Dataset: fluor_PAM
Deployment: DMSP_Dauphin_Island

Pulse Amplitude Modulation (PAM) fluorometry readings from microcosm experiments.

Principal Investigator:

Mary Ann Moran (University of Georgia, UGA)

Co-Principal Investigator:

Ronald P. Kiene (Dauphin Island Sea Lab, DISL)

William Whitman (University of Georgia, UGA)

BCO-DMO Data Manager:

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

Project:

En-Gen: A Functional Genomics Approach to Organic Sulfur Cycling in the Ocean (En-Gen DMSP Cycling )

Current State:

Final no updates expected

Version:

19 Nov 2012

Version Date:

2012-11-19

Data URL:

https://www.bco-dmo.org/dataset-deployment/455749/data

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Description

Fv:Fm ratios from control and experimental microcosms from the Dauphin Island Cubitainer Experiment (DICE) measured using a Pulse Amplitude Modulation (PAM) fluorometer.

Methods & Sampling

Dataset acquisition description

See Howard et al. 2010 and Rinta-Kanto et al. 2011 for detailed methods, summarized below:

"In October 2006, seawater was collected from surface waters (<1 m deep) in the Gulf of Mexico off the coast of Dauphin Island, AL (lat: 30 03.041N; lon: 87 59.708W). Water was filtered through a 200-um mesh into six 20-liter polyethylene Cubitainers with minimal headspace.

Three microcosms were amended with 10 um sodium nitrate (NaNO3) and 0.6 um potassium phosphate (K2HPO4) to serve as the experimental microcosms. Three microcosms were left untreated to serve as the control. The Cubitainers were maintained at 27 degrees C on a 12-hour light/dark cycle for the duration of the experiment.

Fv:Fm ratios were measured using a Walz Water PAM (pulse amplitude modulation) fluorometer."

Experimental design is further described in:
E. C. Howard, S. Sun, C. R. Reisch, D. A. del Valle, R. P. Kiene, and M. A. Moran (2010). Changes in DMSP Demethylase Gene Assemblages in Response to an Induced Phytoplankton Bloom. Applied and Environmental Microbiology, vol. 77, p. 524. DOI: 10.1128/AEM.01457-10
Rinta-Kanto, H. Burgmann, S. M. Gifford, S. Sun, S. Sharma, R. P. Kiene, and M. A. Moran (2011). Analysis of Sulfur-Related Gene Expression by Roseobacter Communities Using a Taxon-Specific Functional Gene Microarray. Environmental Microbiology, vol. 13, p. 453. DOI: 10.1111/j.1462-2920.2010.02350.x

Data Processing Description

Dataset Processing Description

BCO-DMO made the following changes:
- Modified parameter names to conform with BCO-DMO naming conventions.
- Replaced blanks with 'nd' to indicate 'no data'.
- Separated date in day, month, and year columns.
- Added the site coordinates provided in the publications above.

More information about this dataset deployment

Funding

Award Number	Funding Source
OCE-0724017	NSF Division of Ocean Sciences

Instruments

bucket

Supplied Description:

Water was collected in the field using a clean bucket.

Instrument Type

Generic Name: bucket

Community Identifier: http://vocab.nerc.ac.uk/collection/L22/current/TOOL0536/

Generic Description:

A bucket used to collect surface sea water samples.

Fluorometer

Supplied Description:

A Walz Water PAM (pulse amplitude modulation) fluorometer was used to determine Fv:Fm. PAM fluorometers emit a range of pulsed lights to measure photosynthesis. The pulses of light are modulated, and the amplitude of the pulse of light governs its intensity. See more information from the manufacturer.

Instrument Type

Generic Name: Fluorometer

Community Identifier: http://vocab.nerc.ac.uk/collection/L05/current/113/

Generic Description:

A fluorometer or fluorimeter is a device used to measure parameters of fluorescence: its intensity and wavelength distribution of emission spectrum after excitation by a certain spectrum of light. The instrument is designed to measure the amount of stimulated electromagnetic radiation produced by pulses of electromagnetic radiation emitted into a water sample or in situ.

Parameters

Supplied Name	Supplied description	Supplied Units	Standard Name
lat	Latitude of the collection site. North = Positive.	decimal degrees	lat
lon	Longitude of the collection site. West = Negative.	decimal degrees	lon
site_desc	Description of the sample collection site.	text	site_descrip
exp_day	Day of the experiment. First experimental day = T0.	unitless	no_bcodmo_term
month	2-digit month of year.	mm (01 to 12)	month
day	2-digit day of month.	dd (01 to 31)	day
year	4-digit year in YYYY format.	unitless	year
microcosm	Identifier of the microcosm. C0 and E0 are the time zero (initial) samples that represent the starting chl-a concentrations in the seawater.	unitless	sample
microcosm_type	Type of microcosm: experimental or control.	text	sample_descrip
exp_id	Name of the experiment. DICE = Dauphin Island Cubitainer Experiment.	text	exp_id
Fv_to_Fm_mean	Mean of Fv_to_Fm measured in each microcosm each day.	dimensionless	no_bcodmo_term
Fv_to_Fm_sd	Standard deviation of Fv_to_Fm_mean.	dimensionless	no_bcodmo_term
comments	Free-text notes/comments.	text	comment
Fv_to_Fm	Ratio of Fv to Fm; indicates the proportion of the maximum possible chlorophyll fluorescence.	dimensionless	no_bcodmo_term

Database

Contribute Data

Dataset: fluor_PAM
Deployment: DMSP_Dauphin_Island

Dataset acquisition description

Dataset Processing Description

Database

Contribute Data

Dataset: fluor_PAMDeployment: DMSP_Dauphin_Island

Dataset acquisition description

Dataset Processing Description

Dataset: fluor_PAM
Deployment: DMSP_Dauphin_Island