We prove that a Murai sphere is flag if and only if it is a nerve complex of a flag nestohedron and classify all the polytopes arising in this way. Our classification implies that flag Murai spheres satisfy the Nevo-Petersen conjecture on $γ$-vectors of flag homology spheres. We continue by showing that a Bier sphere is minimally non-Golod if and only if it is a nerve complex of a truncation polytope different from a simplex and classify all the polytopes arising in this way. Finally, the notion of a cubical Bier sphere is introduced based on the polyhedral product construction, and we study combinatorial and geometrical properties of these cubical complexes.