http://lod.bco-dmo.org/id/dataset/839689
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
2021-02-04
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Estimated thermal traits for phytoplankton
2021-02-04
publication
2021-02-04
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2021-02-09
publication
https://doi.org/10.26008/1912/bco-dmo.839689.1
Tatiana A. Rynearson
University of Rhode Island
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: Rynearson, T. A. (2021) Estimated thermal traits for phytoplankton. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2021-02-04 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.839689.1 [access date]
PFT Thermal Response - Modeled thermal traits Dataset Description: <p>Phytoplankton thermal traits were estimated for diatoms (n=135), dinoflagellates (n=46), coccolithophores (n=30), and cyanobacteria (n=32). This dataset contains estimated traits and parameters presented in Thomas et al (2012) as well as those for 59 additional strains (Anderson et al, in review). Study selection followed the criteria outlined in Thomas et al (2012) and Anderson et al (in review).</p> Methods and Sampling: <p>Thermal reaction norms were used to describe phytoplankton thermal responses following the equation presented in Thomas et al. (2012). For strains compiled previously, parameters for thermal reaction norms were provided (Thomas et al 2012 &amp; 2016). For added strains, parameters were estimated using the thermal growth rates found in the related dataset, <a href="https://www.bco-dmo.org/dataset/839696" target="_blank">https://www.bco-dmo.org/dataset/839696</a>, and the maximum likelihood approach described in Thomas et al. (2012) and the bbmle package in R 3.6.1 (2019)<em>.</em></p>
<p>Traits were then estimated for each strain using their respective thermal reaction norms, as outlined previously (Thomas et al. 2012 &amp; 2016; Anderson and Rynearson, 2020). This included the thermal optima (T<sub>opt</sub>), thermal maxima (T<sub>max</sub>) and thermal niche width. The thermal maxima were quality controlled according to Thomas et al. (2016) to ensure validity.</p>
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
Tatiana A. Rynearson
University of Rhode Island
401-874-6022
Graduate School of Oceanography, University of Rhode Island 215 South Ferry Rd.
Narragansett
RI
02882
USA
rynearson@uri.edu
pointOfContact
asNeeded
Dataset Version: 1
Unknown
isolate_code
study
source
isolation_latitude
isolation_longitude
habitat
name
speciesname
strain
clone
species
genus
family
order
class
phylum
kingdom
domain
group
mu_wlist
mu_alist
mu_blist
mu_c_opt_list
mu_c_opt_val_list
mu_g_opt_list
mu_g_opt_val_list
mu_n
tmin
tmax
minqual
maxqual
comment_code
theme
None, User defined
taxon_code
reference_paper
site
latitude
longitude
site description
species scientific name (binomial)
taxon
genus
family
order
taxonomic class
phylum
kingdom
animal group (category)
No BCO-DMO term
growth
water temperature at measurement depth
featureType
BCO-DMO Standard Parameters
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
oceans
-155
174.81
-65
74.65
2021-02-04
Narragansett Bay, RI and Bermuda, Bermuda Atlantic Time-series Study (BATS)
0
BCO-DMO catalogue of parameters from Estimated thermal traits for phytoplankton
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/839766.rdf
Name: isolate_code
Units: unitless
Description: <p>Unique isolate ID adpated from Thomas et al. (2012).</p>
http://lod.bco-dmo.org/id/dataset-parameter/839767.rdf
Name: study
Units: unitless
Description: <p>source publication; refer to supplemental file "data_sources.pdf" for complete citations</p>
http://lod.bco-dmo.org/id/dataset-parameter/839768.rdf
Name: source
Units: unitless
Description: <p>geographical location of isolation</p>
http://lod.bco-dmo.org/id/dataset-parameter/839769.rdf
Name: isolation_latitude
Units: degrees North
Description: <p>latitude of isolation location</p>
http://lod.bco-dmo.org/id/dataset-parameter/839770.rdf
Name: isolation_longitude
Units: degrees East (-180 to 180)
Description: <p>longitude of isolation location</p>
http://lod.bco-dmo.org/id/dataset-parameter/839771.rdf
Name: habitat
Units: unitless
Description: <p>isolation location habitat type: marine or estuarine</p>
http://lod.bco-dmo.org/id/dataset-parameter/839772.rdf
Name: name
Units: unitless
Description: <p>Full current name of species with strain or clone name if available</p>
http://lod.bco-dmo.org/id/dataset-parameter/839773.rdf
Name: speciesname
Units: unitless
Description: <p>Full current name of species, omitting strain and clone names</p>
http://lod.bco-dmo.org/id/dataset-parameter/839774.rdf
Name: strain
Units: unitless
Description: <p>strain name, if given</p>
http://lod.bco-dmo.org/id/dataset-parameter/839775.rdf
Name: clone
Units: unitless
Description: <p>clone name, if given</p>
http://lod.bco-dmo.org/id/dataset-parameter/839776.rdf
Name: species
Units: unitless
Description: <p>taxonomic classification, species name</p>
http://lod.bco-dmo.org/id/dataset-parameter/839777.rdf
Name: genus
Units: unitless
Description: <p>taxonomic classification, genus name</p>
http://lod.bco-dmo.org/id/dataset-parameter/839778.rdf
Name: family
Units: unitless
Description: <p>taxonomic classification, family name</p>
http://lod.bco-dmo.org/id/dataset-parameter/839779.rdf
Name: order
Units: unitless
Description: <p>taxonomic classification, order name</p>
http://lod.bco-dmo.org/id/dataset-parameter/839780.rdf
Name: class
Units: unitless
Description: <p>taxonomic classification, class name</p>
http://lod.bco-dmo.org/id/dataset-parameter/839781.rdf
Name: phylum
Units: unitless
Description: <p>taxonomic classification, phylum name</p>
http://lod.bco-dmo.org/id/dataset-parameter/839782.rdf
Name: kingdom
Units: unitless
Description: <p>taxonomic classification, kingdom name</p>
http://lod.bco-dmo.org/id/dataset-parameter/839783.rdf
Name: domain
Units: unitless
Description: <p>taxonomic classification, domain name</p>
http://lod.bco-dmo.org/id/dataset-parameter/839784.rdf
Name: group
Units: unitless
Description: <p>phytoplankton functional type that the species belongs to</p>
http://lod.bco-dmo.org/id/dataset-parameter/839785.rdf
Name: mu_wlist
Units: unitless
Description: <p>estimated thermal niche width (parameter 'omega' in the thermal reaction norm model)</p>
http://lod.bco-dmo.org/id/dataset-parameter/839786.rdf
Name: mu_alist
Units: unitless
Description: <p>estimate of parameter ‘a’ in the thermal reaction norm model</p>
http://lod.bco-dmo.org/id/dataset-parameter/839787.rdf
Name: mu_blist
Units: unitless
Description: <p>estimate of parameter ‘b’ in the thermal reaction norm model</p>
http://lod.bco-dmo.org/id/dataset-parameter/839788.rdf
Name: mu_c_opt_list
Units: unitless
Description: <p>estimate of parameter ‘z’ in the thermal reaction norm model</p>
http://lod.bco-dmo.org/id/dataset-parameter/839789.rdf
Name: mu_c_opt_val_list
Units: per day
Description: <p>estimated specific growth rate (per day) when temperature is at ‘z’ (i.e. mu.c.opt.list)</p>
http://lod.bco-dmo.org/id/dataset-parameter/839790.rdf
Name: mu_g_opt_list
Units: degrees Celsius
Description: <p>estimated optimum temperature for growth</p>
http://lod.bco-dmo.org/id/dataset-parameter/839791.rdf
Name: mu_g_opt_val_list
Units: per day
Description: <p>estimated maximum specific growth rate (per day) based on the thermal reaction norm model fit</p>
http://lod.bco-dmo.org/id/dataset-parameter/839792.rdf
Name: mu_n
Units: unitless
Description: <p>number of points (i.e. number of growth rate measurements) in the curve</p>
http://lod.bco-dmo.org/id/dataset-parameter/839793.rdf
Name: tmin
Units: degrees Celsius
Description: <p>Tmin, or minimum persistence temperature, estimated from the thermal reaction norm model fit</p>
http://lod.bco-dmo.org/id/dataset-parameter/839794.rdf
Name: tmax
Units: degrees Celsius
Description: <p>Tmax, or maximum persistence temperature, estimated from the thermal reaction norm model fit</p>
http://lod.bco-dmo.org/id/dataset-parameter/839795.rdf
Name: minqual
Units: unitless
Description: <p>quality of Tmin estimate (quality control criteria found in supplementary info)</p>
http://lod.bco-dmo.org/id/dataset-parameter/839796.rdf
Name: maxqual
Units: unitless
Description: <p>quality of Tmax estimate (quality control criteria found in supplementary info)</p>
http://lod.bco-dmo.org/id/dataset-parameter/839797.rdf
Name: comment_code
Units: unitless
Description: <p>notes about isolation location, taxonomy, and other sources of uncertainty; refer to metadata 'Processing Description' for definitions or to the supplemental file "derived_traits_comment_codes.csv"</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
83986
https://darchive.mblwhoilibrary.org/bitstream/1912/26660/1/dataset-839689_modeled-thermal-traits__v1.tsv
download
https://doi.org/10.26008/1912/bco-dmo.839689.1
download
onLine
dataset
<p>Thermal reaction norms were used to describe phytoplankton thermal responses following the equation presented in Thomas et al. (2012). For strains compiled previously, parameters for thermal reaction norms were provided (Thomas et al 2012 &amp; 2016). For added strains, parameters were estimated using the thermal growth rates found in the related dataset, <a href="https://www.bco-dmo.org/dataset/839696" target="_blank">https://www.bco-dmo.org/dataset/839696</a>, and the maximum likelihood approach described in Thomas et al. (2012) and the bbmle package in R 3.6.1 (2019)<em>.</em></p>
<p>Traits were then estimated for each strain using their respective thermal reaction norms, as outlined previously (Thomas et al. 2012 &amp; 2016; Anderson and Rynearson, 2020). This included the thermal optima (T<sub>opt</sub>), thermal maxima (T<sub>max</sub>) and thermal niche width. The thermal maxima were quality controlled according to Thomas et al. (2016) to ensure validity.</p>
Specified by the Principal Investigator(s)
<p><strong>BCO-DMO Processing:</strong><br />
- replaced "NA" with "nd" as missing data value;<br />
- renamed fields (replaced periods with underscores);<br />
- removed commas from "study" and "source" columns;<br />
- replaced commas with semi-colons in the "name", "strain", and "clone" columns;<br />
- replaced comments with codes due to length and generated file "derived_traits_comment_codes.csv";<br />
- replaced/removed un-renderable characters from the "source" column.</p>
<p><strong>Definitions/descriptions for "comment_code" columns:</strong><br />
Note 1 = Latitude approximate. Based on information from Jacques (1983), Fiala &amp; Oriol (1984), &amp; Fiala &amp; Oriol (1990), there are 5 possible isolation locations, all along the same longitude: 48S, 54S, 58S, 60S, and 65S. In the absence of further information from the authors, I have used the median location.</p>
<p>Note 2= Growth rates estimated from nonlinear fitting. One value presented was measured in previous study.</p>
<p>Note 3 = location approximate</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