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https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_928039_v1 https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_928039_v1.graph https://erddap.bco-dmo.org/erddap/files/bcodmo_dataset_928039_v1/ public [Controlled laboratory study using model organisms Micromonas commoda RCC 299 and Ruegeria pomeroyi DSS-3] - Bacterial transcriptional response to picoeukaryote Micromonas commoda (Effects of Climate Change Variables on Microbial Autotroph-Heterotroph Carbon Flux) Marine biogeochemical cycles are built on interactions between surface ocean microbes, particularly those connecting phytoplankton primary producers to heterotrophic bacteria. However, direct influences of bacteria on phytoplankton physiology are poorly known. In this study, three marine bacteria (Ruegeria pomeroyi DSS-3, Stenotrophomonas sp. SKA14, and Polaribacter dokdonensis MED152) were co-cultured with green alga Micromonas commoda, and the phytoplankter's transcriptome was studied by RNASeq. The presence of each bacterium invoked transcriptomic remodeling by M. commoda after 8 h in co-culture. Some aspects of the algal transcriptomic response were conserved across all three bacteria, while others were restricted to a single bacterium. M. commoda had both rapid and extensive responses to heterotrophic bacteria.\n\ncdm_data_type = Other\nVARIABLES:\nBottle_ID (unitless)\nTreatment (unitless)\nTime_h (hour (h))\nMicromonas_cells_ml (cells per milliliter (cell/ml))\nBacteria_cells_ml (cells per milliliter (cell/ml))\nNH4_uM (micromolar (uM))\nNO3_uM (micromolar (uM))\nPO4_uM (micromolar (uM))\nNCBI_Sample_ID (unitless)\nAccession (unitless)\nBioProject (unitless)\nOrganism (unitless)\nTaxonomy_ID (unitless)\nDescription (unitless)\n https://erddap.bco-dmo.org/erddap/info/bcodmo_dataset_928039_v1/index.htmlTable https://www.bco-dmo.org/dataset/928039 (external link) https://erddap.bco-dmo.org/erddap/rss/bcodmo_dataset_928039_v1.rss https://erddap.bco-dmo.org/erddap/subscriptions/add.html?datasetID=bcodmo_dataset_928039_v1&showErrors=false&email= BCO-DMO bcodmo_dataset_928039_v1
https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_745905 https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_745905.graph https://erddap.bco-dmo.org/erddap/files/bcodmo_dataset_745905/ public [Eastern Shore pore water analysis] - Chemical analysis from sediment core pore water samples collected in the back barrier island bays on Virginia’s Eastern Shore in July 2017 (Toward an Improved Understanding of Blue Carbon: The Role of Seagrasses in Sequestering CO2) This dataset includes results of analysis on sediment cores collected in the back barrier island bays on Virginia\\u2019s Eastern Shore in July 2017 - initial pH, alkalinity, sulfate, DIC, Fe, NH4, sulfide, and DOC.\n\ncdm_data_type = Other\nVARIABLES:\nsite (unitless)\nlatitude (degrees_north)\nlongitude (degrees_east)\nCore (unitless)\nDepth_cm (Depth, centimeters)\nInitial_pH (Initial P H, NBS scale)\nAlkalinity_mM (Alkalinity M M, milliMoles)\nSulfate_mM (Sulfate M M, milliMoles)\nDIC_mM (DIC M M, milliMoles)\nFe_uM (Fe U M, microMoles)\nNH4_uM (NH4 U M, microMoles)\nSulfide_uM (Sulfide U M, microMoles)\nDOC_uM (DOC U M, microMoles)\n https://erddap.bco-dmo.org/erddap/metadata/fgdc/xml/bcodmo_dataset_745905_fgdc.xml https://erddap.bco-dmo.org/erddap/info/bcodmo_dataset_745905/index.htmlTable https://www.bco-dmo.org/dataset/745905 (external link) https://erddap.bco-dmo.org/erddap/rss/bcodmo_dataset_745905.rss https://erddap.bco-dmo.org/erddap/subscriptions/add.html?datasetID=bcodmo_dataset_745905&showErrors=false&email= BCO-DMO bcodmo_dataset_745905
https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_717577.subset https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_717577 https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_717577.graph https://erddap.bco-dmo.org/erddap/files/bcodmo_dataset_717577/ public [EN556 seawater measurements and initial conditions] - Measurements of nutrients, bacterial cell concentration and bacterial production from RV/Endeavor EN556, June 2015 (Patterns of activities project) (Latitudinal and depth-related contrasts in enzymatic capabilities of pelagic microbial communities: Predictable patterns in the ocean?) Nutrients, bacterial cell counts, and bacterial protein production as measured by 3H-leucine incorporation from the 'bulk water experiments'. Water was collected on EN556. See Niskin Bottle and Cast List EN556 to link specific casts and bottles to each experiment: https://www.bco-dmo.org/dataset/717427.\n\ncdm_data_type = Other\nVARIABLES:\ncruise_id (unitless)\nstation (unitless)\ncast (unitless)\ndepth_id (Depth, unitless)\ndepth (m)\nlat_degdecmin (Latitude, degrees and decimal minutes)\nlon_degdecmin_W (Longitude, degrees and decimal minutes)\nlatitude (degrees_north)\nlongitude (degrees_east)\ntemp (Temperature, degrees Celsius)\nsalinity (Sea Water Practical Salinity, per mil)\ntimepoint (unitless)\ntime_elapsed_hr (hours)\nNO2_NO3_uM (Mole Concentration Of Nitrate In Sea Water, micromolar)\nNH4_uM (Mole Concentration Of Ammonium In Sea Water, micromolar)\nPO4_uM (Mass Concentration Of Phosphate In Sea Water, micromolar)\nDOC_uM (DOC U M, micromolar)\ncells_per_mL (Cells Per M L, cells/milliliter)\nLeu_3H_rep_1 (Leu 3 H Rep 1, pico mol leucine/hour)\nLeu_3H_rep_2 (Leu 3 H Rep 2, pico mol leucine/hour)\n https://erddap.bco-dmo.org/erddap/metadata/fgdc/xml/bcodmo_dataset_717577_fgdc.xml https://erddap.bco-dmo.org/erddap/info/bcodmo_dataset_717577/index.htmlTable https://www.bco-dmo.org/dataset/717577 (external link) https://erddap.bco-dmo.org/erddap/rss/bcodmo_dataset_717577.rss https://erddap.bco-dmo.org/erddap/subscriptions/add.html?datasetID=bcodmo_dataset_717577&showErrors=false&email= BCO-DMO bcodmo_dataset_717577
https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_745865 https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_745865.graph https://erddap.bco-dmo.org/erddap/files/bcodmo_dataset_745865/ public [Gulf of Mexico pore water analysis] - Chemical analysis from sediment core pore water samples collected in the northern Gulf of Mexico, May 2017 (Toward an Improved Understanding of Blue Carbon: The Role of Seagrasses in Sequestering CO2) This dataset includes results of analysis on sediment cores collected from the northern Gulf of Mexico in May 2017 - initial pH, alkalinity, sulfate, DIC, Fe, NH4, sulfide, and DOC.\n\ncdm_data_type = Other\nVARIABLES:\nsite (unitless)\nlatitude (degrees_north)\nlongitude (degrees_east)\nCore (unitless)\nDepth_cm (Depth, centimeters)\nInitial_pH (Initial P H, NBS scale)\nAlkalinity_mM (Alkalinity M M, milliMoles)\nSulfate_mM (Sulfate M M, milliMoles)\nSulfate_stdev (milliMoles)\nDIC_mM (DIC M M, milliMoles)\nFe_uM (Fe U M, microMoles)\nNH4_uM (NH4 U M, microMoles)\nSulfide_uM (Sulfide U M, microMoles)\nDOC_uM (DOC U M, microMoles)\n https://erddap.bco-dmo.org/erddap/metadata/fgdc/xml/bcodmo_dataset_745865_fgdc.xml https://erddap.bco-dmo.org/erddap/info/bcodmo_dataset_745865/index.htmlTable https://www.bco-dmo.org/dataset/745865 (external link) https://erddap.bco-dmo.org/erddap/rss/bcodmo_dataset_745865.rss https://erddap.bco-dmo.org/erddap/subscriptions/add.html?datasetID=bcodmo_dataset_745865&showErrors=false&email= BCO-DMO bcodmo_dataset_745865
https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_773129 https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_773129.graph https://erddap.bco-dmo.org/erddap/files/bcodmo_dataset_773129/ public [Hydrothermal vent porewater nutrients - WHOI] - Porewater nutrient concentrations (NO3+NO2, NH4, and PO4) from pushcore samples collected at Guaymas Basin hydrothermal vents via Alvin dives on RV/Atlantis cruise AT42-05, Nov. 2018 and reported by Woods Hole Oceanographic Institution (Collaborative Research: Hydrothermal Fungi in the Guaymas Basin Hydrocarbon Ecosystem) Porewater nutrient concentrations from pushcore samples collected at two locations in the Guaymas Basin hydrothermal vents region during Alvin dives on RV/Atlantis cruise AT42-05, Nov. 2018. NO3+NO2, NH4, and PO4 concentrations at different depths within the cores are reported.\n\ncdm_data_type = Other\nVARIABLES:\nDate_local (unitless)\nSite (unitless)\nlatitude (degrees_north)\nlongitude (degrees_east)\nDive (unitless)\nSample_ID (unitless)\nNO3_NO2_uM (Mole Concentration Of Nitrate In Sea Water, micromoles/liter (uM))\nNH4_uM (Mole Concentration Of Ammonium In Sea Water, micromoles/liter (uM))\nPO4_uM (Mass Concentration Of Phosphate In Sea Water, micromoles/liter (uM))\n https://erddap.bco-dmo.org/erddap/metadata/fgdc/xml/bcodmo_dataset_773129_fgdc.xml https://erddap.bco-dmo.org/erddap/info/bcodmo_dataset_773129/index.htmlTable https://www.bco-dmo.org/dataset/773129 (external link) https://erddap.bco-dmo.org/erddap/rss/bcodmo_dataset_773129.rss https://erddap.bco-dmo.org/erddap/subscriptions/add.html?datasetID=bcodmo_dataset_773129&showErrors=false&email= BCO-DMO bcodmo_dataset_773129
https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_628993.subset https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_628993 https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_628993.graph https://erddap.bco-dmo.org/erddap/files/bcodmo_dataset_628993/ public [Incubation in diffuse flow vent fluids - Crab Spa] - Results from shipboard high-pressure incubations of diffuse flow vent fluids collected from the Crab Spa and Alvinella sites at East Pacific Rise during the AT26-10 expedition, Jan. 2014 (Microbial Communities at Deep-Sea Vents project) (An Integrated Study of Energy Metabolism, Carbon Fixation, and Colonization Mechanisms in Chemosynthetic Microbial Communities at Deep-Sea Vents) This dataset includes results from shipboard high-pressure incubations of\ndiffuse flow vent fluids collected from the Crab Spa (9.8398\\u00ba N,\n104.2913\\u00ba W) and Alvinella (9.8398\\u00ba N, 104.2915\\u00ba W) sites at\nEast Pacific Rise during the AT26-10 oceanographic expedition in January 2014.\nReported parameters include dates and time elapsed, flow rate, temperature,\npressure, and pH, and concentrations of NO3, NH4, H2, H2S, CH4.\n \nVent fluids used in shipboard incubations were corrected from diffuse flow\nvent sites at the East Pacific Rise (2503 m): Crab Spa (9.8398\\u00ba N,\n104.2913\\u00ba W) and Alvinella (9.8398\\u00ba N, 104.2915\\u00ba W) (see\ndescription in McNichol et al. [2016]). Fluids were collected using isobaric\ngas-tight samplers [Seewald et al., 2002] prior to their transfer to the\nshipboard continuous culture system [Foustoukos and Perez-Rodriguez, 2015].\nHere, high-pressure incubations (250 bars) were conducted at mesophilic (30\n\\u00baC) and thermophilic (50 \\u00baC) conditions to constrain the function\nand metabolic rates of denitrifying and DNRA microbial communities residing at\nCrab Spa and Alvinella, respectively. To enhance the activity of nitrate-\nrespiring anaerobic bacteria, an NO3- (5 mm) and H2(aq) (1.30 mM)-enriched\nmedium was introduced in the high-pressure incubations under strictly\nanaerobic conditions. Dissolved HCO3- (7.3 mm, 13C labeled) was used as added\ncarbon source. Vent fluids were introduced at a flow rate of 0.042 mL/min,\nwhile growth medium was added at a rate of 0.0042 mL/min. The two sets of\nexperiments were performed for 356 (Crab Spa) and 50 hours (Alvinella). Direct\ncell counts were conducted by staining cells with 0.1% acridine orange and\ncounting them with a fluorescence microscope. 15N/14N isotopic analysis of the\nNO3-, NH4+ and biomass were conducted with a Thermo Scientific Delta VPlus\nmass spectrometer and CE Instruments NA 2500 series elemental analyzer (EA).\n \nReferences:\n \nFoustoukos, D., and I. Perez-Rodriguez (2015), A continuous culture system for\nassessing microbial activities in the piezosphere, Applied and Environmental\nMicrobiology, 81(19), 6850-6856.\n \nMcNichol, J., S. P. Sylva, F. Thomas, C. D. Taylor, S. M. Sievert, and J. S.\nSeewald (2016), Assessing microbial processes in deep-sea hydrothermal systems\nby incubation at in situ temperature and pressure, Deep Sea Research Part I:\nOceanographic Research Papers, 115, 221-232.\n \nSeewald, J. S., K. W. Doherty, T. R. Hammar, and S. P. Liberatore (2002), A\nnew gas-tight isobaric sampler for hydrothermal fluids, Deep-Sea Research,\nPart I: Oceanographic Research Papers, 49(1), 189-196.\n\ncdm_data_type = Other\nVARIABLES:\ndescription (unitless)\n... (15 more variables)\n https://erddap.bco-dmo.org/erddap/info/bcodmo_dataset_628993/index.htmlTable https://www.bco-dmo.org/dataset/628993 (external link) https://erddap.bco-dmo.org/erddap/rss/bcodmo_dataset_628993.rss https://erddap.bco-dmo.org/erddap/subscriptions/add.html?datasetID=bcodmo_dataset_628993&showErrors=false&email= BCO-DMO bcodmo_dataset_628993
log in [nGoM benthic chamber between July 2021 and July 2022] - Benthic chamber geochemical data obtained with an in situ benthic lander from the R/V Savannah at sampling stations across the Louisiana shelf and slope in the Northern Gulf of Mexico during four cruise between July 2021 and July 2022 (Importance of Riverine Discharge on the Benthic Flux of Alkalinity to Continental Margins) This data set reports benthic flux measurements of dissolved inorganic carbon (DIC), orthophosphate (SPO43-), ammonium (NH4+), total alkalinity (TA), carbon isotopic fractionation of DIC (13-C-DIC), dissolved manganese (Mnd), dissolved calcium (Cad), nitrate (NO3-), and excess bromide (Br-) injected in the chamber as chemical tracer. \n \nIn summer 2021, benthic flux data were obtained from benthic chamber deployments at eleven different stations on the Louisiana Shelf and slope in the Northern Gulf of Mexico during July 15-27, 2021 using two different benthic landers. These stations span two transects, one from the middle of the shelf offshore from Cocodrie, LA to the mouth of the Mississippi River North West Pass, and another from North West Pass of the Mississippi River mouth to the south, across the slope. A single station (St. 15) was also sampled on the eastern side of the second transect in the transition from the shelf break to the mid-slope. All benthic chamber samples were processed within an hour after collection. \n \nIn fall 2021, benthic flux data were obtained from benthic chamber deployments at ten different stations on the Louisiana Shelf and slope in the Northern Gulf of Mexico between October 25 and November 10, 2021 using two different benthic landers. These stations span two transects, one from the middle of the shelf offshore from Cocodrie, LA to the mouth of the Mississippi River South West Pass, and another from South West Pass of the Mississippi River mouth to the south, across the slope. Two stations (St. 15 and St. 12) were also sampled on a second transect from the shelf break to the slope southeast of the Bird's Foot. \n \nIn spring 2022, benthic flux data were obtained from benthic chamber deployments at ten different stations on the Louisiana Shelf and slope in the Northern Gulf of Mexico during April 9-20, 2021 using two different benthic landers. These stations span two transects, one from the middle of the shelf offshore from Cocodrie, LA to the mouth of the Mississippi River South West Pass, and another from South West Pass of the Mississippi River mouth to the south, across the slope. Two stations (St. 15 and St. 12) were also sampled on a second transect from the shelf break to the slope southeast of the Bird's Foot. \n \nIn summer 2022, benthic flux data were obtained from benthic chamber deployments at eleven different stations on the Louisiana Shelf and slope in the Northern Gulf of Mexico in July 9 -23, 2022 using two different benthic landers. These stations span two transects, one from the middle of the shelf offshore from Cocodrie, LA to the mouth of the Mississippi River South West Pass, and another from South West Pass of the Mississippi River mouth to the south, across the slope. Two stations (St. 15 and St. 12) were also sampled on a second transect from the shelf break to the slope southeast of the Bird's Foot. \n \nSamples were immediately filtered through 0.22-micrometer (µm) PSE syringe filters and either analyzed immediately onboard (SPO43-), preserved acidified with hydrochloric acid at 4 degrees Celsius (Cad, Mnd), frozen (NH4+, NO3-, Br-), or preserved at 4 degrees Celsius after addition of HgCl2 (TA) until analysis.  In addition, samples for DIC, TA, and carbon isotopic analyses were preserved in glass bottles, whereas other samples were preserved in polypropylene containers.  DIC and TA were analyzed by Gran titration (Gran, 1952) using temperature-controlled closed cells (Dickson et al. 2007), orthophosphate and ammonium by spectrophotometry (Murphy and Riley, 1962; Strickland and Parsons, 1972), the carbon isotopic signature by isotope ratio mass spectrometry (Wang et al, 2018), Mnd and Cad by ICP-MS (Magette et al., 2025 In review), and NO3- and Br- by high performance liquid chromatography (HPLC) (Beckler et al., 2014). In summer 2022, benthic chamber and pore water DIC and TA samples were analyzed by cavity ring-down spectrometry (CRDS, Picarro G2131-i) with an automatic CO2 extraction system (Apollo SciTech AS-D1) and open-cell potentiometric titrations, respectively (Ferreira et al., 2025).\n\ncdm_data_type = Other\nVARIABLES:\nDate (unitless)\n... (28 more variables)\n BCO-DMO bcodmo_dataset_959033_v1
https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_917767_v1 https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_917767_v1.graph https://erddap.bco-dmo.org/erddap/files/bcodmo_dataset_917767_v1/ public [Subterranean Estuary In Situ Tracer Experiment Incubation Data, 2019] - In situ tracer injection experiment conducted with 15N-labeled ammonium in a shallow, sandy subterranean estuary in Gloucester Point, USA  in August 2019. (Collaborative Research:  Cryptic nitrogen cycling in the anoxic subterranean estuary) These data are the result of an in situ tracer injection experiment conducted with 15N-labeled ammonium to determine the fate and transport rates of ammonium within a shallow, sandy subterranean estuary in Gloucester Point, VA, USA. \n\nReplicate injections of 15N-labeled ammonium, sulfur hexaflouride, and bromide amended porewater were injected into piezometers at 50cm.  Porewater was then collected overtime from the injection piezometers and tracer piezometers surrounding the injection site ranging in depth from 40-60cm.  At each time point, samples were collected to analyze dissolved inorganic nitrogen (nitrate, nitrite, and ammonium) concentrations, sulfur hexaflouride, bromide, chloride. Nitrate and nitrite samples from porewater were analyzed with an isotope ratio mass spectrometer in order to assess the 15N enrichment of the nitrate in each sample resulting in a delta value (d15N) that allows for the calculation of the mole fraction of 15N-labeled nitrite and nitrate in porewater at each time point. The production or consumption over time constitutes subterranean estuary nitrogen cycling rates (e.g. nitrification, denitrification, etc.).\n\ncdm_data_type = Other\nVARIABLES:\nSite_Name (unitless)\nLatitude (degrees_north)\nlongitude (degrees_east)\nPiezometer (unitless)\nSample_ID (unitless)\nTime_Point (unitless)\nDate (unitless)\nTime (unitless)\nHours_after_Injection (hours (hrs))\nBromide_uM (micromoles per liter (uM))\nChloride_mM (millimoles per liter (mM)\nSF6_ppbv (parts per billion per volume (ppbv))\nSF6_pM (picoMolar (pM))\nNox_uM (micromoles per liter (uM))\n... (4 more variables)\n https://erddap.bco-dmo.org/erddap/info/bcodmo_dataset_917767_v1/index.htmlTable https://www.bco-dmo.org/dataset/917767 (external link) https://erddap.bco-dmo.org/erddap/rss/bcodmo_dataset_917767_v1.rss https://erddap.bco-dmo.org/erddap/subscriptions/add.html?datasetID=bcodmo_dataset_917767_v1&showErrors=false&email= BCO-DMO bcodmo_dataset_917767_v1

 
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