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This paper develops a fractional-order chemostat model for biological water treatment using a Caputo fractional derivative with sliding memory (CFDS) to represent history-dependent microbial dynamics. We pose an optimal control problem that minimizes average pollutant concentration through periodic dilution-rate modulation subject to operational constraints. The analysis reduces the dynamics to a one-dimensional fractional differential equation, establishes existence and uniqueness of an optimal periodic solution, and derives the corresponding bang-bang control via the fractional Pontryagin maximum principle combined with a Fourier–Gegenbauer pseudospectral scheme. Sensitivity results show that the fractional order
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