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An assessment of the effects of low freshwater inflow conditions on the biota of Chesapeake Bay was conducted through use of data output from the U.S. Army Corps of Engineers' Cheasapeake Bay Hydraulic Model. Phase I of the biota assessment focussed on methodology development and establishment of a baseline for determination of freshwater inflow-induced change. Physical and chemical information, along with salinity tolerance and other habitat related information was collected for a group of over 50 study organisms. In Phase II of the assessment, four sets of hydraulic model test conditions (scenarios) were used which simulated effects of drought and effects of future consumptive water use as deviations from present average flow conditions. Changes in habitat for the selected study organisms were predicted and mapped based on salinity and other variables. Changes in habitat, which were used to delineate the amount of impact from reduced freshwater inflow, were found to include increases and decreases depending on the species, its lifecycle, tolerances, and interactions with other organisms. The magnitude of habitat change was found to generally increase as salinity changes increased.