We study the dynamical stability of the BTZ black string against fermonic and gravitational perturbations. The BTZ black string is not always stable against these perturbations. There exist threshold values for $m^2$ related to the compactification of the extra dimension for fermonic perturbation, scalar part of the gravitational perturbation and the tensor perturbation, respectively. Above the threshold values, perturbations are stable; while below these thresholds, perturbations can be unstable. We find that this non-trivial stability behavior qualitatively agrees with that predicted by a thermodynamical argument, showing that the BTZ black string phase is not the privileged stable phase.

9 pages, revised version to appear in Phys. Rev. D