ERDDAP > info > bcodmo_dataset_644840

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	[Cellular element quotas: Si in Synechococcus cells] - Element quotas of individual Synechococcus cells collected during Bermuda Atlantic Time-series Study (BATS) cruises aboard the R/V Atlantic Explorer between dates 2012-07-11 and 2013-10-13 (Si_in_Syn project) (Understanding the Role of Picocyanobacteria in the Marine Silicate Cycle)		F   I   M	background			BCO-DMO	bcodmo_dataset_644840

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,.esriCsv,.geoJson
attribute	NC_GLOBAL	acquisition_description	String	Samples were analyzed as described in Twining et al. (2015). Bottle samples were collected during BATS cruises from surface level and the deep chlorophyll max (DCM) using a CTD. The SXRF runs were done with a Beamline 2-ID-E during three analytical runs in December 2012, April 2013, and December 2013.
attribute	NC_GLOBAL	awards_0_award_nid	String	544554
attribute	NC_GLOBAL	awards_0_award_number	String	OCE-1131139
attribute	NC_GLOBAL	awards_0_data_url	String	http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1131139
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	awards_1_award_nid	String	544560
attribute	NC_GLOBAL	awards_1_award_number	String	OCE-1335012
attribute	NC_GLOBAL	awards_1_data_url	String	http://www.nsf.gov/awardsearch/showAward?AWD_ID=1135012
attribute	NC_GLOBAL	awards_1_funder_name	String	NSF Division of Ocean Sciences
attribute	NC_GLOBAL	awards_1_funding_acronym	String	NSF OCE
attribute	NC_GLOBAL	awards_1_funding_source_nid	String	355
attribute	NC_GLOBAL	awards_1_program_manager	String	David L. Garrison
attribute	NC_GLOBAL	awards_1_program_manager_nid	String	50534
attribute	NC_GLOBAL	awards_2_award_nid	String	544561
attribute	NC_GLOBAL	awards_2_award_number	String	OCE-1131046
attribute	NC_GLOBAL	awards_2_data_url	String	http://www.nsf.gov/awardsearch/showAward?AWD_ID=1131046
attribute	NC_GLOBAL	awards_2_funder_name	String	NSF Division of Ocean Sciences
attribute	NC_GLOBAL	awards_2_funding_acronym	String	NSF OCE
attribute	NC_GLOBAL	awards_2_funding_source_nid	String	355
attribute	NC_GLOBAL	awards_2_program_manager	String	David L. Garrison
attribute	NC_GLOBAL	awards_2_program_manager_nid	String	50534
attribute	NC_GLOBAL	cdm_data_type	String	Other
attribute	NC_GLOBAL	comment	String	Cellular element quotas: Si in Synechococcus P.I. Ben Twining version 6 May 2016 N.B. bd = below detection
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	2016-05-06T20:13:35Z
attribute	NC_GLOBAL	date_modified	String	2018-11-16T20:49:08Z
attribute	NC_GLOBAL	defaultDataQuery	String	&time<now
attribute	NC_GLOBAL	doi	String	10.1575/1912/bco-dmo.651474
attribute	NC_GLOBAL	Easternmost_Easting	double	-64.1614
attribute	NC_GLOBAL	geospatial_lat_max	double	31.6691
attribute	NC_GLOBAL	geospatial_lat_min	double	21.6699
attribute	NC_GLOBAL	geospatial_lat_units	String	degrees_north
attribute	NC_GLOBAL	geospatial_lon_max	double	-64.1614
attribute	NC_GLOBAL	geospatial_lon_min	double	-65.6664
attribute	NC_GLOBAL	geospatial_lon_units	String	degrees_east
attribute	NC_GLOBAL	geospatial_vertical_max	double	88.0
attribute	NC_GLOBAL	geospatial_vertical_min	double	1.0
attribute	NC_GLOBAL	geospatial_vertical_positive	String	down
attribute	NC_GLOBAL	geospatial_vertical_units	String	m
attribute	NC_GLOBAL	infoUrl	String	https://www.bco-dmo.org/dataset/644840
attribute	NC_GLOBAL	institution	String	BCO-DMO
attribute	NC_GLOBAL	instruments_0_acronym	String	CTD
attribute	NC_GLOBAL	instruments_0_dataset_instrument_nid	String	644996
attribute	NC_GLOBAL	instruments_0_description	String	The Conductivity, Temperature, Depth (CTD) unit is an integrated instrument package designed to measure the conductivity, temperature, and pressure (depth) of the water column. The instrument is lowered via cable through the water column and permits scientists observe the physical properties in real time via a conducting cable connecting the CTD to a deck unit and computer on the ship. The CTD is often configured with additional optional sensors including fluorometers, transmissometers and/or radiometers. It is often combined with a Rosette of water sampling bottles (e.g. Niskin, GO-FLO) for collecting discrete water samples during the cast. This instrument designation is used when specific make and model are not known.
attribute	NC_GLOBAL	instruments_0_instrument_external_identifier	String	https://vocab.nerc.ac.uk/collection/L05/current/130/
attribute	NC_GLOBAL	instruments_0_instrument_name	String	CTD profiler
attribute	NC_GLOBAL	instruments_0_instrument_nid	String	417
attribute	NC_GLOBAL	instruments_0_supplied_name	String	CTD
attribute	NC_GLOBAL	instruments_1_acronym	String	XRF analyzer
attribute	NC_GLOBAL	instruments_1_dataset_instrument_description	String	Abbreviation: SXRF For this dataset the model used was: Beamline:2-ID-D The instrument quantifies and maps elements (e.g. Si, Mn, Fe, Ni, S, P) in single cells. Used in the following paper to look at trace elements in aquatic protists: B. Twining, S. Baines, N. Fisher, J. Maser, S. Vogt, C. Jacobsen, A. Tovar-Sanchez, S. Sanudo-Wilhelmy; “Quantifying Trace Elements in Individual Aquatic Protist Cells with a Synchrotron X-ray Fluorescence Microprobe”, Analytical Chemistry 2003, 75, 3806-3816. DOI: 10.1021/ac034227z
attribute	NC_GLOBAL	instruments_1_dataset_instrument_nid	String	647671
attribute	NC_GLOBAL	instruments_1_description	String	Instruments that identify and quantify the elemental constituents of a sample from the spectrum of electromagnetic radiation emitted by the atoms in the sample when excited by X-ray radiation.
attribute	NC_GLOBAL	instruments_1_instrument_name	String	X-ray fluorescence analyzer
attribute	NC_GLOBAL	instruments_1_instrument_nid	String	648910
attribute	NC_GLOBAL	instruments_1_supplied_name	String	Synchrotron X-ray Fluorescence Microprobe
attribute	NC_GLOBAL	keywords	String	bats, BATS_bottle_ID, bco, bco-dmo, biological, bottle, cast, cell, cell_P, cell_S, cell_Si, cell_Si_to_P, cell_Si_to_S, chemical, chemistry, concentration, cruise, cruise_id, data, dataset, depth, depth_nom, dmo, earth, Earth Science > Oceans > Ocean Chemistry > Silicate, erddap, latitude, longitude, management, mass, mass_concentration_of_silicate_in_sea_water, mda, mda_id, ocean, oceanography, oceans, office, preliminary, run, science, sea, seawater, silicate, sxrf, time, water
attribute	NC_GLOBAL	keywords_vocabulary	String	GCMD Science Keywords
attribute	NC_GLOBAL	license	String	https://www.bco-dmo.org/dataset/644840/license
attribute	NC_GLOBAL	metadata_source	String	https://www.bco-dmo.org/api/dataset/644840
attribute	NC_GLOBAL	Northernmost_Northing	double	31.6691
attribute	NC_GLOBAL	param_mapping	String	{'644840': {'lat': 'master - latitude', 'depth': 'flag - depth', 'lon': 'master - longitude'}}
attribute	NC_GLOBAL	parameter_source	String	https://www.bco-dmo.org/mapserver/dataset/644840/parameters
attribute	NC_GLOBAL	people_0_affiliation	String	Bigelow Laboratory for Ocean Sciences
attribute	NC_GLOBAL	people_0_person_name	String	Benjamin Twining
attribute	NC_GLOBAL	people_0_person_nid	String	51087
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	Bigelow Laboratory for Ocean Sciences
attribute	NC_GLOBAL	people_1_person_name	String	Daniel Ohnemus
attribute	NC_GLOBAL	people_1_person_nid	String	640096
attribute	NC_GLOBAL	people_1_role	String	Contact
attribute	NC_GLOBAL	people_1_role_type	String	related
attribute	NC_GLOBAL	people_2_affiliation	String	Woods Hole Oceanographic Institution
attribute	NC_GLOBAL	people_2_affiliation_acronym	String	WHOI BCO-DMO
attribute	NC_GLOBAL	people_2_person_name	String	Ms Dicky Allison
attribute	NC_GLOBAL	people_2_person_nid	String	50382
attribute	NC_GLOBAL	people_2_role	String	BCO-DMO Data Manager
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	Amber York
attribute	NC_GLOBAL	people_3_person_nid	String	643627
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	Si_in_Syn
attribute	NC_GLOBAL	projects_0_acronym	String	Si_in_Syn
attribute	NC_GLOBAL	projects_0_description	String	Extracted from the NSF award abstract: INTELECTUAL MERIT: The investigators will follow-up on their discovery of significant accumulation of silicon by marine picocyanobacteria of the genus Synechococcus to assess the contribution of these organisms to the cycling of biogenic silica in the ocean. Oceanographers have long assumed that diatoms are the dominant marine organisms controlling the cycling of silica in the ocean. Recently, however, single-cell analyses of picocyanobacterial cells from field samples surprisingly revealed the presence of substantial amounts of silicon within Synechococcus. The contribution of Synechococcus to biogenic silica often rivaled that of living diatoms in the two systems examined. Moreover, size fractionation of biogenic silica indicates that up to 25% of biogenic silica can exist in the picoplanktonic size fraction. Given that picocyanobacteria dominate phytoplankton biomass and primary production over much of the world's ocean, these findings raise significant questions about the factors controlling the marine silica cycle globally, as well as the proper interpretation of biogenic silica measurements, Si:N ratios in particulate matter, and ratios of silicate and nitrate depletion. It also suggests that picocyanobacterial populations may be subject to previously unknown constraints on their productivity. The project will have both laboratory and field components. Because cellular Si varies substantially among the field-collected samples and laboratory strains so far analyzed, the laboratory component will document variability in Si uptake and cellular Si concentrations, while determining what role physiological and phylogenetic factors play in this variability. The investigators will use strains of Synechococcus for which there are already genome sequences. Laboratory experiments will 1) use 32Si radiotracer uptake experiments to assess the degree of variability in Si content and Si uptake kinetics among strains of Synechococcus acclimated to different levels of silicate, 2) characterize the intracellular distribution and chemistry of silicon within cells using fractionation techniques, density centrifugation, electron microscopy and x-ray absorption spectroscopy, and 3) use bioinformatic analyses of published genomes to determine whether uptake of Si can be predicted based on phylogenetic relationships, to identify candidate genes involved in cyanobacterial Si metabolism, and to develop probes for community structure that can be related to cellular Si content. Field work at the Bermuda Atlantic Time Series (BATS) site will assess the contribution of Synechococcus and diatoms to total biogenic silica in surface waters at times of the year when the former are typically dominant. Field measurements will include size fractionation of biogenic silica biomass and Si uptake, and synchrotron-based x-ray fluorescence microscopy, and the phylogenetic composition of the Synechococcus assemblage. BROADER IMPACTS: This project has the potential to drive a major paradigm shift in our understanding of the marine silicon cycle. In addition, one PhD student will be trained at Stony Brook. Each PI will provide research experience to a number of undergraduates working on original research projects for credit, as a part of an REU program or as the basis for undergraduate theses. Stony Brook research programs for undergraduates are supported with summer research money from the Undergraduate Research and Creative Activities (URECA) program, and draw on its very diverse student body. The investigators will also engage promising high school level students through several residential programs that the PIs have been a part of in the past. These include the BLOOM program at Bigelow and the Simons Summer Research Fellowship Program at Stony Brook. The PI has continuing relationship with a regional high school (Brentwood) with a high proportion of underrepresented minorities. PI Twining is involved in the Café Scientifique program at Bigelow. Baines will engage in similar outreach through the Center for Science and Mathematics Education (CESAME) sponsored Open Science Nights. Finally, PI Baines will cooperate with CESAMEs teacher education programs, with the aim of incorporating biological oceanography into K-12 curricula. PIs Krause and Brzezinski will incorporate aspects of phytoplankton ecology into UCSB's Oceans to Classroom Program that brings marine research at UCSB to life for over 18,000 K-12 students each year.
attribute	NC_GLOBAL	projects_0_end_date	String	2015-12
attribute	NC_GLOBAL	projects_0_geolocation	String	Samples collected in western North Atlantic Ocean between Puerto Rico, Bermuda, and Gulf of Maine.
attribute	NC_GLOBAL	projects_0_name	String	Understanding the Role of Picocyanobacteria in the Marine Silicate Cycle
attribute	NC_GLOBAL	projects_0_project_nid	String	544555
attribute	NC_GLOBAL	projects_0_start_date	String	2012-01
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	Southernmost_Northing	double	21.6699
attribute	NC_GLOBAL	standard_name_vocabulary	String	CF Standard Name Table v55
attribute	NC_GLOBAL	summary	String	Field work at the Bermuda Atlantic Time Series (BATS) site was done to assess the contribution of Synechococcus and diatoms to total biogenic silica in surface waters. The data include information about the elemental content (Silicon, Phosphorus, and Sulfur) of Synechococcus cells as measured by synchrotron-based x-ray fluorescence (SBXF) microscopy.\u00a0 Derived mole ratios (Si:P, and Si:S) are also provided. References: Twining, B. S., Rauschenberg, S., Morton, P. L., & Vogt, S. (2015). Metal contents of phytoplankton and labile particulate material in the North Atlantic Ocean. Progress in Oceanography, 137, 261\u2013283. doi:10.1016/j.pocean.2015.07.001 [https://www.researchgate.net/publication/282626294_Metal_contents_of_phytoplankton_and_labile_particulate_material_in_the_North_Atlantic_Ocean](\\https://www.researchgate.net/publication/282626294_Metal_contents_of_phytoplankton_and_labile_particulate_material_in_the_North_Atlantic_Ocean\\) DMO notes: * Changed formatting of lat/lon to 4 decimal places from 5. * Elemental content values rounded to two decimal places from 15.
attribute	NC_GLOBAL	title	String	[Cellular element quotas: Si in Synechococcus cells] - Element quotas of individual Synechococcus cells collected during Bermuda Atlantic Time-series Study (BATS) cruises aboard the R/V Atlantic Explorer between dates 2012-07-11 and 2013-10-13 (Si_in_Syn project) (Understanding the Role of Picocyanobacteria in the Marine Silicate Cycle)
attribute	NC_GLOBAL	version	String	1
attribute	NC_GLOBAL	Westernmost_Easting	double	-65.6664
attribute	NC_GLOBAL	xml_source	String	osprey2erddap.update_xml() v1.3
variable	cruise_id		String
attribute	cruise_id	bcodmo_name	String	cruise_id
attribute	cruise_id	description	String	cruise on which sample was collected
attribute	cruise_id	long_name	String	Cruise Id
attribute	cruise_id	units	String	text
variable	BATS_bottle_ID		int
attribute	BATS_bottle_ID	_FillValue	int	2147483647
attribute	BATS_bottle_ID	actual_range	int	102830102, 500481408
attribute	BATS_bottle_ID	bcodmo_name	String	bottle
attribute	BATS_bottle_ID	description	String	unique identified given to each bottle sample collected on BATS cruises
attribute	BATS_bottle_ID	long_name	String	BATS Bottle ID
attribute	BATS_bottle_ID	units	String	text
variable	cast		String
attribute	cast	bcodmo_name	String	cast
attribute	cast	description	String	CTD cast on which whole seawater was collected
attribute	cast	long_name	String	Cast
attribute	cast	units	String	text
variable	depth_nom		String
attribute	depth_nom	bcodmo_name	String	depth_n
attribute	depth_nom	description	String	nominal depth; Surface or DCM (deep cholorophyll max)
attribute	depth_nom	long_name	String	Depth
attribute	depth_nom	standard_name	String	depth
attribute	depth_nom	units	String	text
variable	depth		double
attribute	depth	_CoordinateAxisType	String	Height
attribute	depth	_CoordinateZisPositive	String	down
attribute	depth	_FillValue	double	NaN
attribute	depth	actual_range	double	1.0, 88.0
attribute	depth	axis	String	Z
attribute	depth	bcodmo_name	String	depth
attribute	depth	colorBarMaximum	double	8000.0
attribute	depth	colorBarMinimum	double	-8000.0
attribute	depth	colorBarPalette	String	TopographyDepth
attribute	depth	description	String	bottle target trip depth in meters
attribute	depth	ioos_category	String	Location
attribute	depth	long_name	String	Depth
attribute	depth	nerc_identifier	String	https://vocab.nerc.ac.uk/collection/P09/current/DEPH/
attribute	depth	positive	String	down
attribute	depth	standard_name	String	depth
attribute	depth	units	String	m
variable	latitude		double
attribute	latitude	_CoordinateAxisType	String	Lat
attribute	latitude	_FillValue	double	NaN
attribute	latitude	actual_range	double	21.6699, 31.6691
attribute	latitude	axis	String	Y
attribute	latitude	bcodmo_name	String	latitude
attribute	latitude	colorBarMaximum	double	90.0
attribute	latitude	colorBarMinimum	double	-90.0
attribute	latitude	description	String	latitude
attribute	latitude	ioos_category	String	Location
attribute	latitude	long_name	String	Latitude
attribute	latitude	nerc_identifier	String	https://vocab.nerc.ac.uk/collection/P09/current/LATX/
attribute	latitude	standard_name	String	latitude
attribute	latitude	units	String	degrees_north
variable	longitude		double
attribute	longitude	_CoordinateAxisType	String	Lon
attribute	longitude	_FillValue	double	NaN
attribute	longitude	actual_range	double	-65.6664, -64.1614
attribute	longitude	axis	String	X
attribute	longitude	bcodmo_name	String	longitude
attribute	longitude	colorBarMaximum	double	180.0
attribute	longitude	colorBarMinimum	double	-180.0
attribute	longitude	description	String	longitude; west is negative
attribute	longitude	ioos_category	String	Location
attribute	longitude	long_name	String	Longitude
attribute	longitude	nerc_identifier	String	https://vocab.nerc.ac.uk/collection/P09/current/LONX/
attribute	longitude	standard_name	String	longitude
attribute	longitude	units	String	degrees_east
variable	SXRF_run		String
attribute	SXRF_run	bcodmo_name	String	sample
attribute	SXRF_run	description	String	SXRF run identifier
attribute	SXRF_run	long_name	String	SXRF Run
attribute	SXRF_run	nerc_identifier	String	https://vocab.nerc.ac.uk/collection/P02/current/ACYC/
attribute	SXRF_run	source_name	String	SXRF_run
attribute	SXRF_run	time_precision	String	1970-01
attribute	SXRF_run	units	String	text
variable	mda_id		short
attribute	mda_id	_FillValue	short	32767
attribute	mda_id	actual_range	short	91, 444
attribute	mda_id	bcodmo_name	String	sample
attribute	mda_id	description	String	SXRF scan id within the run
attribute	mda_id	long_name	String	Mda Id
attribute	mda_id	nerc_identifier	String	https://vocab.nerc.ac.uk/collection/P02/current/ACYC/
attribute	mda_id	units	String	text
variable	cell_Si		String
attribute	cell_Si	bcodmo_name	String	trace_metal_conc
attribute	cell_Si	description	String	total silicon content within each Synechococcus cell measured with SXRF
attribute	cell_Si	long_name	String	Cell Si
attribute	cell_Si	nerc_identifier	String	https://vocab.nerc.ac.uk/collection/P03/current/C035/
attribute	cell_Si	units	String	mol/cell
variable	cell_P		String
attribute	cell_P	bcodmo_name	String	trace_element_conc
attribute	cell_P	description	String	total phosphorus content within each Synechococcus cell measured with SXRF
attribute	cell_P	long_name	String	Cell P
attribute	cell_P	units	String	mol/cell
variable	cell_S		String
attribute	cell_S	bcodmo_name	String	trace_element_conc
attribute	cell_S	description	String	total sulfur content within each Synechococcus cell measured with SXRF
attribute	cell_S	long_name	String	Cell S
attribute	cell_S	units	String	mol/cell
variable	cell_Si_to_P		float
attribute	cell_Si_to_P	_FillValue	float	NaN
attribute	cell_Si_to_P	actual_range	float	0.05, 90.39
attribute	cell_Si_to_P	bcodmo_name	String	mole_ratio
attribute	cell_Si_to_P	description	String	derived mole ratio of silicon to phosphorous for each Synechococcus cell with determinable silicon and phosphorus content
attribute	cell_Si_to_P	long_name	String	Mass Concentration Of Silicate In Sea Water
attribute	cell_Si_to_P	units	String	dimensionless
variable	cell_Si_to_S		float
attribute	cell_Si_to_S	_FillValue	float	NaN
attribute	cell_Si_to_S	actual_range	float	0.05, 34.12
attribute	cell_Si_to_S	bcodmo_name	String	mole_ratio
attribute	cell_Si_to_S	description	String	derived mole ratio of silicon to sulfur for each Synechococcus cell with determinable silicon and sulfur content
attribute	cell_Si_to_S	long_name	String	Mass Concentration Of Silicate In Sea Water
attribute	cell_Si_to_S	units	String	dimensionless

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.