BCO-DMO ERDDAP
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Row Type Variable Name Attribute Name Data Type Value
attribute NC_GLOBAL access_formats String .htmlTable,.csv,.json,.mat,.nc,.tsv
attribute NC_GLOBAL acquisition_description String All methods are fully described in:\n \nLunden et al. 2014 Frontiers in Marine Science \\u201cAcute survivorship of the\ndeep-sea coral Lophelia pertusa from the Gulf of Mexico under acidification,\nwarming, and deoxygenation\\u201d\n \nFrom the Paper:\n \nForty-one nubbins of L. pertusa used in the experiments were collected in\nNovember 2010 on the NOAA Ship Ronald H. Brown with ROV Jason II as part of\nthe \\u201cLophelia II\\u201d project jointly sponsored by the Bureau of Ocean\nEnergy Management and the NOAA Office of Ocean Exploration and Research in the\nGulf of Mexico (GoM). Permits for the collection of corals were obtained from\nthe U.S. Department of the Interior prior to any collection activities.\nSpatially discrete coral branches were collected with the ROV and placed in\ntemperature-insulated bioboxes (volume = 20 l) at depth. Upon return to the\nsurface, corals were kept alive in 20 l aquaria in the ship\\u2019s constant-\ntemperature room. Partial water changes were made regularly while at sea. Upon\nreturn to port, corals were immediately transported overnight to the\nlaboratory on wet ice.\n \nIn the laboratory, corals were maintained in one of two 570 liter\nrecirculating aquaria systems at temperature 8 degrees celsius and salinity 35\nppt (Lunden et al., 2014). Regular partial water changes (15\\u201320%) were\nperformed with seawater made using Instant Ocean\\u00a0sea salt. Submersible\npower heads were placed in each holding tank to ensure water movement and\nturbulence sufficient to cause swaying of coral polyps. Corals were fed three\ntimes weekly using a combination of MarineSnow\\u00a0PlanktonDiet (Two Little\nFishies, Miami Gardens, FL) and freshly hatched Artemia nauplii.\n \nSurvivorship was assessed by daily observations of polyp tissue presence and\nbehavior. Final survivorship counts were taken 3 to 4 days following the end\nof each treatment after transfer to the maintenance tank. Survivorship is\nreported as percent cumulative mortality.\n \nNet calcification was measured using the buoyant weight technique (Davies,\n1989). Coral nubbins were buoyantly weighed at the start and end of each\nexperimental period (days eight and fifteen) using a Denver Instruments SI-64\nanalytical balance (d = 0.1mg, Fisher Scientific, Waltham, MA). A weighing\nchamber was constructed using 1/2\\u201d plexiglass to prevent disturbances\nfrom air movement during weighing. Each coral nubbin was transported\nindividually from its respective aquarium to the weighing chamber in a four-\nliter Pyrex\\u00a0beaker and suspended from the balance. The buoyant weight was\nrecorded after the coral nubbin stabilized, typically 2 min. Each coral nubbin\nwas weighed three times to determine measurement precision (2\\u20133 mg).\nSeawater density was determined in each aquarium by buoyantly weighing a 2.5\ncm^2 aluminum block with known density (2.7 g/cm^\\u22123). Coral weight in air\n(i.e., dry weight) was calculated by the following equation:\\u00a0\n \nWa = Ww / (1\\u2212 (Dw/SD))\\u00a0\n \nWhere  \n Wa = coral weight in air (dry weight)\\u00a0  \n Ww = coral weight in water (buoyant weight)\\u00a0  \n Dw = density of seawater\\u00a0  \n SD = coral skeletal density (= 2.82 g/cm^\\u22123, Lunden et al.,\n2013).\\u00a0\n \nCoral growth rate is reported as percent growth per day (%/d\\u22121), which\nwas calculated by the equation:\n \nGt = 100 \\u00d7 (Mt2 \\u2212 Mt1)/(Mt1(T2 \\u2212T1))\n \nWhere  \n Gt = growth rate as %/d^\\u22121\\u00a0  \n Mt2 = mass (mg, dry weight) at time 2 (end of experimental period, day\n15)\\u00a0  \n Mt1= mass (mg, dry weight) at time 1 (start of experimental period, day 8)  \n T2 = time 2 (end of experimental period, day 15)\\u00a0  \n T1= time 1 (start of experimental period, day 8)
attribute NC_GLOBAL awards_0_award_nid String 54992
attribute NC_GLOBAL awards_0_award_number String OCE-1220478
attribute NC_GLOBAL awards_0_data_url String http://www.nsf.gov/awardsearch/showAward?AWD_ID=1220478 (external link)
attribute NC_GLOBAL awards_0_funder_name String NSF Division of Ocean Sciences
attribute NC_GLOBAL awards_0_funding_acronym String NSF OCE
attribute NC_GLOBAL awards_0_funding_source_nid String 355
attribute NC_GLOBAL awards_0_program_manager String David L. Garrison
attribute NC_GLOBAL awards_0_program_manager_nid String 50534
attribute NC_GLOBAL cdm_data_type String Other
attribute NC_GLOBAL comment String DO data from Lophelia pertusa experiments \n  Erik Cordes, PI \n  Version 16 September 2016
attribute NC_GLOBAL Conventions String COARDS, CF-1.6, ACDD-1.3
attribute NC_GLOBAL creator_email String info at bco-dmo.org
attribute NC_GLOBAL creator_name String BCO-DMO
attribute NC_GLOBAL creator_type String institution
attribute NC_GLOBAL creator_url String https://www.bco-dmo.org/ (external link)
attribute NC_GLOBAL data_source String extract_data_as_tsv version 2.3  19 Dec 2019
attribute NC_GLOBAL date_created String 2016-09-19T21:32:53Z
attribute NC_GLOBAL date_modified String 2019-05-13T14:28:30Z
attribute NC_GLOBAL defaultDataQuery String &time<now
attribute NC_GLOBAL doi String 10.1575/1912/bco-dmo.659064.1
attribute NC_GLOBAL infoUrl String https://www.bco-dmo.org/dataset/659064 (external link)
attribute NC_GLOBAL institution String BCO-DMO
attribute NC_GLOBAL instruments_0_acronym String Water Temp Sensor
attribute NC_GLOBAL instruments_0_dataset_instrument_description String Indicates water temperature
attribute NC_GLOBAL instruments_0_dataset_instrument_nid String 659589
attribute NC_GLOBAL instruments_0_description String General term for an instrument that measures the temperature of the water with which it is in contact (thermometer).
attribute NC_GLOBAL instruments_0_instrument_external_identifier String https://vocab.nerc.ac.uk/collection/L05/current/134/ (external link)
attribute NC_GLOBAL instruments_0_instrument_name String Water Temperature Sensor
attribute NC_GLOBAL instruments_0_instrument_nid String 647
attribute NC_GLOBAL instruments_0_supplied_name String Temperature sensor
attribute NC_GLOBAL instruments_1_acronym String Aquarium
attribute NC_GLOBAL instruments_1_dataset_instrument_description String 20 L aquaria were used on the ship and 570 L recirculating aquaria systems were used in the lab
attribute NC_GLOBAL instruments_1_dataset_instrument_nid String 659587
attribute NC_GLOBAL instruments_1_description String Aquarium - a vivarium consisting of at least one transparent side in which water-dwelling plants or animals are kept
attribute NC_GLOBAL instruments_1_instrument_name String Aquarium
attribute NC_GLOBAL instruments_1_instrument_nid String 711
attribute NC_GLOBAL instruments_1_supplied_name String Aquarium
attribute NC_GLOBAL instruments_2_acronym String Scale
attribute NC_GLOBAL instruments_2_dataset_instrument_description String Used for buoyant weights; d = 0.1mg, Fisher Scientific
attribute NC_GLOBAL instruments_2_dataset_instrument_nid String 659588
attribute NC_GLOBAL instruments_2_description String An instrument used to measure weight or mass.
attribute NC_GLOBAL instruments_2_instrument_external_identifier String https://vocab.nerc.ac.uk/collection/L05/current/LAB13/ (external link)
attribute NC_GLOBAL instruments_2_instrument_name String Scale
attribute NC_GLOBAL instruments_2_instrument_nid String 714
attribute NC_GLOBAL instruments_2_supplied_name String Denver Instruments SI-64 Analytical Balance
attribute NC_GLOBAL keywords String bco, bco-dmo, biological, chemical, data, dataset, dmo, DO_mean, DO_treatment, erddap, individual, management, mean, oceanography, office, percent, percent_survivorship, preliminary, survivorship, tank, temp_mean, temperature, treatment
attribute NC_GLOBAL license String https://www.bco-dmo.org/dataset/659064/license (external link)
attribute NC_GLOBAL metadata_source String https://www.bco-dmo.org/api/dataset/659064 (external link)
attribute NC_GLOBAL param_mapping String {'659064': {}}
attribute NC_GLOBAL parameter_source String https://www.bco-dmo.org/mapserver/dataset/659064/parameters (external link)
attribute NC_GLOBAL people_0_affiliation String Temple University
attribute NC_GLOBAL people_0_affiliation_acronym String Temple
attribute NC_GLOBAL people_0_person_name String Erik E Cordes
attribute NC_GLOBAL people_0_person_nid String 51539
attribute NC_GLOBAL people_0_role String Principal Investigator
attribute NC_GLOBAL people_0_role_type String originator
attribute NC_GLOBAL people_1_affiliation String Temple University
attribute NC_GLOBAL people_1_affiliation_acronym String Temple
attribute NC_GLOBAL people_1_person_name String Erik E Cordes
attribute NC_GLOBAL people_1_person_nid String 51539
attribute NC_GLOBAL people_1_role String Contact
attribute NC_GLOBAL people_1_role_type String related
attribute NC_GLOBAL people_2_affiliation String Lock Haven University
attribute NC_GLOBAL people_2_affiliation_acronym String LHU
attribute NC_GLOBAL people_2_person_name String Dr Jay Lunden
attribute NC_GLOBAL people_2_person_nid String 659079
attribute NC_GLOBAL people_2_role String Contact
attribute NC_GLOBAL people_2_role_type String related
attribute NC_GLOBAL people_3_affiliation String Woods Hole Oceanographic Institution
attribute NC_GLOBAL people_3_affiliation_acronym String WHOI BCO-DMO
attribute NC_GLOBAL people_3_person_name String Hannah Ake
attribute NC_GLOBAL people_3_person_nid String 650173
attribute NC_GLOBAL people_3_role String BCO-DMO Data Manager
attribute NC_GLOBAL people_3_role_type String related
attribute NC_GLOBAL project String Lophelia OA
attribute NC_GLOBAL projects_0_acronym String Lophelia OA
attribute NC_GLOBAL projects_0_description String The Gulf of Mexico deep water ecosystems are threatened by the persistent threat of ocean acidification. Deep-water corals will be among the first to feel the effects of this process, in particular the deep-water scleractinians that form their skeleton from aragonite. The continued shoaling of the aragonite saturation horizon (the depth below which aragonite is undersaturated) will place many of the known, and as yet undiscovered, deep-water corals at risk in the very near future. The most common deep-water framework-forming scleractinian in the world's oceans is Lophelia pertusa. This coral is most abundant in the North Atlantic, where aragonite saturation states are relatively high, but it also creates extensive reef structures between 300 and 600 m depth in the Gulf of Mexico where aragonite saturation states were previously unknown. Preliminary data indicate that pH at this depth range is between 7.85 and 8.03, and the aragonite saturation state is typically between 1.28 and 1.69. These are the first measurements of aragonite saturation state for the deep Gulf of Mexico, and are among the lowest Aragonite saturation state yet recorded for framework-forming corals in any body of water, at any depth.\nThis project will examine the effects of ocean acidification on L. pertusa, combining laboratory experiments, rigorous oceanographic measurements, the latest genome and transcriptome sequencing platforms, and quantitative PCR and enzyme assays to examine changes in coral gene expression and enzyme activity related to differences in carbonate chemistry. Short-term and long-term laboratory experiments will be performed at Aragonite saturation state of 1.45 and 0.75 and the organismal (e.g., survivorship and calcification rate) and genetic (e.g., transcript abundance) responses of the coral will be monitored. Genomic DNA and RNA will be extracted, total mRNA purified, and comprehensive and quantitative profiles of the transcriptome generated using a combination of 454 and Illumina sequencing technologies. Key genes in the calcification pathways as well as other differentially expressed genes will be targeted for specific qPCR assays to verify the Illumina sequencing results. On a research cruise, L. pertusa will be sampled (preserved at depth) along a natural gradient in carbonate chemistry, and included in the Illumina sequencing and qPCR assays. Water samples will be obtained by submersible-deployed niskin bottles adjacent to the coral collections as well as CTD casts of the water column overlying the sites. Water samples will be analyzed for pH, alkalinity, nitrates and soluble reactive phosphorus. These will be used in combination with historical data in a model to hindcast Aragonite saturation state.\nThis project will provide new physiological and genetic data on an ecologically-significant and anthropogenically-threatened deepwater coral in the Gulf of Mexico. An experimental system, already developed by the PIs, offers controlled conditions to test the effect of Aragonite saturation state on calcification rates in scleractinians and, subsequently, to identify candidate genes and pathways involved in the response to reduced pH and Aragonite saturation state. Both long-term and population sampling experiments will provide additional transcriptomic data and specifically investigate the expression of the candidate genes. These results will contribute to our understanding of the means by which scleractinians may acclimate and acclimatize to low pH, alkalinity, and Aragonite saturation state. Furthermore, the investigators will continue a time series of oceanographic measurements of the carbonate system in the Gulf of Mexico, which will allow the inclusion of this significant body of water in models of past and future ocean acidification scenarios.
attribute NC_GLOBAL projects_0_end_date String 2015-08
attribute NC_GLOBAL projects_0_geolocation String Northern Gulf of Mexico
attribute NC_GLOBAL projects_0_name String Physiological and genetic responses of the deep-water coral, Lophelia pertusa, to ongoing ocean acidification in the Gulf of Mexico
attribute NC_GLOBAL projects_0_project_nid String 2224
attribute NC_GLOBAL projects_0_start_date String 2012-09
attribute NC_GLOBAL publisher_name String Biological and Chemical Oceanographic Data Management Office (BCO-DMO)
attribute NC_GLOBAL publisher_type String institution
attribute NC_GLOBAL sourceUrl String (local files)
attribute NC_GLOBAL standard_name_vocabulary String CF Standard Name Table v55
attribute NC_GLOBAL summary String Mortality data for Lophelia pertusa exposed to dissolved oxygen experiments.\nSpecimens used in this experiment were collected on RB-10-07: NOAA Ship Ronald\nH. Brown, from October-November 2010.
attribute NC_GLOBAL title String [Lophelia pertusa experiments: DO and mortality] - Mortality of L. pertusa specimens exposed to different DO levels collected on R/V Ronald Brown in Florida from October to November 2010 (Lophelia OA project) (Physiological and genetic responses of the deep-water coral, Lophelia pertusa, to ongoing ocean acidification in the Gulf of Mexico)
attribute NC_GLOBAL version String 1
attribute NC_GLOBAL xml_source String osprey2erddap.update_xml() v1.3
variable DO_treatment String
attribute DO_treatment bcodmo_name String treatment
attribute DO_treatment description String Level of dissolved oxygen treatment; High, ambient, or low
attribute DO_treatment long_name String DO Treatment
attribute DO_treatment units String unitless
variable tank String
attribute tank bcodmo_name String tank
attribute tank description String Tank where specimen was located
attribute tank long_name String Tank
attribute tank units String unitless
variable individual byte
attribute individual _FillValue byte 127
attribute individual actual_range byte 1, 16
attribute individual bcodmo_name String individual
attribute individual description String Individual ID number
attribute individual long_name String Individual
attribute individual units String unitless
variable temp_mean float
attribute temp_mean _FillValue float NaN
attribute temp_mean actual_range float 8.5, 8.79
attribute temp_mean bcodmo_name String temperature
attribute temp_mean description String Average temperature
attribute temp_mean long_name String Temp Mean
attribute temp_mean nerc_identifier String https://vocab.nerc.ac.uk/collection/P01/current/TEMPP901/ (external link)
attribute temp_mean units String celsius
variable DO_mean float
attribute DO_mean _FillValue float NaN
attribute DO_mean actual_range float 1.57, 5.32
attribute DO_mean bcodmo_name String O2_ml_L
attribute DO_mean description String Average dissolved oxygen concentration
attribute DO_mean long_name String DO Mean
attribute DO_mean units String milliliters of oxygen per liter of seawater (mL/L -1)
variable percent_survivorship byte
attribute percent_survivorship _FillValue byte 127
attribute percent_survivorship actual_range byte 0, 100
attribute percent_survivorship bcodmo_name String unknown
attribute percent_survivorship colorBarMaximum double 100.0
attribute percent_survivorship colorBarMinimum double 0.0
attribute percent_survivorship description String Percent of specimens that survived experiment
attribute percent_survivorship long_name String Percent Survivorship
attribute percent_survivorship units String percent

 
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