BCO-DMO ERDDAP
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Row Type Variable Name Attribute Name Data Type Value
attribute NC_GLOBAL access_formats String .htmlTable,.csv,.json,.mat,.nc,.tsv
attribute NC_GLOBAL acquisition_description String Pure cultures of bacteria and phytoplankton were grown in artificial seawater\nmedium, and cells were collected during mid-to-late exponential phase by\ngentle filtration onto 0.2 micron Durapore filters. All filters were flash\nfrozen in liquid nitrogen and stored at -80 degrees Celsius until further\nprocessing. Frozen filters of cells and media blanks were extracted and\nanalyzed using a targeted liquid chromatography-mass spectrometry-based\nmetabolomics method according to the protocols in Boysen and Heal et al.,\n2018. Briefly, metabolites were extracted using a modified Bligh\\u2013Dyer\nextraction using 1:1 methanol/water (aqueous phase) and dichloromethane\n(organic phase). Targeted metabolomics data were generated using a Waters Xevo\nTQ-S triple quadrupole with both reverse-phase and hydrophilic interaction\nliquid chromatography (HILIC). Taurine, isethionate, sulfolactate, and\ncysteate were quantified using isotopically-labeled internal standards that\nwere added prior to extraction. DHPS was quantified by generating standard\naddition curves.\n \nInstruments: Targeted metabolomics data were generated using a Waters Xevo\nTQ-S triple quadrupole (TQS) with electrospray ionization (ESI) in selected\nreaction monitoring mode (SRM) with polarity switching. SRM conditions for\neach compound (collision energy, cone voltage, precursor, and product ions)\nwere optimized by infusion of each metabolite standard. For most metabolites,\ntwo SRM transitions were selected based on maximum peak areas. All\nchromatographic separations were carried out on a Waters Acquity I-Class UPLC\n(Waters Corporation, Milford, MA).
attribute NC_GLOBAL awards_0_award_nid String 718130
attribute NC_GLOBAL awards_0_award_number String OCE-1521564
attribute NC_GLOBAL awards_0_data_url String http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1521564 (external link)
attribute NC_GLOBAL awards_0_funder_name String NSF Division of Ocean Sciences
attribute NC_GLOBAL awards_0_funding_acronym String NSF OCE
attribute NC_GLOBAL awards_0_funding_source_nid String 355
attribute NC_GLOBAL awards_0_program_manager String Elizabeth L. Rom
attribute NC_GLOBAL awards_0_program_manager_nid String 682003
attribute NC_GLOBAL cdm_data_type String Other
attribute NC_GLOBAL comment String Sulfonates in plankton cultures \n  PI: Bryndan P. Durham \n  Version date: 10 June 2020
attribute NC_GLOBAL Conventions String COARDS, CF-1.6, ACDD-1.3
attribute NC_GLOBAL creator_email String info at bco-dmo.org
attribute NC_GLOBAL creator_name String BCO-DMO
attribute NC_GLOBAL creator_type String institution
attribute NC_GLOBAL creator_url String https://www.bco-dmo.org/ (external link)
attribute NC_GLOBAL data_source String extract_data_as_tsv version 2.3  19 Dec 2019
attribute NC_GLOBAL dataset_current_state String Final and no updates
attribute NC_GLOBAL date_created String 2020-06-10T14:53:27Z
attribute NC_GLOBAL date_modified String 2020-06-10T20:25:53Z
attribute NC_GLOBAL defaultDataQuery String &time<now
attribute NC_GLOBAL doi String 10.26008/1912/bco-dmo.814713.1
attribute NC_GLOBAL infoUrl String https://www.bco-dmo.org/dataset/814713 (external link)
attribute NC_GLOBAL institution String BCO-DMO
attribute NC_GLOBAL instruments_0_acronym String Mass Spec
attribute NC_GLOBAL instruments_0_dataset_instrument_description String Targeted metabolomics data were generated using a Waters Xevo TQ-S triple quadrupole with both reverse-phase and hydrophilic interaction liquid chromatography (HILIC).
attribute NC_GLOBAL instruments_0_dataset_instrument_nid String 814730
attribute NC_GLOBAL instruments_0_description String General term for instruments used to measure the mass-to-charge ratio of ions; generally used to find the composition of a sample by generating a mass spectrum representing the masses of sample components.
attribute NC_GLOBAL instruments_0_instrument_external_identifier String https://vocab.nerc.ac.uk/collection/L05/current/LAB16/ (external link)
attribute NC_GLOBAL instruments_0_instrument_name String Mass Spectrometer
attribute NC_GLOBAL instruments_0_instrument_nid String 685
attribute NC_GLOBAL instruments_0_supplied_name String Waters Xevo TQ-S triple quadrupole
attribute NC_GLOBAL keywords String acid, bco, bco-dmo, biological, cells, cells_filtered, chemical, cysteic, cysteic_acid, data, dataset, dhps, dmo, erddap, filtered, isethionic, isethionic_acid, management, oceanography, office, organism, preliminary, replicate, sulfolactate, taurine
attribute NC_GLOBAL license String https://www.bco-dmo.org/dataset/814713/license (external link)
attribute NC_GLOBAL metadata_source String https://www.bco-dmo.org/api/dataset/814713 (external link)
attribute NC_GLOBAL param_mapping String {'814713': {}}
attribute NC_GLOBAL parameter_source String https://www.bco-dmo.org/mapserver/dataset/814713/parameters (external link)
attribute NC_GLOBAL people_0_affiliation String University of Washington
attribute NC_GLOBAL people_0_affiliation_acronym String UW
attribute NC_GLOBAL people_0_person_name String Bryndan P. Durham
attribute NC_GLOBAL people_0_person_nid String 718133
attribute NC_GLOBAL people_0_role String Principal Investigator
attribute NC_GLOBAL people_0_role_type String originator
attribute NC_GLOBAL people_1_affiliation String Woods Hole Oceanographic Institution
attribute NC_GLOBAL people_1_affiliation_acronym String WHOI BCO-DMO
attribute NC_GLOBAL people_1_person_name String Shannon Rauch
attribute NC_GLOBAL people_1_person_nid String 51498
attribute NC_GLOBAL people_1_role String BCO-DMO Data Manager
attribute NC_GLOBAL people_1_role_type String related
attribute NC_GLOBAL project String Sulfonate Cycling
attribute NC_GLOBAL projects_0_acronym String Sulfonate Cycling
attribute NC_GLOBAL projects_0_description String NSF Award Abstract:\nInformation in the form of chemicals and energy flows constantly through complex networks of marine microbes. In the surface ocean, sunlight and atmospheric carbon dioxide are captured by autotrophic unicellular phytoplankton and transformed into a vast pool of organic matter that microbes use as metabolic currencies and signaling molecules to form the basis for different trading alliances. Several little-known sulfonate compounds have recently been identified as key currencies underlying marine bacterial-phytoplankton mutualisms and appear to be widespread in coastal communities. In this project, the fellow will investigate the prevalence and role of sulfonates in marine microbial interactions and their resulting impact on the Earth's biogeochemistry. With sponsor Dr. E. Virginia Armbrust at the University of Washington, the fellow will advance professionally through interdisciplinary training in microbial ecology and marine biogeochemistry. Broadening participation activities include mentorship of an undergraduate and development of an outreach program for a local minority-serving high school where students will conduct classroom laboratory exercises using microbiological and bioinformatics concepts.\nSulfonates are produced and degraded by several important phytoplankton and heterotrophic bacterial taxa, respectively. Yet, these compounds represent a poorly understood component of the marine organic matter pool. To the extent that sulfonates account for an unquantified flux of carbon and sulfur that supports mutualisms between bacteria and phytoplankton, sulfonates represent cryptic missing links in both carbon and sulfur transformations in the ocean. In this study, the fellow will use laboratory-based approaches to examine physiological and ecological controls on sulfonate production in model phytoplankton species and field-based approaches to examine taxonomically driven dynamics of sulfonate pools in the coastal waters of Puget Sound and surrounding North Pacific. Specifically, the fellow will perform metabolic profiling of model sulfonate-producing phytoplankton taxa (Aim I) and measure spatiotemporal gradients and turnover rates of sulfonates in the ocean environment using targeted in situ metabolite surveys (II) and stable isotope incubations (III), respectively, together with transcriptomics-based identification of marine microbes that control the fate of sulfonate-derived carbon (IV). The planned experiments will provide the first intensive characterization of sulfonates in the environment in terms of their contribution to the marine organic matter pool, their taxonomically driven spatiotemporal dynamics, and their roles in ocean ecosystem interdependencies.
attribute NC_GLOBAL projects_0_end_date String 2017-06
attribute NC_GLOBAL projects_0_geolocation String University of Washington
attribute NC_GLOBAL projects_0_name String OCE-PRF Track 1 (Broadening Participation): Cryptic Sulfonate Cycling between Marine Phytoplankton and Heterotrophic Bacterioplankton
attribute NC_GLOBAL projects_0_project_nid String 718131
attribute NC_GLOBAL projects_0_start_date String 2015-07
attribute NC_GLOBAL publisher_name String Biological and Chemical Oceanographic Data Management Office (BCO-DMO)
attribute NC_GLOBAL publisher_type String institution
attribute NC_GLOBAL sourceUrl String (local files)
attribute NC_GLOBAL standard_name_vocabulary String CF Standard Name Table v55
attribute NC_GLOBAL summary String Intracellular sulfonate metabolites were measured in a variety of eukaryotic and prokaryotic phytoplankton and heterotrophic bacteria using liquid chromatography-mass spectrometry-based metabolomics. These data have been published in Durham et al. (2019). Raw data are available at Metabolomics Workbench under Project ID PR000797.
attribute NC_GLOBAL title String Intracellular sulfonate metabolites measured in a variety of eukaryotic and prokaryotic phytoplankton and heterotrophic bacteria using liquid chromatography-mass spectrometry-based metabolomics
attribute NC_GLOBAL version String 1
attribute NC_GLOBAL xml_source String osprey2erddap.update_xml() v1.5
variable Organism String
attribute Organism bcodmo_name String taxon
attribute Organism description String name and strain number
attribute Organism long_name String Organism
attribute Organism units String unitless
variable replicate String
attribute replicate bcodmo_name String replicate
attribute replicate description String biological replicate
attribute replicate long_name String Replicate
attribute replicate units String unitless
variable cells_filtered String
attribute cells_filtered bcodmo_name String number
attribute cells_filtered description String number of cells extracted
attribute cells_filtered long_name String Cells Filtered
attribute cells_filtered units String unitless
variable DHPS float
attribute DHPS _FillValue float NaN
attribute DHPS actual_range float 88.442, 3247.047
attribute DHPS bcodmo_name String unknown
attribute DHPS description String sulfonate
attribute DHPS long_name String DHPS
attribute DHPS units String amol per cell
variable cysteic_acid float
attribute cysteic_acid _FillValue float NaN
attribute cysteic_acid actual_range float 1.0E-4, 126.71
attribute cysteic_acid bcodmo_name String unknown
attribute cysteic_acid description String sulfonate
attribute cysteic_acid long_name String Cysteic Acid
attribute cysteic_acid units String amol per cell
variable sulfolactate float
attribute sulfolactate _FillValue float NaN
attribute sulfolactate actual_range float 0.002, 14.931
attribute sulfolactate bcodmo_name String unknown
attribute sulfolactate description String sulfonate
attribute sulfolactate long_name String Sulfolactate
attribute sulfolactate units String amol per cell
variable isethionic_acid double
attribute isethionic_acid _FillValue double NaN
attribute isethionic_acid actual_range double 8.164, 45919.871
attribute isethionic_acid bcodmo_name String unknown
attribute isethionic_acid description String sulfonate
attribute isethionic_acid long_name String Isethionic Acid
attribute isethionic_acid units String amol per cell
variable taurine float
attribute taurine _FillValue float NaN
attribute taurine actual_range float 4.0E-4, 15245.64
attribute taurine bcodmo_name String unknown
attribute taurine description String sulfonate
attribute taurine long_name String Taurine
attribute taurine units String amol per cell

 
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