Accessing BCO-DMO data
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| Dataset Title: | [alongtrack] - Alongtrack data from ship's Data Acquisition System (DAS) from R/V Thomas G. Thompson cruise TN277 in the Eastern North Pacific Ocean in 2012 (POWOW project) (Seasonal and decadal changes in temperature drive Prochlorococcus ecotype distribution patterns) 
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| Institution: | BCO-DMO (Dataset ID: bcodmo_dataset_3758) |
| Information: | Summary
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| ISO 19115
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Attributes {
s {
yrday {
String bcodmo_name "yrday";
String description "Yearday (GMT).";
String long_name "Yrday";
String units "unitless";
}
month_gmt {
String bcodmo_name "month_gmt";
String description "Month of year (GMT).";
String long_name "Month Gmt";
String units "mm (01 to 12)";
}
day_gmt {
String bcodmo_name "day_gmt";
String description "Day of month (GMT).";
String long_name "Day Gmt";
String units "dd (01 to 31)";
}
year {
Int16 _FillValue 32767;
Int16 actual_range 2012, 2012;
String bcodmo_name "year";
String description "4-digit year. in YYYY format";
String long_name "Year";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P01/current/YEARXXXX/";
String units "unitless";
}
time_gmt {
String bcodmo_name "time_gmt";
String description "Nav computer GMT time.";
String long_name "Time Gmt";
String units "HH:MM:SS";
}
date_gmt {
String bcodmo_name "date";
String description "Nav computer GMT date. format: dd-mm-YYYY";
String long_name "Date Gmt";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P01/current/ADATAA01/";
String time_precision "1970-01-01";
String units "unitless";
}
latitude {
String _CoordinateAxisType "Lat";
Float64 _FillValue NaN;
Float64 actual_range 21.247275, 32.70665;
String axis "Y";
String bcodmo_name "latitude";
Float64 colorBarMaximum 90.0;
Float64 colorBarMinimum -90.0;
String description "Nav computer latitude; positive = north.";
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 -158.342478, -117.225355;
String axis "X";
String bcodmo_name "longitude";
Float64 colorBarMaximum 180.0;
Float64 colorBarMinimum -180.0;
String description "Nav computer longitude; positive = east.";
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";
}
temp {
Float32 _FillValue NaN;
Float32 actual_range 12.846, 80.563;
String bcodmo_name "temperature";
String description "Thermosalinograph temperature.";
String long_name "Temperature";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P01/current/TEMPP901/";
String units "degrees Celsius";
}
cond {
Float32 _FillValue NaN;
Float32 actual_range 3.9248, 5.1822;
String bcodmo_name "conductivity";
String description "Thermosalinograph conductivity.";
String long_name "Cond";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P02/current/CNDC/";
String units "Seimens/meter";
}
sal {
Float32 _FillValue NaN;
Float32 actual_range 14.217, 36.327;
String bcodmo_name "sal";
String description "Thermosalinograph salinity.";
String long_name "Sal";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P01/current/PSALST01/";
String units "PSU";
}
depth_w {
String bcodmo_name "depth_w";
String description "Water depth.";
String long_name "Depth";
String standard_name "depth";
String units "meters";
}
chl_raw {
Float32 _FillValue NaN;
Float32 actual_range 0.07, 0.496;
String bcodmo_name "chl_raw";
String description "Thermosalinograph chlorophyll.";
String long_name "Chl Raw";
String units "volts";
}
light_trans_v {
Float32 _FillValue NaN;
Float32 actual_range 3.47, 4.711;
String bcodmo_name "trans_v";
String description "Thermosalinograph light transmission.";
String long_name "Light Trans V";
String units "volts";
}
PAR {
String bcodmo_name "PAR";
String description "PAR in microEinsteins per square meter per second.";
String long_name "Photosynthetically Available Radiation";
String units "uE/m^2/sec";
}
radiation_s {
String bcodmo_name "radiation_s";
String description "IMET short wave radiation.";
String long_name "Radiation S";
String units "watts/square meter";
}
temp_air {
String bcodmo_name "temp_air";
String description "IMET air temperature.";
String long_name "Temp Air";
String units "degrees Celsius";
}
press_bar {
String bcodmo_name "press_bar";
String description "IMET barometric pressure";
String long_name "Press Bar";
String units "millibars";
}
wind_speed {
String bcodmo_name "wind_speed";
String description "True wind speed.";
String long_name "Wind Speed";
String units "knots";
}
wind_dir {
String bcodmo_name "wind_dir";
String description "True wind direction.";
String long_name "Wind Dir";
String units "degrees";
}
wind_speed_r {
String bcodmo_name "wind_speed_r";
String description "Relative wind speed.";
String long_name "Wind Speed R";
String units "knots";
}
wind_dir_r {
String bcodmo_name "wind_dir_r";
String description "Relative wind direction.";
String long_name "Wind Dir R";
String units "degrees";
}
wind_speed_avg {
String bcodmo_name "unknown";
String description "Average true wind speed.";
String long_name "Wind Speed Avg";
String units "knots";
}
wind_dir_avg {
String bcodmo_name "unknown";
String description "Average true wind direction.";
String long_name "Wind Dir Avg";
String units "degrees";
}
sound_vel {
Float32 _FillValue NaN;
Float32 actual_range 1498.0, 1561.2;
String bcodmo_name "sound_vel";
String description "Sound velocity.";
String long_name "Sound Vel";
String units "meters/second";
}
head {
String bcodmo_name "heading";
String description "Gyro compass heading";
String long_name "Head";
String units "degrees true";
}
cog {
String bcodmo_name "cog";
String description "Nav computer course over ground.";
String long_name "Course Over Ground";
String units "degrees true";
}
speedlog {
String bcodmo_name "unknown";
String description "Doppler speed log.";
String long_name "Speedlog";
String units "knots";
}
sog {
String bcodmo_name "sog";
String description "Nav computer speed over ground.";
String long_name "Speed Over Ground";
String units "knots";
}
winch_no {
String bcodmo_name "unknown";
String description "Winch ID number: 0 = Hydro Winch 1; 1 = Trawl Winch; 2 = Hydro Winch 2.";
String long_name "Winch No";
String units "unitless";
}
wire_out {
String bcodmo_name "wire_out";
String description "Number of meters of wire out.";
String long_name "Wire Out";
String units "meters";
}
wire_rate {
String bcodmo_name "unknown";
String description "Wire rate.";
String long_name "Wire Rate";
String units "meters/minute";
}
wire_tension {
String bcodmo_name "unknown";
String description "Wire tension in pounds.";
String long_name "Wire Tension";
String units "lbs";
}
time {
String _CoordinateAxisType "Time";
Float64 actual_range 1.33057256e+9, 1.331480115e+9;
String axis "T";
String bcodmo_name "ISO_DateTime_UTC";
String description "Date/Time (UTC) ISO8601 formatted. T indicates start of time string; Z indicates UTC.";
String ioos_category "Time";
String long_name "ISO Date Time UTC";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P01/current/DTUT8601/";
String source_name "ISO_DateTime_UTC";
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";
}
}
NC_GLOBAL {
String access_formats ".htmlTable,.csv,.json,.mat,.nc,.tsv,.esriCsv,.geoJson,.odvTxt";
String acquisition_description
"The DAS system collects data at an operator selected interval; this interval
is usually set at 1 sample every 5 seconds. The data are collected from IMET
sensors, SBE-21 Thermosalinagraph, EM302 or Knudsen, C-Nav GPS and Winch
systems. The data are time, date and position tagged. A new file is started
each day at GMT 0:00 and ends at 23:59:55 (depending on the data storage
interval). Filename extensions are Julian Day. (From [University of Washington
vessel
information](\\\\\"http://www.ocean.washington.edu/story/RV+Thomas+G+Thompson\\\\\"))
Thermosalinograph calibration data for DAS data follows:
Conductivity calibration coefficients:
m = 4.6
a = 0.00000523250085
b = 0.49686504
c = -4.21206317
d = -0.0000877310216
Temperature calibration coefficients:
f = 2610.082
a = 0.00364763429
b = 0.000596620785
c = 0.0000159326489
d = 0.00000120111676
External Temperature calibration coefficients:
f = 2676.423
a = 0.00368121106
b = 0.00058938925
c = 0.0000151014632
d = 0.00000122956892
PAR sensor calibration coefficient:
dry = 1.63E-17";
String awards_0_award_nid "55018";
String awards_0_award_number "OCE-1031064";
String awards_0_data_url "http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1031064";
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 awards_1_award_nid "55019";
String awards_1_award_number "OCE-1030518";
String awards_1_data_url "http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1030518";
String awards_1_funder_name "NSF Division of Ocean Sciences";
String awards_1_funding_acronym "NSF OCE";
String awards_1_funding_source_nid "355";
String awards_1_program_manager "David L. Garrison";
String awards_1_program_manager_nid "50534";
String cdm_data_type "Other";
String comment
"TN277 alongtrack data (DAS)
PI: Zackary Johnson (Duke University)
Co-PI: Erik Zinser (University of Tennessee)
Version: 24 Oct 2012";
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 "2012-10-24T20:12:12Z";
String date_modified "2019-03-15T14:35:06Z";
String defaultDataQuery "&time<now";
String doi "10.1575/1912/bco-dmo.3758.1";
Float64 Easternmost_Easting -117.225355;
Float64 geospatial_lat_max 32.70665;
Float64 geospatial_lat_min 21.247275;
String geospatial_lat_units "degrees_north";
Float64 geospatial_lon_max -117.225355;
Float64 geospatial_lon_min -158.342478;
String geospatial_lon_units "degrees_east";
String history
"2024-11-08T05:56:33Z (local files)
2024-11-08T05:56:33Z https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_3758.html";
String infoUrl "https://www.bco-dmo.org/dataset/3758";
String institution "BCO-DMO";
String instruments_0_acronym "TSG";
String instruments_0_dataset_instrument_description "SBE 21 SeaCAT Thermosalinograph measured conductivity and temperature. Refer to the following (PDFs) from the TN277 (POWOW1) cruise:Temperature calibration dataTemperature calibration reportConductivity calibration dataConductivity calibration report";
String instruments_0_dataset_instrument_nid "5840";
String instruments_0_description "A thermosalinograph (TSG) is used to obtain a continuous record of sea surface temperature and salinity. On many research vessels the TSG is integrated into the ship's underway seawater sampling system and reported with the underway or alongtrack data.";
String instruments_0_instrument_external_identifier "https://vocab.nerc.ac.uk/collection/L05/current/133/";
String instruments_0_instrument_name "Thermosalinograph";
String instruments_0_instrument_nid "470";
String instruments_0_supplied_name "Thermosalinograph";
String instruments_1_acronym "Fluorometer";
String instruments_1_dataset_instrument_description "See the WetLabs ECO Fluorometer chacterization sheet (PDF) from TN277 (POWOW1) cruise.";
String instruments_1_dataset_instrument_nid "5841";
String instruments_1_description "A fluorometer or fluorimeter is a device used to measure parameters of fluorescence: its intensity and wavelength distribution of emission spectrum after excitation by a certain spectrum of light. The instrument is designed to measure the amount of stimulated electromagnetic radiation produced by pulses of electromagnetic radiation emitted into a water sample or in situ.";
String instruments_1_instrument_external_identifier "https://vocab.nerc.ac.uk/collection/L05/current/113/";
String instruments_1_instrument_name "Fluorometer";
String instruments_1_instrument_nid "484";
String instruments_1_supplied_name "Fluorometer";
String instruments_2_acronym "WL CSTAR Trans";
String instruments_2_dataset_instrument_description "See the WetLabs C-Star calibration sheet (PDF) from the TN277 (POWOW1) cruise.";
String instruments_2_dataset_instrument_nid "5839";
String instruments_2_description "A highly integrated opto-electronic design to provide a low cost, compact solution for underwater measurements of beam transmittance. The instrument is capable of either free space measurements, or through the use of an optical flow tube, flow-through sampling with a pump. It can be used in profiling, moored, or underway applications. more information from Wet Labs";
String instruments_2_instrument_external_identifier "https://vocab.nerc.ac.uk/collection/L22/current/TOOL0160/";
String instruments_2_instrument_name "Wet Labs CSTAR Transmissometer";
String instruments_2_instrument_nid "593";
String instruments_2_supplied_name "Wet Labs CSTAR Transmissometer";
String keywords "air, altimetry, atmosphere, atmospheric, available, average, bar, bco, bco-dmo, biological, chemical, chl, chl_raw, chlorophyll, cog, cond, course, data, dataset, date, date_gmt, day, day_gmt, depth, depth_w, dir, dmo, earth, Earth Science > Atmosphere > Atmospheric Winds > Surface Winds, erddap, ground, head, iso, laboratory, latitude, light, light_trans_v, longitude, management, month, month_gmt, oceanography, office, out, over, PAR, photosynthetically, preliminary, press, press_bar, radiation, radiation_s, rate, raw, sal, satellite, science, sog, sound, sound_vel, speed, speedlog, surface, temp_air, temperature, tension, time, time_gmt, trans, v, vel, winch, winch_no, wind, wind_dir, wind_dir_avg, wind_dir_r, wind_speed, wind_speed_avg, wind_speed_r, winds, wire, wire_out, wire_rate, wire_tension, year, yrday";
String keywords_vocabulary "GCMD Science Keywords";
String license "https://www.bco-dmo.org/dataset/3758/license";
String metadata_source "https://www.bco-dmo.org/api/dataset/3758";
Float64 Northernmost_Northing 32.70665;
String param_mapping "{'3758': {'lat': 'master - latitude', 'lon': 'master - longitude', 'ISO_DateTime_UTC': 'master - time'}}";
String parameter_source "https://www.bco-dmo.org/mapserver/dataset/3758/parameters";
String people_0_affiliation "Duke University";
String people_0_person_name "Zackary I. Johnson";
String people_0_person_nid "50749";
String people_0_role "Chief Scientist";
String people_0_role_type "originator";
String people_1_affiliation "University of Tennessee Knoxville";
String people_1_affiliation_acronym "UTK";
String people_1_person_name "Erik Zinser";
String people_1_person_nid "51286";
String people_1_role "Co-Chief Scientist";
String people_1_role_type "originator";
String people_2_affiliation "Duke University";
String people_2_person_name "Zackary I. Johnson";
String people_2_person_nid "50749";
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 project "POWOW";
String projects_0_acronym "POWOW";
String projects_0_description
"Project also known as 'Prochlorococcus Of Warming Ocean Waters' (POWOW).
The two numerically-dominant ecotypes of the marine cyanobacterium Prochlorococcus partition the surface ocean niche latitudinally, with ecotype eMIT9312 dominant in the 30 degree N to 30 degree S region and eMED4 dominant at higher latitudes. These ecotypes may account for 25-50% of primary production in open ocean ecosystems, but this percentage is dependent on which ecotype dominates. The relative abundance of the two ecotypes follows a log-linear relationship with temperature, with the transition from eMIT9312 to eMED4 occurring at approx. 18 degrees C. From these descriptive data, it has been hypothesized that temperature is the primary driver of relative abundance. Their contribution to net primary production, however, appears to be independent of temperature, suggesting temperature regulates ecotype dominance through photosynthesis-independent mechanisms.
To test these hypotheses, the PIs are undertaking a series of field and lab studies to investigate the effect of temperature change on the distribution of these ecotypes. Two cruises in the North Pacific will trace the transitions from eMIT9312- to eMED4-dominated regions, with one cruise during the winter and the other during summer. They have hypothesized that the ratio of ecotype abundance will move latitudinally with the seasonal shift in temperature gradient: migration of the 18 degrees C isotherm northward in the summer will be matched by a similar migration of the 1:1 ecotype transition point. Multiple crossings of the 18 degrees C isotherm are proposed, and the summer cruise will also follow the isotherm to the Western US coast to gain insight on physical and geochemical influences. Environmental variables such as nutrient concentrations, light/mixing depths, and virus /grazing based mortality, which may impinge on the relationship between temperature and ecotype ratio, will be assessed through a series of multivariate analyses of the collected suite of physical, chemical and biological data. Seasonal comparisons will be complemented with on-deck incubations and lab competition assays (using existing and new isolates) that will establish, for the first time, how fitness coefficients of these ecotypes relate to temperature. As latitudinal shifts in temperature gradient and migration of ecotypes during seasonal warming likely share common features with high latitude warming as a consequence of climate change, the investigator's analyses will contribute important biological parameters (e.g., abundances, production rates, temperature change coefficients) for modeling biological and biogeochemical responses to climate change. This research will be integrated with that of committed collaborators, generating data sufficient for ecosystem-scale characterizations of the contributions of temperature (relative to other forcing factors) in constraining the range and seasonal migration of these numerically dominant marine phototrophs.
Publications produced as result of this research:
Rowe, J.M., DeBruyn, J.M., Poorvin, L., LeCleir, G.R., Johnson, Z.I., Zinser, E.R., and Wilhelm, S.W. 2012. Viral and bacterial abundance and production in the Western Pacific Ocean and the relation to other oceanic realms. FEMS Microbiology Ecology, 72, p. 359. DOI: 10.1111/j.1574-6941.2011.01223.x
Morris, J.J., Lenski, R.E. and E.R. Zinser. 2012. The Black Queen Hypothesis: Evolution of Dependencies through Adaptive Gene Loss. mBio, 3, p. e00036-12. DOI: 10.1128/mBio.00036-12
Morris, J.J., Johnson, Z.I., Szul, M.J., Keller, M., and Zinser, E.R. 2011. Dependence of the cyanobacterium Prochlorococcus on hydrogen peroxide scavenging microbes for growth at the ocean's surface. PLoS One, 6(2), p. 16805. DOI:10.1371/journal.pone.0016805
Ringuet, S., Sassano, L., and Johnson, Z.I. 2011. A suite of microplate reader-based colorimetric methods to quantify ammonium, nitrate, orthophosphate and silicate concentrations for aquatic nutrient monitoring. Journal of Environmental Monitoring. DOI:10.1039/C0EM00290A
Ritchie, A.E. and Johnson, Z.I. 2012. Abundance and genetic diversity of aerobic anoxygenic phototrophic bacteria of coastal regions of the Pacific Ocean. Applied and Environmental Microbiology, 78, p. 2858. DOI: 10.1128/AEM.06268-11";
String projects_0_end_date "2014-09";
String projects_0_geolocation "Eastern North Pacific Ocean";
String projects_0_name "Seasonal and decadal changes in temperature drive Prochlorococcus ecotype distribution patterns";
String projects_0_project_nid "2237";
String projects_0_project_website "http://oceanography.ml.duke.edu/johnson/research/powow/";
String projects_0_start_date "2010-10";
String publisher_name "Biological and Chemical Oceanographic Data Management Office (BCO-DMO)";
String publisher_type "institution";
String sourceUrl "(local files)";
Float64 Southernmost_Northing 21.247275;
String standard_name_vocabulary "CF Standard Name Table v55";
String subsetVariables "month_gmt,year";
String summary "Alongtrack data from ship's Data Acquisition System (DAS) from R/V Thomas G. Thompson cruise TN277 in the Eastern North Pacific Ocean in 2012. Data were collected along the cruise track from the ship's IMET sensors, thermosalinograph, Knudesn, and GPS.";
String time_coverage_end "2012-03-11T15:35:15Z";
String time_coverage_start "2012-03-01T03:29:20Z";
String title "[alongtrack] - Alongtrack data from ship's Data Acquisition System (DAS) from R/V Thomas G. Thompson cruise TN277 in the Eastern North Pacific Ocean in 2012 (POWOW project) (Seasonal and decadal changes in temperature drive Prochlorococcus ecotype distribution patterns)";
String version "1";
Float64 Westernmost_Easting -158.342478;
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.