Biological and Chemical Oceanography Data Management Office Data Sets

Dataset

Physiology responses to experimental iron warming interactions of coastal and oceanic Synechococcus collected from the South China Sea

(Biological and Chemical Oceanography Data Management Office (BCO-DMO). Contact: bco-dmo-data@whoi.edu, 2025-05-16) Duan, Ran ; Hutchins, David A. ; Fu, Feixue

The unicellular cyanobacterium Synechococcus is one of the most important primary producers in the ocean, and its growth and distribution are regionally limited by iron (Fe) concentration and temperature. However, the potential interactions between Fe availability and ocean warming in Synechococcus remain largely unexplored. We cultivated coastal (XM24) and oceanic (YX04-1) Synechococcus isolates from South China Sea under a matrix of two Fe concentrations (2 nM, 250 nM) and temperatures (24°C, 27°C) to investigate their physiological and transcriptomic responses. This dataset includes the sample identifier, strain information, iron and temperature treatment information, normalized iron quotas, carbon fixation rates, particulate organic nitrogen, and particulate organic carbon measurements. This experiment was performed at the University of Southern California in Dr. David Hutchins’s lab from July to December of 2020. For a complete list of measurements, refer to the full dataset description in the supplemental file 'Dataset_description.pdf'. The most current version of this dataset is available at: https://www.bco-dmo.org/dataset/932220

Dataset

Autonomously collected pH data from Narragansett Bay in 2022 and 2023

(Biological and Chemical Oceanography Data Management Office (BCO-DMO). Contact: bco-dmo-data@whoi.edu, 2025-05-16) Baskind, Abigail ; Ahumada, Georgia ; Gomes, Kristofer ; Stoffel, Heather ; Gu, Shuai ; Davies, Andrew ; Wang, Hongjie

This dataset contains temperature, salinity, DOI, and pH data autonomously collected as part of the study described below. See the "Related Publications" section for discrete data (TA, DIC) from this study. Study description: The increase in atmospheric carbon dioxide (CO2) over the last 200 years has largely been mitigated by the ocean’s function as a carbon sink. However, this continuous absorption of CO2 by seawater triggers ocean acidification (OA), a process in which water becomes more acidic and more depleted in carbonate ions that are essential for calcifiers. OA is well-studied in open ocean environments; however, understanding the unique manifestation of OA in coastal ecosystems presents myriad challenges due to considerable natural variability resulting from concurrent and sometimes opposing coastal processes--e.g. eutrophication, changing hydrological conditions, heterogeneous biological activity, and complex water mass mixing. This study analyzed high temporal resolution pH data collected during 2022 and 2023 from Narragansett Bay, RI--a mid-sized, urban estuary that since 2005 has undergone a 50% reduction in nitrogen loading with weekly, discrete bottle samples to verify sensor data. We used autonomous data for pH, temperature, salinity, and dissolved oxygen from 4 sensors in Narragansett Bay. The autonomous data spanned over a year from 2022 to mid-2023 and had temporal resolutions between 10 and 15 minutes. The data have been subjected to QA/QC protocols, such that all pH measurements are final and quality-controlled. As well, pH values normalized to 15°C (using PyCO2SYS) are included. All pH values are in total scale. Additionally, data from discrete samples have been provided (see "Related Datasets"). Discrete samples were taken weekly at the Narragansett Bay Long Term Phytoplankton Time Series site and monthly from Greenwich Bay, collocated with 2 of the sensors. Discrete data were analyzed in lab for dissolved inorganic carbon and total alkalinity, and include in situ temperature and salinity. For a complete list of measurements, refer to the full dataset description in the supplemental file 'Dataset_description.pdf'. The most current version of this dataset is available at: https://www.bco-dmo.org/dataset/961920

Dataset

Discrete carbonate data from Narragansett Bay in 2022 and 2023

(Biological and Chemical Oceanography Data Management Office (BCO-DMO). Contact: bco-dmo-data@whoi.edu, 2025-05-16) Baskind, Abigail ; Ahumada, Georgia ; Gomes, Kristofer ; Stoffel, Heather ; Gu, Shuai ; Davies, Andrew ; Wang, Hongjie

This dataset contains discrete carbonate data (TA, DIC, pH, Temperature, Salinity), collected as part of the study described below. See the "Related Publications" section for autonomously collected pH data from this study. Study description: The increase in atmospheric carbon dioxide (CO2) over the last 200 years has largely been mitigated by the ocean’s function as a carbon sink. However, this continuous absorption of CO2 by seawater triggers ocean acidification (OA), a process in which water becomes more acidic and more depleted in carbonate ions that are essential for calcifiers. OA is well-studied in open ocean environments; however, understanding the unique manifestation of OA in coastal ecosystems presents myriad challenges due to considerable natural variability resulting from concurrent and sometimes opposing coastal processes--e.g. eutrophication, changing hydrological conditions, heterogeneous biological activity, and complex water mass mixing. This study analyzed high temporal resolution pH data collected during 2022 and 2023 from Narragansett Bay, RI--a mid-sized, urban estuary that since 2005 has undergone a 50% reduction in nitrogen loading with weekly, discrete bottle samples to verify sensor data. We used autonomous data for pH, temperature, salinity, and dissolved oxygen from 4 sensors in Narragansett Bay. The autonomous data spanned over a year from 2022 to mid-2023 and had temporal resolutions between 10 and 15 minutes. The data have been subjected to QA/QC protocols, such that all pH measurements are final and quality-controlled. As well, pH values normalized to 15°C (using PyCO2SYS) are included. All pH values are in total scale. Discrete samples were taken weekly at the Narragansett Bay Long Term Phytoplankton Time Series site and monthly from Greenwich Bay, collocated with 2 of the sensors. Discrete data were analyzed in lab for dissolved inorganic carbon and total alkalinity, and include in situ temperature and salinity. For a complete list of measurements, refer to the full dataset description in the supplemental file 'Dataset_description.pdf'. The most current version of this dataset is available at: https://www.bco-dmo.org/dataset/961940

Dataset

Nitrogen and carbon uptake rates for mesocosm incubation experiment simulating a phytoplankton bloom in Chesapeake Bay August 2021

(Biological and Chemical Oceanography Data Management Office (BCO-DMO). Contact: bco-dmo-data@whoi.edu, 2025-05-16) Ward, Bess B. ; Lee, Jenna

A mesocosm experiment was performed in August 2021 on the R/V Hugh Sharp, cruise HRS2110, at a station near the mouth of Chesapeake Bay to simulate a phytoplankton bloom and to assess changes in assemblage and biogeochemical processes while excluding changes due to advection. Three 20-L carboys were filled with filtered bay water, inoculated with surface water and sampled daily for a week. Nutrient concentrations, nitrate and bicarbonate uptake rates, pigment concentrations and samples for 18S rRNA gene sequence analysis were collected once or more times per day. 15NO3- and H13CO3- tracer incubations were performed alongside pigment and DNA sampling to compare temporal trends in community composition and primary productivity (nitrogen (N) and carbon (C) transport rates). These results address the nature of phytoplankton blooms, and present a more complex relationship between bloom progression and phytoplankton diversity that usually assumed or detected by traditional methods. This dataset contains the measured nitrogen and carbon uptake rates for the three replicate mesocosms over the course of the simulated bloom. These data were collected by Jenna Lee from Princeton University. For a complete list of measurements, refer to the full dataset description in the supplemental file 'Dataset_description.pdf'. The most current version of this dataset is available at: https://www.bco-dmo.org/dataset/959935

Dataset

Pigment concentration data for mesocosm incubation experiment simulating a phytoplankton bloom in Chesapeake Bay August 2021

(Biological and Chemical Oceanography Data Management Office (BCO-DMO). Contact: bco-dmo-data@whoi.edu, 2025-05-16) Ward, Bess B. ; Lee, Jenna

A mesocosm experiment was performed in August 2021 on the R/V Hugh Sharp, cruise HRS2110, at a station near the mouth of Chesapeake Bay to simulate a phytoplankton bloom and to assess changes in assemblage and biogeochemical processes while excluding changes due to advection. Three 20-L carboys were filled with filtered bay water, inoculated with surface water and sampled daily for a week. Nutrient concentrations, nitrate and bicarbonate uptake rates, pigment concentrations and samples for 18S rRNA gene sequence analysis were collected once or more times per day. 15NO3- and H13CO3- tracer incubations were performed alongside pigment and DNA sampling to compare temporal trends in community composition and primary productivity (nitrogen (N) and carbon (C) transport rates). These results address the nature of phytoplankton blooms, and present a more complex relationship between bloom progression and phytoplankton diversity that usually assumed or detected by traditional methods. This dataset contains the measured pigment concentrations for the three replicate mesocosms over the course of the simulated bloom. These data were collected by Jenna Lee from Princeton University. For a complete list of measurements, refer to the full dataset description in the supplemental file 'Dataset_description.pdf'. The most current version of this dataset is available at: https://www.bco-dmo.org/dataset/959920

Dataset

Nutrient data for mesocosm incubation experiment simulating a phytoplankton bloom in Chesapeake Bay August 2021

(Biological and Chemical Oceanography Data Management Office (BCO-DMO). Contact: bco-dmo-data@whoi.edu, 2025-05-15) Ward, Bess B. ; Lee, Jenna

A mesocosm experiment was performed in August 2021 on the R/V Hugh Sharp, cruise HRS2110, at a station near the mouth of Chesapeake Bay to simulate a phytoplankton bloom and to assess changes in assemblage and biogeochemical processes while excluding changes due to advection. Three 20-L carboys were filled with filtered bay water, inoculated with surface water and sampled daily for a week. Nutrient concentrations, nitrate and bicarbonate uptake rates, pigment concentrations and samples for 18S rRNA gene sequence analysis were collected once or more times per day. 15NO3- and H13CO3- tracer incubations were performed alongside pigment and DNA sampling to compare temporal trends in community composition and primary productivity (nitrogen (N) and carbon (C) transport rates). These results address the nature of phytoplankton blooms, and present a more complex relationship between bloom progression and phytoplankton diversity that usually assumed or detected by traditional methods. This dataset contains the nutrient data for the three replicate mesocosms over the course of the simulated bloom. These data were collected by Jenna Lee from Princeton University. For a complete list of measurements, refer to the full dataset description in the supplemental file 'Dataset_description.pdf'. The most current version of this dataset is available at: https://www.bco-dmo.org/dataset/959925

Dataset

Light and temperature data for mesocosm incubation experiment simulating a phytoplankton bloom in Chesapeake Bay August 2021

(Biological and Chemical Oceanography Data Management Office (BCO-DMO). Contact: bco-dmo-data@whoi.edu, 2025-05-15) Ward, Bess B. ; Lee, Jenna

A mesocosm experiment was performed in August 2021 on the R/V Hugh Sharp, cruise HRS2110, at a station near the mouth of Chesapeake Bay to simulate a phytoplankton bloom and to assess changes in assemblage and biogeochemical processes while excluding changes due to advection. Three 20-L carboys were filled with filtered bay water, inoculated with surface water and sampled daily for a week. Nutrient concentrations, nitrate and bicarbonate uptake rates, pigment concentrations and samples for 18S rRNA gene sequence analysis were collected once or more times per day. 15NO3- and H13CO3- tracer incubations were performed alongside pigment and DNA sampling to compare temporal trends in community composition and primary productivity (nitrogen (N) and carbon (C) transport rates). These results address the nature of phytoplankton blooms, and present a more complex relationship between bloom progression and phytoplankton diversity that usually assumed or detected by traditional methods. This dataset contains the light and temperature data logged for the three replicate mesocosms over the course of the simulated bloom. These data were collected by Jenna Lee from Princeton University. For a complete list of measurements, refer to the full dataset description in the supplemental file 'Dataset_description.pdf'. The most current version of this dataset is available at: https://www.bco-dmo.org/dataset/959930

Dataset

A compilation of newly measured as well as compiled d13C and d18O of carbonates for various types of samples

(Biological and Chemical Oceanography Data Management Office (BCO-DMO). Contact: bco-dmo-data@whoi.edu, 2025-05-14) Hashim, Mohammed ; Conte, Maureen H. ; Salter, Michael A. ; Pedrosa Pàmies, Rut ; Weber, J.C. ; Hayden, Matthew G. ; Wilson, Rod W. ; Perry, Chris T. ; Crowley, Stephen F. ; Dennis, Paul F. ; Bish, David ; Subhas, Adam V.

This dataset contains a compilation of newly measured as well as compiled d13C and d18O of carbonates for various types of samples including bulk Oceanic Flux Program (OFP) sediment trap samples, fish carbonates, blue particles, picked foraminifera from the OFP traps, picked pteropods from the OFP traps, coccolithophores from culturing experiments, bryozoan and serpulid attached to sargassum seaweed, and red algae. For a complete list of measurements, refer to the full dataset description in the supplemental file 'Dataset_description.pdf'. The most current version of this dataset is available at: https://www.bco-dmo.org/dataset/960397

Dataset

Results of x-ray diffraction (XRD) analyses collected for various Oceanic Flux Program (OFP) samples and end members for the for OFP/fish carbonate study

(Biological and Chemical Oceanography Data Management Office (BCO-DMO). Contact: bco-dmo-data@whoi.edu, 2025-05-14) Hashim, Mohammed ; Conte, Maureen H. ; Salter, Michael A. ; Pedrosa Pàmies, Rut ; Weber, J.C. ; Hayden, Matthew G. ; Wilson, Rod W. ; Perry, Chris T. ; Crowley, Stephen F. ; Dennis, Paul F. ; Bish, David ; Subhas, Adam V.

These data include results of x-ray diffraction (XRD) analyses, such as mineral abundances and magnesium (Mg) content in calcite, that were collected for various Oceanic Flux Program (OFP) samples and end members such as fish carbonates, bryozoan, and coccolithophore for OFP/fish carbonate study. The sources of samples are included in the dataset, and for samples that were obtained from cruises, the cruise number is included. The raw data are included as supplemental files. For a complete list of measurements, refer to the full dataset description in the supplemental file 'Dataset_description.pdf'. The most current version of this dataset is available at: https://www.bco-dmo.org/dataset/960297

Dataset

Metadata (location, depth, water temperature, salinity, etc.) describing end members compared to blue particles found in Oceanic Flux Program (OFP) traps

(Biological and Chemical Oceanography Data Management Office (BCO-DMO). Contact: bco-dmo-data@whoi.edu, 2025-05-14) Hashim, Mohammed ; Conte, Maureen H. ; Salter, Michael A. ; Pedrosa Pàmies, Rut ; Weber, J.C. ; Hayden, Matthew G. ; Wilson, Rod W. ; Perry, Chris T. ; Crowley, Stephen F. ; Dennis, Paul F. ; Bish, David ; Subhas, Adam V.

This dataset includes metadata for end members (fish, bryzoan, serpulid worm, red algae, and coccolithophore) that were compared to blue particles found in OFP traps. Data include species, location, depth, water temperature, salinity, and date of collection. For a complete list of measurements, refer to the full dataset description in the supplemental file 'Dataset_description.pdf'. The most current version of this dataset is available at: https://www.bco-dmo.org/dataset/960257

Dataset

Presence and abundance of blue particles in Oceanic Flux Program (OFP) samples collected from 1984-2019 at the OFP mooring in the Sargasso Sea

(Biological and Chemical Oceanography Data Management Office (BCO-DMO). Contact: bco-dmo-data@whoi.edu, 2025-05-14) Hashim, Mohammed ; Conte, Maureen H. ; Salter, Michael A. ; Pedrosa Pàmies, Rut ; Weber, J.C. ; Hayden, Matthew G. ; Wilson, Rod W. ; Perry, Chris T. ; Crowley, Stephen F. ; Dennis, Paul F. ; Bish, David ; Subhas, Adam V.

These data are compiled from the Oceanic Flux Program (OFP) archive and show a number of OFP samples that contain blue particles along with the date of the collection period, depth, sample size fraction, and the presence/absence and abundance of the blue particles. For a complete list of measurements, refer to the full dataset description in the supplemental file 'Dataset_description.pdf'. The most current version of this dataset is available at: https://www.bco-dmo.org/dataset/960203

Dataset

Water temperature data from temperature loggers attached to larval settlement collectors placed on the seafloor in the Gulf of Maine from from June to September 2023 (Lobster Thermal Thresholds project)

(Biological and Chemical Oceanography Data Management Office (BCO-DMO). Contact: bco-dmo-data@whoi.edu, 2025-05-13) Annis, Eric R. ; Frederich, Markus ; Rasher, Douglas B.

We used the American lobster (Homarus americanus lsid:marinespecies.org:taxname:156134) in the Gulf of Maine as a model system to define thermal tolerance in larvae and establish mechanistic linkages between thermal tolerance of the individual larva and the patterns of settlement in the field. We assessed and compared the thermal tolerances of larvae in the laboratory and to link to patterns in the field we measured larval settlement as a function of depth (and therefore temperatures) and deployed caged larvae at different depths (and therefore temperatures). This dataset reports the bottom temperature data from temperature loggers attached to larval settlement collectors placed on the bottom from early June to late September in 2023. Collectors were deployed in coastal waters in the vicinity of Boothbay Harbor, Maine, USA at depths ranging from 7 to 77 meters. Bigelow Laboratory for Ocean Sciences were the base for field operations which were led by Eric Annis and Douglas Rasher. For a complete list of measurements, refer to the full dataset description in the supplemental file 'Dataset_description.pdf'. The most current version of this dataset is available at: https://www.bco-dmo.org/dataset/939856

Dataset

Oxygen consumption by lobster larvae at different temperatures using closed cell respirometry for lobster larvae from Gulf of Maine near Boothbay Maine from 2021 to 2023 (Lobster Thermal Thresholds project)

(Biological and Chemical Oceanography Data Management Office (BCO-DMO). Contact: bco-dmo-data@whoi.edu, 2025-05-13) Annis, Eric R. ; Frederich, Markus ; Rasher, Douglas B.

We used the American lobster (Homarus americanus lsid:marinespecies.org:taxname:156134) in the Gulf of Maine as a model system to define thermal tolerance in larvae and establish mechanistic linkages between thermal tolerance of the individual larva and the patterns of settlement in the field. We assessed and compared the thermal tolerances of larvae reared in the laboratory using conventional methods with larvae captured in the wild, and examined ontogenetic changes in thermal tolerance. The upper and lower thermal thresholds larval stages I-IV and the first juvenile stage were defined in part by oxygen consumption and scope for activity (defined as the difference in oxygen consumption between larvae at rest and larvae swimming actively). This data set includes the raw oxygen consumption data obtained through closed system microrespirometry and subsequently used to calculate scope for activity. These data were collected between 2021-2023 at Bigelow Laboratory for Ocean Sciences, led by Eric Annis. For a complete list of measurements, refer to the full dataset description in the supplemental file 'Dataset_description.pdf'. The most current version of this dataset is available at: https://www.bco-dmo.org/dataset/939782

Dataset

Growth and mortality of lobster larvae at different temperatures for lobster larvae from Gulf of Maine near Boothbay Maine from 2021 and 2022 (Lobster Thermal Thresholds project)

(Biological and Chemical Oceanography Data Management Office (BCO-DMO). Contact: bco-dmo-data@whoi.edu, 2025-05-13) Annis, Eric R. ; Frederich, Markus ; Rasher, Douglas B.

We used the American lobster (Homarus americanus lsid:marinespecies.org:taxname:156134) in the Gulf of Maine as a model system to define thermal tolerance in larvae and establish mechanistic linkages between thermal tolerance of the individual larva and the patterns of settlement in the field. We assessed and compared the thermal tolerances of larvae reared in the laboratory using conventional methods with larvae captured in the wild, and examined ontogenetic changes in thermal tolerance. The upper and lower thermal thresholds larval stages I-IV and the first juvenile stage were defined in part by growth and mortality when subjected to chronic exposure to different treatment temperatures until they either molted to the next developmental stage or died. This data set includes individuals dying, the size after molting and the amount of time elapsed between the start of the treatment and either molting or death. These data were collected between 2021-2022 at Bigelow Laboratory for Ocean Sciences, led by Eric Annis. For a complete list of measurements, refer to the full dataset description in the supplemental file 'Dataset_description.pdf'. The most current version of this dataset is available at: https://www.bco-dmo.org/dataset/939825

Dataset

Site list for habitat complexity photos and related datasets sampled along the Northern Central California coast from 2017 and 2021