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Porewater fluxes into or out of the sediments in aquatic systems are frequently estimated using Fick's First Law. This assumes that diffusive processes control the transport of nutrients. As a corollary, advection, bioturbation and chemical processes are assumed not to be significant. Through a series of sediment core incubations, this paper seeks to quantify the uncertainties involved in such assumptions. Duplicate sediment cores were collected from 28 sites along the Swan–Canning Estuary, returned to the laboratory and incubated under oxic or anoxic conditions. Porewater nutrient concentrations, sediment porosity and initial nutrient concentrations in the overlying water were measured. These parameters were used to estimate the expected nutrient fluxes via Fick's First Law. The estimated fluxes were then compared with measured fluxes of nutrients out of the sediments over the incubation period. Severe …