Predicting chemical environments of bacteria from receptor signaling

PLoS Comput Biol. 2014 Oct 23;10(10):e1003870. doi: 10.1371/journal.pcbi.1003870. eCollection 2014 Oct.

Abstract

Sensory systems have evolved to respond to input stimuli of certain statistical properties, and to reliably transmit this information through biochemical pathways. Hence, for an experimentally well-characterized sensory system, one ought to be able to extract valuable information about the statistics of the stimuli. Based on dose-response curves from in vivo fluorescence resonance energy transfer (FRET) experiments of the bacterial chemotaxis sensory system, we predict the chemical gradients chemotactic Escherichia coli cells typically encounter in their natural environment. To predict average gradients cells experience, we revaluate the phenomenological Weber's law and its generalizations to the Weber-Fechner law and fold-change detection. To obtain full distributions of gradients we use information theory and simulations, considering limitations of information transmission from both cell-external and internal noise. We identify broad distributions of exponential gradients, which lead to log-normal stimuli and maximal drift velocity. Our results thus provide a first step towards deciphering the chemical nature of complex, experimentally inaccessible cellular microenvironments, such as the human intestine.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Cellular Microenvironment / physiology*
  • Chemotaxis / physiology*
  • Computational Biology / methods*
  • Computer Simulation
  • Escherichia coli / physiology*
  • Information Theory
  • Models, Biological*
  • Models, Chemical

Grants and funding

VS acknowledges support from the European Research Council Advanced Grant Nr. 294761-MicRobE. GM and RGE were supported by the European Research Council Starting Grant Nr. 280492-PPHPI. Link to European Research Council grants: http://erc.europa.eu/funding-schemes. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.