http://lod.bco-dmo.org/id/dataset/652991
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
2016-08-01
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Compound-specific Nitrogen isotopes from sperm whale dentin from the UC-Santa Cruz labs of P. Koch and M. McCarthy (Sperm Whale SI Ratios project)
2016-08-01
publication
2016-08-01
revision
BCO-DMO Linked Data URI
2016-08-01
creation
http://lod.bco-dmo.org/id/dataset/652991
Paul L. Koch
University of California-Santa Cruz
principalInvestigator
Matthew D. McCarthy
University of California-Santa Cruz
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: Koch, P. L., McCarthy, M. D. (2016) Compound-specific Nitrogen isotopes from sperm whale dentin from the UC-Santa Cruz labs of P. Koch and M. McCarthy (Sperm Whale SI Ratios project). Biological and Chemical Oceanography Data Management Office (BCO-DMO). Version Date 2016-08-01 [if applicable, indicate subset used]. http://lod.bco-dmo.org/id/dataset/652991 [access date]
Compound-specific Nitrogen isotopes from sperm whale dentin Dataset Description: <p>To determine the effects of decalcification and the accuracy of untreated dentin analysis, compound-specific Nitorgen isotope analysis was performed on decalcified and raw sperm whale tooth dentin. The differences in the amino acid isotope values and molar composition are reported. The sperm whale tooth came from the California Current System.</p>
<p><strong>Related Reference:</strong><br />
All sampling and analytical information are supplied in:&nbsp;Brault EK, Koch PK, Gier E, Ruiz-Cooley RI, Zupcic J, Gilbert KN, McCarthy MD (2014) Effects of decalcification on bulk and compound-specific nitrogen and carbon isotope analyses of dentin. Rapid Communications in Mass Spectrometry 28: 2744-2752.</p>
<p><strong>Related Datasets:</strong><br />
<a href="http://www.bco-dmo.org/dataset/652931">Brault 2014 - Bulk C:N</a><br />
<a href="http://www.bco-dmo.org/dataset/652952">Brault 2014: Compound-specific Carbon in sperm whale dentin</a></p> Methods and Sampling: <p>Materials and methods for analysis are described in detail in the text. Briefly, a homogenized sample of sperm whale dentin was split into sub-samples. Three received "Conventional" extractraction (decalcification with 0.5N HCl, rinsing with water to neutrality, freeze-drying) and three were not treated ("Raw"). Samples were hydrolyzed with 6 N HCl for 20 h at 110°C, then trifluoroacetic anhydride (TFAA) derivatives were prepared. Samples were analyzed for amino acid carbon and nitrogen isotope composition on a Thermo Trace gas chromatograph coupled to a Thermo Finnigan DeltaPlus XP isotope ratio mass spectrometer. Details on columns used, injection and furnace ramp parameters are presented in the paper. The amino acid δ15N values were determined from the measured values of the amino acid with corrections based on an amino acid mixture standard for which isotopic values had been independently determined by offline elemental analyzer analysis. Using this approach, isotopic values of 12 amino acids could be reproducibly quantified: alanine (Ala), glycine (Gly), threonine (Thr), serine (Ser), valine (Val), leucine (Leu), isoleucine (Ile), proline + hydroxyproline (Pro+), aspartic acid + asparagine (Asp), glutamic acid + glutamine (Glu), phenylalanine (Phe), and lysine (Lys). The amino acid molar percentages (Mol %) were determined from the peak areas using an external standard approach and based on the amino acid standard versus sample peak areas. *, isotopic value based on one injection; **, isotopic mean and stdv based on two injections.</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1155728 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1155728
onGoing
Paul L. Koch
University of California-Santa Cruz
831-234-9437
1156 High Street
Santa Cruz
CA
95064-1077
USA
plkoch@ucsc.edu
pointOfContact
Matthew D. McCarthy
University of California-Santa Cruz
831-459-1533
1156 High Street
Santa Cruz
CA
95064
USA
mdmccar@ucsc.edu
pointOfContact
asNeeded
Unknown
amino_acid_type
amino_acid
method
sample
injections
mol_pcent
d15N
d15N_stdv
theme
None, User defined
No BCO-DMO term
treatment
sample identification
amino acid concentration
d15N measured in biota
standard deviation
featureType
BCO-DMO Standard Parameters
Gas Chromatograph
Isotope-ratio Mass Spectrometer
instrument
BCO-DMO Standard Instruments
lab_UCSC_Koch
service
Deployment Activity
UC-Santa Cruz labs of P. Koch and M. McCarthy
place
Locations
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.
A novel approach for evaluating temporal and spatial changes in trophic structure of the mesopelagic eastern Pacific
https://osprey.bco-dmo.org/project/557241
A novel approach for evaluating temporal and spatial changes in trophic structure of the mesopelagic eastern Pacific
<p><em>Description from NSF award abstract:</em><br />
Anthropogenic and natural climatic perturbations drive changes in population dynamics of species, the structure and function of food webs, and biogeochemical processes. The PIs propose a comparative analysis of three major ecosystems to investigate temporal change in the structure of mesopelagic food webs.</p>
<p>The PIs will investigate temporal changes in the structure of mesopelagic food webs in three major ecosystems: the California Current, Eastern Tropical Pacific, and the Peru-Humboldt Current over the past 50 years using a globally distributed apex predator as an indicator species. The predator is the sperm whale, <em>Physeter macrocephalus</em>, and the PIs will use stable isotope ratios of carbon and nitrogen as indicators of habitat and diet. Isotope values from bulk tissues of teeth and skin (C and N) as well as specific amino acids (N) will be used to address two primary objectives: (a) examine temporal patterns in the trophic position of sperm whales (as an indicator of changes in mesopelagic trophic structure) and baseline isotopic values (as indicators of nutrient cycling); and (b) use isotopic values, which vary among systems, to define the population structure of sperm whales from past and present times, and connectivity among populations.</p>
<p>This project will be conducted by researchers from academia and NOAA/NMFS with expertise in stable isotope analysis, trophic ecology, and ecosystem-based management of protected species. As such, it represents an opportunity for collaboration between scientists with complementary skills and from diverse institutions to compare structure and function of ecosystems across the eastern Pacific. Moreover, it represents a collaboration between academia and a federal agency with research and management responsibilities. The project will support a postdoctoral scholar (Iliana Ruiz-Cooley), a Ph.D. student, and undergraduate students to enhance their career and collaborative opportunities. The PIs anticipate that the results of their study will provide unique data to evaluate the effects of perturbations within and among mesopelagic ecosystems. This information may allow the scientific community to relate trends in climate to changes in trophic position of top predators and nutrient cycling, allowing more robust understanding of possible responses to future warming. Finally, as the first systematic applications of compound-specific stable isotope analysis to marine mammals, the project should be highly instructive for future evaluations of the feeding ecology, population structure and dynamics of endangered marine mammals. As such, this novel approach and unique historic perspective will be directly applicable for stock assessment and management.</p>
Sperm Whale SI Ratios
largerWorkCitation
project
eng; USA
biota
oceans
UC-Santa Cruz labs of P. Koch and M. McCarthy
2016-08-01
California Current, Eastern Tropical Pacific, and the Peru-Humboldt Current
0
BCO-DMO catalogue of parameters from Compound-specific Nitrogen isotopes from sperm whale dentin from the UC-Santa Cruz labs of P. Koch and M. McCarthy (Sperm Whale SI Ratios 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
http://lod.bco-dmo.org/id/dataset-parameter/653004.rdf
Name: amino_acid_type
Units: unitless
Description: <p>Trophic: amino acids that experience strong 15N-enrichment from food to consumer tissues<br />
Source: amino acids experience only slight 15N-enrichment from food to consumer tissues<br />
Metabolic: label for theronine in N isotope studies, because the amino acid is subject to as yet poorly understood metabolic fractionation.</p>
http://lod.bco-dmo.org/id/dataset-parameter/653005.rdf
Name: amino_acid
Units: unitless
Description: <p>amino acid:<br />
Ala = Alanine<br />
Asp = Aspartate & Asparagine<br />
Glu = Glutamate & Glutamine<br />
Gly = Glycine<br />
Hpro = Hydroxyproline<br />
Ile = Isoleucine<br />
Leu = Leucine<br />
Lys = Lysine<br />
Phe = Phenylalanine<br />
Pro = Proline<br />
Pro_Hpro = Proline + Hydroxyproline<br />
Ser = Serine<br />
Thr = Threonine<br />
Tyr = Tyrosine<br />
Val = Valine</p>
http://lod.bco-dmo.org/id/dataset-parameter/653006.rdf
Name: method
Units: unitless
Description: <p>Conventional: removal of inorganic matrix by acid dissolution (see Brault et al. (2014) RCMS<br />
Raw: no pretreatment</p>
http://lod.bco-dmo.org/id/dataset-parameter/653007.rdf
Name: sample
Units: unitless
Description: <p>sample identification</p>
http://lod.bco-dmo.org/id/dataset-parameter/653008.rdf
Name: injections
Units: each
Description: <p>number of times that the sample was injected and analyzed by gas chromatography-isotope ratio monitoring-mass spectrometry</p>
http://lod.bco-dmo.org/id/dataset-parameter/653009.rdf
Name: mol_pcent
Units: percent
Description: <p>mole percent = (moles of particular amino acid ÷ moles of all extractable amino acids) x 100. While Mol % sums to 100; not all amino acids in a protein can be extract and quantified.</p>
http://lod.bco-dmo.org/id/dataset-parameter/653010.rdf
Name: d15N
Units: dimensionless (ratio)
Description: <p>delta N15 = ((15N/14Nstandard - 15N/14Nsample) ÷ 15N/14Nstandard) x 1000; standard is AIR (atmospheric nitrogen)</p>
http://lod.bco-dmo.org/id/dataset-parameter/653011.rdf
Name: d15N_stdv
Units: dimensionless (ratio)
Description: <p>standard deviation of delta C13</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
3931
https://datadocs.bco-dmo.org/file/g77yq1oUGNjEmJ/compound_specific_N.csv
compound_specific_N.csv
Primary data file for dataset ID 652991
download
https://osprey.bco-dmo.org/dataset/652991/data/download
download
onLine
dataset
<p>Materials and methods for analysis are described in detail in the text. Briefly, a homogenized sample of sperm whale dentin was split into sub-samples. Three received "Conventional" extractraction (decalcification with 0.5N HCl, rinsing with water to neutrality, freeze-drying) and three were not treated ("Raw"). Samples were hydrolyzed with 6 N HCl for 20 h at 110°C, then trifluoroacetic anhydride (TFAA) derivatives were prepared. Samples were analyzed for amino acid carbon and nitrogen isotope composition on a Thermo Trace gas chromatograph coupled to a Thermo Finnigan DeltaPlus XP isotope ratio mass spectrometer. Details on columns used, injection and furnace ramp parameters are presented in the paper. The amino acid δ15N values were determined from the measured values of the amino acid with corrections based on an amino acid mixture standard for which isotopic values had been independently determined by offline elemental analyzer analysis. Using this approach, isotopic values of 12 amino acids could be reproducibly quantified: alanine (Ala), glycine (Gly), threonine (Thr), serine (Ser), valine (Val), leucine (Leu), isoleucine (Ile), proline + hydroxyproline (Pro+), aspartic acid + asparagine (Asp), glutamic acid + glutamine (Glu), phenylalanine (Phe), and lysine (Lys). The amino acid molar percentages (Mol %) were determined from the peak areas using an external standard approach and based on the amino acid standard versus sample peak areas. *, isotopic value based on one injection; **, isotopic mean and stdv based on two injections.</p>
Specified by the Principal Investigator(s)
<p><strong>BCO-DMO Processing:</strong></p>
<p>- added conventional header with dataset name, PI name, version date, reference information<br />
- renamed parameters to BCO-DMO standard<br />
- reformatted columns and rows to a simple flat file<br />
- replaced hyphens with nd (no data)</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
PI Supplied Instrument Name: PI Supplied Instrument Description:Thermo Trace gas chromatograph coupled to a Thermo Finnigan DeltaPlus XP isotope ratio mass spectrometer 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/
PI Supplied Instrument Name: PI Supplied Instrument Description:Thermo Finnigan DeltaPlus XP isotope ratio mass spectrometer (Thermo Scientific, Bremen, Germany) Instrument Name: Isotope-ratio Mass Spectrometer Instrument Short Name:IR Mass Spec; IRMS Instrument Description: The Isotope-ratio Mass Spectrometer is a particular type of mass spectrometer used to measure the relative abundance of isotopes in a given sample (e.g. VG Prism II Isotope Ratio Mass-Spectrometer). Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/LAB16/
Deployment: lab_UCSC_Koch
lab_UCSC_Koch
UCSC
laboratory
UCSC
laboratory