In this paper, we introduce polytopes $${\mathscr {B}}_G$$
B
G
arising from root systems $$B_n$$
B
n
and finite graphs G, and study their combinatorial and algebraic properties. In particular, it is shown that $${\mathscr {B}}_G$$
B
G
is reflexive if and only if G is bipartite. Moreover, in the case, $${\mathscr {B}}_G$$
B
G
has a regular unimodular triangulation. This implies that the $$h^*$$
h
∗
-polynomial of $${\mathscr {B}}_G$$
B
G
is palindromic and unimodal when G is bipartite. Furthermore, we discuss stronger properties, namely the $$\gamma $$
γ
-positivity and the real-rootedness of the $$h^*$$
h
∗
-polynomials. In fact, if G is bipartite, then the $$h^*$$
h
∗
-polynomial of $${\mathscr {B}}_G$$
B
G
is $$\gamma $$
γ
-positive and its $$\gamma $$
γ
-polynomial is given by an interior polynomial (a version of the Tutte polynomial for a hypergraph). The $$h^*$$
h
∗
-polynomial is real-rooted if and only if the corresponding interior polynomial is real-rooted. From a counterexample to Neggers–Stanley conjecture, we construct a bipartite graph G whose $$h^*$$
h
∗
-polynomial is not real-rooted but $$\gamma $$
γ
-positive, and coincides with the h-polynomial of a flag triangulation of a sphere.