http://lod.bco-dmo.org/id/dataset/715936
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
2017-09-29
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Amino acid d13C values of Thalassiosira weissflogii of ten different treatments; collections from R/V Meteor M77 in the Peruvian ocean margin from November to December 2008.
2017-09-14
publication
2017-09-14
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2019-03-19
publication
https://doi.org/10.1575/1912/bco-dmo.715936.1
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: McCarthy, M. (2017) Amino acid d13C values of Thalassiosira weissflogii of ten different treatments; collections from R/V Meteor M77 in the Peruvian ocean margin from November to December 2008. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2017-09-14 [if applicable, indicate subset used]. doi:10.1575/1912/bco-dmo.715936.1 [access date]
Amino acid d13C values of Thalassiosira weissflogii of ten different treatments Dataset Description: <p>Amino acid d13C values of Thalassiosira weissflogii of ten different treatments.</p>
<p><strong>These data were published in:</strong></p>
<p>Larsen, T., Bach, L. T., Salvatteci, R., Wang, Y. V., Andersen, N., Ventura, M., &amp; McCarthy, M. D. (2015). Assessing the potential of amino acid 13C patterns as a carbon source tracer in marine sediments: effects of algal growth conditions and sedimentary diagenesis. Biogeosciences, 12(16), 4979–4992. doi:10.5194/bg-12-4979-2015</p> Methods and Sampling: <p><strong>Culturing</strong></p>
<p>The marine diatom Thalassiosira weissflogii Grunow (strain CCMP 1010) was cultured in sterile filtered natural North Sea water (Schleswig-Holstein, Germany) or Baltic Sea water (Schleswig-Holstein, Germany). The medium was enriched with f/4 concentrations of macro- and micronutrients (nitrate, phosphate, silicic acid, trace metal mixture, vitamin mixture (Guillard and Ryther, 1962). All experiments were performed in sterile 2.1 L Schott Duran glass bottles. These bottles were made of borosilicate glass (filters UV radiation &lt;310 nm) except for the quartz glass bottles (pure silica without UV radiation filter) used in the UV experiment. The cultures were either incubated in climate chambers with 400 –700 nm radiation or 10 cm below water level at low tide in Kiel Fjord in May 2011. Water temperature and light irradiance data were obtained from the weather station maintained by the GEOMAR institute in Kiel, Germany. Growth conditions for the various treatments, i.e. salinity, pH, temperature, and irradiance are given in Table 1. pH values (reported on free scale) were measured &nbsp;with separate glass and reference electrodes (Metrohm) and calculated with equation 3 from DOE 2007 chapter 6b (Dickson et al., 2007) as described in (Bach et al., 2012). Cultures were inoculated with densities of 20 cells ml-1. &nbsp;Cell densities and equivalent spherical diameters were determined with a Coulter Counter (Beckman Coulter) at the beginning and the end of the experiment, respectively. When incubations ended, cells were filtered on 47 mm diameter, 5 um mesh size Nucleopore Track-Etch Membrane filters (Whatman) and frozen at -18 deg C immediately after filtration.</p>
<p><strong>Sediment sampling</strong></p>
<p>Sediment samples were retrieved from a 14.97 m core, station M772-003-2, collected November 26, 2008 by the Meteor cruise M77 at 271 m water depth within the main upwelling area off Peru (15 deg 06.21´S, 75 deg 41.28´W). The Peruvian ocean margin is characterized by a high particle flux and a well-defined oxygen minimum zone. At the time of sampling, the O2 concentration at the seafloor was measured to 1.1 uM, the salinity to 34.9 psu and the temperature to 12.2 &nbsp;deg C.</p>
<p>Prior to analysis, sediment samples were pre-treated with an acid-alkali-acid cleaning with HCl and NaOH (Grootes et al., 2004).) &nbsp; &nbsp; &nbsp; &nbsp;</p>
<p><strong>Analyses</strong></p>
<p>Both diatom and sediment samples were freeze dried prior to isotopic analysis. To prepare aliquots for derivatization of amino acids, we used 3-4 mg of diatoms and 100-150 mg of sediments. The samples were transferred to Pyrex culture tubes (13 x 100 mm), flushed with N2 gas, sealed, and hydrolysed in 1 ml 6N HCl at 110 &nbsp;deg C for 20 h. After hydrolysis, lipophilic compounds were removed by vortexing with 2 ml n-hexane/DCM (6:5, v/v) for 30 sec. The aqueous phase was subsequently transferred through disposable glass pipettes lined with glass wool into 4 ml dram vials. Samples were evaporated to dryness under a stream of N2 gas for 30 min at 110 deg C before being stored at 18 deg C until required for analysis. The derivatisation procedure was modified from Corr et al. (2007) as described by Larsen et al. (2013). In short, the dried samples were methylated with acidified methanol and subsequently acetylated with a mixture of acetic anhydride, triethylamine, and acetone, forming N-acetyl methyl ester derivatives. As a precautionary measure to reduce the oxidation of amino acids, we flushed and sealed reaction vials with N2 gas prior to methylation and acetylation. Another modification from Corr et al. (2007) was that icebaths were substituted with solid aluminum blocks at room temperature. We used known d13C values of pure amino acids prepared and analyzed under the same conditions as the samples to calculate correction factors specific to each amino acid to account for carbon addition and fractionation during derivatization. The derivatised AAs were dissolved in 250 ul ethyl acetate and stored at 18 deg C until required for analysis.</p>
<p>Amino acid d13C values were obtained from Leibniz-Laboratory for Radiometric Dating and Stable Isotope Research in Kiel. We injected the AA derivatives into a PTV injector held at 250 deg C for 4 min. before GC separation on an Agilent 6890N GC. Diatom samples were separated on an Rtx-200 column (60m x 0.32mm x 0.25um, Fig. S1) and sediment samples on a Thermo Trace GOLD TG-200MS GC column (60m x 0.32mm x 0.25um). For both GC columns, the oven temperature of the GC was started at 50 deg C and heated at 15 deg C min-1 to 140 deg C, followed by 3 deg C min-1 to 152 deg C and held for 4 min, then 10 deg C min-1 to 245 deg C and held for 10 min, and finally 5 deg C min-1 to 290 deg C and held for 5 min. The GC was interfaced with a MAT 253 isotope ratio mass spectrometer (IRMS) via a GC-III combustion (C) interface (Thermo-Finnigan Corporation). We obtained consistently good chromatography for alanine (Ala), valine (Val), leucine (Leu), isoleucine (Ile), asparagine/aspartate (Asx), threonine (Thr), methionine (Met), glutamine/glutamate (Glx), phenylalanine (Phe), tyrosine (Tyr), lysine (Lys), and arginine (Arg) with the exception that Asx and Thr partially coeluted with the Rtx-200 column. Serine (Ser) and proline (Pro) coeluted on both columns. The average reproducibility for the norleucine internal standard was ± 0.4‰ (n = 3 for each sample), and the reproducibility of amino acid standards ranged from ± 0.1‰ for Phe to ± 0.6‰ for Thr (n = 3).</p>
<p>Amino acid composition of the diatom samples was determined with the derivative samples used for d13CAA analysis. The amino acids were separated on an Rxi-35SIL MS column (30m x 0.32mm x 0.25um) with an Agilent 6890 N GC with a flame ionization detector. With this column we obtained good chromatography for Ala, Asx, Glx, Gly, Ser, Tyr, Arg, Ile, Leu, Lys, Met, Phe, Thr, and Val. For quantification, we used internal references consisting of pure amino acids (Alfa Aesar, Karlsruhe, Germany). The composition of the amino acids are shown in Table 3 according to the following biosynthetic families: &nbsp;Pyruvate (Ala, Leu, Val), Oxaloacetate (Asx, Ile, Lys, Met, Thr), α-ketoglutarate (Arg, Glx), 3-phosphoglycerate (Gly, Ser), and Shikimate (Phe, Tyr).</p>
<p>Bulk 13C, %C, 15N and %N values of the diatom samples were determined at the UC Davis Stable Isotope Facility using a PDZ Europa ANCA-GSL elemental analyzer interfaced to a PDZ Europa 20-20 isotope ratio mass spectrometer (Sercon Ltd., Cheshire, UK). The dry weight of the samples ranged between 1.5 and 2.5 mg. During analysis, samples were interspersed with several replicates of at least three different laboratory standards. These laboratory standards, which were selected to be compositionally similar to the samples being analyzed, had previously calibrated against NIST Standard Reference Materials (IAEA-N1, IAEA-N2, IAEA-N3, USGS-40, and USGS-41). A sample’s preliminary isotope ratio was measured relative to reference gases analyzed with each sample. These preliminary values were finalized by correcting the values for the entire batch based on the known values of the included laboratory standards. The long term standard deviation is 0.2‰ for 13C and 0.3‰ for 15N.</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1131816 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1131816
completed
Matthew D. McCarthy
University of California-Santa Cruz
831-459-1533
1156 High Street
Santa Cruz
CA
95064
USA
mdmccar@ucsc.edu
pointOfContact
asNeeded
Dataset Version: 1
Unknown
Treatment
Thr
Thr_st_dev
Asx
Asx_st_dev
Lys
Lys_st_dev
Ile
Ile_st_dev
Met
Met_st_dev
Ala
Ala_st_dev
Val
Val_st_dev
Leu
Leu_st_dev
Arg
Arg_st_dev
Glx
Glx_st_dev
Tyr
Tyr_st_dev
Phe
Phe_st_dev
PDZ Europa ANCA-GSL elemental analyzer
Thermo Trace GOLD GC
PDZ Europa 20-20 isotope ratio mass spectrometer
MAT 253 isotope ratio mass spectrometer (IRMS)
Light meter
pH sensor
Salinity sensor
Water Temperature Sensor
theme
None, User defined
treatment
amino acid concentration
featureType
BCO-DMO Standard Parameters
Elemental Analyzer
Gas Chromatograph
Isotope-ratio Mass Spectrometer
Isotope-ratio Mass Spectrometer
Light Meter
pH Sensor
Salinity Sensor
Water Temperature Sensor
instrument
BCO-DMO Standard Instruments
M77
service
Deployment Activity
Peruvian ocean margin
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.
The Use of Nitrogen Isotopes of Amino Acids To Understand Marine Sedimentary 15N Records
https://osprey.bco-dmo.org/project/704684
The Use of Nitrogen Isotopes of Amino Acids To Understand Marine Sedimentary 15N Records
<p>The bioavailability of nutrients plays a crucial role in oceanic biological productivity, the carbon cycle, and climate change. The global ocean inventory of nitrogen (N) is determined by the balance of N-fixation (sources) and denitrification (sinks). In this three-year project, a researcher from the University of California, Santa Cruz, will focus on developing compound-specific N isotope (d15N) analysis of amino acids as a new tool for understanding N source and transformation of organic matter in paleo-reservoirs. The offsets in the isotopic ratios of individual amino acid groups may yield information about trophic transfer, heterotrophic microbial reworking, and autotrophic versus heterotrophic sources. By measuring and comparing the bulk and amino acid d15N in size-fractioned samples from plankton tows, sediments traps, and multi-cores in oxic and suboxic depositional environments, the researcher will: (1) Provide a proxy of the d15N of average exported photoautotrophic organic matter; and (2) Provide a new level of detail into sedimentary organic N degradation and preservation.</p>
<p>Broader impacts:<br />
This project will improve understanding of the fundamental underpinnings and behaviors of d15N amino acid patterns and how they behave in contrasting sedimentary environments, while also developing a potential paleoceanographic proxy. Funding will support a graduate student and undergraduate research at the institution. The researcher will also conduct community outreach in the form of a workshop/tutorial on the proxy development.</p>
Amino Acid Sediment 15N
largerWorkCitation
project
eng; USA
oceans
Peruvian ocean margin
2008-11-01
2008-12-31
California Margin , Santa Barbara Basin , CA current system, Eastern Tropical Pacific
0
BCO-DMO catalogue of parameters from Amino acid d13C values of Thalassiosira weissflogii of ten different treatments; collections from R/V Meteor M77 in the Peruvian ocean margin from November to December 2008.
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/715951.rdf
Name: Treatment
Units: unitless
Description: <p>Treatment type</p>
http://lod.bco-dmo.org/id/dataset-parameter/715952.rdf
Name: Thr
Units: per mil
Description: <p>Threonine d13C value</p>
http://lod.bco-dmo.org/id/dataset-parameter/715953.rdf
Name: Thr_st_dev
Units: per mil
Description: <p>Standard deviation</p>
http://lod.bco-dmo.org/id/dataset-parameter/715954.rdf
Name: Asx
Units: per mil
Description: <p>Asn+Asp d13C value</p>
http://lod.bco-dmo.org/id/dataset-parameter/715955.rdf
Name: Asx_st_dev
Units: per mil
Description: <p>Standard deviation</p>
http://lod.bco-dmo.org/id/dataset-parameter/715956.rdf
Name: Lys
Units: per mil
Description: <p>Lysine d13C value</p>
http://lod.bco-dmo.org/id/dataset-parameter/715957.rdf
Name: Lys_st_dev
Units: per mil
Description: <p>Standard deviation</p>
http://lod.bco-dmo.org/id/dataset-parameter/715958.rdf
Name: Ile
Units: per mil
Description: <p>Isoleucine d13C value</p>
http://lod.bco-dmo.org/id/dataset-parameter/715959.rdf
Name: Ile_st_dev
Units: per mil
Description: <p>Standard deviation</p>
http://lod.bco-dmo.org/id/dataset-parameter/715960.rdf
Name: Met
Units: per mil
Description: <p>Methionine d13C value</p>
http://lod.bco-dmo.org/id/dataset-parameter/715961.rdf
Name: Met_st_dev
Units: per mil
Description: <p>Standard deviation</p>
http://lod.bco-dmo.org/id/dataset-parameter/715962.rdf
Name: Ala
Units: per mil
Description: <p>Alanine d13C value</p>
http://lod.bco-dmo.org/id/dataset-parameter/715963.rdf
Name: Ala_st_dev
Units: per mil
Description: <p>Standard deviation</p>
http://lod.bco-dmo.org/id/dataset-parameter/715964.rdf
Name: Val
Units: per mil
Description: <p>Valine d13C value</p>
http://lod.bco-dmo.org/id/dataset-parameter/715965.rdf
Name: Val_st_dev
Units: per mil
Description: <p>Standard deviation</p>
http://lod.bco-dmo.org/id/dataset-parameter/715966.rdf
Name: Leu
Units: per mil
Description: <p>Leucine d13C value</p>
http://lod.bco-dmo.org/id/dataset-parameter/715967.rdf
Name: Leu_st_dev
Units: per mil
Description: <p>Standard deviation</p>
http://lod.bco-dmo.org/id/dataset-parameter/715968.rdf
Name: Arg
Units: per mil
Description: <p>Arginine d13C value</p>
http://lod.bco-dmo.org/id/dataset-parameter/715969.rdf
Name: Arg_st_dev
Units: per mil
Description: <p>Standard deviation</p>
http://lod.bco-dmo.org/id/dataset-parameter/715970.rdf
Name: Glx
Units: per mil
Description: <p>Gln+Glu d13C value</p>
http://lod.bco-dmo.org/id/dataset-parameter/715971.rdf
Name: Glx_st_dev
Units: per mil
Description: <p>Standard deviation</p>
http://lod.bco-dmo.org/id/dataset-parameter/715972.rdf
Name: Tyr
Units: per mil
Description: <p>Tyrosine d13C value</p>
http://lod.bco-dmo.org/id/dataset-parameter/715973.rdf
Name: Tyr_st_dev
Units: per mil
Description: <p>Standard deviation</p>
http://lod.bco-dmo.org/id/dataset-parameter/715974.rdf
Name: Phe
Units: per mil
Description: <p>Phenylalanine d13C value</p>
http://lod.bco-dmo.org/id/dataset-parameter/715975.rdf
Name: Phe_st_dev
Units: per mil
Description: <p>Standard deviation</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
3612
https://darchive.mblwhoilibrary.org/bitstream/1912/23867/1/dataset-715936_amino-acid-d13c-values-thalassiosira-weissflogii__v1.tsv
download
https://doi.org/10.1575/1912/bco-dmo.715936.1
download
onLine
dataset
<p><strong>Culturing</strong></p>
<p>The marine diatom Thalassiosira weissflogii Grunow (strain CCMP 1010) was cultured in sterile filtered natural North Sea water (Schleswig-Holstein, Germany) or Baltic Sea water (Schleswig-Holstein, Germany). The medium was enriched with f/4 concentrations of macro- and micronutrients (nitrate, phosphate, silicic acid, trace metal mixture, vitamin mixture (Guillard and Ryther, 1962). All experiments were performed in sterile 2.1 L Schott Duran glass bottles. These bottles were made of borosilicate glass (filters UV radiation &lt;310 nm) except for the quartz glass bottles (pure silica without UV radiation filter) used in the UV experiment. The cultures were either incubated in climate chambers with 400 –700 nm radiation or 10 cm below water level at low tide in Kiel Fjord in May 2011. Water temperature and light irradiance data were obtained from the weather station maintained by the GEOMAR institute in Kiel, Germany. Growth conditions for the various treatments, i.e. salinity, pH, temperature, and irradiance are given in Table 1. pH values (reported on free scale) were measured &nbsp;with separate glass and reference electrodes (Metrohm) and calculated with equation 3 from DOE 2007 chapter 6b (Dickson et al., 2007) as described in (Bach et al., 2012). Cultures were inoculated with densities of 20 cells ml-1. &nbsp;Cell densities and equivalent spherical diameters were determined with a Coulter Counter (Beckman Coulter) at the beginning and the end of the experiment, respectively. When incubations ended, cells were filtered on 47 mm diameter, 5 um mesh size Nucleopore Track-Etch Membrane filters (Whatman) and frozen at -18 deg C immediately after filtration.</p>
<p><strong>Sediment sampling</strong></p>
<p>Sediment samples were retrieved from a 14.97 m core, station M772-003-2, collected November 26, 2008 by the Meteor cruise M77 at 271 m water depth within the main upwelling area off Peru (15 deg 06.21´S, 75 deg 41.28´W). The Peruvian ocean margin is characterized by a high particle flux and a well-defined oxygen minimum zone. At the time of sampling, the O2 concentration at the seafloor was measured to 1.1 uM, the salinity to 34.9 psu and the temperature to 12.2 &nbsp;deg C.</p>
<p>Prior to analysis, sediment samples were pre-treated with an acid-alkali-acid cleaning with HCl and NaOH (Grootes et al., 2004).) &nbsp; &nbsp; &nbsp; &nbsp;</p>
<p><strong>Analyses</strong></p>
<p>Both diatom and sediment samples were freeze dried prior to isotopic analysis. To prepare aliquots for derivatization of amino acids, we used 3-4 mg of diatoms and 100-150 mg of sediments. The samples were transferred to Pyrex culture tubes (13 x 100 mm), flushed with N2 gas, sealed, and hydrolysed in 1 ml 6N HCl at 110 &nbsp;deg C for 20 h. After hydrolysis, lipophilic compounds were removed by vortexing with 2 ml n-hexane/DCM (6:5, v/v) for 30 sec. The aqueous phase was subsequently transferred through disposable glass pipettes lined with glass wool into 4 ml dram vials. Samples were evaporated to dryness under a stream of N2 gas for 30 min at 110 deg C before being stored at 18 deg C until required for analysis. The derivatisation procedure was modified from Corr et al. (2007) as described by Larsen et al. (2013). In short, the dried samples were methylated with acidified methanol and subsequently acetylated with a mixture of acetic anhydride, triethylamine, and acetone, forming N-acetyl methyl ester derivatives. As a precautionary measure to reduce the oxidation of amino acids, we flushed and sealed reaction vials with N2 gas prior to methylation and acetylation. Another modification from Corr et al. (2007) was that icebaths were substituted with solid aluminum blocks at room temperature. We used known d13C values of pure amino acids prepared and analyzed under the same conditions as the samples to calculate correction factors specific to each amino acid to account for carbon addition and fractionation during derivatization. The derivatised AAs were dissolved in 250 ul ethyl acetate and stored at 18 deg C until required for analysis.</p>
<p>Amino acid d13C values were obtained from Leibniz-Laboratory for Radiometric Dating and Stable Isotope Research in Kiel. We injected the AA derivatives into a PTV injector held at 250 deg C for 4 min. before GC separation on an Agilent 6890N GC. Diatom samples were separated on an Rtx-200 column (60m x 0.32mm x 0.25um, Fig. S1) and sediment samples on a Thermo Trace GOLD TG-200MS GC column (60m x 0.32mm x 0.25um). For both GC columns, the oven temperature of the GC was started at 50 deg C and heated at 15 deg C min-1 to 140 deg C, followed by 3 deg C min-1 to 152 deg C and held for 4 min, then 10 deg C min-1 to 245 deg C and held for 10 min, and finally 5 deg C min-1 to 290 deg C and held for 5 min. The GC was interfaced with a MAT 253 isotope ratio mass spectrometer (IRMS) via a GC-III combustion (C) interface (Thermo-Finnigan Corporation). We obtained consistently good chromatography for alanine (Ala), valine (Val), leucine (Leu), isoleucine (Ile), asparagine/aspartate (Asx), threonine (Thr), methionine (Met), glutamine/glutamate (Glx), phenylalanine (Phe), tyrosine (Tyr), lysine (Lys), and arginine (Arg) with the exception that Asx and Thr partially coeluted with the Rtx-200 column. Serine (Ser) and proline (Pro) coeluted on both columns. The average reproducibility for the norleucine internal standard was ± 0.4‰ (n = 3 for each sample), and the reproducibility of amino acid standards ranged from ± 0.1‰ for Phe to ± 0.6‰ for Thr (n = 3).</p>
<p>Amino acid composition of the diatom samples was determined with the derivative samples used for d13CAA analysis. The amino acids were separated on an Rxi-35SIL MS column (30m x 0.32mm x 0.25um) with an Agilent 6890 N GC with a flame ionization detector. With this column we obtained good chromatography for Ala, Asx, Glx, Gly, Ser, Tyr, Arg, Ile, Leu, Lys, Met, Phe, Thr, and Val. For quantification, we used internal references consisting of pure amino acids (Alfa Aesar, Karlsruhe, Germany). The composition of the amino acids are shown in Table 3 according to the following biosynthetic families: &nbsp;Pyruvate (Ala, Leu, Val), Oxaloacetate (Asx, Ile, Lys, Met, Thr), α-ketoglutarate (Arg, Glx), 3-phosphoglycerate (Gly, Ser), and Shikimate (Phe, Tyr).</p>
<p>Bulk 13C, %C, 15N and %N values of the diatom samples were determined at the UC Davis Stable Isotope Facility using a PDZ Europa ANCA-GSL elemental analyzer interfaced to a PDZ Europa 20-20 isotope ratio mass spectrometer (Sercon Ltd., Cheshire, UK). The dry weight of the samples ranged between 1.5 and 2.5 mg. During analysis, samples were interspersed with several replicates of at least three different laboratory standards. These laboratory standards, which were selected to be compositionally similar to the samples being analyzed, had previously calibrated against NIST Standard Reference Materials (IAEA-N1, IAEA-N2, IAEA-N3, USGS-40, and USGS-41). A sample’s preliminary isotope ratio was measured relative to reference gases analyzed with each sample. These preliminary values were finalized by correcting the values for the entire batch based on the known values of the included laboratory standards. The long term standard deviation is 0.2‰ for 13C and 0.3‰ for 15N.</p>
Specified by the Principal Investigator(s)
<p>Thermo-Finnigan Isodat software and Microsoft Excel 2013.</p>
<p><strong>BCO-DMO Processing:</strong></p>
<p>- changed column names to comply with BCO-DMO standards<br />
- changed the name of the standard deviation columns to include the amino acid they were referencing. Example Thr_st_dev.<br />
- filled all blank cells with nd</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
PDZ Europa ANCA-GSL elemental analyzer
PDZ Europa ANCA-GSL elemental analyzer
PI Supplied Instrument Name: PDZ Europa ANCA-GSL elemental analyzer PI Supplied Instrument Description:Interfaced to a PDZ Europa 20-20 isotope ratio mass spectrometer (Sercon Ltd., Cheshire, UK) 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 GOLD GC
Thermo Trace GOLD GC
PI Supplied Instrument Name: Thermo Trace GOLD GC PI Supplied Instrument Description:Used with MAT 253 isotope ratio mass spectrometer (IRMS) via a GC-III combustion (C) interface (Thermo-Finnigan Corporation) 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/
PDZ Europa 20-20 isotope ratio mass spectrometer
PDZ Europa 20-20 isotope ratio mass spectrometer
PI Supplied Instrument Name: PDZ Europa 20-20 isotope ratio mass spectrometer PI Supplied Instrument Description:Used with PDZ Europa ANCA-GSL elemental analyzer 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/
MAT 253 isotope ratio mass spectrometer (IRMS)
MAT 253 isotope ratio mass spectrometer (IRMS)
PI Supplied Instrument Name: MAT 253 isotope ratio mass spectrometer (IRMS) PI Supplied Instrument Description:Used with Thermo Trace GOLD GC 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/
Light meter
Light meter
PI Supplied Instrument Name: Light meter PI Supplied Instrument Description:Used to measure irradiance Instrument Name: Light Meter Instrument Short Name:Light Meter Instrument Description: Light meters are instruments that measure light intensity. Common units of measure for light intensity are umol/m2/s or uE/m2/s (micromoles per meter squared per second or microEinsteins per meter squared per second). (example: LI-COR 250A)
pH sensor
pH sensor
PI Supplied Instrument Name: pH sensor PI Supplied Instrument Description:Used to measure pH Instrument Name: pH Sensor Instrument Short Name:pH Sensor Instrument Description: An instrument that measures the hydrogen ion activity in solutions.
The overall concentration of hydrogen ions is inversely related to its pH. The pH scale ranges from 0 to 14 and indicates whether acidic (more H+) or basic (less H+).
Salinity sensor
Salinity sensor
PI Supplied Instrument Name: Salinity sensor PI Supplied Instrument Description:Used to measure salinity Instrument Name: Salinity Sensor Instrument Short Name:Salinity Sensor Instrument Description: Category of instrument that simultaneously measures electrical conductivity and temperature in the water column to provide temperature and salinity data. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/350/
Water Temperature Sensor
Water Temperature Sensor
PI Supplied Instrument Name: Water Temperature Sensor PI Supplied Instrument Description:Used to measure temperature Instrument Name: Water Temperature Sensor Instrument Short Name:Water Temp Sensor Instrument Description: General term for an instrument that measures the temperature of the water with which it is in contact (thermometer). Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/134/
Cruise: M77
M77
Community Standard Description
International Council for the Exploration of the Sea
R/V Meteor
vessel
M77
Ralph Schneider
University of Konstanz
https://www.ldf.uni-hamburg.de/meteor/wochenberichte/wochenberichte-meteor/m77/m77-2-scr.pdf
Report describing M77
Community Standard Description
International Council for the Exploration of the Sea
R/V Meteor
vessel