ERDDAP > info > bcodmo_dataset_684883

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			files	public	[Emiliania size and chemical characteristics] - Cell size and chemical characteristics of five strains of coccolithophore Emiliania huxleyi (Protist signaling project) (Environmental stress and signaling based on reactive oxygen species among planktonic protists)		I   M	background			BCO-DMO	bcodmo_dataset_684883

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	Cultures of\u00a0\u00a0Emiliania\u00a0huxleyi\u00a0were obtained from the National Center for Marine Algae and Microbiota at Bigelow Laboratories (all CCMP strains), or from Dr. D. Iglesias-Rodriguez at UC Santa Barbara (strain NEZH) and maintained in the Strom laboratory at Shannon Point Marine Center. Batch cultures were grown in 50-100 ml volumes of seawater (salinity = 30) amended with f/50 nutrients, at a temperature of 15 deg C and an irradiance of 140-300 umol photons m-2\u00a0s-1\u00a0on a 12L:12D light cycle. Replicate cultures (n=3) were subsampled for chemical measurements at cell densities of 1.4 to 2.7 x 10^5\u00a0cells ml-1\u00a0(DMSP) and 3.6 to 12.8 x 10^5\u00a0cells ml-1\u00a0(H2O2). Different chemical and size measurements reported for a given strain were made over the course of several separate experiments. Dimethylsulfoniopropionate (DMSP) contained within\u00a0E.\u00a0huxleyi\u00a0cells was measured using a Shimadzu GC-14A gas chromatograph and flame photometric detection, following the methods of Wolfe et al. (2002 J.\u00a0Phycol.\u00a038:\u00a0948-960).\u00a0 Cells were captured on 25 mm glass fiber filters (effective pore size 0.7 um) and placed into 3 ml 5N NaOH for hydrolysis.\u00a0Method\u00a0was standardized using ultrapure DMSP-Cl (standard range 0.625 to 50 nM; r2\u00a0\u22650.998). Hydrogen peroxide (H2O2) released into the dissolved phase by\u00a0E.\u00a0huxleyi\u00a0was measured using the Amplex Red \u2013 horseradish peroxidase method, using a kit from Molecular Probes (now part of Thermo Fisher Scientific) according to kit directions and to Suggett et al. (2008 J\u00a0Phycol\u00a044:\u00a0948-956).\u00a0Fluorescent\u00a0reaction product was quantified in a BioTek Synergy M plate reader (565 nm excitation, 585 nm emission). True reagent blanks were obtained by catalase treatment of\u00a0E.\u00a0huxleyi\u00a0culture filtrate (50 U ml-1, 45 min, room temperature) following Shaked et al. (2010 Environ Sci Technol\u00a044:\u00a03238-3244). Method was standardized using ultrapure H2O2\u00a0(standard range 0.025 to 0.5 uM; r2\u00a0= 0.98) E.\u00a0huxleyi\u00a0cell size was obtained by imaging live cells (n = 23-29) at 1000x magnification on a Leica DM5500 B microscope, and sizing them with associated image analysis software. Calcification (i.e. whether a strain harbored coccoliths) was also confirmed\u00a0during\u00a0microscopy. Note that the sample of strain CCMP3266 used for size measurement comprised a mixture of calcifying and non-calcifying cells.
attribute	NC_GLOBAL	awards_0_award_nid	String	614837
attribute	NC_GLOBAL	awards_0_award_number	String	OCE-1434842
attribute	NC_GLOBAL	awards_0_data_url	String	http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1434842
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	Emiliania huxleyi biochem data S. Strom Version 5 April 2017
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	2017-03-20T16:51:34Z
attribute	NC_GLOBAL	date_modified	String	2019-04-03T20:12:49Z
attribute	NC_GLOBAL	defaultDataQuery	String	&time<now
attribute	NC_GLOBAL	doi	String	10.1575/1912/bco-dmo.684883.1
attribute	NC_GLOBAL	infoUrl	String	https://www.bco-dmo.org/dataset/684883
attribute	NC_GLOBAL	institution	String	BCO-DMO
attribute	NC_GLOBAL	instruments_0_acronym	String	Gas Chromatograph
attribute	NC_GLOBAL	instruments_0_dataset_instrument_description	String	Used to measure Dimethylsulfoniopropionate (DMSP)
attribute	NC_GLOBAL	instruments_0_dataset_instrument_nid	String	684896
attribute	NC_GLOBAL	instruments_0_description	String	Instrument separating gases, volatile substances, or substances dissolved in a volatile solvent by transporting an inert gas through a column packed with a sorbent to a detector for assay. (from SeaDataNet, BODC)
attribute	NC_GLOBAL	instruments_0_instrument_external_identifier	String	https://vocab.nerc.ac.uk/collection/L05/current/LAB02/
attribute	NC_GLOBAL	instruments_0_instrument_name	String	Gas Chromatograph
attribute	NC_GLOBAL	instruments_0_instrument_nid	String	661
attribute	NC_GLOBAL	instruments_0_supplied_name	String	Shimadzu GC-14A gas chromatograph
attribute	NC_GLOBAL	instruments_1_dataset_instrument_description	String	Used to determine cell size
attribute	NC_GLOBAL	instruments_1_dataset_instrument_nid	String	684898
attribute	NC_GLOBAL	instruments_1_description	String	Instruments that generate enlarged images of samples using the phenomena of reflection and absorption of visible light. Includes conventional and inverted instruments. Also called a "light microscope".
attribute	NC_GLOBAL	instruments_1_instrument_external_identifier	String	https://vocab.nerc.ac.uk/collection/L05/current/LAB05/
attribute	NC_GLOBAL	instruments_1_instrument_name	String	Microscope-Optical
attribute	NC_GLOBAL	instruments_1_instrument_nid	String	708
attribute	NC_GLOBAL	instruments_1_supplied_name	String	Leica DM5500 B microscope
attribute	NC_GLOBAL	instruments_2_dataset_instrument_description	String	Used to measure fluorescent reaction
attribute	NC_GLOBAL	instruments_2_dataset_instrument_nid	String	684897
attribute	NC_GLOBAL	instruments_2_description	String	Plate readers (also known as microplate readers) are laboratory instruments designed to detect biological, chemical or physical events of samples in microtiter plates. They are widely used in research, drug discovery, bioassay validation, quality control and manufacturing processes in the pharmaceutical and biotechnological industry and academic organizations. Sample reactions can be assayed in 6-1536 well format microtiter plates. The most common microplate format used in academic research laboratories or clinical diagnostic laboratories is 96-well (8 by 12 matrix) with a typical reaction volume between 100 and 200 uL per well. Higher density microplates (384- or 1536-well microplates) are typically used for screening applications, when throughput (number of samples per day processed) and assay cost per sample become critical parameters, with a typical assay volume between 5 and 50 µL per well. Common detection modes for microplate assays are absorbance, fluorescence intensity, luminescence, time-resolved fluorescence, and fluorescence polarization. From: https://en.wikipedia.org/wiki/Plate_reader, 2014-09-0-23.
attribute	NC_GLOBAL	instruments_2_instrument_name	String	plate reader
attribute	NC_GLOBAL	instruments_2_instrument_nid	String	528693
attribute	NC_GLOBAL	instruments_2_supplied_name	String	BioTek Synergy M plate reader
attribute	NC_GLOBAL	keywords	String	bco, bco-dmo, biological, ccmp1516, ccmp2668, ccmp3266, ccmp3268, chemical, data, data_type, dataset, dmo, erddap, management, nezh, oceanography, office, preliminary, type
attribute	NC_GLOBAL	license	String	https://www.bco-dmo.org/dataset/684883/license
attribute	NC_GLOBAL	metadata_source	String	https://www.bco-dmo.org/api/dataset/684883
attribute	NC_GLOBAL	param_mapping	String	{'684883': {}}
attribute	NC_GLOBAL	parameter_source	String	https://www.bco-dmo.org/mapserver/dataset/684883/parameters
attribute	NC_GLOBAL	people_0_affiliation	String	Western Washington University - Shannon Point Marine Center
attribute	NC_GLOBAL	people_0_affiliation_acronym	String	SPMC
attribute	NC_GLOBAL	people_0_person_name	String	Suzanne Strom
attribute	NC_GLOBAL	people_0_person_nid	String	50471
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	Hannah Ake
attribute	NC_GLOBAL	people_1_person_nid	String	650173
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	Protist signaling
attribute	NC_GLOBAL	projects_0_acronym	String	Protist signaling
attribute	NC_GLOBAL	projects_0_description	String	Description from NSF proposal: This proposal arises from the central premise that the oxidative stress response is an emergent property of phototrophic cellular systems, with implications for nearly every aspect of a phytoplankton cell’s life in the upper ocean. Oxidative stress (OS) arises from the uncompensated production of reactive oxygen species (ROS) within a cell, which can occur in response to a myriad of environmental stressors (e.g. nutrient limitation, temperature extremes, toxins, variable light exposure). In addition to the biochemical damage and physiological impairment that OS can cause, the phytoplankton OS response also includes increased net production and extracellular release of ROS, osmolytes, and other compounds that are known or suspected to be potent signals regulating protist behavior. We hypothesize that, through chemical signaling, oxidative stress acts to govern relationships among environmental variability, phytoplankton condition, and protist predation. Our proposed study of these integrated signaling and response processes has three overarching objectives: 1) Create and characterize oxidatively stressed phytoplankton. We will use light stress (variable exposure to visible light and UV) to create oxidatively stressed phytoplankton in the laboratory. Common coastal taxa with contrasting stress responses will be characterized using an array of fluorescent probes, biochemical measurements, and physiological assays. In addition, intracellular production and extracellular release of ROS and the associated chemical signal DMSP will be quantified. Use of Phaeodactylum tricornutum light stress mutants will add an independent means of connecting OS to signal production and predation response. 2) Examine protist predator responses to oxidatively stressed phytoplankton and associated chemical signals. Responses will be investigated by means of manipulation experiments and thorough characterization of associated signal chemistry. Assessment of predator response will be via predation rate measurements and population aggregation/dispersal behaviors in structured columns. 3) Investigate the prevalence of OS, its environmental correlates, and the microzooplankton predation response in the natural waters of a well-characterized local embayment. Application of ROS probes and OS assays to the natural environment and the design of OS manipulation experiments will be informed by the laboratory experiments using local protist species. Our work will help to elucidate some of the multiple ways in which the OS response can affect phytoplankton fitness, contributing information that can be used to characterize the position of key coastal species along an OS response spectrum. Ultimately such information could be used in trait-based conceptual and numerical models in a manner analogous to cell size and other 'master traits'. Our research will also inform the relatively new and exciting field of chemical signaling in planktonic communities, exploring DMSP- and ROS-based signaling between two of the most significant groups in the plankton, the eukaryotic phytoplankton and their protist predators. Finally, findings will help elucidate the links between environmental stress, phytoplankton response, and predation in planktonic ecosystems. These links relate to central issues in biological oceanography, including the predator-prey interactions that influence bloom demise, and the mechanisms by which protists feed selectively and thereby structure prey communities. The proposed research is a cross-cutting endeavor that unites subjects usually studied in isolation through a novel conceptual framework. Thus the findings have the potential to generate broadly applicable new insights into the ecological and evolutionary regulation of this key trophic link in planktonic food webs.
attribute	NC_GLOBAL	projects_0_end_date	String	2017-08
attribute	NC_GLOBAL	projects_0_geolocation	String	Salish Sea: 48.5, -122.75
attribute	NC_GLOBAL	projects_0_name	String	Environmental stress and signaling based on reactive oxygen species among planktonic protists
attribute	NC_GLOBAL	projects_0_project_nid	String	614838
attribute	NC_GLOBAL	projects_0_start_date	String	2014-09
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	Cell size and chemical characteristics of five strains of coccolithophore Emiliania huxleyi (Protist signaling project)
attribute	NC_GLOBAL	title	String	[Emiliania size and chemical characteristics] - Cell size and chemical characteristics of five strains of coccolithophore Emiliania huxleyi (Protist signaling project) (Environmental stress and signaling based on reactive oxygen species among planktonic protists)
attribute	NC_GLOBAL	version	String	1
attribute	NC_GLOBAL	xml_source	String	osprey2erddap.update_xml() v1.3
variable	data_type		String
attribute	data_type	bcodmo_name	String	datatype
attribute	data_type	description	String	Description of the type of data found in the corresponding row.
attribute	data_type	long_name	String	Data Type
attribute	data_type	units	String	unitless
variable	CCMP1516		String
attribute	CCMP1516	bcodmo_name	String	sample
attribute	CCMP1516	description	String	Data for strain CCMP1516
attribute	CCMP1516	long_name	String	CCMP1516
attribute	CCMP1516	nerc_identifier	String	https://vocab.nerc.ac.uk/collection/P02/current/ACYC/
attribute	CCMP1516	units	String	unitless
variable	CCMP3268		String
attribute	CCMP3268	bcodmo_name	String	sample
attribute	CCMP3268	description	String	Data for strain CCMP3268
attribute	CCMP3268	long_name	String	CCMP3268
attribute	CCMP3268	nerc_identifier	String	https://vocab.nerc.ac.uk/collection/P02/current/ACYC/
attribute	CCMP3268	units	String	unitless
variable	CCMP3266		String
attribute	CCMP3266	bcodmo_name	String	sample
attribute	CCMP3266	description	String	Data for strain CCMP3266
attribute	CCMP3266	long_name	String	CCMP3266
attribute	CCMP3266	nerc_identifier	String	https://vocab.nerc.ac.uk/collection/P02/current/ACYC/
attribute	CCMP3266	units	String	unitless
variable	CCMP2668		String
attribute	CCMP2668	bcodmo_name	String	sample
attribute	CCMP2668	description	String	Data for strain CCMP2668
attribute	CCMP2668	long_name	String	CCMP2668
attribute	CCMP2668	nerc_identifier	String	https://vocab.nerc.ac.uk/collection/P02/current/ACYC/
attribute	CCMP2668	units	String	unitless
variable	NEZH		String
attribute	NEZH	bcodmo_name	String	sample
attribute	NEZH	description	String	Data for strain NEZH
attribute	NEZH	long_name	String	NEZH
attribute	NEZH	nerc_identifier	String	https://vocab.nerc.ac.uk/collection/P02/current/ACYC/
attribute	NEZH	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.