Data Access Form

Dataset Title:	[Site locations and species sampled] - Coral species list and site descriptions for studies conducted on the partial SSU rRNA genes of bacteria and archaea in the Florida Keys, Australia, and Micronesia in 2013. (Coral Microbial Relationships project) (Fundamental Coral-Microbial Associations)
Institution:	BCO-DMO (Dataset ID: bcodmo_dataset_662096)
Information:	Summary \| License \| FGDC \| ISO 19115 \| Metadata \| Background \| 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	Minimum	Maximum
species (unitless)	"Acropora_humilis"	"Porites_lobata"
colony_name (unitless)	"Ahum1"	"Pverr3"
collection_site (unitless)	"Kap-1_Micronesia"	"Reef_flat_Fl_Keys_..."
latitude (degrees_north)	-15.0883	24.606054

longitude (degrees_east)	-154.774645	146.852

depth (m)	1.0	33.0

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 {
  species {
    String bcodmo_name "species";
    String description "Species of coral sampled";
    String long_name "Species";
    String units "unitless";
  }
  colony_name {
    String bcodmo_name "sample";
    String description "PI issued ID for the coral colony sampled";
    String long_name "Colony Name";
    String nerc_identifier "https://vocab.nerc.ac.uk/collection/P02/current/ACYC/";
    String units "unitless";
  }
  collection_site {
    String bcodmo_name "site";
    String description "Geographic location where sampling occurred";
    String long_name "Collection Site";
    String units "unitless";
  }
  latitude {
    String _CoordinateAxisType "Lat";
    Float64 _FillValue NaN;
    Float64 actual_range -15.0883, 24.606054;
    String axis "Y";
    String bcodmo_name "latitude";
    Float64 colorBarMaximum 90.0;
    Float64 colorBarMinimum -90.0;
    String description "Latitude; N 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 -154.774645, 146.852;
    String axis "X";
    String bcodmo_name "longitude";
    Float64 colorBarMaximum 180.0;
    Float64 colorBarMinimum -180.0;
    String description "Longitude; W 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, 33.0;
    String axis "Z";
    String bcodmo_name "depth";
    Float64 colorBarMaximum 8000.0;
    Float64 colorBarMinimum -8000.0;
    String colorBarPalette "TopographyDepth";
    String description "Depth where sampling occurred";
    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";
  }
 }
  NC_GLOBAL {
    String access_formats ".htmlTable,.csv,.json,.mat,.nc,.tsv,.esriCsv,.geoJson";
    String acquisition_description 
"Coral collection and processing
 
Coral fragments were collected by a scuba diver using a hammer and chisel
during field sampling trips to Kapangamarangi Atoll, Micronesia (November
2012), Florida Keys, U.S.A. (May 2013) and Magnetic Bay, Australia (November
2013). Fragments were stored in a cooler containing ice until they were flash
frozen in liquid nitrogen. Fragments were obtained from 3 representative
colonies of the following species:
Porites\\u00a0lobata,\\u00a0Pocillopora\\u00a0verrucosa,\\u00a0Acropora\\u00a0humilis,
Orbicella\\u00a0faveolata, Montastraea\\u00a0cavernosa,
O.\\u00a0annularis,\\u00a0and\\u00a0Diploria\\u00a0strigosa.\\u00a0Fragments were
shipped back to Woods Hole Oceanographic Institution and stored at -80 C until
they were processed.\\u00a0";
    String awards_0_award_nid "564441";
    String awards_0_award_number "OCE-1233612";
    String awards_0_data_url "http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1233612";
    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 
"Sample Descriptions and Site Locations 
  A. Apprill, PI 
  Version 20 October 2016";
    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 "2016-10-20T16:46:24Z";
    String date_modified "2019-04-19T19:26:21Z";
    String defaultDataQuery "&amp;time&lt;now";
    String doi "10.1575/1912/bco-dmo.662096.1";
    Float64 Easternmost_Easting 146.852;
    Float64 geospatial_lat_max 24.606054;
    Float64 geospatial_lat_min -15.0883;
    String geospatial_lat_units "degrees_north";
    Float64 geospatial_lon_max 146.852;
    Float64 geospatial_lon_min -154.774645;
    String geospatial_lon_units "degrees_east";
    Float64 geospatial_vertical_max 33.0;
    Float64 geospatial_vertical_min 1.0;
    String geospatial_vertical_positive "down";
    String geospatial_vertical_units "m";
    String history 
"2024-11-23T16:51:33Z (local files)
2024-11-23T16:51:33Z https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_662096.html";
    String infoUrl "https://www.bco-dmo.org/dataset/662096";
    String institution "BCO-DMO";
    String keywords "bco, bco-dmo, biological, chemical, collection, collection_site, colony, colony_name, data, dataset, depth, dmo, erddap, latitude, longitude, management, name, oceanography, office, preliminary, site, species";
    String license "https://www.bco-dmo.org/dataset/662096/license";
    String metadata_source "https://www.bco-dmo.org/api/dataset/662096";
    Float64 Northernmost_Northing 24.606054;
    String param_mapping "{'662096': {'lat': 'master - latitude', 'depth': 'master - depth', 'lon': 'master - longitude'}}";
    String parameter_source "https://www.bco-dmo.org/mapserver/dataset/662096/parameters";
    String people_0_affiliation "Woods Hole Oceanographic Institution";
    String people_0_affiliation_acronym "WHOI";
    String people_0_person_name "Amy Apprill";
    String people_0_person_nid "553489";
    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 "Laura Weber";
    String people_1_person_nid "662109";
    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 "Hannah Ake";
    String people_2_person_nid "650173";
    String people_2_role "BCO-DMO Data Manager";
    String people_2_role_type "related";
    String project "Coral Microbial Relationships";
    String projects_0_acronym "Coral Microbial Relationships";
    String projects_0_description 
"Description from NSF award abstract:
Reef-building corals are in decline worldwide due in part to climate change and other human activities, and it is becoming increasingly important to understand what aspects of coral biology are degraded by environmental stress which then leads to coral mortality. It is now widely known that corals harbor communities of bacteria and archaea that are believed to play important roles in maintaining the health of their hosts, but we lack any appreciable understanding about the identity of the microbial associates regularly residing within healthy, reef-building corals. This project asks the central question: do reef-building corals harbor fundamental or persistent microbial associates that are symbiotic within their tissues? In order to address this hypothesis, the investigator will assess the identity of the bacterial and archaeal microbes using a variety of molecular and microscopy approaches that includes the identification and localization of a widespread group of coral bacterial associates belonging to the genus Endozoicomonas. The results of this study will then be used to develop additional questions about the role of these microbial associates in nutrient cycling and how they contribute to the health and survival of corals.";
    String projects_0_end_date "2016-08";
    String projects_0_geolocation "Florida Keys, Federated States of Micronesia, Red Sea, & Bermuda";
    String projects_0_name "Fundamental Coral-Microbial Associations";
    String projects_0_project_nid "564442";
    String projects_0_start_date "2012-09";
    String publisher_name "Biological and Chemical Oceanographic Data Management Office (BCO-DMO)";
    String publisher_type "institution";
    String sourceUrl "(local files)";
    Float64 Southernmost_Northing -15.0883;
    String standard_name_vocabulary "CF Standard Name Table v55";
    String summary "Coral species list and site descriptions for studies conducted on the partial SSU rRNA genes of bacteria and archaea in the Florida Keys, Australia, and Micronesia in 2013. (Coral Microbial Relationships project)";
    String title "[Site locations and species sampled] - Coral species list and site descriptions for studies conducted on the partial SSU rRNA genes of bacteria and archaea in the Florida Keys, Australia, and Micronesia in 2013. (Coral Microbial Relationships project) (Fundamental Coral-Microbial Associations)";
    String version "1";
    Float64 Westernmost_Easting -154.774645;
    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.