These files house the data collected during 2013 in lower Pensacola Bay. The data were used to estimate aquatic primary production and respiration. This dataset is associated with the following publication: Caffrey, J., M. Murrell , K. Amacker, J. Harper, S. Phipps, and M. Woodrey. Seasonal and interannual patterns in primary production, respiration and net ecosystem metabolism in three estuaries in the northeast Gulf of Mexico. Estuaries and Coasts. Estuarine Research Federation, Port Republic, MD, USA, 20, (2013).

Here we archive data collected during a nitrogen addition field experiment in the Sacramento River Deep Water Ship Channel. Calcium nitrate was added on 8 dates to a segment of the ship channel centered at Navigation Light 74. Prior to and following the nutrient additions, we collected water samples and sensor-based measurements at 7 sites between Navigation Light 70 and 76. Water samples for nutrient analyses were collected in 500 mL High Density Poly Ethylene (HDPE) amber containers from 1 m and 8 m depths using a peristaltic pump. Whole water samples for phytoplankton analysis were collected from 1 m depth in 500 mL clear HDPE containers and immediately preserved with 20 mL of Lugol’s iodine solution (Lugol’s, ENG Scientific, Inc.). We collected a vertically integrated zooplankton sample by lowering a 163 µM net to 8 m (~1 m off the bottom) and raised it using an electric winch. We transferred seston contents into new 250 mL HDPE containers and immediately preserved them with 10 mL of Lugol’s. A 1-mL unfiltered water sample from the surface was collected for bacterioplankton abundance. Vertical profiles of temperature, conductivity, dissolved oxygen, pH, turbidity, and algal fluorescence were made using a YSI EXO2 sonde. Measurements were made at 0.5 m and at 1 m resolution to the bottom. The sensor was allowed to stabilize at each depth for at least 10 seconds prior to data acquisition. In total, we sampled on 27 dates between July 8 and August 26, 2019. Lastly, we also report data used in metabolism calculations. Data include 3 methods for estimating metabolism based on continuous DO measurements, laboratory incubations, and an isotope model. Ancillary data include light extinction, stratification strength, wind speed, and gas transfer velocity, Metabolism measurements range from July 2 to September 18, 2019.

Here we archive data collected during a nitrogen addition field experiment in the Sacramento River Deep Water Ship Channel. Calcium nitrate was added on 8 dates to a segment of the ship channel centered at Navigation Light 74. Prior to and following the nutrient additions, we collected water samples and sensor-based measurements at 7 sites between Navigation Light 70 and 76. Water samples for nutrient analyses were collected in 500 mL High Density Poly Ethylene (HDPE) amber containers from 1 m and 8 m depths using a peristaltic pump. Whole water samples for phytoplankton analysis were collected from 1 m depth in 500 mL clear HDPE containers and immediately preserved with 20 mL of Lugol’s iodine solution (Lugol’s, ENG Scientific, Inc.). We collected a vertically integrated zooplankton sample by lowering a 163 µM net to 8 m (~1 m off the bottom) and raised it using an electric winch. We transferred seston contents into new 250 mL HDPE containers and immediately preserved them with 10 mL of Lugol’s. A 1-mL unfiltered water sample from the surface was collected for bacterioplankton abundance. Vertical profiles of temperature, conductivity, dissolved oxygen, pH, turbidity, and algal fluorescence were made using a YSI EXO2 sonde. Measurements were made at 0.5 m and at 1 m resolution to the bottom. The sensor was allowed to stabilize at each depth for at least 10 seconds prior to data acquisition. In total, we sampled on 27 dates between July 8 and August 26, 2019. Lastly, we also report data used in metabolism calculations. Data include 3 methods for estimating metabolism based on continuous DO measurements, laboratory incubations, and an isotope model. Ancillary data include light extinction, stratification strength, wind speed, and gas transfer velocity, Metabolism measurements range from July 2 to September 18, 2019.

This dataset includes picophytoplankton abundance and biomass data collected using CTD and Trace Metal Free (TM) Rosette bottle on the Nathaniel B. Palmer on cruise 97-01 from Jan 13 - Feb 8, 1997, for the U.S. JGOFS AESOP Southern Oceans project by Dr. Rob Olson and Heidi Sosik, Woods Hole Oceanographic Institution.

This study examined the impact of long-term shifts in water temperature and salinity as a result of climate change on the biomasses of important fisheries species within oyster sanctuary sites in the Choptank and Little Choptank river complex in Chesapeake Bay using an Ecopath with Ecosim food web model. The model was used to evaluate changes in the oyster reef food web, with particular emphasis on impacts to striped bass (Morone saxatilis), blue crab (Callinectes sapidus), and Eastern oysters (Crassostrea virginica). Eight different climate change scenarios were used to vary water temperature and salinity within Chesapeake Bay up to the year 2100 based on projections given by previous studies. The scenarios are as follows: No change: continuation of observed water temperature and salinity High temp: Temperature increase of 4C Low sal: Salinity decrease of 2 ppt High sal: Salinity increase of 12 ppt High temp & low sal: temperature increase of 4C and salinity decrease of 2 ppt High temp & high sal: temperature increase of 4C and salinity increase of 12 ppt Mod sal: salinity increase of 10 ppt High temp & mod sal: temperature increase of 4C and salinity increase of 10 ppt Data from 2006-2016 represent observed measurements, while data spanning 2017-2100 pertain to the future simulations. All values during the observed time period are yearly averages. Variable values for all scenarios (including Observed) are spatially averaged across the study area. The observed biomass measurements were estimated from a variety of sources, including field data for the region, existing models of Chesapeake Bay and a literature review (described in the Knoche et al. 2020 paper). The food web model used in this study was originally developed for the Knoche et al. paper. This study used the existing model to perform climate change simulations.

Zooplankton biomass data collected from Pacific Ocean in 1950 - 1961 years received from NMFS

Chlorophyll a and Phaeophytin A data collected by various ships in Monterey Bay, California. The data were collected from June 19, 1971 to June 15, 1977 as part of California Cooperative Fisheries Investigations (CALCOFI) project. The original data were recorded in ASCII and submitted on an unlabeled 9-track 1600 BPI magnetic tape. The documentation includes a record format description and title pages of technical reports associated with this investigation. Principal Investigator was Dr. Mary Silver. The study was carried out by University of California at Santa Cruz, Monterey Bay, California.

Zooplankton biomass (displacement volume, dry mass, and ashfree dry mass) data collected in Eastern Central Atlantic during CIPREA project in Jul - Sep 1978 by France. Data were acquired from the NMFS-COPEPOD global plankton database at http://www.st.nmfs.noaa.gov/plankton in COPEPOD database format only. Data are not available in originator's format.

Zooplankton biomass data from the Hokkaido University Long-term Fisheries and Oceanographic Database

The manuscript assembled data from existing sources (summarized below) to assess water quality improvements in three estuaries (Peconic Estuary (NY), Roberts Bay (FL), and Newport Bay (CA) associated with reduction of nonpoint sources of nutrients. No EPA generated data in this manuscript, only secondary sources. This dataset is associated with the following publication: Green, L., C. Magel, and C.A. Brown. Management pathways for the successful reduction of nonpoint source nutrients in coastal ecosystems. Regional Studies in Marine Science. Elsevier B.V., Amsterdam, NETHERLANDS, 45: 101851, (2021).