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The paper covers the development and research of computational structure for mathematical modelling of hydrobiological processes for water with complex bottom geometry, based on the modern information technologies and computational methods. The models used in modelling take into account following: microturbulent diffusion; gravitational settling of pollutants; plankton populations nonlinear interaction; the salinity impact, temperature. The scheme with weights was proposed for discretization of the developed model, that allowed significantly reduce the error and the computational time. Practical significance of the work is that the proposed model was software implemented; the limits and prospects of its use were defined. The experimental software was designed on the basis of a graphics accelerator for mathematical modelling of possible development scenarios of the waters with complex bottom geometry, taking into account the environment influence. Parallel implementation was performed using the decomposition methods for computationally labours diffusion-convection problems taking into account the CUDA architecture characteristics.

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The paper describes the construction of a three-dimensional mathematical model of biogeochemical processes, considering the salinity and temperature influence on the phytoplankton populations development. The paper proposes a new difference scheme for solving convection-diffusion-reaction problems at large values of the Peclet grid number (2<Pe≤20), which is a linear combination of the central and the upwind leapfrog difference schemes. The three-layer difference scheme is more accurate than the traditional upwind leapfrog difference scheme for problems where convection prevails over diffusion. The construction of discrete equations for solving the problem of biogeochemical cycles on the basis of the scheme considering the filling of cells is described. The stationary regimes of phytoplankton dynamics problem were researched considering the transformation of phosphorus, nitrogen and silicon forms. Results of software complex, which allows to simulate biogeochemical processes in the Azov Sea, were described. The software package allows to forecast the dynamics of the Azov Sea ecosystem development in the conditions of modern salinization.