Bundling of Rods

This project studies the aggregation of rod-like molecules into bundles. The rod-like molecules could be fibrous proteins (including fibrin which is of interest for the red blood cell rouleaux formation), structures such as microtubules or actin filaments, or even rod-like virus. Our simulation results include some exciting results such as finding that for a certain concentration of depletants, long rods will aggregate while short rods will not. This finding suggests methods of separating rod-like molecules using depletants. We have also found that aggregation depends on the stiffness of the rod and under some conditions stiff rods will stick together while flexible ones will not. Hence, it may be possible to separate rod-like molecules by stiffness using depletants. These findings are interesting for the development of detection and separation technologies.

Related Manuscripts:

Shendruk TN, Bertrand M, de Haan HW, Harden JL, Slater GW, "Simulating the Entropic Collapse of Coarse-Grained Chromosomes", Biophysical Journal, 108(4), 810-820 (2015).

Shendruk TN, Bertrand M, Harden JL, Slater GW, de Haan HW,"Coarse-Grained Molecular Dynamics Simulations of Depletion-Induced Interactions for Soft Matter Systems", Journal of Chemical Physics, 141, 244910 (2014).

      Hendrick de Haan : hendrick.dehaan@uoit.ca       ||       faculty.uoit.ca/dehaan/cNAB.LAB