Dataset: picophyto_FCM_ship
Deployment: MV1008

Picophytoplankton abundances of live samples determined by flow cytometry (shipboard analysis).

Principal Investigator:

Michael R. Landry (University of California-San Diego, UCSD-SIO)

Contact:

Karen E. Selph (University of Hawaii at Manoa, SOEST)

BCO-DMO Data Manager:

Shannon Rauch (Woods Hole Oceanographic Institution, WHOI BCO-DMO)

Project:

Costa Rica Dome FLUx and Zinc Experiments (CRD FLUZiE)

Current State:

Final no updates expected

Version:

02 June 2014

Version Date:

2014-06-02

Data URL:

https://www.bco-dmo.org/dataset-deployment/516333/data

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Description

Picophytoplankton abundances from live samples were analyzed within 1-3 hrs on a Beckman-Coulter EPIC XL flow cytometer. Cell populations include Synechococcus and Photosynthetic Eukaryotes. Samples were collected on the MV1008 cruise in the Costa Rica Dome (CRD) region of the Eastern Tropical Pacific Ocean.

Methods & Sampling

Dataset acquisition description

Samples were collected from the CTD-Rosette PVC Niskin bottles, kept on ice in the dark until analyzed within 1-3 hr on a Beckman-Coulter EPICS XL flow cytometer, equipped with one 488 nm 1 mW laser for excitation. Samples (2.2 mL) were delivered quantitatively to the instrument using an Orion syringe pump, at a rate of 0.44 mL per minute. Signals from the Chlorophyll (680±20 nm), Phycoerythrin (575±20 nm), and the forward and side scatter detectors were used to delineate Synechococcus, and Photosynthetic eukaryotes. Calibration beads (6 um and 20 um yellow-green beads) were used to normalize cellular fluorescence values and assure optimal instrument settings. Raw data files (listmode) were processed in FlowJo software (Treestar Inc.).

Data Processing Description

Dataset Processing Description

Raw data, representing 2.2 mL of sample, was corrected for run volume, to arrive at cellular concentrations (cells/mL).

More information about this dataset deployment

Funding

Award Number	Funding Source
OCE-0826626	NSF Division of Ocean Sciences

Instruments

Flow Cytometer

Supplied Name: Beckman-Coulter Altra flow cytometer

Supplied Description:

Samples were run on a Beckman-Coulter Altra flow cytometer, equipped with one 488 nm 1W laser for excitation.

Instrument Type

Generic Name: Flow Cytometer

Community Identifier: http://vocab.nerc.ac.uk/collection/L05/current/LAB37/

Generic Description:

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)

Niskin bottle

Supplied Description:

Samples were collected from the CTD-Rosette PVC Niskin bottles.

Instrument Type

Generic Name: Niskin bottle

Community Identifier: http://vocab.nerc.ac.uk/collection/L22/current/TOOL0412/

Generic Description:

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.

Parameters

Supplied Name	Supplied description	Supplied Units	Standard Name
event	Number referring to the particular activity (event) on the FluZiE cruise.	integer	event
cast	CTD Cast number from the FluZiE cruise.	integer	cast
niskin	Niskin bottle that the sample was taken from.	integer	bot_Nis
date_local	Date of CTD cast (local time zone of UTC -6). in the format mmddyyyy	unitless	date
lon	Longitude in degrees East.	decimal degrees	lon
lat	Latitude in degrees North.	decimal degrees	lat
depth	Sample depth.	meters	depth
cycle	Type and number of cruise sampling event. Either "Stn_n" or "Cycle_n". A transect of stations was sampled from 29 June to 03 July. Five quasi-Lagrangian experiments called "cycles" were conducted during the remainder of the cruise.	text	no_bcodmo_term
coccus_s	Abundance of Synechococcus abundance.	cells per milliliter (cells/mL)	coccus_s
peuk	Abundance of Photosynthetic Eukaryotes.	cells per milliliter (cells/mL)	pico_euks

Database

Contribute Data

Dataset: picophyto_FCM_ship
Deployment: MV1008

Dataset acquisition description

Dataset Processing Description

Database

Contribute Data

Dataset: picophyto_FCM_shipDeployment: MV1008

Dataset acquisition description

Dataset Processing Description

Dataset: picophyto_FCM_ship
Deployment: MV1008