http://lod.bco-dmo.org/id/dataset/780178
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
2019-10-30
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Fatty acid profiles per cell of replicate populations of Thalassiosira pseudonana, selected at 16 and 31C for ~500 generations and assayed at 4 temperatures
2019-10-28
publication
2019-10-28
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2021-01-28
publication
https://doi.org/10.26008/1912/bco-dmo.780178.1
Elena Litchman
Michigan State University
principalInvestigator
Daniel R. O'Donnell
Michigan State University
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: Litchman, E., O'Donnell, D. R. (2021) Fatty acid profiles per cell of replicate populations of Thalassiosira pseudonana, selected at 16 and 31C for ~500 generations and assayed at 4 temperatures. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2019-10-28 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.780178.1 [access date]
T. pseudonana fatty acids by cell Dataset Description: <p>Fatty acid profiles per cell of replicate populations of <em>Thalassiosira pseudonana</em>, selected at 16 and 31C for ~500 generations and assayed at 4 temperatures.</p>
<p>These data were published in O'Donnell and Litchman (2019) Evol. Appl. and can also be found in Supporting Information file eva12798-sup-0001-Supinfo.docx, Figures 1-5 of the main text, and on Dryad: https://datadryad.org/stash/dataset/doi:10.5061/dryad.pn04m84.</p> Methods and Sampling: <p>Details of the long-term selection experiment can be found in another dataset associated with this project, entitled “Temperature-growth rate curves for <em>Thalassiosira pseudonana</em>”, and in O’Donnell et al. (2018), Global Change Biology. After ~500 generations of experimental selection (5 replicate populations at 16°C and 5 at 31°C), we acclimated each replicate population for 10 generations at 20°C, then acclimated each at 10, 16, 26 and 31°C for an additional 10 generations. We then sub-cultured each acclimated population into triplicate batch cultures, starting with 100,000 cells in 40 ml of L1 marine culture medium in a 50 ml tissue culture flask. We grew all experimental cultures (2 selection temperatures x 5 replicate populations x 4 assay temperatures x 3 assay replicates = 120 total experimental units) to late log phase, estimating per-capita growth rates by placing each tissue culture flask in a spectrophotometer daily and measuring absorbance at 436 nm. We harvested 15 ml of culture for fatty acid analysis, retaining ~25 µl for enumeration on a CASY particle counter. The remaining volume was used for analyses not addressed here.</p>
<p>Cells were harvested by filtration through a 25mm Whatman GF/B filter. We extracted fatty acids from <em>T. pseudonana</em> cells using a solution of chloroform, methanol, and formic acid (10:20:1). We analyzed fatty acid profiles by performing fatty acid methyl ester (FAME) reactions on each GF/B filter sample (Wang and Benning 2011; adapted for algae by Boyle et al. 2012) and quantifying fatty acids using gas chromatography.</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1638958 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1638958
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1638804 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1638804
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1638834 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1638834
completed
Elena Litchman
Michigan State University
269-671-2338
3700 E Gull Lake Dr.
Hickory Corners
MI
49060
USA
litchman@msu.edu
pointOfContact
Daniel R. O'Donnell
Michigan State University
505 702 7354
odonnell.380@osu.edu
pointOfContact
asNeeded
Dataset Version: 1
Unknown
evol_temp
assay_temp
evol_rep
assay_rep
numID
Sample
SampID
strain
good
mean_cell_dia
mean_cell_len
mean_cell_vol
sd_cell_dia
sd_cell_len
sd_cell_vol
gr_rate
cells_ml
mol_total_cell
mol_SFA_cell
mol_UFA_cell
mol_MUFA_cell
mol_PUFA_cell
ug_total_cell
ug_SFA_cell
ug_UFA_ug
ug_MUFA_cell
ug_PUFA_cell
CASY particle counter, Schärfe System GmbH, Reutlingen, Germany
Agilent Technologies 7890A Gas Chromatography system (Agilent Technologies)
theme
None, User defined
water temperature at measurement depth
replicate
sample identification
taxon
quality flag
diameter
length
volume
growth
cell_concentration
lipids in biota
featureType
BCO-DMO Standard Parameters
Automated Cell Counter
Gas Chromatograph
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.
Dimensions of Biodiversity
http://www.nsf.gov/funding/pgm_summ.jsp?pims_id=503446
Dimensions of Biodiversity
(adapted from the NSF Synopsis of Program)
Dimensions of Biodiversity is a program solicitation from the NSF Directorate for Biological Sciences. FY 2010 was year one of the program. [MORE from NSF]
The NSF Dimensions of Biodiversity program seeks to characterize biodiversity on Earth by using integrative, innovative approaches to fill rapidly the most substantial gaps in our understanding. The program will take a broad view of biodiversity, and in its initial phase will focus on the integration of genetic, taxonomic, and functional dimensions of biodiversity. Project investigators are encouraged to integrate these three dimensions to understand the interactions and feedbacks among them. While this focus complements several core NSF programs, it differs by requiring that multiple dimensions of biodiversity be addressed simultaneously, to understand the roles of biodiversity in critical ecological and evolutionary processes.
Dimensions of Biodiversity
largerWorkCitation
program
Dimensions: Collaborative Research: Genetic, functional and phylogenetic diversity determines marine phytoplankton community responses to changing temperature and nutrients
https://osprey.bco-dmo.org/project/712787
Dimensions: Collaborative Research: Genetic, functional and phylogenetic diversity determines marine phytoplankton community responses to changing temperature and nutrients
<p><em>NSF Award Abstract:</em><br />
Photosynthetic marine microbes, phytoplankton, contribute half of global primary production, form the base of most aquatic food webs and are major players in global biogeochemical cycles. Understanding their community composition is important because it affects higher trophic levels, the cycling of energy and elements and is sensitive to global environmental change. This project will investigate how phytoplankton communities respond to two major global change stressors in aquatic systems: warming and changes in nutrient availability. The researchers will work in two marine systems with a long history of environmental monitoring, the temperate Narragansett Bay estuary in Rhode Island and a subtropical North Atlantic site near Bermuda. They will use field sampling and laboratory experiments with multiple species and varieties of phytoplankton to assess the diversity in their responses to different temperatures under high and low nutrient concentrations. If the diversity of responses is high within species, then that species may have a better chance to adapt to rising temperatures and persist in the future. Some species may already be able to grow at high temperatures; consequently, they may become more abundant as the ocean warms. The researchers will incorporate this response information in mathematical models to predict how phytoplankton assemblages would reorganize under future climate scenarios. Graduate students and postdoctoral associates will be trained in diverse scientific approaches and techniques such as shipboard sampling, laboratory experiments, genomic analyses and mathematical modeling. The results of the project will be incorporated into K-12 teaching, including an advanced placement environmental science class for underrepresented minorities in Los Angeles, data exercises for rural schools in Michigan and disseminated to the public through an environmental journalism institute based in Rhode Island.</p>
<p>Predicting how ecological communities will respond to a changing environment requires knowledge of genetic, phylogenetic and functional diversity within and across species. This project will investigate how the interaction of phylogenetic, genetic and functional diversity in thermal traits within and across a broad range of species determines the responses of marine phytoplankton communities to rising temperature and changing nutrient regimes. High genetic and functional diversity within a species may allow evolutionary adaptation of that species to warming. If the phylogenetic and functional diversity is higher across species, species sorting and ecological community reorganization is likely. Different marine sites may have a different balance of genetic and functional diversity within and across species and, thus, different contribution of evolutionary and ecological responses to changing climate. The research will be conducted at two long-term time series sites in the Atlantic Ocean, the Narragansett Bay Long-Term Plankton Time Series and the Bermuda Atlantic Time Series (BATS) station. The goal is to assess intra- and inter-specific genetic and functional diversity in thermal responses at contrasting nutrient concentrations for a representative range of species in communities at the two sites in different seasons, and use this information to parameterize eco-evolutionary models embedded into biogeochemical ocean models to predict responses of phytoplankton communities to projected rising temperatures under realistic nutrient conditions. Model predictions will be informed by and tested with field data, including the long-term data series available for both sites and in community temperature manipulation experiments. This project will provide novel information on existing intraspecific genetic and functional thermal diversity for many ecologically and biogeochemically important phytoplankton species, estimate generation of new genetic and functional diversity in evolution experiments, and develop and parameterize novel eco-evolutionary models interfaced with ocean biogeochemical models to predict future phytoplankton community structure. The project will also characterize the interaction of two major global change stressors, warming and changing nutrient concentrations, as they affect phytoplankton diversity at functional, genetic, and phylogenetic levels. In addition, the project will develop novel modeling methodology that will be broadly applicable to understanding how other types of complex ecological communities may adapt to a rapidly warming world.</p>
Phytoplankton Community Responses
largerWorkCitation
project
eng; USA
biota
oceans
-85.4007
-85.4007
42.4061
42.4061
2017-12-09
2018-01-05
Narragansett Bay, RI and Bermuda, Bermuda Atlantic Time-series Study (BATS)
0
BCO-DMO catalogue of parameters from Fatty acid profiles per cell of replicate populations of Thalassiosira pseudonana, selected at 16 and 31C for ~500 generations and assayed at 4 temperatures
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/805791.rdf
Name: evol_temp
Units: degrees Celsius
Description: <p>Growth chamber temperature long-term selection experiment</p>
http://lod.bco-dmo.org/id/dataset-parameter/805792.rdf
Name: assay_temp
Units: degrees Celsius
Description: <p>Growth chamber temperature during temperature-dependent growth assay</p>
http://lod.bco-dmo.org/id/dataset-parameter/805793.rdf
Name: evol_rep
Units: unitless
Description: <p>Replicate population ID during long-term selection experiment</p>
http://lod.bco-dmo.org/id/dataset-parameter/805794.rdf
Name: assay_rep
Units: unitless
Description: <p>Experimental replicate during temperature-dependent fatty acid production assay (3 reps)</p>
http://lod.bco-dmo.org/id/dataset-parameter/805795.rdf
Name: numID
Units: unitless
Description: <p>A sequential identifier used post-sample processing</p>
http://lod.bco-dmo.org/id/dataset-parameter/805796.rdf
Name: Sample
Units: unitless
Description: <p>A sample ID used only to indicate a sample’s position on the GC rack. Sequential; but does not correspond to "numID"</p>
http://lod.bco-dmo.org/id/dataset-parameter/805797.rdf
Name: SampID
Units: unitless
Description: <p>A sample ID that includes (in order) evol_temp; assay_temp; evol_rep and assay_rep</p>
http://lod.bco-dmo.org/id/dataset-parameter/805798.rdf
Name: strain
Units: unitless
Description: <p>A second replicate population ID; also indicating selection temperature; identifies only eval_temp and evol_rep</p>
http://lod.bco-dmo.org/id/dataset-parameter/805799.rdf
Name: good
Units: unitless
Description: <p>Quality flag: indicates whether a sample was flagged as unusable: yes = usable & used; no = unusable & not used</p>
http://lod.bco-dmo.org/id/dataset-parameter/805800.rdf
Name: mean_cell_dia
Units: microns
Description: <p>mean cell diameter</p>
http://lod.bco-dmo.org/id/dataset-parameter/805801.rdf
Name: mean_cell_len
Units: microns
Description: <p>mean cell length</p>
http://lod.bco-dmo.org/id/dataset-parameter/805802.rdf
Name: mean_cell_vol
Units: microns cubed
Description: <p>mean cell volume</p>
http://lod.bco-dmo.org/id/dataset-parameter/805803.rdf
Name: sd_cell_dia
Units: microns
Description: <p>standard deviation of the cell diameter</p>
http://lod.bco-dmo.org/id/dataset-parameter/805804.rdf
Name: sd_cell_len
Units: microns
Description: <p>standard deviation of the cell length</p>
http://lod.bco-dmo.org/id/dataset-parameter/805805.rdf
Name: sd_cell_vol
Units: microns cubed
Description: <p>standard deviation of the cell volume</p>
http://lod.bco-dmo.org/id/dataset-parameter/805806.rdf
Name: gr_rate
Units: per day
Description: <p>Per-capita growth rate of T. pseudonana batch culture</p>
http://lod.bco-dmo.org/id/dataset-parameter/805807.rdf
Name: cells_ml
Units: Cells/ml
Description: <p>T pseudonana cells per ml of culture</p>
http://lod.bco-dmo.org/id/dataset-parameter/805808.rdf
Name: mol_total_cell
Units: mol fatty acids/cell
Description: <p>Total mol of fatty acids per cell</p>
http://lod.bco-dmo.org/id/dataset-parameter/805809.rdf
Name: mol_SFA_cell
Units: mol fatty acids/cell
Description: <p>mol per cell of saturated fatty acids</p>
http://lod.bco-dmo.org/id/dataset-parameter/805810.rdf
Name: mol_UFA_cell
Units: mol fatty acids/cell
Description: <p>mol per cell of unsaturated fatty acids</p>
http://lod.bco-dmo.org/id/dataset-parameter/805811.rdf
Name: mol_MUFA_cell
Units: mol fatty acids/cell
Description: <p>mol per cell of monounsaturated fatty acids</p>
http://lod.bco-dmo.org/id/dataset-parameter/805812.rdf
Name: mol_PUFA_cell
Units: mol fatty acids/cell
Description: <p>mol per cell of polyunsaturated fatty acids</p>
http://lod.bco-dmo.org/id/dataset-parameter/805813.rdf
Name: ug_total_cell
Units: g fatty acids/cell
Description: <p>Total micrograms of fatty acid per cell</p>
http://lod.bco-dmo.org/id/dataset-parameter/805814.rdf
Name: ug_SFA_cell
Units: g fatty acids/cell
Description: <p>micrograms per cell of saturated fatty acids</p>
http://lod.bco-dmo.org/id/dataset-parameter/805815.rdf
Name: ug_UFA_ug
Units: g fatty acids/cell
Description: <p>micrograms per cell of unsaturated fatty acids</p>
http://lod.bco-dmo.org/id/dataset-parameter/805816.rdf
Name: ug_MUFA_cell
Units: g fatty acids/cell
Description: <p>micrograms per cell of monounsaturated fatty acids</p>
http://lod.bco-dmo.org/id/dataset-parameter/805817.rdf
Name: ug_PUFA_cell
Units: g fatty acids/cell
Description: <p>micrograms per cell of polyunsaturated fatty acids</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
50412
https://darchive.mblwhoilibrary.org/bitstream/1912/26633/1/dataset-780178_t-pseudonana-fatty-acids-cell__v1.tsv
download
https://doi.org/10.26008/1912/bco-dmo.780178.1
download
onLine
dataset
<p>Details of the long-term selection experiment can be found in another dataset associated with this project, entitled “Temperature-growth rate curves for <em>Thalassiosira pseudonana</em>”, and in O’Donnell et al. (2018), Global Change Biology. After ~500 generations of experimental selection (5 replicate populations at 16°C and 5 at 31°C), we acclimated each replicate population for 10 generations at 20°C, then acclimated each at 10, 16, 26 and 31°C for an additional 10 generations. We then sub-cultured each acclimated population into triplicate batch cultures, starting with 100,000 cells in 40 ml of L1 marine culture medium in a 50 ml tissue culture flask. We grew all experimental cultures (2 selection temperatures x 5 replicate populations x 4 assay temperatures x 3 assay replicates = 120 total experimental units) to late log phase, estimating per-capita growth rates by placing each tissue culture flask in a spectrophotometer daily and measuring absorbance at 436 nm. We harvested 15 ml of culture for fatty acid analysis, retaining ~25 µl for enumeration on a CASY particle counter. The remaining volume was used for analyses not addressed here.</p>
<p>Cells were harvested by filtration through a 25mm Whatman GF/B filter. We extracted fatty acids from <em>T. pseudonana</em> cells using a solution of chloroform, methanol, and formic acid (10:20:1). We analyzed fatty acid profiles by performing fatty acid methyl ester (FAME) reactions on each GF/B filter sample (Wang and Benning 2011; adapted for algae by Boyle et al. 2012) and quantifying fatty acids using gas chromatography.</p>
Specified by the Principal Investigator(s)
<p><strong>BCO-DMO Processing Notes:</strong><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
CASY particle counter, Schärfe System GmbH, Reutlingen, Germany
CASY particle counter, Schärfe System GmbH, Reutlingen, Germany
PI Supplied Instrument Name: CASY particle counter, Schärfe System GmbH, Reutlingen, Germany Instrument Name: Automated Cell Counter Instrument Short Name:ACC Instrument Description: An instrument that determines the numbers, types or viability of cells present in a sample.
Agilent Technologies 7890A Gas Chromatography system (Agilent Technologies)
Agilent Technologies 7890A Gas Chromatography system (Agilent Technologies)
PI Supplied Instrument Name: Agilent Technologies 7890A Gas Chromatography system (Agilent Technologies) PI Supplied Instrument Description:Gas chromatograph using the Agilent capillary DB‐23 column for FAME analysis. Temperature settings: initial temperature 140°C, increased by 30°C/min to 160°C, then by 8°C/min to 240°C, and held at 240°C for 2 min. Instrument Name: Gas Chromatograph Instrument Short Name:Gas Chromatograph Instrument Description: Instrument separating gases, volatile substances, or substances dissolved in a volatile solvent by transporting an inert gas through a column packed with a sorbent to a detector for assay. (from SeaDataNet, BODC) Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/LAB02/