http://lod.bco-dmo.org/id/dataset/870320
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
2022-02-28
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Primary producer amino acid nitrogen isotope values from published literature to examine beta variability in trophic position estimates
2022-03-08
publication
2022-03-08
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2022-03-24
publication
https://doi.org/10.26008/1912/bco-dmo.870320.1
Kelton W. McMahon
University of Rhode Island
principalInvestigator
Alexi Besser
University of New Mexico
principalInvestigator
Seth D. Newsome
University of New Mexico
principalInvestigator
Matthew D. Ramirez
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: McMahon, K. W., Ramirez, M. D., Besser, A., Newsome, S. D. (2022) Primary producer amino acid nitrogen isotope values from published literature to examine beta variability in trophic position estimates. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2022-03-08 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.870320.1 [access date]
Published primary producer amino acid nitrogen isotope values to examine beta variability in trophic position estimates Dataset Description: <p>This dataset represents information from a meta-analysis of primary producer amino acid δ<sup>15</sup>N data that were published in Ramirez et al. (2021) [<a href="https://doi.org/10.1111/2041-210X.13678" style="margin: 0px; padding: 0px; border: 0px; font-variant-numeric: inherit; font-variant-east-asian: inherit; font-stretch: inherit; font-size: 14.4px; line-height: inherit; font-family: Helvetica, Arial, sans-serif; vertical-align: baseline; text-decoration-line: none; color: rgb(0, 102, 153);" target="_blank">https://doi.org/10.1111/2041-210X.13678</a>].&nbsp;&nbsp;</p>
<p><span style="font-size:14px"><span style="font-family:arial,helvetica,sans-serif"><span style="background-color:rgb(255, 255, 255); color:rgb(28, 29, 30)">This meta-analysis fulfills a pressing need to comprehensively evaluate relevant sources of&nbsp;</span><em>β</em><span style="background-color:rgb(255, 255, 255); color:rgb(28, 29, 30)">&nbsp;value variability and its contribution to the uncertainty in trophic position compound specific isotope analysis (TP</span><span style="background-color:rgb(255, 255, 255); color:rgb(28, 29, 30)">CSIA)</span><span style="background-color:rgb(255, 255, 255); color:rgb(28, 29, 30)">. We first synthesized all published primary producer AA δ</span><span style="background-color:rgb(255, 255, 255); color:rgb(28, 29, 30)">15</span><span style="background-color:rgb(255, 255, 255); color:rgb(28, 29, 30)">N data to investigate ecologically relevant sources of variability (e.g. taxonomy, tissue type, habitat type, mode of photosynthesis). We then reviewed the biogeochemical mechanisms underpinning AA δ</span><span style="background-color:rgb(255, 255, 255); color:rgb(28, 29, 30)">15</span><span style="background-color:rgb(255, 255, 255); color:rgb(28, 29, 30)">N and&nbsp;</span><em>β</em><span style="background-color:rgb(255, 255, 255); color:rgb(28, 29, 30)">&nbsp;value variability.&nbsp;</span></span></span></p>
<p><strong>Amino acids:</strong>&nbsp;alanine ,arginine, aspartic acid, glutamic acid, glycine, histidine, isoleucine, leucine, lysine, methionine, phenylalanine, proline, serine, threonine, tyrosine, and valine</p>
<p><strong>Environmental system:</strong> bacteria, freshwater, marine, or terrestrial</p>
<p><strong>Vascularization:</strong> vascular, or non-vascular</p>
<p><strong>Phylum/Division:</strong> Brypohyta,&nbsp;Chlorophyta, Cyanophyta, Euryarchaeota, Haptophyta, Magnoliophyta,&nbsp;Myzozoa,&nbsp;Ochrophyta,&nbsp;Pinophyta,&nbsp;Polypodiophyta,&nbsp;Proteobacteria, Rhodophyta, or Unknown</p>
<p><strong>Stem Class:</strong> herbaceous, woody, or semi-woody</p>
<p><strong>Life Cycle:</strong> annual, biennial, or perennial</p>
<p><strong>Taxonomic Group</strong>:&nbsp;Cactus, Chemoautotroph, Cyanobacteria, Eukaryotic microalgae, Fern, Forb, Grass, Ice algae, Leaf litter, Macroalgae, Macrophyte, Moss, POM, Seagrass, Shrub, Tree, or Vine</p>
<p><strong>Respiration type:</strong>&nbsp;C3, C4, or CAM (Crassulacean acid metabolism)</p>
<p><strong>Tissue type:</strong>&nbsp;flower, fruit, leaf, paddle, rachis, seed, shoot, whole, or wood</p>
<p><strong>Cultivation type:</strong> culture, farm, filtered water, natural, sediment trap, or suburb</p> Methods and Sampling: <p><strong>Literature Review Methods</strong></p>
<p>We performed a structured literature search for primary producer amino acid (AA) δ<sup>15</sup>N data in Scopus and Google Scholar using the search terms&nbsp;<em>nitrogen isotope</em>&nbsp;OR&nbsp;<em>15N</em>&nbsp;AND&nbsp;<em>amino acid</em>&nbsp;with each of the terms&nbsp;<em>plant</em>,<em>&nbsp;*plankton</em>,<em>&nbsp;algae</em>,<em>&nbsp;bacteria</em>, and&nbsp;<em>autotroph</em>. We also used the search terms<em>&nbsp;trophic</em>,<em>&nbsp;diet</em>, and&nbsp;<em>food web</em>&nbsp;to identify all studies that estimated trophic position via compound-specific stable isotope analysis (TP<sub>CSIA</sub>) or that estimated AA-specific trophic discrimination factors (TDFs). We only included studies that reported natural abundance stable isotope data. The literature search yielded 15 studies that reported beta values (β) for individual primary producers, 44 studies that reported TDFs or paired consumer-diet data within a trophic ecology context (e.g., controlled feeding study designed to characterize AA fractionation), and 176 studies that applied the TP<sub>CSIA</sub>&nbsp;equation (Figure 2 from Ramirez et al. 2021). The literature search yielded an additional 36 studies that reported AA δ<sup>15</sup>N data for autotrophs from which β values could be calculated and 9 additional studies from which TDFs could be calculated. The unit of replication for this meta-analysis was species-specific tissue within study. Therefore, if a study had multiple β values for a single primary producer species, a simple mean and standard deviation were calculated to consolidate the reported data into one estimate per species per study. Tissue-specific data were maintained separately whenever reported. This process resulted in a final dataset that consisted of 236 β values across ≥ 132 different primary producer genera in freshwater, marine, and terrestrial ecosystems (Table 1, Figure 3 in Ramirez et al. 2021). Our meta-analysis focused primarily on β values derived from Glx and Phe (β<sub>Glx-Phe</sub>) given that they are the most commonly measured trophic and source AAs and applied to estimate TP<sub>CSIA</sub>. However, we present β values for all combinations of trophic (Asx, Ala, Ile, Leu, Pro, Val) and source (Phe, Lys, Met, Tyr) AAs in Table 2 and Figures S1 (Ramirez et al. 2021).&nbsp;&nbsp;We also calculated β values for the “metabolic” AA Thr relative to the source AAs given its unique isotope dynamics with trophic transfer (McMahon &amp; McCarthy, 2016). Primary producer Met and Tyr δ<sup>15</sup>N data were not routinely collected nor reported, therefore inferences were limited for these AAs.</p>
<p>A list of the publications is found in the Publications section below, and also in Ramirez et al. (2021).</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-2049307 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=2049307
completed
Kelton W. McMahon
University of Rhode Island
401-874-6944
Graduate School of Oceanography, URI 215 South Ferry Rd
Narragansett
RI
02882
United States
kelton_mcmahon@uri.edu
pointOfContact
Alexi Besser
University of New Mexico
Department of Biology University of New Mexico
Albuquerque
NM
87131
acbesser@unm.edu
pointOfContact
Seth D. Newsome
University of New Mexico
831.566.3276
Department of Biology MSC03-2020
Albuquerque
NM
87131
US
newsome@unm.edu
pointOfContact
Matthew D. Ramirez
University of Rhode Island
401-874-6944
University of Rhode Island, Graduate School of Oceanography 20 Receiving Road
Narragansett
RI
02882
mdramirez@uri.edu
pointOfContact
asNeeded
Dataset Version: 1
Unknown
Year_published
ID
Citation
System
Vascularization
Scientific_Name
Common_Name
Phylum_Division
Stem_Class
Life_Cycle
Group
Resp_Type
Tissue
Cultivation_Type
N
Glu
Asp
Ala
Ile
Leu
Pro
Val
Gly
Ser
Arg
Phe
Lys
Met
His
Tyr
Thr
Notes
Full_Reference
theme
None, User defined
year
sample identification
reference_paper
sample type
sample description
taxon
common_name
number
d15N
comments
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.
Collaborative Research: Sources and transformations of export production: A novel 50-year record of pelagic-benthic coupling from coral and plankton bioarchives
https://osprey.bco-dmo.org/project/833411
Collaborative Research: Sources and transformations of export production: A novel 50-year record of pelagic-benthic coupling from coral and plankton bioarchives
<p><em>NSF Award Abstract:</em><br />
Changes in ocean life, the environment, and the climate can influence the timing and composition of biological material that sinks to the sea floor. As this material sinks it is consumed by bottom-dwelling organisms such as deep-sea corals. Similar to tree rings, corals preserve a history of growth embedded in their skeletons, which can be analyzed using a new technique called microgeochemistry. This project is compiling a historic dataset from deep-sea corals spanning 50 years in the Gulf of Maine to understand how biological material sinking to the bottom has changed with time. Results from the coral analysis are being compared with archival samples of small planktonic crustaceans, copepods, to better understand the connection between productivity in the surface waters and the geochemical record in the coral tissue. A complementary modeling approach is identifying environmental and climatic drivers of decadal-scale oceanographic change with the sources and transformations of organic matter that connect the surface and the deep ocean. This cross-disciplinary project is unifying transformational research with broader impacts focused on science education and outreach that broaden the understanding of the links between climate, oceanography, and marine ecosystem response using a 50-year historical context. Two open-access, media-enhanced, and National curriculum standards-aligned educational lessons plans are being developed through partnerships with a science documentary filmmaker, K-12 teachers from RI and ME, and the PBS LearningMedia Program. The topics of these lesson plans are: 1) Deep-sea exploration: A window into the past and future, and 2) Changing food webs on a changing planet. The project's educational goals include training of three graduate students, career development of five early career researchers, and research experiences for undergraduates from underrepresented groups in STEM. The multi-faceted research and education effort is addressing a question described as highest priority in the Ocean Sciences by the National Research Council: How are ocean biogeochemical and physical processes linked to today's climate and its variability?</p>
<p>Pelagic-benthic coupling regulates ocean production and food web dynamics, biogeochemical cycling, and climate feedback mechanisms through the export of surface production to the ocean interior. Yet access to long-term data sets of export production are scarce and urgently needed to test assumptions about 1) the sources and transformations of organic matter through different food web pathways, and 2) the variability of these processes across climatic, oceanographic, and ecological changes through time. The proposed work is testing key hypotheses about bottom-up mechanisms that link decadal-scale oceanographic changes in hydrography and biogeochemical cycling with phytoplankton community composition, zooplankton abundance and trophic dynamics, and the resulting composition of export production. Complementary approaches are generating multiple and independent 50+ year, annually resolved time series of phytoplankton community composition, zooplankton trophic dynamics, and export composition. Coral tissue and archived zooplankton samples are being analyzed using pioneering molecular geochemistry approaches to assess changes in diet related variation in primary production. Deep-sea corals are being collected using a remotely operated vehicle (ROV), and zooplankton are available through archival samples from a Gulf of Maine long-term monitoring program managed by NOAA. The stable isotope data are being integrated with additional data from existing long-standing ocean monitoring programs and incorporated into a unifying modeling approach to identify unique ecosystem states and their environmental drivers. The project is focused on Jordan Basin in the Gulf of Maine, which has a long history of oceanographic study and is experiencing significant changes due to climate warming, making it an ideal natural laboratory for testing hypotheses on drivers of change in the composition of exported organic matter, and the relative importance of primary (e.g., phyto-detritus) vs. secondary production (e.g., copepod fecal pellets), and large vs. small pelagic plankton dynamics.</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>
GoME Copepod Coral Export
largerWorkCitation
project
eng; USA
biota
oceans
1987-01-01
2022-12-31
Jordan Basin, Gulf of Maine (43 to 44.25N, 68.5 to 66.5W)
0
BCO-DMO catalogue of parameters from Primary producer amino acid nitrogen isotope values from published literature to examine beta variability in trophic position estimates
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/870963.rdf
Name: Year_published
Units: unitless
Description: <p>Year of publication for the journal article or book</p>
http://lod.bco-dmo.org/id/dataset-parameter/870964.rdf
Name: ID
Units: unitless
Description: <p>Data identification number</p>
http://lod.bco-dmo.org/id/dataset-parameter/870965.rdf
Name: Citation
Units: unitless
Description: <p>Abbreviated citation</p>
http://lod.bco-dmo.org/id/dataset-parameter/870966.rdf
Name: System
Units: unitless
Description: <p>Environmental system</p>
http://lod.bco-dmo.org/id/dataset-parameter/870967.rdf
Name: Vascularization
Units: unitless
Description: <p>Degree of vascularization</p>
http://lod.bco-dmo.org/id/dataset-parameter/870968.rdf
Name: Scientific_Name
Units: unitless
Description: <p>Scientific name</p>
http://lod.bco-dmo.org/id/dataset-parameter/870969.rdf
Name: Common_Name
Units: unitless
Description: <p>Common name</p>
http://lod.bco-dmo.org/id/dataset-parameter/870970.rdf
Name: Phylum_Division
Units: unitless
Description: <p>Taxonomic information</p>
http://lod.bco-dmo.org/id/dataset-parameter/870971.rdf
Name: Stem_Class
Units: unitless
Description: <p>Stem class</p>
http://lod.bco-dmo.org/id/dataset-parameter/870972.rdf
Name: Life_Cycle
Units: unitless
Description: <p>Life cycle for terrestrial primary producers</p>
http://lod.bco-dmo.org/id/dataset-parameter/870973.rdf
Name: Group
Units: unitless
Description: <p>Common taxonomic group</p>
http://lod.bco-dmo.org/id/dataset-parameter/870974.rdf
Name: Resp_Type
Units: unitless
Description: <p>Respiration type</p>
http://lod.bco-dmo.org/id/dataset-parameter/870975.rdf
Name: Tissue
Units: unitless
Description: <p>Tissue type</p>
http://lod.bco-dmo.org/id/dataset-parameter/870976.rdf
Name: Cultivation_Type
Units: unitless
Description: <p>Cultivation type</p>
http://lod.bco-dmo.org/id/dataset-parameter/870977.rdf
Name: N
Units: unitless
Description: <p>Sample size</p>
http://lod.bco-dmo.org/id/dataset-parameter/870978.rdf
Name: Glu
Units: per mil
Description: <p>Glutamic acid d15N value</p>
http://lod.bco-dmo.org/id/dataset-parameter/870979.rdf
Name: Asp
Units: per mil
Description: <p>Aspartic acid d15N value</p>
http://lod.bco-dmo.org/id/dataset-parameter/870980.rdf
Name: Ala
Units: per mil
Description: <p>Alanine d15N value</p>
http://lod.bco-dmo.org/id/dataset-parameter/870981.rdf
Name: Ile
Units: per mil
Description: <p>Isoleucine d15N value</p>
http://lod.bco-dmo.org/id/dataset-parameter/870982.rdf
Name: Leu
Units: per mil
Description: <p>Leucine d15N value</p>
http://lod.bco-dmo.org/id/dataset-parameter/870983.rdf
Name: Pro
Units: per mil
Description: <p>Proline d15N value</p>
http://lod.bco-dmo.org/id/dataset-parameter/870984.rdf
Name: Val
Units: per mil
Description: <p>Valine d15N value</p>
http://lod.bco-dmo.org/id/dataset-parameter/870985.rdf
Name: Gly
Units: per mil
Description: <p>Glycine d15N value</p>
http://lod.bco-dmo.org/id/dataset-parameter/870986.rdf
Name: Ser
Units: per mil
Description: <p>Serine d15N value</p>
http://lod.bco-dmo.org/id/dataset-parameter/870987.rdf
Name: Arg
Units: per mil
Description: <p>Arginine d15N value</p>
http://lod.bco-dmo.org/id/dataset-parameter/870988.rdf
Name: Phe
Units: per mil
Description: <p>Phenylalanine d15N value</p>
http://lod.bco-dmo.org/id/dataset-parameter/870989.rdf
Name: Lys
Units: per mil
Description: <p>Lysine d15N value</p>
http://lod.bco-dmo.org/id/dataset-parameter/870990.rdf
Name: Met
Units: per mil
Description: <p>Methionine d15N value</p>
http://lod.bco-dmo.org/id/dataset-parameter/870991.rdf
Name: His
Units: per mil
Description: <p>Histidine d15N value</p>
http://lod.bco-dmo.org/id/dataset-parameter/870992.rdf
Name: Tyr
Units: per mil
Description: <p>Tyrosine d15N value</p>
http://lod.bco-dmo.org/id/dataset-parameter/870993.rdf
Name: Thr
Units: per mil
Description: <p>Threonine d15N value</p>
http://lod.bco-dmo.org/id/dataset-parameter/870994.rdf
Name: Notes
Units: unitless
Description: <p>Notes</p>
http://lod.bco-dmo.org/id/dataset-parameter/870995.rdf
Name: Full_Reference
Units: unitless
Description: <p>Full reference citation</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
198950
https://darchive.mblwhoilibrary.org/bitstream/1912/28245/1/dataset-870320_primary-producer-amino-acid-nitrogen-isotope-data-meta-analysis__v1.tsv
download
https://doi.org/10.26008/1912/bco-dmo.870320.1
download
onLine
dataset
<p><strong>Literature Review Methods</strong></p>
<p>We performed a structured literature search for primary producer amino acid (AA) δ<sup>15</sup>N data in Scopus and Google Scholar using the search terms&nbsp;<em>nitrogen isotope</em>&nbsp;OR&nbsp;<em>15N</em>&nbsp;AND&nbsp;<em>amino acid</em>&nbsp;with each of the terms&nbsp;<em>plant</em>,<em>&nbsp;*plankton</em>,<em>&nbsp;algae</em>,<em>&nbsp;bacteria</em>, and&nbsp;<em>autotroph</em>. We also used the search terms<em>&nbsp;trophic</em>,<em>&nbsp;diet</em>, and&nbsp;<em>food web</em>&nbsp;to identify all studies that estimated trophic position via compound-specific stable isotope analysis (TP<sub>CSIA</sub>) or that estimated AA-specific trophic discrimination factors (TDFs). We only included studies that reported natural abundance stable isotope data. The literature search yielded 15 studies that reported beta values (β) for individual primary producers, 44 studies that reported TDFs or paired consumer-diet data within a trophic ecology context (e.g., controlled feeding study designed to characterize AA fractionation), and 176 studies that applied the TP<sub>CSIA</sub>&nbsp;equation (Figure 2 from Ramirez et al. 2021). The literature search yielded an additional 36 studies that reported AA δ<sup>15</sup>N data for autotrophs from which β values could be calculated and 9 additional studies from which TDFs could be calculated. The unit of replication for this meta-analysis was species-specific tissue within study. Therefore, if a study had multiple β values for a single primary producer species, a simple mean and standard deviation were calculated to consolidate the reported data into one estimate per species per study. Tissue-specific data were maintained separately whenever reported. This process resulted in a final dataset that consisted of 236 β values across ≥ 132 different primary producer genera in freshwater, marine, and terrestrial ecosystems (Table 1, Figure 3 in Ramirez et al. 2021). Our meta-analysis focused primarily on β values derived from Glx and Phe (β<sub>Glx-Phe</sub>) given that they are the most commonly measured trophic and source AAs and applied to estimate TP<sub>CSIA</sub>. However, we present β values for all combinations of trophic (Asx, Ala, Ile, Leu, Pro, Val) and source (Phe, Lys, Met, Tyr) AAs in Table 2 and Figures S1 (Ramirez et al. 2021).&nbsp;&nbsp;We also calculated β values for the “metabolic” AA Thr relative to the source AAs given its unique isotope dynamics with trophic transfer (McMahon &amp; McCarthy, 2016). Primary producer Met and Tyr δ<sup>15</sup>N data were not routinely collected nor reported, therefore inferences were limited for these AAs.</p>
<p>A list of the publications is found in the Publications section below, and also in Ramirez et al. (2021).</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