Accessing BCO-DMO data
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BCO-DMO ERDDAP
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| Dataset Title: | [Trichodesmiium field metaproteomes - sample provenance] - Trichodesmium sample provenance from samples collected in North Atlantic surface waters, station BATS, and station ALOHA between 2000 and 2018 (Collaborative Research: Iron and phosphorus balanced limitation of nitrogen fixation in the oligotrophic ocean) 
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| Institution: | BCO-DMO (Dataset ID: bcodmo_dataset_787093) |
| Information: | Summary
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| FGDC
| ISO 19115
| Metadata
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Attributes {
s {
Name {
String bcodmo_name "sample";
String description "Sample name";
String long_name "Name";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P02/current/ACYC/";
String units "unitless";
}
Replication {
String bcodmo_name "sample_descrip";
String description "Replication (singlicate|duplicate|triplicate)";
String long_name "Replication";
String units "unitless";
}
Cruise {
String bcodmo_name "cruise_id";
String description "Cruise identifier (or station BATS or HOT)";
String long_name "Cruise";
String units "unitless";
}
Cruise_station_num {
Byte _FillValue 127;
String _Unsigned "false";
Byte actual_range 1, 19;
String bcodmo_name "station";
String description "Station number";
String long_name "Cruise Station Num";
String units "unitless";
}
Time_sampled {
String bcodmo_name "sample_descrip";
String description "Description of time sampled";
String long_name "Time Sampled";
String units "unitless";
}
Date_sampled {
String bcodmo_name "date";
String description "Date of sample";
String long_name "Date Sampled";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P01/current/ADATAA01/";
String source_name "Date_sampled";
String time_precision "1970-01-01";
String units "unitless";
}
Net_size {
Int16 _FillValue 32767;
Int16 actual_range 130, 200;
String bcodmo_name "net_mesh";
String description "Plankton net mesh size";
String long_name "Net Size";
String units "microns (um)";
}
Filter_size {
Float32 _FillValue NaN;
Float32 actual_range 0.2, 5.0;
String bcodmo_name "filter_size";
String description "Supor filter size";
String long_name "Filter Size";
String units "microns (um)";
}
latitude {
String _CoordinateAxisType "Lat";
Float64 _FillValue NaN;
Float64 actual_range 0.17976, 31.4;
String axis "Y";
String bcodmo_name "latitude";
Float64 colorBarMaximum 90.0;
Float64 colorBarMinimum -90.0;
String description "Latitude";
String ioos_category "Location";
String long_name "Latitude";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P09/current/LATX/";
String standard_name "latitude";
String units "degrees_north";
}
longitude {
String _CoordinateAxisType "Lon";
Float64 _FillValue NaN;
Float64 actual_range -158.0, -21.59;
String axis "X";
String bcodmo_name "longitude";
Float64 colorBarMaximum 180.0;
Float64 colorBarMinimum -180.0;
String description "Longitude";
String ioos_category "Location";
String long_name "Longitude";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P09/current/LONX/";
String standard_name "longitude";
String units "degrees_east";
}
time_zone {
String bcodmo_name "timezone";
String description "Local time zone used for columns Date_sampled and Time_sampled.";
String long_name "Time Zone";
String units "unitless";
}
}
NC_GLOBAL {
String access_formats ".htmlTable,.csv,.json,.mat,.nc,.tsv,.esriCsv,.geoJson";
String acquisition_description
"A 200mm plankton net was deployed to ~20m depth, then recovered to just below
surface, repeating five times. Trichodesmium colonies were hand-picked into
0.2mm filtered surface seawater, rinsed twice in 0.2mm filtered surface
seawater, and decanted onto a 0.2-4mm Supor filter.";
String awards_0_award_nid "646121";
String awards_0_award_number "GBMF3934";
String awards_0_funder_name "Gordon and Betty Moore Foundation";
String awards_0_funding_acronym "GBMF";
String awards_0_funding_source_nid "361";
String awards_1_award_nid "646122";
String awards_1_award_number "GBMF3782";
String awards_1_data_url "https://www.moore.org/grant-detail?grantId=GBMF3782";
String awards_1_funder_name "Gordon and Betty Moore Foundation: Marine Microbiology Initiative";
String awards_1_funding_acronym "MMI";
String awards_1_funding_source_nid "385";
String awards_2_award_nid "724457";
String awards_2_award_number "OCE-1657766";
String awards_2_data_url "http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1657766";
String awards_2_funder_name "NSF Division of Ocean Sciences";
String awards_2_funding_acronym "NSF OCE";
String awards_2_funding_source_nid "355";
String awards_2_program_manager "David L. Garrison";
String awards_2_program_manager_nid "50534";
String awards_3_award_nid "786678";
String awards_3_award_number "OCE-1850719";
String awards_3_data_url "http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1850719";
String awards_3_funder_name "NSF Division of Ocean Sciences";
String awards_3_funding_acronym "NSF OCE";
String awards_3_funding_source_nid "355";
String awards_3_program_manager "Daniel Thornhill";
String awards_3_program_manager_nid "722161";
String cdm_data_type "Other";
String comment
"Trichodesmium sample provenance
PI: Mak A. Saito
Data Version 1: 2020-01-10";
String Conventions "COARDS, CF-1.6, ACDD-1.3";
String creator_email "info@bco-dmo.org";
String creator_name "BCO-DMO";
String creator_type "institution";
String creator_url "https://www.bco-dmo.org/";
String data_source "extract_data_as_tsv version 2.3 19 Dec 2019";
String date_created "2020-01-10T20:04:13Z";
String date_modified "2020-04-02T18:12:49Z";
String defaultDataQuery "&time<now";
String doi "10.26008/1912/bco-dmo.787093.1";
Float64 Easternmost_Easting -21.59;
Float64 geospatial_lat_max 31.4;
Float64 geospatial_lat_min 0.17976;
String geospatial_lat_units "degrees_north";
Float64 geospatial_lon_max -21.59;
Float64 geospatial_lon_min -158.0;
String geospatial_lon_units "degrees_east";
String history
"2024-11-21T11:48:30Z (local files)
2024-11-21T11:48:30Z https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_787093.html";
String infoUrl "https://www.bco-dmo.org/dataset/787093";
String institution "BCO-DMO";
String keywords "bco, bco-dmo, biological, chemical, cruise, Cruise_station_num, data, dataset, date, dmo, erddap, filter, Filter_size, latitude, longitude, management, name, net, Net_size, num, oceanography, office, preliminary, replication, sampled, size, station, time, Time_sampled, time_zone, zone";
String license "https://www.bco-dmo.org/dataset/787093/license";
String metadata_source "https://www.bco-dmo.org/api/dataset/787093";
Float64 Northernmost_Northing 31.4;
String param_mapping "{'787093': {'Latitude': 'master - latitude', 'Longitude': 'master - longitude'}}";
String parameter_source "https://www.bco-dmo.org/mapserver/dataset/787093/parameters";
String people_0_affiliation "Woods Hole Oceanographic Institution";
String people_0_affiliation_acronym "WHOI";
String people_0_person_name "Mak A. Saito";
String people_0_person_nid "50985";
String people_0_role "Principal Investigator";
String people_0_role_type "originator";
String people_1_affiliation "Woods Hole Oceanographic Institution";
String people_1_affiliation_acronym "WHOI";
String people_1_person_name "Noelle Held";
String people_1_person_nid "787371";
String people_1_role "Student";
String people_1_role_type "related";
String people_2_affiliation "Woods Hole Oceanographic Institution";
String people_2_affiliation_acronym "WHOI BCO-DMO";
String people_2_person_name "Amber York";
String people_2_person_nid "643627";
String people_2_role "BCO-DMO Data Manager";
String people_2_role_type "related";
String project "TriCoLim,MM Proteins and Organics Tech,MM Saito,Cyanobacteria Warming Responses";
String projects_0_acronym "TriCoLim";
String projects_0_description
"NSF abstract:
Marine cyanobacteria are able to use or \"fix\" atmospheric nitrogen gas, and so supply much of the essential nutrient nitrogen that supports open ocean food chains. Oceanographers have usually thought that the growth of these nitrogen-fixing cyanobacteria is limited at any particular time and place by the supply of either iron, or of phosphorus. Preliminary experiments have shown, though, that these nitrogen fixers instead grow best when both iron and phosphorus are scarce at the same time. In this project, the researchers will use cellular indicators that are specific for iron and phosphorus limitation to determine how important this type of \"balanced limitation\" of nitrogen-fixing cyanobacteria is in controlling the productivity of ocean food chains in the tropical Atlantic Ocean. Two graduate students will be trained at the University of Southern California (USC) and Woods Hole Oceanographic Institution, as well as a postdoctoral researcher at USC. Educational outreach efforts will take place at a Los Angeles inner city high school with a student body that is over 98% Hispanic and African-American, and with underrepresented undergraduates in the USC Global Environmental Microbiology course. In addition, two Research Experiences for Undergraduates students will be supervised for summer research projects to help them learn about science career options.
The researchers will investigate the biological and biogeochemical consequences of this unique balanced iron/phosphorus-limited phenotype, using both laboratory and fieldwork approaches. During the first year of this project, the nitrogen-fixing cyanobacteria will be cultured under iron and/or phosphorus limitation, followed by application of proteomics and transcriptomics to identify genes that are potential diagnostic biomarkers for iron/phosphorus balanced limitation. Preliminary work has already identified one promising candidate biomarker in one cyanobacterium, an EzrA protein domain that appears to be associated with the cell size decreases seen specifically under balanced limitation, and the researchers have identified numerous other potential candidates for similar biomarkers. During the second year, these new co-limitation biomarkers and others previously validated for iron limitation (IsiB) and phosphorus limitation (SphX) will be used to investigate balanced limitation during a research cruise transecting from relatively high-iron, low-phosphorus North Atlantic waters, to the relatively high-phosphorus, low-iron South Atlantic. This fieldwork component will survey nitrogen fixing cyanobacteria populations across this natural iron/phosphorus gradient for genetic, proteomic, and physiological indicators of balanced limitation, as well as testing their responses to iron and phosphorus manipulations in shipboard incubation experiments. The third year will be devoted to sample analysis, and publications exploring the responses of oceanic nitrogen fixers to simultaneous limitation by both iron and phosphorus.";
String projects_0_end_date "2020-02";
String projects_0_geolocation "Tropical Atlantic";
String projects_0_name "Collaborative Research: Iron and phosphorus balanced limitation of nitrogen fixation in the oligotrophic ocean";
String projects_0_project_nid "724451";
String projects_0_start_date "2017-03";
String projects_1_acronym "MM Proteins and Organics Tech";
String projects_1_description "In support of acquiring a high resolution mass spectrometer that incorporates the latest technologies for analyzing proteins and other organic materials.";
String projects_1_end_date "2014-06";
String projects_1_name "New technology for high resolution analysis of proteins and other organic materials produced by marine microorganisms";
String projects_1_project_nid "786670";
String projects_1_project_website "https://www.moore.org/grant-detail?grantId=GBMF3934";
String projects_1_start_date "2013-06";
String projects_2_acronym "MM Saito";
String projects_2_description "In support of obtaining deeper knowledge of major biogeochemically relevant proteins to inform a mechanistic understanding of global marine biogeochemical cycles.";
String projects_2_end_date "2019-12";
String projects_2_name "Marine Microbial Investigator Award: Investigator Mak Saito";
String projects_2_project_nid "786672";
String projects_2_start_date "2013-05";
String projects_3_acronym "Cyanobacteria Warming Responses";
String projects_3_description
"NSF abstract:
The oceans absorb much of the heat generated by human activities, and this warming of the surface ocean has consequences for important groups of marine organisms. Marine cyanobacteria are one such key group of organisms, since they supply much of the essential carbon and nitrogen that supports nearly all the rest of the marine food web. Currently, the growth of cyanobacteria is mostly constrained by scarce supplies of the micronutrient element iron, but they are also very sensitive to the ongoing increases in seawater temperature. Preliminary results suggest that warming could partly mitigate the negative effects of iron limitation on marine cyanobacteria. This project examines in depth how these interactions between warming and iron limitation will affect the future ocean carbon and nitrogen cycles, using laboratory culture experiments showing how cyanobacteria respond to simultaneously changing temperature and iron supplies. Both short-term response studies and long-term evolutionary experiments testing for adaptation use a comprehensive set of molecular biology tools targeting genes to proteins. The final goal is to apply the results of these experiments to improve quantitative models predicting how the ocean's carbon and nitrogen cycles, biological productivity, and living resources will respond to a warming future climate. Two graduate students, a postdoc and 3-4 underrepresented undergraduate researchers are supported, and the investigators also mentor summer science interns from largely Hispanic local high schools.
The physiology, biochemistry and biogeography of nitrogen-fixing cyanobacteria and unicellular picocyanobacteria are strongly influenced by temperature, subjecting them to intense selective pressure as the modern ocean steadily warms up. These groups have likewise been rigorously selected under chronic iron (Fe) scarcity, and the availability of this crucial micronutrient is also changing with a shifting climate. This project examines short-term acclimation and long-term evolutionary responses of Fe-stressed marine cyanobacteria to a warmer environment. Preliminary data show that Iron Use Efficiencies (IUE, mols N fixed.hr-1 mol cellular Fe-1) of Fe-limited Trichodesmium increase 4 to 5-fold with a 5oC temperature increase, allowing the cells to much more efficiently leverage scarce available Fe supplies to grow and fix nitrogen. This means that warming can to a large degree mitigate the negative effects of Fe limitation on Trichodesmium, resulting in a modelled 22% increase in global nitrogen fixation by 2100 in a warmer climate. This project aims to uncover the cellular biochemical mechanisms involved in this Fe-limitation/thermal IUE effect in a four-year experimental evolution study of the diazotrophs Trichodesmium and Crocosphaera and the picocyanobacteria Synechococcus and Prochlorococcus, under a multi-variate selection matrix of temperature and Fe availability. The objectives are to 1) Assess the long-term adaptive responses of fitness, IUE and physiology to Fe limitation and warming interactions in these four major cyanobacterial groups; 2) Determine the molecular and biochemical mechanisms behind the surprising Fe/warming interactive effect on IUE using genomics, transcriptomics and quantitative proteomics coupled with 'metalloproteomics' determinations of Fe content in critical proteins; 3) Compare and contrast acclimation and adaptation responses to Fe limitation and warming in key cyanobacteria taxa, and 4) Integrate results using a published biogeochemical modeling approach to assess global consequences for marine productivity and nitrogen fixation. This project offers a mechanistic and predictive understanding of adaptation to Fe and warming co-stressors in a rapidly changing future ocean environment for some of the most important photoautotrophic functional groups in the ocean.
This award reflects NSF's statutory mission and has been deemed worthy of support through evaluation using the Foundation's intellectual merit and broader impacts review criteria.";
String projects_3_end_date "2023-03";
String projects_3_name "Collaborative Research: Evolutionary, biochemical and biogeochemical responses of marine cyanobacteria to warming and iron limitation interactions";
String projects_3_project_nid "786679";
String projects_3_start_date "2019-04";
String publisher_name "Biological and Chemical Oceanographic Data Management Office (BCO-DMO)";
String publisher_type "institution";
String sourceUrl "(local files)";
Float64 Southernmost_Northing 0.17976;
String standard_name_vocabulary "CF Standard Name Table v55";
String summary "Trichodesmium sample provenance collected in North Atlantic surface waters, at station BATS (Bermuda Atlantic Time-series Study), and station ALOHA (A Long-Term Oligotrophic Habitat Assessment) between 2000 and 2018.";
String title "[Trichodesmiium field metaproteomes - sample provenance] - Trichodesmium sample provenance from samples collected in North Atlantic surface waters, station BATS, and station ALOHA between 2000 and 2018 (Collaborative Research: Iron and phosphorus balanced limitation of nitrogen fixation in the oligotrophic ocean)";
String version "1";
Float64 Westernmost_Easting -158.0;
String xml_source "osprey2erddap.update_xml() v1.3";
}
}
Data Access Protocol (DAP) and its
selection constraints.
The URL specifies what you want: the dataset, a description of the graph or the subset of the data, and the file type for the response.
Tabledap request URLs must be in the form
https://coastwatch.pfeg.noaa.gov/erddap/tabledap/datasetID.fileType{?query}
For example,
https://coastwatch.pfeg.noaa.gov/erddap/tabledap/pmelTaoDySst.htmlTable?longitude,latitude,time,station,wmo_platform_code,T_25&time>=2015-05-23T12:00:00Z&time<=2015-05-31T12:00:00Z
Thus, the query is often a comma-separated list of desired variable names,
followed by a collection of
constraints (e.g., variable<value),
each preceded by '&' (which is interpreted as "AND").
For details, see the tabledap Documentation.