Programmable structural dynamics successful for first time in self-organizing fiber structures.
Cells assemble dynamically: their components are continuously exchanging and being replaced. This enables the structures to adapt easily to different situations, and by rearranging the components to respond to stimuli faster, to renew or to form just on demand. The microtubules, a scaffold structure made of protein fibers that can be found in the cytoplasm of the cells of algae, plants, fungi, animals and humans, are one such dynamic mesh. Because of their self-organizing structure, these fibers constantly form and degrade at the same time, thereby actively supporting the cell in complex tasks such as cell division or locomotion. The fibers require energy to form and maintain such dynamic states.
Now, for the first time, Prof. Dr. Andreas Walther and Dr. Laura Heinen from the Institute for Macromolecular Chemistry and the Center of Interactive Materials and Bioinspired Technologies (FIT) at the University of Freiburg have succeeded in programming the dynamics of such dissipative, i.e. energy-consuming, structures in an artificial chemical system on the basis of DNA components. The researchers present their results in the latest edition of the journal Science Advances.
The difficulty of programmable structural dynamics in synthetic dissipative systems is the synchronization of the energetic deactivation and activation with the structural build-up and degradation of the components. The Freiburg researchers were able to solve the problem by using an energy-driven, dynamic covalent bond, that is responsible for the firm cohesion of atoms, in the backbone of the DNA sequences. The covalent bond is herein formed through the catalytic activity of the enzyme T4 DNA ligase, and simultaneously split at the very same site by a restriction enzyme, which can recognize and cut DNA at specific positions. This newly-formed system is reversible and results directly in structural dynamics, which distinguishes it from previous artificially-generated dissipative structures.
The study, which took place with the aid of Walther's ERC Starting Grant "TimeProSAMat", uses the dynamic synthesis of a polymer of DNA fragments, to show scientists how the lifetime, exchange frequency, or relative bond fraction of the DNA polymers can be controlled in dependence of the chemical fuel adenosine triphosphate and the enzyme concentrations. The Freiburg researchers were able to sustain these dynamic steady states for several days. The chemical modifications of DNA to use it as a construction material are versatile and there are also many available restriction enzymes, explains Heinen, "So our concept enables wide-ranging access to innovative functional materials, which act outside thermodynamic equilibrium. And it does so with so far unique programming possibilities in its dynamic structural characteristics."
Heinen, L., Walther, A. (2019): Programmable dynamic steady states in ATP-driven nonequilibrium DNA systems. In: Science Advances. Vol. 5, no. 7. DOI: 10.1126/sciadv.aaw0590
Prof. Dr. Andreas Walther
Institute for Macromolecular Chemistry and FIT – Freiburg Center of Interactive Materials and Bioinspired Technologies
University of Freiburg