Abstract
Stability of RNA viruses is explored in replica exchange molecular dynamics simulations. RNA is modeled as a branched polymer decorated with packaging signals attracted to icosahedral capsid sites. The osmotic pressure evaluated for all unique branched topologies reveals a complex dependence of capsid stability on genome topology and degree of confinement. The model predicts that MS2 bacteriophage should prefer packing RNA with linear topology, which agrees with previously postulated Hamiltonian path hypothesis.
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