Accessing BCO-DMO data
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BCO-DMO ERDDAP
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| Dataset Title: | Net calcification, gross calcification, and linear extension rates of fragments of 4 species of coral over a 93-day ocean acidification and warming laboratory experiment 
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| Institution: | BCO-DMO (Dataset ID: bcodmo_dataset_735583) |
| Information: | Summary
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| ISO 19115
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Attributes {
s {
reefzone {
String bcodmo_name "region";
String description "Collection reef zone of each fragment: N = inshore; F = offshore";
String long_name "Reefzone";
String units "unitless";
}
species_code {
String bcodmo_name "taxon_code";
String description "Species code: S = S. siderea; P = P. strigosa; A = P. astreoides; T = U. tenuifolia";
String long_name "Species Code";
String units "unitless";
}
colony {
String bcodmo_name "sample";
String description "ID of the coral colony";
String long_name "Colony";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P02/current/ACYC/";
String units "unitless";
}
coral {
String bcodmo_name "sample";
String description "Unique coral fragment ID";
String long_name "Coral";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P02/current/ACYC/";
String units "unitless";
}
tank {
String bcodmo_name "sample";
String description "Tank ID fragment was in";
String long_name "Tank";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P02/current/ACYC/";
String units "unitless";
}
treatment {
String bcodmo_name "treatment";
String description "Experimental treatment fragment was in: first number represents target pCO2 value; second is the temperature treatment";
String long_name "Treatment";
String units "unitless";
}
pCO2_label {
String bcodmo_name "pCO2";
String description "pCO2 treatment label: pre = pre-industrial (280); cur = current (400); eoc = end-of-century (700); ext = extreme (2800)";
String long_name "P CO2 Label";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P01/current/PCO2C101/";
String units "unitless";
}
pCO2_target {
Int16 _FillValue 32767;
Int16 actual_range 280, 2800;
String bcodmo_name "pCO2";
String description "pCO2 treatment factor label";
String long_name "P CO2 Target";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P01/current/PCO2C101/";
String units "micro-atmospheres";
}
temp_target {
Byte _FillValue 127;
Byte actual_range 28, 31;
String bcodmo_name "temperature";
String description "Temperature treatment factor label";
String long_name "Temp Target";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P01/current/TEMPP901/";
String units "degrees Celsius";
}
pCO2 {
Float32 _FillValue NaN;
Float32 actual_range 286.61, 3369.78;
String bcodmo_name "pCO2";
String description "Measured average experimental pCO2";
String long_name "P CO2";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P01/current/PCO2C101/";
String units "micro-atmospheres";
}
temp {
Float32 _FillValue NaN;
Float32 actual_range 27.9, 31.1;
String bcodmo_name "temperature";
String description "Measured average experimental temperature";
String long_name "Temperature";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P01/current/TEMPP901/";
String units "degrees Celsius";
}
surface_area {
Float32 _FillValue NaN;
Float32 actual_range 1.017, 131.726;
String bcodmo_name "surface_area";
String description "Measured surface area of fragment";
String long_name "Surface Area";
String units "square centimeters";
}
linear_extension {
Float32 _FillValue NaN;
Float32 actual_range 0.001, 0.03;
String bcodmo_name "length";
String description "Measured linear extension";
String long_name "Linear Extension";
String units "millimeters/day (mm day-1)";
}
time_point {
String bcodmo_name "time_point";
String description "Time point: denotes the timepoint for net calcification rate. Pre = pre-acclimation to T0 net calcification rate; T30 = T0 to T30 net calcification rate; T60 = T30 to T60 net calcification rate; T90 = T60 to T90 net calcification rate; total = T0 - T90 net calcification";
String long_name "Time Point";
String units "unitless";
}
calc_rate {
Float32 _FillValue NaN;
Float32 actual_range -3.204, 4.095;
String bcodmo_name "calcification";
String description "Net calcification rate";
String long_name "Calc Rate";
String units "milligrams/centimeter^2/day (mg cm-2 day-1)";
}
calc_gross {
Float32 _FillValue NaN;
Float32 actual_range -0.425, 1.989;
String bcodmo_name "calcification";
String description "Gross calcification rate (only for full 90-day experiment)";
String long_name "Calc Gross";
String units "milligrams/centimeter^2/day (mg cm-2 day-1)";
}
}
NC_GLOBAL {
String access_formats ".htmlTable,.csv,.json,.mat,.nc,.tsv";
String acquisition_description
"Coral colonies were collected from inshore reefs (Port Honduras Marine
Reserve; 16\\u00b011\\u201923.5314\\u201dN, 88\\u00b034\\u201921.9360\\u201dW) and
from offshore reefs (Sapodilla Cayes Marine Reserve;
16\\u00b007\\u201900.0114\\u201dN, 88\\u00b015\\u201941.1834\\u201dW) along the
Belize Mesoamerican Barrier Reef System (MBRS) in June 2015. The experiment
was carried out from September 2015-December 2015 (recovery and acclimation
June 2015-September 2015).\\u00a0
Net calcification rates were estimated using a buoyant weight method (Davies,
1989). Coral fragments were suspended in a 38 L aquarium 4 cm below the
surface in seawater (temperature, 28.2\\u00b0C; salinity, 32.4) using an
aluminum wire hanging from balance. Each coral fragment was weighed three
times and averaged. Buoyant weights of all fragments were quantified at the
beginning of pre-acclimation and every 30 days throughout the duration of the.
Net calcification rates were normalized to the surface area of each fragment
and to the number of days between buoyant weights. Surface area was quantified
in triplicate from photos of each nubbin taken at corresponding intervals
using imaging software. A calcein spike was implanted into coral skeletons at
the beginning of the experiment to establish a fluorescent mark that could be
used to quantify linear extension throughout the experiment (Venti et al,
2014). Linear extension was measured as the total area of new growth above the
calcein line, divided by the lateral length of the. Neither U. tenuifolia nor
P. strigosa were included in linear extension analyses because their irregular
morphologies prevented accurate measurements of linear extension.
Data were analyzed in R (3.3.2). NIH ImageJ was used to process images.";
String awards_0_award_nid "635862";
String awards_0_award_number "OCE-1459522";
String awards_0_data_url "http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1459522";
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 cdm_data_type "Other";
String comment
"coral growth: OA and warming expt.
K. Castillo, C. Bove (UNC-Chapel Hill)
version: 2018-05-09
Reef zone: N = inshore; F=offshore
Species code: S = S. siderea; P = P. strigosa; A = P. astreoides; T = U. tenuifolia
pCO2 treatment label: pre = pre-industrial (280); cur = current (400); eoc = end-of-century (700); ext = extreme (2800)";
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 "2018-05-09T14:31:03Z";
String date_modified "2019-12-11T20:07:53Z";
String defaultDataQuery "&time<now";
String doi "10.1575/1912/bco-dmo.735583.1";
String history
"2024-04-19T18:13:35Z (local files)
2024-04-19T18:13:35Z https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_735583.html";
String infoUrl "https://www.bco-dmo.org/dataset/735583";
String institution "BCO-DMO";
String instruments_0_dataset_instrument_description "Stereo microscope outfitted with a blue fluorescent adapter with excitation 440–460nm (NIGHTSEATM; Lexington, Massachusetts, USA).";
String instruments_0_dataset_instrument_nid "751153";
String instruments_0_description "Instruments that generate enlarged images of samples using the phenomena of reflection and absorption of visible light. Includes conventional and inverted instruments. Also called a \"light microscope\".";
String instruments_0_instrument_external_identifier "https://vocab.nerc.ac.uk/collection/L05/current/LAB05/";
String instruments_0_instrument_name "Microscope-Optical";
String instruments_0_instrument_nid "708";
String instruments_1_acronym "Scale";
String instruments_1_dataset_instrument_description "Used to weigh coral samples. (±0.0002 precision, ±0.002 accuracy; AE Adam®; Oxford, Connecticut, USA)";
String instruments_1_dataset_instrument_nid "751152";
String instruments_1_description "An instrument used to measure weight or mass.";
String instruments_1_instrument_external_identifier "https://vocab.nerc.ac.uk/collection/L05/current/LAB13/";
String instruments_1_instrument_name "Scale";
String instruments_1_instrument_nid "714";
String instruments_1_supplied_name "Nimbus NBL 423e Precision Balance";
String keywords "area, bco, bco-dmo, biological, calc, calc_gross, calc_rate, carbon, carbon dioxide, chemical, co2, code, colony, coral, data, dataset, dioxide, dmo, erddap, extension, gross, label, linear, linear_extension, management, oceanography, office, pCO2, pCO2_label, pCO2_target, point, preliminary, rate, reefzone, species, species_code, surface, surface_area, tank, target, temp_target, temperature, time, time_point, treatment";
String license "https://www.bco-dmo.org/dataset/735583/license";
String metadata_source "https://www.bco-dmo.org/api/dataset/735583";
String param_mapping "{'735583': {}}";
String parameter_source "https://www.bco-dmo.org/mapserver/dataset/735583/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 "Karl D. Castillo";
String people_0_person_nid "51711";
String people_0_role "Principal Investigator";
String people_0_role_type "originator";
String people_1_affiliation "University of North Carolina at Chapel Hill";
String people_1_affiliation_acronym "UNC-Chapel Hill";
String people_1_person_name "Colleen Bove";
String people_1_person_nid "735588";
String people_1_role "Student";
String people_1_role_type "related";
String people_2_affiliation "University of North Carolina at Chapel Hill";
String people_2_affiliation_acronym "UNC-Chapel Hill";
String people_2_person_name "Colleen Bove";
String people_2_person_nid "735588";
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 "Nancy Copley";
String people_3_person_nid "50396";
String people_3_role "BCO-DMO Data Manager";
String people_3_role_type "related";
String project "Thermal History and Coral Growth";
String projects_0_acronym "Thermal History and Coral Growth";
String projects_0_description
"Description from NSF award abstract:
Rising global ocean surface temperatures have reduced coral growth rates, thereby negatively impacting the health of coral reef ecosystems worldwide. Recent studies on tropical reef building corals reveal that corals' growth in response to ocean warming may be influenced by their previous seawater temperature exposure - their thermal history. Although these recent findings highlight significant variability in coral growth in response to climate change, uncertainty remains as to the spatial scale at which corals' thermal history influences how they have responded to ocean warming and how they will likely respond to predicted future increases in ocean temperature. This study investigates the influence of thermal history on coral growth in response to recent and predicted seawater temperatures increases across four ecologically relevant spatial scales ranging from reef ecosystems, to reef communities, to reef populations, to an individual coral colony. By understanding how corals have responded in the past across a range of ecological scales, the Principal Investigator will be able to improve the ability to predict their susceptibility and resilience, which could then be applied to coral reef conservation in the face of climate change. This research project will broaden the participation of undergraduates from underrepresented groups and educate public radio listeners using minority voices and narratives. The scientist will leverage current and new partnerships to recruit and train minority undergraduates, thus allowing them to engage high school students near field sites in Florida, Belize, and Panama. Through peer advising, undergraduates will document this research on a digital news site for dissemination to the public. The voice of the undergraduates and scientist will ground the production of a public radio feature exploring the topic of acclimatization and resilience - a capacity for stress tolerance within coral reef ecosystems. This project will provide a postdoctoral researcher and several graduate students with opportunities for field and laboratory research training, teaching and mentoring, and professional development. The results will allow policy makers from Florida, the Mesoamerican Barrier Reef System countries, and several Central American countries to benefit from Caribbean-scale inferences that incorporate corals' physiological abilities, thereby improving coral reef management for the region.
Coral reefs are at significant risk due to a variety of local and global scale anthropogenic stressors. Although various stressors contribute to the observed decline in coral reef health, recent studies highlight rising seawater temperatures due to increasing atmospheric carbon dioxide concentration as one of the most significant stressors influencing coral growth rates. However, there is increasing recognition of problems of scale since a coral's growth response to an environmental stressor may be conditional on the scale of description. This research will investigate the following research questions: (1) How has seawater temperature on reef ecosystems (Florida Keys Reef Tract, USA; Belize Barrier Reef System, Belize; and Bocas Del Toro Reef Complex, Panama), reef communities (inshore and offshore reefs), reef populations (individual reefs), and near reef colonies (individual colonies), varied in the past? (2) How has seawater temperature influenced rates of coral growth and how does the seawater temperature-coral growth relationship vary across these four ecological spatial scales? (3) Does the seawater temperature-coral growth relationship forecast rates of coral growth under predicted end-of-century ocean warming at the four ecological spatial scales? Long term sea surface temperature records and small-scale high-resolution in situ seawater temperature measurements will be compared with growth chronologies for the reef building corals Siderastrea siderea and Orbicella faveolata, two keystone species ubiquitously distributed throughout the Caribbean Sea. Nutrients and irradiance will be quantified via satellite-derived observations, in situ measurements, and established colorimetric protocols. Field and laboratory experiments will be combined to examine seawater temperature-coral growth relationships under recent and predicted end-of-century ocean warming at four ecologically relevant spatial scales. The findings of this study will help us bridge the temperature-coral growth response gap across ecologically relevant spatial scales and thus improve our understanding of how corals have responded to recent warming. This will lead to more meaningful predictions about future coral growth response to climate change.";
String projects_0_end_date "2018-02";
String projects_0_geolocation "Western Caribbean";
String projects_0_name "Investigating the influence of thermal history on coral growth response to recent and predicted end-of-century ocean warming across a cascade of ecological scales";
String projects_0_project_nid "635863";
String projects_0_project_website "http://www.unc.edu/~kdcastil/research.html";
String projects_0_start_date "2015-03";
String publisher_name "Biological and Chemical Oceanographic Data Management Office (BCO-DMO)";
String publisher_type "institution";
String sourceUrl "(local files)";
String standard_name_vocabulary "CF Standard Name Table v55";
String summary "This dataset includes measurements of calcification, linear extension, and surface area for four species of Caribbean reef-building corals (Siderastrea siderea, Pseudodiploria strigosa, Porites astreoides, and Undaria tenuifolia) after a 93-day ocean acidification (280-3200 \\u03bcatm) and warming (28\\u00b0C and 31\\u00b0C) experiment. Both calcification, measured using a buoyant weight method, and surface area, quantified using image processing software on photos taken of each fragment, were assess every 30 days throughout the experiment. Linear extension was quantified at the end of the experiment for total linear growth.";
String title "Net calcification, gross calcification, and linear extension rates of fragments of 4 species of coral over a 93-day ocean acidification and warming laboratory experiment";
String version "1";
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.