Accessing BCO-DMO data
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BCO-DMO ERDDAP
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| Dataset Title: | Biogeochemical and sediment characteristics of the Cinder Cones Methane seep site in the Ross Sea from November 2016 
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| Institution: | BCO-DMO (Dataset ID: bcodmo_dataset_770638) |
| Information: | Summary
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| ISO 19115
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Attributes {
s {
Site_name {
String bcodmo_name "site";
String description "Name of dive location on Ross Island Antarctica";
String long_name "Site Name";
String units "unitless";
}
Habitat {
String bcodmo_name "site_descrip";
String description "Whether the sample was from an area of active methane seepage or sampled adjacent to this habitat.";
String long_name "Habitat";
String units "unitless";
}
Collection_Date {
Int32 _FillValue 2147483647;
Int32 actual_range 42681, 42689;
String bcodmo_name "unknown";
String description "Date sample was collected as Excel integer representation";
String long_name "Collection Date";
String units "unitless";
}
Date {
String bcodmo_name "date";
String description "Collection Date represented as yyyy-mm-dd";
String long_name "Date";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P01/current/ADATAA01/";
String source_name "Date";
String time_precision "1970-01-01";
String units "unitless";
}
latitude {
String _CoordinateAxisType "Lat";
Float64 _FillValue NaN;
Float64 actual_range -77.8, -77.8;
String axis "Y";
String bcodmo_name "latitude";
String description "Latitude of the sample in degrees";
String ioos_category "Location";
String long_name "Geo Loc Lat";
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 -166.666, -166.666;
String axis "X";
String bcodmo_name "longitude";
String description "Longitude of the sample in degrees";
String ioos_category "Location";
String long_name "Geo Loc Long";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P09/current/LONX/";
String standard_name "longitude";
String units "degrees_east";
}
depth {
String _CoordinateAxisType "Height";
String _CoordinateZisPositive "down";
Float64 _FillValue NaN;
Float64 actual_range 7.0, 10.0;
String axis "Z";
String bcodmo_name "depth";
String description "Depth in meter that the sample was collected from";
String ioos_category "Location";
String long_name "Water Depth";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P09/current/DEPH/";
String positive "down";
String standard_name "depth";
String units "m";
}
Replicate {
String bcodmo_name "replicate";
String description "Individual identifier for the core (all letters indicate samples from a single core or sampling cluster). Pore water was taken adjacent to the core however within 10cm of the core and thus from the same geochemical environment.";
String long_name "Replicate";
String units "unitless";
}
Sediment_Depth {
String bcodmo_name "depth_core";
String description "depth or depth range from which the same was taken";
String long_name "Sediment Depth";
String units "centimeters (cm)";
}
sampling_approach {
String bcodmo_name "sample_descrip";
String description "sampling approach used for the observations (porewater; sediment; or flux chamber)";
String long_name "Sampling Approach";
String units "unitless";
}
Fluoride {
Float32 _FillValue NaN;
Float32 actual_range 0.2934, 0.4786;
String bcodmo_name "unknown";
String description "Fluoride";
String long_name "Fluoride";
String units "millimole (mmol)";
}
Acetate {
String bcodmo_name "unknown";
String description "Acetate";
String long_name "Acetate";
String units "millimole (mmol)";
}
Formate {
String bcodmo_name "unknown";
String description "Formate";
String long_name "Formate";
String units "millimole (mmol)";
}
Chloride {
Float32 _FillValue NaN;
Float32 actual_range 523.6157, 566.4875;
String bcodmo_name "chloride";
String description "Chloride";
String long_name "Chloride";
String units "millimole (mmol)";
}
Nitrite {
Float32 _FillValue NaN;
Float32 actual_range 0.119, 0.1683;
String bcodmo_name "NO2";
Float64 colorBarMaximum 1.0;
Float64 colorBarMinimum 0.0;
String description "Nitrite";
String long_name "Mole Concentration Of Nitrite In Sea Water";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P01/current/NTRIAAZX/";
String units "millimole (mmol)";
}
Bromide {
Float32 _FillValue NaN;
Float32 actual_range 1.139, 1.4592;
String bcodmo_name "bromides";
String description "Bromide";
String long_name "Bromide";
String units "millimole (mmol)";
}
Sulfate {
Float32 _FillValue NaN;
Float32 actual_range 22.8303, 28.4088;
String bcodmo_name "SO4";
String description "Sulfate";
String long_name "Sulfate";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P01/current/SPHTMAXX/";
String units "millimole (mmol)";
}
Thiosulfate {
String bcodmo_name "unknown";
String description "Thiosulfate";
String long_name "Thiosulfate";
String units "millimole (mmol)";
}
Lithium {
Float32 _FillValue NaN;
Float32 actual_range 0.0148, 0.0172;
String bcodmo_name "Li";
String description "Lithium";
String long_name "Lithium";
String units "millimole (mmol)";
}
Sodium {
Float32 _FillValue NaN;
Float32 actual_range 422.0486, 452.1328;
String bcodmo_name "Na";
String description "Sodium";
String long_name "Sodium";
String units "millimole (mmol)";
}
Ammonium {
String bcodmo_name "Ammonium";
String description "Ammonium";
String long_name "Ammonium";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P01/current/AMONAAZX/";
String units "millimole (mmol)";
}
Potassium {
Float32 _FillValue NaN;
Float32 actual_range 10.7635, 11.5517;
String bcodmo_name "K";
String description "Potassium";
String long_name "Potassium";
String units "millimole (mmol)";
}
Magnesium {
Float32 _FillValue NaN;
Float32 actual_range 55.9626, 60.2467;
String bcodmo_name "Mg";
String description "Magnesium";
String long_name "Magnesium";
String units "millimole (mmol)";
}
Calcium {
Float32 _FillValue NaN;
Float32 actual_range 15.6499, 16.9822;
String bcodmo_name "Ca";
String description "Calcium";
String long_name "Calcium";
String units "millimole (mmol)";
}
Sulfide {
String bcodmo_name "sulfide";
String description "Sulfide";
String long_name "Sulfide";
String units "millimole (mmol)";
}
Methane_porewater {
Float64 _FillValue NaN;
Float64 actual_range 184.2634, 1164.2656;
String bcodmo_name "CH4";
String description "Methane in porewater";
String long_name "Methane Porewater";
String units "nanomole per milliliter of porewater (nmol ml-1 porewater)";
}
Methane_sediment {
Float32 _FillValue NaN;
Float32 actual_range 9.4392, 757.6279;
String bcodmo_name "CH4";
String description "Methane in sediment";
String long_name "Methane Sediment";
String units "nanomole per cubic centimeter of sediment (nmol cm^-3 sediment)";
}
d2HVSMOW {
Float32 _FillValue NaN;
Float32 actual_range -401.102, -320.9326;
String bcodmo_name "unknown";
String description "stable isotopic composition of hydrogen in comparison to the reference \"Vienna-Standard Mean Ocean Water\"";
String long_name "D2 HVSMOW";
String units "per mil";
}
d13CVPDB {
Float32 _FillValue NaN;
Float32 actual_range -79.7834, -47.4879;
String bcodmo_name "unknown";
String description "stable isotopic composition of carbon in comparison to the reference \"Vienna PeeDee Belemnite\"";
String long_name "D13 CVPDB";
String units "per mil";
}
Methane_Flux {
String bcodmo_name "CH4";
String description "Methane_Flux";
String long_name "Methane Flux";
String units "millimole per meter squared per day (mmol m-2 d-1)";
}
}
NC_GLOBAL {
String access_formats ".htmlTable,.csv,.json,.mat,.nc,.tsv,.esriCsv,.geoJson";
String acquisition_description
"Sediment samples: Sediment cores were collected from the Cinder Cones site
including a methane seep habitat and vertically sectioned into identified
intervals at either 3cm or 1cm intervals depending on the analysis. To
quantify methane from sediment plugs, subcores were taken vertically via a
syringe with the end cut off to sample 3 cm3 of sediment.\\u00a0 The subcores
were preserved in 2ml of 5M NaOH in a serum bottle and caped with a butyl
stopper for later analysis. It was stored and shipped upside down. Large grain
size led to rapid dewatering of the cores making the concentrations likely
conservative estimates of the methane (i.e. the is a chance some of the
porewater was lost during sampling).\\u00a0 For 0-1 cm sediment plugs, a core
was vertically sectioned and frozen at -80oC until later analysis.
Porewater samples:\\u00a0 Pore water was sampled in situ by placing a vertical
barrier in the sediment, excavating one side and inserting a Rhyzon filter
(0.2 um) into the intact sediment on the opposite side of the excavation. 1 ml
of porewater was discarded as a rinse and then 5ml of pore water was
extracted. These were taken at 2 cm intervals starting at 1 cm below the
sediment surface to 5cm.\\u00a0 3ml were preserved in serum bottles with 2ml of
5M NaOH for later methane analysis. 1 ml was filtered to remove particles >0.2
um and frozen for ion analysis and 1ml was preserved with 0.25ml of 0.05 M
Zinc acetate for hydrogen sulfide concentration for Spectrophotometric
analysis following Cline (1969).\\u00a0\\u00a0
Sampling and analytical procedures:\\u00a0\\u00a0
Methane: Samples were kept stored cold and inverted for both porewater and
sediment plug sampling approaches for methane.\\u00a0 Headspace from each of
the serum vials was injected into a Gas Chromatograph with Flame Ionization
Detector (GC-FID) after a standard curve was generated based on known
standards increasing from 10 to 1000 ppm and the same injection volume
(between 50 and 100 ul) as the headspace of the samples.\\u00a0 Adjusted r2 of
the calibration curve was\\u00a0 1.0.\\u00a0 Response area was measured using
\\u201cPeak Simple\\u201d software.
Methane Flux: Methane flux was measured in 2016 through the deployment of
benthic flux chambers. Chambers were 10cm i.d. cores with a cap containing a
septa sealed hole for sampling and an o-ring seal around the cap. The chambers
were sealed with the caps after the cores were inserted into the sediment to
ensure minimal disturbance to the system. Chambers were not continually
stirred but were stirred by using magnetic propeller system that allowed
gentle agitation prior to each sample collection. Samples were taken on
12-hour intervals to quantify that release of methane through syringe sampling
through the septa; at no point were the chambers opened";
String awards_0_award_nid "709614";
String awards_0_award_number "OPP-1642570";
String awards_0_data_url "http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1642570";
String awards_0_funder_name "NSF Office of Polar Programs (formerly NSF PLR)";
String awards_0_funding_acronym "NSF OPP";
String awards_0_funding_source_nid "713360";
String awards_0_program_manager "Christian Fritsen";
String awards_0_program_manager_nid "683959";
String cdm_data_type "Other";
String comment
"Biogeochemical and sediment characteristics of the Cinder Cones Methane seep site.
PI: Andrew Thurber
Version: 2019-06-12
bdl = below detection limit";
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 "2019-06-12T15:47:26Z";
String date_modified "2019-06-21T15:22:39Z";
String defaultDataQuery "&time<now";
String doi "10.1575/1912/bco-dmo.770638.1";
Float64 Easternmost_Easting -166.666;
Float64 geospatial_lat_max -77.8;
Float64 geospatial_lat_min -77.8;
String geospatial_lat_units "degrees_north";
Float64 geospatial_lon_max -166.666;
Float64 geospatial_lon_min -166.666;
String geospatial_lon_units "degrees_east";
Float64 geospatial_vertical_max 10.0;
Float64 geospatial_vertical_min 7.0;
String geospatial_vertical_positive "down";
String geospatial_vertical_units "m";
String history
"2024-04-19T13:23:50Z (local files)
2024-04-19T13:23:50Z https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_770638.html";
String infoUrl "https://www.bco-dmo.org/dataset/770638";
String institution "BCO-DMO";
String instruments_0_acronym "IR Mass Spec";
String instruments_0_dataset_instrument_description "The δ13C and δ2H of methane were analyzed at the University of California, Davis on a Thermo Scientific GasBench-Precon interfaced to a Thermo Delta V Plus isotope ratio mass spectrometer.";
String instruments_0_dataset_instrument_nid "770642";
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 "Thermo Delta V Plus isotope ratio mass spectrometer";
String instruments_1_acronym "Gas Chromatograph";
String instruments_1_dataset_instrument_description "Methane concentration was measured with a HP 5890 Gas Chromatograph with an AllTech Porapak N8/100 column and a Flame ionization detector.";
String instruments_1_dataset_instrument_nid "770641";
String instruments_1_description "Instrument separating gases, volatile substances, or substances dissolved in a volatile solvent by transporting an inert gas through a column packed with a sorbent to a detector for assay. (from SeaDataNet, BODC)";
String instruments_1_instrument_external_identifier "https://vocab.nerc.ac.uk/collection/L05/current/LAB02/";
String instruments_1_instrument_name "Gas Chromatograph";
String instruments_1_instrument_nid "661";
String instruments_1_supplied_name "HP 5890 Gas Chromatograph";
String keywords "acetate, ammonium, approach, bco, bco-dmo, biological, bromide, calcium, chemical, chloride, collection, Collection_Date, concentration, cvpdb, d13, d13CVPDB, d2HVSMOW, data, dataset, date, depth, dmo, erddap, fluoride, flux, formate, geo, geo_loc_lat, geo_loc_long, habitat, hvsmow, lithium, loc, long, magnesium, management, methane, Methane_Flux, Methane_porewater, Methane_sediment, mole, mole_concentration_of_nitrite_in_sea_water, name, nh4, nitrite, oceanography, office, porewater, potassium, preliminary, replicate, sampling, sampling_approach, sea, seawater, sediment, Sediment_Depth, site, Site_name, sodium, sulfate, sulfide, thiosulfate, time, water, Water_depth";
String license "https://www.bco-dmo.org/dataset/770638/license";
String metadata_source "https://www.bco-dmo.org/api/dataset/770638";
Float64 Northernmost_Northing -77.8;
String param_mapping "{'770638': {'geo_loc_lat': 'flag - latitude', 'Water_depth': 'flag - depth', 'geo_loc_long': 'flag - longitude'}}";
String parameter_source "https://www.bco-dmo.org/mapserver/dataset/770638/parameters";
String people_0_affiliation "Oregon State University";
String people_0_affiliation_acronym "OSU";
String people_0_person_name "Andrew Thurber";
String people_0_person_nid "709617";
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 BCO-DMO";
String people_1_person_name "Mathew Biddle";
String people_1_person_nid "708682";
String people_1_role "BCO-DMO Data Manager";
String people_1_role_type "related";
String project "Cinder Cone Seep";
String projects_0_acronym "Cinder Cone Seep";
String projects_0_description
"NSF abstract:
Methane is a potent greenhouse gas that is naturally emitted into the oceans by geologic seeps and microbial production. Based on studies of persistent deep-sea seeps at mid- and northern latitudes, researchers have learned that bacteria and archaea can create a \"sediment filter\" that oxidizes methane prior to its release. Antarctica is thought to contain large reservoirs of organic carbon buried beneath its ice which could a quantity of methane equivalent to all of the permafrost in the Arctic and yet we know almost nothing about the methane oxidizing microbes in this region. How these microbial communities develop and potentially respond to fluctuations in methane levels is an under-explored avenue of research. A bacterial mat was recently discovered at 78 degrees south, suggesting the possible presence of a methane seep, and associated microbial communities. This project will explore this environment in detail to assess the levels and origin of methane, and the nature of the microbial ecosystem present.
An expansive bacterial mat appeared and/or was discovered at 78 degrees south in 2011. This site, near McMurdo Station Antarctica, has been visited since the mid-1960s, but this mat was not observed until 2011. The finding of this site provides an unusual opportunity to study an Antarctic marine benthic habitat with active methane cycling and to examine the dynamics of recruitment and community succession of seep fauna including bacteria, archaea, protists and metazoans. This project will collect the necessary baseline data to facilitate further studies of Antarctic methane cycling. The concentration and source of methane will be determined at this site and at potentially analogous sites in McMurdo Sound. In addition to biogeochemical characterization of the sites, molecular analysis of the microbial community will quantify the time scales on which bacteria and archaea respond to methane input and provide information on rates of community development and succession in the Southern Ocean. Project activities will facilitate the training of at least one graduate student and results will be shared at both local and international levels. A female graduate student will be mentored as part of this project and data collected will form part of her dissertation. Lectures will be given in K-12 classrooms in Oregon to excite students about polar science. National and international audiences will be reached through blogs and presentations at a scientific conference. The PI's previous blogs have been used by K-12 classrooms as part of their lesson plans and followed in over 65 countries.";
String projects_0_end_date "2018-07";
String projects_0_geolocation "Ross Sea, Antarctica (78 S, 166 E)";
String projects_0_name "EAGER: Elucidating the Antarctic Methane Cycle at the Cinder Cones Reducing Habitat";
String projects_0_project_nid "709615";
String projects_0_start_date "2016-08";
String publisher_name "Biological and Chemical Oceanographic Data Management Office (BCO-DMO)";
String publisher_type "institution";
String sourceUrl "(local files)";
Float64 Southernmost_Northing -77.8;
String standard_name_vocabulary "CF Standard Name Table v55";
String summary "These data are samples of pore water collected from a methane seep on Ross Island. This seep had been active for 5 years at the time of sampling and were collected from 10m water depth.";
String title "Biogeochemical and sediment characteristics of the Cinder Cones Methane seep site in the Ross Sea from November 2016";
String version "1";
Float64 Westernmost_Easting -166.666;
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.