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,.esriCsv,.geoJson
attribute NC_GLOBAL acquisition_description String Natural seawater was enriched for photoautotrophs and split into multiple\ntemperatures for two weeks. After the enrichment period, Synechococcus was\nisolated from each temperature. Each isolate's thermal niche was measured\nthrough a series of lab experiments and sequenced.\n \nThe culture of each isolate was filtered onto 0.22 um PES filters and genomic\nDNA extracted using Qiagen\\u2019s (CA) DNeasy Power Soil Extraction kit.\nSequencing was done by Novogene (Beijing, China) on an Illumina 1500 making\n2x150 pe reads.
attribute NC_GLOBAL awards_0_award_nid String 712792
attribute NC_GLOBAL awards_0_award_number String OCE-1638804
attribute NC_GLOBAL awards_0_data_url String http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1638804 (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 Michael E. Sieracki
attribute NC_GLOBAL awards_0_program_manager_nid String 50446
attribute NC_GLOBAL cdm_data_type String Other
attribute NC_GLOBAL comment String Synechococcus accessions \n   NCBI accessions for genomic sequence data of 11 new isolates of marine Synechococcus \n   PI: D. Hutchins (USC) \n   version date: 2019-11-20
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 2019-11-21T13:15:23Z
attribute NC_GLOBAL date_modified String 2020-03-09T12:47:21Z
attribute NC_GLOBAL defaultDataQuery String &time<now
attribute NC_GLOBAL doi String 10.1575/1912/bco-dmo.782301.1
attribute NC_GLOBAL Easternmost_Easting double -71.4
attribute NC_GLOBAL geospatial_lat_max double 41.47
attribute NC_GLOBAL geospatial_lat_min double 41.47
attribute NC_GLOBAL geospatial_lat_units String degrees_north
attribute NC_GLOBAL geospatial_lon_max double -71.4
attribute NC_GLOBAL geospatial_lon_min double -71.4
attribute NC_GLOBAL geospatial_lon_units String degrees_east
attribute NC_GLOBAL geospatial_vertical_max double 0.0
attribute NC_GLOBAL geospatial_vertical_min double 0.0
attribute NC_GLOBAL geospatial_vertical_positive String down
attribute NC_GLOBAL geospatial_vertical_units String m
attribute NC_GLOBAL infoUrl String https://www.bco-dmo.org/dataset/782301 (external link)
attribute NC_GLOBAL institution String BCO-DMO
attribute NC_GLOBAL instruments_0_acronym String Automated Sequencer
attribute NC_GLOBAL instruments_0_dataset_instrument_description String Sequencing was done by Novogene (Beijing, China) on an Illumina 1500 making 2x150 pe reads.
attribute NC_GLOBAL instruments_0_dataset_instrument_nid String 782307
attribute NC_GLOBAL instruments_0_description String General term for a laboratory instrument used for deciphering the order of bases in a strand of DNA. Sanger sequencers detect fluorescence from different dyes that are used to identify the A, C, G, and T extension reactions. Contemporary or Pyrosequencer methods are based on detecting the activity of DNA polymerase (a DNA synthesizing enzyme) with another chemoluminescent enzyme. Essentially, the method allows sequencing of a single strand of DNA by synthesizing the complementary strand along it, one base pair at a time, and detecting which base was actually added at each step.
attribute NC_GLOBAL instruments_0_instrument_name String Automated DNA Sequencer
attribute NC_GLOBAL instruments_0_instrument_nid String 649
attribute NC_GLOBAL instruments_0_supplied_name String Illumina 1500
attribute NC_GLOBAL keywords String accession, bco, bco-dmo, biological, chemical, data, dataset, depth, dmo, erddap, isolate, latitude, longitude, management, name, oceanography, office, organism, preliminary, sample, Sample_Name, spuid, tax, Tax_ID
attribute NC_GLOBAL license String https://www.bco-dmo.org/dataset/782301/license (external link)
attribute NC_GLOBAL metadata_source String https://www.bco-dmo.org/api/dataset/782301 (external link)
attribute NC_GLOBAL Northernmost_Northing double 41.47
attribute NC_GLOBAL param_mapping String {'782301': {'Lat': 'flag - latitude', 'Depth': 'flag - depth', 'Long': 'flag - longitude'}}
attribute NC_GLOBAL parameter_source String https://www.bco-dmo.org/mapserver/dataset/782301/parameters (external link)
attribute NC_GLOBAL people_0_affiliation String University of Southern California
attribute NC_GLOBAL people_0_affiliation_acronym String USC
attribute NC_GLOBAL people_0_person_name String David A. Hutchins
attribute NC_GLOBAL people_0_person_nid String 51048
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 Nancy Copley
attribute NC_GLOBAL people_1_person_nid String 50396
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 Phytoplankton Community Responses
attribute NC_GLOBAL projects_0_acronym String Phytoplankton Community Responses
attribute NC_GLOBAL projects_0_description String NSF Award Abstract:\nPhotosynthetic marine microbes, phytoplankton, contribute half of global primary production, form the base of most aquatic food webs and are major players in global biogeochemical cycles. Understanding their community composition is important because it affects higher trophic levels, the cycling of energy and elements and is sensitive to global environmental change. This project will investigate how phytoplankton communities respond to two major global change stressors in aquatic systems: warming and changes in nutrient availability. The researchers will work in two marine systems with a long history of environmental monitoring, the temperate Narragansett Bay estuary in Rhode Island and a subtropical North Atlantic site near Bermuda. They will use field sampling and laboratory experiments with multiple species and varieties of phytoplankton to assess the diversity in their responses to different temperatures under high and low nutrient concentrations. If the diversity of responses is high within species, then that species may have a better chance to adapt to rising temperatures and persist in the future. Some species may already be able to grow at high temperatures; consequently, they may become more abundant as the ocean warms. The researchers will incorporate this response information in mathematical models to predict how phytoplankton assemblages would reorganize under future climate scenarios. Graduate students and postdoctoral associates will be trained in diverse scientific approaches and techniques such as shipboard sampling, laboratory experiments, genomic analyses and mathematical modeling. The results of the project will be incorporated into K-12 teaching, including an advanced placement environmental science class for underrepresented minorities in Los Angeles, data exercises for rural schools in Michigan and disseminated to the public through an environmental journalism institute based in Rhode Island.\nPredicting how ecological communities will respond to a changing environment requires knowledge of genetic, phylogenetic and functional diversity within and across species. This project will investigate how the interaction of phylogenetic, genetic and functional diversity in thermal traits within and across a broad range of species determines the responses of marine phytoplankton communities to rising temperature and changing nutrient regimes. High genetic and functional diversity within a species may allow evolutionary adaptation of that species to warming. If the phylogenetic and functional diversity is higher across species, species sorting and ecological community reorganization is likely. Different marine sites may have a different balance of genetic and functional diversity within and across species and, thus, different contribution of evolutionary and ecological responses to changing climate. The research will be conducted at two long-term time series sites in the Atlantic Ocean, the Narragansett Bay Long-Term Plankton Time Series and the Bermuda Atlantic Time Series (BATS) station. The goal is to assess intra- and inter-specific genetic and functional diversity in thermal responses at contrasting nutrient concentrations for a representative range of species in communities at the two sites in different seasons, and use this information to parameterize eco-evolutionary models embedded into biogeochemical ocean models to predict responses of phytoplankton communities to projected rising temperatures under realistic nutrient conditions. Model predictions will be informed by and tested with field data, including the long-term data series available for both sites and in community temperature manipulation experiments. This project will provide novel information on existing intraspecific genetic and functional thermal diversity for many ecologically and biogeochemically important phytoplankton species, estimate generation of new genetic and functional diversity in evolution experiments, and develop and parameterize novel eco-evolutionary models interfaced with ocean biogeochemical models to predict future phytoplankton community structure. The project will also characterize the interaction of two major global change stressors, warming and changing nutrient concentrations, as they affect phytoplankton diversity at functional, genetic, and phylogenetic levels. In addition, the project will develop novel modeling methodology that will be broadly applicable to understanding how other types of complex ecological communities may adapt to a rapidly warming world.
attribute NC_GLOBAL projects_0_end_date String 2020-09
attribute NC_GLOBAL projects_0_geolocation String Narragansett Bay, RI and Bermuda, Bermuda Atlantic Time-series Study (BATS)
attribute NC_GLOBAL projects_0_name String Dimensions: Collaborative Research: Genetic, functional and phylogenetic diversity determines marine phytoplankton community responses to changing temperature and nutrients
attribute NC_GLOBAL projects_0_project_nid String 712787
attribute NC_GLOBAL projects_0_start_date String 2016-10
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 Southernmost_Northing double 41.47
attribute NC_GLOBAL standard_name_vocabulary String CF Standard Name Table v55
attribute NC_GLOBAL subsetVariables String Organism,Tax_ID,latitude,longitude,depth
attribute NC_GLOBAL summary String NCBI accessions for raw genomic sequence data of 11 new isolates of marine Synechococcus from Naragansett Bay.
attribute NC_GLOBAL title String [Synechococcus accessions] - NCBI accessions for raw genomic sequence data of 11 new isolates of marine Synechococcus from Naragansett Bay, July 2017 (Dimensions: Collaborative Research: Genetic, functional and phylogenetic diversity determines marine phytoplankton community responses to changing temperature and nutrients)
attribute NC_GLOBAL version String 1
attribute NC_GLOBAL Westernmost_Easting double -71.4
attribute NC_GLOBAL xml_source String osprey2erddap.update_xml() v1.5
variable Accession String
attribute Accession bcodmo_name String accession number
attribute Accession description String NCBI accession number
attribute Accession long_name String Accession
attribute Accession units String unitless
variable Sample_Name String
attribute Sample_Name bcodmo_name String sample
attribute Sample_Name description String sample description
attribute Sample_Name long_name String Sample Name
attribute Sample_Name nerc_identifier String https://vocab.nerc.ac.uk/collection/P02/current/ACYC/ (external link)
attribute Sample_Name units String unitless
variable SPUID String
attribute SPUID bcodmo_name String sample
attribute SPUID description String sample description
attribute SPUID long_name String SPUID
attribute SPUID nerc_identifier String https://vocab.nerc.ac.uk/collection/P02/current/ACYC/ (external link)
attribute SPUID units String unitless
variable Organism String
attribute Organism bcodmo_name String taxon
attribute Organism description String taxonomic genus of sample
attribute Organism long_name String Organism
attribute Organism units String unitless
variable Tax_ID short
attribute Tax_ID _FillValue short 32767
attribute Tax_ID actual_range short 1129, 1129
attribute Tax_ID bcodmo_name String taxon_code
attribute Tax_ID description String taxonomic identifier code
attribute Tax_ID long_name String Tax ID
attribute Tax_ID units String unitless
variable Isolate String
attribute Isolate bcodmo_name String taxon_code
attribute Isolate description String isolate identifier
attribute Isolate long_name String Isolate
attribute Isolate units String unitless
variable latitude double
attribute latitude _CoordinateAxisType String Lat
attribute latitude _FillValue double NaN
attribute latitude actual_range double 41.47, 41.47
attribute latitude axis String Y
attribute latitude bcodmo_name String latitude
attribute latitude colorBarMaximum double 90.0
attribute latitude colorBarMinimum double -90.0
attribute latitude description String latitude of sample collection; north is positive
attribute latitude ioos_category String Location
attribute latitude long_name String Latitude
attribute latitude nerc_identifier String https://vocab.nerc.ac.uk/collection/P09/current/LATX/ (external link)
attribute latitude standard_name String latitude
attribute latitude units String degrees_north
variable longitude double
attribute longitude _CoordinateAxisType String Lon
attribute longitude _FillValue double NaN
attribute longitude actual_range double -71.4, -71.4
attribute longitude axis String X
attribute longitude bcodmo_name String longitude
attribute longitude colorBarMaximum double 180.0
attribute longitude colorBarMinimum double -180.0
attribute longitude description String longitude of sample collection; north is positive
attribute longitude ioos_category String Location
attribute longitude long_name String Longitude
attribute longitude nerc_identifier String https://vocab.nerc.ac.uk/collection/P09/current/LONX/ (external link)
attribute longitude source_name String Long
attribute longitude standard_name String longitude
attribute longitude units String degrees_east
variable depth double
attribute depth _CoordinateAxisType String Height
attribute depth _CoordinateZisPositive String down
attribute depth _FillValue double NaN
attribute depth actual_range double 0.0, 0.0
attribute depth axis String Z
attribute depth bcodmo_name String depth
attribute depth colorBarMaximum double 8000.0
attribute depth colorBarMinimum double -8000.0
attribute depth colorBarPalette String TopographyDepth
attribute depth description String depth of sample collection
attribute depth ioos_category String Location
attribute depth long_name String Depth
attribute depth nerc_identifier String https://vocab.nerc.ac.uk/collection/P09/current/DEPH/ (external link)
attribute depth positive String down
attribute depth standard_name String depth
attribute depth units String m

 
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