ERDDAP > info > bcodmo_dataset_753431

Grid DAP Data	Sub- set	Table DAP Data	Make A Graph	W M S	Source Data Files	Acces- sible	Title	Sum- mary	ISO, Metadata	Back- ground Info	RSS	E mail	Institution	Dataset ID
		data	graph		files	public	Flow cytometry measurements from HHQ experiments conducted during the MesoHux mesocosm experiment, May 2017, Bergen, Norway		I   M	background			BCO-DMO	bcodmo_dataset_753431

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	Triplicate 5 mL samples were preserved for flow cytometry with 0.5% glutaraldehyde (final concentration), incubated at 4\u00b0C for 10 min and frozen (-80\u00b0C) until analysis (within 2-3 weeks; Kemp et al. 1993). To calculate phytoplankton group abundances, 200 \u00b5l aliquots of fixed sample were added to a 96-well plate and run on a Guava flow cytometer (Millipore). Filtered seawater (0.45 \u00b5m) was run as a blank\u00a0and instrument- specific beads were used to calibrate the cytometer. Samples were analyzed at low flow rate (0.24 \u00b5l s-1) for 3 min. Three major phytoplankton groups were distinguishable based on plots of forward scatter vs. orange (phycoerythrin-containing, Synechococcus spp.) or red (pico- and nanoeukaryotes) fluorescence signals (Worden and Binder 2003).\u00a0 Samples for enumerating bacteria were stained prior to running on the Guava in 0.5% v/v SybrGreen I DNA stain for 1 hour at room temperature in the dark. Mesocosm treatment for all HHQ experiments was as follows: Redfield: N:P added in a 16:1 ratio during the first 3 days of the experiment, no shading HHQ treatments here are as follows: High HHQ - 100 ng mL-1 (410 uM) added to triplicate 5L bottles. DMSO control - equivalent (v:v) DMSO added to triplicate 5L bottles. \u00a0All bottles were incubated for 24h in a flow-through tank, that was shaded to mimic in situ conditions. Chlorophyll samples were taken at T0 and T24 for all experiments. Data were processed in Excel with statistics run in Excel, R, or Matlab.
attribute	NC_GLOBAL	awards_0_award_nid	String	709952
attribute	NC_GLOBAL	awards_0_award_number	String	OCE-1657898
attribute	NC_GLOBAL	awards_0_data_url	String	http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1657898
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	HHQ Flow Cytometry from MesoHux mesocosm experiment, May 2017, Bergen, Norway PI: E. Harvey (SkIO) version: 2019-01-23
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	2019-01-23T17:23:32Z
attribute	NC_GLOBAL	date_modified	String	2019-03-14T19:39:56Z
attribute	NC_GLOBAL	defaultDataQuery	String	&time<now
attribute	NC_GLOBAL	doi	String	10.1575/1912/bco-dmo.753431.1
attribute	NC_GLOBAL	infoUrl	String	https://www.bco-dmo.org/dataset/753431
attribute	NC_GLOBAL	institution	String	BCO-DMO
attribute	NC_GLOBAL	instruments_0_acronym	String	Niskin bottle
attribute	NC_GLOBAL	instruments_0_dataset_instrument_description	String	Used to collect water samples.
attribute	NC_GLOBAL	instruments_0_dataset_instrument_nid	String	753438
attribute	NC_GLOBAL	instruments_0_description	String	A Niskin bottle (a next generation water sampler based on the Nansen bottle) is a cylindrical, non-metallic water collection device with stoppers at both ends. The bottles can be attached individually on a hydrowire or deployed in 12, 24 or 36 bottle Rosette systems mounted on a frame and combined with a CTD. Niskin bottles are used to collect discrete water samples for a range of measurements including pigments, nutrients, plankton, etc.
attribute	NC_GLOBAL	instruments_0_instrument_external_identifier	String	https://vocab.nerc.ac.uk/collection/L22/current/TOOL0412/
attribute	NC_GLOBAL	instruments_0_instrument_name	String	Niskin bottle
attribute	NC_GLOBAL	instruments_0_instrument_nid	String	413
attribute	NC_GLOBAL	instruments_0_supplied_name	String	5 L Niskin
attribute	NC_GLOBAL	instruments_1_acronym	String	Flow Cytometer
attribute	NC_GLOBAL	instruments_1_dataset_instrument_description	String	Used for cell counts
attribute	NC_GLOBAL	instruments_1_dataset_instrument_nid	String	753444
attribute	NC_GLOBAL	instruments_1_description	String	Flow cytometers (FC or FCM) are automated instruments that quantitate properties of single cells, one cell at a time. They can measure cell size, cell granularity, the amounts of cell components such as total DNA, newly synthesized DNA, gene expression as the amount messenger RNA for a particular gene, amounts of specific surface receptors, amounts of intracellular proteins, or transient signalling events in living cells. (from: http://www.bio.umass.edu/micro/immunology/facs542/facswhat.htm)
attribute	NC_GLOBAL	instruments_1_instrument_external_identifier	String	https://vocab.nerc.ac.uk/collection/L05/current/LAB37/
attribute	NC_GLOBAL	instruments_1_instrument_name	String	Flow Cytometer
attribute	NC_GLOBAL	instruments_1_instrument_nid	String	660
attribute	NC_GLOBAL	instruments_1_supplied_name	String	Millipore Guava inCyte BG HT flow cytometer
attribute	NC_GLOBAL	keywords	String	15um, bacteria, bco, bco-dmo, biological, chemical, data, dataset, date, dmo, erddap, experiment, Experiment_num, management, nanoeukaryotes, num, oceanography, office, phytoplankton, picoeukaryotes, preliminary, replication, sample, synechococcus, time, time2, total, Total_Phytoplankton_lt_15um
attribute	NC_GLOBAL	license	String	https://www.bco-dmo.org/dataset/753431/license
attribute	NC_GLOBAL	metadata_source	String	https://www.bco-dmo.org/api/dataset/753431
attribute	NC_GLOBAL	param_mapping	String	{'753431': {}}
attribute	NC_GLOBAL	parameter_source	String	https://www.bco-dmo.org/mapserver/dataset/753431/parameters
attribute	NC_GLOBAL	people_0_affiliation	String	Skidaway Institute of Oceanography
attribute	NC_GLOBAL	people_0_affiliation_acronym	String	SkIO
attribute	NC_GLOBAL	people_0_person_name	String	Elizabeth Harvey
attribute	NC_GLOBAL	people_0_person_nid	String	645518
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	University of Rhode Island
attribute	NC_GLOBAL	people_1_affiliation_acronym	String	URI
attribute	NC_GLOBAL	people_1_person_name	String	Dr David Rowley
attribute	NC_GLOBAL	people_1_person_nid	String	709954
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	Haverford College
attribute	NC_GLOBAL	people_2_affiliation_acronym	String	Haveford
attribute	NC_GLOBAL	people_2_person_name	String	Kristen E. Whalen
attribute	NC_GLOBAL	people_2_person_nid	String	709960
attribute	NC_GLOBAL	people_2_role	String	Co-Principal Investigator
attribute	NC_GLOBAL	people_2_role_type	String	originator
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	HHQSignals
attribute	NC_GLOBAL	projects_0_acronym	String	HHQSignals
attribute	NC_GLOBAL	projects_0_description	String	NSF Abstract: Bacteria and phytoplankton play a central role in the modification and flow of materials and nutrients through the marine environment. While it has been established that interactions between these two domains are complex, the mechanisms that underpin these interactions remain largely unknown. There is increasing recognition, however, that dissolved chemical cues govern these microbial interactions. This project focuses on establishing a mechanistic framework for how bacterially derived signaling molecules influence interactions between phytoplankton and bacteria. The quorum-sensing (QS) molecule, 2-heptyl-4-quinolone (HHQ) will be used as a model compound for these investigations. Previously published work suggests that exposure to very low levels of HHQ results in phytoplankton mortality. Gaining a mechanistic understanding of these ecologically important interactions will help to inform mathematical models for the accurate prediction of the cycling of material through the marine microbial loop. This work initiates a new, hybrid workshop-internship undergraduate research program in chemical ecology, with a focus Bacteria and phytoplankton play a central role in the modification and flow of materials and nutrients through the marine environment. While it has been established that interactions between these two domains are complex, the mechanisms that underpin these interactions remain largely unknown. There is increasing recognition, however, that dissolved chemical cues govern these microbial interactions. This project focuses on establishing a mechanistic framework for how bacterially derived signaling molecules influence interactions between phytoplankton and bacteria. The quorum-sensing (QS) molecule, 2-heptyl-4-quinolone (HHQ) will be used as a model compound for these investigations. Previously published work suggests that exposure to very low levels of HHQ results in phytoplankton mortality. Gaining a mechanistic understanding of these ecologically important interactions will help to inform mathematical models for the accurate prediction of the cycling of material through the marine microbial loop. This work initiates a new, hybrid workshop-internship undergraduate research program in chemical ecology, with a focus into bacteria-phytoplankton interactions. Undergraduate students participate in an intense summer learning experience where research and field-based exercises are supplemented with short-lecture based modules. Students return to their home institutions and work closely with the PIs to conduct interdisciplinary research relating to the aims and scope of the summer research. This research also provides training and career development to two graduate students and a postdoctoral scientist. Interactions between phytoplankton and bacteria play a central role in mediating biogeochemical cycling and microbial trophic structure in the ocean. The intricate relationships between these two domains of life are mediated via excreted molecules that facilitate communication and determine competitive outcomes. Despite their predicted importance, identifying these released compounds has remained a challenge. The PIs recently identified a bacterial QS molecule, HHQ, produced by globally distributed marine gamma-proteobacteria, which induces phytoplankton mortality. The PIs therefore hypothesize that bacteria QS signals are critical drivers of phytoplankton population dynamics and, ultimately, biogeochemical fluxes. This project investigates the timing and magnitude of HHQ production, and the physiological and transcriptomic responses of susceptible phytoplankton species to HHQ exposure, and quantifies the influence of HHQ on natural algal and bacterial assemblages. The work connects laboratory and field-based experiments to understand the governance of chemical signaling on marine microbial interactions, and has the potential to yield broadly applicable insights into how microbial interactions influence biogeochemical fluxes in the marine environment.
attribute	NC_GLOBAL	projects_0_end_date	String	2020-03
attribute	NC_GLOBAL	projects_0_geolocation	String	Bergen, Norway
attribute	NC_GLOBAL	projects_0_name	String	Collaborative Research: Building a framework for the role of bacterial-derived chemical signals in mediating phytoplankton population dynamics
attribute	NC_GLOBAL	projects_0_project_nid	String	709948
attribute	NC_GLOBAL	projects_0_start_date	String	2017-04
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 includes flow cytometry measurements from HHQ experiments conducted during the MesoHux mesocosm experiment, May 2017, Bergen, Norway. Microbial mesocosms were spiked with 2-heptyl-4-quinolone (HHQ).
attribute	NC_GLOBAL	title	String	Flow cytometry measurements from HHQ experiments conducted during the MesoHux mesocosm experiment, May 2017, Bergen, Norway
attribute	NC_GLOBAL	version	String	1
attribute	NC_GLOBAL	xml_source	String	osprey2erddap.update_xml() v1.3
variable	Date		String
attribute	Date	bcodmo_name	String	date
attribute	Date	description	String	sampling date formatted as Mon dd yyyy
attribute	Date	long_name	String	Date
attribute	Date	nerc_identifier	String	https://vocab.nerc.ac.uk/collection/P01/current/ADATAA01/
attribute	Date	units	String	unitless
variable	Sample		String
attribute	Sample	bcodmo_name	String	sample
attribute	Sample	description	String	sample identifier
attribute	Sample	long_name	String	Sample
attribute	Sample	nerc_identifier	String	https://vocab.nerc.ac.uk/collection/P02/current/ACYC/
attribute	Sample	units	String	unitless
variable	Experiment_num		byte
attribute	Experiment_num	_FillValue	byte	127
attribute	Experiment_num	actual_range	byte	1, 8
attribute	Experiment_num	bcodmo_name	String	exp_id
attribute	Experiment_num	description	String	experiment number
attribute	Experiment_num	long_name	String	Experiment Num
attribute	Experiment_num	units	String	unitless
variable	time2		byte
attribute	time2	_FillValue	byte	127
attribute	time2	actual_range	byte	0, 24
attribute	time2	bcodmo_name	String	incubation time
attribute	time2	description	String	time since start of experiment
attribute	time2	long_name	String	Time
attribute	time2	nerc_identifier	String	https://vocab.nerc.ac.uk/collection/P01/current/AZDRZZ01/
attribute	time2	units	String	hours
variable	Replication		byte
attribute	Replication	_FillValue	byte	127
attribute	Replication	actual_range	byte	1, 3
attribute	Replication	bcodmo_name	String	replicate
attribute	Replication	description	String	replicate number
attribute	Replication	long_name	String	Replication
attribute	Replication	units	String	unitless
variable	Bacteria		int
attribute	Bacteria	_FillValue	int	2147483647
attribute	Bacteria	actual_range	int	517817, 2152006
attribute	Bacteria	bcodmo_name	String	cell_concentration
attribute	Bacteria	description	String	number of bacterial cells
attribute	Bacteria	long_name	String	Bacteria
attribute	Bacteria	units	String	cells/milliliter
variable	Synechococcus		short
attribute	Synechococcus	_FillValue	short	32767
attribute	Synechococcus	actual_range	short	420, 25704
attribute	Synechococcus	bcodmo_name	String	cell_concentration
attribute	Synechococcus	description	String	number of Synechococcus cells
attribute	Synechococcus	long_name	String	Synechococcus
attribute	Synechococcus	units	String	cells/milliliter
variable	Picoeukaryotes		int
attribute	Picoeukaryotes	_FillValue	int	2147483647
attribute	Picoeukaryotes	actual_range	int	551, 40121
attribute	Picoeukaryotes	bcodmo_name	String	cell_concentration
attribute	Picoeukaryotes	description	String	number of Picoeukaryotes cells
attribute	Picoeukaryotes	long_name	String	Picoeukaryotes
attribute	Picoeukaryotes	units	String	cells/milliliter
variable	Nanoeukaryotes		short
attribute	Nanoeukaryotes	_FillValue	short	32767
attribute	Nanoeukaryotes	actual_range	short	374, 32076
attribute	Nanoeukaryotes	bcodmo_name	String	cell_concentration
attribute	Nanoeukaryotes	description	String	number of Nanoeukaryotes cells
attribute	Nanoeukaryotes	long_name	String	Nanoeukaryotes
attribute	Nanoeukaryotes	units	String	cells/milliliter
variable	Total_Phytoplankton_lt_15um		int
attribute	Total_Phytoplankton_lt_15um	_FillValue	int	2147483647
attribute	Total_Phytoplankton_lt_15um	actual_range	int	2592, 73204
attribute	Total_Phytoplankton_lt_15um	bcodmo_name	String	cell_concentration
attribute	Total_Phytoplankton_lt_15um	description	String	total number of phytoplankton cells less than 15 microns in diameter
attribute	Total_Phytoplankton_lt_15um	long_name	String	Total Phytoplankton Lt 15um
attribute	Total_Phytoplankton_lt_15um	units	String	cells/milliliter

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.