ERDDAP > info > bcodmo_dataset_659426

Grid DAP Data	Sub- set	Table DAP Data	Make A Graph	W M S	Source Data Files	Acces- sible	Title	Sum- mary	FGDC, ISO, Metadata	Back- ground Info	RSS	E mail	Institution	Dataset ID
		data	graph		files	public	[Tank conditions in L. pertusa pH experiments] - Tank conditions for pH experiments on Lophelia pertusa specimens collected in the Norwegian Skagerrak and the Gulf of Mexico (Lophelia OA project) (Physiological and genetic responses of the deep-water coral, Lophelia pertusa, to ongoing ocean acidification in the Gulf of Mexico)		I   M	background			BCO-DMO	bcodmo_dataset_659426

The Dataset's Variables and Attributes

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	Acquisition Description for Tisler\u00a0Reef Data: Net calcification was measured using the total alkalinity anomaly (Smith & Key 1975; Ohde & Hossain 2004). Corals were individually placed in closed glass chambers (220 ml) in a water bath that maintained temperature to +/-0.2 degrees C during all trials. To avoid hypoxia or the severe reductions of pH during incubations, ambient air was continuously bubbled into the chambers at a slow rate (1-2 bubbles s-1). This also provided adequate circulation within the chamber. A 60 ml water sample was collected by syringe before and after the incubation period, and measured for total alkalinity in duplicate. The respiration rate of each colony was measured as oxygen consumption in a\u00a0400 ml closed acrylic chamber during hour-long incubations. Dissolved oxygen concentrations were measured in\u00a0umol\u00a0L-1\u00a0using a Strathkelvin 782 dual oxygen meter and SI130\u00a0microcathode\u00a0electrode. The feeding rate of each colony was measured as the capture rate of adult\u00a0Artemia salina\u00a0during a one-hour period in 0.8 L incubation chambers containing a starting prey density of 125\u00a0Artemia\u00a0L-1. Acquisition Description for Gulf of Mexico Data: The buoyant weight of each colony was obtained at the start and end of the two-week experimental period by weighing fragments submerged in seawater and attached by a hook to an analytical balance (Denver Instrument,\u00a0precision\u00a0of 0.1 mg). The respiration rate of each colony was measured as oxygen consumption in an 800 ml closed acrylic chamber during hour-long incubations. Dissolved oxygen concentrations were measured in\u00a0umol\u00a0L-1\u00a0using a Strathkelvin 782 dual oxygen meter and SI130\u00a0microcathode\u00a0electrode. The feeding rate of each colony was measured as the capture rate of adult\u00a0Artemia salina\u00a0during a one- hour period in 0.8 L incubation chambers containing a starting prey density of 125\u00a0Artemia\u00a0L-1.
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
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	Physiology - Water Chemistry E. Cordes & R. Kulalthinal, PIs 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/
attribute	NC_GLOBAL	data_source	String	extract_data_as_tsv version 2.3 19 Dec 2019
attribute	NC_GLOBAL	date_created	String	2016-09-20T21:30:08Z
attribute	NC_GLOBAL	date_modified	String	2019-04-24T15:31:53Z
attribute	NC_GLOBAL	defaultDataQuery	String	&time<now
attribute	NC_GLOBAL	doi	String	10.1575/1912/bco-dmo.659426.1
attribute	NC_GLOBAL	infoUrl	String	https://www.bco-dmo.org/dataset/659426
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	659609
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/
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	pH Sensor
attribute	NC_GLOBAL	instruments_1_dataset_instrument_description	String	Indicates pH of water
attribute	NC_GLOBAL	instruments_1_dataset_instrument_nid	String	659611
attribute	NC_GLOBAL	instruments_1_description	String	General term for an instrument that measures the pH or how acidic or basic a solution is.
attribute	NC_GLOBAL	instruments_1_instrument_name	String	pH Sensor
attribute	NC_GLOBAL	instruments_1_instrument_nid	String	674
attribute	NC_GLOBAL	instruments_1_supplied_name	String	pH sensor
attribute	NC_GLOBAL	instruments_2_acronym	String	O2 microsensor
attribute	NC_GLOBAL	instruments_2_dataset_instrument_description	String	Measured dissolved oxygen concentrations
attribute	NC_GLOBAL	instruments_2_dataset_instrument_nid	String	659435
attribute	NC_GLOBAL	instruments_2_description	String	A miniaturized Clark-type dissolved oxygen instrument, including glass micro-sensors with minute tips (diameters ranging from 1 to 800 um). A gold or platinum sensing cathode is polarized against an internal reference and, driven by external partial pressure, oxygen from the environment penetrates through the sensor tip membrane and is reduced at the sensing cathode surface. A picoammeter converts the resulting reduction current to a signal. The size of the signal generated by the electrode is proportional to the flux of oxygen molecules to the cathode.The sensor also includes a polarized guard cathode, which scavenges oxygen in the electrolyte, thus minimizing zero-current and pre-polarization time.With the addition of a meter and a sample chamber, the respiration of a small specimen can be measured. Example: Strathkelvin Inst. http://www.strathkelvin.com
attribute	NC_GLOBAL	instruments_2_instrument_external_identifier	String	https://vocab.nerc.ac.uk/collection/L05/current/351/
attribute	NC_GLOBAL	instruments_2_instrument_name	String	Oxygen Microelectrode Sensor
attribute	NC_GLOBAL	instruments_2_instrument_nid	String	701
attribute	NC_GLOBAL	instruments_2_supplied_name	String	SI130 microcathode electrode
attribute	NC_GLOBAL	instruments_3_acronym	String	Dissolved Oxygen Sensor
attribute	NC_GLOBAL	instruments_3_dataset_instrument_description	String	Measured dissolved oxygen concentrations
attribute	NC_GLOBAL	instruments_3_dataset_instrument_nid	String	659436
attribute	NC_GLOBAL	instruments_3_description	String	An electronic device that measures the proportion of oxygen (O2) in the gas or liquid being analyzed
attribute	NC_GLOBAL	instruments_3_instrument_name	String	Dissolved Oxygen Sensor
attribute	NC_GLOBAL	instruments_3_instrument_nid	String	705
attribute	NC_GLOBAL	instruments_3_supplied_name	String	Strathkelvin 782 dual oxygen meter
attribute	NC_GLOBAL	instruments_4_acronym	String	Salinity Sensor
attribute	NC_GLOBAL	instruments_4_dataset_instrument_description	String	Indicates salinity of water
attribute	NC_GLOBAL	instruments_4_dataset_instrument_nid	String	659610
attribute	NC_GLOBAL	instruments_4_description	String	Category of instrument that simultaneously measures electrical conductivity and temperature in the water column to provide temperature and salinity data.
attribute	NC_GLOBAL	instruments_4_instrument_external_identifier	String	https://vocab.nerc.ac.uk/collection/L05/current/350/
attribute	NC_GLOBAL	instruments_4_instrument_name	String	Salinity Sensor
attribute	NC_GLOBAL	instruments_4_instrument_nid	String	710
attribute	NC_GLOBAL	instruments_4_supplied_name	String	Salinity sensor
attribute	NC_GLOBAL	keywords	String	alkalinity, aragonite, aragonite_saturation_state, bco, bco-dmo, biological, chemical, chemistry, data, dataset, day, density, dmo, earth, Earth Science > Oceans > Ocean Chemistry > pH, Earth Science > Oceans > Salinity/Density > Salinity, erddap, management, ocean, oceanography, oceans, office, pH_treatment, practical, preliminary, reported, salinity, saturation, scale, science, sea, sea_water_ph_reported_on_total_scale, sea_water_practical_salinity, seawater, state, tank, temperature, total, treatment, ttl, ttl_alkalinity, water
attribute	NC_GLOBAL	keywords_vocabulary	String	GCMD Science Keywords
attribute	NC_GLOBAL	license	String	https://www.bco-dmo.org/dataset/659426/license
attribute	NC_GLOBAL	metadata_source	String	https://www.bco-dmo.org/api/dataset/659426
attribute	NC_GLOBAL	param_mapping	String	{'659426': {}}
attribute	NC_GLOBAL	parameter_source	String	https://www.bco-dmo.org/mapserver/dataset/659426/parameters
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	Dr Robert J. Kulathinal
attribute	NC_GLOBAL	people_1_person_nid	String	51540
attribute	NC_GLOBAL	people_1_role	String	Co-Principal Investigator
attribute	NC_GLOBAL	people_1_role_type	String	originator
attribute	NC_GLOBAL	people_2_affiliation	String	Temple University
attribute	NC_GLOBAL	people_2_affiliation_acronym	String	Temple
attribute	NC_GLOBAL	people_2_person_name	String	Erik E Cordes
attribute	NC_GLOBAL	people_2_person_nid	String	51539
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. This 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. This 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	Tank conditions for pH experiments on Lophelia pertusa specimens collected in the Norwegian Skagerrak and the Gulf of Mexico (Lophelia OA project)
attribute	NC_GLOBAL	title	String	[Tank conditions in L. pertusa pH experiments] - Tank conditions for pH experiments on Lophelia pertusa specimens collected in the Norwegian Skagerrak and the Gulf of Mexico (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	location		String
attribute	location	bcodmo_name	String	site
attribute	location	description	String	Location where specimen was collected; Tisler Reef or the Gulf of Mexico
attribute	location	long_name	String	Location
attribute	location	units	String	unitless
variable	pH_treatment		float
attribute	pH_treatment	_FillValue	float	NaN
attribute	pH_treatment	actual_range	float	7.6, 8.1
attribute	pH_treatment	bcodmo_name	String	treatment
attribute	pH_treatment	description	String	Level of pH treatment
attribute	pH_treatment	long_name	String	P H Treatment
attribute	pH_treatment	units	String	unitless
variable	tank		byte
attribute	tank	_FillValue	byte	127
attribute	tank	actual_range	byte	1, 8
attribute	tank	bcodmo_name	String	tank
attribute	tank	description	String	Tank number
attribute	tank	long_name	String	Tank
attribute	tank	units	String	unitless
variable	day		byte
attribute	day	_FillValue	byte	127
attribute	day	actual_range	byte	1, 14
attribute	day	bcodmo_name	String	day
attribute	day	description	String	day of month
attribute	day	long_name	String	Day
attribute	day	nerc_identifier	String	https://vocab.nerc.ac.uk/collection/P01/current/DAYXXXXX/
attribute	day	units	String	dimensionless
variable	DO		float
attribute	DO	_FillValue	float	NaN
attribute	DO	actual_range	float	92.8, 249.1
attribute	DO	bcodmo_name	String	O2_umol_kg
attribute	DO	description	String	Dissolved oxygen level in tank
attribute	DO	long_name	String	DO
attribute	DO	units	String	micromoles per kilogram (umol/kg)
variable	ttl_alkalinity		float
attribute	ttl_alkalinity	_FillValue	float	NaN
attribute	ttl_alkalinity	actual_range	float	2237.98, 2353.06
attribute	ttl_alkalinity	bcodmo_name	String	TALK
attribute	ttl_alkalinity	description	String	Total alkanlinity of tank
attribute	ttl_alkalinity	long_name	String	Ttl Alkalinity
attribute	ttl_alkalinity	nerc_identifier	String	https://vocab.nerc.ac.uk/collection/P01/current/MDMAP014/
attribute	ttl_alkalinity	units	String	micromoles per kilogram (umol/kg)
variable	salinity		float
attribute	salinity	_FillValue	float	NaN
attribute	salinity	actual_range	float	7.75, 36.0
attribute	salinity	bcodmo_name	String	sal
attribute	salinity	colorBarMaximum	double	37.0
attribute	salinity	colorBarMinimum	double	32.0
attribute	salinity	description	String	Salinity of water in tank
attribute	salinity	long_name	String	Sea Water Practical Salinity
attribute	salinity	nerc_identifier	String	https://vocab.nerc.ac.uk/collection/P01/current/PSALST01/
attribute	salinity	units	String	practical salinity unit (PSU)
variable	temperature		float
attribute	temperature	_FillValue	float	NaN
attribute	temperature	actual_range	float	7.68, 33.8
attribute	temperature	bcodmo_name	String	temperature
attribute	temperature	description	String	Temperature of water in tank
attribute	temperature	long_name	String	Temperature
attribute	temperature	units	String	celsius
variable	pH		float
attribute	pH	_FillValue	float	NaN
attribute	pH	actual_range	float	7.51, 8.17
attribute	pH	bcodmo_name	String	pH
attribute	pH	colorBarMaximum	double	9.0
attribute	pH	colorBarMinimum	double	7.0
attribute	pH	description	String	pH level of water in tank
attribute	pH	long_name	String	Sea Water Ph Reported On Total Scale
attribute	pH	nerc_identifier	String	https://vocab.nerc.ac.uk/collection/P01/current/PHXXZZXX/
attribute	pH	units	String	unitless
variable	aragonite_saturation_state		float
attribute	aragonite_saturation_state	_FillValue	float	NaN
attribute	aragonite_saturation_state	actual_range	float	0.61, 2.38
attribute	aragonite_saturation_state	bcodmo_name	String	OM_ar
attribute	aragonite_saturation_state	description	String	saturation state of aragonite
attribute	aragonite_saturation_state	long_name	String	Aragonite Saturation State
attribute	aragonite_saturation_state	units	String	unitless

The information in the table above is also available in other file formats (.csv, .htmlTable, .itx, .json, .jsonlCSV1, .jsonlCSV, .jsonlKVP, .mat, .nc, .nccsv, .tsv, .xhtml) via a RESTful web service.