http://lod.bco-dmo.org/id/dataset/854010
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
2021-06-17
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Cell abundance, forward scatter, chlorophyll, growth rate, and FvFm.0 measurements from reciprocal transplant assays
2021-06-17
publication
2021-06-17
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2021-06-29
publication
https://doi.org/10.26008/1912/bco-dmo.854010.1
Holly V. Moeller
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: Moeller, H. (2021) Cell abundance, forward scatter, chlorophyll, growth rate, and FvFm.0 measurements from reciprocal transplant assays. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2021-06-17 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.854010.1 [access date]
Cell abundance and chlorophyll content Dataset Description: Methods and Sampling: <p>Six lineages of each of two strains of the genus <em>Ochromonas</em> (CCMP1393, and CCMP2951) have been evolving at three temperatures, the ancestral temperature of 24C, and cooler and warmer temperatures of 18C and 30C. A third strain, CCMP 1391 does not survive at 30C and is only evolving at 18C and 24C. The experiment is run at two light levels, 100uE and 50uE. Cultures are maintained in batch culture in K medium made by adding pre‐mixed nutrients (ordered from the NCMA) to 0.2 μm filtered Santa Barbara coastal seawater in three light- and temperature-controlled incubators.</p>
<p>Evolving lineages are regularly tested for several characteristics including growth rate, cell size, chlorophyll content, and photosynthetic efficiency. To show that characteristic changes are indeed from an evolutionary response as opposed to phenotypic plasticity, reciprocal transplant assays are conducted every three months. This involved placing subsamples of each evolving lineage into all three temperatures, and comparing their performance in characteristic tests (growth rate, photosynthetic efficiency etc.).</p>
<p><strong>Sampling and analytical procedures:</strong></p>
<p><strong>Guava count:</strong><br />
Cell density and relative size are measured every day for a 4-day growth period using a Guava easyCyte Flow Cytometer (Luminex Corporation, Austin, TX).</p>
<p><strong>Chlorophyll Extractions:</strong><br />
Cellular chlorophyll-<em>a</em> (chl-<em>a</em>) content is measured by filtering cells onto a 25mm-diameter GF/F filter (Whatman) and extracting for 24 hours in a 90% acetone solution. Chl-<em>a</em> concentration in the acetone solution is read using a Trilogy fluorometer (Turner Designs, San Jose, CA).</p>
<p><strong>FIRe Dark-acclimated Fv/Fm measurement:</strong><br />
Photosynthetic efficiency is measured using a mini Fluorescence Induction and Relaxation (FIRe) system (custom built by M. Gorbunov, Rutgers University).</p>
<p><strong>Known Issues/Problems:</strong><br />
There was no chlorophyll collected during the first three backtransfers. Some FvFm data is missing because the FIRe was unable to process the data.</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1851194 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1851194
onGoing
Holly V. Moeller
University of California-Santa Barbara
805-893-3216
1120 Noble Hall Ecology, Evolution, and Marine Biology
Santa Barbara
CA
93106
USA
hvmoeller@ucsb.edu
pointOfContact
asNeeded
Dataset Version: 1
Unknown
Strain
Light
Ev
Acc
Rep
Week
D1Pop
D2Pop
D3Pop
D4Pop
D1FSC
D2FSC
D3FSC
D4FSC
Growth_Rate
PE_Count
Chl_a_read
Chl_a_per_cell
FvFm_0
file_name
Guava easyCyte flow cytometer
mini-FIRe
Trilogy fluorometer
theme
None, User defined
taxon
No BCO-DMO term
temperature of sample or a generic measurement (not in-situ water temp)
replicate
time_elapsed
abundance
growth
density
chlorophyll a
Fv to Fm ratio
file_name
featureType
BCO-DMO Standard Parameters
Flow Cytometer
Fluorometer
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.
BEE: Testing the evolutionary responses of mixotrophs to future ocean conditions
https://osprey.bco-dmo.org/project/819827
BEE: Testing the evolutionary responses of mixotrophs to future ocean conditions
<p><em>NSF Award Abstract:</em><br />
Aquatic ecosystems host a wide variety of single-celled, microscopic organisms. Many of these species live near the surface of the water, where they grow and reproduce using different metabolic strategies that shape their place in the marine food web. For example, biologists have traditionally grouped planktonic microbes into either primary producers (which use photosynthesis to create new organic matter) or heterotrophs (which eat organic matter - such as the bodies - produced by other organisms). However, a large number of species are actually mixotrophic: they "mix" these two forms of metabolism by simultaneously conducting photosynthesis and eating smaller cells, including bacteria. Furthermore, many mixotrophs are metabolically flexible: they may rely more or less on each source of metabolism depending on environmental conditions. Because photosynthesis (which takes carbon out of the atmosphere and locks it into organic matter) and heterotrophy (which respires organic matter back into carbon dioxide) control whether or not oceanic food webs act as carbon sinks (having a net removal of carbon dioxide from the atmosphere), understanding mixotroph metabolism is critical to predicting the effects of marine plankton on atmospheric carbon. This project advances understanding of mixotroph metabolism by quantifying the extent to which mixotrophs can alter their reliance on photosynthesis over short and long timescales. The project tests how quickly mixotrophs can adapt to both warmer and colder water conditions, and how these adaptations alter their role in the carbon cycle. Researchers - including graduate students, a postdoctoral researcher, and undergraduate trainees - will measure the physiological responses of experimentally evolved mixotrophs and use mathematical models to connect these changes to global oceanic carbon cycling. As data are collected, they are shared with the public through outreach seminars, annual open house events, and weekly scientific presentations at the local Santa Barbara Museum of Natural History.</p>
<p>In order to predict biologically mediated feedbacks in the climate system, we must understand how marine plankton will respond to future ocean conditions. While a number of studies have sought to quantify the potential evolutionary response of phytoplankton, much less is known about the impacts of shifting conditions (e.g., increased temperature) on mixotrophs. What data are available suggest that mixotrophs may modulate a positive climate feedback loop: when warmed, mixotrophs become more heterotrophic, thus reducing their contribution to the biological pump and enhancing local respiration of organic carbon. Warming may also result in reductions in cell size, reducing sinking fluxes and carbon export from the upper ocean. Furthermore, because the predicted increase in oceanic stratification is expected to favor mixotrophs, their metabolic responses may be increasingly significant to understanding the global carbon cycle. The PI of this project is experimentally evolving mixotrophs under a range of temperature conditions in a fully factorial design that also manipulates the availability of light (photosynthesis) and prey (heterotrophy). She quantifies the carbon budget, grazing activity, nutrient content, and grazer palatability of evolved lineages in order to estimate the impact of any observed adaptations on carbon cycling. Specifically, the investigator asks how evolved lineages compare to ancestral lineages in their ability to tolerate altered thermal conditions, and connects differences in fitness to shifts in reliance on photosynthesis versus heterotrophy. Simultaneously, she incorporates a mixotrophy module into a global ocean biogeochemistry model, allowing the quantification of the impact of mixotrophs with either contemporary or evolved physiological traits. This work will provide some of the first known data on mixotroph plastic and evolutionary responses, and allow the scaling of these responses to their potential impacts on upper ocean biogeochemistry.</p>
<p>This award reflects NSF's statutory mission and has been deemed worthy of support through evaluation using the Foundation's intellectual merit and broader impacts review criteria.</p>
MixoEvo
largerWorkCitation
project
eng; USA
oceans
2021-06-17
0
BCO-DMO catalogue of parameters from Cell abundance, forward scatter, chlorophyll, growth rate, and FvFm.0 measurements from reciprocal transplant assays
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/854020.rdf
Name: Strain
Units: unitless
Description: <p>The strain of Ochromonas</p>
http://lod.bco-dmo.org/id/dataset-parameter/854021.rdf
Name: Light
Units: micromoles quanta per square meter per second (umol quanta m-2 s-1)
Description: <p>Light intensity</p>
http://lod.bco-dmo.org/id/dataset-parameter/854022.rdf
Name: Ev
Units: degrees Celsius (°C)
Description: <p>Temperature that the strain was evolved at</p>
http://lod.bco-dmo.org/id/dataset-parameter/854023.rdf
Name: Acc
Units: degrees Celsius (°C)
Description: <p>Temperature that the strain was briefly acclimated to (for 5 days) prior to measurements</p>
http://lod.bco-dmo.org/id/dataset-parameter/854024.rdf
Name: Rep
Units: unitless
Description: <p>Replicate; Which of 6 replicates the data were collected from</p>
http://lod.bco-dmo.org/id/dataset-parameter/854025.rdf
Name: Week
Units: unitless
Description: <p>Weeks since start of experiment</p>
http://lod.bco-dmo.org/id/dataset-parameter/854026.rdf
Name: D1Pop
Units: cells per milliliter (Cells/mL)
Description: <p>Day one population size</p>
http://lod.bco-dmo.org/id/dataset-parameter/854027.rdf
Name: D2Pop
Units: cells per milliliter (Cells/mL)
Description: <p>Day two population size</p>
http://lod.bco-dmo.org/id/dataset-parameter/854028.rdf
Name: D3Pop
Units: cells per milliliter (Cells/mL)
Description: <p>Day three population size</p>
http://lod.bco-dmo.org/id/dataset-parameter/854029.rdf
Name: D4Pop
Units: cells per milliliter (Cells/mL)
Description: <p>Day four population size</p>
http://lod.bco-dmo.org/id/dataset-parameter/854030.rdf
Name: D1FSC
Units: relative fluorescence units
Description: <p>Day one forward scatter</p>
http://lod.bco-dmo.org/id/dataset-parameter/854031.rdf
Name: D2FSC
Units: relative fluorescence units
Description: <p>Day two forward scatter</p>
http://lod.bco-dmo.org/id/dataset-parameter/854032.rdf
Name: D3FSC
Units: relative fluorescence units
Description: <p>Day three forward scatter</p>
http://lod.bco-dmo.org/id/dataset-parameter/854033.rdf
Name: D4FSC
Units: relative fluorescence units
Description: <p>Day four forward scatter</p>
http://lod.bco-dmo.org/id/dataset-parameter/854034.rdf
Name: Growth_Rate
Units: per day (d^(-1))
Description: <p>Rate of growth of cell cultures</p>
http://lod.bco-dmo.org/id/dataset-parameter/854035.rdf
Name: PE_Count
Units: cells per milliliter (Cells/mL)
Description: <p>Cell density at the time of the PE measurement</p>
http://lod.bco-dmo.org/id/dataset-parameter/854036.rdf
Name: Chl_a_read
Units: nanograms chl-a per milliliter (ng chl-a mL-1)
Description: <p>Amount of chlorophyll in the sample</p>
http://lod.bco-dmo.org/id/dataset-parameter/854037.rdf
Name: Chl_a_per_cell
Units: picograms chl-a per cell (pg chl-a cell-1)
Description: <p>Amount of chlorophyll a per cell</p>
http://lod.bco-dmo.org/id/dataset-parameter/854038.rdf
Name: FvFm_0
Units: dimensionless
Description: <p>Day 0 Maximum quantum yield of photochemistry in PSII, measured in a dark-adapted state (dimensionless). This parameter characterizes the efficiency of primary photosynthetic reactions.</p>
http://lod.bco-dmo.org/id/dataset-parameter/854039.rdf
Name: file_name
Units: unitless
Description: <p>Name of the original csv file</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
307506
https://darchive.mblwhoilibrary.org/bitstream/1912/27295/1/dataset-854010_cell-abundance-and-chlorophyll-content__v1.tsv
download
https://doi.org/10.26008/1912/bco-dmo.854010.1
download
onLine
dataset
<p>Six lineages of each of two strains of the genus <em>Ochromonas</em> (CCMP1393, and CCMP2951) have been evolving at three temperatures, the ancestral temperature of 24C, and cooler and warmer temperatures of 18C and 30C. A third strain, CCMP 1391 does not survive at 30C and is only evolving at 18C and 24C. The experiment is run at two light levels, 100uE and 50uE. Cultures are maintained in batch culture in K medium made by adding pre‐mixed nutrients (ordered from the NCMA) to 0.2 μm filtered Santa Barbara coastal seawater in three light- and temperature-controlled incubators.</p>
<p>Evolving lineages are regularly tested for several characteristics including growth rate, cell size, chlorophyll content, and photosynthetic efficiency. To show that characteristic changes are indeed from an evolutionary response as opposed to phenotypic plasticity, reciprocal transplant assays are conducted every three months. This involved placing subsamples of each evolving lineage into all three temperatures, and comparing their performance in characteristic tests (growth rate, photosynthetic efficiency etc.).</p>
<p><strong>Sampling and analytical procedures:</strong></p>
<p><strong>Guava count:</strong><br />
Cell density and relative size are measured every day for a 4-day growth period using a Guava easyCyte Flow Cytometer (Luminex Corporation, Austin, TX).</p>
<p><strong>Chlorophyll Extractions:</strong><br />
Cellular chlorophyll-<em>a</em> (chl-<em>a</em>) content is measured by filtering cells onto a 25mm-diameter GF/F filter (Whatman) and extracting for 24 hours in a 90% acetone solution. Chl-<em>a</em> concentration in the acetone solution is read using a Trilogy fluorometer (Turner Designs, San Jose, CA).</p>
<p><strong>FIRe Dark-acclimated Fv/Fm measurement:</strong><br />
Photosynthetic efficiency is measured using a mini Fluorescence Induction and Relaxation (FIRe) system (custom built by M. Gorbunov, Rutgers University).</p>
<p><strong>Known Issues/Problems:</strong><br />
There was no chlorophyll collected during the first three backtransfers. Some FvFm data is missing because the FIRe was unable to process the data.</p>
Specified by the Principal Investigator(s)
<p><strong>Data processing:</strong><br />
Guava Suite Software 3.4 (Luminex Corporation, Austin, TX), fpro.exe</p>
<p><strong>FIRe Analysis:</strong> To run the analysis program on a separate PC, copy the program (fpro.exe), together with the file EGAVGA.bgi (a graphic driver). The program fprope.exe must be stored in the same directory as the raw FIRe data files. Use DOSBox emulator to run fpro.exe.</p>
<p><strong>BCO-DMO Processing:</strong><br />
- concatenated separate .csv files into one dataset;<br />
- re-named fields to comply with BCO-DMO naming conventions (replaced special characters with underscores).</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
Guava easyCyte flow cytometer
Guava easyCyte flow cytometer
PI Supplied Instrument Name: Guava easyCyte flow cytometer PI Supplied Instrument Description:Guava easyCyte flow cytometer (Luminex Corporation, Austin, TX) 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/
mini-FIRe
mini-FIRe
PI Supplied Instrument Name: mini-FIRe PI Supplied Instrument Description:mini-FIRe (Fluorescence Induction and Relaxation System) custom built by M. Gorbunov, Rutgers University. 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/
Trilogy fluorometer
Trilogy fluorometer
PI Supplied Instrument Name: Trilogy fluorometer PI Supplied Instrument Description:Trilogy fluorometer (Turner Designs, San Jose, CA) 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/