---
_id: '281'
abstract:
- lang: eng
  text: 'Although cells respond specifically to environments, how environmental identity
    is encoded intracellularly is not understood. Here, we study this organization
    of information in budding yeast by estimating the mutual information between environmental
    transitions and the dynamics of nuclear translocation for 10 transcription factors.
    Our method of estimation is general, scalable, and based on decoding from single
    cells. The dynamics of the transcription factors are necessary to encode the highest
    amounts of extracellular information, and we show that information is transduced
    through two channels: Generalists (Msn2/4, Tod6 and Dot6, Maf1, and Sfp1) can
    encode the nature of multiple stresses, but only if stress is high; specialists
    (Hog1, Yap1, and Mig1/2) encode one particular stress, but do so more quickly
    and for a wider range of magnitudes. In particular, Dot6 encodes almost as much
    information as Msn2, the master regulator of the environmental stress response.
    Each transcription factor reports differently, and it is only their collective
    behavior that distinguishes between multiple environmental states. Changes in
    the dynamics of the localization of transcription factors thus constitute a precise,
    distributed internal representation of extracellular change. We predict that such
    multidimensional representations are common in cellular decision-making.'
acknowledgement: This work was supported by the Biotechnology and Biological Sciences
  Research Council (J.M.J.P., I.F., and P.S.S.), the Engineering and Physical Sciences
  Research Council (EPSRC) (A.A.G.), and Austrian Science Fund Grant FWF P28844 (to
  G.T.).
article_processing_charge: No
article_type: original
author:
- first_name: Alejandro
  full_name: Granados, Alejandro
  last_name: Granados
- first_name: Julian
  full_name: Pietsch, Julian
  last_name: Pietsch
- first_name: Sarah A
  full_name: Cepeda Humerez, Sarah A
  id: 3DEE19A4-F248-11E8-B48F-1D18A9856A87
  last_name: Cepeda Humerez
- first_name: Isebail
  full_name: Farquhar, Isebail
  last_name: Farquhar
- first_name: Gasper
  full_name: Tkacik, Gasper
  id: 3D494DCA-F248-11E8-B48F-1D18A9856A87
  last_name: Tkacik
  orcid: 0000-0002-6699-1455
- first_name: Peter
  full_name: Swain, Peter
  last_name: Swain
citation:
  ama: Granados A, Pietsch J, Cepeda Humerez SA, Farquhar I, Tkačik G, Swain P. Distributed
    and dynamic intracellular organization of extracellular information. <i>PNAS</i>.
    2018;115(23):6088-6093. doi:<a href="https://doi.org/10.1073/pnas.1716659115">10.1073/pnas.1716659115</a>
  apa: Granados, A., Pietsch, J., Cepeda Humerez, S. A., Farquhar, I., Tkačik, G.,
    &#38; Swain, P. (2018). Distributed and dynamic intracellular organization of
    extracellular information. <i>PNAS</i>. National Academy of Sciences. <a href="https://doi.org/10.1073/pnas.1716659115">https://doi.org/10.1073/pnas.1716659115</a>
  chicago: Granados, Alejandro, Julian Pietsch, Sarah A Cepeda Humerez, Isebail Farquhar,
    Gašper Tkačik, and Peter Swain. “Distributed and Dynamic Intracellular Organization
    of Extracellular Information.” <i>PNAS</i>. National Academy of Sciences, 2018.
    <a href="https://doi.org/10.1073/pnas.1716659115">https://doi.org/10.1073/pnas.1716659115</a>.
  ieee: A. Granados, J. Pietsch, S. A. Cepeda Humerez, I. Farquhar, G. Tkačik, and
    P. Swain, “Distributed and dynamic intracellular organization of extracellular
    information,” <i>PNAS</i>, vol. 115, no. 23. National Academy of Sciences, pp.
    6088–6093, 2018.
  ista: Granados A, Pietsch J, Cepeda Humerez SA, Farquhar I, Tkačik G, Swain P. 2018.
    Distributed and dynamic intracellular organization of extracellular information.
    PNAS. 115(23), 6088–6093.
  mla: Granados, Alejandro, et al. “Distributed and Dynamic Intracellular Organization
    of Extracellular Information.” <i>PNAS</i>, vol. 115, no. 23, National Academy
    of Sciences, 2018, pp. 6088–93, doi:<a href="https://doi.org/10.1073/pnas.1716659115">10.1073/pnas.1716659115</a>.
  short: A. Granados, J. Pietsch, S.A. Cepeda Humerez, I. Farquhar, G. Tkačik, P.
    Swain, PNAS 115 (2018) 6088–6093.
date_created: 2018-12-11T11:45:35Z
date_published: 2018-06-05T00:00:00Z
date_updated: 2026-04-08T13:55:45Z
day: '05'
department:
- _id: GaTk
doi: 10.1073/pnas.1716659115
external_id:
  isi:
  - '000434114900071'
  pmid:
  - '29784812'
intvolume: '       115'
isi: 1
issue: '23'
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: https://www.biorxiv.org/content/early/2017/09/21/192039
month: '06'
oa: 1
oa_version: Preprint
page: 6088 - 6093
pmid: 1
project:
- _id: 254E9036-B435-11E9-9278-68D0E5697425
  call_identifier: FWF
  grant_number: P28844-B27
  name: Biophysics of information processing in gene regulation
publication: PNAS
publication_status: published
publisher: National Academy of Sciences
publist_id: '7618'
quality_controlled: '1'
related_material:
  record:
  - id: '6473'
    relation: part_of_dissertation
    status: public
scopus_import: '1'
status: public
title: Distributed and dynamic intracellular organization of extracellular information
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 115
year: '2018'
...