http://lod.bco-dmo.org/id/dataset/3857
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
2013-01-17
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Experimental results: summary of microcosm data from Dauphin Island Cubitainer Experiment (DICE) 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.3857.1
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) Experimental results: summary of microcosm data from Dauphin Island Cubitainer Experiment (DICE) 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.3857.1 [access date]
Summary of microcosm data from Dauphin Island Cubitainer Experiment (DICE). Dataset Description: <p>Summary of parameters measured in experimental and control microcosms as part of the Dauphin Island Cubitainer Experiment (DICE).</p>
<p>Experimental design, methods, and results are further described in Howard et al. (2010) and Rinta-Kanto et al. (2011).</p> Methods and Sampling: <p>See Howard et al. 2011 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>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. Chlorophyll-a samples were collected by filtration on Whatman GF/F fiters. The filters were extracted in 90% acetone for 24 hours at -20 degrees C. The extracts were quantified by fluorometry on a Turner Designs TD-700.</p>
<p>Samples for dissolved dimethylsulfoniopropionate (DMSPd) were collected by filtration through GF/F filters. Total dimethylsulfoniopropionate (DMSP), dissolved + particulate, was measured by acidifying whole seawater with 5 ul per ml of 50% H2SO4. Dissolved and total DMSP were quantified as dimethylsulfide (DMS) after alkaline hydrolysis. Bacterial production was measured by [3H]leucine incorporation.</p>
<p>Rates of DMSPd consumption were determined by multiplying the DMSPd concentrations by their respective DMSPd loss rate constant from parallel samples. DMSPd consumption rate constants were determined by measuring the loss of tracer levels of [35S]-DMSP from the dissolved (&lt; 0.2 um) pool over time. DMS production and DMS yield (ratio of DMS production to DMSPd consumption) were measured as described in Vila-Costa et al. (2008)"</p>
<p>References:<br />
Vila-Costa, M., Kiene, R.P., and Simó, R. (2008) Seasonal variability of the dynamics of dimethylated sulfur compounds in a coastal northwest mediterranean site. Limnol Oceanogr 53: 198–211.</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
exp_id
lat
lon
site_desc
microcosm
microcosm_type
exp_day
leu_inc_rate
leu_inc_rate_sd
chl_a
chl_a_sd
Fv_to_Fm
Fv_to_Fm_sd
sulfate_yield
sulfate_yield_sd
DMSP_tot
DMSP_tot_sd
DMSO
DMSO_sd
DMSO_yield
DMSO_yield_sd
DMSPd
DMSPd_sd
DMSPd_rate_const
DMSPd_rate_const_sd
DMSPd_consump
DMSPd_consump_sd
DMSPd_assim
DMSPd_assim_sd
DMSPd_uptake
DMSPd_uptake_sd
DMS
DMS_sd
DMS_rate_const
DMS_rate_const_sd
DMS_consump
DMS_consump_sd
DMS_assim
DMS_assim_sd
DMS_yield
DMS_yield_sd
bucket
Turner Designs 700 Laboratory Fluorometer
theme
None, User defined
experiment id
latitude
longitude
site description
sample identification
sample description
No BCO-DMO term
chlorophyll-a; fluorometric method
featureType
BCO-DMO Standard Parameters
bucket
Turner Designs 700 Laboratory 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
2006-10-01
2006-10-31
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 Experimental results: summary of microcosm data from Dauphin Island Cubitainer Experiment (DICE) 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/32134.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/32135.rdf
Name: lat
Units: decimal degree
Description: <p>Latitude of the sample collection site. North = Positive.</p>
http://lod.bco-dmo.org/id/dataset-parameter/32136.rdf
Name: lon
Units: decimal degree
Description: <p>Longitude of the sample collection. West = Negative.</p>
http://lod.bco-dmo.org/id/dataset-parameter/32137.rdf
Name: site_desc
Units: text
Description: <p>Description of the sample collection site.</p>
http://lod.bco-dmo.org/id/dataset-parameter/32138.rdf
Name: microcosm
Units: text
Description: <p>Identifier for the microcosm experiment.<br /><br />
C1 and C2 were control microcosms containing Gulf of Mexico seawater.<br /><br />
E1 and E2 were experimental microcosms containing Gulf of Mexico seawater amended with inorganic N and P.</p>
http://lod.bco-dmo.org/id/dataset-parameter/32139.rdf
Name: microcosm_type
Units: text
Description: <p>Type of microcosm. Experimental or Control.</p>
http://lod.bco-dmo.org/id/dataset-parameter/32140.rdf
Name: exp_day
Units: integer
Description: <p>Sequential day of the experiment. Day 0 = start of the experiment.</p>
http://lod.bco-dmo.org/id/dataset-parameter/32141.rdf
Name: leu_inc_rate
Units: nM/d
Description: <p>Amount of leucine incorporated into bacterial protein per day.</p>
http://lod.bco-dmo.org/id/dataset-parameter/32142.rdf
Name: leu_inc_rate_sd
Units: nM/d
Description: <p>Standard deviation of leu_inc_rate.</p>
http://lod.bco-dmo.org/id/dataset-parameter/32143.rdf
Name: chl_a
Units: ug/L
Description: <p>Concentration of chlorophyll a.</p>
http://lod.bco-dmo.org/id/dataset-parameter/32144.rdf
Name: chl_a_sd
Units: ug/L
Description: <p>Standard deviation of chl_a.</p>
http://lod.bco-dmo.org/id/dataset-parameter/32145.rdf
Name: Fv_to_Fm
Units: dimensionless
Description: <p>Ratio of Fv to Fm; chlorophyll fluorescence.</p>
http://lod.bco-dmo.org/id/dataset-parameter/32146.rdf
Name: Fv_to_Fm_sd
Units: dimensionless
Description: <p>Standard deviation of Fv_to_Fm.</p>
http://lod.bco-dmo.org/id/dataset-parameter/32147.rdf
Name: sulfate_yield
Units: %
Description: <p>DMS consumption - sulfate = percent of radiolabeled DMS released into the medium as sulfate.</p>
http://lod.bco-dmo.org/id/dataset-parameter/32148.rdf
Name: sulfate_yield_sd
Units: %
Description: <p>Standard deviation of sulfate_yield.</p>
http://lod.bco-dmo.org/id/dataset-parameter/32149.rdf
Name: DMSP_tot
Units: nM
Description: <p>Concentration of total dimethylsulfoniopropionate (DMSP). This is the sum of particulate and dissolved DMSP (DMSPp + DMSPd).</p>
http://lod.bco-dmo.org/id/dataset-parameter/32150.rdf
Name: DMSP_tot_sd
Units: nM
Description: <p>Standard deviation of DMSP_tot.</p>
http://lod.bco-dmo.org/id/dataset-parameter/32151.rdf
Name: DMSO
Units: nM
Description: <p>Dimethylsulfoxide (DMSO) concentration.</p>
http://lod.bco-dmo.org/id/dataset-parameter/32152.rdf
Name: DMSO_sd
Units: nM
Description: <p>Standard deviation of DMSO.</p>
http://lod.bco-dmo.org/id/dataset-parameter/32153.rdf
Name: DMSO_yield
Units: %
Description: <p>A measure of dimethylsulfide (DMS) consumption. DMSO yield = percent of radiolabeled DMS released into the medium as dimethylsulfoxide (DMSO).</p>
http://lod.bco-dmo.org/id/dataset-parameter/32154.rdf
Name: DMSO_yield_sd
Units: %
Description: <p>Standard deviation of DMSO_yield.</p>
http://lod.bco-dmo.org/id/dataset-parameter/32155.rdf
Name: DMSPd
Units: nM
Description: <p>Dissolved dimethylsulfoniopropionate (DMSPd) concentration.</p>
http://lod.bco-dmo.org/id/dataset-parameter/32156.rdf
Name: DMSPd_sd
Units: nM
Description: <p>Standard deviation of DMSPd.</p>
http://lod.bco-dmo.org/id/dataset-parameter/32157.rdf
Name: DMSPd_rate_const
Units: 1/d
Description: <p>Dissolved dimethylsulfoniopropionate (DMSPd) rate constant; the fraction of DMSPd removed per day.</p>
http://lod.bco-dmo.org/id/dataset-parameter/32158.rdf
Name: DMSPd_rate_const_sd
Units: 1/d
Description: <p>Standard deviation of DMSPd_rate_const.</p>
http://lod.bco-dmo.org/id/dataset-parameter/32159.rdf
Name: DMSPd_consump
Units: nM/d
Description: <p>Dissolved dimethylsulfoniopropionate (DMSPd) consumption rate; amount of DMSPd removed per day.</p>
http://lod.bco-dmo.org/id/dataset-parameter/32160.rdf
Name: DMSPd_consump_sd
Units: nM/d
Description: <p>Standard deviation of DMSPd_consump.</p>
http://lod.bco-dmo.org/id/dataset-parameter/32161.rdf
Name: DMSPd_assim
Units: %
Description: <p>A measure of dissolved dimethylsulfoniopropionate (DMSPd) consumption. assimilation = percent of radiolabeled DMSPd assimilated into bacterial biomass.</p>
http://lod.bco-dmo.org/id/dataset-parameter/32162.rdf
Name: DMSPd_assim_sd
Units: %
Description: <p>Standard deviation of DMSPd_assim.</p>
http://lod.bco-dmo.org/id/dataset-parameter/32163.rdf
Name: DMSPd_uptake
Units: %
Description: <p>A measure of dissolved dimethylsulfoniopropionate (DMSPd) consumption. uptake = percent of radiolabeled DMSPd transported into the cell.</p>
http://lod.bco-dmo.org/id/dataset-parameter/32164.rdf
Name: DMSPd_uptake_sd
Units: %
Description: <p>Standard deviation of DMSPd_uptake.</p>
http://lod.bco-dmo.org/id/dataset-parameter/32165.rdf
Name: DMS
Units: nM
Description: <p>Concentration of dimethylsulfide (DMS).</p>
http://lod.bco-dmo.org/id/dataset-parameter/32166.rdf
Name: DMS_sd
Units: nM
Description: <p>Standard deviation of DMS.</p>
http://lod.bco-dmo.org/id/dataset-parameter/32167.rdf
Name: DMS_rate_const
Units: 1/d
Description: <p>Dimethylsulfide (DMS) rate constant; fraction of DMS removed per day.</p>
http://lod.bco-dmo.org/id/dataset-parameter/32168.rdf
Name: DMS_rate_const_sd
Units: 1/d
Description: <p>Standard deviation of DMS_rate_const.</p>
http://lod.bco-dmo.org/id/dataset-parameter/32169.rdf
Name: DMS_consump
Units: nM/d
Description: <p>Dimethylsulfide (DMS) consumption rate; amount of DMS removed per day.</p>
http://lod.bco-dmo.org/id/dataset-parameter/32170.rdf
Name: DMS_consump_sd
Units: nM/d
Description: <p>Standard deviation of DMS_rate.</p>
http://lod.bco-dmo.org/id/dataset-parameter/32171.rdf
Name: DMS_assim
Units: %
Description: <p>A measure of dimethylsulfide (DMS) consumption. assimilation = percent of radiolabeled DMS transported into the cell and assimilated into bacterial biomass.</p>
http://lod.bco-dmo.org/id/dataset-parameter/32172.rdf
Name: DMS_assim_sd
Units: %
Description: <p>Standard deviation of DMS_assim.</p>
http://lod.bco-dmo.org/id/dataset-parameter/32173.rdf
Name: DMS_yield
Units: %
Description: <p>A measure of dissolved dimethylsulfoniopropionate (DMSPd) consumption. DMS yield = percent of radiolabeled DMSP released as dimethylsulfide (DMS).</p>
http://lod.bco-dmo.org/id/dataset-parameter/32174.rdf
Name: DMS_yield_sd
Units: %
Description: <p>Standard deviation of DMS_yield.</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
7017
https://darchive.mblwhoilibrary.org/bitstream/1912/24761/1/dataset-3857_microcosmsummary__v1.tsv
download
https://doi.org/10.1575/1912/bco-dmo.3857.1
download
onLine
dataset
<p>See Howard et al. 2011 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>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. Chlorophyll-a samples were collected by filtration on Whatman GF/F fiters. The filters were extracted in 90% acetone for 24 hours at -20 degrees C. The extracts were quantified by fluorometry on a Turner Designs TD-700.</p>
<p>Samples for dissolved dimethylsulfoniopropionate (DMSPd) were collected by filtration through GF/F filters. Total dimethylsulfoniopropionate (DMSP), dissolved + particulate, was measured by acidifying whole seawater with 5 ul per ml of 50% H2SO4. Dissolved and total DMSP were quantified as dimethylsulfide (DMS) after alkaline hydrolysis. Bacterial production was measured by [3H]leucine incorporation.</p>
<p>Rates of DMSPd consumption were determined by multiplying the DMSPd concentrations by their respective DMSPd loss rate constant from parallel samples. DMSPd consumption rate constants were determined by measuring the loss of tracer levels of [35S]-DMSP from the dissolved (&lt; 0.2 um) pool over time. DMS production and DMS yield (ratio of DMS production to DMSPd consumption) were measured as described in Vila-Costa et al. (2008)"</p>
<p>References:<br />
Vila-Costa, M., Kiene, R.P., and Simó, R. (2008) Seasonal variability of the dynamics of dimethylated sulfur compounds in a coastal northwest mediterranean site. Limnol Oceanogr 53: 198–211.</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 />
- 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/
Turner Designs 700 Laboratory Fluorometer
Turner Designs 700 Laboratory Fluorometer
PI Supplied Instrument Name: Turner Designs 700 Laboratory Fluorometer Instrument Name: Turner Designs 700 Laboratory Fluorometer Instrument Short Name:TD-700 Instrument Description: The TD-700 Laboratory Fluorometer is a benchtop fluorometer designed to detect fluorescence over the UV to red range. The instrument can measure concentrations of a variety of compounds, including chlorophyll-a and fluorescent dyes, and is thus suitable for a range of applications, including chlorophyll, water quality monitoring and fluorescent tracer studies. Data can be output as concentrations or raw fluorescence measurements. Community Standard Description: http://vocab.nerc.ac.uk/collection/L22/current/TOOL0510/
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