Accessing BCO-DMO data
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| Dataset Title: | [Change in denitrification - N2 flux] - Change in denitrification due to oyster reefs from the coast of North Carolina in 2010 (Microbial Regulation of Greenhouse Gas N2O Emission from Intertidal Oyster Reefs) 
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| Institution: | BCO-DMO (Dataset ID: bcodmo_dataset_704359) |
| Information: | Summary
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| ISO 19115
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Attributes {
s {
date {
String bcodmo_name "date";
String description "Date of collection; 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";
}
area {
String bcodmo_name "site";
String description "Type of substrate where oysters were measured";
String long_name "Area";
String units "unitless";
}
location {
Byte _FillValue 127;
String _Unsigned "false";
Byte actual_range 1, 3;
String bcodmo_name "site";
String description "PI issued location IDs that correspond to specific coordinates and experimental treatments";
String long_name "Location";
String units "unitless";
}
latitude {
String _CoordinateAxisType "Lat";
Float64 _FillValue NaN;
Float64 actual_range 34.68235, 34.6939667;
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 -76.6226, -76.6107833;
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";
}
nutrients {
String bcodmo_name "treatment";
String description "Indication of whether or not experimental levels of nutrients were used";
String long_name "Nutrients";
String units "unitless";
}
dN2 {
Float64 _FillValue NaN;
Float64 actual_range -56.75696135, 517.4479587;
String bcodmo_name "unknown";
String description "Change in denitrification (N2 flux) due to the oyster reef. Calculated by difference from reef and control in each location.";
String long_name "D N2";
String units "umol N m-2 hr-1";
}
}
NC_GLOBAL {
String access_formats ".htmlTable,.csv,.json,.mat,.nc,.tsv,.esriCsv,.geoJson";
String acquisition_description
"Methodology from\\u00a0Smyth, A. R., Piehler, M. F. and Grabowski, J. H.
(2015), Habitat context influences nitrogen removal by restored oyster reefs.
J Appl Ecol, 52: 716\\u2013725.
doi:[10.1111/1365-2664.12435](\\\\\"https://onlinelibrary.wiley.com/doi/10.1111/1365-2664.12435/abstract\\\\\")
Within 4\\u00a0h of collection, sediment cores were set up in a continuous flow
core incubation system to measure steady-state nutrient and dissolved gas
fluxes, described in Piehler & Smyth (2011). Briefly, cores were sealed with
gas-tight lids, which had an inflow and outflow port. Water from a reservoir
was pulled over the cores at a flow rate of 1\\u00a0mL min\\u22121. Triplicate
dissolved gases and duplicate dissolved inorganic nitrogen samples were
collected from the outflow and inflow periodically over the next 24\\u00a0h. To
examine how sediments from different habitat contexts responded to nitrate
pulses, nitrate concentration in the reservoir water was elevated with
NaNO3\\u00a0(~800\\u00a0\\u03bcm) after 48\\u00a0h of sampling. Dissolved gas and
inorganic nitrogen samples were then collected for an additional 48\\u00a0h.
Incubations were conducted in the dark and at ambient temperature
(30\\u00a0\\u00b0C).
Water samples from laboratory experiments were\\u00a0analysed\\u00a0immediately
upon collection for dissolved gasses (N2,\\u00a0O2\\u00a0and Ar) with membrane
inlet mass spectrometry (MIMS). Concentrations of dissolved N2\\u00a0and
O2\\u00a0were determined using the ratio with Ar
(Kana\\u00a0et\\u00a0al.\\u00a01994). Coefficients of variation for N2/Ar were
0\\u00b705% and 0\\u00b704% for O2/Ar. Water samples from laboratory experiments
for dissolved nutrient determination were filtered through Whatman GF/F
glass\\u00a0fibre\\u00a0filters (25\\u00a0mm diameter, 0\\u00b77\\u00a0\\u03bcm
nominal pore size) and frozen until analysis. Dissolved inorganic nutrients
were analysed with a Lachat Quick-Chem 8000 automated ion analyser for\\u00a0
[math formula] + [math formula] \\u00a0(reported as NOx) and\\u00a0 [math
formula] \\u00a0concentrations using standard protocols (Lachat Instruments,
Milwaukee, WI, USA:\\u00a0 [math formula] / [math formula] \\u00a0method
31-107-04-1-A,\\u00a0 [math formula] \\u00a0method 31-107-06-1-A; detection
limits: 0\\u00b704\\u00a0\\u03bcm\\u00a0NOx, 0\\u00b718\\u00a0\\u03bcm\\u00a0 [math
formula] ; CV(%): 0\\u00b79% NOx\\u00a0and 2\\u00b76%\\u00a0 [math formula] ).
Upon completion of the incubations, the upper 2\\u00a0cm of sediment in each
core was sampled for organic matter content by mass difference from dried
sediments before ignition (105\\u00a0\\u00b0C for 6\\u00a0h) and after ignition
(525\\u00a0\\u00b0C for 3\\u00a0h).
Water Quality Data:
\\u00a0";
String awards_0_award_nid "568863";
String awards_0_award_number "OCE-1233372";
String awards_0_data_url "http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1233372";
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 "David L. Garrison";
String awards_0_program_manager_nid "50534";
String cdm_data_type "Other";
String comment
"Change in denitrification due to oyster reefs
M. Piehler, B.K. Song, C. Tobias, and M. Brush, PIs
Version 6 June 2017";
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 "2017-06-07T00:02:55Z";
String date_modified "2019-03-28T17:54:06Z";
String defaultDataQuery "&time<now";
String doi "10.1575/1912/bco-dmo.704359.1";
Float64 Easternmost_Easting -76.6107833;
Float64 geospatial_lat_max 34.6939667;
Float64 geospatial_lat_min 34.68235;
String geospatial_lat_units "degrees_north";
Float64 geospatial_lon_max -76.6107833;
Float64 geospatial_lon_min -76.6226;
String geospatial_lon_units "degrees_east";
String history
"2024-11-23T17:31:52Z (local files)
2024-11-23T17:31:52Z https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_704359.html";
String infoUrl "https://www.bco-dmo.org/dataset/704359";
String institution "BCO-DMO";
String instruments_0_acronym "IR Mass Spec";
String instruments_0_dataset_instrument_nid "704369";
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 "IRMS";
String instruments_1_acronym "Nutrient Autoanalyzer";
String instruments_1_dataset_instrument_description "Used to analyze dissolved inorganic nutrients";
String instruments_1_dataset_instrument_nid "704519";
String instruments_1_description "Nutrient Autoanalyzer is a generic term used when specific type, make and model were not specified. In general, a Nutrient Autoanalyzer is an automated flow-thru system for doing nutrient analysis (nitrate, ammonium, orthophosphate, and silicate) on seawater samples.";
String instruments_1_instrument_external_identifier "https://vocab.nerc.ac.uk/collection/L05/current/LAB04/";
String instruments_1_instrument_name "Nutrient Autoanalyzer";
String instruments_1_instrument_nid "558";
String instruments_1_supplied_name "Lachat Quick-Chem 8000 automated ion analyzer";
String instruments_2_dataset_instrument_description "Used to collect water quality data";
String instruments_2_dataset_instrument_nid "704520";
String instruments_2_description "Records temperature data over a period of time.";
String instruments_2_instrument_name "Temperature Logger";
String instruments_2_instrument_nid "639396";
String instruments_2_supplied_name "YSI 600 Series Sonde and Model 650 data logger";
String keywords "area, bco, bco-dmo, biological, chemical, data, dataset, date, dmo, dN2, erddap, latitude, longitude, management, nutrients, oceanography, office, preliminary, time";
String license "https://www.bco-dmo.org/dataset/704359/license";
String metadata_source "https://www.bco-dmo.org/api/dataset/704359";
Float64 Northernmost_Northing 34.6939667;
String param_mapping "{'704359': {'lat': 'master - latitude', 'lon': 'master - longitude'}}";
String parameter_source "https://www.bco-dmo.org/mapserver/dataset/704359/parameters";
String people_0_affiliation "University of North Carolina at Chapel Hill";
String people_0_affiliation_acronym "UNC-Chapel Hill";
String people_0_person_name "Michael F. Piehler";
String people_0_person_nid "522931";
String people_0_role "Principal Investigator";
String people_0_role_type "originator";
String people_1_affiliation "Virginia Institute of Marine Science";
String people_1_affiliation_acronym "VIMS";
String people_1_person_name "Mark J. Brush";
String people_1_person_nid "568861";
String people_1_role "Co-Principal Investigator";
String people_1_role_type "originator";
String people_2_affiliation "Virginia Institute of Marine Science";
String people_2_affiliation_acronym "VIMS";
String people_2_person_name "Bongkeun Song";
String people_2_person_nid "51729";
String people_2_role "Co-Principal Investigator";
String people_2_role_type "originator";
String people_3_affiliation "University of Connecticut";
String people_3_affiliation_acronym "UConn - Avery Point";
String people_3_person_name "Craig Tobias";
String people_3_person_nid "51731";
String people_3_role "Co-Principal Investigator";
String people_3_role_type "originator";
String people_4_affiliation "University of North Carolina at Chapel Hill";
String people_4_affiliation_acronym "UNC-Chapel Hill";
String people_4_person_name "Michael F. Piehler";
String people_4_person_nid "522931";
String people_4_role "Contact";
String people_4_role_type "related";
String people_5_affiliation "Woods Hole Oceanographic Institution";
String people_5_affiliation_acronym "WHOI BCO-DMO";
String people_5_person_name "Hannah Ake";
String people_5_person_nid "650173";
String people_5_role "BCO-DMO Data Manager";
String people_5_role_type "related";
String project "Oyster Reef N2O Emission";
String projects_0_acronym "Oyster Reef N2O Emission";
String projects_0_description
"Extracted from the NSF award abstract:
Oyster reefs are biogeochemical hot spots and prominent estuarine habitats that provide disproportionate ecological function. Suspension-feeding eastern oysters, Crassostrea virginica, are capable of improving water quality and diminishing eutrophication by filtering nutrients and particles from the water and depositing them in the sediments. Remineralization of these deposits may enhance sedimentary denitrification that facilitates nitrogen removal in tidal estuaries. However, the scientific underpinning of oyster reef function has been challenged in various studies. In addition, recent studies of filter feeding invertebrates reported the production of nitrous oxide (N2O), a greenhouse gas, as an end product of incomplete denitrification by gut microbes. C. virginica could be another source of N2O flux from intertidal habitats. Preliminary work indicated substantial N2O production from individual oysters. The estimated N2O production from high density oyster reefs may exceed the N2O flux measured from some estuaries. With the new discovery of N2O emission and uncertainty regarding eutrophication control, the ecological value of oyster reef restoration may become equivocal.
This project will quantify N2O fluxes to understand the factors controlling N2O emission from oyster reefs. Sedimentary N processes will be examined to develop an oyster reef N model to estimate N2O emission from tidal creek estuaries relative to other N cycling processes. The PIs hypothesize that intertidal oyster reefs are a substantial source of N2O emission from estuarine ecosystems and the magnitude of emission may be linked to water quality. If substantial N2O flux from oyster reefs is validated, ecological benefits of oyster reef restoration should be reevaluated. This interdisciplinary research team includes a microbial ecologist, a biogeochemist, an ecologist and an ecosystem modeler. They will utilize stable isotope and molecular microbiological techniques to quantify oyster N2O production, elucidate microbial sources of N2O emission from oysters and sediments, and estimate seasonal variation of N2O fluxes from oyster reefs. Measurements from this study will be integrated into a coupled oyster bioenergetics-sediment biogeochemistry model to compare system level rates of N cycling on oyster reefs as a function of oyster density and water quality. Modeling results will be used to assess the relative trade-offs of oyster restoration associated with N cycling. They expect to deliver the following end products:1) estimation of annual N2O flux from oyster reefs as an additional source of greenhouse gases from estuaries, 2) a better understanding of the environmental and microbial factors influencing N2O and N2 fluxes in tidal estuaries, 3) transformative knowledge for the effect of oyster restoration on water quality enhancement and ecosystem function, 4) direct guidance for oyster restoration projects whose goals include water quality enhancement, and 5) a modeling tool for use in research and restoration planning.";
String projects_0_end_date "2015-08";
String projects_0_name "Microbial Regulation of Greenhouse Gas N2O Emission from Intertidal Oyster Reefs";
String projects_0_project_nid "527289";
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 34.68235;
String standard_name_vocabulary "CF Standard Name Table v55";
String summary "Change in denitrification due to oyster reefs from the coast of North Carolina in 2010";
String title "[Change in denitrification - N2 flux] - Change in denitrification due to oyster reefs from the coast of North Carolina in 2010 (Microbial Regulation of Greenhouse Gas N2O Emission from Intertidal Oyster Reefs)";
String version "1";
Float64 Westernmost_Easting -76.6226;
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.