Accessing BCO-DMO data
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| Dataset Title: | Radiocarbon DIC, DIC concentration, pH, and [CH4] in Hudson Canyon, northern US Atlantic Margin collected from R/V Endeavor cruise EN541 in July 2014 
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| Institution: | BCO-DMO (Dataset ID: bcodmo_dataset_737887) |
| Information: | Summary
| License
| ISO 19115
| Metadata
| Background
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Attributes {
s {
Cruise_ID {
String bcodmo_name "cruise_id";
String description "Cruise identifier (EN = R/V Endeavor)";
String long_name "Cruise ID";
String units "unitless";
}
CTD_hex_file {
String bcodmo_name "cast";
String description "CTD hex file name";
String long_name "CTD Hex File";
String units "untiless";
}
Station_ID {
String bcodmo_name "station";
String description "Cruise station identifier";
String long_name "Station ID";
String units "unitless";
}
GMT_Date {
String bcodmo_name "date_gmt";
String description "Date GMT (yyyy-mm-dd)";
String long_name "GMT Date";
String time_precision "1970-01-01";
String units "unitless";
}
time {
String _CoordinateAxisType "Time";
Float64 actual_range 1.404917174e+9, 1.405215823e+9;
String axis "T";
String bcodmo_name "ISO_DateTime_UTC";
String description "Date and time formatted to ISO8601 standard: yyyy-mm-ddTHH:MM:SS";
String ioos_category "Time";
String long_name "ISO Date Time";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P01/current/DTUT8601/";
String source_name "ISO_DateTime";
String standard_name "time";
String time_origin "01-JAN-1970 00:00:00";
String time_precision "1970-01-01T00:00:00Z";
String units "seconds since 1970-01-01T00:00:00Z";
}
GMT_Time {
String bcodmo_name "time_gmt";
String description "Time GMT (HH:MM:SS)";
String long_name "GMT Time";
String units "unitless";
}
latitude {
String _CoordinateAxisType "Lat";
Float64 _FillValue NaN;
Float64 actual_range 39.2878, 39.5668;
String axis "Y";
String bcodmo_name "latitude";
Float64 colorBarMaximum 90.0;
Float64 colorBarMinimum -90.0;
String description "Latitude North at start of CTD cast";
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 -72.42284, -72.20012;
String axis "X";
String bcodmo_name "longitude";
Float64 colorBarMaximum 180.0;
Float64 colorBarMinimum -180.0;
String description "Longitude West at start of CTD cast";
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";
}
depth {
String _CoordinateAxisType "Height";
String _CoordinateZisPositive "down";
Float64 _FillValue NaN;
Float64 actual_range 50.0, 681.8;
String axis "Z";
String bcodmo_name "depth";
Float64 colorBarMaximum 8000.0;
Float64 colorBarMinimum -8000.0;
String colorBarPalette "TopographyDepth";
String description "Niskin bottle depth (m) at sample collection";
String ioos_category "Location";
String long_name "Depth";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P09/current/DEPH/";
String positive "down";
String standard_name "depth";
String units "m";
}
pressure {
Float32 _FillValue NaN;
Float32 actual_range 50.4, 688.2;
String bcodmo_name "pressure";
String description "Pressure at sample collection";
String long_name "Pressure";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P01/current/PRESPR01/";
String units "Digiquartz (db)";
}
temp {
Float32 _FillValue NaN;
Float32 actual_range 5.27, 18.35;
String bcodmo_name "temperature";
String description "Temperature at sample collection";
String long_name "Temperature";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P01/current/TEMPP901/";
String units "Degrees Celsius";
}
sal {
Float32 _FillValue NaN;
Float32 actual_range 35.01, 36.05;
String bcodmo_name "sal";
String description "Salinity at sample collection";
String long_name "Sal";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P01/current/PSALST01/";
String units "Practical (PSU)";
}
Density {
Float64 _FillValue NaN;
Float64 actual_range 1025.87, 1030.82;
String bcodmo_name "density";
String description "Density at sample collection";
String long_name "Density";
String units "kilograms per cubic meter (Kg/m^3)";
}
pH {
Float32 _FillValue NaN;
Float32 actual_range 7.7873, 8.0595;
String bcodmo_name "pH";
Float64 colorBarMaximum 9.0;
Float64 colorBarMinimum 7.0;
String description "Spectrophotometric pH measured at 25 C using the total hydrogen ion scale";
String long_name "Sea Water Ph Reported On Total Scale";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P01/current/PHXXZZXX/";
String units "Unitless; pH scale";
}
DIC {
Float32 _FillValue NaN;
Float32 actual_range 1319.47, 2259.43;
String bcodmo_name "DIC";
String description "Dissolved Inorganic Carbon concentration";
String long_name "DIC";
String units "micromoles per kilogram (umol/kg)";
}
CH3 {
Float32 _FillValue NaN;
Float32 actual_range 1.97, 334.68;
String bcodmo_name "CH4";
String description "Dissolved methane concentration";
String long_name "CH3";
String units "nanomolar (nM)";
}
d14C_DIC {
Float32 _FillValue NaN;
Float32 actual_range -28.5, 41.8;
String bcodmo_name "unknown";
String description "Natural radiocarbon of DIC";
String long_name "D14 C DIC";
String units "Per mil (‰)";
}
C14_DIC_age {
String bcodmo_name "unknown";
String description "Age of DIC";
String long_name "C14 DIC Age";
String units "Years before present";
}
}
NC_GLOBAL {
String access_formats ".htmlTable,.csv,.json,.mat,.nc,.tsv,.esriCsv,.geoJson,.odvTxt";
String acquisition_description
"Methodology:
Dissolved inorganic carbon concentration ([DIC]) samples were measured by
acidification and subsequent release of CO2 with a CO2 cavity-ringdown
spectrometer (CRDS; Picarro G1101-i) detector to an accuracy and precision
better than \\u00b1 3 umol/kg. Precision is based on a set of 15 duplicates.
Accuracy is based on certified reference materials prepared at the Scripps
Institution of Oceanography of the University of California, San Diego.
Samples for pH were measured spectrophotometrically on board using an Agilent
Cary 100 UV-Visible spectrophotometer and m-cresol purple dye (Clayton and
Byrne, 1993; Liu et al., 2011). The pH values are reported on the total scale
with a precision better than 0.0002 based on duplicate measurements. The
estimated accuracy of spectrophotometric pH is better than 0.002.
Natural radiocarbon samples of DIC (\\u220614C-DIC) were analyzed at the W. M.
Keck Carbon Cycle Accelerator Mass Spectrometry Laboratory at the University
of California, Irvine. The accuracy and precision of the \\u220614C-DIC
measurements is 0.1\\u2030 and 1.7\\u2030, respectively.
Sampling and analytical procedures:\\u00a0
Discrete seawater samples were collected inside Hudson Canyon, US Atlantic
Margin aboard the R/V Endeavor from 9 - 13 of July 2014. A total 19 stations
and 216 samples were collected along Hudson Canyon and another station was
sampled outside the canyon (station E2-HC2). Samples were collected from a
bottle Rosette following the procedures in SOP 1 and 6b in Dickson et al.,
(2007).
[DIC] samples were collected in acid washed and combusted 120 mL serum vials.
Vials were allowed to overflow three times their volume, poisoned with 50 uL
of a 55 uM HgCl2, capped, and store at 4 degrees C\\u00a0until analysis.
\\u220614C-DIC samples were collected in combusted 1L borosilicate bottles,
poisoned with 200 uL of a 55 uM HgCl2, sealed and stored in the dark at room
temperature until isotope analysis.
CH4 concentration analyses were collected by filling 60, 120, or 160 mL glass
serum vials. Vials were filled from the bottom with a length of 1/4\\\" Tygon
tubing. Vials were flushed with seven vial volumes of seawater to expel any
bubbles and ensure collection of a clean sample, and then were sealed with
butyl rubber stoppers taking care not to introduce bubbles during sealing.
Immediately after sealing, a 10 mL headspace of ultrahigh purity nitrogen was
introduced, displacing an equal volume of water, and the samples were
preserved by adding 25 uL of a saturated solution of mercuric chloride. The
vials were stored inverted to minimize diffusive gas exchange through the
butyl rubber stopper.
CH4 concentration measurements were performed using an Agilent 6850 gas
chromatograph with a flame ionization detector (GC-FID) following established
protocols reported in Weinstein et al. (2016). The uncertainty associated with
these measurements was 5.2% based on duplicate measurements.";
String awards_0_award_nid "737781";
String awards_0_award_number "OCE-1318102";
String awards_0_data_url "http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1318102";
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 "Henrietta N Edmonds";
String awards_0_program_manager_nid "51517";
String cdm_data_type "Other";
String comment
"Hudson Canyon Radiocarbon DIC, DIC, pH, and CH4
collected on cruise EN541
PI: John D. Kessler (University of Rochester)
Contact: Fenix Garcia-Tigreros (University of Rochester)
Version: 30 May 2018";
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 "2018-05-30T16:36:11Z";
String date_modified "2019-03-15T18:45:21Z";
String defaultDataQuery "&time<now";
String doi "10.1575/1912/bco-dmo.737887.1";
Float64 Easternmost_Easting -72.20012;
Float64 geospatial_lat_max 39.5668;
Float64 geospatial_lat_min 39.2878;
String geospatial_lat_units "degrees_north";
Float64 geospatial_lon_max -72.20012;
Float64 geospatial_lon_min -72.42284;
String geospatial_lon_units "degrees_east";
Float64 geospatial_vertical_max 681.8;
Float64 geospatial_vertical_min 50.0;
String geospatial_vertical_positive "down";
String geospatial_vertical_units "m";
String history
"2024-04-20T10:25:31Z (local files)
2024-04-20T10:25:31Z https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_737887.html";
String infoUrl "https://www.bco-dmo.org/dataset/737887";
String institution "BCO-DMO";
String instruments_0_acronym "Niskin bottle";
String instruments_0_dataset_instrument_nid "737924";
String instruments_0_description "A Niskin bottle (a next generation water sampler based on the Nansen bottle) is a cylindrical, non-metallic water collection device with stoppers at both ends. The bottles can be attached individually on a hydrowire or deployed in 12, 24 or 36 bottle Rosette systems mounted on a frame and combined with a CTD. Niskin bottles are used to collect discrete water samples for a range of measurements including pigments, nutrients, plankton, etc.";
String instruments_0_instrument_external_identifier "https://vocab.nerc.ac.uk/collection/L22/current/TOOL0412/";
String instruments_0_instrument_name "Niskin bottle";
String instruments_0_instrument_nid "413";
String instruments_0_supplied_name "bottle Rosette";
String instruments_1_acronym "AMS";
String instruments_1_dataset_instrument_nid "737921";
String instruments_1_description "An AMS measures \"long-lived radionuclides that occur naturally in our environment. AMS uses a particle accelerator in conjunction with ion sources, large magnets, and detectors to separate out interferences and count single atoms in the presence of 1x1015 (a thousand million million) stable atoms, measuring the mass-to-charge ratio of the products of sample molecule disassociation, atom ionization and ion acceleration.\" AMS permits ultra low-level measurement of compound concentrations and isotope ratios that traditional alpha-spectrometry cannot provide. More from Purdue University: http://www.physics.purdue.edu/primelab/introduction/ams.html";
String instruments_1_instrument_external_identifier "https://vocab.nerc.ac.uk/collection/L05/current/LAB17/";
String instruments_1_instrument_name "Accelerator Mass Spectrometer";
String instruments_1_instrument_nid "527";
String instruments_1_supplied_name "W. M. Keck Carbon Cycle Accelerator Mass Spectrometry Laboratory";
String instruments_2_acronym "Gas Chromatograph";
String instruments_2_dataset_instrument_nid "737922";
String instruments_2_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_2_instrument_external_identifier "https://vocab.nerc.ac.uk/collection/L05/current/LAB02/";
String instruments_2_instrument_name "Gas Chromatograph";
String instruments_2_instrument_nid "661";
String instruments_2_supplied_name "Agilent 6850 gas chromatograph";
String instruments_3_acronym "Spectrometer";
String instruments_3_dataset_instrument_nid "737920";
String instruments_3_description "A spectrometer is an optical instrument used to measure properties of light over a specific portion of the electromagnetic spectrum.";
String instruments_3_instrument_external_identifier "https://vocab.nerc.ac.uk/collection/L22/current/TOOL0460/";
String instruments_3_instrument_name "Spectrometer";
String instruments_3_instrument_nid "667";
String instruments_3_supplied_name "CO2 cavity-ringdown spectrometer (CRDS; Picarro G1101-i)";
String instruments_4_acronym "Spectrophotometer";
String instruments_4_dataset_instrument_nid "737919";
String instruments_4_description "An instrument used to measure the relative absorption of electromagnetic radiation of different wavelengths in the near infra-red, visible and ultraviolet wavebands by samples.";
String instruments_4_instrument_external_identifier "https://vocab.nerc.ac.uk/collection/L05/current/LAB20/";
String instruments_4_instrument_name "Spectrophotometer";
String instruments_4_instrument_nid "707";
String instruments_4_supplied_name "Agilent Cary 100 UV-Visible spectrophotometer";
String instruments_5_acronym "FID";
String instruments_5_dataset_instrument_nid "737923";
String instruments_5_description "A flame ionization detector (FID) is a scientific instrument that measures the concentration of organic species in a gas stream. It is frequently used as a detector in gas chromatography. Standalone FIDs can also be used in applications such as landfill gas monitoring, fugitive emissions monitoring and internal combustion engine emissions measurement in stationary or portable instruments.";
String instruments_5_instrument_name "Flame Ionization Detector";
String instruments_5_instrument_nid "644600";
String instruments_5_supplied_name "Agilent 6850 gas chromatograph with a flame ionization detector (GC-FID)";
String keywords "age, altimetry, bco, bco-dmo, biological, c14, C14_DIC_age, ch3, chemical, chemistry, conductivity, cruise, Cruise_ID, ctd, CTD_hex_file, d14, d14C_DIC, data, dataset, date, density, depth, dic, dmo, earth, Earth Science > Oceans > Ocean Chemistry > pH, erddap, file, GMT_Date, GMT_Time, hex, iso, laboratory, latitude, longitude, management, ocean, oceanography, oceans, office, preliminary, pressure, reported, sal, satellite, scale, science, sea, sea_water_ph_reported_on_total_scale, seawater, sonde, station, Station_ID, temperature, time, total, water";
String keywords_vocabulary "GCMD Science Keywords";
String license "https://www.bco-dmo.org/dataset/737887/license";
String metadata_source "https://www.bco-dmo.org/api/dataset/737887";
Float64 Northernmost_Northing 39.5668;
String param_mapping "{'737887': {'Latitude': 'flag - latitude', 'depth': 'flag - depth', 'ISO_DateTime': 'flag - time', 'Longitude': 'flag - longitude'}}";
String parameter_source "https://www.bco-dmo.org/mapserver/dataset/737887/parameters";
String people_0_affiliation "University of Rochester";
String people_0_person_name "John D. Kessler";
String people_0_person_nid "737785";
String people_0_role "Principal Investigator";
String people_0_role_type "originator";
String people_1_affiliation "University of Rochester";
String people_1_person_name "Fenix Garcia-Tigreros";
String people_1_person_nid "737788";
String people_1_role "Contact";
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 "Shannon Rauch";
String people_2_person_nid "51498";
String people_2_role "BCO-DMO Data Manager";
String people_2_role_type "related";
String project "Aerobic methane oxidation";
String projects_0_acronym "Aerobic methane oxidation";
String projects_0_description
"NSF Award Abstract:
Roughly 8 billion moles of methane (CH4) were emitted in 83 days during the Deepwater Horizon disaster in the northern Gulf of Mexico in 2010. Interestingly, none of this CH4 was emitted to the atmosphere, but instead stayed dissolved and suspended as \"plume\" or \"intrusion\" layers approximately 1000m below the ocean surface. Based on measurements of CH4 concentration and oxidation rates, dissolved oxygen anomalies, and microbial community structure as well as a CH4 geochemical model, it was determined that all the CH4 emitted during this disaster was respired within 120 days of the initial well blowout. In addition, the methanotrophic bacteria responsible for the oxidation of this CH4 appeared to experience all stages of microbial growth, limited only by the availability of CH4. This finding suggests that releases of CH4 into deepwater, be them anthropogenic or natural, will have minimal direct influence on the radiative budget of the atmosphere.
The major weakness in these previous investigations is that CH4 related parameters were only measured at the beginning (May - June 2010) and end (September - October 2010) of this massive CH4 feast, primarily because the rapid demise of CH4 was unanticipated. Thus, the time- and growth phase-dependent understanding of the kinetics of this bloom response is only based on model interpolation between endpoints. A more complete, and measurement-based, understanding of the chemical kinetics is necessary to predict an oceanographic environment's ability to respire large CH4 perturbations. And while measurements of CH4 stable isotopes in theory can be used to assess the extent that the released CH4 has been oxidized, this kinetic isotope effect can only be used in a quantitative fashion if it is known how the isotopic fractionation factor changes with varying chemical and temperature conditions and throughout all stages of the microbial bloom.
In this study, researchers at the Texas A & M University will test two fundamental hypotheses relating to aerobic CH4 oxidation and ultimately produce a thorough characterization of the time-, growth phase-, and temperature-dependency of CH4 oxidation rates, oxidation rate constants, and isotopic fractionation factors. Hypothesis 1: Excluding mixing processes, the bacterial response to a large CH4 perturbation will be limited primarily by the availability of CH4 or dissolved oxygen. Hypothesis 2: Without knowing the stage of microbial growth, measurements of natural stable isotopes of CH4 and dissolved carbon (organic and/or inorganic) cannot be used to assess the extent of CH4 oxidation in situations of large CH4 perturbations. In order to test these hypotheses, with the goal of disproving hypothesis 2, a suite of mesocosm and pure culture incubations will be conducted. Throughout these incubations, concentrations of CH4 and dissolved inorganic carbon as well as their 13C isotopes will be measured in extremely high resolution with new equipment and experimental designs. In addition, dissolved oxygen, nutrient concentrations, trace metals, CH4 oxidation rates, and microbial community structure will be measured.
Broader Impacts. In addition to the normal dissemination of results in publications, meeting presentations, and on a project web site, this work will have strong educational and research impacts with close interactions between the PIs, postdoctoral scholar, graduate student, and undergraduate researchers with collaborations between Texas A&M University and the University of California Santa Barbara. The students will have extended visits at each lab for skill development, knowledge transfer, and general academic growth. During 2010, an informal collaboration was established with Ms. Vicki Soutar, a high school science teacher in Watkinsville, GA, to develop high school science laboratory exercises using real scientific data. This proposed project will involve Ms. Soutar to formalize, enhance, extend, and disseminate the products of this collaboration";
String projects_0_end_date "2016-02";
String projects_0_name "Investigating the chemical and isotopic kinetics of aerobic methane oxidation";
String projects_0_project_nid "737782";
String projects_0_start_date "2012-12";
String publisher_name "Biological and Chemical Oceanographic Data Management Office (BCO-DMO)";
String publisher_type "institution";
String sourceUrl "(local files)";
Float64 Southernmost_Northing 39.2878;
String standard_name_vocabulary "CF Standard Name Table v55";
String subsetVariables "Cruise_ID";
String summary "Radiocarbon DIC, DIC concentration, pH, and [CH4] in Hudson Canyon, northern US Atlantic Margin collected from R/V Endeavor cruise EN541 in July 2014.";
String time_coverage_end "2014-07-13T01:43:43Z";
String time_coverage_start "2014-07-09T14:46:14Z";
String title "Radiocarbon DIC, DIC concentration, pH, and [CH4] in Hudson Canyon, northern US Atlantic Margin collected from R/V Endeavor cruise EN541 in July 2014";
String version "1";
Float64 Westernmost_Easting -72.42284;
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.