http://lod.bco-dmo.org/id/dataset/891113
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
2023-03-07
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Bulk and CSIA-AA stable isotopes in sinking POM (sediment trap collected) and proteinaceous deep-sea coral skeletal material in Monterey Bay from 1998 to 2007
2023-03-07
publication
2023-03-07
revision
BCO-DMO Linked Data URI
2023-03-07
creation
http://lod.bco-dmo.org/id/dataset/891113
Thomas Guilderson
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: Guilderson, T. (2023) Bulk and CSIA-AA stable isotopes in sinking POM (sediment trap collected) and proteinaceous deep-sea coral skeletal material in Monterey Bay from 1998 to 2007. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2023-03-07 [if applicable, indicate subset used]. http://lod.bco-dmo.org/id/dataset/891113 [access date]
Methods and Sampling: <div id="form_methodology"><strong>Location description:&nbsp;</strong>
<p>Central California Coast, Monterey Bay.</p>
<p>Sinking particles were collected at station M2 (36.697˚N, 122.378˚)</p>
<p>The trap was deployed at 1200 m depth&nbsp;</p>
<p>Two bamboo coral specimens (Isidella sp.),&nbsp; were collected in Monterey Canyon (36.747˚N, 122.022˚W) in 2007 at depths of 915 m and 835 m</p>
<strong>Methods &amp; Sampling:</strong>
<p>Sinking particles were collected at station M2 (36.697˚N, 122.378˚W; Fig. 1 of Shen et al., 2021) using an acid-cleaned cone-shaped Honjo Mark VI sediment trap. The trap was deployed at 1200 m depth (~500 m above the seafloor) from January 1999 through December 2004. The trap was outfitted with 13 collection cups that contained preservatives (3.0 mM of mercury chloride and &gt; 5 g/L of sodium chloride) and rotated every 14 days. There were gaps in the sampling due to technical issues with sediment trap program or trap retrieval. The collection and handling of samples followed the procedures described in&nbsp;Castro et al. (2018). The oven-dried samples were ground in an agate mortar and stored in polyethylene vials or polycarbonate tubes at room temperature in the dark until elemental and isotopic analyses.</p>
<p>From the two Isidella&nbsp;app&nbsp;specimens, polyp and tissue material was separated from skeletons upon collection, and the samples were washed in seawater and rinsed in freshwater prior to air drying. An organic node (6-8 mm thick) was removed from near the basal attachment of each coral skeleton and decarbonated in 10% HCl. Using scalpel and forceps, organic peels (0.4 -0.5 mm thick) were dissected and then rinsed in Milli-Q water and dried. Based on bomb-<sup>14</sup>C dating, the growth rate of&nbsp;Isidella&nbsp;in Monterey Bay was estimated to be 0.14 mm/yr; thus each peel represents a 3-4-year time window. We present data from only the second and third peels from each coral because they represent the best temporal match to the sediment traps data (1999-2004).</p>
<p>Sediment trap samples were separated into aliquots for bulk δ<sup>13</sup>C and δ<sup>15</sup>N analysis. Aliquots for δ<sup>13</sup>C analysis were weighed (~10 mg) into silver boats and acidified by immersion in 6-8% sulfurous acid (H<sub>2</sub>SO<sub>3</sub>) followed by repeated rinses with Milli-Q water and drying at 60˚C overnight. The other aliquots for δ<sup>15</sup>N analysis (~10 mg) were not pre-treated. Coral peels were acidified during the previous preparation (section 2.1) and did not undergo any further pre‑treatment. Approximately 0.15 mg of coral peels was used for bulk δ<sup>13</sup>C and δ<sup>15</sup>N. Bulk isotope analysis was performed at the UC Santa Cruz Light Stable Isotope Laboratory using a Carlo Erba 1108 elemental analyzer coupled to Thermo Finnigan Delta Plux XP isotope ratio mass spectrometer following standard procedures (<a href="https://websites.pmc.ucsc.edu/~silab/index.php">https://websites.pmc.ucsc.edu/~silab/index.php</a>). Isotopic values were corrected for sample size and instrumental drift and were reported in units of per mil (‰) relative to Vienna PeeDee Belemnite (VPDB) and air for δ<sup>13</sup>C and δ<sup>15</sup>N, respectively. Analytical precision as monitored with acetanilide was &lt;0.2‰ for δ<sup>13</sup>C and δ<sup>15</sup>N.</p>
<p>Approximately 10-15 mg of dried sediment trap and coral material was used for amino acid δ<sup>13</sup>C and δ<sup>15</sup>N analyses. Hydrolysis, purification, and derivatization followed previously established protocols in batches of 5-7 samples. An AA mixture of known δ<sup>13</sup>C and δ<sup>15</sup>N values and an in-house biological reference standard (homogenized cyanobacteria) was analyzed along with each sample batch. The AA mixture was used to calibrate the δ<sup>13</sup>C and δ<sup>15</sup>N results. The cyanobacteria reference, processed in the same way as samples, was used to monitor the consistency of wet chemistry and instrumental analysis (Table EA1 of Shen et al., 2021). δ<sup>13</sup>C<sub>AA</sub>&nbsp;and δ<sup>15</sup>N<sub>AA</sub>&nbsp;values were determined using a Thermo Trace Ultra gas chromatography (GC) coupled with a Finnigan MAT DeltaPlus XL IRMS at UCSC SIL. Samples were injected in triplicate, bracketed by triplicate injections of the calibration standard. Final δ<sup>13</sup>C<sub>AA</sub>&nbsp;values were corrected for the added&nbsp;derivatizing&nbsp;reagents, and final δ<sup>15</sup>N<sub>AA</sub>values were corrected based on the offset between known and measured δ<sup>15</sup>N<sub>AA</sub>&nbsp;values of the calibration standard. The standard deviation of replicate injections for individual AAs in the samples ranged from 0.2‰ to 0.5‰ for δ<sup>13</sup>C and from 0.1‰ to 0.6‰ for δ<sup>15</sup>N. The relative abundance (mol%) of amino acids was determined from peak areas measured during&nbsp;d<sup>15</sup>N analysis. Peak area response factors for individual AAs were calculated from the known-concentration external standards and then applied to sample peak areas to derive molar abundances.<br />
<br />
One cyanobacteria standard was analyzed during each batch of sample measurement. Data for&nbsp;each batch are reported as average and standard deviation of 3 injections. _AVG and _STD columns&nbsp;refer to&nbsp;the average and standard deviation value of the entire standard set (n = 8 for C; n = 6 for N).&nbsp;<br />
<br />
Carbon stable isotope values are reported in per mil notation relative to V-PDB.</p>
<p>Nitrogen stable isotope values are reported in per mil notation relative to AIR.</p>
<p><strong>Instrument description:</strong></p>
</div>
<div id="form_instruments">
<p>Bulk isotope analysis was performed at the UC Santa Cruz Light Stable Isotope Laboratory using a Carlo Erba 1108 elemental analyzer coupled to Thermo Finnigan Delta Plux XP isotope ratio mass spectrometer following standard procedures (<a href="https://websites.pmc.ucsc.edu/~silab/index.php">https://websites.pmc.ucsc.edu/~silab/index.php</a>).</p>
<p>CSIA-AA δ<sup>13</sup>C<sub>AA</sub>&nbsp;and δ<sup>15</sup>N<sub>AA</sub>&nbsp;values were determined using a Thermo Trace Ultra gas chromatography (GC) coupled with a Finnigan MAT DeltaPlus XL IRMS at UCSC SIL.<br />
<br />
<strong>Abbreviation/Terminology Description:</strong><br />
<br />
AA or AAs = Amino acids<br />
Ala = Alanine<br />
Asx = Asparagine + aspartic Acid<br />
AVG = Average<br />
Baseline isotope values = Refer to the source nitrogen d15N value or primary production d13C value<br />
CSI-AA = Compound-specific isotope analysis of amino acids<br />
CSI-AA-based proxies = Refer to d13CPhe, d13CEAA, d15NPhe, d15NSrcAA, or/and TPCSI-AA<br />
CSI-AA baseline proxies = Refer to d13CPhe, d13CEAA, d15NPhe or/and d15NSrcAA<br />
CSI-AA values =&nbsp; Refer to C and N isotope values of amino acids in general<br />
DI = Degradation index (based on mol% values of protein AAs)<br />
DIC = Dissolved Inorganic Carbon<br />
EAA = Essential amino acids (Thr, Ile, Val, Phe, Leu, Lys)<br />
Exported = TP Trophic position of export production<br />
GC-IRMS = Gas chromatography isotope ratio mass spectrometry<br />
Glx = Glutamine + Glutamic acid<br />
Gly = Glycine<br />
HCl = Hydrochloric acid<br />
H2SO3 = Sulfurous acid<br />
Ile = Isoleucine<br />
Leu = Leucine<br />
Lys = Lysine<br />
NEAA = Non-essential amino acids (Gly, Ser, Asx, Glx, Pro, Ala)<br />
Phe = Phenylalanine<br />
POC = Particulate organic carbon<br />
POM = Particulate organic matter<br />
Pro = Proline<br />
Ser = Serine<br />
Source = nitrogen Inorganic nitrogen used by primary producer (e.g., N2 or nitrate)<br />
SrcAA = Source amino acids (Phe, Lys)<br />
SV = Sum of variance (based on d15N values of trophic amino acids)<br />
STD = Standard deviation<br />
TDF = Trophic discrimination factor<br />
Thr = Threonine<br />
TP = Trophic position<br />
TPCSI-AA = Trophic position estimated from d15N values of Glu and Phe<br />
TPskeleton = TPCSI-AA values of coral skeletons<br />
TrAA = Trophic amino acids (Glx, Asx, Ala, Leu, Ile, Pro, Val)<br />
Val = Valine<br />
VPDB = Vienna PeeDee Belemnite<br />
d13CEAA = Mean d13C value of the six essential amino acids<br />
d13CNEAA = Mean d13C value of the six non-essential amino acids<br />
d15NSrcAA = Mean d15N value of the two source amino acids<br />
d15NTrAA = Mean d15N value of the seven trophic amino acids<br />
d13Cexport = production Bulk d13C value of sediment trap material (i.e., sinking particles)<br />
d15Nexport = production Bulk d15N value of sediment trap material (i.e., sinking particles)</p>
</div>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1635527 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1635527
onGoing
Thomas Guilderson
University of California-Santa Cruz
925-422-1753
Ocean Sciences Department 1156 High St
Santa Cruz
CA
95060
USA
tguilder@ucsc.edu
pointOfContact
asNeeded
Dataset Version: 1
Unknown
Sample
Initial_Collection_Year
Final_Collection_Year
Initial_Collection_Date
Final_Collection_Date
POC_flux
d13Cbulk
d13C_Thr_AVG
d13C_Thr_STD
d13C_Ile_AVG
d13C_Ile_STD
d13C_Val_AVG
d13C_Val_STD
d13C_Phe_AVG
d13C_Phe_STD
d13C_Leu_AVG
d13C_Leu_STD
d13C_Lys_AVG
d13C_Lys_STD
d13C_Gly_AVG
d13C_Gly_STD
d13C_Ser_AVG
d13C_Ser_STD
d13C_Asp_AVG
d13C_Asp_STD
d13C_Glu_AVG
d13C_Glu_STD
d13C_Pro_AVG
d13C_Pro_STD
d13C_Ala_AVG
d13C_Ala_STD
d13CEAA1_AVG
d13CEAA1_STD
d13CEAA2_AVG
d13CEAA2_STD
d13CNEAA_AVG
d13CNEAA_STD
d15Nbulk
d15N_Phe_AVG
d15N_Phe_STD
d15N_Lys_AVG
d15N_Lys_STD
d15N_Gly_AVG
d15N_Gly_STD
d15N_Ser_AVG
d15N_Ser_STD
d15N_Glu_AVG
d15N_Glu_STD
d15N_Asp_AVG
d15N_Asp_STD
d15N_Ala_AVG
d15N_Ala_STD
d15N_Leu_AVG
d15N_Leu_STD
d15N_Ile_AVG
d15N_Ile_STD
d15N_Pro_AVG
d15N_Pro_STD
d15N_Val_AVG
d15N_Val_STD
d15N_Thr_AVG
d15N_Thr_STD
d15NSrcAA_AVG
d15NSrcAA_STD
d15NTrAA_AVG
d15NTrAA_STD
Dauwel_DI
SumV_AVG
SumV_STD
Carlo Erba 1108
Thermo Trace Ultra
Finnigan MAT DeltaPlus XL IRMS
Thermo Finnigan Delta Plux XP
theme
None, User defined
sample identification
year
date
particulate organic Carbon (POC)
d13C
d15N
No BCO-DMO term
featureType
BCO-DMO Standard Parameters
Elemental Analyzer
Gas Chromatograph
Isotope-ratio Mass Spectrometer
Mass Spectrometer
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.
Development and application of CSI-AA biogeochemistry reconstructions in deep-sea corals to study decadal-centennial variability in the North Pacific
https://osprey.bco-dmo.org/project/882519
Development and application of CSI-AA biogeochemistry reconstructions in deep-sea corals to study decadal-centennial variability in the North Pacific
<p><em>NSF Award Abstract:</em><br />
Oceanic biological-ecosystem variability reflects dynamic physical processes in the ocean. This research aims to use newly-developed, state-of-the-art analyses of the chemical composition of deep-sea corals to examine how biogeochemical changes and shifts in plankton populations are related to environmental changes over the past few centuries. The project focuses on the Northeast Pacific Arc, which includes the Gulf of Alaska and the California Current System (CCS). Here instrumental records of sea surface temperature, sea level pressure, and coastal surface temperature reveal a consistent pattern of multi-decadal-scale changes in the North Pacific Basin. Funding supports training of one graduate student, one postdoctoral fellow, and offers research experiences for UCSC undergraduates, community college students, and high school students. The research team has partnered with the UCSC Seymour Marine Discovery Center to establish a new permanent exhibit highlighting deep-sea corals and climate-related ecosystem change.</p>
<p>The central goal of this research is to couple high resolution records of past environments derived from deep-sea proteinaceous corals together with new compound-specific amino acid isotope (CSI-AA) measurements to create reconstructions of both biogeochemical change (e.g., source of nitrogen) and basic plankton ecosystem shifts crossing the Northeast Pacific Arc. Using sediment trap and live-collected samples, the research team will develop a more intimate understanding of, and establish explicit links between export production and the CSI-AA baseline values and patterns recorded in proteinaceous deep-sea corals. They will apply this knowledge to provide new insight into the underlying mechanisms of North East Pacific ecosystem change over the last 300-500 years. Overarching questions guiding this research are: 1) Are there structural, secular, long-term changes in NE Pacific Arc food webs beyond the Pacific Decadal Oscillation?, 2) If yes, how are these reflected in the community structure at the base of the food web?, and 3) How has community structure and sources of nitrate at the base of the food-web shifted in response to these changes?</p>
Deep Sea Coral Reconstruction
largerWorkCitation
project
eng; USA
oceans
-122.378
-122.022
36.697
36.747
1998-12-30
2007-01-01
North Pacific, including Central California Coast (eg Monterey Bay, Sur Ridge, Pioneer Seamount), Gulf of Alaska, North Pacific Gyre (eg Main Hawaiian Islands)
0
BCO-DMO catalogue of parameters from Bulk and CSIA-AA stable isotopes in sinking POM (sediment trap collected) and proteinaceous deep-sea coral skeletal material in Monterey Bay from 1998 to 2007
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/891281.rdf
Name: Sample
Units: unitless
Description: <p>Sample name. Prefix "S2" indicates the sample was from sediment traps. Prefix "A2" and "A11" indicate the sample was from coral skeletons.</p>
http://lod.bco-dmo.org/id/dataset-parameter/891282.rdf
Name: Initial_Collection_Year
Units: unitless
Description: <p>Initial collection year</p>
http://lod.bco-dmo.org/id/dataset-parameter/891283.rdf
Name: Final_Collection_Year
Units: unitless
Description: <p>Final collection year</p>
http://lod.bco-dmo.org/id/dataset-parameter/891284.rdf
Name: Initial_Collection_Date
Units: unitless
Description: <p>Initial collection date</p>
http://lod.bco-dmo.org/id/dataset-parameter/891285.rdf
Name: Final_Collection_Date
Units: unitless
Description: <p>Final collection date</p>
http://lod.bco-dmo.org/id/dataset-parameter/891286.rdf
Name: POC_flux
Units: milligrams of carbon per meter squared per day (mgC m-2 d-1)
Description: <p>Particulate organic carbon (POC) flux</p>
http://lod.bco-dmo.org/id/dataset-parameter/891287.rdf
Name: d13Cbulk
Units: permil (0/00)
Description: <p>Bulk d13C</p>
http://lod.bco-dmo.org/id/dataset-parameter/891288.rdf
Name: d13C_Thr_AVG
Units: permil (0/00)
Description: <p>Essential amino acid Threonine (Thr) d13C average</p>
http://lod.bco-dmo.org/id/dataset-parameter/891289.rdf
Name: d13C_Thr_STD
Units: permil (0/00)
Description: <p>Essential amino acid Threonine (Thr) d13C standard deviation</p>
http://lod.bco-dmo.org/id/dataset-parameter/891290.rdf
Name: d13C_Ile_AVG
Units: permil (0/00)
Description: <p>Essential amino acid Isoleucine (Ile) d13C average</p>
http://lod.bco-dmo.org/id/dataset-parameter/891291.rdf
Name: d13C_Ile_STD
Units: permil (0/00)
Description: <p>Essential amino acid Isoleucine (Ile) d13C standard deviation</p>
http://lod.bco-dmo.org/id/dataset-parameter/891292.rdf
Name: d13C_Val_AVG
Units: permil (0/00)
Description: <p>Essential amino acid Valine (Val) d13C average</p>
http://lod.bco-dmo.org/id/dataset-parameter/891293.rdf
Name: d13C_Val_STD
Units: permil (0/00)
Description: <p>Essential amino acid Valine (Val) d13C standard deviation</p>
http://lod.bco-dmo.org/id/dataset-parameter/891294.rdf
Name: d13C_Phe_AVG
Units: permil (0/00)
Description: <p>Essential amino acid Phenylalanine (Phe) d13C average</p>
http://lod.bco-dmo.org/id/dataset-parameter/891295.rdf
Name: d13C_Phe_STD
Units: permil (0/00)
Description: <p>Essential amino acid Phenylalanine (Phe) d13C standard deviation</p>
http://lod.bco-dmo.org/id/dataset-parameter/891296.rdf
Name: d13C_Leu_AVG
Units: permil (0/00)
Description: <p>Essential amino acid Leucine (Leu) d13C average</p>
http://lod.bco-dmo.org/id/dataset-parameter/891297.rdf
Name: d13C_Leu_STD
Units: permil (0/00)
Description: <p>Essential amino acid Leucine (Leu) d13C standard deviation</p>
http://lod.bco-dmo.org/id/dataset-parameter/891298.rdf
Name: d13C_Lys_AVG
Units: permil (0/00)
Description: <p>Essential amino acid Lysine (Lys) d13C average</p>
http://lod.bco-dmo.org/id/dataset-parameter/891299.rdf
Name: d13C_Lys_STD
Units: permil (0/00)
Description: <p>Essential amino acid Lysine (Lys) d13C standard deviation</p>
http://lod.bco-dmo.org/id/dataset-parameter/891300.rdf
Name: d13C_Gly_AVG
Units: permil (0/00)
Description: <p>Non-essential amino acid Glycine (Gly) d13C average</p>
http://lod.bco-dmo.org/id/dataset-parameter/891301.rdf
Name: d13C_Gly_STD
Units: permil (0/00)
Description: <p>Non-essential amino acid Glycine (Gly) d13C standard deviation</p>
http://lod.bco-dmo.org/id/dataset-parameter/891302.rdf
Name: d13C_Ser_AVG
Units: permil (0/00)
Description: <p>Non-essential amino acid Serine (Ser) d13C average</p>
http://lod.bco-dmo.org/id/dataset-parameter/891303.rdf
Name: d13C_Ser_STD
Units: permil (0/00)
Description: <p>Non-essential amino acid Serine (Ser) d13C standard deviation</p>
http://lod.bco-dmo.org/id/dataset-parameter/891304.rdf
Name: d13C_Asp_AVG
Units: permil (0/00)
Description: <p>Non-essential amino acid Asparagine (Asp) d13C average</p>
http://lod.bco-dmo.org/id/dataset-parameter/891305.rdf
Name: d13C_Asp_STD
Units: permil (0/00)
Description: <p>Non-essential amino acid Asparagine (Asp) d13C standard deviation</p>
http://lod.bco-dmo.org/id/dataset-parameter/891306.rdf
Name: d13C_Glu_AVG
Units: permil (0/00)
Description: <p>Non-essential amino acid Glutamine (Glu) d13C average</p>
http://lod.bco-dmo.org/id/dataset-parameter/891307.rdf
Name: d13C_Glu_STD
Units: permil (0/00)
Description: <p>Non-essential amino acid Glutamine (Glu) d13C standard deviation</p>
http://lod.bco-dmo.org/id/dataset-parameter/891308.rdf
Name: d13C_Pro_AVG
Units: permil (0/00)
Description: <p>Non-essential amino acid Proline (Pro) d13C average</p>
http://lod.bco-dmo.org/id/dataset-parameter/891309.rdf
Name: d13C_Pro_STD
Units: permil (0/00)
Description: <p>Non-essential amino acid Proline (Pro) d13C standard deviation</p>
http://lod.bco-dmo.org/id/dataset-parameter/891310.rdf
Name: d13C_Ala_AVG
Units: permil (0/00)
Description: <p>Non-essential amino acid Alanine (Ala) d13C average</p>
http://lod.bco-dmo.org/id/dataset-parameter/891311.rdf
Name: d13C_Ala_STD
Units: permil (0/00)
Description: <p>Non-essential amino acid Alanine (Ala) d13C standard deviation</p>
http://lod.bco-dmo.org/id/dataset-parameter/891312.rdf
Name: d13CEAA1_AVG
Units: permil (0/00)
Description: <p>Average d13C value of all six essential Amino Acids (Thr, Ile, Val, Phe, Leu, Lys)</p>
http://lod.bco-dmo.org/id/dataset-parameter/891313.rdf
Name: d13CEAA1_STD
Units: permil (0/00)
Description: <p>Standard deviation of d13C for all six essential Amino Acids (Thr, Ile, Val, Phe, Leu, Lys)</p>
http://lod.bco-dmo.org/id/dataset-parameter/891314.rdf
Name: d13CEAA2_AVG
Units: permil (0/00)
Description: <p>Average d13C value of essential amino acids (Thr, Ile, Phe, Leu, Lys) without Val</p>
http://lod.bco-dmo.org/id/dataset-parameter/891315.rdf
Name: d13CEAA2_STD
Units: permil (0/00)
Description: <p>Standard deviation of d13C for essential amino acids (Thr, Ile, Phe, Leu, Lys) without Val</p>
http://lod.bco-dmo.org/id/dataset-parameter/891316.rdf
Name: d13CNEAA_AVG
Units: permil (0/00)
Description: <p>Non-essential amino acids (Gly, Ser, Asx, Glx, Pro, Ala) d13C average</p>
http://lod.bco-dmo.org/id/dataset-parameter/891317.rdf
Name: d13CNEAA_STD
Units: permil (0/00)
Description: <p>Non-essential amino acids (Gly, Ser, Asx, Glx, Pro, Ala) d13C standard deviation</p>
http://lod.bco-dmo.org/id/dataset-parameter/891318.rdf
Name: d15Nbulk
Units: permil (0/00)
Description: <p>Bulk d15N</p>
http://lod.bco-dmo.org/id/dataset-parameter/891319.rdf
Name: d15N_Phe_AVG
Units: permil (0/00)
Description: <p>Source amino acid Phenylalanine (Phe) d15N average</p>
http://lod.bco-dmo.org/id/dataset-parameter/891320.rdf
Name: d15N_Phe_STD
Units: permil (0/00)
Description: <p>Source amino acid Phenylalanine (Phe) d15N standard deviation</p>
http://lod.bco-dmo.org/id/dataset-parameter/891321.rdf
Name: d15N_Lys_AVG
Units: permil (0/00)
Description: <p>Source amino acid Lysine (Lys) d15N average</p>
http://lod.bco-dmo.org/id/dataset-parameter/891322.rdf
Name: d15N_Lys_STD
Units: permil (0/00)
Description: <p>Source amino acid Lysine (Lys) d15N standard deviation</p>
http://lod.bco-dmo.org/id/dataset-parameter/891323.rdf
Name: d15N_Gly_AVG
Units: permil (0/00)
Description: <p>Glycine (Gly) d13C average</p>
http://lod.bco-dmo.org/id/dataset-parameter/891324.rdf
Name: d15N_Gly_STD
Units: permil (0/00)
Description: <p>Glycine (Gly) d13C standard deviation</p>
http://lod.bco-dmo.org/id/dataset-parameter/891325.rdf
Name: d15N_Ser_AVG
Units: permil (0/00)
Description: <p>Serine (Ser) d13C average</p>
http://lod.bco-dmo.org/id/dataset-parameter/891326.rdf
Name: d15N_Ser_STD
Units: permil (0/00)
Description: <p>Serine (Ser) d13C standard deviation</p>
http://lod.bco-dmo.org/id/dataset-parameter/891327.rdf
Name: d15N_Glu_AVG
Units: permil (0/00)
Description: <p>Trophic amino acid Glutamine (Glu) d15N average</p>
http://lod.bco-dmo.org/id/dataset-parameter/891328.rdf
Name: d15N_Glu_STD
Units: permil (0/00)
Description: <p>Trophic amino acid Glutamine (Glu) d15N standard deviation</p>
http://lod.bco-dmo.org/id/dataset-parameter/891329.rdf
Name: d15N_Asp_AVG
Units: permil (0/00)
Description: <p>Trophic amino acid Asparagine (Asp) d15N average</p>
http://lod.bco-dmo.org/id/dataset-parameter/891330.rdf
Name: d15N_Asp_STD
Units: permil (0/00)
Description: <p>Trophic amino acid Asparagine (Asp) d15N standard deviation</p>
http://lod.bco-dmo.org/id/dataset-parameter/891331.rdf
Name: d15N_Ala_AVG
Units: permil (0/00)
Description: <p>Trophic amino acid Alanine (Ala) d15N average</p>
http://lod.bco-dmo.org/id/dataset-parameter/891332.rdf
Name: d15N_Ala_STD
Units: permil (0/00)
Description: <p>Trophic amino acid Alanine (Ala) d15N standard deviation</p>
http://lod.bco-dmo.org/id/dataset-parameter/891333.rdf
Name: d15N_Leu_AVG
Units: permil (0/00)
Description: <p>Trophic amino acid Leucine (Leu) d15N average</p>
http://lod.bco-dmo.org/id/dataset-parameter/891334.rdf
Name: d15N_Leu_STD
Units: permil (0/00)
Description: <p>Trophic amino acid Leucine (Leu) d15N standard deviation</p>
http://lod.bco-dmo.org/id/dataset-parameter/891335.rdf
Name: d15N_Ile_AVG
Units: permil (0/00)
Description: <p>Trophic amino acid Isoleucine (Ile) d15N average</p>
http://lod.bco-dmo.org/id/dataset-parameter/891336.rdf
Name: d15N_Ile_STD
Units: permil (0/00)
Description: <p>Trophic amino acid Isoleucine (Ile) d15N standard deviation</p>
http://lod.bco-dmo.org/id/dataset-parameter/891337.rdf
Name: d15N_Pro_AVG
Units: permil (0/00)
Description: <p>Trophic amino acid Proline (Pro) d15N average</p>
http://lod.bco-dmo.org/id/dataset-parameter/891338.rdf
Name: d15N_Pro_STD
Units: permil (0/00)
Description: <p>Trophic amino acid Proline (Pro) d15N standard deviation</p>
http://lod.bco-dmo.org/id/dataset-parameter/891339.rdf
Name: d15N_Val_AVG
Units: permil (0/00)
Description: <p>Trophic amino acid Valine (Val) d15N average</p>
http://lod.bco-dmo.org/id/dataset-parameter/891340.rdf
Name: d15N_Val_STD
Units: permil (0/00)
Description: <p>Trophic amino acid Valine (Val) d15N standard deviation</p>
http://lod.bco-dmo.org/id/dataset-parameter/891341.rdf
Name: d15N_Thr_AVG
Units: permil (0/00)
Description: <p>Threonine d15N average</p>
http://lod.bco-dmo.org/id/dataset-parameter/891342.rdf
Name: d15N_Thr_STD
Units: permil (0/00)
Description: <p>Threonine d15N standard deviation</p>
http://lod.bco-dmo.org/id/dataset-parameter/891343.rdf
Name: d15NSrcAA_AVG
Units: permil (0/00)
Description: <p>Source amino acids (Phe, Lys) d15N average</p>
http://lod.bco-dmo.org/id/dataset-parameter/891344.rdf
Name: d15NSrcAA_STD
Units: permil (0/00)
Description: <p>Source amino acids (Phe, Lys) d15N standard deviation</p>
http://lod.bco-dmo.org/id/dataset-parameter/891345.rdf
Name: d15NTrAA_AVG
Units: permil (0/00)
Description: <p>Trophic amino acids (Glx, Asx, Ala, Leu, Ile, Pro, Val) d15N average</p>
http://lod.bco-dmo.org/id/dataset-parameter/891346.rdf
Name: d15NTrAA_STD
Units: permil (0/00)
Description: <p>Trophic amino acids (Glx, Asx, Ala, Leu, Ile, Pro, Val) d15N standard deviation</p>
http://lod.bco-dmo.org/id/dataset-parameter/891347.rdf
Name: Dauwel_DI
Units: unknown
Description: <p>unknown</p>
http://lod.bco-dmo.org/id/dataset-parameter/891348.rdf
Name: SumV_AVG
Units: unknown
Description: <p>unknown</p>
http://lod.bco-dmo.org/id/dataset-parameter/891349.rdf
Name: SumV_STD
Units: unknown
Description: <p>unknown</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
https://osprey.bco-dmo.org/dataset/891113/data/download
download
onLine
dataset
<div id="form_methodology"><strong>Location description:&nbsp;</strong>
<p>Central California Coast, Monterey Bay.</p>
<p>Sinking particles were collected at station M2 (36.697˚N, 122.378˚)</p>
<p>The trap was deployed at 1200 m depth&nbsp;</p>
<p>Two bamboo coral specimens (Isidella sp.),&nbsp; were collected in Monterey Canyon (36.747˚N, 122.022˚W) in 2007 at depths of 915 m and 835 m</p>
<strong>Methods &amp; Sampling:</strong>
<p>Sinking particles were collected at station M2 (36.697˚N, 122.378˚W; Fig. 1 of Shen et al., 2021) using an acid-cleaned cone-shaped Honjo Mark VI sediment trap. The trap was deployed at 1200 m depth (~500 m above the seafloor) from January 1999 through December 2004. The trap was outfitted with 13 collection cups that contained preservatives (3.0 mM of mercury chloride and &gt; 5 g/L of sodium chloride) and rotated every 14 days. There were gaps in the sampling due to technical issues with sediment trap program or trap retrieval. The collection and handling of samples followed the procedures described in&nbsp;Castro et al. (2018). The oven-dried samples were ground in an agate mortar and stored in polyethylene vials or polycarbonate tubes at room temperature in the dark until elemental and isotopic analyses.</p>
<p>From the two Isidella&nbsp;app&nbsp;specimens, polyp and tissue material was separated from skeletons upon collection, and the samples were washed in seawater and rinsed in freshwater prior to air drying. An organic node (6-8 mm thick) was removed from near the basal attachment of each coral skeleton and decarbonated in 10% HCl. Using scalpel and forceps, organic peels (0.4 -0.5 mm thick) were dissected and then rinsed in Milli-Q water and dried. Based on bomb-<sup>14</sup>C dating, the growth rate of&nbsp;Isidella&nbsp;in Monterey Bay was estimated to be 0.14 mm/yr; thus each peel represents a 3-4-year time window. We present data from only the second and third peels from each coral because they represent the best temporal match to the sediment traps data (1999-2004).</p>
<p>Sediment trap samples were separated into aliquots for bulk δ<sup>13</sup>C and δ<sup>15</sup>N analysis. Aliquots for δ<sup>13</sup>C analysis were weighed (~10 mg) into silver boats and acidified by immersion in 6-8% sulfurous acid (H<sub>2</sub>SO<sub>3</sub>) followed by repeated rinses with Milli-Q water and drying at 60˚C overnight. The other aliquots for δ<sup>15</sup>N analysis (~10 mg) were not pre-treated. Coral peels were acidified during the previous preparation (section 2.1) and did not undergo any further pre‑treatment. Approximately 0.15 mg of coral peels was used for bulk δ<sup>13</sup>C and δ<sup>15</sup>N. Bulk isotope analysis was performed at the UC Santa Cruz Light Stable Isotope Laboratory using a Carlo Erba 1108 elemental analyzer coupled to Thermo Finnigan Delta Plux XP isotope ratio mass spectrometer following standard procedures (<a href="https://websites.pmc.ucsc.edu/~silab/index.php">https://websites.pmc.ucsc.edu/~silab/index.php</a>). Isotopic values were corrected for sample size and instrumental drift and were reported in units of per mil (‰) relative to Vienna PeeDee Belemnite (VPDB) and air for δ<sup>13</sup>C and δ<sup>15</sup>N, respectively. Analytical precision as monitored with acetanilide was &lt;0.2‰ for δ<sup>13</sup>C and δ<sup>15</sup>N.</p>
<p>Approximately 10-15 mg of dried sediment trap and coral material was used for amino acid δ<sup>13</sup>C and δ<sup>15</sup>N analyses. Hydrolysis, purification, and derivatization followed previously established protocols in batches of 5-7 samples. An AA mixture of known δ<sup>13</sup>C and δ<sup>15</sup>N values and an in-house biological reference standard (homogenized cyanobacteria) was analyzed along with each sample batch. The AA mixture was used to calibrate the δ<sup>13</sup>C and δ<sup>15</sup>N results. The cyanobacteria reference, processed in the same way as samples, was used to monitor the consistency of wet chemistry and instrumental analysis (Table EA1 of Shen et al., 2021). δ<sup>13</sup>C<sub>AA</sub>&nbsp;and δ<sup>15</sup>N<sub>AA</sub>&nbsp;values were determined using a Thermo Trace Ultra gas chromatography (GC) coupled with a Finnigan MAT DeltaPlus XL IRMS at UCSC SIL. Samples were injected in triplicate, bracketed by triplicate injections of the calibration standard. Final δ<sup>13</sup>C<sub>AA</sub>&nbsp;values were corrected for the added&nbsp;derivatizing&nbsp;reagents, and final δ<sup>15</sup>N<sub>AA</sub>values were corrected based on the offset between known and measured δ<sup>15</sup>N<sub>AA</sub>&nbsp;values of the calibration standard. The standard deviation of replicate injections for individual AAs in the samples ranged from 0.2‰ to 0.5‰ for δ<sup>13</sup>C and from 0.1‰ to 0.6‰ for δ<sup>15</sup>N. The relative abundance (mol%) of amino acids was determined from peak areas measured during&nbsp;d<sup>15</sup>N analysis. Peak area response factors for individual AAs were calculated from the known-concentration external standards and then applied to sample peak areas to derive molar abundances.<br />
<br />
One cyanobacteria standard was analyzed during each batch of sample measurement. Data for&nbsp;each batch are reported as average and standard deviation of 3 injections. _AVG and _STD columns&nbsp;refer to&nbsp;the average and standard deviation value of the entire standard set (n = 8 for C; n = 6 for N).&nbsp;<br />
<br />
Carbon stable isotope values are reported in per mil notation relative to V-PDB.</p>
<p>Nitrogen stable isotope values are reported in per mil notation relative to AIR.</p>
<p><strong>Instrument description:</strong></p>
</div>
<div id="form_instruments">
<p>Bulk isotope analysis was performed at the UC Santa Cruz Light Stable Isotope Laboratory using a Carlo Erba 1108 elemental analyzer coupled to Thermo Finnigan Delta Plux XP isotope ratio mass spectrometer following standard procedures (<a href="https://websites.pmc.ucsc.edu/~silab/index.php">https://websites.pmc.ucsc.edu/~silab/index.php</a>).</p>
<p>CSIA-AA δ<sup>13</sup>C<sub>AA</sub>&nbsp;and δ<sup>15</sup>N<sub>AA</sub>&nbsp;values were determined using a Thermo Trace Ultra gas chromatography (GC) coupled with a Finnigan MAT DeltaPlus XL IRMS at UCSC SIL.<br />
<br />
<strong>Abbreviation/Terminology Description:</strong><br />
<br />
AA or AAs = Amino acids<br />
Ala = Alanine<br />
Asx = Asparagine + aspartic Acid<br />
AVG = Average<br />
Baseline isotope values = Refer to the source nitrogen d15N value or primary production d13C value<br />
CSI-AA = Compound-specific isotope analysis of amino acids<br />
CSI-AA-based proxies = Refer to d13CPhe, d13CEAA, d15NPhe, d15NSrcAA, or/and TPCSI-AA<br />
CSI-AA baseline proxies = Refer to d13CPhe, d13CEAA, d15NPhe or/and d15NSrcAA<br />
CSI-AA values =&nbsp; Refer to C and N isotope values of amino acids in general<br />
DI = Degradation index (based on mol% values of protein AAs)<br />
DIC = Dissolved Inorganic Carbon<br />
EAA = Essential amino acids (Thr, Ile, Val, Phe, Leu, Lys)<br />
Exported = TP Trophic position of export production<br />
GC-IRMS = Gas chromatography isotope ratio mass spectrometry<br />
Glx = Glutamine + Glutamic acid<br />
Gly = Glycine<br />
HCl = Hydrochloric acid<br />
H2SO3 = Sulfurous acid<br />
Ile = Isoleucine<br />
Leu = Leucine<br />
Lys = Lysine<br />
NEAA = Non-essential amino acids (Gly, Ser, Asx, Glx, Pro, Ala)<br />
Phe = Phenylalanine<br />
POC = Particulate organic carbon<br />
POM = Particulate organic matter<br />
Pro = Proline<br />
Ser = Serine<br />
Source = nitrogen Inorganic nitrogen used by primary producer (e.g., N2 or nitrate)<br />
SrcAA = Source amino acids (Phe, Lys)<br />
SV = Sum of variance (based on d15N values of trophic amino acids)<br />
STD = Standard deviation<br />
TDF = Trophic discrimination factor<br />
Thr = Threonine<br />
TP = Trophic position<br />
TPCSI-AA = Trophic position estimated from d15N values of Glu and Phe<br />
TPskeleton = TPCSI-AA values of coral skeletons<br />
TrAA = Trophic amino acids (Glx, Asx, Ala, Leu, Ile, Pro, Val)<br />
Val = Valine<br />
VPDB = Vienna PeeDee Belemnite<br />
d13CEAA = Mean d13C value of the six essential amino acids<br />
d13CNEAA = Mean d13C value of the six non-essential amino acids<br />
d15NSrcAA = Mean d15N value of the two source amino acids<br />
d15NTrAA = Mean d15N value of the seven trophic amino acids<br />
d13Cexport = production Bulk d13C value of sediment trap material (i.e., sinking particles)<br />
d15Nexport = production Bulk d15N value of sediment trap material (i.e., sinking particles)</p>
</div>
Specified by the Principal Investigator(s)
<p>BCO-DMO Data Manager Processing notes:<br />
* Mean and standard deviation values (e.g."-19.3±0.1")&nbsp;were separated into separate average and standard deviation columns.<br />
* Date formats changed to ISO 8601 date format<br />
* Added columns for initial and final collection year.&nbsp; Years then removed from date columns.&nbsp; That way each column had a consistent data format, either yyyy-mm-dd or year yyyy.<br />
* Column names updated to comply with BCO-DMO naming conventions. Only A-Za-z0-9_ and can't start with a number.</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
Carlo Erba 1108
Carlo Erba 1108
PI Supplied Instrument Name: Carlo Erba 1108 PI Supplied Instrument Description:Bulk isotope analysis was performed at the UC Santa Cruz Light Stable Isotope Laboratory using a Carlo Erba 1108 elemental analyzer coupled to Thermo Finnigan Delta Plux XP isotope ratio mass spectrometer following standard procedures (https://websites.pmc.ucsc.edu/~silab/index.php). Instrument Name: Elemental Analyzer Instrument Short Name: Instrument Description: Instruments that quantify carbon, nitrogen and sometimes other elements by combusting the sample at very high temperature and assaying the resulting gaseous oxides. Usually used for samples including organic material. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/LAB01/
Thermo Trace Ultra
Thermo Trace Ultra
PI Supplied Instrument Name: Thermo Trace Ultra PI Supplied Instrument Description:CSIA-AA δ13CAA and δ15NAA values were determined using a gas chromatography (GC) coupled with a Finnigan MAT DeltaPlus XL IRMS at UCSC SIL. 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/
Finnigan MAT DeltaPlus XL IRMS
Finnigan MAT DeltaPlus XL IRMS
PI Supplied Instrument Name: Finnigan MAT DeltaPlus XL IRMS PI Supplied Instrument Description:CSIA-AA δ13CAA and δ15NAA values were determined using a Thermo Trace Ultra gas chromatography (GC) coupled with a Finnigan MAT DeltaPlus XL IRMS at UCSC SIL. 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/
Thermo Finnigan Delta Plux XP
Thermo Finnigan Delta Plux XP
PI Supplied Instrument Name: Thermo Finnigan Delta Plux XP PI Supplied Instrument Description:Bulk isotope analysis was performed at the UC Santa Cruz Light Stable Isotope Laboratory using a Carlo Erba 1108 elemental analyzer coupled to Thermo Finnigan Delta Plux XP isotope ratio mass spectrometer following standard procedures (https://websites.pmc.ucsc.edu/~silab/index.php). Instrument Name: Mass Spectrometer Instrument Short Name:Mass Spec Instrument Description: General term for instruments used to measure the mass-to-charge ratio of ions; generally used to find the composition of a sample by generating a mass spectrum representing the masses of sample components. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/LAB16/