Accessing BCO-DMO data
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BCO-DMO ERDDAP
Accessing BCO-DMO data |
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| Dataset Title: | [Hard Substrates Isotopes, AT37-13 & AT42-03] - Averages and standard deviation across species for all macrofauna found on each carbonate rock collected during R/V Atlantis cruise AT37-13 in the Pacific margin of Costa Rica from May to June 2017 (Collaborative research: Quantifying the biological, chemical, and physical linkages between chemosynthetic communities and the surrounding deep sea) 
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| Institution: | BCO-DMO (Dataset ID: bcodmo_dataset_747575) |
| Information: | Summary
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| ISO 19115
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Attributes {
s {
cruise {
String bcodmo_name "cruiseid";
String description "Cruise ID, either AT37-13 or AT42-03";
String long_name "Cruise";
String units "unitless";
}
site {
String bcodmo_name "site_descrip";
String description "Site name";
String long_name "Site";
String units "unitless";
}
experiment {
String bcodmo_name "exp_type";
String description "Experiment, either Colonization of In situ";
String long_name "Experiment";
String units "unitless";
}
substrate_number_and_dive {
String bcodmo_name "dive_id";
String description "Substrate number and Alivn dive from which the sample was collected";
String long_name "Substrate Number And Dive";
String units "unitless";
}
habitat {
String bcodmo_name "site_descrip";
String description "Seepage activity (active or inactive)";
String long_name "Habitat";
String units "unitless";
}
d13C_avg {
Float32 _FillValue NaN;
Float32 actual_range -45.43, -15.4;
String bcodmo_name "d13C";
String description "Average of carbon isotope signature of animals on that substrate";
String long_name "D13 C Avg";
String units "per mil";
}
d15N_avg {
Float32 _FillValue NaN;
Float32 actual_range -2.55, 12.62;
String bcodmo_name "d15N";
String description "Average of nitrogen isotope signature of animals on that substrate";
String long_name "D15 N Avg";
String units "per mil";
}
d13C_stdev {
Float32 _FillValue NaN;
Float32 actual_range 0.25, 10.49;
String bcodmo_name "d13C";
String description "Standard deviation of carbon isotope signature of animals on that substrate";
String long_name "D13 C Stdev";
String units "per mil";
}
d15N_stdev {
Float32 _FillValue NaN;
Float32 actual_range 0.44, 4.96;
String bcodmo_name "d15N";
String description "Standard deviation of nitrogen isotope signature of animals on that substrate";
String long_name "D15 N Stdev";
String units "per mil";
}
}
NC_GLOBAL {
String access_formats ".htmlTable,.csv,.json,.mat,.nc,.tsv";
String acquisition_description
"Carbonate rocks were collected across seepage gradients at Mound 12 using HOV
Alvin, and washed in miliQ water onboard. Before preserving, the sample was
kept cold and animals were picked to sample tissue for isotope analysis. The
tissue (aprox. 0.5 mg) was placed in pre weighted tin boats or combusted vials
(500C overnight) and frozen at -70C. The remaining washed sample was sieved
through 0.3 mm mesh, separating the sample in two fractions (a fine fraction
with the meiofauna, and a coarser one with the macrofauna), both preserved in
96% Ethanol. In the laboratory, tissue samples were oven dried (60C)
overnight, weighed and acidified with 12.5-25 ul 1N H3PO4 to remove inorganic
C. Stable isotope\\u00a0measurements (d13C and d15N) were carried out using a
Costech elemental analyzer coupled to a Micromass Iso-prime isotope ratio mass
spectrometer (EA/IRMS) at Washington State University.";
String awards_0_award_nid "710021";
String awards_0_award_number "OCE-1634172";
String awards_0_data_url "http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1634172";
String awards_0_funder_name "NSF Division of Ocean Sciences";
String awards_0_funding_acronym "NSF OCE";
String awards_0_funding_source_nid "355";
String awards_0_program_manager "Michael E. Sieracki";
String awards_0_program_manager_nid "50446";
String cdm_data_type "Other";
String comment
"Hard substrate isotopes
Data Version 1: 2020-01-09";
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 "2018-10-05T16:41:30Z";
String date_modified "2020-01-14T16:17:13Z";
String defaultDataQuery "&time<now";
String doi "10.1575/1912/bco-dmo.747575.1";
String history
"2024-11-23T16:47:01Z (local files)
2024-11-23T16:47:01Z https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_747575.html";
String infoUrl "https://www.bco-dmo.org/dataset/747575";
String institution "BCO-DMO";
String instruments_0_acronym "IR Mass Spec";
String instruments_0_dataset_instrument_description "Stable isotopes measurements (d13C and d15N) were carried out using a Costech elemental analyzer coupled to a Micromass Iso-prime isotope ratio mass spectrometer (EA/IRMS) at Washington State University.";
String instruments_0_dataset_instrument_nid "747586";
String instruments_0_description "The Isotope-ratio Mass Spectrometer is a particular type of mass spectrometer used to measure the relative abundance of isotopes in a given sample (e.g. VG Prism II Isotope Ratio Mass-Spectrometer).";
String instruments_0_instrument_external_identifier "https://vocab.nerc.ac.uk/collection/L05/current/LAB16/";
String instruments_0_instrument_name "Isotope-ratio Mass Spectrometer";
String instruments_0_instrument_nid "469";
String instruments_0_supplied_name "Micromass Iso-prime isotope ratio mass spectrometer";
String instruments_1_dataset_instrument_description "Stable isotopes measurements (d13C and d15N) were carried out using a Costech elemental analyzer coupled to a Micromass Iso-prime isotope ratio mass spectrometer (EA/IRMS) at Washington State University.";
String instruments_1_dataset_instrument_nid "747585";
String instruments_1_description "Instruments that quantify carbon, nitrogen and sometimes other elements by combusting the sample at very high temperature and assaying the resulting gaseous oxides. Usually used for samples including organic material.";
String instruments_1_instrument_external_identifier "https://vocab.nerc.ac.uk/collection/L05/current/LAB01/";
String instruments_1_instrument_name "Elemental Analyzer";
String instruments_1_instrument_nid "546339";
String instruments_1_supplied_name "Costech elemental analyzer";
String keywords "average, bco, bco-dmo, biological, chemical, cruise, d13, d13C_avg, d13C_stdev, d15, d15N_avg, d15N_stdev, data, dataset, deviation, dive, dmo, erddap, experiment, habitat, management, number, oceanography, office, preliminary, site, standard, standard deviation, stdev, substrate, substrate_number_and_dive";
String license "https://www.bco-dmo.org/dataset/747575/license";
String metadata_source "https://www.bco-dmo.org/api/dataset/747575";
String param_mapping "{'747575': {}}";
String parameter_source "https://www.bco-dmo.org/mapserver/dataset/747575/parameters";
String people_0_affiliation "University of California-San Diego";
String people_0_affiliation_acronym "UCSD-SIO";
String people_0_person_name "Lisa A Levin";
String people_0_person_nid "51242";
String people_0_role "Principal Investigator";
String people_0_role_type "originator";
String people_1_affiliation "University of California-San Diego";
String people_1_affiliation_acronym "UCSD-SIO";
String people_1_person_name "Gregory Rouse";
String people_1_person_nid "51433";
String people_1_role "Co-Principal Investigator";
String people_1_role_type "originator";
String people_2_affiliation "University of California-San Diego";
String people_2_affiliation_acronym "UCSD-SIO";
String people_2_person_name "Lisa A Levin";
String people_2_person_nid "51242";
String people_2_role "Contact";
String people_2_role_type "related";
String people_3_affiliation "Woods Hole Oceanographic Institution";
String people_3_affiliation_acronym "WHOI BCO-DMO";
String people_3_person_name "Shannon Rauch";
String people_3_person_nid "51498";
String people_3_role "BCO-DMO Data Manager";
String people_3_role_type "related";
String people_4_affiliation "Woods Hole Oceanographic Institution";
String people_4_affiliation_acronym "WHOI BCO-DMO";
String people_4_person_name "Karen Soenen";
String people_4_person_nid "748773";
String people_4_role "BCO-DMO Data Manager";
String people_4_role_type "related";
String project "Costa Rica Seeps";
String projects_0_acronym "Costa Rica Seeps";
String projects_0_description
"NSF abstract:
If life were to disappear from the deep sea, would we notice? We only have a cursory understanding of this vast region and the connectivity among its communities and the rest of the oceans, and yet the ecosystems of the deep sea have been implicated in the larger function of the global marine ecosystems. We now rely on the deep ocean for food, energy, novel drugs and materials, and for its role in the global cycling of carbon, as well as for supporting services such as habitat creation, nutrient replenishment for shallow waters, and the maintenance of biodiversity. Cold seeps, active areas of the seafloor where methane and other chemicals are released, are key features along the continental margins worldwide. To characterize how methane seep communities interact with the surrounding ecosystems and vice versa, we will study methane seeps off the Pacific coast of Costa Rica in 2017 and 2018. It is the sphere of influence around the seep, both along the seafloor and up into the water column, that we seek to better understand. We will map the structure and the chemistry surrounding these habitats using a novel 3-dimensional framework, combining typical transects with vertical characterizations of the water column just above the seafloor. This will include measurements of methane flux into the water column and changes in the overlying carbonate chemistry and oxygen levels that are critical to our understanding of the effect of warming, oxygen loss and ocean acidification in this region. Within this framework, we will collect seep organisms in sediments and on rocks (including all sizes from microbes to large animals), and transplant some of these from within the area of seep influence to the background deep sea, and vice-versa. Together, these studies will help us to measure the size of the seep sphere of influence, and also demonstrate the role of these seeps within the deep sea and the greater, global, marine ecosystem. We will share this information with a group of teachers during a series of workshops in the San Diego area, at an exhibit at the Birch Aquarium, and through the work of an artist who has worked extensively with marine organisms in extreme environments.
Chemosynthetic ecosystems are inextricably linked to the broader world-ocean biome and global biogeochemical cycles in ways that we are just beginning to understand. This research will identify the form, extent, and nature of the physical, chemical, and biological linkages between methane seeps and the surrounding deep-sea ecosystem. The proposed research builds critical understanding of the structural and functional processes that underpin the ecosystem services provided by chemosynthetic ecosystems. We target a critical continental margin, Costa Rica, where methane fates and dynamics loom large and play out in an setting that reflects many oceanographic stressors. We will use quantitative sampling and manipulative studies within a 3-dimensional oceanographic framework. We will ask what are the shapes of the diversity and density functions for organisms of different size classes and trophic position over the transition from the seep habitat through the ecotone to the background deep sea? Further, we will ask how do depth, dissolved oxygen concentrations, pH and carbonate ion availability, relative rates of fluid flux, and substrate (biogenic, authigenic carbonate, sediments) alter these linkages and interactions with the surrounding deep sea? Evidence for distinct transitional communities and biotic patterns in density and alpha and beta diversity will be quantified and placed in a global biogeographic context. All of these investigations will occur across biological size spectra: for microorganisms (archaea, bacteria, microeukaryotes), the macrofauna, and the megafauna that form biogenic habitats. Our research results will be interpreted in the context of potential effects of global ocean change in the equatorial Pacific to determine how the linkages with the surrounding deep sea will be altered as anthropogenic impacts proceed in the future.
Related publications:
Levin, L.A., V.J. Orphan, G.W. Rouse, W. Ussler, A. E. Rathburn, G. S. Cook, S. Goffredi, E. Perez, A. Waren, B. Grupe, G. Chadwick, B. Strickrott. (2012). A hydrothermal seep on the Costa Rica margin: Middle ground in a continuum of reducing ecosystems. Proc. Royal Soc. B. 279: 2580-88 doi: 10.1098/rspb.2012.0205
Sahling, H., Masson, D. G., Ranero, C. R., Hühnerbach, V., Weinrebe, W., Klaucke, I., & Suess, E. (2008). Fluid seepage at the continental margin offshore Costa Rica and southern Nicaragua. Geochemistry, Geophysics, Geosystems 9: doi: 10.1029/2008GC001978";
String projects_0_end_date "2019-09";
String projects_0_geolocation "Costa Rica Pacific Margin";
String projects_0_name "Collaborative research: Quantifying the biological, chemical, and physical linkages between chemosynthetic communities and the surrounding deep sea";
String projects_0_project_nid "648472";
String projects_0_start_date "2016-10";
String publisher_name "Biological and Chemical Oceanographic Data Management Office (BCO-DMO)";
String publisher_type "institution";
String sourceUrl "(local files)";
String standard_name_vocabulary "CF Standard Name Table v55";
String subsetVariables "cruise";
String summary "Averages and standard deviation across species for all macrofauna found on each carbonate rock collected during R/V Atlantis cruise AT37-13 in the Pacific margin of Costa Rica from May to June 2017";
String title "[Hard Substrates Isotopes, AT37-13 & AT42-03] - Averages and standard deviation across species for all macrofauna found on each carbonate rock collected during R/V Atlantis cruise AT37-13 in the Pacific margin of Costa Rica from May to June 2017 (Collaborative research: Quantifying the biological, chemical, and physical linkages between chemosynthetic communities and the surrounding deep sea)";
String version "1";
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.