ERDDAP > info > bcodmo_dataset_807316

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	[Growth rates of Line P diatoms in added Zn and Co incubation studies] - Growth rates NE Pacific and Atlantic diatom isolates under various Zn and Co additions in experiments with cultures collected from R/V Thomas G. Thompson cruise TN280, along Line P in the NE Pacific, in May of 2012. (US GEOTRACES PMT: Cobalt Biogeochemical Cycling and Connections to Metalloenzymes in the Pacific Ocean)		I   M	background			BCO-DMO	bcodmo_dataset_807316

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	Location: Northeast Pacific Line P Transect 48.8167 N 128.667 W Media and culturing techniques Northwest Atlantic Thalassiosira pseudonana CCMP1335 cultures were maintained in a 24\u00b0C incubator under constant fluorescent lighting (65 \u00b5mol quanta m-2 s-1 PAR). Northeast Atlantic Phaeodactylum tricornutum CCMP632 cultures were maintained in an 18\u00b0C incubator under constant fluorescent lighting (90 \u00b5mol quanta m-2 s-1 PAR). Both Pacific Pseudo- nitzschia delicatissima UNC1205 and Pacific Thalassiosira sp. UNC1203 were grown in an 18\u00b0C incubator under constant fluorescent lighting (85 \u00b5mol quanta m-2 s-1 PAR). All cultures were randomly repositioned each day to avoid any effect of subtle variation in light intensity on growth. T. pseudonana CCMP1335 and P. tricornutum CCMP632 (Bigelow Laboratory, East Boothbay, ME) were obtained from the Mincer and Saito laboratory culture collections at the Woods Hole Oceanographic Institution, respectively. Pacific P. delicatissima UNC1205 and Thalassiosira sp. UNC1203 were obtained from the Marchetti laboratory at the University of North Carolina. Both Pacific isolates were collected at station P8 of Line P, a Northeast Pacific ocean transect located off of Vancouver Island comprising 26 sampling stations and ending at Ocean Station Papa at 50\u00b0N 145\u00b0W (Fig. 1a). All cultures were axenic and maintained by sterile technique until needed. Polycarbonate and plastic bottles were cleaned to remove trace metal contaminants before use. This procedure involved, at minimum, a 72h soak in <1% Citranox detergent, five rinses in mili-Q water, a 7d soak in 10% HCl, and five rinses with dilute acid (HCl, pH 2). Cultures were grown in microwave sterilized 28 mL polycarbonate centrifuge tubes, and all solutions were pipetted only after a tip rinse procedure consisting of three rinses with 10% HCl followed by three rinses with sterile dilute HCl (pH 2). All culture work was conducted in a Class 100 clean room. Culture media was prepared after that used by Sunda and Huntsman for trace metal experimentation (Sunda and Huntsman 1992, 1995b). Microwave sterilized, 0.2\u00b5m-filtered Pacific seawater from the North Pacific station \u201cAloha\u201d (22\u00b0 45'N, 158\u00b0 00'W) was used as the media base. Macronutrients were added to this sterile base to a final concentration of 88.2\u00b5M NaNO3, 41.5\u00b5M NaH2PO4, and 106\u00b5M Na2SiO3 and were chelexed before use. Added vitamins included 2 nM biotin, 0.37 nM B12 as cyanocobalamin, and 300 nM thiamine and were also chelexed before use. Trace metals were added to final media concentrations of 10-7 M FeCl3, 4.8 x 10-8 M MnCl2, 4.0 x 10-8 M CuSO4, 10-7 M NiCl2, and 10-8 M Na2O3Se within a 10-4 M ethylenediamine tetraacetic acid disodium salt (EDTA, Acros Organics, C10H14N2Na2O8) metal ion buffer system. All media amendments were sterile filtered through acid rinsed 0.2\u00b5m filters before addition to final media, and final media equilibrated for at least 12h before inoculation. Established cultures of each diatom were first acclimated in low-metal media containing 1 nM total Zn or less for at least three transfers. These acclimated cultures were used to initially inoculate transfer 1 (T1) cultures at 1% volume. For all diatoms, Zn or Co limitation experiments were first performed using a range of Zn concentrations with Co omitted and vice versa. We refer to experiments using media amended with Zn or Co (while omitting the other) as \u201csimple limitation\u201d experiments. Experiments varying concentrations of both Zn and Co were also conducted, allowing for three- dimensional visualizations of growth rates as used previously (Saito et al. 2002; Saito and Goepfert 2008). We refer to experiments using media amended with both Zn and Co as \u201cmatrix\u201d experiments. In vivo fluorescence (Turner Instruments TD-700) of simple and matrix experiment cultures was measured on a near-daily basis as a proxy for chlorophyll a and is reported as relative fluorescence units (RFU). Growth rates were calculated from the exponential portion of each culture\u2019s growth curve. Computed ratios of [Zn2+] and [Co2+] to total concentrations, whose values are 10-3.99 and 10-3.63 respectively, were used to convert added metal concentrations to free ion concentrations and are the same as those used by Sunda and Huntsman (Sunda and Huntsman 1995). Isolation sources and locations: * Pseudonitzschia delicatissima UNC1205 and Thalassiosira UNC1203 were isolated from station P8 of the Line P transect, 48.817\u00b0N 128.666\u00b0W * Phaeodactylum tricornutum CCMP632 was ordered from Bigelow, the strains original location of isolation was 54\u00b0N 4\u00b0W * Thalassiosira pseudonana CCMP1335 was also from Bigelow, original location of isolation was 40.756\u00b0 N 72.82\u00b0 W
attribute	NC_GLOBAL	awards_0_award_nid	String	646122
attribute	NC_GLOBAL	awards_0_award_number	String	GBMF3782
attribute	NC_GLOBAL	awards_0_data_url	String	https://www.moore.org/grant-detail?grantId=GBMF3782
attribute	NC_GLOBAL	awards_0_funder_name	String	Gordon and Betty Moore Foundation: Marine Microbiology Initiative
attribute	NC_GLOBAL	awards_0_funding_acronym	String	MMI
attribute	NC_GLOBAL	awards_0_funding_source_nid	String	385
attribute	NC_GLOBAL	awards_1_award_nid	String	785825
attribute	NC_GLOBAL	awards_1_award_number	String	OCE-1736599
attribute	NC_GLOBAL	awards_1_data_url	String	http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1736599
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	Henrietta N Edmonds
attribute	NC_GLOBAL	awards_1_program_manager_nid	String	51517
attribute	NC_GLOBAL	cdm_data_type	String	Other
attribute	NC_GLOBAL	comment	String	Growth rates of Line P diatoms in added Zn and Co incubation studies PI: Mak A. Saito Data Version 1: 2020-03-31
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	2020-03-31T21:27:30Z
attribute	NC_GLOBAL	date_modified	String	2020-04-10T14:55:30Z
attribute	NC_GLOBAL	defaultDataQuery	String	&amp;time&lt;now
attribute	NC_GLOBAL	doi	String	10.26008/1912/bco-dmo.807316.1
attribute	NC_GLOBAL	infoUrl	String	https://www.bco-dmo.org/dataset/807316
attribute	NC_GLOBAL	institution	String	BCO-DMO
attribute	NC_GLOBAL	instruments_0_acronym	String	TD-700
attribute	NC_GLOBAL	instruments_0_dataset_instrument_description	String	Turner Instruments TD-700 Fluorometer calibrated to a solid standard.
attribute	NC_GLOBAL	instruments_0_dataset_instrument_nid	String	807326
attribute	NC_GLOBAL	instruments_0_description	String	The TD-700 Laboratory Fluorometer is a benchtop fluorometer designed to detect fluorescence over the UV to red range. The instrument can measure concentrations of a variety of compounds, including chlorophyll-a and fluorescent dyes, and is thus suitable for a range of applications, including chlorophyll, water quality monitoring and fluorescent tracer studies. Data can be output as concentrations or raw fluorescence measurements.
attribute	NC_GLOBAL	instruments_0_instrument_external_identifier	String	https://vocab.nerc.ac.uk/collection/L22/current/TOOL0510/
attribute	NC_GLOBAL	instruments_0_instrument_name	String	Turner Designs 700 Laboratory Fluorometer
attribute	NC_GLOBAL	instruments_0_instrument_nid	String	694
attribute	NC_GLOBAL	instruments_0_supplied_name	String	Turner Instruments TD-700 Fluorometer
attribute	NC_GLOBAL	keywords	String	added, Added_Co, Added_Zn, average, bco, bco-dmo, biological, chemical, co2plus, culture, data, dataset, dmo, erddap, experiment, Experiment_Type, growth, Growth_rate_average, Growth_rate_replicate_A, Growth_rate_replicate_B, log, log_Co2plus, log_Zn2plus, management, maximum, Maximum_RFU, oceanography, office, preliminary, rate, replicate, rfu, total, Total_Co, Total_Zn, type, zn2plus
attribute	NC_GLOBAL	license	String	https://www.bco-dmo.org/dataset/807316/license
attribute	NC_GLOBAL	metadata_source	String	https://www.bco-dmo.org/api/dataset/807316
attribute	NC_GLOBAL	param_mapping	String	{'807316': {}}
attribute	NC_GLOBAL	parameter_source	String	https://www.bco-dmo.org/mapserver/dataset/807316/parameters
attribute	NC_GLOBAL	people_0_affiliation	String	Woods Hole Oceanographic Institution
attribute	NC_GLOBAL	people_0_affiliation_acronym	String	WHOI
attribute	NC_GLOBAL	people_0_person_name	String	Mak A. Saito
attribute	NC_GLOBAL	people_0_person_nid	String	50985
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	Woods Hole Oceanographic Institution
attribute	NC_GLOBAL	people_1_affiliation_acronym	String	WHOI BCO-DMO
attribute	NC_GLOBAL	people_1_person_name	String	Amber York
attribute	NC_GLOBAL	people_1_person_nid	String	643627
attribute	NC_GLOBAL	people_1_role	String	BCO-DMO Data Manager
attribute	NC_GLOBAL	people_1_role_type	String	related
attribute	NC_GLOBAL	project	String	PMT Cobalt and Metalloenzymes,MM Saito
attribute	NC_GLOBAL	projects_0_acronym	String	PMT Cobalt and Metalloenzymes
attribute	NC_GLOBAL	projects_0_description	String	NSF abstract: Cobalt is important for many forms of marine life, yet it is one of the scarcest nutrients in the sea. Cobalt's oceanic abundance and distribution, along with other scarce nutrients, can influence the growth of microscopic plants (phytoplankton). This in turn can influence carbon cycles in the ocean and atmosphere. Therefore, knowledge of the controls on cobalt's abundance and chemical forms in seawater is a valuable component of our ability to understand the ocean's influence on global carbon cycling. Within phytoplankton and other marine microbes, metals such as cobalt, iron, nickel, and copper are used as critical components of enzymes responsible for key cellular reactions. Since these enzymes require metals to work, they are named metalloenzymes. Participating in a Pacific Ocean cruise from Alaska to Tahiti, this project will study the oceanic distributions of dissolved cobalt and the cellular content of a group of metalloenzymes known to influence biogeochemical cycles. The project will provide scientific impact by creating new knowledge about oceanic micronutrients in regions of economic interest with regard to fisheries and deep-sea mining. Measurement of proteins in the North Pacific will provide data of broad biological and chemical interest and will be made available through a new NSF-funded "EarthCube Ocean Protein Portal" data base. Educational impact will stem from participation of a graduate student and two young technicians, as well as the PI's development of a high school chemistry curriculum for use in two local high schools, thus allowing teachers to include real oceanic and environmental data at their first introduction to chemistry. Cobalt has a complex biogeochemical cycle. Both its inorganic and organic forms are used by biology in the upper ocean and it is removed from solution by being scavenged in the intermediate and deep ocean. This scavenging removal results in cobalt having the smallest oceanic inventory of any biologically utilized element. Recent studies, however, have found that large dissolved cobalt plumes occur in major oxygen minimum zones due to a combination of less scavenging and additions from sedimentary and remineralization fluxes. The GP15 US GEOTRACES Pacific Meridional Transect (PMT) provides an opportunity to examine the influence of oxygen depletion on cobalt chemistry. Moreover, the study of the protein component of microbial communities using new proteomic techniques will provide evidence of how different major microorganisms respond to the chemical environment (e.g. through transporter production for specific nutrients and micronutrients) as well as the biochemical basis for metal requirements related to the use of specific metalloenzymes. Specifically, the PMT provides an opportunity to confirm that the Pacific oxygen minimum zones contain a large amount of cobalt and to test the hypotheses that simultaneous zinc scarcity could induce wide-scale biochemical substitution of cobalt for zinc in the North Pacific Ocean.
attribute	NC_GLOBAL	projects_0_end_date	String	2019-10
attribute	NC_GLOBAL	projects_0_geolocation	String	Laboratory Study and Cultures from Northeast Pacific Line P Transect 48.8167 N 128.667 W
attribute	NC_GLOBAL	projects_0_name	String	US GEOTRACES PMT: Cobalt Biogeochemical Cycling and Connections to Metalloenzymes in the Pacific Ocean
attribute	NC_GLOBAL	projects_0_project_nid	String	785826
attribute	NC_GLOBAL	projects_0_start_date	String	2017-11
attribute	NC_GLOBAL	projects_1_acronym	String	MM Saito
attribute	NC_GLOBAL	projects_1_description	String	In support of obtaining deeper knowledge of major biogeochemically relevant proteins to inform a mechanistic understanding of global marine biogeochemical cycles.
attribute	NC_GLOBAL	projects_1_end_date	String	2019-12
attribute	NC_GLOBAL	projects_1_name	String	Marine Microbial Investigator Award: Investigator Mak Saito
attribute	NC_GLOBAL	projects_1_project_nid	String	786672
attribute	NC_GLOBAL	projects_1_start_date	String	2013-05
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	Growth rates of two NE Pacific Line P diatom isolates and two Atlantic diatom isolates under various Zn and Co additions. Cultures were collected from the GeoMICS expedition on the R/V Thomas G. Thompson (cruise TN280), along Line P in the NE Pacific, in May of 2012.
attribute	NC_GLOBAL	title	String	[Growth rates of Line P diatoms in added Zn and Co incubation studies] - Growth rates NE Pacific and Atlantic diatom isolates under various Zn and Co additions in experiments with cultures collected from R/V Thomas G. Thompson cruise TN280, along Line P in the NE Pacific, in May of 2012. (US GEOTRACES PMT: Cobalt Biogeochemical Cycling and Connections to Metalloenzymes in the Pacific Ocean)
attribute	NC_GLOBAL	version	String	1
attribute	NC_GLOBAL	xml_source	String	osprey2erddap.update_xml() v1.3
variable	Culture		String
attribute	Culture	bcodmo_name	String	sample_descrip
attribute	Culture	description	String	Culture name (e.g. Line P Thalassiosira sp. UNC1203)
attribute	Culture	long_name	String	Culture
attribute	Culture	units	String	unitless
variable	Experiment_Type		String
attribute	Experiment_Type	bcodmo_name	String	exp_type
attribute	Experiment_Type	description	String	Experiment Type. One (simple) or both (matrix) metals added.
attribute	Experiment_Type	long_name	String	Experiment Type
attribute	Experiment_Type	units	String	unitless
variable	Added_Zn		float
attribute	Added_Zn	_FillValue	float	NaN
attribute	Added_Zn	actual_range	float	0.0, 100.0
attribute	Added_Zn	bcodmo_name	String	trace_metal_conc
attribute	Added_Zn	description	String	Total amount of added zinc (Zn) to incubation.
attribute	Added_Zn	long_name	String	Added Zn
attribute	Added_Zn	nerc_identifier	String	https://vocab.nerc.ac.uk/collection/P03/current/C035/
attribute	Added_Zn	units	String	nanomoles per liter (nmol/L)
variable	Added_Co		float
attribute	Added_Co	_FillValue	float	NaN
attribute	Added_Co	actual_range	float	0.0, 100.0
attribute	Added_Co	bcodmo_name	String	trace_metal_conc
attribute	Added_Co	description	String	Total amount of added cobalt (Co) to incubation.
attribute	Added_Co	long_name	String	Added Co
attribute	Added_Co	nerc_identifier	String	https://vocab.nerc.ac.uk/collection/P03/current/C035/
attribute	Added_Co	units	String	nanomoles per liter (nmol/L)
variable	Total_Zn		float
attribute	Total_Zn	_FillValue	float	NaN
attribute	Total_Zn	actual_range	float	0.9, 100.9
attribute	Total_Zn	bcodmo_name	String	trace_metal_conc
attribute	Total_Zn	description	String	Total zinc (Zn). Added Zn and background media Zn.
attribute	Total_Zn	long_name	String	Total Zn
attribute	Total_Zn	nerc_identifier	String	https://vocab.nerc.ac.uk/collection/P03/current/C035/
attribute	Total_Zn	units	String	nanomoles per liter (nmol/L)
variable	Total_Co		float
attribute	Total_Co	_FillValue	float	NaN
attribute	Total_Co	actual_range	float	0.1, 100.1
attribute	Total_Co	bcodmo_name	String	trace_metal_conc
attribute	Total_Co	description	String	Total cobalt (Co). Added Co and background media Co.
attribute	Total_Co	long_name	String	Total Co
attribute	Total_Co	nerc_identifier	String	https://vocab.nerc.ac.uk/collection/P03/current/C035/
attribute	Total_Co	units	String	nanomoles per liter (nmol/L)
variable	log_Zn2plus		float
attribute	log_Zn2plus	_FillValue	float	NaN
attribute	log_Zn2plus	actual_range	float	-13.04, -10.99
attribute	log_Zn2plus	bcodmo_name	String	trace_metal_conc
attribute	log_Zn2plus	description	String	Log of calculated free Zn2+ ion concentration in media. [Zn2+]
attribute	log_Zn2plus	long_name	String	Log Zn2plus
attribute	log_Zn2plus	nerc_identifier	String	https://vocab.nerc.ac.uk/collection/P03/current/C035/
attribute	log_Zn2plus	units	String	moles per liter (mol/L)
variable	log_Co2plus		float
attribute	log_Co2plus	_FillValue	float	NaN
attribute	log_Co2plus	actual_range	float	-13.63, -10.63
attribute	log_Co2plus	bcodmo_name	String	growth
attribute	log_Co2plus	description	String	Log of calculated free Co2+ ion concentration in media. [Co2+]
attribute	log_Co2plus	long_name	String	Log Co2plus
attribute	log_Co2plus	units	String	moles per liter (mol/L)
variable	Growth_rate_replicate_A		float
attribute	Growth_rate_replicate_A	_FillValue	float	NaN
attribute	Growth_rate_replicate_A	actual_range	float	0.0, 0.96
attribute	Growth_rate_replicate_A	bcodmo_name	String	growth
attribute	Growth_rate_replicate_A	description	String	Growth rate of treatment replicate A
attribute	Growth_rate_replicate_A	long_name	String	Growth Rate Replicate A
attribute	Growth_rate_replicate_A	units	String	per day (d-1)
variable	Growth_rate_replicate_B		float
attribute	Growth_rate_replicate_B	_FillValue	float	NaN
attribute	Growth_rate_replicate_B	actual_range	float	0.0, 0.97
attribute	Growth_rate_replicate_B	bcodmo_name	String	growth
attribute	Growth_rate_replicate_B	description	String	Growth rate of treatment replicate B
attribute	Growth_rate_replicate_B	long_name	String	Growth Rate Replicate B
attribute	Growth_rate_replicate_B	units	String	per day (d-1)
variable	Growth_rate_average		String
attribute	Growth_rate_average	bcodmo_name	String	growth
attribute	Growth_rate_average	description	String	Average growth rate of replicates A and B
attribute	Growth_rate_average	long_name	String	Growth Rate Average
attribute	Growth_rate_average	units	String	per day (d-1)
variable	Maximum_RFU		float
attribute	Maximum_RFU	_FillValue	float	NaN
attribute	Maximum_RFU	actual_range	float	1.8, 306.4
attribute	Maximum_RFU	bcodmo_name	String	unknown
attribute	Maximum_RFU	description	String	Maximum relative fluorescence
attribute	Maximum_RFU	long_name	String	Maximum RFU
attribute	Maximum_RFU	units	String	Relative Fluorescence Units (RFU)

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.