Protein diffusion in mammalian cell cytoplasm

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dc.contributor.author Kühn, Thomas
dc.contributor.author Ihalainen, Teemu
dc.contributor.author Hyväluoma, Jari
dc.contributor.author Dross, Nicholas
dc.contributor.author Willman, Sami
dc.contributor.author Langovski, Jörg
dc.contributor.author Vihinen-Ranta, Maija
dc.contributor.author Timonen, Jussi
dc.date.accessioned 2011-12-19T11:20:08Z
dc.date.available 2011-12-19T11:20:08Z
dc.date.issued 2011
dc.identifier.citation Kühn, T., Ihalainen, T., Hyväluoma, J., Dross, N., Willman, S., Langovski, J., Vihinen-Ranta, M. & Timonen, J. (2011). Protein diffusion in mammalian cell cytoplasm. PLoS ONE , 6 (8), e22962.
dc.identifier.issn 1932-6203
dc.identifier.other TUTKAID_46614
dc.identifier.uri http://hdl.handle.net/123456789/37114
dc.description.abstract We introduce a new method for mesoscopic modeling of protein diffusion in an entire cell. This method is based on the construction of a three-dimensional digital model cell from confocal microscopy data. The model cell is segmented into the cytoplasm, nucleus, plasma membrane, and nuclear envelope, in which environment protein motion is modeled by fully numerical mesoscopic methods. Finer cellular structures that cannot be resolved with the imaging technique, which significantly affect protein motion, are accounted for in this method by assigning an effective, position-dependent porosity to the cell. This porosity can also be determined by confocal microscopy using the equilibrium distribution of a non-binding fluorescent protein. Distinction can now be made within this method between diffusion in the liquid phase of the cell (cytosol/nucleosol) and the cytoplasm/nucleoplasm. Here we applied the method to analyze fluorescence recovery after photobleach (FRAP) experiments in which the diffusion coefficient of a freely-diffusing model protein was determined for two different cell lines, and to explain the clear difference typically observed between conventional FRAP results and those of fluorescence correlation spectroscopy (FCS). A large difference was found in the FRAP experiments between diffusion in the cytoplasm/nucleoplasm and in the cytosol/nucleosol, for all of which the diffusion coefficients were determined. The cytosol results were found to be in very good agreement with those by FCS.
dc.language.iso eng
dc.publisher Public Library of Science (PLoS)
dc.relation.ispartof PLoS ONE
dc.relation.uri http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0022962
dc.rights © 2011 Kühn et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
dc.subject.other solu fi
dc.subject.other solulima fi
dc.subject.other proteiinin diffuusio fi
dc.subject.other cell en
dc.subject.other cytoplasm en
dc.subject.other protein diffusion en
dc.title Protein diffusion in mammalian cell cytoplasm
dc.type Article en
dc.identifier.urn URN:NBN:fi:jyu-2011121511804
dc.subject.kota 114
dc.contributor.laitos The Department of Biological and Environmental Science en
dc.contributor.laitos Bio- ja ympäristötieteiden laitos fi
dc.contributor.oppiaine teoreettinen fysiikka fi
jyx.tutka.volyme 6
jyx.tutka.mnumber 8
jyx.tutka.pagetopage e22962
dc.type.uri http://purl.org/eprint/type/JournalArticle
dc.date.updated 2011-12-15T04:30:10Z
dc.description.version Publisher's PDF
eprint.status http://purl.org/eprint/type/status/PeerReviewed

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