Accessing BCO-DMO data
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| Dataset Title: | [Bottle Data] - Bottle Data from multiple cruises in the Gulf of Maine, NA4, 43 30N, 69 00W, Gulf of Maine, Mass Bay to Bay of Fundy, Cape Cod Bay, 2003- 2010 (ALEX-GoME project) (Investigations of Alexandrium fundyense dynamics in the Gulf of Maine) 
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| Institution: | BCO-DMO (Dataset ID: bcodmo_dataset_3358) |
| Information: | Summary
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| ISO 19115
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Attributes {
s {
Year {
Int16 _FillValue 32767;
Int16 actual_range 2003, 2010;
String bcodmo_name "year";
String long_name "Year";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P01/current/YEARXXXX/";
String units "unitless";
}
cruise_id {
String bcodmo_name "cruise_id";
String description "Official cruise id";
String long_name "Cruise Id";
String units "text";
}
station {
Float32 _FillValue NaN;
Float32 actual_range 1.0, 257.0;
String bcodmo_name "station";
String description "Station Id";
String long_name "Station";
String units "x.x";
}
date {
Int32 _FillValue 2147483647;
Int32 actual_range 20030529, 20100805;
String bcodmo_name "date_gmt";
String description "date (GMT) in yyyyMMdd format";
String long_name "Date";
String units "unitless";
}
time2 {
String bcodmo_name "time";
String description "time (GMT)";
String long_name "Time";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P01/current/AHMSAA01/";
String units "HHMM";
}
latitude {
String _CoordinateAxisType "Lat";
Float64 _FillValue NaN;
Float64 actual_range 40.052, 45.095833;
String axis "Y";
String bcodmo_name "latitude";
Float64 colorBarMaximum 90.0;
Float64 colorBarMinimum -90.0;
String description "Station latitude (South is negative)";
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 -71.194833, -65.728;
String axis "X";
String bcodmo_name "longitude";
Float64 colorBarMaximum 180.0;
Float64 colorBarMinimum -180.0;
String description "Station longitude (West is negative)";
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 1.0, 570.0;
String axis "Z";
String bcodmo_name "depth";
Float64 colorBarMaximum 8000.0;
Float64 colorBarMinimum -8000.0;
String colorBarPalette "TopographyDepth";
String description "nominal depth";
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";
}
Alex {
Float32 _FillValue NaN;
Float32 actual_range -9.99, 38565.0;
String bcodmo_name "count";
String description "Number of Alexandrium fundyense cells";
String long_name "Alex";
String units "cells/L";
}
Alex_Live {
Float32 _FillValue NaN;
Float32 actual_range -9.99, 11662.0;
String bcodmo_name "count";
String description "Number of live Alexandrium fundyense cells";
String long_name "Alex Live";
String units "cells/L";
}
Pressure {
Float32 _FillValue NaN;
Float32 actual_range -9.99, 570.288;
String bcodmo_name "pressure";
String description "Pressure";
String long_name "Pressure";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P01/current/PRESPR01/";
String units "decibars";
}
Temperature {
Float32 _FillValue NaN;
Float32 actual_range -9.99, 21.716;
String bcodmo_name "temperature";
String description "Temperature";
String long_name "Temperature";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P01/current/TEMPP901/";
String units "degrees Celcius";
}
Salinity {
Float32 _FillValue NaN;
Float32 actual_range -9.99, 35.809;
String bcodmo_name "sal";
Float64 colorBarMaximum 37.0;
Float64 colorBarMinimum 32.0;
String description "Salinity";
String long_name "Sea Water Practical Salinity";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P01/current/PSALST01/";
String units "psu";
}
NO3_plus_NO2 {
Float32 _FillValue NaN;
Float32 actual_range -9.99, 24.14;
String bcodmo_name "NO3_NO2";
Float64 colorBarMaximum 50.0;
Float64 colorBarMinimum 0.0;
String description "nitrate plus nitrite";
String long_name "Mole Concentration Of Nitrate In Sea Water";
String units "uM";
}
Silicate {
Float32 _FillValue NaN;
Float32 actual_range -9.99, 33.28;
String bcodmo_name "SiOH_4";
String description "Silicate";
String long_name "Mass Concentration Of Silicate In Sea Water";
String units "uM";
}
NH4 {
Float32 _FillValue NaN;
Float32 actual_range -9.99, 16.773;
String bcodmo_name "Ammonium";
Float64 colorBarMaximum 5.0;
Float64 colorBarMinimum 0.0;
String description "ammonium";
String long_name "Mole Concentration Of Ammonium In Sea Water";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P01/current/AMONAAZX/";
String units "uM";
}
PO4 {
Float32 _FillValue NaN;
Float32 actual_range -9.99, 4.72;
String bcodmo_name "PO4";
String description "phosphate";
String long_name "Mass Concentration Of Phosphate In Sea Water";
String units "uM";
}
Chla {
Float32 _FillValue NaN;
Float32 actual_range -9.99, 22.79;
String bcodmo_name "chlorophyll a";
Float64 colorBarMaximum 30.0;
Float64 colorBarMinimum 0.03;
String colorBarScale "Log";
String description "total chlorophyll a pigment";
String long_name "Concentration Of Chlorophyll In Sea Water";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P01/current/CPHLHPP1/";
String units "ug/l";
}
Phaeo {
Float32 _FillValue NaN;
Float32 actual_range -9.99, 8.68;
String bcodmo_name "phaeopigment";
String description "total phaeopigment";
String long_name "Phaeo";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P01/current/PHAEFMP1/";
String units "ug/l";
}
Flag {
Byte _FillValue 127;
String _Unsigned "false";
Byte actual_range 1, 5;
String bcodmo_name "flag";
Float64 colorBarMaximum 150.0;
Float64 colorBarMinimum 0.0;
String description
"Flag \"NOTE\" values and meaning:
1 - regular data;
2 - Alex multiple samples averaged;
3 - Nuts multiple samples averaged;
4 - Alex and Nuts multiple samples averaged;
5 - Alex Live multiple samples averaged";
String long_name "Flag";
String units "integer";
}
}
NC_GLOBAL {
String access_formats ".htmlTable,.csv,.json,.mat,.nc,.tsv,.esriCsv,.geoJson";
String acquisition_description
"Hydrographic profiles and water samples were collected with a standard CTD-
rosette system with Niskin bottles.\\u00a0 Nutrient samples were filtered
through Millipore HA filters, placed immediately in a sea water-ice bath for
5\\u201310 min, and frozen at \\u221218\\u00b0C.\\u00a0 Concentrations of NO3+NO2,
NH4, Si(OH)4 and PO4 were measured with a Bran Luebbe AA3 AutoAnalyzer using
standard techniques.
A. fundyense cells were enumerated from water samples using an oligonucleotide
probe and methods described in Anderson et al. (2005). Both A. tamarense and
A. fundyense occur in the Gulf of Maine, and these are considered to be
varieties of the same species. Available molecular probes cannot distinguish
between them, and only detailed analysis of the thecal plates on individual
cells can provide this resolution\\u2014which is not practical for large
numbers of field samples.\\u00a0 Accordingly, for the purpose of this study,
the name A. fundyense is used to refer to both forms.
Anderson, D. M., D. M. Kulis, B. A. Keafer, K. E. Gribble, R. Marin, and C. A.
Scholin. 2005. Identification and enumeration of Alexandrium spp. from the
Gulf of Maine using molecular probes. Deep-Sea Research II 52: 2467-2490.";
String awards_0_award_nid "54876";
String awards_0_award_number "NA06NOS4780245 (GOMTOX)";
String awards_0_data_url "https://grantsonline.rdc.noaa.gov/flows/publicSearch/showAwardDetails.do?awdNum=NA06NOS4780245";
String awards_0_funder_name "National Oceanic and Atmospheric Administration";
String awards_0_funding_acronym "NOAA";
String awards_0_funding_source_nid "352";
String awards_1_award_nid "54898";
String awards_1_award_number "1P50-ES01274201";
String awards_1_funder_name "National Institute of Environmental Health Sciences";
String awards_1_funding_acronym "NIEHS";
String awards_1_funding_source_nid "388";
String awards_2_award_nid "54916";
String awards_2_award_number "OCE-0430724";
String awards_2_data_url "http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=0430724";
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 "Donald L. Rice";
String awards_2_program_manager_nid "51467";
String awards_3_award_nid "54935";
String awards_3_award_number "NA160P2785 (MERHAB)";
String awards_3_funder_name "National Oceanic and Atmospheric Administration";
String awards_3_funding_acronym "NOAA";
String awards_3_funding_source_nid "352";
String cdm_data_type "Other";
String comment
"ALEX/Gulf of Maine
Multi year bottle data 2003-2010
Version: 21 March 2013
PIs: McGillicuddy, Kosnyrev";
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 "2010-06-30T18:45:21Z";
String date_modified "2017-06-30T17:55:52Z";
String defaultDataQuery "&time<now";
String doi "10.1575/1912/5824";
Float64 Easternmost_Easting -65.728;
Float64 geospatial_lat_max 45.095833;
Float64 geospatial_lat_min 40.052;
String geospatial_lat_units "degrees_north";
Float64 geospatial_lon_max -65.728;
Float64 geospatial_lon_min -71.194833;
String geospatial_lon_units "degrees_east";
Float64 geospatial_vertical_max 570.0;
Float64 geospatial_vertical_min 1.0;
String geospatial_vertical_positive "down";
String geospatial_vertical_units "m";
String history
"2024-11-08T05:44:14Z (local files)
2024-11-08T05:44:14Z https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_3358.html";
String infoUrl "https://www.bco-dmo.org/dataset/3358";
String institution "BCO-DMO";
String instruments_0_acronym "Niskin bottle";
String instruments_0_dataset_instrument_nid "6109";
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 "Niskin bottle";
String instruments_1_acronym "CTD SBE 9";
String instruments_1_dataset_instrument_nid "6111";
String instruments_1_description "The Sea-Bird SBE 9 is a type of CTD instrument package. The SBE 9 is the Underwater Unit and is most often combined with the SBE 11 Deck Unit (for real-time readout using conductive wire) when deployed from a research vessel. The combination of the SBE 9 and SBE 11 is called a SBE 911. The SBE 9 uses Sea-Bird's standard modular temperature and conductivity sensors (SBE 3 and SBE 4). The SBE 9 CTD can be configured with auxiliary sensors to measure other parameters including dissolved oxygen, pH, turbidity, fluorometer, altimeter, etc.). Note that in most cases, it is more accurate to specify SBE 911 than SBE 9 since it is likely a SBE 11 deck unit was used. more information from Sea-Bird Electronics";
String instruments_1_instrument_external_identifier "https://vocab.nerc.ac.uk/collection/L05/current/130/";
String instruments_1_instrument_name "CTD Sea-Bird 9";
String instruments_1_instrument_nid "488";
String instruments_1_supplied_name "CTD Sea-Bird 9";
String instruments_2_acronym "CTD SBE 911plus";
String instruments_2_dataset_instrument_nid "6112";
String instruments_2_description "The Sea-Bird SBE 911plus is a type of CTD instrument package for continuous measurement of conductivity, temperature and pressure. The SBE 911plus includes the SBE 9plus Underwater Unit and the SBE 11plus Deck Unit (for real-time readout using conductive wire) for deployment from a vessel. The combination of the SBE 9plus and SBE 11plus is called a SBE 911plus. The SBE 9plus uses Sea-Bird's standard modular temperature and conductivity sensors (SBE 3plus and SBE 4). The SBE 9plus CTD can be configured with up to eight auxiliary sensors to measure other parameters including dissolved oxygen, pH, turbidity, fluorescence, light (PAR), light transmission, etc.). more information from Sea-Bird Electronics";
String instruments_2_instrument_external_identifier "https://vocab.nerc.ac.uk/collection/L22/current/TOOL0058/";
String instruments_2_instrument_name "CTD Sea-Bird SBE 911plus";
String instruments_2_instrument_nid "591";
String instruments_2_supplied_name "CTD Sea-Bird SBE 911plus";
String instruments_3_acronym "Bran Luebbe AA3 AutoAnalyzer";
String instruments_3_dataset_instrument_nid "6110";
String instruments_3_description
"Bran Luebbe AA3 AutoAnalyzer
See the description from the manufacturer.";
String instruments_3_instrument_external_identifier "https://vocab.nerc.ac.uk/collection/L05/current/LAB04/";
String instruments_3_instrument_name "Bran Luebbe AA3 AutoAnalyzer";
String instruments_3_instrument_nid "700";
String instruments_3_supplied_name "Bran Luebbe AA3 AutoAnalyzer";
String keywords "alex, Alex_Live, ammonia, ammonium, bco, bco-dmo, biological, chemical, chemistry, Chla, chlorophyll, chlorophyll-a, concentration, concentration_of_chlorophyll_in_sea_water, cruise, cruise_id, data, dataset, date, density, depth, depth_nominal, dmo, earth, Earth Science > Oceans > Ocean Chemistry > Ammonia, Earth Science > Oceans > Ocean Chemistry > Chlorophyll, Earth Science > Oceans > Ocean Chemistry > Nitrate, Earth Science > Oceans > Ocean Chemistry > Phosphate, Earth Science > Oceans > Ocean Chemistry > Silicate, Earth Science > Oceans > Salinity/Density > Salinity, erddap, flag, latitude, live, longitude, management, mass, mass_concentration_of_phosphate_in_sea_water, mass_concentration_of_silicate_in_sea_water, mole, mole_concentration_of_ammonium_in_sea_water, mole_concentration_of_nitrate_in_sea_water, n02, nh4, nitrate, no3, NO3_plus_NO2, ocean, oceanography, oceans, office, phaeo, phosphate, po4, practical, preliminary, pressure, salinity, science, sea, sea_water_practical_salinity, seawater, silicate, station, temperature, time, time2, water, year";
String keywords_vocabulary "GCMD Science Keywords";
String license "https://www.bco-dmo.org/dataset/3358/license";
String metadata_source "https://www.bco-dmo.org/api/dataset/3358";
Float64 Northernmost_Northing 45.095833;
String param_mapping "{'3358': {'lat': 'master - latitude', 'depth_nominal': 'flag - depth', 'lon': 'master - longitude'}}";
String parameter_source "https://www.bco-dmo.org/mapserver/dataset/3358/parameters";
String people_0_affiliation "Woods Hole Oceanographic Institution";
String people_0_affiliation_acronym "WHOI";
String people_0_person_name "Dennis J. McGillicuddy";
String people_0_person_nid "50429";
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 "Ms Olga Kosnyrev";
String people_1_person_nid "51238";
String people_1_role "Co-Principal Investigator";
String people_1_role_type "originator";
String people_2_affiliation "Woods Hole Oceanographic Institution";
String people_2_affiliation_acronym "WHOI";
String people_2_person_name "Ms Olga Kosnyrev";
String people_2_person_nid "51238";
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 "Stephen R. Gegg";
String people_3_person_nid "50910";
String people_3_role "BCO-DMO Data Manager";
String people_3_role_type "related";
String project "ALEX-GoME";
String projects_0_acronym "ALEX-GoME";
String projects_0_description
"Investigations of Alexandrium fundyense dynamics in the Gulf of Maine
Project Summary
Harmful algal blooms, commonly called \"red tides\" or HABs, are a serious economic and public health problem throughout the world. In the U.S., the most serious HAB problem is paralytic shellfish poisoning (PSP) , a potentially fatal neurological disorder caused by human ingestion of shellfish that accumulate toxins as they feed on dinoflagellates of the genus Alexandrium. These organisms cause human illness and death due to PSP, repeated shellfish harvest quarantines, and the mortality of fish and marine mammals. This phenomenon, which affects thousands of miles of U.S. coastline and numerous fisheries resources, has expanded dramatically in the last two decades, especially in the Gulf of Maine. ECOHAB-GOM is a project that addresses several fundamental issues regarding Alexandrium blooms in the Gulf of Maine: 1) the source of the Alexandrium cells that appear in the fresh water plumes in the western Maine coastal current (WMCC); 2) Alexandrium cell distribution and dynamics in the eastern Maine coastal current (EMCC); and 3) linkages among blooms in the WMCC, the EMCC and on Georges Bank. Utilizing a combination of numerical modeling, hydrographic, chemical, and biological measurements, moored and drifting current measurements, and satellite imagery, we are working to characterize the structure, variability and autecology of the major Alexandrium habitats in the Gulf of Maine.
Summary of Data Sources by Year
2003 – MERHAB (McGillicuddy)
2004 – MERHAB
2005 – WHCOHH (Stegeman)
2006 – NOAA Rapid Response (Anderson) / WHCOHH
2007 – GOMTOX (Anderson) / WHCOHH
2008 – GOMTOX / WHCOHH
2009 – GOMTOX / WHCOHH
2010 – GOMTOX / WHCOHH
Summary of Funding Sources by Years
The cruises from 2003-2004 were supported by NOAA grant NA160P2785 (MERHAB).
The cruises from 2005-2010 were jointly funded:
NSF grant OCE-0430724 and NIEHS grant 1P50-ES01274201 (Woods Hole Center for Oceans and Human Health)
NOAA grant NA06NOS4780245 (GOMTOX)";
String projects_0_end_date "2010-12";
String projects_0_geolocation "Gulf of Maine";
String projects_0_name "Investigations of Alexandrium fundyense dynamics in the Gulf of Maine";
String projects_0_project_nid "2118";
String projects_0_start_date "2003-01";
String publisher_name "Biological and Chemical Oceanographic Data Management Office (BCO-DMO)";
String publisher_type "institution";
String sourceUrl "(local files)";
Float64 Southernmost_Northing 40.052;
String standard_name_vocabulary "CF Standard Name Table v55";
String summary
"Multi year bottle data 2003-2010
Note: Dataset updated with 2008/EN448 Version 3 data srg/21Mar2013
These data include version 2 data as submitted.
Version 2 NOTES: Version 2 means that Data set has been updated in part of
the new data added: (1) 2010 cruises; (2) Previously unavailable Whole cell
counts from the previous cruises; (3) Previously unavailable data for Underway
stations (mostly date, location).
Data files newly created or updated in this version are indicated with \\_v2\\
in file names.
(BCO-DMO Note: for original files as contributed)
Date of creation: 5/12/2011.
Matlab code used for data merging: GM_read_alex_nuts_BTL_v2.m
No data reported for cruises: OC440 (2007) or EN456 (2008).
Data not sampled or lost are indicated with NaN.
Data not available at the time but supposed to arrive are indicated with the
\\waiting\\ flag=-9.99.
Funding:
The cruises from 2003-2004 were supported by NOAA grant NA160P2785 (MERHAB).
The cruises from 2005-2010 were jointly funded: NSF grant OCE-0430724, NIEHS
grant 1P50-ES01274201 (Woods Hole Center for Oceans and Human Health) and NOAA
grant NA06NOS4780245 (GOMTOX).";
String title "[Bottle Data] - Bottle Data from multiple cruises in the Gulf of Maine, NA4, 43 30N, 69 00W, Gulf of Maine, Mass Bay to Bay of Fundy, Cape Cod Bay, 2003-2010 (ALEX-GoME project) (Investigations of Alexandrium fundyense dynamics in the Gulf of Maine)";
String version "1";
Float64 Westernmost_Easting -71.194833;
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.