http://lod.bco-dmo.org/id/dataset/3873
eng; USA
utf8
dataset
Highest level of data collection, from a common set of sensors or instrumentation, usually within the same research project
Biological and Chemical Oceanography Data Management Office (BCO-DMO)
Unavailable
508-289-2009
WHOI MS#36
Woods Hole
MA
02543
USA
info@bco-dmo.org
http://www.bco-dmo.org
Monday - Friday 8:00am - 5:00pm
For questions regarding this resource, please contact BCO-DMO via the email address provided.
pointOfContact
2013-02-05
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Pulse Amplitude Modulation (PAM) fluorometry readings from microcosm experiments from samples collected by R/V E.O. Wilson in the Gulf of Mexico, Alabama (En-Gen DMSP Cycling project)
2012-11-19
publication
2012-11-19
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2019-11-01
publication
https://doi.org/10.1575/1912/bco-dmo.3873.1
Mary Ann Moran
University of Georgia
principalInvestigator
Ronald P. Kiene
Dauphin Island Sea Lab
principalInvestigator
William Whitman
University of Georgia
principalInvestigator
Biological and Chemical Oceanography Data Management Office (BCO-DMO)
Unavailable
508-289-2009
WHOI MS#36
Woods Hole
MA
02543
USA
info@bco-dmo.org
http://www.bco-dmo.org
Monday - Friday 8:00am - 5:00pm
For questions regarding this resource, please contact BCO-DMO via the email address provided.
publisher
Cite this dataset as: Moran, M. A., Kiene, R., Whitman, W. (2012) Pulse Amplitude Modulation (PAM) fluorometry readings from microcosm experiments from samples collected by R/V E.O. Wilson in the Gulf of Mexico, Alabama (En-Gen DMSP Cycling project). Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2012-11-19 [if applicable, indicate subset used]. doi:10.1575/1912/bco-dmo.3873.1 [access date]
Pulse Amplitude Modulation (PAM) fluorometry readings from microcosm experiments. Dataset Description: <p>Fv:Fm ratios from control and experimental microcosms from the Dauphin Island Cubitainer Experiment (DICE) measured using a Pulse Amplitude Modulation (PAM) fluorometer.</p> Methods and Sampling: <p>See Howard et al. 2010 and Rinta-Kanto et al. 2011 for detailed methods, summarized below:</p>
<p>"In October 2006, seawater was collected from surface waters (&lt;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.</p>
<p>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.</p>
<p>Fv:Fm ratios were measured using a Walz Water PAM (pulse amplitude modulation) fluorometer."</p>
<p><strong>Experimental design is further described in:</strong><br />
<strong>E. C. Howard</strong>, 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.<strong> </strong>DOI: <a href="http://dx.doi.org/10.1128/AEM.01457-10" target="_blank">10.1128/AEM.01457-10</a><br />
<strong>Rinta-Kanto</strong>, 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: <a href="http://dx.doi.org/10.1111/j.1462-2920.2010.02350.x" target="_blank">10.1111/j.1462-2920.2010.02350.x</a></p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-0724017 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=0724017
completed
Mary Ann Moran
University of Georgia
706-542-6481
Department of Marine Sciences
Athens
GA
30602
USA
mmoran@uga.edu
pointOfContact
Ronald P. Kiene
Dauphin Island Sea Lab
pointOfContact
William Whitman
University of Georgia
706-542-4219
Depmartment of Microbiogy 541 Biological Sciences
Athens
GA
30602
USA
whitman@uga.edu
pointOfContact
asNeeded
Dataset Version: 1
Unknown
lat
lon
site_desc
exp_day
month
day
year
microcosm
microcosm_type
exp_id
Fv_to_Fm_mean
Fv_to_Fm_sd
comments
Fv_to_Fm
bucket
Fluorometer
theme
None, User defined
latitude
longitude
site description
No BCO-DMO term
month of year
day of month
year
sample identification
sample description
experiment id
comments
featureType
BCO-DMO Standard Parameters
bucket
Fluorometer
instrument
BCO-DMO Standard Instruments
DMSP_Dauphin_Island
service
Deployment Activity
Gulf of Mexico, Alabama
place
Locations
otherRestrictions
otherRestrictions
Access Constraints: none. Use Constraints: Please follow guidelines at: http://www.bco-dmo.org/terms-use Distribution liability: Under no circumstances shall BCO-DMO be liable for any direct, incidental, special, consequential, indirect, or punitive damages that result from the use of, or the inability to use, the materials in this data submission. If you are dissatisfied with any materials in this data submission your sole and exclusive remedy is to discontinue use.
En-Gen: A Functional Genomics Approach to Organic Sulfur Cycling in the Ocean
https://osprey.bco-dmo.org/project/2244
En-Gen: A Functional Genomics Approach to Organic Sulfur Cycling in the Ocean
<p>The recent discovery of key genes that mediate competing pathways at a critical juncture in the marine sulfur cycle has allowed biogeochemists to make rapid advances in understanding where and when sulfur transformations occur in the ocean, and most importantly, what factors regulate them. This project describes an environmental functional genomics project that will rapidly increase our knowledge of the role that bacterioplankton play in dimethylsulfoniopropionate (DMSP) cycling in ocean surface waters, focusing particularly on biological controls of volatile sulfur exchange across the ocean/atmosphere boundary.</p>
<p>The investigators have asked three critical hypotheses to explain the regulation of bacterial DMSP degradation: that involve investigations on the energy constraints of DMSP cycling, the role that DMSP concentration in the oceans plays, and the sulfur requirements for bacterial growth. These research areas serve as the focus for hypothesis-driven laboratory and field studies using functional genomics approaches that will track patterns in gene expression in relation to sulfur metabolism. The hypotheses will be tested with:<br />
1) chemostat systems with a model marine bacterium Silicibacter pomeroyi;<br />
2) microcosm experiments with Gulf of Mexico seawater; and<br />
3) field studies at various sites in the Gulf of Mexico. Marine bacterioplankton play a key role in regulating the flux of DMSP-derived sulfur to the atmosphere, a process of great importance for global climate regulation and marine productivity.</p>
<p>The investigators will also be involved in graduate and undergraduate student education, and two post-doctoral associates will be trained to address multidisciplinary challenges in environmental microbiology. High school biology students in Athens, GA will participate in marine microbial biology research that includes bacterial diversity and discovery studies in coastal Georgia, follow-up training in molecular tools and bioinformatics in their own classroom, and summer internships at the University of Georgia and Dauphin Island Sea Laboratory.</p>
<p>(The description above is from the NSF Award Abstract).</p>
En-Gen DMSP Cycling
largerWorkCitation
project
eng; USA
oceans
Gulf of Mexico, Alabama
-87.99513
-87.99513
30.05068
30.05068
2006-10-10
2006-10-16
Sapelo Island, GA, USA, 31.4° N Lat, 81.3° W Lon / Dauphin Island, AL, USA, 30.3 ° N Lat, 88.1° W Lon
0
BCO-DMO catalogue of parameters from Pulse Amplitude Modulation (PAM) fluorometry readings from microcosm experiments from samples collected by R/V E.O. Wilson in the Gulf of Mexico, Alabama (En-Gen DMSP Cycling project)
Biological and Chemical Oceanography Data Management Office (BCO-DMO)
Unavailable
508-289-2009
WHOI MS#36
Woods Hole
MA
02543
USA
info@bco-dmo.org
http://www.bco-dmo.org
Monday - Friday 8:00am - 5:00pm
For questions regarding this resource, please contact BCO-DMO via the email address provided.
pointOfContact
http://lod.bco-dmo.org/id/dataset-parameter/32866.rdf
Name: lat
Units: decimal degrees
Description: <p>Latitude of the collection site. North = Positive.</p>
http://lod.bco-dmo.org/id/dataset-parameter/32867.rdf
Name: lon
Units: decimal degrees
Description: <p>Longitude of the collection site. West = Negative.</p>
http://lod.bco-dmo.org/id/dataset-parameter/32868.rdf
Name: site_desc
Units: text
Description: <p>Description of the sample collection site.</p>
http://lod.bco-dmo.org/id/dataset-parameter/32869.rdf
Name: exp_day
Units: unitless
Description: <p>Day of the experiment. First experimental day = T0. </p>
http://lod.bco-dmo.org/id/dataset-parameter/32870.rdf
Name: month
Units: mm (01 to 12)
Description: <p>2-digit month of year.</p>
http://lod.bco-dmo.org/id/dataset-parameter/32871.rdf
Name: day
Units: dd (01 to 31)
Description: <p>2-digit day of month.</p>
http://lod.bco-dmo.org/id/dataset-parameter/32872.rdf
Name: year
Units: unitless
Description: <p>4-digit year in YYYY format.</p>
http://lod.bco-dmo.org/id/dataset-parameter/32873.rdf
Name: microcosm
Units: unitless
Description: <p>Identifier of the microcosm. C0 and E0 are the time zero (initial) samples that represent the starting chl-a concentrations in the seawater.</p>
http://lod.bco-dmo.org/id/dataset-parameter/32874.rdf
Name: microcosm_type
Units: text
Description: <p>Type of microcosm: experimental or control.</p>
http://lod.bco-dmo.org/id/dataset-parameter/32875.rdf
Name: exp_id
Units: text
Description: <p>Name of the experiment. DICE = Dauphin Island Cubitainer Experiment.</p>
http://lod.bco-dmo.org/id/dataset-parameter/32876.rdf
Name: Fv_to_Fm_mean
Units: dimensionless
Description: <p>Mean of Fv_to_Fm measured in each microcosm each day.</p>
http://lod.bco-dmo.org/id/dataset-parameter/32877.rdf
Name: Fv_to_Fm_sd
Units: dimensionless
Description: <p>Standard deviation of Fv_to_Fm_mean.</p>
http://lod.bco-dmo.org/id/dataset-parameter/32878.rdf
Name: comments
Units: text
Description: <p>Free-text notes/comments.</p>
http://lod.bco-dmo.org/id/dataset-parameter/32879.rdf
Name: Fv_to_Fm
Units: dimensionless
Description: <p>Ratio of Fv to Fm; indicates the proportion of the maximum possible chlorophyll fluorescence.</p>
GB/NERC/BODC > British Oceanographic Data Centre, Natural Environment Research Council, United Kingdom
Biological and Chemical Oceanography Data Management Office (BCO-DMO)
Unavailable
508-289-2009
WHOI MS#36
Woods Hole
MA
02543
USA
info@bco-dmo.org
http://www.bco-dmo.org
Monday - Friday 8:00am - 5:00pm
For questions regarding this resource, please contact BCO-DMO via the email address provided.
pointOfContact
11878
https://darchive.mblwhoilibrary.org/bitstream/1912/24763/1/dataset-3873_fluorpam__v1.tsv
download
https://doi.org/10.1575/1912/bco-dmo.3873.1
download
onLine
dataset
<p>See Howard et al. 2010 and Rinta-Kanto et al. 2011 for detailed methods, summarized below:</p>
<p>"In October 2006, seawater was collected from surface waters (&lt;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.</p>
<p>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.</p>
<p>Fv:Fm ratios were measured using a Walz Water PAM (pulse amplitude modulation) fluorometer."</p>
<p><strong>Experimental design is further described in:</strong><br />
<strong>E. C. Howard</strong>, 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.<strong> </strong>DOI: <a href="http://dx.doi.org/10.1128/AEM.01457-10" target="_blank">10.1128/AEM.01457-10</a><br />
<strong>Rinta-Kanto</strong>, 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: <a href="http://dx.doi.org/10.1111/j.1462-2920.2010.02350.x" target="_blank">10.1111/j.1462-2920.2010.02350.x</a></p>
Specified by the Principal Investigator(s)
<p>BCO-DMO made the following changes:<br />
- Modified parameter names to conform with BCO-DMO naming conventions.<br />
- Replaced blanks with 'nd' to indicate 'no data'.<br />
- Separated date in day, month, and year columns.<br />
- Added the site coordinates provided in the publications above.</p>
Specified by the Principal Investigator(s)
asNeeded
7.x-1.1
Biological and Chemical Oceanography Data Management Office (BCO-DMO)
Unavailable
508-289-2009
WHOI MS#36
Woods Hole
MA
02543
USA
info@bco-dmo.org
http://www.bco-dmo.org
Monday - Friday 8:00am - 5:00pm
For questions regarding this resource, please contact BCO-DMO via the email address provided.
pointOfContact
bucket
bucket
PI Supplied Instrument Name: bucket PI Supplied Instrument Description:Water was collected in the field using a clean bucket. Instrument Name: bucket Instrument Short Name:bucket Instrument Description: A bucket used to collect surface sea water samples. Community Standard Description: http://vocab.nerc.ac.uk/collection/L22/current/TOOL0536/
Fluorometer
Fluorometer
PI Supplied Instrument Name: Fluorometer PI Supplied Instrument 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 Name: Fluorometer Instrument Short Name:Fluorometer Instrument 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. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/113/
Cruise: DMSP_Dauphin_Island
DMSP_Dauphin_Island
R/V E.O. Wilson
R/V E.O. Wilson
vessel
DMSP_Dauphin_Island
Mary Ann Moran
University of Georgia
R/V E.O. Wilson
R/V E.O. Wilson
vessel