Modeling

To answer how the chromatin architecture affects the transport of viral capsids, we model the kinetic data from live cell imaging by using random walk modeling.  The simulations are carried out in a realistic model of the nucleus obtained via expansion microscopy and soft X-ray tomography reconstructions of the nucleus and chromatin. This permits the comparison of numerical simulations of particle dynamics with measurements to yield numerical values of transport parameters. The mechanical properties of the nucleus are remodeled by intranuclear modification induced by viral infection. Herpesvirus infection leads to the growth of the nuclear viral replication compartment and the dramatic reorganization of nuclear structures. Based on our experimental findings, we have created a mechanical model that provides a conceptual framework for the mechanistic coordination between the progression of infection and nuclear tension.                                 

Publications

Tervonen et al. HSV-1 infection induces changes in the mechanical properties of the nucleus. (Manuscript)

Aho V, Mäntylä E, Ekman A, Hakanen S, Mattola S, Chen J-H, S, Weinhardt V, Ruokolainen V, Sodeik B, Larabell CA, and Vihinen-Ranta M (2019). Quantitative microscopy reveals stepwise alteration of chromatin structure during herpesvirus infection. Viruses, 11 (10): 935.

Aho V, Myllys M, Ruokolainen V, Hakanen S, Mäntylä E,Virtanen J,Hukkanen V, Kühn T, Timonen J,Mattila K,Larabell C,and Vihinen-Ranta M (2017). Chromatin organization regulates viral egress dynamics. Sci Rep 7: 3692.

Kühn T, Ihalainen TO, Hyväluoma J, Dross N, Willman, SF, Langowski J, Vihinen-Ranta M and Timonen J (2011). Protein diffusion in mammalian cell cytoplasm. PLoS One 6(8): e22962.