ERDDAP > info > bcodmo_dataset_719161

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	[Reciprocal transplant expt. - Photosynthetic parameters] - Photosynthesic parameters (calculated alpha, Pmax, Respiration, Ek and Ec) for each P-E curve for coral Orbicella faveolata from Rosaria and Varadero reef sites and Cartagena Bay, Colombia, 2016 and 2017 (RAPID: Coral robustness: lessons from an "improbable" reef)		I   M	background			BCO-DMO	bcodmo_dataset_719161

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	The Varadero Reef is located south-west of the Cartagena Bay close to the southern strait that connects the Bay to the Caribbean Sea in Colombia (10\u00b018\u201923.3\u201dN, 75\u00b035\u201908.0\u201dW). The Bay is a receiving estuary from the Magdalena River through the Canal del Dique, a man- made channel whose construction and operation dates back almost a century. Three study sites with contrasting light regimes were considered in order to evaluate the role of the light-environment perturbation associated with the Dique channel freshwater plume on the photosynthetic performance of corals from Varadero: 1) Varadero reef at 3.5m depth close to the Dique channel mouth (10\u00b018\u201923.3\u201dN, 75\u00b035\u201908.0\u201dW), 2) Rosario reef at 12m depth as clear-control site 21 km southwest from Varadero (10\u00b011'12.1\"N, 75\u00b044'43.0\"W), and 3) Cartagena Bay at 3m depth, the closest\u00a0 site to the Dique channel mouth and most turbid among the three sites (10\u00b018'5.80\"N, 75\u00b034'37.10\"W). The values of the photosynthetic efficiency (alpha) are expressed in umol O2 umol quanta-1, the compensating irradiance (Ec) in umol quanta m-2 s-1, the saturating irradiance (Ek) in umol quanta m-2 s-1, the average respiration rate (R-avg) as well as the respiration pre- and post-illumination (R0 and Rf) are expressed in umol O2 m-2 s-1, and the net and gross maximum photosynthesis rates (Pmax(n) and Pmax(gross)) are expressed in umoles O2 m-2 s-1. Photosynthetic parameters of corals were obtained from PE (photosynthesis vs. irradiance) curves conducted under laboratory conditions. A custom-made water- jacket acrylic chamber with four independent hermetic compartments (~650 ml each) was used to run the PE curves, maintaining a constant temperature of 28 \u00b0C, close to natural conditions, with an external circulating water bath (Isotemp, Fisher Scientific). During each incubation, corals were submerged on filtered seawater (0.45 \u00b5m) under constant agitation by magnetic stirrers. Ten levels of irradiance between 0 and ~1400 \u00b5mol quanta m-2 s-1 were supplied at 10-min intervals with four 26 W LED bulbs (UL PAR38, LED Wholesalers Inc, USA). The light intensity was controlled with a custom-made software. The LEDs were operated in continuous mode with a multifunction I/O card (USB-6001, National Instruments Corp., USA) to avoid potential artefacts related to the effect of different pulsating frequencies on photosynthesis. Oxygen concentrations inside the compartments within the chamber were measured with a 4-channel fiber optical oxygen meter system (FireSting, Pyroscience, Germany). The photosynthetic efficiency (\u03b1), compensating irradiance (Ec), saturating irradiance (Ek), respiration rates (Rd), and maximum photosynthetic rates (Pmax), were calculated from the light-limited and light- saturated regions of the PE curves. Chlorophyll a (Chl a) content per unit of coral surface area was determined after obtaining coral tissue slurries with the help of an air gun connected to a scuba tank. Pigment extraction was performed in acetone/dimethyl sulfoxide (95:5 vol/vol) after homogenizing the slurries with a Tissue-Tearor Homogenizer (BioSpec Inc, USA). Chl a density was estimated spectrophotometrically with a modular spectrometer (Flame-T-UV- VIS, Ocean Optics Inc., USA). The specific absorption coefficient of Chl a (a*Chl a) was calculated using the equation: a*Chl a = (D675/\u03c1) \u00b7 ln(10), where D675 is the estimated absorbance value of corals at 675 nm, calculated from reflectance (R) measurements as [D675 = log (1/R675)], and \u03c1 is the pigment content per projected surface area (mg Chl a m-2). The software Pyro Oxygen Logger was used to operate the fiber optical oxygen meter system. The software OceanView was used to operate there modular spectrometer.
attribute	NC_GLOBAL	awards_0_award_nid	String	717027
attribute	NC_GLOBAL	awards_0_award_number	String	OCE-1642311
attribute	NC_GLOBAL	awards_0_data_url	String	http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1642311
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	Michael E. Sieracki
attribute	NC_GLOBAL	awards_0_program_manager_nid	String	50446
attribute	NC_GLOBAL	cdm_data_type	String	Other
attribute	NC_GLOBAL	comment	String	Photosynthetic parameters from Orbicella faveolata coral fragments For reciprocal transplant experiment of coral fragments at Varadero, Rosario and Cartagena Bay, Oct. 2016 and May 2017 PI: M. Medina, R. Iglesias-Prieto, T. Lopez (Penn State) version date: 2020-01-16
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	2017-11-13T21:21:20Z
attribute	NC_GLOBAL	date_modified	String	2020-03-04T21:56:55Z
attribute	NC_GLOBAL	defaultDataQuery	String	&time<now
attribute	NC_GLOBAL	doi	String	10.1575/1912/bco-dmo.719161.3
attribute	NC_GLOBAL	infoUrl	String	https://www.bco-dmo.org/dataset/719161
attribute	NC_GLOBAL	institution	String	BCO-DMO
attribute	NC_GLOBAL	instruments_0_acronym	String	Light Meter
attribute	NC_GLOBAL	instruments_0_dataset_instrument_nid	String	719169
attribute	NC_GLOBAL	instruments_0_description	String	Light meters are instruments that measure light intensity. Common units of measure for light intensity are umol/m2/s or uE/m2/s (micromoles per meter squared per second or microEinsteins per meter squared per second). (example: LI-COR 250A)
attribute	NC_GLOBAL	instruments_0_instrument_name	String	Light Meter
attribute	NC_GLOBAL	instruments_0_instrument_nid	String	703
attribute	NC_GLOBAL	instruments_0_supplied_name	String	cosine light sensor (Waltz)
attribute	NC_GLOBAL	instruments_1_acronym	String	Dissolved Oxygen Sensor
attribute	NC_GLOBAL	instruments_1_dataset_instrument_description	String	Used to measure oxygen evolution.
attribute	NC_GLOBAL	instruments_1_dataset_instrument_nid	String	719168
attribute	NC_GLOBAL	instruments_1_description	String	An electronic device that measures the proportion of oxygen (O2) in the gas or liquid being analyzed
attribute	NC_GLOBAL	instruments_1_instrument_name	String	Dissolved Oxygen Sensor
attribute	NC_GLOBAL	instruments_1_instrument_nid	String	705
attribute	NC_GLOBAL	instruments_1_supplied_name	String	Optical oxygen meter FireStingO2 (Pyroscience)
attribute	NC_GLOBAL	keywords	String	a_star_675, alpha, area, Area_cm2, bco, bco-dmo, biological, chemical, chemistry, Chl_a, chlorophyll, cm2, collected, color, concentration, concentration_of_chlorophyll_in_sea_water, D_675, data, Data_Timepoint, dataset, date, Date_collected, destination, Destination_site, dmo, earth, Earth Science > Oceans > Ocean Chemistry > Chlorophyll, erddap, management, num, ocean, oceanography, oceans, office, pmax, preliminary, science, sea, seawater, site, source, Source_site, star, tag, Tag_color, Tag_num, timepoint, water
attribute	NC_GLOBAL	keywords_vocabulary	String	GCMD Science Keywords
attribute	NC_GLOBAL	license	String	https://www.bco-dmo.org/dataset/719161/license
attribute	NC_GLOBAL	metadata_source	String	https://www.bco-dmo.org/api/dataset/719161
attribute	NC_GLOBAL	param_mapping	String	{'719161': {}}
attribute	NC_GLOBAL	parameter_source	String	https://www.bco-dmo.org/mapserver/dataset/719161/parameters
attribute	NC_GLOBAL	people_0_affiliation	String	Pennsylvania State University
attribute	NC_GLOBAL	people_0_affiliation_acronym	String	PSU
attribute	NC_GLOBAL	people_0_person_name	String	Mónica Medina
attribute	NC_GLOBAL	people_0_person_nid	String	472486
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	Pennsylvania State University
attribute	NC_GLOBAL	people_1_affiliation_acronym	String	PSU
attribute	NC_GLOBAL	people_1_person_name	String	Roberto Iglesias-Prieto
attribute	NC_GLOBAL	people_1_person_nid	String	717031
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	Pennsylvania State University
attribute	NC_GLOBAL	people_2_affiliation_acronym	String	PSU
attribute	NC_GLOBAL	people_2_person_name	String	Tomás Lopez Lodoño
attribute	NC_GLOBAL	people_2_person_nid	String	732860
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	Nancy Copley
attribute	NC_GLOBAL	people_3_person_nid	String	50396
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	Varadero Reef
attribute	NC_GLOBAL	projects_0_acronym	String	Varadero Reef
attribute	NC_GLOBAL	projects_0_description	String	NSF Award Abstract: Coral reefs provide invaluable services to coastal communities, but coral populations worldwide are in a state of unprecedented decline. Studying resilient reefs is of primary importance for coral conservation and restoration efforts. A unique natural experiment in coral resilience to stress has been playing out in Cartagena Bay, Colombia since the Spanish conquistadors diverted the Magadalena River into the Bay in 1582. Varadero Reef at the southern mouth of the Bay has survived centuries of environmental insults and changing conditions with up to 80% coral cover. This reef provides an ideal system to test biological robustness theory. Given that Varadero is a highly perturbed system, we hypothesize that while likely more robust to perturbation than nearby pristine reefs, it will be less physiologically efficient. Some of the large star coral colonies (Orbicella faveolata) at this site have existed since before the construction of the Canal del Dique. These coral specimens contain invaluable information regarding the conditions of the Magdalena River wathershed and its construction in the XIV century. Changes in turbidity of the plume associated with the urban industrial and agricultural development of Colombia can be documented as variations in calcification rates and changes in the microstructure of the skeleton. The Colombian government has announced the approval for the construction of a shipping channel that will go right over this reef, with the goal to start dredging as early as Fall 2016 or early 2017. The RAPID funding mechanism would enable immediate collection of data and information of why this reef has survived centuries of environmental stress that can shed light on what genotype combinations of coral and its microbial constituents will fare better in similar conditions at other reef locations around the world. Coral reef conservation biology will benefit from this study by generating data for the development of stress diagnostic tools to identify resilient corals. This project will help broaden participation in science by training a diverse cohort of students to work effectively in the global arena while fostering productive collaborations with several Colombian researchers and educational institutions. Students will also gain cultural empathy and sensitivity through direct engagement with the members of society who are most directly impacted by coral reef degradation (e.g. fishermen). Student researchers from Penn State University will work alongside their Colombian counterparts to develop a series of bilingual blog posts to record the cultural and scientific aspects of this project's research expeditions. The blog postings will be submitted for wide dissemination to the Smithsonian's Ocean Portal where Penn State students have published in the past. An educational coral kit developed by the Medina Lab and extensively tested in schools in the US has been translated into Spanish and will be used in local schools in Cartagena and vicinities. All expedition data and metadata will be incorporated into the Global Coral Microbiome Project's interactive web portal, a responsive outreach tool allows researchers, students and/or teachers to access a wealth of information about every coral colony we sample and to virtually explore coral reefs around the world from any internet-enabled device. This research will generate information to understand functional traits related to symbioses stability under different perturbation regimes. Comparative analyses of microbiome modifications generated during the reciprocal transplantation will allow us to document possible differential responses of the holobionts to acute and chronic stressors relative to corals not exposed to significant levels of perturbation. The development of local bio-optical models of coral calcification and the characterization of the coral holobiont will permit the distinction between the effects in calcification attributed to local turbidity from those that can be ;attributed to differences in host genotype and/or microbial community composition and function. The information recorded in coral skeletons can be used to reconstruct the rates of agricultural, industrial and urban development of Colombia through the last 5 centuries as changes in the turbidity of the effluent of the Magdalena River.
attribute	NC_GLOBAL	projects_0_end_date	String	2018-06
attribute	NC_GLOBAL	projects_0_geolocation	String	Caribbean Sea (10°18’10”N, 75°34’ 55”W)
attribute	NC_GLOBAL	projects_0_name	String	RAPID: Coral robustness: lessons from an "improbable" reef
attribute	NC_GLOBAL	projects_0_project_nid	String	717028
attribute	NC_GLOBAL	projects_0_start_date	String	2016-07
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	This dataset contains the results of the photosynthetic parameters calculated based on the analysis of the P-E curves from coral fragment of the species Orbicella faveolata used in the transplant experiment between three sites: Varadero (10\u00b018'23.3\N, 75\u00b035'08.0\W), Rosario (10\u00b011'12.1\N, 75\u00b044'43.0\W) and Abanico (10\u00b018'5.80\N, 75\u00b034'37.10\W). The tag number/color of each fragment, the date of data collection, and the sites of origin and destination are specified.
attribute	NC_GLOBAL	title	String	[Reciprocal transplant expt. - Photosynthetic parameters] - Photosynthesic parameters (calculated alpha, Pmax, Respiration, Ek and Ec) for each P-E curve for coral Orbicella faveolata from Rosaria and Varadero reef sites and Cartagena Bay, Colombia, 2016 and 2017 (RAPID: Coral robustness: lessons from an "improbable" reef)
attribute	NC_GLOBAL	version	String	3
attribute	NC_GLOBAL	xml_source	String	osprey2erddap.update_xml() v1.3
variable	Source_site		String
attribute	Source_site	bcodmo_name	String	site
attribute	Source_site	description	String	coral collection site
attribute	Source_site	long_name	String	Source Site
attribute	Source_site	units	String	unitless
variable	Tag_num		byte
attribute	Tag_num	_FillValue	byte	127
attribute	Tag_num	actual_range	byte	2, 75
attribute	Tag_num	bcodmo_name	String	sample
attribute	Tag_num	description	String	coral tag number
attribute	Tag_num	long_name	String	Tag Num
attribute	Tag_num	nerc_identifier	String	https://vocab.nerc.ac.uk/collection/P02/current/ACYC/
attribute	Tag_num	units	String	unitless
variable	Tag_color		String
attribute	Tag_color	bcodmo_name	String	sample
attribute	Tag_color	description	String	tag color
attribute	Tag_color	long_name	String	Tag Color
attribute	Tag_color	nerc_identifier	String	https://vocab.nerc.ac.uk/collection/P02/current/ACYC/
attribute	Tag_color	units	String	unitless
variable	Destination_site		String
attribute	Destination_site	bcodmo_name	String	site
attribute	Destination_site	description	String	relocation site
attribute	Destination_site	long_name	String	Destination Site
attribute	Destination_site	units	String	unitless
variable	Data_Timepoint		String
attribute	Data_Timepoint	bcodmo_name	String	unknown
attribute	Data_Timepoint	description	String	data collection timepoint: T1= pre-transplant (Oct. 2016); T2= 7 months post-transplant (May 2017)
attribute	Data_Timepoint	long_name	String	Data Timepoint
attribute	Data_Timepoint	units	String	unitless
variable	Date_collected		String
attribute	Date_collected	bcodmo_name	String	date
attribute	Date_collected	description	String	month and year of data collection
attribute	Date_collected	long_name	String	Date Collected
attribute	Date_collected	nerc_identifier	String	https://vocab.nerc.ac.uk/collection/P01/current/ADATAA01/
attribute	Date_collected	units	String	unitless
variable	Area_cm2		float
attribute	Area_cm2	_FillValue	float	NaN
attribute	Area_cm2	actual_range	float	1.73, 22.72
attribute	Area_cm2	bcodmo_name	String	surface_area
attribute	Area_cm2	description	String	area of coral fragment
attribute	Area_cm2	long_name	String	Area Cm2
attribute	Area_cm2	units	String	centimeter^2
variable	Chl_a		float
attribute	Chl_a	_FillValue	float	NaN
attribute	Chl_a	actual_range	float	49.93, 293.38
attribute	Chl_a	bcodmo_name	String	chlorophyll a
attribute	Chl_a	colorBarMaximum	double	30.0
attribute	Chl_a	colorBarMinimum	double	0.03
attribute	Chl_a	colorBarScale	String	Log
attribute	Chl_a	description	String	Chlorophyll a content per unit area
attribute	Chl_a	long_name	String	Concentration Of Chlorophyll In Sea Water
attribute	Chl_a	nerc_identifier	String	https://vocab.nerc.ac.uk/collection/P01/current/CPHLHPP1/
attribute	Chl_a	units	String	milligrams Chla meter^-2
variable	D_675		float
attribute	D_675	_FillValue	float	NaN
attribute	D_675	actual_range	float	0.76, 1.79
attribute	D_675	bcodmo_name	String	absorbance
attribute	D_675	description	String	Absorbance at 675 nm
attribute	D_675	long_name	String	D 675
attribute	D_675	units	String	unitless
variable	a_star_675		float
attribute	a_star_675	_FillValue	float	NaN
attribute	a_star_675	actual_range	float	0.008, 0.062
attribute	a_star_675	bcodmo_name	String	absorbance
attribute	a_star_675	description	String	Specific absorption coefficient of Chl a
attribute	a_star_675	long_name	String	A Star 675
attribute	a_star_675	units	String	meters^2 milligram Chla^-1
variable	alpha		float
attribute	alpha	_FillValue	float	NaN
attribute	alpha	actual_range	float	0.021, 0.067
attribute	alpha	bcodmo_name	String	alpha
attribute	alpha	description	String	Photosynthetic efficiency
attribute	alpha	long_name	String	Alpha
attribute	alpha	units	String	mol Oxygen mol quanta^-1
variable	Ec		float
attribute	Ec	_FillValue	float	NaN
attribute	Ec	actual_range	float	42.63, 117.45
attribute	Ec	bcodmo_name	String	irradiance
attribute	Ec	description	String	Compensating irradiance
attribute	Ec	long_name	String	Ec
attribute	Ec	nerc_identifier	String	https://vocab.nerc.ac.uk/collection/P02/current/VSRW/
attribute	Ec	units	String	micromol quanta meter^-2 second^-1
variable	Ek		float
attribute	Ek	_FillValue	float	NaN
attribute	Ek	actual_range	float	134.61, 362.11
attribute	Ek	bcodmo_name	String	irradiance
attribute	Ek	description	String	Saturating irradiance
attribute	Ek	long_name	String	Ek
attribute	Ek	nerc_identifier	String	https://vocab.nerc.ac.uk/collection/P02/current/VSRW/
attribute	Ek	units	String	micromol quanta meter^-2 second^-1
variable	Rd		float
attribute	Rd	_FillValue	float	NaN
attribute	Rd	actual_range	float	-4.92, -1.74
attribute	Rd	bcodmo_name	String	respiration
attribute	Rd	description	String	Respiration rate (dark)
attribute	Rd	long_name	String	RD
attribute	Rd	units	String	micromol Oxygen meter^-2 second^-1
variable	Pmax		float
attribute	Pmax	_FillValue	float	NaN
attribute	Pmax	actual_range	float	3.28, 9.15
attribute	Pmax	bcodmo_name	String	Pmax
attribute	Pmax	description	String	Maximum photosynthesis
attribute	Pmax	long_name	String	Pmax
attribute	Pmax	units	String	micromol Oxygen meter^-2 second^-1

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.