Intersecting Brane Vacua and Non-perturbative Transitions

We discuss the process of transmutation of branes into Abelian magnetic flux on the worldvolume of $D9$ branes. This phenomenon is T-dual to the recombination of branes in the intersecting-brane description. In the low energy limit this can be described by a Higgs mechanism involving bifundamental scalars. The Abelian magnetic background arises as a consequence of the compactness of the internal space. Explicit (six-dimensional) examples based on the supersymmetric and the Brane Supersymmetry Breaking (BSB) $\mathbb{T}$^4/$\mathbb{Z}$_2 orientifold are analyzed.