http://lod.bco-dmo.org/id/dataset/749109
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
2018-10-31
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Series 3B: Supplemental experiments on T. pseudonana (CCMP1014) - growth under bubbling stress: flow cytometry measurements
2018-10-31
publication
2018-10-31
revision
BCO-DMO Linked Data URI
2018-10-31
creation
http://lod.bco-dmo.org/id/dataset/749109
Uta Passow
University of California-Santa Barbara
principalInvestigator
Edward Laws
Louisiana State University College of the Coast and Environment
principalInvestigator
Nigel D'Souza
University of California-Santa Barbara
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: Passow, U., Laws, E., D'Souza, N. (2018) Series 3B: Supplemental experiments on T. pseudonana (CCMP1014) - growth under bubbling stress: flow cytometry measurements. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2018-10-31 [if applicable, indicate subset used]. http://lod.bco-dmo.org/id/dataset/749109 [access date]
Series 3B: bubble expt flow cytometry Dataset Description: <p>Experiments were conducted to investigate the impact of bubbling on the growth yield of Thalassiosira&nbsp;pseudonana&nbsp;CCMP 1014 grown in 80 ml culture tubes. This dataset includes the flow cytometry results.</p> Methods and Sampling: <p>Experiments were conducted to investigate the impact of bubbling gas through cultures of Thalassiosira pseudonana CCMP 1014 grown in Multicultivator MC-1000 OD culture tubes. TP1014 stock cultures were maintained in artificial seawater (Kester et. al 1967), enriched as with f/2 media (Guillard 1975). For the experiment, 5 ml of the TP1014 stock cultures were inoculated into 75 ml of ASW in eight tubes. The tubes were incubated in a Multicultivator MC-1000 OD unit (Qubit Systems), at 25 deg C and 400 µmol photons * m-2 * sec-1, set at a 12:12 day:night cycle for four days. Three tubes had no aeration (T1, T2, and T3); three tubes were bubbled with air at 60 ml·min-1 through a 0.2 µm stainless steel “carbonating stone” (T4, T5, and T6); and two tubes were bubbled with air at 120 ml·min-1 through a 0.2 µm stainless steel “carbonating stone” (T7 and T8). Samples were collected from each tube at the start of the experiment (day-0), and 5 hours after the start of the light phase each day (i.e. at 24-hour intervals) after that for four days. Samples were always collected 5 hours after the start of the light phase.</p>
<p>1 ml of each sample was fixed with buffered formalin (1% final conc. v/v), and stored at 4 deg C. At the end of the experiment, all fixed samples were run through a Guava easyCyte HT Sampling Flow Cytometer. TP1014 cells were identified based on their chlorophyll content (red fluorescence * cell-1), and size (forward scatter). A minimum of 300 cells was counted in each sample (except in one tube, where the culture did not grow well).</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1538602 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1538602
completed
Uta Passow
University of California-Santa Barbara
709-864-8010
Ocean Sciences Centre, Memorial University Marine Lab Road, Logy Bay
St. John's
Newfoundland
A1C 5S7
Canada
uta.passow@mun.ca
pointOfContact
Edward Laws
Louisiana State University College of the Coast and Environment
225 578-3334
Louisiana State University School of the Coast and Environment 1002R Energy, Coast and Environment Building
Baton Rouge
LA
70803
USA
edlaws@lsu.edu
pointOfContact
Nigel D'Souza
University of California-Santa Barbara
419-819-9039
Marine Science Institute
nigel.dsouza@lifesci.ucsb.edu
pointOfContact
asNeeded
Dataset Version: 1
Unknown
Sample_ID
Day
Treatment
Replicate
Concentration_cells_mL
FSC_Count
FSC_Mean
FSC_pcnt_CV
SSC_Count
SSC_Mean
SSCpcnt_CV
Red_FL_Count
Red_FL_Mean
Red_FL_pcnt_CV
Multicultivator MC-1000 OD (Qubit Systems)
Guava easyCyte HT Sampling Flow Cytometer
Aquapen-C AP-C 100 (Photon Systems Instruments)
theme
None, User defined
sample identification
day of month
treatment
replicate
cell_concentration
count
No BCO-DMO term
featureType
BCO-DMO Standard Parameters
Cell Cultivator
Flow Cytometer
Fluorometer
instrument
BCO-DMO Standard Instruments
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.
Collaborative Research: Effects of multiple stressors on Marine Phytoplankton
https://osprey.bco-dmo.org/project/654347
Collaborative Research: Effects of multiple stressors on Marine Phytoplankton
<p>The overarching goal of this project is to develop a framework for understanding the response of phytoplankton to multiple environmental stresses. Marine phytoplankton, which are tiny algae, produce as much oxygen as terrestrial plants and provide food, directly or indirectly, to all marine animals. Their productivity is thus important both for global elemental cycles of oxygen and carbon, as well as for the productivity of the ocean. Globally the productivity of marine phytoplankton appears to be changing, but while we have some understanding of the response of phytoplankton to shifts in one environmental parameter at a time, like temperature, there is very little knowledge of their response to simultaneous changes in several parameters. Increased atmospheric carbon dioxide concentrations result in both ocean acidification and increased surface water temperatures. The latter in turn leads to greater ocean stratification and associated changes in light exposure and nutrient availability for the plankton. Recently it has become apparent that the response of phytoplankton to simultaneous changes in these growth parameters is not additive. For example, the effect of ocean acidification may be severe at one temperature-light combination and negligible at another. The researchers of this project will carry out experiments that will provide a theoretical understanding of the relevant interactions so that the impact of climate change on marine phytoplankton can be predicted in an informed way. This project will engage high schools students through training of a teacher and the development of a teaching unit. Undergraduate and graduate students will work directly on the research. A cartoon journalist will create a cartoon story on the research results to translate the findings to a broader general public audience.</p>
<p>Each phytoplankton species has the capability to acclimatize to changes in temperature, light, pCO2, and nutrient availability - at least within a finite range. However, the response of phytoplankton to multiple simultaneous stressors is frequently complex, because the effects on physiological responses are interactive. To date, no datasets exist for even a single species that could fully test the assumptions and implications of existing models of phytoplankton acclimation to multiple environmental stressors. The investigators will combine modeling analysis with laboratory experiments to investigate the combined influences of changes in pCO2, temperature, light, and nitrate availability on phytoplankton growth using cultures of open ocean and coastal diatom strains (Thalassiosira pseudonana) and an open ocean cyanobacteria species (Synechococcus sp.). The planned experiments represent ideal case studies of the complex and interactive effects of environmental conditions on organisms, and results will provide the basis for predictive modeling of the response of phytoplankton taxa to multiple environmental stresses.</p>
Stressors on Marine Phytoplankton
largerWorkCitation
project
eng; USA
oceans
2018-07-03
2018-07-06
0
BCO-DMO catalogue of parameters from Series 3B: Supplemental experiments on T. pseudonana (CCMP1014) - growth under bubbling stress: flow cytometry measurements
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/749126.rdf
Name: Sample_ID
Units: unitless
Description: <p>sample identifier</p>
http://lod.bco-dmo.org/id/dataset-parameter/749127.rdf
Name: Day
Units: day
Description: <p>the day on which measurements were made. (range = 0 to 4)</p>
http://lod.bco-dmo.org/id/dataset-parameter/749128.rdf
Name: Treatment
Units: unitless
Description: <p>bubbling regime: includes samples with no bubbling; samples bubbled without a diffuser; and samples bubbled with an aquarium diffuser</p>
http://lod.bco-dmo.org/id/dataset-parameter/749129.rdf
Name: Replicate
Units: unitless
Description: <p>replicate sample identifier for each treatment</p>
http://lod.bco-dmo.org/id/dataset-parameter/749130.rdf
Name: Concentration_cells_mL
Units: cells/milliliter
Description: <p>cell concentration</p>
http://lod.bco-dmo.org/id/dataset-parameter/749131.rdf
Name: FSC_Count
Units: cells
Description: <p>the number of events (cells) counted to generate forward scatter values</p>
http://lod.bco-dmo.org/id/dataset-parameter/749132.rdf
Name: FSC_Mean
Units: relative units
Description: <p>the mean forward scatter value of TP1014 cells</p>
http://lod.bco-dmo.org/id/dataset-parameter/749133.rdf
Name: FSC_pcnt_CV
Units: unitless
Description: <p>the coefficient of variation for FSC expressed as a percentage</p>
http://lod.bco-dmo.org/id/dataset-parameter/749134.rdf
Name: SSC_Count
Units: cells
Description: <p>the number of events (cells) counted to generate forward scatter values</p>
http://lod.bco-dmo.org/id/dataset-parameter/749135.rdf
Name: SSC_Mean
Units: relative units
Description: <p>the mean side scatter value of TP1014 cells</p>
http://lod.bco-dmo.org/id/dataset-parameter/749136.rdf
Name: SSCpcnt_CV
Units: unitless
Description: <p>the coefficient of variation for SSC expressed as a percentage.</p>
http://lod.bco-dmo.org/id/dataset-parameter/749137.rdf
Name: Red_FL_Count
Units: cells
Description: <p>the number of events (cells) counted to generate forward scatter values</p>
http://lod.bco-dmo.org/id/dataset-parameter/749138.rdf
Name: Red_FL_Mean
Units: fluorescence/cell
Description: <p>the mean red fluorescence per cell of the TP1014 cells counted</p>
http://lod.bco-dmo.org/id/dataset-parameter/749139.rdf
Name: Red_FL_pcnt_CV
Units: unitless
Description: <p>the coefficient of variation for red FL expressed as a percentage</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
3924
https://datadocs.bco-dmo.org/file/6YYMl93hr6vMRP/3B_bubble_flowcytometry.csv
3B_bubble_flowcytometry.csv
Primary data file for dataset ID 749109
download
https://osprey.bco-dmo.org/dataset/749109/data/download
download
onLine
dataset
<p>Experiments were conducted to investigate the impact of bubbling gas through cultures of Thalassiosira pseudonana CCMP 1014 grown in Multicultivator MC-1000 OD culture tubes. TP1014 stock cultures were maintained in artificial seawater (Kester et. al 1967), enriched as with f/2 media (Guillard 1975). For the experiment, 5 ml of the TP1014 stock cultures were inoculated into 75 ml of ASW in eight tubes. The tubes were incubated in a Multicultivator MC-1000 OD unit (Qubit Systems), at 25 deg C and 400 µmol photons * m-2 * sec-1, set at a 12:12 day:night cycle for four days. Three tubes had no aeration (T1, T2, and T3); three tubes were bubbled with air at 60 ml·min-1 through a 0.2 µm stainless steel “carbonating stone” (T4, T5, and T6); and two tubes were bubbled with air at 120 ml·min-1 through a 0.2 µm stainless steel “carbonating stone” (T7 and T8). Samples were collected from each tube at the start of the experiment (day-0), and 5 hours after the start of the light phase each day (i.e. at 24-hour intervals) after that for four days. Samples were always collected 5 hours after the start of the light phase.</p>
<p>1 ml of each sample was fixed with buffered formalin (1% final conc. v/v), and stored at 4 deg C. At the end of the experiment, all fixed samples were run through a Guava easyCyte HT Sampling Flow Cytometer. TP1014 cells were identified based on their chlorophyll content (red fluorescence * cell-1), and size (forward scatter). A minimum of 300 cells was counted in each sample (except in one tube, where the culture did not grow well).</p>
Specified by the Principal Investigator(s)
<p>BCO-DMO Processing Notes:<br />
- added conventional header with dataset name, PI name, version date<br />
- modified parameter names to conform with BCO-DMO naming conventions</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
Multicultivator MC-1000 OD (Qubit Systems)
Multicultivator MC-1000 OD (Qubit Systems)
PI Supplied Instrument Name: Multicultivator MC-1000 OD (Qubit Systems) PI Supplied Instrument Description:Used for incubation of TP1014 cultures. Instrument Name: Cell Cultivator Instrument Short Name: Instrument Description: An instrument used for the purpose of culturing small cells such as algae or bacteria. May provide temperature and light control and bubbled gas introduction.
Guava easyCyte HT Sampling Flow Cytometer
Guava easyCyte HT Sampling Flow Cytometer
PI Supplied Instrument Name: Guava easyCyte HT Sampling Flow Cytometer PI Supplied Instrument Description:Used to count cells. 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/
Aquapen-C AP-C 100 (Photon Systems Instruments)
Aquapen-C AP-C 100 (Photon Systems Instruments)
PI Supplied Instrument Name: Aquapen-C AP-C 100 (Photon Systems Instruments) PI Supplied Instrument Description:Used to measure fluorescence.
A hand-held cuvette version of the FluorPen fluorometer equipped with a blue and red LED emitter. Blue excitation light (455 nm) is intended for chlorophyll excitation, i.e., for measuring chlorophyll fluorescence in algal cultures. Red-orange excitation light (620 nm) is intended for excitation through phycobilins and is suitable for measuring in cyanobacteria. 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/