http://lod.bco-dmo.org/id/dataset/520651
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
2014-07-24
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Carbonate data in experimental treatments of Emiliania huxleyi, 2011-2012 (E Hux Response to pCO2 project)
2014-07-03
publication
2014-07-03
revision
BCO-DMO Linked Data URI
2014-07-03
creation
http://lod.bco-dmo.org/id/dataset/520651
Brooke Love
Western Washington University
principalInvestigator
M. Brady Olson
Western Washington University - Shannon Point Marine Center
principalInvestigator
Suzanne Strom
Western Washington University - Shannon Point Marine Center
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: Love, B., Olson, M. Brady, Strom, S. (2014) Carbonate data in experimental treatments of Emiliania huxleyi, 2011-2012 (E Hux Response to pCO2 project). Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 2014-07-03) Version Date 2014-07-03 [if applicable, indicate subset used]. http://lod.bco-dmo.org/id/dataset/520651 [access date]
Carbonate data in experimental treatments of Emiliania huxleyi Dataset Description: <p><strong>Culturing</strong>:</p>
<p>Cultures of&nbsp;<em>E. huxleyi&nbsp;</em>Strain CCMP2668, were innoculated at low cell density into media prepared from autoclaved filtered seawater with nutrient amendments based on F/2 medium kit from the National Center for Marine Algae and Microbiota, with a 1:25 reduction in nutrient additions.&nbsp;These were allowed to acclimate for approximately five generations, until cell density neared levels likely to significantly change the pH/pCO2.&nbsp; Daily dilutions of cultures with pre-equilibrated media kept cell density low (&lt;1x10<sup>5</sup>&nbsp;cells/ml), ensured cells remained in exponential growth phase and prevented excessive drawdown of nutrients and CO<sub>2</sub>.&nbsp; Cell density was determined by flow cytometry (Model) and each flask was diluted with media that was continuously sparged with air containing 400, 750 or 1000 ppm CO2.&nbsp; Air mixtures were created using CO2 free air (Powerex air compressor, and Twin Towers CO2 scrubber) and pure CO2 (Airgas) combined using a system of mass flow controllers (Sierra Instruments) and verified using a non-dispersive infrared CO2 sensor (Licor 820).&nbsp; Cultures were maintained in 1 liter polycarbonate flasks at 15<sup>0&nbsp;</sup>C under a 12/12 light dark cycle.&nbsp; Replicates (n=5) were placed in Plexiglas chambers which were supplied with a flow of the appropriate air mixture for each treatment.&nbsp; Preliminary experiments showed that gas exchange across the air/water surface significantly helped to maintain the target pCO2 in cultures without the mechanical disturbance of bubbling.&nbsp; Sedimentation was minimized by gentle mixing of the cultures by rotation of the bottles twice a day, during sampling and dilution.&nbsp; Cell densities ranged between about 30,000 cells/ml after dilutions to 80,000 cells/ml on the following day.&nbsp; The culture volume that was removed was used for analyses, and replaced with pre-equilibrated media.&nbsp; Cultures were maintained in this fashion for about&nbsp;8 days.&nbsp; Since the first dilution occurred on day 4 after innoculation, this gives a total of 12 to 14 days in culture at experimental conditions.&nbsp; This experiment was carried out twice, in 2011 and 2012. &nbsp;&nbsp;&nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp;</p>
<p><strong>SEM</strong>:</p>
<p>On days 1 and 8, a few small volume of culture from each replicate was dropped onto SEM stubs and allowed to dry.&nbsp; The stubs were sputter coated with Palladium gold for approximately three minutes (2012) or one minute (2011).&nbsp; Five images of each replicate with three or more cells in each image were taken at 5000x magnification (Smith et al. 2012) using an FEI Quanta 450 Scanning Electron Microscope. To compose each image the field was zoomed out to about 200x magnification to reduce bias in finding clusters of three or more cells. When a cluster of three of more cells was found, the magnification was changed to 5000x magnification and the image was focused and captured.</p>
<p>Parameters including cell size, coccolith size, coccoliths per cell, and percentage of malformed coccoliths were measured from the SEM images. Cell size (control: n= 235, moderate: n= 234, high: n= 200) and coccolith size (control: n= 75, moderate: n= 72, high: n= 67) were calculated using the free hand tool in Image J. To determine the number of coccoliths per cell and the percentage of malformed coccoliths, images were loaded into Windows Photo Viewer (control: n= 1453, moderate: n= 1409, high: n= 1215). Coccoliths malfomation was assessed by the scheme of DeBodt et al, 2010.&nbsp;</p>
<p><strong>Carbonate chemsitry: (THIS DATASET)</strong></p>
<p>pH was measured photometrically using 1 cm cuvettes, m-cresol dye and an Agilent 5480 UV-VIS spectrophotometer (+/- 0.02).&nbsp; Alkalinity was measured by gran titration using a Titrando 888, and 0.1 N HCl titrant, in a temperature controlled titration vessel (+/1 5 ueq/kg).&nbsp; Other parameters were calculated with CO2sys.&nbsp; pCO2 conditions were the same in the two experiments with the exception that the moderate concentration had slightly more elevated pCO2 in 2011 (662 ppm compared to 602 ppm).&nbsp; (When day 1 is included for 2012, there is no significant difference;&nbsp;the difference in the Moderate treatment is present when only day 12 and 14 are included.)</p>
<p><strong>Related dataset:</strong><a href="http://www.bco-dmo.org/dataset/520664" target="_blank"> Emiliania huxleyi SEM</a></p> Methods and Sampling:
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-0961229 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=0961229
completed
Brooke Love
Western Washington University
(360) 650-2894
516 High St. Mail Stop 9181
Bellingham
WA
98225
United States
brooke.love@wwu.edu
pointOfContact
M. Brady Olson
Western Washington University - Shannon Point Marine Center
(360) 650-7400
1900 Shannon Point Rd.
Anacortes
WA
98221
United States
Brady.Olson@wwu.edu
pointOfContact
Suzanne Strom
Western Washington University - Shannon Point Marine Center
360-293-2188
Shannon Point Marine Center 1900 Shannon Point Rd
Anacortes
WA
98221
USA
suzanne.strom@wwu.edu
pointOfContact
asNeeded
Dataset Version: 2014-07-03
Unknown
year
date
month_local
day_local
yrday_local
days_expt
treatment
sample
pH
pCO2
CO2
bicarbonate
carbonate
Omega_Ca
Omega_Ar
TALK
CO2 Analyzer
SEM
Flow Cytometer
MFC
spectrophotometer
Automatic titrator
theme
None, User defined
year
date
month_local
day of month
day of year and decimal time (local time zone)
days
treatment
sample identification
pH
Partial pressure of CO2
total Carbon Dioxide in seawater
bicarbonate concentration [HCO3]-
Carbonate concentration [CO3]2-
Calcite Saturation State
Aragonite Saturation State
total alkalinity (TA)
featureType
BCO-DMO Standard Parameters
CO2 Analyzer
Electron Microscope
Flow Cytometer
Mass Flow Controller
Spectrophotometer
Titrator
instrument
BCO-DMO Standard Instruments
Lab_Love
service
Deployment Activity
Western Washington University
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.
Planktonic interactions in a changing ocean: Biological responses of Emiliania huxleyi to elevated pCO2 and their effects on microzooplankton
https://osprey.bco-dmo.org/project/517694
Planktonic interactions in a changing ocean: Biological responses of Emiliania huxleyi to elevated pCO2 and their effects on microzooplankton
<p><em><strong>Description from NSF award abstract:</strong></em><br />
The calcifying Haptophyte <em>Emiliania huxleyi </em>appears to be acutely sensitive to the rising concentration of ocean pCO2. Documented responses by <em>E. huxleyi </em>to elevated pCO2 include modifications to their calcification rate and cell size, malformation of coccoliths, elevated growth rates, increased organic carbon production, lowering of PIC:POC ratios, and elevated production of the active climate gas DMS. Changes in these parameters are mechanisms known to elicit alterations in grazing behavior by microzooplankton, the oceans dominant grazer functional group. The investigators hypothesize that modifications to the physiology and biochemistry of calcifying and non-calcifying Haptophyte <em>Emiliania huxleyi </em>in response to elevated pCO2 will precipitate alterations in microzooplankton grazing dynamics. To test this hypothesis, they will conduct controlled laboratory experiments where several strains of <em>E. huxleyi</em> are grown at several CO2 concentrations. After careful characterization of the biochemical and physiological responses of the <em>E. huxleyi</em> strains to elevated pCO2, they will provide these strains as food to several ecologically-important microzooplankton and document grazing dynamics.<em> E. huxleyi</em> is an ideal organism for the study of phytoplankton and microzooplankton responses to rising anthropogenic CO2, the effects of which in the marine environment are called ocean acidification; <em>E. huxleyi </em>is biogeochemically important, is well studied, numerous strains are in culture that exhibit variation in the parameters described above, and they are readily fed upon by ecologically important microzooplankton.</p>
<p>The implications of changes in microzooplankton grazing for carbon cycling, specifically CaCO3 export, DMS production, nutrient regeneration in surface waters, and carbon transfer between trophic levels are profound, as this grazing, to a large degree, regulates all these processes. <em>E. huxleyi </em>is a model prey organism because it is one of the most biogeochemically influential global phytoplankton. It forms massive seasonal blooms, contributes significantly to marine inorganic and organic carbon cycles, is a large producer of the climatically active gas DMS, and is a source of organic matter for trophic levels both above and below itself. The planned controlled study will increase our knowledge of the mechanisms that drive patterns of change between trophic levels, thus providing a wider array of tools necessary to understand the complex nature of ocean acidification field studies, where competing variables can confound precise interpretation.</p>
E Hux Response to pCO2
largerWorkCitation
project
eng; USA
oceans
Western Washington University
2014-07-03
0
BCO-DMO catalogue of parameters from Carbonate data in experimental treatments of Emiliania huxleyi, 2011-2012 (E Hux Response to pCO2 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/520694.rdf
Name: year
Units: yyyy
Description: <p>year</p>
http://lod.bco-dmo.org/id/dataset-parameter/520695.rdf
Name: date
Units: yyyy-mm-dd
Description: <p>date</p>
http://lod.bco-dmo.org/id/dataset-parameter/520696.rdf
Name: month_local
Units: mm
Description: <p>month; local time</p>
http://lod.bco-dmo.org/id/dataset-parameter/520697.rdf
Name: day_local
Units: dd
Description: <p>day of month; local time</p>
http://lod.bco-dmo.org/id/dataset-parameter/520698.rdf
Name: yrday_local
Units: unitless
Description: <p>local day and decimal time as 326.5 for the 326th day of the year or November 22 at 1200 hours (noon)</p>
http://lod.bco-dmo.org/id/dataset-parameter/520699.rdf
Name: days_expt
Units: days
Description: <p>number of days since inoculation of the culture</p>
http://lod.bco-dmo.org/id/dataset-parameter/520700.rdf
Name: treatment
Units: unitless
Description: <p>treatment: C=control (400 ppm CO2); M=medium (750 ppm); H=high (1000 ppm)</p>
http://lod.bco-dmo.org/id/dataset-parameter/520701.rdf
Name: sample
Units: unitless
Description: <p>sample id: C=control (400 ppm CO2); M=medium (750 ppm); H=high (1000 ppm); A-E=replicate bottles of Emiliania huxleyi culture</p>
http://lod.bco-dmo.org/id/dataset-parameter/520702.rdf
Name: pH
Units: unitless
Description: <p>pH: the measure of the acidity or basicity of an aqueous solution</p>
http://lod.bco-dmo.org/id/dataset-parameter/520703.rdf
Name: pCO2
Units: ppm
Description: <p>partial pressure of carbon dioxide {pCO2} in the water body by computation from pH and alkalinity</p>
http://lod.bco-dmo.org/id/dataset-parameter/520704.rdf
Name: CO2
Units: umol/kg
Description: <p>concentration of total CO2 in seawater</p>
http://lod.bco-dmo.org/id/dataset-parameter/520705.rdf
Name: bicarbonate
Units: umol/kg
Description: <p>concentration of bicarbonate ion ([HCO3]-) in seawater</p>
http://lod.bco-dmo.org/id/dataset-parameter/520706.rdf
Name: carbonate
Units: umol/kg
Description: <p>concentration of carbonate ion ([CO3]2-) in seawater</p>
http://lod.bco-dmo.org/id/dataset-parameter/520707.rdf
Name: Omega_Ca
Units: unitless
Description: <p>the saturation state of seawater with respect to calcite (known as OMEGA_ar) is a measure of the thermodynamic potential for calcite to form or to dissolve and is defined as the product of the concentrations of dissolved calcium and carbonate ions in seawater divided by their product at equilibrium.</p>
http://lod.bco-dmo.org/id/dataset-parameter/520708.rdf
Name: Omega_Ar
Units: unitless
Description: <p>the saturation state of seawater with respect to aragonite (known as OMEGA_ar) is a measure of the thermodynamic potential for aragonite to form or to dissolve and is defined as the product of the concentrations of dissolved calcium and carbonate ions in seawater divided by their product at equilibrium.</p>
http://lod.bco-dmo.org/id/dataset-parameter/520709.rdf
Name: TALK
Units: umol/kg
Description: <p>total alkalinity per unit mass of the water body.</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
11669
https://datadocs.bco-dmo.org/file/nGGlAE2h7BRgLz/carbonate.csv
carbonate.csv
Primary data file for dataset ID 520651
download
https://osprey.bco-dmo.org/dataset/520651/data/download
download
onLine
dataset
<p><strong>BCO-DMO Processing notes:</strong></p>
<p>- original data submitted in Excel file 'Malformation_Data_Sheet_2011_2012_with pivot.xlsx'<br />
- added conventional header with dataset name, PI name, version date, reference information<br />
- changed parameter names to be BCO-DMO compatible<br />
- changed date format from day-month (12-Mar) and &nbsp;m/dd/yyyy (7/11/2013) to yyyy-mm-dd (2011-03-28)<br />
- corrected years 2013 to 2011</p>
<p>&nbsp;</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
CO2 Analyzer
CO2 Analyzer
PI Supplied Instrument Name: CO2 Analyzer PI Supplied Instrument Description:Licor 820: a non-dispersive infrared CO2 sensor Instrument Name: CO2 Analyzer Instrument Short Name:CO2 Analyzer Instrument Description: Measures atmospheric carbon dioxide (CO2) concentration. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/382/
SEM
SEM
PI Supplied Instrument Name: SEM PI Supplied Instrument Description:FEI Quanta 450 Scanning Electron Microscope Instrument Name: Electron Microscope Instrument Short Name: Instrument Description: Instruments that generate enlarged images of samples using the phenomena of reflection and absorption of electrons behaving as waves. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/LAB07/
Flow Cytometer
Flow Cytometer
PI Supplied Instrument Name: Flow Cytometer PI Supplied Instrument Description:BD FACS Calibur flow cytometer Instrument Name: Flow Cytometer Instrument Short Name:Flow Cytometer Instrument 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) Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/LAB37/
MFC
MFC
PI Supplied Instrument Name: MFC PI Supplied Instrument Description:Sierra Instruments Instrument Name: Mass Flow Controller Instrument Short Name:MFC Instrument Description: Mass Flow Controller (MFC) - A device used to measure and control the flow of fluids and gases
spectrophotometer
spectrophotometer
PI Supplied Instrument Name: spectrophotometer PI Supplied Instrument Description:Agilent 5480 UV-VIS spectrophotometer (+/- 0.02) Instrument Name: Spectrophotometer Instrument Short Name:Spectrophotometer Instrument Description: An instrument used to measure the relative absorption of electromagnetic radiation of different wavelengths in the near infra-red, visible and ultraviolet wavebands by samples. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/LAB20/
Automatic titrator
Automatic titrator
PI Supplied Instrument Name: Automatic titrator PI Supplied Instrument Description:Metrohm 888 Titrando Instrument Name: Titrator Instrument Short Name:Titrator Instrument Description: Titrators are instruments that incrementally add quantified aliquots of a reagent to a sample until the end-point of a chemical reaction is reached. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/LAB12/
Deployment: Lab_Love
Lab_Love
WWU
laboratory
WWU
laboratory