Biological and Chemical Oceanography Data Management Office Data Sets

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https://hdl.handle.net/1912/4135

The Biological and Chemical Oceanography Data Management Office (BCO-DMO) was created to serve PIs funded by the NSF Biological and Chemical Oceanography Sections as a location where marine biogeochemical, ecological and oceanographic data and information developed in the course of scientific research can easily be disseminated, protected, and stored on short and intermediate time-frames. Our main objective is to support the scientific community through improved access to ocean science data.

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Now showing 1 - 20 of 2979
  • Dataset
    Seawater radioisotope (234Th) and carbon from sampling conducted at the Compass Station in Bedford Basin, Nova Scotia, Canada from April to August 2019
    (Biological and Chemical Oceanography Data Management Office (BCO-DMO). Contact: bco-dmo-data@whoi.edu, 2023-05-26) Black, Erin E. ; Kienast, Stephanie S.
    These data include seawater radioisotope (234Th) and carbon data collected at the Compass Station in Bedford Basin, Nova Scotia, Canada at three time periods from April to August 2019. Niskins (2L to 10L) were used to obtain the water samples. Four liters of water were used for total 234Th and ~42 L were used to filter size-fractionated particulate 234Th and carbon. Two in-line filters were used: >51 µm and ~ 1 µm. Filters were analyzed via non-destructive beta counting (234Th) and then for carbon content. These data were collected in conjunction with sediment coring samples that were measured for 234Th and carbon content to assess carbon export and the carbon budget of Bedford Basin. 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/889642
  • Dataset
    Carbon content and radioisotope data from sampling conducted at the Compass Station in Bedford Basin, Nova Scotia, Canada from February to August 2019
    (Biological and Chemical Oceanography Data Management Office (BCO-DMO). Contact: bco-dmo-data@whoi.edu, 2023-05-26) Black, Erin E. ; Kienast, Stephanie S.
    These data include carbon content and radioisotope (234Th-excess) data collected at the Compass Station in Bedford Basin, Nova Scotia, Canada at four time periods from February to August 2019. A four-core multicorer was used to obtain the cores and samples were analyzed via beta counting (234Th) and CHN analysis (carbon content). These data were collected in conjunction with water column samples that were measured for total 234Th, particulate 234Th, and particulate carbon to assess carbon export and the carbon budget of Bedford Basin. 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/889551
  • Dataset
    Breviolum symbiont CP23S genotypes in Orbicella faveolata recruits from 2009-2011 (SymBioSys project)
    (Biological and Chemical Oceanography Data Management Office (BCO-DMO). Contact: bco-dmo-data@whoi.edu, 2023-05-24) Coffroth, Mary Alice ; Miller, Margaret W ; Sheets, David
    Chloroplast 23S genotypes (based on length heteroplasmy in domain V of chloroplast large subunit (cp23S) ribosomal DNA sequences) of Breviolum sp. symbionts within Orbicella faveolata recruits that were outplanted to reefs in the Florida Keys. 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/882097
  • Dataset
    Microsatellite genotypes of Breviolum sp. symbionts within Orbicella faveolata recruits outplanted to reefs in the Florida Keys from 2009-2011 (SymBioSys project)
    (Biological and Chemical Oceanography Data Management Office (BCO-DMO). Contact: bco-dmo-data@whoi.edu, 2023-05-24) Coffroth, Mary Alice ; Miller, Margaret W ; Sheets, David
    Microsatellite genotypes of Breviolum sp. symbionts within Orbicella faveolata recruits reared in a field-based lab and then outplanted to reefs in the Florida Keys. 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/887265
  • Dataset
    Microsatellite and chloroplast 23S genotypes of Breviolum sp. symbionts within Orbicella faveolata adults from reefs in the Florida Keys from 2009-2011 (SymBioSys project)
    (Biological and Chemical Oceanography Data Management Office (BCO-DMO). Contact: bco-dmo-data@whoi.edu, 2023-05-24) Coffroth, Mary Alice ; Miller, Margaret W ; Sheets, David
    Microsatellite genotypes and chloroplast 23S genotypes (based on length heteroplasmy in domain V of chloroplast large subunit (cp23S) ribosomal DNA sequences) of Breviolum sp. symbionts within Orbicella faveolata adults in the Florida Keys. 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/882086
  • Dataset
    High Resolution Growth Screen of Ruegeria pomeroyi Transporter Mutants Data September 2021 - June 2022 (C-CoMP Marine Bacterial Transporters project)
    (Biological and Chemical Oceanography Data Management Office (BCO-DMO). Contact: bco-dmo-data@whoi.edu, 2023-05-24) Moran, Mary Ann ; Reisch, Christopher R. ; Mejia, Catalina ; Trujillo Rodriguez, Lidimarie
    High resolution growth screens were used to confirm the phenotype of Ruegeria pomeroyi DSS-3 transporter knockout mutants. Mutants which had demonstrated growth defects on a given substrate as sole carbon source during an initial growth screen were selected and used here. Each mutant was grown on the substrate(s) of interest along side a wildtype analog (pooled-TnSeq library). Growth curves were generated by reading the optical density at 600 nm hourly. The annotations of a transporter's cognate substrate was confirmed when the mutant of said transporter demonstrated significant defect relative to the wildtype analog on the substrate of interest. 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/894179
  • Dataset
    Ruegeria pomeroyi RB-TnSeq Transponson Mutant Library Screen Experimental Data February 2021 (C-CoMP Marine Bacterial Transporters project)
    (Biological and Chemical Oceanography Data Management Office (BCO-DMO). Contact: bco-dmo-data@whoi.edu, 2023-05-24) Moran, Mary Ann ; Reisch, Christopher R. ; Mejia, Catalina ; Trujillo Rodriguez, Lidimarie
    A barcoded transposon mutant library (RB-TnSeq) of Ruegeria pomeroyi DSS-3 was screened on 23 substrates, each as a sole carbon source. In February of 2021 the RB-TnSeq library was grown in the laboratory in minimal medium with a substrate of interest, cultures were sequentially transfered four times to increase selection. Mutants with phenotypes that decreased fitness on the substrate of interest grow at a lower rate than mutants with no loss of fitness. Sequencing the barcodes of mutants after the screen shows which mutants are enriched or depleted on each substrate, indicating the fitness advantage provided by each gene when grown on each substrate. This can indicate genes that are involved in the uptake and metabolism of each substrate. 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/893256
  • Dataset
    Simultaneous light intensity measurements from a HOBO light intensity logger and a cosine-corrected PAR sensor in Lameshur Bay, St. John, U.S. Virgin Islands in January of 2021
    (Biological and Chemical Oceanography Data Management Office (BCO-DMO). Contact: bco-dmo-data@whoi.edu, 2023-05-24) Girard, John ; Edmunds, Peter J.
    These data represent simultaneous measurements taken by a HOBO light intensity logger (model UA-0002-64) measuring in lux and a cosine-corrected PAR sensor (LI-192, Li-Cor Biosciences) fitted by the manufacturer into a logger (miniPAR, Precision Measurement Engineering) measuring PAR in µmol photon m-2 s-1. This was done at the Tektite site at 9 m depth in Lameshur Bay, St. John, U.S. Virgin Islands during January of 2021. This was done to cross-calibrate illuminance data (lux) from the HOBO logger to PAR (µmol photon m-2 s-1) (after Long et al. 2012) for assistance in the ecological interpretation of illuminance data. These data were collected as part of an NSF Coral Reef Time Series, Virgin Islands: Long-term coral reef community dynamics in the Virgin Islands National Park and were published in Girard and Edmunds (2023). 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/892308
  • Dataset
    Canopy closure values from photographs taken within octocoral forestsalong the south shore of St. John, U.S. Virgin Islands in March of 2019
    (Biological and Chemical Oceanography Data Management Office (BCO-DMO). Contact: bco-dmo-data@whoi.edu, 2023-05-24) Girard, John ; Edmunds, Peter J.
    These data represent the determination of canopy closure values from photographs taken within octocoral forests along the south shore of St. John, U.S. Virgin Islands. Sampling was performed during March 2019 in quadrats (1m2) placed at ~8–9-m depth. These data were recorded in conjunction with light intensity measurements and used to investigate the relationship between octocoral canopy metrics and evidence of sunflecking in the understory environment. These data were collected as part of an NSF Coral Reef Time Series, Virgin Islands: Long-term coral reef community dynamics in the Virgin Islands National Park and were published in Girard and Edmunds (2023). 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/892323
  • Dataset
    Light intensity (lux) of downwelling light upon the benthos along differing conditions of octocoral canopy formation in East Cabritte, in Grootpan Bay, St. John U.S. Virgin Islands in March of 2019
    (Biological and Chemical Oceanography Data Management Office (BCO-DMO). Contact: bco-dmo-data@whoi.edu, 2023-05-24) Girard, John ; Edmunds, Peter J.
    These data represent the light intensity (lux) of downwelling light upon the benthos along differing conditions of octocoral canopy formation. Measurements were recorded every second from 05:00:00 to 15:38:00 (Local Time, Atlantic Standard Time, GMT-04:00) on March 10th, 2019 using HOBO light loggers (model UA-0002-64). Loggers were placed at ~9-m depth at East Cabritte, in Grootpan Bay, St. John U.S. Virgin Islands. These data were used to evaluate the potential creation of differential light regimes between sparse and dense octocoral canopies consistent with sunflecking. These data were collected as part of an NSF Coral Reef Time Series, Virgin Islands: Long-term coral reef community dynamics in the Virgin Islands National Park and were published in Girard and Edmunds (2023). 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/892300
  • Dataset
    Light intensity (lux) of downwelling light upon the benthos along differing conditions of octocoral canopy formation in Lameshur Bay St. John, U.S. Virgin Islands in March of 2019
    (Biological and Chemical Oceanography Data Management Office (BCO-DMO). Contact: bco-dmo-data@whoi.edu, 2023-05-24) Girard, John ; Edmunds, Peter J.
    These data represent the light intensity (lux) of downwelling light upon the benthos along differing conditions of octocoral canopy formation. Measurements were recorded every second from 05:00:00 to 23:05:21 (Local Time, Atlantic Standard Time, GMT-04:00) on March 12th, 2019 using HOBO light loggers (model UA-0002-64). Loggers were placed at ~8-m depth at Yawzi point, in Lameshur Bay, St. John U.S. Virgin Islands. These data were used to evaluate the potential creation of differential light regimes between sparse and dense octocoral canopies consistent with sunflecking. These data were collected as part of an NSF Coral Reef Time Series, Virgin Islands: Long-term coral reef community dynamics in the Virgin Islands National Park and were published in Girard and Edmunds (2023). 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/892272
  • Dataset
    Octocoral height, density, and genera from in situ observations within octocoral forests in Lameshur Bay St. John, U.S. Virgin Islands from July 2019 to Jan 2020
    (Biological and Chemical Oceanography Data Management Office (BCO-DMO). Contact: bco-dmo-data@whoi.edu, 2023-05-24) Girard, John ; Edmunds, Peter J.
    These data represent the individual octocoral genera, height, and density that compose octocoral forests in in Lameshur Bay St. John U.S. Virgin Islands. These data were used in conjunction with invertebrate abundance data to test for an association between octocoral forest parameters and benthic invertebrate community composition. Surveys of octocoral forests were conducted on SCUBA during July – August of 2019 and in January of 2020 quadrats (1 m2) placed at ≤ 13-m depth. These data were collected as part of an NSF Coral Reef Time Series, Virgin Islands: Long-term coral reef community dynamics in the Virgin Islands National Park and were published in Girard and Edmunds (2023). 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/892265
  • Dataset
    Octocoral canopy metrics (mean height, density, and closure) in St. John, US Virgin Islands in March of 2019
    (Biological and Chemical Oceanography Data Management Office (BCO-DMO). Contact: bco-dmo-data@whoi.edu, 2023-05-24) Girard, John ; Edmunds, Peter J.
    These data represent the octocoral canopy metrics (mean height, density, and closure) in quadrats (1 m2) where light regimes were quantified. Surveys took place at the Yawzi Point (~8-m depth) and East Cabritte (~9-m depth) sites in St. John, U.S. Virgin Islands during March of 2019. These data were collected as part of an NSF Coral Reef Time Series, Virgin Islands: Long-term coral reef community dynamics in the Virgin Islands National Park and were published in Girard and Edmunds (2023). 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/892293
  • Dataset
    Steady state photosynthesis (photosynthetic induction time) from Porites astreoides colonies in St. John, US Virgin Islands from July to August of 2019
    (Biological and Chemical Oceanography Data Management Office (BCO-DMO). Contact: bco-dmo-data@whoi.edu, 2023-05-24) Girard, John ; Edmunds, Peter J.
    These datasets represent the time to steady state photosynthesis (photosynthetic induction time) of Porites astreoides colonies classified as inside or outside of octocoral canopies. These data were used to test for the potential effect of light regimes created by octocoral canopies on the photophysiology of autotrophic taxa within the understories of octocoral forests. Additionally, these datasets contain information on the octocoral community surrounding each P. astreoides colony. Data was collected between July and August of 2019 at ~ 7.0 ± 0.5-m depth at three sites (White Point, Tektite, Cabritte Horn) in Lameshur Bay St. John, U.S. Virgin Islands. These data were collected as part of an NSF Coral Reef Time Series, Virgin Islands: Long-term coral reef community dynamics in the Virgin Islands National Park and were published in Girard and Edmunds (2023). 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/892286
  • Dataset
    Pulse Amplitude Modulation (PAM) fluorometer measurements from Porites astreoides colonies in St. John, US Virgin Islands from July to August of 2019
    (Biological and Chemical Oceanography Data Management Office (BCO-DMO). Contact: bco-dmo-data@whoi.edu, 2023-05-24) Girard, John ; Edmunds, Peter J.
    These data represent the raw Diving Pulse Amplitude Modulation (PAM) fluorometer measurements from Porites astreoides colonies classified as inside or outside of octocoral canopies. These data were used to test for the potential effect of light regimes created by octocoral canopies on the photophysiology of autotrophic taxa within the understories of octocoral forests. Additionally, these datasets contain information on the octocoral community surrounding each P. astreoides colony. Data was collected between July and August of 2019 at ~ 7.0 ± 0.5-m depth at three sites (White Point, Tektite, Cabritte Horn) in Lameshur Bay St. John, U.S. Virgin Islands. These data were collected as part of an NSF Coral Reef Time Series, Virgin Islands: Long-term coral reef community dynamics in the Virgin Islands National Park and were published in Girard and Edmunds (2023). 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/892279
  • Dataset
    Canopy closure values from photographs taken within octocoral forests in Lameshur Bay St. John, U.S. Virgin Islands from July 2019 to Jan 2020
    (Biological and Chemical Oceanography Data Management Office (BCO-DMO). Contact: bco-dmo-data@whoi.edu, 2023-05-24) Girard, John ; Edmunds, Peter J.
    These data represent the determination of canopy closure values from photographs taken within octocoral forests in Lameshur Bay St. John, U.S. Virgin Islands. Sampling was performed July – August 2019, and January 2020 in quadrats (1m2) placed at ≤ 13-m depth. These data were recorded in conjunction with invertebrate species abundances and used to test for an association between octocoral canopy metrics and benthic invertebrate communities. These data were collected as part of an NSF Coral Reef Time Series, Virgin Islands: Long-term coral reef community dynamics in the Virgin Islands National Park and were published in Girard and Edmunds (2023). 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/892258
  • Dataset
    Benthic invertebrate abundances associated with octocoral forests in St. John, US Virgin Islands from July 2019 to Jan 2020
    (Biological and Chemical Oceanography Data Management Office (BCO-DMO). Contact: bco-dmo-data@whoi.edu, 2023-05-24) Girard, John ; Edmunds, Peter J.
    These data represent the benthic invertebrates counted in association with various octocoral canopies as well as the composition of individual octocorals and the physical parameters (mean height, mean closure, and density) of octocoral canopies. These data were used to test for the association of benthic invertebrate communities across a gradient of octocoral forest formation. Arborescent octocorals were excluded from invertebrate counts used to test for community association. Benthic surveys of invertebrates and octocoral forests were conducted on SCUBA during July – August of 2019 and in January of 2020 using the same quadrats (1 m2) placed at ≤ 13-m depth. These data were collected as part of an NSF Coral Reef Time Series, Virgin Islands: Long-term coral reef community dynamics in the Virgin Islands National Park and were published in Girard and Edmunds (2023). 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/892248
  • Dataset
    Sampling information and presence/absence of stress bands (in 1998 and 2010) in Porites cf. lobata coral at Palau's Rock Islands
    (Biological and Chemical Oceanography Data Management Office (BCO-DMO). Contact: bco-dmo-data@whoi.edu, 2023-05-23) Cohen, Anne L. ; Rivera, Hanny
    Ocean warming is killing corals, but heat-tolerant populations exist; if protected, they could replenish affected reefs naturally or through restoration. Palau's Rock Islands experience consistently higher temperatures and extreme heatwaves, yet their diverse coral communities bleach less than those on Palau's cooler outer reefs. Here, we combined genetic analyses, bleaching histories, and growth rates of Porites cf. lobata colonies to identify thermally tolerant genotypes, map their distribution, and investigate potential growth trade-offs. We identified four genetic lineages of P. cf. lobata. On Palau's outer reefs, a thermally sensitive lineage dominates. The Rock Islands harbor two lineages with enhanced thermal tolerance; one of which shows no consistent growth trade-off and also occurs on several outer reefs. This suggests that the Rock Islands provide naturally tolerant larvae to neighboring areas. Finding and protecting such sources of thermally-tolerant corals is key to reef survival under 21st century climate change. This dataset contains sampling location information for each sample, depth, and diameter of colonies, and presence/absence of stress bands in 1998 and 2010. 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/894894
  • Dataset
    Average yearly extension rate, calcification rate, and density for each core sample from Porites cf. lobata coral at Palau's Rock Islands
    (Biological and Chemical Oceanography Data Management Office (BCO-DMO). Contact: bco-dmo-data@whoi.edu, 2023-05-23) Cohen, Anne L. ; Rivera, Hanny
    Ocean warming is killing corals, but heat-tolerant populations exist; if protected, they could replenish affected reefs naturally or through restoration. Palau's Rock Islands experience consistently higher temperatures and extreme heatwaves, yet their diverse coral communities bleach less than those on Palau's cooler outer reefs. Here, we combined genetic analyses, bleaching histories, and growth rates of Porites cf. lobata colonies to identify thermally tolerant genotypes, map their distribution, and investigate potential growth trade-offs. We identified four genetic lineages of P. cf. lobata. On Palau's outer reefs, a thermally sensitive lineage dominates. The Rock Islands harbor two lineages with enhanced thermal tolerance; one of which shows no consistent growth trade-off and also occurs on several outer reefs. This suggests that the Rock Islands provide naturally tolerant larvae to neighboring areas. Finding and protecting such sources of thermally-tolerant corals is key to reef survival under 21st century climate change. This dataset contains the average yearly extension rate, calcification rate, and density for each core sample. 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/894930
  • Dataset
    Pressure data from Nearshore Isla Natividad, Baja California Mexico from July to August of 2018
    (Biological and Chemical Oceanography Data Management Office (BCO-DMO). Contact: bco-dmo-data@whoi.edu, 2023-05-22) Monismith, Stephen G. ; Woodson, Clifton Brock ; Daly, Margaret ; Fong, Derek
    Pressure data collected as part of a Nearshore study conducted Isla Natividad, Baja California Mexico from July to August of 2018 that included currents, water level, wave data, temperature, and dissolved oxygen. 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/872357