficients, persistent correlations in time, non-Gaussian distributions of spatial displacements, heterogeneous diffusion and a fraction of immobile particles. After a general introduction to the statistical description of slow, anomalous transport, we summarize some widely used theoretical models: Gaussian models like fractional Brownian motion and Langevin equations for visco-elastic media, the continuous-time random walk model, and the Lorentz model describing obstructed transport in a heterogeneous environment. Particular emphasis is put on the spatio-temporal properties of the transport in terms of two-point correlation functions, dynamic scaling behaviour, and how the models are distinguished by their propagators even if the MSDs are identical. Then, we review the theory underlying commonly applied experimental techniques in the presence of anomalous transport like single-particle tracking, fluorescence correlation spectroscopy (FCS) and fluorescence recovery after photobleaching (FRAP). We report on the large body of recent experimental evidence for anomalous transport in crowded biological media: in cyto- and nucleoplasm as well as in cellular membranes, complemented by in vitro experiments where a variety of model systems mimic physiological crowding conditions. Finally, computer simulations are discussed which play an important role in testing the theoretical models and corroborating the experimental findings. The review is completed by a synthesis of the theoretical and experimental progress identifying open questions for future investigation.

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Year:  2013        PMID: 23481518     DOI: 10.1088/0034-4885/76/4/046602

Source DB:  PubMed          Journal:  Rep Prog Phys        ISSN: 0034-4885


  138 in total

1.  Subdiffusive motion of bacteriophage in mucosal surfaces increases the frequency of bacterial encounters.

Authors:  Jeremy J Barr; Rita Auro; Nicholas Sam-Soon; Sam Kassegne; Gregory Peters; Natasha Bonilla; Mark Hatay; Sarah Mourtada; Barbara Bailey; Merry Youle; Ben Felts; Arlette Baljon; Jim Nulton; Peter Salamon; Forest Rohwer
Journal:  Proc Natl Acad Sci U S A       Date:  2015-10-19       Impact factor: 11.205

2.  Inferring diffusion dynamics from FCS in heterogeneous nuclear environments.

Authors:  Konstantinos Tsekouras; Amanda P Siegel; Richard N Day; Steve Pressé
Journal:  Biophys J       Date:  2015-07-07       Impact factor: 4.033

3.  Anomalous and heterogeneous DNA transport in biomimetic cytoskeleton networks.

Authors:  Jonathan Garamella; Kathryn Regan; Gina Aguirre; Ryan J McGorty; Rae M Robertson-Anderson
Journal:  Soft Matter       Date:  2020-06-19       Impact factor: 3.679

4.  Diffusion within the cytoplasm: a mesoscale model of interacting macromolecules.

Authors:  Fabio Trovato; Valentina Tozzini
Journal:  Biophys J       Date:  2014-12-02       Impact factor: 4.033

5.  Biased diffusion in three-dimensional comb-like structures.

Authors:  Alexander M Berezhkovskii; Leonardo Dagdug; Sergey M Bezrukov
Journal:  J Chem Phys       Date:  2015-04-07       Impact factor: 3.488

6.  Identifying transport behavior of single-molecule trajectories.

Authors:  Benjamin M Regner; Daniel M Tartakovsky; Terrence J Sejnowski
Journal:  Biophys J       Date:  2014-11-18       Impact factor: 4.033

7.  Dissecting protein reaction dynamics in living cells by fluorescence recovery after photobleaching.

Authors:  Marco Fritzsche; Guillaume Charras
Journal:  Nat Protoc       Date:  2015-04-02       Impact factor: 13.491

8.  Heterogeneities Shape Passive Intracellular Transport.

Authors:  Patrick Witzel; Maria Götz; Yann Lanoiselée; Thomas Franosch; Denis S Grebenkov; Doris Heinrich
Journal:  Biophys J       Date:  2019-06-18       Impact factor: 4.033

9.  Random Motion of Chromatin Is Influenced by Lamin A Interconnections.

Authors:  Fereydoon Taheri; Buse Isbilir; Gabriele Müller; Jan W Krieger; Giuseppe Chirico; Jörg Langowski; Katalin Tóth
Journal:  Biophys J       Date:  2018-05-11       Impact factor: 4.033

10.  Crowding induces complex ergodic diffusion and dynamic elongation of large DNA molecules.

Authors:  Cole D Chapman; Stephanie Gorczyca; Rae M Robertson-Anderson
Journal:  Biophys J       Date:  2015-03-10       Impact factor: 4.033

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