This paper proposes a conceptual revisiting of population dynamics to include heterogeneous behaviors of individuals, mutations, and selection. The first part of the paper focuses on the derivation of a general mathematical structure which permits to describe systems composed of individuals whose interactions are stochastic. Hybrid models where some of the populations follow a deterministic dynamics are also discussed. The second part deals with two specific applications, namely the effect of the cellular aging in the virus infection process and the dynamics of virus mutation and competition with the immune system. Sample simulations are presented and classical models of population dynamics are critically analyzed in light of the proposed approach.

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