Dataset: bacterial_production
Deployment: DMSP_Dauphin_Island

Bacterial production in 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://osprey.bco-dmo.org/dataset-deployment/455748/data

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Description

Bacterial production measurements from control and experimental microcosms from the Dauphin Island Cubitainer Experiment (DICE).

Experimental design, methods, and results are 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
Vila-Costa, M., J. M. Rinta-Kanto, S. Sun, S. Sharma, R. Poretsky, and M. A. Moran. (2010). Transcriptomic analysis of a marine bacterial community enriched with dimethylsulfoniopropionate. ISME Journal, vol. 4, p. 1410. DOI: 10.1038/ismej.2010.62

Methods & Sampling

Dataset acquisition description

See Howard et al. (2010), Rinta-Kanto et al. (2011), and Vila-Coast et al. (2010) 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.

Chemical and activity measurements were collected from the microcosms at the beginning of the experiment (Day 0) and every day for the duration of the experiment at the same time. Bacterial production was measured by 3H-leucine incorporation into trichloroacetic acid (TCA) -insoluble material. Incubations were carried out in triplicate in the dark at in situ temperature with additions of 20 nM of 3H-leucine for 4 hours, starting immediately after water collection. One TCA-killed sample was used as a control. Samples were processed by the microcentrifugation method. Bacterial sulfur requirements were estimated through conversion of bacterial heterotrophic production assuming a bacterial C/S molar ratio of 248."

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'.
- 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.

Parameters

Supplied Name	Supplied description	Supplied Units	Standard Name
exp_id	Name of the experiment. DICE = Dauphin Island Cubitainer Experiment.	text	exp_id
lat	Latitude of the sample collection site. North = Positive.	decimal degree	lat
lon	Longitude of the sample collection. West = Negative.	decimal degree	lon
site_desc	Description of the sample collection site.	text	site_descrip
microcosm	Identifier for the microcosm experiment. C1 and C2 were control microcosms containing Gulf of Mexico seawater. E1 and E2 were experimental microcosms containing Gulf of Mexico seawater amended with inorganic N and P.	text	sample
microcosm_type	Type of microcosm. Experimental or Control.	text	sample_descrip
exp_day	Sequential day of the experiment. Day 0 = start of the experiment.	integer	no_bcodmo_term
mean	Calculated average of triplicates (including the blank).	dpm	no_bcodmo_term
mean_minus_blank	Average corrected for the blank.	dpm	no_bcodmo_term
stdev	Standard deviation of the mean.	dpm	no_bcodmo_term
coeff_var	Coefficient of variation of the mean.	%	no_bcodmo_term
inc_time	Incubation time.	hours	no_bcodmo_term
leu_inc_per_h	Measure of bacterial production in nanomoles of radiolabeled leucine incorporated per hour of incubation.	nM Leu per hour	no_bcodmo_term
leu_inc_per_d	Measure of bacterial production in nanomoles of radiolabeled leucine incorporated per day of incubation.	nM Leu per day	no_bcodmo_term
stdev_calc	Estimated variation about the mean based on % CV in specific activity measurements.	nM Leu per day	no_bcodmo_term
bact_prod	Measure of bacterial Carbon production in nanomoles of carbon substrate converted to bacterial biomass each day.	nM Carbon per day	no_bcodmo_term
bact_prod_err	Estimated variation about the mean of bacterial production based on % CV in specific activity measurements.	nM Carbon per day	no_bcodmo_term
bact_C_demand	Nanomoles of carbon substrate needed by bacteria each day, including bacterial production and bacterial respiration. This assumes a bacterial growth efficiency of 15%.	nM Carbon per day	no_bcodmo_term
bact_C_demand_err	Estimated variation about the mean of bacterial carbon demand based on % CV in specific activity measurements.	nM Carbon per day	no_bcodmo_term
bact_S_prod	Nanomoles of sulfur substrate needed by bacteria each day. This assumes a C:S ratio of 248 in bacterial biomass.	nM Sulfur per day	no_bcodmo_term
replicate	Replicate identifier. a, b, and c are replicate samples from the same treatment. blank is a killed control, with formaldehyde added prior to addition of isotope.	unitless	replicate
dpm	Disintegrations per minute (dpm) measured per replicate.	dpm	no_bcodmo_term

Database

Contribute Data

Dataset: bacterial_production
Deployment: DMSP_Dauphin_Island

Dataset acquisition description

Dataset Processing Description

Database

Contribute Data

Dataset: bacterial_productionDeployment: DMSP_Dauphin_Island

Dataset acquisition description

Dataset Processing Description

Dataset: bacterial_production
Deployment: DMSP_Dauphin_Island