Dataset DOI: 10.5061/dryad.n5tb2rc1k

Description of the data and file structure

FL_Bay_Ecospace.eweaccdb

Project file for the Florida Bay Ecospace model. This project file can be opened with the open source Ecopath software (http://ecopath.org) and is pre-loaded with the basic input in the Ecopath_basic_input.zip folder, an Ecosim scenario ("ecosim_scenario") using the Ecosim_Time_Series_2006-2016.csv file, habitat response curves using data within the HFC_Response_Curves.zip folder, and two Ecospace scenarios ("current_scenario" and "future_scenario") based on the spatial data within the Ecospace_Spatial_Data.zip folder.

Ecopath_basic_input.zip

These data include the basic input data required to run the Florida Bay Ecospace model. This folder includes all input parameters needed to load the mass-balanced model, including initial biomass, predator-prey diet matrix, and predator-prey vulnerability indices.

Ecosim_Time_Series_2006-2016.csv

This time series is required to run Ecosim (Ecosim > Load Time Series) for implementing the temporal dynamics of nutrients and biomass validations. This file is in the required format for Ecosim, where row 1 is the group name, row 2 is the pool code, and row 3 is the type (biomass, catch). The matrix is filled with the values associated with the type for each time step in the model. Each function group has a biomass time series (type 0), while each fishery species has an effort (type 3) and catch time series (type 6) associated.

Ecospace_Spatial_Data.zip

These spatial data are ascii raster images, loaded at the appropriate time series scale of Ecospace’s spatial temporal framework (Steenbeek et al. 2013). These files are loaded under Ecospace > Define Habitats and > Define Environmental Driver Maps. This folder includes subfolders for each temporal environmental raster loaded into the Ecospace model at monthly time steps, including salinity, salinity standard deviation, temperature, nutrient loads, and seagrass.

HFC_Response_Curves.zip

These data include the .csv files to load the response curves needed to implement the habitat foraging capacity (HFC) model (Christensen et al. 2014). These files are loaded under Ecosim > Input > Environmental responses, and are formatted as required for integration. Each csv file is associated with a function group (file name structure: "response.functionalgroup"), and includes the response curves for all environmental rasters used in the Ecospace model (salinity, salinity standard deviation, temperature, depth, and distance to mangroves).

References

Christensen, V., Coll, M., Steenbeek, J., Buszowski, J., Chagaris, D., & Walters, C. J. (2014). Representing variable habitat quality in a spatial food web model. Ecosystems, 17(8), 1397-1412.

Steenbeek, J., Coll, M., Gurney, L., Mélin, F., Hoepffner, N., Buszowski, J., & Christensen, V. (2013). Bridging the gap between ecosystem modeling tools and geographic information systems: Driving a food web model with external spatial–temporal data. Ecological Modelling, 263, 139-151.

Files and variables

File: FL_Bay_Ecospace.eweaccdb

Description: Ecopath file for the Florida Bay Ecospace model.

File: Florida Bay-Basic input.csv

Description: Initial parameters needed to load the mass-balanced Ecopath model.

Variables

• Group name: name of each function group
• Hab area (proportion): proportion of study area occupied
• Biomass in habitat area (t/km^2): biomass per unit of habitat area
• Production / biomass (/year): productivity rate
• Consumption / biomass (/year): consumption rate relative to its biomass
• Unassim. comsumption: fraction of food not assimiliated in body

File: Florida Bay-Diet composition.csv

Description: Matrix of dietary cosumption proportions (0-1) by predators (columns) on prey (rows), organized by function group name and number.

File: Florida Bay-Vulnerabilities.csv

Description: Matrix of prey vulnerabilities of prey (rows) to predators (columns) organized by function group name and number. A low vulnerability indicates a small portion of the prey population available to predators, while higher vulnerabilities indicate larger portions of the prey population are available to predators.

File: Ecosim_Time_Series_2006-2016.csv

Description: Time series for Ecosim calibrations

Variables

• Biomass: biomass (t/km²) for each function group
• Effort: fishing effort in number of trips
• Catch: fishing catch in numbers of fish
• CPUE: catch per unit effort (number of fish/trip)

File: HFC_Response_Curves.zip

Description: each function group has a unique csv with the following naming structure: "response.functionalgroup.csv"

Variables

• Salinity: salinity (PSU)
• SalinitySD: standard deviation of Salinity
• Temperature: surface water temperature (Celcius)
• Depth: water depth (m)
• DistMangroves: Euclidian distance to mangrove (m)

File: Ecospace_Spatial_Data.zip

Description: two folders containing (1) basemaps_asii: static maps for each current and future scenario tested, and (2) temporal_maps_ascii: monthly temporal maps.

basemaps_aii (_current and _future subfolders)

• chla: chlorophyll a (mg/L) as proxy for nutrient loading
• depth: static depth (m) under current (depth_current) and future (depth_future) conditions
• distmangroves: euclidian distance (m) to mangrove cover
• salinity: mean salinity (PSU) 2006-2016
• salinitySD: salinity standard deviation 2006-2016
• seagrass: static seagrass rasters under current (seagrass_current) and future (seagrass_future) conditions
• temperature: mean sea surface temperature 2006-2016

temporal_maps_asii

• nutrientascii subfolder: monthly nutrient (chlorophyll a) rasters named as chlayyymmdd
• salinityascii subfolder: monthly salinity (PSU) rasters named as salyyymmdd
• salsdascii subfolder: monthly salinity standard deviation rasters named as salsdyyymmdd
• sstascii subfolder: monthly sea surface temperature rasters named as sstyyymmdd

Code/software

All data (spreadsheet and raster) can all be viewed with open sourced software such as R. To run the models, the free and open source Ecopath with Ecosim software is required, as well as the subscription plugin, Spatiotemporal Data Framework, which requires an EwE Professional License (ecopath.org). 

Access information

Data was derived from the following sources:

• Depth, mangrove cover, fish biomass: Florida Fish and Wildlife Conservation Commission (https://geodata.myfwc.com)
• Fishery catch and effort: Everglades National Park creel survey (available by request)
• Sea surface temperature, salinity, chlorophyll a: South Florida Water Management District (https://www.sfwmd.gov/science-data/dbhydro)
• Seagrass cover: Herbert, D. A., Perry, W. B., Cosby, B. J., & Fourqurean, J. W. (2011). Projected reorganization of Florida Bay seagrass communities in response to the increased freshwater inflow of everglades restoration. Estuaries and Coasts, 34(5), 973–992.