In this paper we consider the Boussinesq system with homogeneous Dirichlet boundary conditions, defined in a regular domain $ \Omega\subset\mathbb R^N $ for $ N = 2 $ and $ N = 3 $. The incompressibility condition of the fluid is replaced by its approximation by penalization with a small parameter $ \varepsilon > 0 $. We prove that our system is locally null controllable using a control with a restricted number of components, localized in an open set $ \omega $ contained in $ \Omega $. We also show that the control cost is bounded uniformly with respect to $ \varepsilon \rightarrow 0 $. The proof is based on a linearization argument. The null controllability of the linearized system is obtained by proving a new Carleman estimate for the adjoint system. This inequality is derived by exploiting the coercivity of some second order differential operator involving crossed derivatives.
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