In vivo biophysics of signaling and behavior

Group leader: Prof. dr. Tom Shimizu

We are searching for motivated students and postdocs to join our group

Living cells sense and respond to their environment by an intricate web of molecular interactions. Inasmuch as their designs are dictated by the problems they solve, such networks can be considered primitive algorithms derived by natural selection.

We aim to link the temporal dynamics of intracellular signaling networks to the constraints imposed by behavioral performance and evolution.  Can naturally evolved systems be understood in the same language that engineers use to design machines for a specific purpose? Or are there fundamental design principles peculiar to the continuously evolving biological world? How plastic are these signaling algorithms over evolutionary time scales? Microbes can serve as an excellent vehicle for probing such questions, as the time scales involved in signaling, behavior and evolution are all amenable to laboratory experiments.

Group Members

We combine experiment with theory to tackle these problems. Fluorescence microscopy and spectroscopy techniques allow us to probe molecular responses to dynamically varying chemical stimuli in living cells. Such physiological measurements constrain mechanistic models of signaling, the parameter space of which can be explored again experimentally by genetic alterations of the organism. We are also designing microfluidic chambers in which behavior of individual cells and populations can be interrogated by video microscopy, to link specific signaling network topologies and parameter sets to behavioral performance.

  • Het evolutionaire nut van mobiliteit

    Read more

  • Researchers discover new mechanism for the coexistence of species

    Researchers from AMOLF  and Harvard University (USA) show how the ability of organisms to move around plays a role in stabilizing ecosystems. In their paper published 19 February 2020 in …

    Read more

  • Internationale beurs voor onderzoek naar symbiotische netwerken

    AMOLF-groepsleider Tom Shimizu (Systems Biology) heeft samen met collega-onderzoekers uit Nederland, de Verenigde Staten en Japan een beurs van 1,2 M€ ontvangen van het Human Frontier Science Program (HFSP). Naast …

    Read more

  • International award for research on symbiotic networks

    Read more

Read more news articles