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Protein diffusion in mammalian cell cytoplasm

Tutkimustuotosvertaisarvioitu

Standard

Protein diffusion in mammalian cell cytoplasm. / Kühn, Thomas; Ihalainen, Teemu O.; Hyväluoma, Jari; Dross, Nicolas; Willman, Sami F.; Langowski, Jörg; Vihinen-Ranta, Maija; Timonen, Jussi.

julkaisussa: PLoS ONE, Vuosikerta 6, Nro 8, e22962, 2011.

Tutkimustuotosvertaisarvioitu

Harvard

Kühn, T, Ihalainen, TO, Hyväluoma, J, Dross, N, Willman, SF, Langowski, J, Vihinen-Ranta, M & Timonen, J 2011, 'Protein diffusion in mammalian cell cytoplasm', PLoS ONE, Vuosikerta. 6, Nro 8, e22962. https://doi.org/10.1371/journal.pone.0022962

APA

Kühn, T., Ihalainen, T. O., Hyväluoma, J., Dross, N., Willman, S. F., Langowski, J., ... Timonen, J. (2011). Protein diffusion in mammalian cell cytoplasm. PLoS ONE, 6(8), [e22962]. https://doi.org/10.1371/journal.pone.0022962

Vancouver

Kühn T, Ihalainen TO, Hyväluoma J, Dross N, Willman SF, Langowski J et al. Protein diffusion in mammalian cell cytoplasm. PLoS ONE. 2011;6(8). e22962. https://doi.org/10.1371/journal.pone.0022962

Author

Kühn, Thomas ; Ihalainen, Teemu O. ; Hyväluoma, Jari ; Dross, Nicolas ; Willman, Sami F. ; Langowski, Jörg ; Vihinen-Ranta, Maija ; Timonen, Jussi. / Protein diffusion in mammalian cell cytoplasm. Julkaisussa: PLoS ONE. 2011 ; Vuosikerta 6, Nro 8.

Bibtex - Lataa

@article{2e047a422c4640728dfd93f326e7e85d,
title = "Protein diffusion in mammalian cell cytoplasm",
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.",
author = "Thomas K{\"u}hn and Ihalainen, {Teemu O.} and Jari Hyv{\"a}luoma and Nicolas Dross and Willman, {Sami F.} and J{\"o}rg Langowski and Maija Vihinen-Ranta and Jussi Timonen",
year = "2011",
doi = "10.1371/journal.pone.0022962",
language = "English",
volume = "6",
journal = "PLoS ONE",
issn = "1932-6203",
publisher = "Public Library of Science",
number = "8",

}

RIS (suitable for import to EndNote) - Lataa

TY - JOUR

T1 - Protein diffusion in mammalian cell cytoplasm

AU - Kühn, Thomas

AU - Ihalainen, Teemu O.

AU - Hyväluoma, Jari

AU - Dross, Nicolas

AU - Willman, Sami F.

AU - Langowski, Jörg

AU - Vihinen-Ranta, Maija

AU - Timonen, Jussi

PY - 2011

Y1 - 2011

N2 - 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.

AB - 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.

UR - http://www.scopus.com/inward/record.url?scp=84855602279&partnerID=8YFLogxK

U2 - 10.1371/journal.pone.0022962

DO - 10.1371/journal.pone.0022962

M3 - Article

VL - 6

JO - PLoS ONE

JF - PLoS ONE

SN - 1932-6203

IS - 8

M1 - e22962

ER -