Dataset: Switch 2014 Metadata
Deployment: Moran_Monterey_2014

Cell abundance, nutrient, DMSP concentrations from mesocosm experiment

Principal Investigator:

Mary Ann Moran (University of Georgia, UGA)

Co-Principal Investigator:

James M. Birch (Monterey Bay Aquarium Research Institute, MBARI)

Ronald P. Kiene (University of South Alabama, USA)

Contact:

Marine Landa (University of Georgia, UGA)

BCO-DMO Data Manager:

Nancy Copley (Woods Hole Oceanographic Institution, WHOI BCO-DMO)

Project:

Bacterial Taxa that Control Sulfur Flux from the Ocean to the Atmosphere (OceanSulfurFluxBact)

Current State:

Final no updates expected

Version Date:

2016-10-25

Data URL:

https://www.bco-dmo.org/dataset-deployment/662995/data

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Description

Methods & Sampling

Dataset acquisition description

Cell counts: Ruegeria pomeroyi, Thalassiosira pseudonana, and Alexandrium tamarense cells were measured using a flow cytometer.

DIN: Cadmium reduction method; Nitrate is measured by reducing it to nitrite in an alkaline-buffered solution passing through a column of copper-cadmium metal filings and then measuring nitrite by diazotizing with sulfanilamide and coupling with N-(1-naphthyl)-ethylenediamine dihydrochloride to form a pink colored azo dye which is measured colorimetrically. Instrument: Alpkem and Astoria-Pacific Autoanalyzers

DIP: Orthophosphate method; PO4 is measured colorimetrically as an antimony-phospho-molybdate complex (APHA 4500-P F) that is reduced to an intensely blue-colored complex by ascorbic acid. Instrument: Alpkem and Astoria-Pacific Autoanalyzers

DOC: Combustion method; Total dissolved carbon and dissolved inorganic carbon are determined by combustion of an unacidified and acidified 0.2 micron filtered subsamples. DOC concentration is calculated by subtracting the DIC concentration from the TDC concentration. Instrument: Shimadzu TOC-5000A Total Organic Carbon Analyzer

TOC: Combustion method; Total organic carbon is determined by combustion of an unacidified and unfiltered sample. Instrument: Shimadzu TOC-5000A Total Organic Carbon Analyzer

DMSP: See: Rellinger, A., et al. Occurrence and turnover of DMSP and DMS in deep waters of the Ross Sea, Antarctica. Deep-Sea Research I 56 (2009) 686–702. doi:10.1016/j.dsr.2008.12.010

Data Processing Description

Dataset Processing Description

BCO-DMO Processing notes:
- added conventional header with dataset name, PI name, version date
- modified parameter names to conform with BCO-DMO naming conventions
- replaced commas with underscores

More information about this dataset deployment

Funding

Award Number	Funding Source
OCE-1342694	NSF Division of Ocean Sciences

Instruments

Flow Cytometer

Supplied Name: flow cytometer

Supplied Description:

To measure abundance of cells.

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)

Gas Chromatograph

Supplied Name: Shimadzu GC-2014 gas chromatograph equipped with a Chromosil 330 column and a flame photometric detector for quantification

Supplied Description:

To measure DMSP concentrations

Instrument Type

Generic Name: Gas Chromatograph

Community Identifier: http://vocab.nerc.ac.uk/collection/L05/current/LAB02/

Generic Description:

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)

Nutrient Autoanalyzer

Supplied Name: Alpkem and Astoria-Pacific Autoanalyzers

Supplied Description:

To measure DIN and DIP

Instrument Type

Generic Name: Nutrient Autoanalyzer

Community Identifier: http://vocab.nerc.ac.uk/collection/L05/current/LAB04/

Generic Description:

Nutrient Autoanalyzer is a generic term used when specific type, make and model were not specified. In general, a Nutrient Autoanalyzer is an automated flow-thru system for doing nutrient analysis (nitrate, ammonium, orthophosphate, and silicate) on seawater samples.

Total Organic Carbon Analyzer

Supplied Name: Shimadzu TOC-5000A Total Organic Carbon Analyzer

Supplied Description:

To measure DOC and TOC

Instrument Type

Generic Name: Total Organic Carbon Analyzer

Acronym: TOC analyzer

Community Identifier: http://vocab.nerc.ac.uk/collection/L05/current/LAB04/

Generic Description:

A unit that accurately determines the carbon concentrations of organic compounds typically by detecting and measuring its combustion product (CO2). See description document at: http://bcodata.whoi.edu/LaurentianGreatLakes_Chemistry/bs116.pdf

Parameters

Supplied Name	Supplied description	Supplied Units	Standard Name
timepoint	Time point	unitless	time
cubitainer	Cubitainer identification: treatment and replicate number	unitless	sample
Ruegeria_pomeroyi	Number of bacterial cells per ml of culture; determined by flow cytometry	cells/milliliter	bact_abund
Thalassiosira_pseudonana	Number of diatom cells per ml of culture; determined by flow cytometry	cells/milliliter	diatom
Alexandrium_tamarense	Number of dinoflagellate cells per ml of culture; determined by flow cytometry	cells/milliliter	dino_tot
DIN	Concentrations of dissolved inorganic nitrogen; infered from the measurements of nitrate and nitrite concentrations.	micromoles/liter of culture	DIN
DIP	Concentrations of dissolved inorganic phosphorus; infered from the measurements of phosphate concentrations.	micromoles/liter of culture	DIP
DOC	Concentrations of dissolved organic carbon	micromoles/liter of culture	DOC
TOC	Concentrations of total organic carbon	micromoles/liter of culture	TOC
DMSP_total	Total dimethylsufoniopropionate concentrations	nanomoles/liter of culture	DMSP
DMSP_diss	Dissolved dimethylsufoniopropionate concentrations	nanomoles/liter of culture	DMSP

Database

Contribute Data

Dataset: Switch 2014 Metadata
Deployment: Moran_Monterey_2014

Dataset acquisition description

Dataset Processing Description

Database

Contribute Data

Dataset: Switch 2014 MetadataDeployment: Moran_Monterey_2014

Dataset acquisition description

Dataset Processing Description

Dataset: Switch 2014 Metadata
Deployment: Moran_Monterey_2014