Data Access Form

Dataset Title:	[MCR_HIGH RES_DOC] - High Resolution sampling of dissolved organic matter (DOM) around Mo'orea coupled with macroalgal collections (Coral DOM2 project) (Collaborative Research: Dissolved organic matter feedbacks in coral reef resilience: The genomic & geochemical basis for microbial modulation of algal phase shifts)
Institution:	BCO-DMO (Dataset ID: bcodmo_dataset_720234)
Information:	Summary \| License \| FGDC \| ISO 19115 \| Metadata \| Background \| Subset \| Files \| Make a graph

To work correctly, this web page requires that JavaScript be enabled in your browser. Please:
1) Enable JavaScript in your browser:
      • Chrome: "Settings : Advanced : Privacy and security : Site Settings : JavaScript"
      • Firefox: (it should be always on!)"
      • Opera: "Settings : Websites : JavaScript"
      • Safari: "Safari : Preferences : Security : Enable JavaScript"
2) Reload this web page.

Variable

Optional
Constraint #1

Optional
Constraint #2

Minimum

or a List of Values

Maximum

SAMPLE_ID (unitless)

320

CRUISE (unitless)

STATION (unitless)

"1"

"R90"

TYPE (unitless)

time (ISO Date Time Local, UTC)

2016-07-26T11:20:00Z

2016-09-01T10:29:00Z

latitude (degrees_north)

-17.60410798

-17.47187021

longitude (degrees_east)

-149.9240371

-149.7576461

depth (m)

DOC_FINAL_uM (Micromol Carbon)

60.12

79.45

DOC_SD (Micromol Carbon)

0.0

4.54

FLAG (unitless)

Server-side Functions

distinct()

Hover here to see a list of options. Click on an option to select it.

File type: (more information)

(Documentation / Bypass this form )

(Please be patient. It may take a while to get the data.)

The Dataset Attribute Structure (.das) for this Dataset

Attributes {
 s {
  SAMPLE_ID {
    Int16 _FillValue 32767;
    Int16 actual_range 1, 320;
    String bcodmo_name "sample";
    String description "Unique Identified Code for each sample collected";
    String long_name "SAMPLE ID";
    String nerc_identifier "https://vocab.nerc.ac.uk/collection/P02/current/ACYC/";
    String units "unitless";
  }
  CRUISE {
    String bcodmo_name "cruise_id";
    String description "cruise name";
    String long_name "CRUISE";
    String units "unitless";
  }
  STATION {
    String bcodmo_name "station";
    String description "MCR site number";
    String long_name "STATION";
    String units "unitless";
  }
  TYPE {
    String bcodmo_name "sample_type";
    String description "B for bottle - surface bottle grabs";
    String long_name "TYPE";
    String units "unitless";
  }
  time {
    String _CoordinateAxisType "Time";
    Float64 actual_range 1.469532e+9, 1.47272574e+9;
    String axis "T";
    String bcodmo_name "ISO_DateTime_Local";
    String description "Local date and time (UTC-10) in the format yyyy-mm-ddThh:mm:ss";
    String ioos_category "Time";
    String long_name "ISO Date Time Local";
    String source_name "ISO_DateTime_Local";
    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";
  }
  latitude {
    String _CoordinateAxisType "Lat";
    Float64 _FillValue NaN;
    Float64 actual_range -17.60410798, -17.47187021;
    String axis "Y";
    String bcodmo_name "latitude";
    Float64 colorBarMaximum 90.0;
    Float64 colorBarMinimum -90.0;
    String description "Latitude; north is positive";
    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 -149.9240371, -149.7576461;
    String axis "X";
    String bcodmo_name "longitude";
    Float64 colorBarMaximum 180.0;
    Float64 colorBarMinimum -180.0;
    String description "Longitude; east is positive";
    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, 1.0;
    String axis "Z";
    String bcodmo_name "depth";
    Float64 colorBarMaximum 8000.0;
    Float64 colorBarMinimum -8000.0;
    String colorBarPalette "TopographyDepth";
    String description "Sampling 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";
  }
  DOC_FINAL_uM {
    Float32 _FillValue NaN;
    Float32 actual_range 60.12, 79.45;
    String bcodmo_name "DOC";
    String description "Dissolved organic carbon concentration by HTCO. Glass fiber filtrate type GF/F (Whatman). Methodological reference is Carlson et al. 2010 DSRII";
    String long_name "DOC FINAL U M";
    String nerc_identifier "https://vocab.nerc.ac.uk/collection/P01/current/CORGZZZX/";
    String units "Micromol Carbon";
  }
  DOC_SD {
    Float32 _FillValue NaN;
    Float32 actual_range 0.0, 4.54;
    String bcodmo_name "DOC";
    Float64 colorBarMaximum 50.0;
    Float64 colorBarMinimum 0.0;
    String description "standard deviation for DOC";
    String long_name "DOC SD";
    String nerc_identifier "https://vocab.nerc.ac.uk/collection/P01/current/CORGZZZX/";
    String units "Micromol Carbon";
  }
  FLAG {
    Byte _FillValue 127;
    String _Unsigned "false";
    Byte actual_range 1, 4;
    String bcodmo_name "q_flag";
    Float64 colorBarMaximum 150.0;
    Float64 colorBarMinimum 0.0;
    String description "quality flag for DOC  [1= acceptable; 4= questionable]";
    String long_name "FLAG";
    String units "unitless";
  }
 }
  NC_GLOBAL {
    String access_formats ".htmlTable,.csv,.json,.mat,.nc,.tsv,.esriCsv,.geoJson,.odvTxt";
    String acquisition_description 
"Procedural overview:
 
\\- All samples were collected via boat, using 1L square Polycarbonate bottles
(surface grabs).  
 - Bottles were gravity filtered (combusted 47mm GF/F) into glass vials.  
 - Samples were returned to the on-shore MCR LTER laboratory, acidified and
stored at Room Temperature.  
 - Samples were shipped to Craig Carlson\\u2019s Laboratory at UCSB for
analysis using the HTCO Method (Carlson, et al. 2010 DSRII).
 
DOC analysis methodology\\u00a0(from Carlson et al (2010)).
 
All samples were analyzed via high-temperature combustion on Shimadzu TOC-V
analyzers that were slightly modified from the manufacturer\\u2019s model
system. The condensation coil was removed and the head space of an internal
water trap was reduced to minimize system dead space. The combustion tube
contained 0.5 cm Pt pillows placed on top of Pt alumina beads to improve peak
shape and to reduce alteration of the combustion matrix throughout the
analytical run. CO2-free carrier gas was delivered to the TOC-V systems via
commercial ultra high purity gas cylinders or a Whatmans gas generator. Three
milliliters of sample were drawn into a 5 ml injection syringe, acidified with
2 M HCL (1.5%), and sparged for 1.5 min with CO2-free gas. Three to five
replicate 100 ml of sample were injected into the combustion tube heated to
680 1C. A magnesium perchlorate trap was added to the existing water and
halide traps to ensure removal of water vapor from the gas line prior to
entering a nondispersive infrared detector. The resulting peak area was
integrated with Shimadzu chromatographic software.  
 Extensive conditioning of the combustion tube with repeated injections of
low carbon water (LCW) and deep seawater was essential to minimize the machine
blanks. The system response was standardized daily with a four-point
calibration curve of potassium hydrogen phthalate solution in LCW. Sample and
reference swapping and intercalibration exercises were conducted periodically
between the UCSB and University of Miami to ensure comparability between
sample sets. All samples were systematically referenced against low carbon
water, deep Sargasso Sea reference waters (2600 m), and surface Sargasso Sea
water every 6-8 analyses (Hansell and Carlson, 1998; Carlson et al., 2004).
Daily reference waters were calibrated with DOC Consensus Reference Waters
(Hansell, 2005). The standard deviation of the deep and surface references
analyzed throughout a run generally had a coefficient of variation ranging
between 1-2% over the 3-7 independent analyses (number of references depended
on the size of the run), allowing resolution of approximately 1 mmol/kg in the
deep waters.";
    String awards_0_award_nid "675024";
    String awards_0_award_number "OCE-1538567";
    String awards_0_data_url "http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1538567";
    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 "Michael E. Sieracki";
    String awards_0_program_manager_nid "50446";
    String awards_1_award_nid "675030";
    String awards_1_award_number "OCE-1538393";
    String awards_1_data_url "http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1538393";
    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 "Michael E. Sieracki";
    String awards_1_program_manager_nid "50446";
    String awards_2_award_nid "675035";
    String awards_2_award_number "OCE-1538428";
    String awards_2_data_url "http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1538428";
    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 "Michael E. Sieracki";
    String awards_2_program_manager_nid "50446";
    String cdm_data_type "Other";
    String comment 
"MCR_HIGH RES_DOM 
   High Resolution sampling of dissolved organic matter (DOM) around Mo'orea coupled with macroalgal collections, July-Sept 2016 
   C. Carlson (UCSB) 
   version: 2017-12-01";
    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 "2017-12-01T20:17:12Z";
    String date_modified "2018-12-17T19:32:35Z";
    String defaultDataQuery "&amp;time&lt;now";
    String doi "10.1575/1912/bco-dmo.720234.1";
    Float64 Easternmost_Easting -149.7576461;
    Float64 geospatial_lat_max -17.47187021;
    Float64 geospatial_lat_min -17.60410798;
    String geospatial_lat_units "degrees_north";
    Float64 geospatial_lon_max -149.7576461;
    Float64 geospatial_lon_min -149.9240371;
    String geospatial_lon_units "degrees_east";
    Float64 geospatial_vertical_max 1.0;
    Float64 geospatial_vertical_min 1.0;
    String geospatial_vertical_positive "down";
    String geospatial_vertical_units "m";
    String history 
"2024-11-21T11:49:59Z (local files)
2024-11-21T11:49:59Z https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_720234.html";
    String infoUrl "https://www.bco-dmo.org/dataset/720234";
    String institution "BCO-DMO";
    String instruments_0_acronym "TOC analyzer";
    String instruments_0_dataset_instrument_nid "720279";
    String instruments_0_description "A unit that accurately determines the carbon concentrations of organic compounds typically by detecting and measuring its combustion product (CO2). See description document at: http://bcodata.whoi.edu/LaurentianGreatLakes_Chemistry/bs116.pdf";
    String instruments_0_instrument_external_identifier "https://vocab.nerc.ac.uk/collection/L05/current/LAB04/";
    String instruments_0_instrument_name "Total Organic Carbon Analyzer";
    String instruments_0_instrument_nid "652";
    String instruments_0_supplied_name "Shimadzu TOC-V analyzers, modified";
    String keywords "bco, bco-dmo, biological, chemical, commerce, cruise, data, dataset, date, department, depth, dmo, doc, DOC_FINAL_uM, DOC_SD, erddap, final, flag, iso, latitude, local, longitude, management, oceanography, office, preliminary, sample, SAMPLE_ID, station, time, type, u";
    String license "https://www.bco-dmo.org/dataset/720234/license";
    String metadata_source "https://www.bco-dmo.org/api/dataset/720234";
    Float64 Northernmost_Northing -17.47187021;
    String param_mapping "{'720234': {'Latitude': 'flag - latitude', 'Depth': 'flag - depth', 'Longitude': 'flag - longitude', 'ISO_DateTime_Local': 'flag - time'}}";
    String parameter_source "https://www.bco-dmo.org/mapserver/dataset/720234/parameters";
    String people_0_affiliation "University of California-Santa Barbara";
    String people_0_affiliation_acronym "UCSB-MSI";
    String people_0_person_name "Craig Carlson";
    String people_0_person_nid "50575";
    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 "Nancy Copley";
    String people_1_person_nid "50396";
    String people_1_role "BCO-DMO Data Manager";
    String people_1_role_type "related";
    String project "Coral DOM2";
    String projects_0_acronym "Coral DOM2";
    String projects_0_description 
"NSF award abstract:
Coral reef degradation, whether driven by overfishing, nutrient pollution, declining water quality, or other anthropogenic factors, is associated with a phase shift towards a reefs dominated by fleshy algae. In many cases managing and ameliorating these stressors does not lead to a return to coral dominance, and reefs languish in an algal-dominated state for years. Nearly a decade of research has demonstrated that trajectories toward increasing algal dominance are restructuring microbial community composition and metabolism; the investigators hypothesize that microbial processes facilitate the maintenance of algal dominance by metabolizing organic compounds released by algae thereby stressing corals through hypoxia and disease. The resilience of reefs to these phase shifts is a critical question in coral reef ecology, and managing reefs undergoing these community shifts requires developing an understanding of the role of microbial interactions in facilitating algal overgrowth and altering reef ecosystem function. The research proposed here will investigate the organics produced by algae, the microbes that metabolize the organics, and the impacts of these processes on coral health and growth. This research has implications for managing reef resilience to algal phase shifts by testing the differential resistance of coral-associated microbial communities to algae and defining thresholds of algal species cover which alter ecosystem biogeochemistry. This project provides mentoring across multiple career levels, linking underrepresented undergraduates, two graduate students, a postdoctoral researcher, and a beginning and established investigators.
This project will integrate dissolved organic matter (DOM) geochemistry, microbial genomics and ecosystem process measurements at ecologically-relevant spatial and temporal scales to test hypothetical mechanisms by which microbially-mediated feedbacks may facilitate the spread of fleshy algae on Pacific reef ecosystems. A key product of this research will be understanding how the composition of corals and algae on reefs interact synergistically with complex microbial communities to influence reef ecosystem resilience to algal phase shifts. Emerging molecular and biogeochemical methods will be use to investigate mechanisms of microbial-DOM interactions at multiple spatial and temporal scales. This project will leverage the background environmental data, laboratory facilities and field logistical resources of the Mo'orea Coral Reef Long Term Ecological Research Project in French Polynesia and contribute to the mission of that program of investigating coral reef resilience in the face of global change. The investigators will quantify bulk diel patterns of DOM production and characterize the composition of chromophoric components and both free and acid-hydrolyzable neutral monosaccharides and amino acids from varying benthic algae sources. The team will also characterize planktonic and coral-associated microbial community changes in taxonomic composition and gene expression caused by algal DOM amendments in on-site controlled environmental chambers using phylogenetics and metatranscriptomics, including tracking algal exudate utilization by specific microbial lineages. Field-deployed 100 liter tent mesocosms will be used to examine in situ diel patterns of coupled DOM production and consumption, microbial community genomics and ecosystem metabolism over representative benthic communities comprising combinations of algal and coral species. Together these experimental results will guide interpretation of field surveys of centimeter-scale spatial dynamics of planktonic and coral-associated microbial genomics and metabolism at zones of coral-algal interaction, including boundary layer dynamics of oxygen, bacteria and DOM using planar optodes, high-throughput flow cytometry and fluorescence spectroscopy.";
    String projects_0_end_date "2018-11";
    String projects_0_geolocation "Pacific Coral Reefs";
    String projects_0_name "Collaborative Research: Dissolved organic matter feedbacks in coral reef resilience: The genomic & geochemical basis for microbial modulation of algal phase shifts";
    String projects_0_project_nid "675025";
    String projects_0_start_date "2015-12";
    String publisher_name "Biological and Chemical Oceanographic Data Management Office (BCO-DMO)";
    String publisher_type "institution";
    String sourceUrl "(local files)";
    Float64 Southernmost_Northing -17.60410798;
    String standard_name_vocabulary "CF Standard Name Table v55";
    String subsetVariables "CRUISE,TYPE,depth";
    String summary "Data was collected here in collaboration with the MCR-LTER group in July 2016. Dissolved organic carbon (DOC) samples were collected for us during an existing field project (Turbinaria tissue collections). The primary goal was to collect water from as many of ~180 Lagoon sites as possible to obtain high-resolution surface DOC dataset. This dataset includes dissolved organic carbon (DOC) measurements around the periphery of Mo'orea Island from July 26 to September 1, 2016. Samples were taken at 1-meter depth.";
    String time_coverage_end "2016-09-01T10:29:00Z";
    String time_coverage_start "2016-07-26T11:20:00Z";
    String title "[MCR_HIGH RES_DOC] - High Resolution sampling of dissolved organic matter (DOM) around Mo'orea coupled with macroalgal collections (Coral DOM2 project) (Collaborative Research: Dissolved organic matter feedbacks in coral reef resilience: The genomic & geochemical basis for microbial modulation of algal phase shifts)";
    String version "1";
    Float64 Westernmost_Easting -149.9240371;
    String xml_source "osprey2erddap.update_xml() v1.3";
  }
}

Using tabledap to Request Data and Graphs from Tabular Datasets

tabledap lets you request a data subset, a graph, or a map from a tabular dataset (for example, buoy data), via a specially formed URL. tabledap uses the OPeNDAP (external link)

Data Access Protocol (DAP) (external link)

and its selection constraints (external link)

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.

(easy) You can get data by using the dataset's Data Access Form or Subset form. They make the URL for you.
(easy) You can make a graph or map by using the dataset's Make A Graph form. It makes the URL for you.
(not hard) You can bypass the forms and get the data or make a graph or map by generating the URL by hand or with a computer program or script.

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.