We develop a new integrated dynamical model to investigate the effects of the hydrodynamic fluctuations on observables in high-energy nuclear collisions. We implement hydrodynamic fluctuations in a fully 3-D dynamical model consisting of the hydrodynamic initialization models of the Monte-Carlo Kharzeev-Levin-Nardi model, causal dissipative hydrodynamics and the subsequent hadronic cascades. By analyzing the hadron distributions obtained by massive event-by-event simulations with both of hydrodynamic fluctuations and initial-state fluctuations, we discuss the effects of hydrodynamic fluctuations on the flow harmonics, $v_n$ and their fluctuations.